Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 59 of 91
Found at i:13488849 original size:38 final size:38
Alignment explanation
Indices: 13488787--13488876 Score: 137
Period size: 38 Copynumber: 2.4 Consensus size: 38
13488777 TTTTGTTCGG
**
13488787 GTCGGGTCGGG-TTTTTTAAGTGTGATATTCGGGTCGA
1 GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGAATCGA
*
13488824 GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGAATCGG
1 GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGAATCGA
13488862 GTCGGGTTCGGGTTT
1 GTCGGG-TCGGGTTT
13488877 AGGGTGAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
37 11 0.23
38 29 0.60
39 8 0.17
ACGTcount: A:0.12, C:0.11, G:0.38, T:0.39
Consensus pattern (38 bp):
GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGAATCGA
Found at i:13489070 original size:260 final size:254
Alignment explanation
Indices: 13488603--13489166 Score: 871
Period size: 260 Copynumber: 2.2 Consensus size: 254
13488593 TAATTCATAT
* *
13488603 AATCGGGTCTGG-TCGGGTTTAGGGTGAAAAAAATCGG-ACTGACCCGAAAATATATATAATTCA
1 AATCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGAAC-GACCCGAAAATATATATAATTCA
*
13488666 GGTCGGGACGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGG
65 GGTCGAGACGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGG
* *
13488731 TTGAATTTCTAATTCATATATCCGGGTCGGGTCGGATGAAATTTTATTTTGTTCGGGTCGGGTCG
130 TTGAATTTCTAATTCATATATCCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCA
*
13488796 GGTTTTTTAAGTGTGATATTCGGGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCG
195 GGTTTTTTAAGTGTGATATTCGGGTCGAATCGGGTCGGGTTTTTTTAAGTGTGATATTCG
*
13488856 AATCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGAACGACCCGAAAATATATATAATTCGG
1 AATCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGAACGACCCGAAAATATATATAATTCAG
** *
13488921 GTCGAGTTGGATTAAGTCACTGTTTTTATTAAATAAAAAATATTTTTTTATTATTTCGGGTCGGG
66 GTCGAGACGGATTAAGTCACTGTTTTTATTAAAT-AAAAATAATTTTTTATTATTTCGGGTCGGG
* *
13488986 TCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCG
130 T----T-GAATTTCTAATTCATATATCCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCG
* *
13489051 GGTCAGGTTTTTTAAGTGTGATATTCGGGTCGAATTGGGTTGGGTTTTTTTAAGTGTGATATTCG
190 GGTCAGGTTTTTTAAGTGTGATATTCGGGTCGAATCGGGTCGGGTTTTTTTAAGTGTGATATTCG
** * ** *
13489116 GGTCGGGTCGGGTTCGGGTTTAAGGTGAAAAAAACTTGACCGACCCGAAAA
1 AATCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGAACGACCCGAAAA
13489167 AAATATATTA
Statistics
Matches: 283, Mismatches: 20, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
253 11 0.04
254 78 0.28
255 32 0.11
259 1 0.00
260 161 0.57
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (254 bp):
AATCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGAACGACCCGAAAATATATATAATTCAG
GTCGAGACGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGT
TGAATTTCTAATTCATATATCCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCAG
GTTTTTTAAGTGTGATATTCGGGTCGAATCGGGTCGGGTTTTTTTAAGTGTGATATTCG
Found at i:13489129 original size:38 final size:38
Alignment explanation
Indices: 13489043--13489136 Score: 127
Period size: 38 Copynumber: 2.5 Consensus size: 38
13489033 TTTATTTTGT
**
13489043 TCGGGTCGGGTCAGG-TTTTTTAAGTGTGATATTCGGG
1 TCGGGTCGGGTTGGGTTTTTTTAAGTGTGATATTCGGG
** *
13489080 TCGAATTGGGTTGGGTTTTTTTAAGTGTGATATTCGGG
1 TCGGGTCGGGTTGGGTTTTTTTAAGTGTGATATTCGGG
13489118 TCGGGTCGGGTTCGGGTTT
1 TCGGGTCGGGTT-GGGTTT
13489137 AAGGTGAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 10 0.21
38 31 0.66
39 6 0.13
ACGTcount: A:0.12, C:0.10, G:0.38, T:0.40
Consensus pattern (38 bp):
TCGGGTCGGGTTGGGTTTTTTTAAGTGTGATATTCGGG
Found at i:13493045 original size:30 final size:30
Alignment explanation
Indices: 13493011--13493105 Score: 190
Period size: 30 Copynumber: 3.2 Consensus size: 30
13493001 TTATTCACCT
13493011 AAATCCTCTTTTTTGTTTCTTGAATAAACA
1 AAATCCTCTTTTTTGTTTCTTGAATAAACA
13493041 AAATCCTCTTTTTTGTTTCTTGAATAAACA
1 AAATCCTCTTTTTTGTTTCTTGAATAAACA
13493071 AAATCCTCTTTTTTGTTTCTTGAATAAACA
1 AAATCCTCTTTTTTGTTTCTTGAATAAACA
13493101 AAATC
1 AAATC
13493106 TCTATCTTAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (30 bp):
AAATCCTCTTTTTTGTTTCTTGAATAAACA
Found at i:13500086 original size:30 final size:31
Alignment explanation
Indices: 13500023--13500089 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
13500013 GATCAATTTG
* * ***
13500023 ATATTCTATATAAAGTTTAAGTGTTGGATTA
1 ATATTTTATATAAAATTTAAGTGTCAAATTA
13500054 ATATTTTATATAAAATTTAAG-GTCAAATTA
1 ATATTTTATATAAAATTTAAGTGTCAAATTA
13500084 ATATTT
1 ATATTT
13500090 CGTCTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.46
Consensus pattern (31 bp):
ATATTTTATATAAAATTTAAGTGTCAAATTA
Found at i:13500444 original size:7 final size:7
Alignment explanation
Indices: 13500432--13500467 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
13500422 TTTCACGACA
13500432 GAAGCTG
1 GAAGCTG
13500439 GAAGCTG
1 GAAGCTG
13500446 GAAGCTG
1 GAAGCTG
*
13500453 GAAGC-C
1 GAAGCTG
13500459 GAAGCTG
1 GAAGCTG
13500466 GA
1 GA
13500468 TTCTACAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.31, C:0.17, G:0.42, T:0.11
Consensus pattern (7 bp):
GAAGCTG
Found at i:13511172 original size:14 final size:14
Alignment explanation
Indices: 13511155--13511193 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
13511145 TATATACATC
13511155 ATACATTGCATAAT
1 ATACATTGCATAAT
13511169 ATACATTGCATAAT
1 ATACATTGCATAAT
13511183 ATACATTGCAT
1 ATACATTGCAT
13511194 TTTAACATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (14 bp):
ATACATTGCATAAT
Found at i:13514380 original size:238 final size:240
Alignment explanation
Indices: 13513960--13515298 Score: 1402
Period size: 238 Copynumber: 5.4 Consensus size: 240
13513950 ATTAAGTTAT
* * * *
13513960 TTTGAAAAATAAGAAAACGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATGAAATTTTT
1 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTT-AATATTTTCAGAAAATGAAATTTTT
* * * * * * *
13514025 GAAAAGTAAGAAAACGATTTCCAATGGTT-C-TTAC-TTACTAAGTCATTCGATCCATCAGTAAG
65 GAAAAGTAAGAAAGCGATTTCCAAAGTTTACATTACATTAGTAAGTCCTTCAAGCCATCAGTAAG
* * * *
13514087 TCTTTCAAGCACGATGATTAAATCATTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATACGTC
130 TCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTC
*
13514152 CTTTAGGCCATCCGTAAGATCTTCGGGTAGGATGTTTTCACATGAA
195 CTTTAGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATGAA
* * * *
13514198 TTTGAAAAATGAGAATGCGATTTTCAAAGTTTCTCATTTAAATCTTTTCTGAAAATGAAATTTTT
1 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTT-AATATTTTCAGAAAATGAAATTTTT
* **
13514263 CAAAAGTAAGAAAATGATTTCCAAAGTTT-C-TTAC-TTAGTAAGTCCTTCAAGCCATCAGTAAG
65 GAAAAGTAAGAAAGCGATTTCCAAAGTTTACATTACATTAGTAAGTCCTTCAAGCCATCAGTAAG
* * * *
13514325 TCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTATAAGTATTTCAAGCAAGATGATAAGTC
130 TCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTC
* * * * *
13514390 CTTCAGACCGTTCGTAAGACCTTCGGGTATGATGTTTTCACATGAA
195 CTTTAGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATGAA
* * *
13514436 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGT-TTTTCATAAATTGAAATTTTTG
1 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTG
* *
13514500 AAAATTAAGAAAGTGATTTCCAAAGTTTCTTACCAGTAAACTATTTCCCAAATTAGTAAGTCCTT
66 AAAAGTAAGAAAGCGATTTCCAAAG--T-TTA-CA-T----TA-----C--ATTAGTAAGTCCTT
* *
13514565 CAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGCAAGTCTTTCGA
115 CAAGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGA
** * *
13514630 GTGAGATGATAAGTCC-TTCGACCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATGAA
180 GCAAGATGATAAGTCCTTTAGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATGAA
*
13514690 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTATTG
1 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTG
* * *
13514755 AAAAGTAAGAAAGTGATTCCCAAAGTTTCTTACACAGTAAACTATTTCCCAAATTAGTAAGTCAT
66 AAAAGTAAGAAAGCGATTTCCAAAG--T-TT--ACA-T----TA-----C--ATTAGTAAGTCCT
* * * * * ** *
13514820 TCCAGCCATCACTAACTCTTTCAAGCATGATGATTAAATCCTTCAGGTCATCTGCCAGTCTTTGG
114 TCAAGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCG
** * * * * *
13514885 AGTGAGATGATAAGTCATTTGGGCCATTCGTAAGACCTTCTGGTCA-GATGTTTTCCACATGAT
179 AGCAAGATGATAAGTCCTTTAGGCCATCCGTAAGACCTTCGGGT-AGGATGTTTT-CACATGAA
* *
13514948 TTTCGAAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTT
1 TTT-GAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTT
*
13515013 GAAAAGTAAGAAAGCGATTTCCAAAATTTCTTACCCAGTAAACTATTTCACAAATTAGTAAGTCC
65 GAAAAGTAAGAAAGCGATTTCC-AAA---GTT------T--AC-A-TT-AC--ATTAGTAAGTCC
** *
13515078 TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTC
113 TTCAAGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTC
* * * * * * *
13515143 GAGCAAGATGATAAGTTC-TTCGTGCCATCTGTAAGACCTTCGGGCAAGATATTTTCACGTGAA
178 GAGCAAGATGATAAGTCCTTTAG-GCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATGAA
* * *
13515206 TTTGAAAAATGAGAAAACGATTTCCAAAGTTTCTCATTTAATGTTTTCAAAAAATGAAATTTTTG
1 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTG
13515271 AAAAGTAAGAAAGCGATTTCCAAAGTTT
66 AAAAGTAAGAAAGCGATTTCCAAAGTTT
13515299 TTACTGTAAG
Statistics
Matches: 957, Mismatches: 104, Indels: 71
0.85 0.09 0.06
Matches are distributed among these distances:
236 41 0.04
237 2 0.00
238 250 0.26
239 2 0.00
241 1 0.00
243 1 0.00
247 3 0.00
252 1 0.00
253 2 0.00
254 80 0.08
255 134 0.14
256 106 0.11
257 109 0.11
258 24 0.03
259 188 0.20
260 4 0.00
261 1 0.00
263 1 0.00
264 1 0.00
266 4 0.00
267 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (240 bp):
TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATTTTTG
AAAAGTAAGAAAGCGATTTCCAAAGTTTACATTACATTAGTAAGTCCTTCAAGCCATCAGTAAGT
CTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCC
TTTAGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATGAA
Found at i:13515058 original size:259 final size:256
Alignment explanation
Indices: 13514297--13515302 Score: 1427
Period size: 259 Copynumber: 3.9 Consensus size: 256
13514287 AGTTTCTTAC
*
13514297 TTAGTAAGTCCTTCAAGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCT
1 TTAGTAAGTCCTTCCAGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCT
** * * * * *
13514362 ATAAGTATTTCAAGCAAGATGATAAGTCCTTCAGACCGTTCGTAAGACCTTCGGGTATGATGTTT
66 GCAAGTCTTTCGAGCAAGATGATAAGT-CTTCGGACCATTCGTAAGACCTTCGGGTAGGATGTTT
* * *
13514427 TCACATGAATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGT-TTTTCATAAATTG
130 TCACATGAATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATG
* *
13514491 AAATTTTTGAAAATTAAGAAAGTGATTTCCAAAGTTTCTTA-CCAGTAAACTATTTCCCAAA
195 AAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAA
*
13514552 TTAGTAAGTCCTT-CAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATC
1 TTAGTAAGTCCTTCCA-GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATC
** *
13514616 TGCAAGTCTTTCGAGTGAGATGATAAGTCCTTC-GACCATCCGTAAGACCTTCGGGTAGGATGTT
65 TGCAAGTCTTTCGAGCAAGATGATAAGT-CTTCGGACCATTCGTAAGACCTTCGGGTAGGATGTT
13514680 TTCACATGAATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAAT
129 TTCACATGAATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAAT
* * * *
13514745 GAAATTATTGAAAAGTAAGAAAGTGATTCCCAAAGTTTCTTACACAGTAAACTATTTCCCAAA
194 GAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAA
* * * *
13514808 TTAGTAAGTCATTCCAGCCATCACTAACTCTTTCAAGCATGATGATTAAATCCTTCAGGTCATCT
1 TTAGTAAGTCCTTCCAGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCT
* * ** * * *
13514873 GCCAGTCTTTGGAGTGAGATGATAAGTCATTTGGGCCATTCGTAAGACCTTCTGGTCA-GATGTT
66 GCAAGTCTTTCGAGCAAGATGATAAGTC-TTCGGACCATTCGTAAGACCTTCGGGT-AGGATGTT
* * *
13514937 TTCCACATGATTTTCGAAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAGTATTTTCAGAAA
129 TT-CACATGAATTT-GAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAA
* *
13515002 ATGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAATTTCTTACCCAGTAAACTATTTCACAAA
192 ATGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAA
** *
13515067 TTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCT
1 TTAGTAAGTCCTTCCAGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCT
* * *
13515132 GTC-AGTCTTTCGAGCAAGATGATAAGTTCTTCGTG-CCA-TCTGTAAGACCTTCGGGCAAGATA
66 G-CAAGTCTTTCGAGCAAGATGATAAG-TCTTCG-GACCATTC-GTAAGACCTTCGGGTAGGATG
* * * *
13515194 TTTTCACGTGAATTTGAAAAATGAGAAAACGATTTCCAAAGTTTCTCATTTAATGTTTTCAAAAA
127 TTTTCACATGAATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAA
13515259 ATGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTT-TTAC
192 ATGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTAC
13515303 TGTAAGCACC
Statistics
Matches: 677, Mismatches: 60, Indels: 27
0.89 0.08 0.04
Matches are distributed among these distances:
254 80 0.12
255 137 0.20
256 107 0.16
257 114 0.17
258 23 0.03
259 212 0.31
260 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (256 bp):
TTAGTAAGTCCTTCCAGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCT
GCAAGTCTTTCGAGCAAGATGATAAGTCTTCGGACCATTCGTAAGACCTTCGGGTAGGATGTTTT
CACATGAATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATGA
AATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAA
Found at i:13515190 original size:41 final size:42
Alignment explanation
Indices: 13515071--13515192 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
13515061 CACAAATTAG
* *
13515071 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAT
1 TAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCAAGATGAT
* * *
13515113 TAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGA-
1 TAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCAAGATGAT
* * * * *
13515154 TAAGTTCTTCGTGCCATCTGTAAGACCTTCGGGCAAGAT
1 TAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCAAGAT
13515193 ATTTTCACGT
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
41 31 0.46
42 36 0.54
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (42 bp):
TAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCAAGATGAT
Found at i:13516610 original size:5 final size:5
Alignment explanation
Indices: 13516600--13516671 Score: 62
Period size: 5 Copynumber: 15.2 Consensus size: 5
13516590 GTTCTTGTAC
* * * * *
13516600 TTATT TTA-T TTATT TTATT TTATT CTATG ATGTT TT-TT TTATT GT-TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
*
13516647 TTATT GT-TT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
13516672 AAGTTTATTA
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
4 14 0.26
5 39 0.74
ACGTcount: A:0.17, C:0.01, G:0.06, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:13516656 original size:8 final size:9
Alignment explanation
Indices: 13516635--13516670 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
13516625 TATGATGTTT
13516635 TTTTTATTG
1 TTTTTATTG
13516644 TTTTTATTG
1 TTTTTATTG
*
13516653 TTTTTATTT
1 TTTTTATTG
13516662 TATTTTATT
1 T-TTTTATT
13516671 TAAGTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 18 0.72
10 7 0.28
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.81
Consensus pattern (9 bp):
TTTTTATTG
Found at i:13516687 original size:42 final size:46
Alignment explanation
Indices: 13516600--13516689 Score: 109
Period size: 47 Copynumber: 2.0 Consensus size: 46
13516590 GTTCTTGTAC
* *
13516600 TTATTTTATTTATTTTATTTTATTCTATGATGTTTTTTTTATTGTTT
1 TTATTTTATTTATTTTATTTTATTCTA-GATGTTTATTATATTGTTT
13516647 TTATTGTT-TTTATTTTATTTTATT-TA-A-GTTTATTAT-TTGTTT
1 TTATT-TTATTTATTTTATTTTATTCTAGATGTTTATTATATTGTTT
13516689 T
1 T
13516690 GATATGTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
42 7 0.17
43 7 0.17
44 1 0.03
46 2 0.05
47 21 0.52
48 2 0.05
ACGTcount: A:0.18, C:0.01, G:0.07, T:0.74
Consensus pattern (46 bp):
TTATTTTATTTATTTTATTTTATTCTAGATGTTTATTATATTGTTT
Found at i:13520479 original size:36 final size:35
Alignment explanation
Indices: 13520431--13520911 Score: 452
Period size: 36 Copynumber: 13.7 Consensus size: 35
13520421 TCCATCACCT
* *
13520431 TTGAGACTGTTTCCCTTGAAACTAATTTTGTCTCAC
1 TTGAGACAGTTTCCCTTGAAAC-AATTTTGTCTCTC
* *
13520467 TTGAGATAGTTTCCCTTGAAACGAGTTTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAAC-AATTTTGTCTCTC
*
13520503 TTGAGACAATTTCCCTTGAAACAAATTTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAAC-AATTTTGTCTCTC
* * ***
13520539 TTGAGACAGTCTCCCTTGAAAC-A-TAT-AAACT-
1 TTGAGACAGTTTCCCTTGAAACAATTTTGTCTCTC
* *
13520570 TTGAAATC-GTTTCCCTTGAAACGAGTTTTGTCTCTC
1 TTGAGA-CAGTTTCCCTTGAAAC-AATTTTGTCTCTC
* ***
13520606 TTGAGACAGTTTCTCTTGAAAC-A---T-AAACT-
1 TTGAGACAGTTTCCCTTGAAACAATTTTGTCTCTC
*
13520635 TTGAGA-ACGTTTCCCTTGAAACAAATGTTGTCTCTC
1 TTGAGACA-GTTTCCCTTGAAAC-AATTTTGTCTCTC
* *
13520671 TTGAGACAGTTTCCTTTGAAACAAGTTGTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAA-TTTTGTCTCTC
* * *
13520707 TTGAGACAGTTTCCCTTTAAGAGAGTTTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAA-ACAATTTTGTCTCTC
*
13520743 TTGAGA-ATGTTTCCCTTGAAACAAATTTTGACTCTC
1 TTGAGACA-GTTTCCCTTGAAAC-AATTTTGTCTCTC
* *
13520779 TTGAGACAGTTTCCCTTGAAA-AATAATTTTTCTCCC
1 TTGAGACAGTTTCCCTTGAAACAAT--TTTGTCTCTC
* *
13520815 TTGAGACAGTTTCCCTTTAAACAAGTTTTGTCTCCC
1 TTGAGACAGTTTCCCTTGAAACAA-TTTTGTCTCTC
*
13520851 TTGAGATAGTTTCCCTTGAAACAAGTTTTGTCT-TC
1 TTGAGACAGTTTCCCTTGAAACAA-TTTTGTCTCTC
*
13520886 CTGAGACAGTTTTCCCTTGAAACAAT
1 TTGAGACAG-TTTCCCTTGAAACAAT
13520912 AAAATGTACC
Statistics
Matches: 365, Mismatches: 54, Indels: 53
0.77 0.11 0.11
Matches are distributed among these distances:
28 1 0.00
29 19 0.05
30 2 0.01
31 20 0.05
32 3 0.01
33 2 0.01
34 7 0.02
35 18 0.05
36 286 0.78
37 6 0.02
38 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (35 bp):
TTGAGACAGTTTCCCTTGAAACAATTTTGTCTCTC
Found at i:13520647 original size:65 final size:64
Alignment explanation
Indices: 13520512--13520693 Score: 267
Period size: 65 Copynumber: 2.8 Consensus size: 64
13520502 CTTGAGACAA
*
13520512 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTCTCCCTTGAAACATATAAACTTTGAAAT
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGT-TTCCTTGAAAC--ATAAACTTTGAAAT
13520577 CG
63 CG
* *
13520579 TTTCCCTTGAAACGAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAGAA-C
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC-CTTGAAACATAAACTTTGA-AATC
13520643 G
64 G
*
13520644 TTTCCCTTGAAACAAATGTTGTCTCTCTTGAGACAGTTTCCTTTGAAACA
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC-TTGAAACA
13520694 AGTTGTGTCT
Statistics
Matches: 106, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
64 1 0.01
65 58 0.55
66 4 0.04
67 43 0.41
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.37
Consensus pattern (64 bp):
TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCTTGAAACATAAACTTTGAAATCG
Found at i:13521749 original size:88 final size:88
Alignment explanation
Indices: 13521657--13521848 Score: 267
Period size: 88 Copynumber: 2.2 Consensus size: 88
13521647 TTCGCTTAAA
* *
13521657 TCCATCACAGAAGGAGTTGGATCAGCATCAACTTCTTGCTCGATTCTATCACAGAAGGAGATACA
1 TCCATCACAGAAGGAGATGGATCAGCATCAACTTCTTGCTCAATTCTATCACAGAAGGAGATACA
13521722 TCAGCAATGACATCTCGATCGAT
66 TCAGCAATGACATCTCGATCGAT
* * * * * * *
13521745 TCCATCACAGATGGAGATGGATCAGCATCAACTTTTTTCTCAATTCTATCACATAATGAGGTAGA
1 TCCATCACAGAAGGAGATGGATCAGCATCAACTTCTTGCTCAATTCTATCACAGAAGGAGATACA
* * *
13521810 TCAGTACTGACATCTCGTTCGAT
66 TCAGCAATGACATCTCGATCGAT
*
13521833 TCAATCACAGAAGGAG
1 TCCATCACAGAAGGAG
13521849 GTGGGTCGAC
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 90 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (88 bp):
TCCATCACAGAAGGAGATGGATCAGCATCAACTTCTTGCTCAATTCTATCACAGAAGGAGATACA
TCAGCAATGACATCTCGATCGAT
Found at i:13521766 original size:132 final size:132
Alignment explanation
Indices: 13521524--13521767 Score: 335
Period size: 132 Copynumber: 1.8 Consensus size: 132
13521514 TGACATTTTC
* * * * * * *
13521524 ATCCAGCACATAAGGAGTTGGATCAATATTAACTTTTTTCTCGATTCTATCACAGAAGGAGGTAG
1 ATCCAGCACAGAAGGAGTTGGATCAACATCAACTTCTTGCTCGATTCTATCACAGAAGGAGATAC
* * *
13521589 ATCACCACCAACATCTAGTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTT
66 ATCACCAACAACATCTAGATCGATTCCATCACAGAAGGAGATGGATCGACATTTTTATTTCGCTT
13521654 AA
131 AA
* *
13521656 ATCCATCACAGAAGGAGTTGGATCAGCATCAACTTCTTGCTCGATTCTATCACAGAAGGAGATAC
1 ATCCAGCACAGAAGGAGTTGGATCAACATCAACTTCTTGCTCGATTCTATCACAGAAGGAGATAC
* ** * *
13521721 ATCAGCAATGACATCTCGATCGATTCCATCACAGATGGAGATGGATC
66 ATCACCAACAACATCTAGATCGATTCCATCACAGAAGGAGATGGATC
13521768 AGCATCAACT
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
132 95 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (132 bp):
ATCCAGCACAGAAGGAGTTGGATCAACATCAACTTCTTGCTCGATTCTATCACAGAAGGAGATAC
ATCACCAACAACATCTAGATCGATTCCATCACAGAAGGAGATGGATCGACATTTTTATTTCGCTT
AA
Found at i:13521796 original size:132 final size:132
Alignment explanation
Indices: 13521563--13521982 Score: 355
Period size: 132 Copynumber: 3.2 Consensus size: 132
13521553 TAACTTTTTT
* ** * *
13521563 CTCGATTCTATCACAGAAGGAGGTAGATCACCACCAACATCTAGTTCGATTCCATCACAGAAGGA
1 CTCGATTCTATCACAGAAGGAGGTAGATCAGCAATAACATCTCGATCGATTCCATCACAGAAGGA
* ** * * * * * *
13521628 GGTGGATC-G-A-CATTTTTATTTCGCTTAAATCCATCACAGAAGGAGTTGGATCAGCATCAACT
66 GATGGATCAGCATCAACTTT-TTT--CTCAATTCTATCACAGAAGGAGGTAGATCAGCATCAACA
*
13521690 TCTTG
128 TCTCG
* * * *
13521695 CTCGATTCTATCACAGAAGGAGATACATCAGCAATGACATCTCGATCGATTCCATCACAGATGGA
1 CTCGATTCTATCACAGAAGGAGGTAGATCAGCAATAACATCTCGATCGATTCCATCACAGAAGGA
* * * *
13521760 GATGGATCAGCATCAACTTTTTTCTCAATTCTATCACATAATGAGGTAGATCAGTA-CTGACATC
66 GATGGATCAGCATCAACTTTTTTCTCAATTCTATCACAGAAGGAGGTAGATCAGCATC-AACATC
13521824 TCG
130 TCG
* * * * * *** * ** * * *
13521827 TTCGATTCAATCACAGAAGGAGGTGGGTC-GACATTTTTATTTCTCTCAAATACATCACAGAAGG
1 CTCGATTCTATCACAGAAGGAGGTAGATCAG-CAATAACATCTCGATCGATTCCATCACAGAAGG
* * * * * *
13521891 AGTTGGATCAACATCAACTTTTTGCTCGATTCTATTACAGAAGGAGGTAGATCAGCACCAACATC
65 AGATGGATCAGCATCAACTTTTTTCTCAATTCTATCACAGAAGGAGGTAGATCAGCATCAACATC
13521956 TCG
130 TCG
* *
13521959 TTCGATTCCATCACAGAAGGAGGT
1 CTCGATTCTATCACAGAAGGAGGT
13521983 GTGTAATACC
Statistics
Matches: 232, Mismatches: 50, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
131 2 0.01
132 219 0.94
133 2 0.01
134 4 0.02
135 5 0.02
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (132 bp):
CTCGATTCTATCACAGAAGGAGGTAGATCAGCAATAACATCTCGATCGATTCCATCACAGAAGGA
GATGGATCAGCATCAACTTTTTTCTCAATTCTATCACAGAAGGAGGTAGATCAGCATCAACATCT
CG
Found at i:13521964 original size:44 final size:44
Alignment explanation
Indices: 13521564--13521983 Score: 242
Period size: 44 Copynumber: 9.5 Consensus size: 44
13521554 AACTTTTTTC
* * * * *
13521564 TCGATTCTATCACAGAAGGAGGTAGATCACCACCAACATCTAGT
1 TCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTCGT
**** *
13521608 TCGATTCCATCACAGAAGGAGGTGGATC-GACATTTTTATTTCGCT
1 TCGATTCCATCACAGAAGGAGGTGGATCAG-CATCAACATCTCG-T
* * * * * *
13521653 T-AAATCCATCACAGAAGGAGTTGGATCAGCATCAACTTCTTGC
1 TCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTCGT
* * ** * *
13521696 TCGATTCTATCACAGAAGGAGATACATCAGCAAT-GACATCTCGA
1 TCGATTCCATCACAGAAGGAGGTGGATCAGC-ATCAACATCTCGT
* * * **
13521740 TCGATTCCATCACAGATGGAGATGGATCAGCATCAAC-TTTTTT
1 TCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTCGT
* * * * * * *
13521783 CTCAATTCTATCACATAATGAGGTAGATCAGTA-CTGACATCTCGT
1 -TCGATTCCATCACAGAAGGAGGTGGATCAGCATC-AACATCTCGT
* * **** *
13521828 TCGATTCAATCACAGAAGGAGGTGGGTC-GACATTTTTATTTC-T
1 TCGATTCCATCACAGAAGGAGGTGGATCAG-CATCAACATCTCGT
* * * * * * * * *
13521871 CTCAAATACATCACAGAAGGAGTTGGATCAACATCAACTTTTTGC
1 -TCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTCGT
* * * *
13521916 TCGATTCTATTACAGAAGGAGGTAGATCAGCACCAACATCTCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTCGT
13521960 TCGATTCCATCACAGAAGGAGGTG
1 TCGATTCCATCACAGAAGGAGGTG
13521984 TGTAATACCC
Statistics
Matches: 268, Mismatches: 94, Indels: 28
0.69 0.24 0.07
Matches are distributed among these distances:
43 8 0.03
44 252 0.94
45 8 0.03
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (44 bp):
TCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATCTCGT
Found at i:13523183 original size:30 final size:31
Alignment explanation
Indices: 13523149--13523206 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
13523139 AAAAATTTGA
* *
13523149 GGACCATTTTG-TAAATTTTGAAAAGTTGGG
1 GGACCAATTTGATAAATTTGGAAAAGTTGGG
*
13523179 GGACCAATTTGATAACTTTGGAAAAGTT
1 GGACCAATTTGATAAATTTGGAAAAGTT
13523207 ATGAATGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 10 0.42
31 14 0.58
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (31 bp):
GGACCAATTTGATAAATTTGGAAAAGTTGGG
Found at i:13526840 original size:11 final size:10
Alignment explanation
Indices: 13526824--13526868 Score: 54
Period size: 11 Copynumber: 4.2 Consensus size: 10
13526814 CTTGTACTTA
13526824 TTTTTTTATT
1 TTTTTTTATT
*
13526834 GTTTTTTATTT
1 TTTTTTTA-TT
13526845 TTATTTTTATT
1 TT-TTTTTATT
13526856 TTTATTTTATT
1 TTT-TTTTATT
13526867 TT
1 TT
13526869 ATTTAAGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 8 0.27
11 16 0.53
12 6 0.20
ACGTcount: A:0.13, C:0.00, G:0.02, T:0.84
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:13526844 original size:18 final size:18
Alignment explanation
Indices: 13526836--13526872 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
13526826 TTTTTATTGT
13526836 TTTTTATTTTTATTTTTA
1 TTTTTATTTTTATTTTTA
13526854 TTTTTA-TTTTA-TTTTA
1 TTTTTATTTTTATTTTTA
13526870 TTT
1 TTT
13526873 AAGTTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 5 0.26
18 6 0.32
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTATTTTTATTTTTA
Found at i:13526847 original size:6 final size:6
Alignment explanation
Indices: 13526836--13526872 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
13526826 TTTTTATTGT
13526836 TTTTTA TTTTTA TTTTTA TTTTTA -TTTTA -TTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
13526873 AAGTTTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:13526854 original size:22 final size:22
Alignment explanation
Indices: 13526826--13526872 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
13526816 TGTACTTATT
13526826 TTTTTATTGTT-TTTTATTTTTA
1 TTTTTATTGTTATTTTA-TTTTA
*
13526848 TTTTTATTTTTATTTTATTTTA
1 TTTTTATTGTTATTTTATTTTA
13526870 TTT
1 TTT
13526873 AAGTTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (22 bp):
TTTTTATTGTTATTTTATTTTA
Found at i:13528065 original size:42 final size:41
Alignment explanation
Indices: 13528018--13528099 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
13528008 GACATACTTA
* * * *
13528018 AGTCTTTCTAGCATGATGATTAAATCCTTTAGGTCATCTGTC
1 AGTCTTTCGAGAAAGATGA-TAAATCCTTCAGGTCATCTGTC
* *
13528060 AGTCTTTCGAGAAAGATGATAAGTCCTTCGGGTCATCTGT
1 AGTCTTTCGAGAAAGATGATAAATCCTTCAGGTCATCTGT
13528100 AAGACCTTCG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 18 0.53
42 16 0.47
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (41 bp):
AGTCTTTCGAGAAAGATGATAAATCCTTCAGGTCATCTGTC
Found at i:13528098 original size:41 final size:42
Alignment explanation
Indices: 13527996--13528102 Score: 119
Period size: 42 Copynumber: 2.6 Consensus size: 42
13527986 CCAAAATTGG
* * * *
13527996 TAAGTCCTTCGGGACATACT-TAAGTCTTTCTAGCATGATGAT
1 TAAGTCCTTCGGGTCAT-CTGTAAGTCTTTCGAGAAAGATGAT
* ** *
13528038 TAAATCCTTTAGGTCATCTGTCAGTCTTTCGAGAAAGATGA-
1 TAAGTCCTTCGGGTCATCTGTAAGTCTTTCGAGAAAGATGAT
13528079 TAAGTCCTTCGGGTCATCTGTAAG
1 TAAGTCCTTCGGGTCATCTGTAAG
13528103 ACCTTCGGGT
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
41 22 0.42
42 30 0.58
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (42 bp):
TAAGTCCTTCGGGTCATCTGTAAGTCTTTCGAGAAAGATGAT
Found at i:13528488 original size:135 final size:135
Alignment explanation
Indices: 13528244--13528907 Score: 761
Period size: 135 Copynumber: 4.9 Consensus size: 135
13528234 AATTATTTCT
* * *
13528244 ATTCAACCTTCCCTGAAGAGCAGTGAAGAT-GATC-AAAGTTTTCTCGAGTCTGATCTCCCCT-A
1 ATTCAATCTTCCCTGAAGAGCAGCGAAG-TGGATCAAAATTTTTCTCGAGTCTGATCTCCCCTAA
* * * * * * *
13528306 AGAGTAGTGGAGCATATTCTTCTTCTTTCAAATTTGGTCTTCTTGAAGAGCAGTGAGGCTAATCG
65 AGAGTAGTGGAGCAAATTCTTATTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCA
* *
13528371 ATTTTG
130 AGTTCG
* * ** *
13528377 ATTCAATCTTCACTGAAGAGAAATGAAGTGGATCAAAATTTTTCTTGAGTCTGATCTCCCCTAAA
1 ATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTTTTCTCGAGTCTGATCTCCCCTAAA
* * * * ***
13528442 AAGTAGCGGTGCATATTCTTATTCTTTCAGATTTGGTCTTCCTGAAGAGCAACAAAGCAAATCAA
66 GAGTAGTGGAGCAAATTCTTATTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAA
13528507 GTTCG
131 GTTCG
* *
13528512 ATTTAATCTTCCCTGAAGAGCAGCGAAGTGTATCAAAATTTTTCTCGAGTCT-AGTCTCCCCTAA
1 ATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTTTTCTCGAGTCTGA-TCTCCCCTAA
* * * * * * *
13528576 AGAGTAGCT-TAGCAAATTGTTCTTCCTTCATATTTGGTCTTCATAAAGAGCAGTGAAGCAAATC
65 AGAGTAG-TGGAGCAAATTCTTATTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATC
13528640 AAGTTCG
129 AAGTTCG
* * * *
13528647 ATTCAATATTTCCTGAATAGCAGCGAAGTGGATCAAAATTTTTCTCGAGTCGGATCTCCCCTAAA
1 ATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTTTTCTCGAGTCTGATCTCCCCTAAA
* * * ** *
13528712 GAGTAGTGGAGCAAATTCTTGTTCTTTAAGATTTGGTCTTCCTAAAGAGCAACGAAGCAAATCAT
66 GAGTAGTGGAGCAAATTCTTATTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAA
13528777 G-TCTG
131 GTTC-G
* * * * *
13528782 ATTCAATATTCCCTAAAGAGCAGCAAAGTGGATCAAAA-TTTT-TCGATTCTGATCTCTCCTAAA
1 ATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTTTTCTCGAGTCTGATCTCCCCTAAA
* * *
13528845 GAGTAGTGGAGCAGATTCTTCA-TCTTTCAGATTTGGTCTTCCTGAAGAGTAGTGAAGTAAATC
66 GAGTAGTGGAGCAAATTCTT-ATTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATC
13528908 CCTTATCAAA
Statistics
Matches: 450, Mismatches: 72, Indels: 18
0.83 0.13 0.03
Matches are distributed among these distances:
132 1 0.00
133 100 0.22
134 33 0.07
135 315 0.70
136 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (135 bp):
ATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTTTTCTCGAGTCTGATCTCCCCTAAA
GAGTAGTGGAGCAAATTCTTATTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAA
GTTCG
Found at i:13533709 original size:14 final size:13
Alignment explanation
Indices: 13533686--13533754 Score: 54
Period size: 14 Copynumber: 5.2 Consensus size: 13
13533676 ATTTTAGCTT
13533686 TTTATATTATTTA
1 TTTATATTATTTA
13533699 TTTATTATTATTTA
1 TTTA-TATTATTTA
* *
13533713 TTTAGT-TGA-AT-
1 TTTA-TATTATTTA
13533724 TTTATATCTATTTA
1 TTTATAT-TATTTA
*
13533738 TTTATAATTATATA
1 TTTAT-ATTATTTA
13533752 TTT
1 TTT
13533755 TTTATAGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
10 1 0.02
11 5 0.11
12 2 0.05
13 7 0.16
14 27 0.61
15 2 0.05
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.65
Consensus pattern (13 bp):
TTTATATTATTTA
Found at i:13533766 original size:18 final size:18
Alignment explanation
Indices: 13533687--13533760 Score: 53
Period size: 18 Copynumber: 3.9 Consensus size: 18
13533677 TTTTAGCTTT
*
13533687 TTATATTATTTATTTATTA
1 TTATA-TATTTATTTATAA
* * *
13533706 TTATTTATTTAGTTGA-ATT
1 TTATATATTTA-TTTATA-A
13533725 TTATATCTATTTATTTATAA
1 TTATA--TATTTATTTATAA
13533745 TTATATATTT-TTTATA
1 TTATATATTTATTTATA
13533761 GTTTATTTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
17 6 0.14
18 11 0.26
19 11 0.26
20 8 0.19
21 7 0.16
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (18 bp):
TTATATATTTATTTATAA
Found at i:13534848 original size:334 final size:334
Alignment explanation
Indices: 13534237--13535240 Score: 1810
Period size: 334 Copynumber: 3.0 Consensus size: 334
13534227 TTTTTACATC
*
13534237 ATCATAAGTCAAATACTTTTCAGAGCATTATCATAAGTCTATTACATTTCAGTTAATAACATCAA
1 ATCATAAGTCAAATACTTTTCAGAGCATTATCATAAGTCTATTACATTTCAGCTAATAACATCAA
*
13534302 AAGTAGACATAGTTGTCGTACAGTTACTGATGAGGCGACCTTTGATTGGGGATGTCAGATGCACT
66 AAGTAGACATAGTTGTCGTACAGTTACTGATGAGGCGACCTTTGATTGGCGATGTCAGATGCACT
*
13534367 CCTTAATCCGCTCGTACTAATACCTGCGCGTGAAATCAACACACGCTAAGTAATCACTTAGTGAG
131 CCTTACTCCGCTCGTACTAATACCTGCGCGTGAAATCAACACACGCTAAGTAATCACTTAGTGAG
13534432 GCGTAATAACAATGAGATAAATTTTCTTTTAAAACATAAGTATATCATAACTATCAAAATATAAA
196 GCGTAATAACAATGAGATAAATTTTCTTTTAAAACATAAGTATATCATAACTATCAAAATATAAA
* *
13534497 TTTGATATTTTAACTCGTTATAAATTTAGTGGTTTTGCACACATAGTGCCGATACGGTAATTCAC
261 TTTGATATTTCAACTCGTTATAAATTTAGTGGTTTTGCACACGTAGTGCCGATACGGTAATTCAC
13534562 AAACTCATT
326 AAACTCATT
*
13534571 ATCATAAGTCAAATACTTTTCTGAGCATTATCATAAGTCTATTACATTTCAGCTAATAACATCAA
1 ATCATAAGTCAAATACTTTTCAGAGCATTATCATAAGTCTATTACATTTCAGCTAATAACATCAA
* * *
13534636 AAGTAGACATAGTTGTCGTACAATTACTGATGAGGCAACCTTTTATTGGCGATGTCAGATGCACT
66 AAGTAGACATAGTTGTCGTACAGTTACTGATGAGGCGACCTTTGATTGGCGATGTCAGATGCACT
*
13534701 CCTTACTCCGCTCGTACTAATACCTGCACGTGAAATCAACACACGCTAAGTAATCACTTAGTGAG
131 CCTTACTCCGCTCGTACTAATACCTGCGCGTGAAATCAACACACGCTAAGTAATCACTTAGTGAG
* * *
13534766 GTGTAATAACAATTAGATAAATTTTCTTTTAAAACATAAGTACATCATAACTATCAAAATATAAA
196 GCGTAATAACAATGAGATAAATTTTCTTTTAAAACATAAGTATATCATAACTATCAAAATATAAA
*
13534831 TTTGATATTTCAACTCGTTATAAATTTAGTGGTTTTGCACACGTAGTGTCGATACGGTAATTCAC
261 TTTGATATTTCAACTCGTTATAAATTTAGTGGTTTTGCACACGTAGTGCCGATACGGTAATTCAC
*
13534896 AAACTCGTT
326 AAACTCATT
* *
13534905 ATCATAAGTTAAATACTTTTCAGAGTATTATCATAAGTCTATTACATTTCAGCTAATAACATCAA
1 ATCATAAGTCAAATACTTTTCAGAGCATTATCATAAGTCTATTACATTTCAGCTAATAACATCAA
* *
13534970 AAGTAGACATAGTTGCCGTACAGTTACTGATGAGGCGACCTTTGATTGGCAATGTCAGATGCACT
66 AAGTAGACATAGTTGTCGTACAGTTACTGATGAGGCGACCTTTGATTGGCGATGTCAGATGCACT
13535035 CCTTACTCCGCTCGTACTAATACCTGCGCGTGAAATCAACACACGCTAAGTAATCACTTAGTGAG
131 CCTTACTCCGCTCGTACTAATACCTGCGCGTGAAATCAACACACGCTAAGTAATCACTTAGTGAG
*
13535100 GCGTAATAACAATGAGCTAAATTTTCTTTTAAAACATAAGTATATCATAACTATCAAAATATAAA
196 GCGTAATAACAATGAGATAAATTTTCTTTTAAAACATAAGTATATCATAACTATCAAAATATAAA
* *
13535165 TTTGACATTTCAACTTGTTATAAATTTAGTGGTTTTGCACACGTAGTGCCGATACGGTAATTCAC
261 TTTGATATTTCAACTCGTTATAAATTTAGTGGTTTTGCACACGTAGTGCCGATACGGTAATTCAC
13535230 AAACTCATT
326 AAACTCATT
13535239 AT
1 AT
13535241 GAATTACATA
Statistics
Matches: 638, Mismatches: 32, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
334 638 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (334 bp):
ATCATAAGTCAAATACTTTTCAGAGCATTATCATAAGTCTATTACATTTCAGCTAATAACATCAA
AAGTAGACATAGTTGTCGTACAGTTACTGATGAGGCGACCTTTGATTGGCGATGTCAGATGCACT
CCTTACTCCGCTCGTACTAATACCTGCGCGTGAAATCAACACACGCTAAGTAATCACTTAGTGAG
GCGTAATAACAATGAGATAAATTTTCTTTTAAAACATAAGTATATCATAACTATCAAAATATAAA
TTTGATATTTCAACTCGTTATAAATTTAGTGGTTTTGCACACGTAGTGCCGATACGGTAATTCAC
AAACTCATT
Found at i:13535281 original size:54 final size:54
Alignment explanation
Indices: 13535199--13535538 Score: 446
Period size: 54 Copynumber: 6.3 Consensus size: 54
13535189 TTTAGTGGTT
* * *** * * *
13535199 TTGCACACGTAGTGCCGATACGGTAATTCACAAACTCATTATGAATTACATAGG
1 TTGCACACATAGTGCCAATACAAAAATTCATAAACTCATTATGAATTTCTTAGG
* **
13535253 TTGCACACATAGTGCCTATACCGAAATTCATAAACTCATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACAAAAATTCATAAACTCATTATGAATTTCTTAGG
* * * *
13535307 TTACACACATAGTGGCAATACAAAAATTCATAGACTCATTATGAATTTCTTATG
1 TTGCACACATAGTGCCAATACAAAAATTCATAAACTCATTATGAATTTCTTAGG
* * *
13535361 TTGCACACATAGTTCCAATACAAAAATTCATAAACTTATTATGAATTTATTAGG
1 TTGCACACATAGTGCCAATACAAAAATTCATAAACTCATTATGAATTTCTTAGG
** * *
13535415 TTGCACACATAGTGCCAATACAAAAATTCATAAACTTTTTATGAATTTCATAAG
1 TTGCACACATAGTGCCAATACAAAAATTCATAAACTCATTATGAATTTCTTAGG
* * *
13535469 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTATG
1 TTGCACACATAGTGCCAATACAAAAATTCATAAACTCATTATGAATTTCTTAGG
*
13535523 TTGCATACATAGTGCC
1 TTGCACACATAGTGCC
13535539 CATTCGGTAA
Statistics
Matches: 255, Mismatches: 31, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 255 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (54 bp):
TTGCACACATAGTGCCAATACAAAAATTCATAAACTCATTATGAATTTCTTAGG
Found at i:13539010 original size:3 final size:3
Alignment explanation
Indices: 13538989--13539107 Score: 184
Period size: 3 Copynumber: 39.7 Consensus size: 3
13538979 GGCACGAGAC
* * * *
13538989 GAA GAA TAA GAA AAA GAA GAA GAA GAA GAA GAA GAA TAA GAA TAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
13539037 TAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
13539085 GAA GAA GAA GAA GAA GAA TAA GA
1 GAA GAA GAA GAA GAA GAA GAA GA
13539108 GTAGAGATTG
Statistics
Matches: 104, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 104 1.00
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (3 bp):
GAA
Found at i:13545204 original size:59 final size:59
Alignment explanation
Indices: 13545105--13545232 Score: 141
Period size: 59 Copynumber: 2.2 Consensus size: 59
13545095 CAGCTGGCTG
* ** * * *
13545105 CATATTCGGGAATACACTAAAGGATTCCTAGTGTATATGGTGGGCATGACCTCATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTCATGTGT
* * * *
13545164 TATATTCGGGACAT-TACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGGGA-ATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTCATGTGT
*
13545223 CATACTCGGG
1 CATATTCGGG
13545233 TTAGCACTAC
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
59 54 0.96
60 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTCATGTGT
Found at i:13552340 original size:59 final size:59
Alignment explanation
Indices: 13552241--13552368 Score: 168
Period size: 59 Copynumber: 2.2 Consensus size: 59
13552231 CAGCAGGCTG
** * *
13552241 CATATTCGGGAATATACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTAT
1 CATATTCGGGAATATACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTAT
* * *
13552300 CATATTCGGGACA-GTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGGGA-ATATACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTAT
*
13552359 CATACTCGGG
1 CATATTCGGG
13552369 TTAGCACTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 59 0.98
60 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (59 bp):
CATATTCGGGAATATACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTAT
Found at i:13557689 original size:36 final size:36
Alignment explanation
Indices: 13557642--13557732 Score: 182
Period size: 36 Copynumber: 2.5 Consensus size: 36
13557632 GCTTGAACTG
13557642 TGGCTTGAACTGGAGATATCTTTCATACATTTTACC
1 TGGCTTGAACTGGAGATATCTTTCATACATTTTACC
13557678 TGGCTTGAACTGGAGATATCTTTCATACATTTTACC
1 TGGCTTGAACTGGAGATATCTTTCATACATTTTACC
13557714 TGGCTTGAACTGGAGATAT
1 TGGCTTGAACTGGAGATAT
13557733 ATTATCTTCC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (36 bp):
TGGCTTGAACTGGAGATATCTTTCATACATTTTACC
Found at i:13558792 original size:20 final size:19
Alignment explanation
Indices: 13558766--13558814 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 19
13558756 AATTGGAAGA
13558766 ATATTTTATTTAAAAATATT
1 ATATTTTATTTAAAAATA-T
*
13558786 TTATTTTTATTTAAAAATAT
1 ATA-TTTTATTTAAAAATAT
13558806 ATATTTTAT
1 ATATTTTAT
13558815 GTCAAACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 6 0.23
20 5 0.19
21 15 0.58
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATATTTTATTTAAAAATAT
Found at i:13560174 original size:17 final size:17
Alignment explanation
Indices: 13560154--13560189 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
13560144 TCTTCTAACT
13560154 GTGAAAATAATAACAGC
1 GTGAAAATAATAACAGC
13560171 GTGAAAATAATAACAGC
1 GTGAAAATAATAACAGC
13560188 GT
1 GT
13560190 AGGCATAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.11, G:0.19, T:0.19
Consensus pattern (17 bp):
GTGAAAATAATAACAGC
Found at i:13561070 original size:16 final size:16
Alignment explanation
Indices: 13561028--13561070 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
13561018 TAAAATCTCC
13561028 TTTTAAAAGA-A-ATA
1 TTTTAAAAGATATATA
*
13561042 TTTTAAAATATATATA
1 TTTTAAAAGATATATA
*
13561058 TTTTTAAAGATAT
1 TTTTAAAAGATAT
13561071 TTTTCAACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 9 0.38
15 1 0.04
16 14 0.58
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (16 bp):
TTTTAAAAGATATATA
Found at i:13563046 original size:31 final size:31
Alignment explanation
Indices: 13562977--13563081 Score: 97
Period size: 32 Copynumber: 3.3 Consensus size: 31
13562967 ATTAGTTCGG
* *
13562977 TTGATTTTTGGGATGGGTT-ATA-CTAGATCGA
1 TTGA-TTTTGGGTTGGGTTAATATCGA-ATCGA
*
13563008 TTAGATTTTGGGTTGGGTTAATATCGAATCGG
1 TT-GATTTTGGGTTGGGTTAATATCGAATCGA
* * *
13563040 TTGATTTTAAGATTGGGTTAATATCGGATCGA
1 TTGATTTT-GGGTTGGGTTAATATCGAATCGA
13563072 TTGAATTTTG
1 TTG-ATTTTG
13563082 ATTTGGGTCA
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
31 21 0.34
32 33 0.54
33 7 0.11
ACGTcount: A:0.24, C:0.06, G:0.28, T:0.43
Consensus pattern (31 bp):
TTGATTTTGGGTTGGGTTAATATCGAATCGA
Found at i:13568344 original size:22 final size:23
Alignment explanation
Indices: 13568296--13568341 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
13568286 TCGATTCCCT
*
13568296 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGGTTCCCATTCAA
13568319 AGGGGGAATCGGTTCCCATTCAA
1 AGGGGGAATCGGTTCCCATTCAA
13568342 GGGTATCGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (23 bp):
AGGGGGAATCGGTTCCCATTCAA
Found at i:13574320 original size:90 final size:90
Alignment explanation
Indices: 13574167--13574342 Score: 343
Period size: 90 Copynumber: 2.0 Consensus size: 90
13574157 AATACACTTC
*
13574167 GAAATCAGTCTTGATTTGTTTTAAATTAAACTAGATTAACATACAAATTCTATGGTATAAGAATA
1 GAAATCAGTCTTCATTTGTTTTAAATTAAACTAGATTAACATACAAATTCTATGGTATAAGAATA
13574232 CCTTTTAATCATTTTATAAATTTTA
66 CCTTTTAATCATTTTATAAATTTTA
13574257 GAAATCAGTCTTCATTTGTTTTAAATTAAACTAGATTAACATACAAATTCTATGGTATAAGAATA
1 GAAATCAGTCTTCATTTGTTTTAAATTAAACTAGATTAACATACAAATTCTATGGTATAAGAATA
13574322 CCTTTTAATCATTTTATAAAT
66 CCTTTTAATCATTTTATAAAT
13574343 CTACTGATAA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 85 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (90 bp):
GAAATCAGTCTTCATTTGTTTTAAATTAAACTAGATTAACATACAAATTCTATGGTATAAGAATA
CCTTTTAATCATTTTATAAATTTTA
Found at i:13576911 original size:26 final size:26
Alignment explanation
Indices: 13576856--13576914 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
13576846 CATTTAAATT
* * * *
13576856 TATGACTATCATTGTTTGATTCAGAT
1 TATGATTATCATTGGTTGATTCAAAC
*
13576882 TATGATTATTATTGGTTGATTCAAAC
1 TATGATTATCATTGGTTGATTCAAAC
13576908 TATGATT
1 TATGATT
13576915 TGAATATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.47
Consensus pattern (26 bp):
TATGATTATCATTGGTTGATTCAAAC
Found at i:13577153 original size:25 final size:24
Alignment explanation
Indices: 13577115--13577171 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
13577105 AGTATGAAAT
*
13577115 TTTTATTCGGATTTGTTA-TTATAGA
1 TTTTATTCAGATTT-TTATTTA-AGA
*
13577140 TTTTATTCATATTTTTATTTAAGA
1 TTTTATTCAGATTTTTATTTAAGA
13577164 TTATTATT
1 TT-TTATT
13577172 ATTATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
TTTTATTCAGATTTTTATTTAAGA
Found at i:13583326 original size:22 final size:21
Alignment explanation
Indices: 13583300--13583349 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
13583290 GTATACACTT
*
13583300 ACATATCGATG-ATATAAAAAA
1 ACATATCG-TGAAAATAAAAAA
*
13583321 ATCATATAGTGAAAATAAAAAA
1 A-CATATCGTGAAAATAAAAAA
13583343 ACATATC
1 ACATATC
13583350 ATTTGATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.58, C:0.10, G:0.08, T:0.24
Consensus pattern (21 bp):
ACATATCGTGAAAATAAAAAA
Found at i:13593477 original size:34 final size:34
Alignment explanation
Indices: 13593422--13593497 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
13593412 CTTACTTGTT
* * * *
13593422 TTTCTCTCTAATACTATAAGTAATAATAGCTAAG
1 TTTCTCTCGAACACTACAAGTAATAATAACTAAG
13593456 TTTCTCTCGAACACTACAAGTAATAATAACTAAG
1 TTTCTCTCGAACACTACAAGTAATAATAACTAAG
13593490 TTTCTCTC
1 TTTCTCTC
13593498 AAAAACCTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.37
Consensus pattern (34 bp):
TTTCTCTCGAACACTACAAGTAATAATAACTAAG
Found at i:13595407 original size:10 final size:10
Alignment explanation
Indices: 13595379--13595420 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
13595369 ACTATATGCC
13595379 ATGC-AATGAA
1 ATGCAAATG-A
13595389 ATGCAAAATGA
1 ATGC-AAATGA
*
13595400 ATGCAAATGG
1 ATGCAAATGA
13595410 ATGCAAATGA
1 ATGCAAATGA
13595420 A
1 A
13595421 GGTACCTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 19 0.68
11 5 0.18
12 4 0.14
ACGTcount: A:0.50, C:0.10, G:0.21, T:0.19
Consensus pattern (10 bp):
ATGCAAATGA
Found at i:13604063 original size:54 final size:54
Alignment explanation
Indices: 13603949--13604051 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
13603939 AATGGTGCAT
* * *
13603949 TTTCGACAGTAAATGTGCAACCCATGCTATTCATAATGTGTTTATGAATGACCA
1 TTTCGACACTAAATGTGCAACCCATGATATTCATAATGAGTTTATGAATGACCA
* * *
13604003 TTTCGACACTATATGTGCAATCCATGGAT-TTCATAATGAGTTTGTGAAT
1 TTTCGACACTAAATGTGCAACCCAT-GATATTCATAATGAGTTTATGAAT
13604052 TTTTATTTCG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 40 0.95
55 2 0.05
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (54 bp):
TTTCGACACTAAATGTGCAACCCATGATATTCATAATGAGTTTATGAATGACCA
Found at i:13610805 original size:17 final size:17
Alignment explanation
Indices: 13610785--13610828 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
13610775 TTCGTTTAAA
13610785 CATGTAGTTCATGAAAG
1 CATGTAGTTCATGAAAG
**
13610802 CATGTAGTTCATTTAAG
1 CATGTAGTTCATGAAAG
13610819 CATGTTAGTT
1 CATG-TAGTT
13610829 TATCATGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (17 bp):
CATGTAGTTCATGAAAG
Found at i:13623701 original size:5 final size:5
Alignment explanation
Indices: 13623691--13623752 Score: 78
Period size: 5 Copynumber: 13.2 Consensus size: 5
13623681 AACGGTCAAC
*
13623691 GGTCG GGTCG GGTCG GGTC- GGTCG GGTCG GGT-A GGTC- GGTCG GGTCG
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG
*
13623738 GGTC- GGTCG GATCG G
1 GGTCG GGTCG GGTCG G
13623753 TCAAATTAGT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
4 15 0.29
5 36 0.71
ACGTcount: A:0.03, C:0.19, G:0.56, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:13623713 original size:14 final size:13
Alignment explanation
Indices: 13623691--13623754 Score: 74
Period size: 14 Copynumber: 4.6 Consensus size: 13
13623681 AACGGTCAAC
13623691 GGTCGGGTCGGGTCG
1 GGTC-GGTC-GGTCG
13623706 GGTCGGTCGGGTCG
1 GGTCGGTC-GGTCG
*
13623720 GGTAGGTCGGTCG
1 GGTCGGTCGGTCG
13623733 GGTCGGGTCGGTCG
1 GGTC-GGTCGGTCG
*
13623747 GATCGGTC
1 GGTCGGTC
13623755 AAATTAGTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
13 12 0.27
14 29 0.64
15 4 0.09
ACGTcount: A:0.03, C:0.20, G:0.55, T:0.22
Consensus pattern (13 bp):
GGTCGGTCGGTCG
Found at i:13623754 original size:9 final size:10
Alignment explanation
Indices: 13623691--13623752 Score: 78
Period size: 9 Copynumber: 6.6 Consensus size: 10
13623681 AACGGTCAAC
13623691 GGTCGGGTCG
1 GGTCGGGTCG
13623701 GGTCGGGTC-
1 GGTCGGGTCG
13623710 GGTCGGGTCG
1 GGTCGGGTCG
*
13623720 GGT-AGGTC-
1 GGTCGGGTCG
13623728 GGTCGGGTCG
1 GGTCGGGTCG
13623738 GGTC-GGTCG
1 GGTCGGGTCG
*
13623747 GATCGG
1 GGTCGG
13623753 TCAAATTAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
8 3 0.07
9 25 0.56
10 17 0.38
ACGTcount: A:0.03, C:0.19, G:0.56, T:0.21
Consensus pattern (10 bp):
GGTCGGGTCG
Found at i:13623786 original size:20 final size:20
Alignment explanation
Indices: 13623761--13623803 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
13623751 GGTCAAATTA
*
13623761 GTTC-AAACCGGTCGAAACCG
1 GTTCAAAACCGATC-AAACCG
13623781 GTTCAAAACCGATCAAACCG
1 GTTCAAAACCGATCAAACCG
13623801 GTT
1 GTT
13623804 TTTAACCACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.19
Consensus pattern (20 bp):
GTTCAAAACCGATCAAACCG
Found at i:13630971 original size:5 final size:5
Alignment explanation
Indices: 13630961--13631025 Score: 57
Period size: 5 Copynumber: 13.8 Consensus size: 5
13630951 AACGGTCAAC
* * * *
13630961 GGTCG GGTCG GGTCG GATC- GGTTG GGTCG GGT-A GGTC- GGTTG GGTCG
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG
*
13631008 GGTC- GGTCG GATCG GGTC
1 GGTCG GGTCG GGTCG GGTC
13631026 AGATCGGTCA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
4 12 0.26
5 35 0.74
ACGTcount: A:0.05, C:0.17, G:0.54, T:0.25
Consensus pattern (5 bp):
GGTCG
Found at i:13630997 original size:9 final size:9
Alignment explanation
Indices: 13630961--13631022 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
13630951 AACGGTCAAC
13630961 GGTCGGGTCG
1 GGTC-GGTCG
13630971 GGTCGGATCG
1 GGTCGG-TCG
* *
13630981 GTTGGGTCG
1 GGTCGGTCG
*
13630990 GGTAGGTCG
1 GGTCGGTCG
* *
13630999 GTTGGGTCG
1 GGTCGGTCG
13631008 GGTCGGTCG
1 GGTCGGTCG
*
13631017 GATCGG
1 GGTCGG
13631023 GTCAGATCGG
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
9 31 0.74
10 11 0.26
ACGTcount: A:0.05, C:0.16, G:0.55, T:0.24
Consensus pattern (9 bp):
GGTCGGTCG
Found at i:13631001 original size:18 final size:18
Alignment explanation
Indices: 13630960--13631017 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
13630950 CAACGGTCAA
*
13630960 CGGTCGGGTCGGGTCGGAT
1 CGGTTGGGTCGGGTCGG-T
*
13630979 CGGTTGGGTCGGGTAGGT
1 CGGTTGGGTCGGGTCGGT
13630997 CGGTTGGGTCGGGTCGGT
1 CGGTTGGGTCGGGTCGGT
13631015 CGG
1 CGG
13631018 ATCGGGTCAG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
18 21 0.58
19 15 0.42
ACGTcount: A:0.03, C:0.17, G:0.55, T:0.24
Consensus pattern (18 bp):
CGGTTGGGTCGGGTCGGT
Found at i:13631022 original size:14 final size:14
Alignment explanation
Indices: 13630963--13631025 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
13630953 CGGTCAACGG
13630963 TCGGGTCGGGTCGGA
1 TCGGGTC-GGTCGGA
* * *
13630978 TCGGTTGGGTCGGG
1 TCGGGTCGGTCGGA
* * *
13630992 T-AGGTCGGTTGGG
1 TCGGGTCGGTCGGA
13631005 TCGGGTCGGTCGGA
1 TCGGGTCGGTCGGA
13631019 TCGGGTC
1 TCGGGTC
13631026 AGATCGGTCA
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
13 9 0.24
14 23 0.62
15 5 0.14
ACGTcount: A:0.05, C:0.17, G:0.52, T:0.25
Consensus pattern (14 bp):
TCGGGTCGGTCGGA
Found at i:13633274 original size:23 final size:24
Alignment explanation
Indices: 13633223--13633299 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
13633213 ATCGATCTTG
* *
13633223 ATTAGTACA-TTCATGCAGTCATGT
1 ATTAGTGCATTTCA-GCACTCATGT
13633247 ATTAGTGC-TTTCAGCACTTC-TGT
1 ATTAGTGCATTTCAGCAC-TCATGT
**
13633270 ATTAGTGCATTTGTGCACTCATGT
1 ATTAGTGCATTTCAGCACTCATGT
13633294 ATTAGT
1 ATTAGT
13633300 ACCATTGGGG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
23 16 0.36
24 29 0.64
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (24 bp):
ATTAGTGCATTTCAGCACTCATGT
Found at i:13633337 original size:25 final size:24
Alignment explanation
Indices: 13633267--13633339 Score: 83
Period size: 25 Copynumber: 3.0 Consensus size: 24
13633257 TCAGCACTTC
* *
13633267 TGTATTAGTGCATTTGTGCACTCA
1 TGTATTAGTACATTTGTGTACTCA
* * *
13633291 TGTATTAGTACCATTGGGGTACTCT
1 TGTATTAGTA-CATTTGTGTACTCA
13633316 TGTATTTAGTACATTTGTGTACTC
1 TGTA-TTAGTACATTTGTGTACTC
13633340 CGAGCACTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
24 9 0.22
25 25 0.62
26 6 0.15
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (24 bp):
TGTATTAGTACATTTGTGTACTCA
Found at i:13634269 original size:13 final size:13
Alignment explanation
Indices: 13634251--13634275 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13634241 TATTAAATAT
13634251 AATTAATAGTATA
1 AATTAATAGTATA
13634264 AATTAATAGTAT
1 AATTAATAGTAT
13634276 TTTTATAAAT
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
AATTAATAGTATA
Found at i:13645998 original size:29 final size:28
Alignment explanation
Indices: 13645965--13646025 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
13645955 AAGTGCAACC
*
13645965 AATGAGAAAATAAATTAAAATGTAAATGT
1 AATGAGAAAATAAATT-AAATCTAAATGT
** * *
13645994 AATGAGTCAATAACTTTAATCTAAATGT
1 AATGAGAAAATAAATTAAATCTAAATGT
13646022 AATG
1 AATG
13646026 CAATGACAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (28 bp):
AATGAGAAAATAAATTAAATCTAAATGT
Found at i:13647029 original size:20 final size:21
Alignment explanation
Indices: 13646997--13647040 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
13646987 ACCCACATGC
*
13646997 AACAA-ACATATATTACGAATA
1 AACAACACATATA-TACAAATA
13647018 AACAACACATATATACAAATA
1 AACAACACATATATACAAATA
13647039 AA
1 AA
13647041 ATAAAATACG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.61, C:0.16, G:0.02, T:0.20
Consensus pattern (21 bp):
AACAACACATATATACAAATA
Found at i:13659470 original size:21 final size:20
Alignment explanation
Indices: 13659445--13659483 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
13659435 CATCAAGGTC
13659445 TTTGTTGAAGCCATGAAATCT
1 TTTGTTGAAGCCAT-AAATCT
*
13659466 TTTGTTGAGGCCATAAAT
1 TTTGTTGAAGCCATAAAT
13659484 TCCTGCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (20 bp):
TTTGTTGAAGCCATAAATCT
Found at i:13666007 original size:15 final size:15
Alignment explanation
Indices: 13665987--13666021 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13665977 TTTTTCCTAC
13665987 GATGCTCCCAACTTT
1 GATGCTCCCAACTTT
* *
13666002 GATGCTCTCAGCTTT
1 GATGCTCCCAACTTT
13666017 GATGC
1 GATGC
13666022 AATAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.29, G:0.20, T:0.34
Consensus pattern (15 bp):
GATGCTCCCAACTTT
Found at i:13681082 original size:21 final size:21
Alignment explanation
Indices: 13681052--13681091 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13681042 GTATTTTCCA
* *
13681052 TAAAACGGATGGATCCCTTGC
1 TAAAAAGGATCGATCCCTTGC
13681073 TAAAAAGGATCGATCCCTT
1 TAAAAAGGATCGATCCCTT
13681092 CCCTAAAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (21 bp):
TAAAAAGGATCGATCCCTTGC
Found at i:13681097 original size:22 final size:22
Alignment explanation
Indices: 13681047--13681098 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
13681037 TTTCTGTATT
* * *
13681047 TTCCATAAAACGGATGGATCCC
1 TTCCCTAAAAAGGATCGATCCC
*
13681069 TT-GCTAAAAAGGATCGATCCC
1 TTCCCTAAAAAGGATCGATCCC
13681090 TTCCCTAAA
1 TTCCCTAAA
13681099 GGATTGATCC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (22 bp):
TTCCCTAAAAAGGATCGATCCC
Found at i:13689588 original size:22 final size:23
Alignment explanation
Indices: 13689561--13689607 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
13689551 TGGTCATTAC
* *
13689561 ATATGATGCTTATCATGAAC-AT
1 ATATGATACTTAACATGAACGAT
*
13689583 ATATGATATTTAACATGAACGAT
1 ATATGATACTTAACATGAACGAT
13689606 AT
1 AT
13689608 TTTGGGTATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (23 bp):
ATATGATACTTAACATGAACGAT
Found at i:13698540 original size:24 final size:22
Alignment explanation
Indices: 13698497--13698540 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
13698487 TTAAAAGTCG
13698497 TATTTTAATTTTTCCCCTCCAT
1 TATTTTAATTTTTCCCCTCCAT
*
13698519 TATTTTCATCTTTTCCCGCTCC
1 TATTTTAAT-TTTTCCC-CTCC
13698541 TTCCCTCACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 7 0.37
24 4 0.21
ACGTcount: A:0.14, C:0.32, G:0.02, T:0.52
Consensus pattern (22 bp):
TATTTTAATTTTTCCCCTCCAT
Found at i:13702127 original size:54 final size:54
Alignment explanation
Indices: 13702019--13702127 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
13702009 ATTTTCTCCA
* **
13702019 TGCTAAATTGCATTGGCTTATTATTTGTACCATGCTTTTATACTGTTAGTTCTT
1 TGCTAAATTGCATTGGCTAATTATTTGTACCATGCTTTTATACTGTTAACTCTT
* * * **
13702073 TGCTAGATTGCATTGGGTAATTTTTTGTACCATGCTTTTATTTTGTTAACTCTT
1 TGCTAAATTGCATTGGCTAATTATTTGTACCATGCTTTTATACTGTTAACTCTT
13702127 T
1 T
13702128 AGTTGAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (54 bp):
TGCTAAATTGCATTGGCTAATTATTTGTACCATGCTTTTATACTGTTAACTCTT
Found at i:13703937 original size:85 final size:85
Alignment explanation
Indices: 13703836--13704058 Score: 272
Period size: 85 Copynumber: 2.6 Consensus size: 85
13703826 GTCTTTTTTA
* * * *
13703836 ATGACGTGTGCTTCAATGATACGCAATGTAAGTCATACATGTGTGTCATAAATTTATGACACACA
1 ATGACGGGAGCTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
13703901 AATGTATGTCAAGCAGATTT
66 AATGTATGTCAAGCAGATTT
* *
13703921 ATGACGGGAGCTTCAATGACGCTCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
1 ATGACGGGAGCTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
* *
13703986 AATGTGTGTC-ATCTTA-ATTT
66 AATGTATGTCAAGC--AGATTT
* * * * * *
13704006 ATGAC-GGATGCTTCAATGACGCTCAATGCACGTCATAAATGCGCGTCATAAAT
1 ATGACGGGA-GCTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAAT
13704059 GTGAGTCATA
Statistics
Matches: 123, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
84 5 0.04
85 117 0.95
86 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (85 bp):
ATGACGGGAGCTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
AATGTATGTCAAGCAGATTT
Found at i:13704052 original size:13 final size:13
Alignment explanation
Indices: 13704030--13704071 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
13704020 AATGACGCTC
*
13704030 AATGCACGTCATA
1 AATGCGCGTCATA
13704043 AATGCGCGTCATA
1 AATGCGCGTCATA
* *
13704056 AATGTGAGTCATA
1 AATGCGCGTCATA
13704069 AAT
1 AAT
13704072 TTATGACACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:13706249 original size:25 final size:25
Alignment explanation
Indices: 13706215--13706265 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
13706205 CAGAGGCCCC
13706215 CGTTGTGTTTGTATTAAAAATCTGG
1 CGTTGTGTTTGTATTAAAAATCTGG
*
13706240 CGTTGTGTTTGTATTGAAAATCTGG
1 CGTTGTGTTTGTATTAAAAATCTGG
13706265 C
1 C
13706266 ATCAATATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.43
Consensus pattern (25 bp):
CGTTGTGTTTGTATTAAAAATCTGG
Found at i:13709422 original size:20 final size:20
Alignment explanation
Indices: 13709397--13709567 Score: 99
Period size: 20 Copynumber: 7.7 Consensus size: 20
13709387 TAACTAAAAT
*
13709397 GCATGAATGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
13709417 GCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
* * *
13709443 TCATGAATGGATGCATTGAG
1 GCATGAAAGGATGCATTAAG
*
13709463 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
*
13709489 GCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
13709509 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
*
13709535 GCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
13709555 GCATGAAAGGATG
1 GCATGAAAGGATG
13709568 TCATAACTAA
Statistics
Matches: 116, Mismatches: 17, Indels: 36
0.69 0.10 0.21
Matches are distributed among these distances:
20 52 0.45
21 9 0.08
22 3 0.03
24 3 0.03
25 9 0.08
26 40 0.34
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.22
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:13709435 original size:46 final size:46
Alignment explanation
Indices: 13709364--13709688 Score: 515
Period size: 46 Copynumber: 7.1 Consensus size: 46
13709354 ATTATGTTAT
** *
13709364 CATTAAGGCATGAAAAAATGCCATAACTAAAATGCATGAATGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * *
13709410 CATTAAGGCATGAAAGGATGTCATAACTAAAATTCATGAATGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
*
13709456 CATTGAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
13709502 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* *
13709548 CATTAAGGCATGAAAGGATGTCATAACTAAAATGCATCAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * *
13709594 CATTAAGGTATGAAATGATGCCATAACTAAAATGCATCAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * *
13709640 CATTAAGTCCTGAAAGGATGCCATAACTAAAATGCATAAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
13709686 CAT
1 CAT
13709689 ACTAAAATTA
Statistics
Matches: 260, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 260 1.00
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.22
Consensus pattern (46 bp):
CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
Found at i:13723213 original size:47 final size:47
Alignment explanation
Indices: 13723162--13723335 Score: 159
Period size: 47 Copynumber: 3.5 Consensus size: 47
13723152 TGGAAAATGG
*
13723162 ATCTGCTCCACTCTTCTTCCAGGGAGATAAGATCCAAGGGAAGACGA
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAGGGAAGACGA
* * * * * *
13723209 ATCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGG
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGA-TC---CAA----GGGAAGACGA
* * * *
13723264 ATCTGCTCCACTCTTGTTTCAGGGAAATAAGATCCAAGCGAAGATGA
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAGGGAAGACGA
* *
13723311 ATCTACTCCACTCTTCTTTTAGGGA
1 ATCTGCTCCACTCTTCTTTCAGGGA
13723336 ATATCATACT
Statistics
Matches: 99, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
47 56 0.57
48 2 0.02
51 4 0.04
54 2 0.02
55 35 0.35
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (47 bp):
ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAGGGAAGACGA
Found at i:13723442 original size:83 final size:82
Alignment explanation
Indices: 13723303--13723514 Score: 228
Period size: 83 Copynumber: 2.6 Consensus size: 82
13723293 AGATCCAAGC
** * * * * * * * *
13723303 GAAGATGAATCTACTCCACTCTTCTTTTAGGGAATATCATACTTGATTTGTGCCTCTTTTTTGTA
1 GAAGATGTGTCTACTCCACTATTCATTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTCG-A
*
13723368 GTAGTCATATCAACTTTG
65 GTAGTCAGATCAACTTTG
*
13723386 GAAGATGTGTCTACTCCACTATTCATTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGG
1 GAAGATGTGTCTACTCCACTATTCATTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTCGAG
* *
13723451 TAGTCAGATTAATTTTG
66 TAGTCAGATCAACTTTG
* * * *
13723468 GAA-ATACGTGCCTTCTTCACTATTTATTCAGGGGAGATCAGACTTGA
1 GAAGAT--GTGTCTACTCCACTATTCATTCAGGGGAGATCAGACTTGA
13723515 GATTGATTTG
Statistics
Matches: 109, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
81 2 0.02
82 18 0.17
83 89 0.82
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (82 bp):
GAAGATGTGTCTACTCCACTATTCATTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTCGAG
TAGTCAGATCAACTTTG
Found at i:13723597 original size:89 final size:89
Alignment explanation
Indices: 13723500--13723851 Score: 535
Period size: 89 Copynumber: 4.0 Consensus size: 89
13723490 TTTATTCAGG
* ** * *
13723500 GGAGATCAGACTTGAGATTGATTTGCTTCACTACTCTTCTGTGAGGGCTAAATTTGAAATAAGAA
1 GGAGATCAGACTCGATCTTGATTTGCTTCACTACTCTTCCGTGAAGGCTAAATTTGAAATAAGAA
13723565 GAATATGTTCCACTACTCTTTAGT
66 GAATATGTTCCACTACTCTTTAGT
* * *
13723589 GGAGATCAGACTCGATCTTAATTTGCTTCACTAATCTTCCGTGAAGGCTAAATTTGAAACAAGAA
1 GGAGATCAGACTCGATCTTGATTTGCTTCACTACTCTTCCGTGAAGGCTAAATTTGAAATAAGAA
* ***
13723654 GAATATGTTACACTACTCTTCCTT
66 GAATATGTTCCACTACTCTTTAGT
* *
13723678 AGAGATCAGACTCGATCTTGATTTGCTTCACTACTCTTTCGTGAAGGCTAAATTTGAAATAAGAA
1 GGAGATCAGACTCGATCTTGATTTGCTTCACTACTCTTCCGTGAAGGCTAAATTTGAAATAAGAA
*
13723743 GAATTTGTTCCACTACTC-TTATGT
66 GAATATGTTCCACTACTCTTTA-GT
*
13723767 GGAGATTAGACTCGATCTTGATTTGCTTCACTACTCTTCCGTGAAGGCTAAATTTGAAATAAGAA
1 GGAGATCAGACTCGATCTTGATTTGCTTCACTACTCTTCCGTGAAGGCTAAATTTGAAATAAGAA
*
13723832 GAATTTGTTCCACTACTCTT
66 GAATATGTTCCACTACTCTT
13723852 CCGTAGACTT
Statistics
Matches: 236, Mismatches: 25, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
88 1 0.00
89 234 0.99
90 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (89 bp):
GGAGATCAGACTCGATCTTGATTTGCTTCACTACTCTTCCGTGAAGGCTAAATTTGAAATAAGAA
GAATATGTTCCACTACTCTTTAGT
Found at i:13724069 original size:67 final size:67
Alignment explanation
Indices: 13723945--13724109 Score: 208
Period size: 67 Copynumber: 2.5 Consensus size: 67
13723935 ATTAAATTGG
* * * * *
13723945 AAAGATTGAATTCTCTTAATGAGGAAGTCAATGATTGACTCCTCTTCAGGAGGGAGTCAGGAATA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTAACTCCTCTTCAGGAGGGAGTCAGGAATA
13724010 ACA
66 A-A
*
13724013 AAAG-TTGACTTCTCTTCACGAGGAAGTCAAGGATTAACTCCTCTTC-GCGAGTGAGTCAGGAAT
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTAACTCCTCTTCAG-GAGGGAGTCAGGAAT
*
13724076 AAG
65 AAA
* * *
13724079 AAAGACTGACTTCTCTTCTCAAGGAAGTCAA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAA
13724110 TAATAAAAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
66 5 0.06
67 76 0.89
68 4 0.05
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.26
Consensus pattern (67 bp):
AAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTAACTCCTCTTCAGGAGGGAGTCAGGAATA
AA
Found at i:13724311 original size:63 final size:61
Alignment explanation
Indices: 13724172--13724319 Score: 208
Period size: 63 Copynumber: 2.4 Consensus size: 61
13724162 GGGGAGTCAA
* *
13724172 AAATAACAAAGATTGACTTATCTTGACAAAGAAGTCAATGATTGCTCTACTAGAGAGATAG
1 AAATAACAAAGATTGACTTCTCTTGACAAAAAAGTCAATGATTGCTCTACTAGAGAGATAG
* *
13724233 AAATAACAAATATTGACTTCTCTTGACAAAAAAAGTCAATGATTGACTCTACTAGGGAG-TCAG
1 AAATAACAAAGATTGACTTCTCTTGAC-AAAAAAGTCAATGATTG-CTCTACTAGAGAGAT-AG
**
13724296 GGATAACAAAGATTGACTTCTCTT
1 AAATAACAAAGATTGACTTCTCTT
13724320 CATGAGGAAG
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
61 25 0.32
62 17 0.22
63 35 0.45
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.28
Consensus pattern (61 bp):
AAATAACAAAGATTGACTTCTCTTGACAAAAAAGTCAATGATTGCTCTACTAGAGAGATAG
Found at i:13724333 original size:62 final size:62
Alignment explanation
Indices: 13724121--13724395 Score: 247
Period size: 62 Copynumber: 4.4 Consensus size: 62
13724111 AATAAAAATT
* * * * *
13724121 ATTGACTTCTCTTGATGAGGGAGTCAAAT-ATAT-ACTCTATTGGGGAGTCAAAAATAACAAAG
1 ATTGACTTCTCTTCATGAGGAAGTC-AATGAT-TGACTCTACTAGGGAGTCAGAAATAACAAAG
* * ** * * *
13724183 ATTGACTTATCTTGACAAAGAAGTCAATGATTG-CTCTACTAGAGAGAT-AGAAATAACAAAT
1 ATTGACTTCTCTTCATGAGGAAGTCAATGATTGACTCTACTAGGGAG-TCAGAAATAACAAAG
* ** **
13724244 ATTGACTTCTCTTGACA-AAAAAAGTCAATGATTGACTCTACTAGGGAGTCAGGGATAACAAAG
1 ATTGACTTCTCTT--CATGAGGAAGTCAATGATTGACTCTACTAGGGAGTCAGAAATAACAAAG
* * * *
13724307 ATTGACTTCTCTTCATGAGGAAGTCAAGGGTTGACTCTAAT-GAGGAGTCAGAAATAACACAG
1 ATTGACTTCTCTTCATGAGGAAGTCAATGATTGACTCTACTAG-GGAGTCAGAAATAACAAAG
* *
13724369 GTTGACTTCTCTTAATGAGGAAGTCAA
1 ATTGACTTCTCTTCATGAGGAAGTCAA
13724396 GAATAACAAA
Statistics
Matches: 176, Mismatches: 28, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
61 40 0.23
62 100 0.57
63 36 0.20
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.28
Consensus pattern (62 bp):
ATTGACTTCTCTTCATGAGGAAGTCAATGATTGACTCTACTAGGGAGTCAGAAATAACAAAG
Found at i:13724401 original size:38 final size:39
Alignment explanation
Indices: 13724344--13724434 Score: 125
Period size: 38 Copynumber: 2.4 Consensus size: 39
13724334 GGGTTGACTC
*
13724344 TAATGAGG-AGTC-AGAAATAACACAGGTTGACTTCTCT
1 TAATGAGGAAGTCAAGAAATAACAAAGGTTGACTTCTCT
13724381 TAATGAGGAAGTCAAG-AATAACAAAGGTTGACTTCTCT
1 TAATGAGGAAGTCAAGAAATAACAAAGGTTGACTTCTCT
* * *
13724419 TCACGAAGAAGTCAAG
1 TAATGAGGAAGTCAAG
13724435 GGTTGACTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
37 8 0.17
38 38 0.79
39 2 0.04
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.24
Consensus pattern (39 bp):
TAATGAGGAAGTCAAGAAATAACAAAGGTTGACTTCTCT
Found at i:13724439 original size:29 final size:29
Alignment explanation
Indices: 13724406--13724504 Score: 85
Period size: 29 Copynumber: 3.3 Consensus size: 29
13724396 GAATAACAAA
13724406 GGTTGACTTCTCTTCACGAAGAAGTCAAG
1 GGTTGACTTCTCTTCACGAAGAAGTCAAG
** * *
13724435 GGTTGAC-TCTACTGGA-GAGTCAGAAATAACAAC
1 GGTTGACTTCT-CTTCACGA---AGAAGT--CAAG
*
13724468 GGTTGACTTCTCTTCACGAGGAAGTCAAG
1 GGTTGACTTCTCTTCACGAAGAAGTCAAG
13724497 GGTTGACT
1 GGTTGACT
13724505 CTATTGAGGA
Statistics
Matches: 53, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
28 5 0.09
29 21 0.40
31 9 0.17
33 13 0.25
34 5 0.09
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (29 bp):
GGTTGACTTCTCTTCACGAAGAAGTCAAG
Found at i:13724463 original size:100 final size:100
Alignment explanation
Indices: 13724298--13724496 Score: 312
Period size: 100 Copynumber: 2.0 Consensus size: 100
13724288 GGAGTCAGGG
* *
13724298 ATAACAAAGATTGACTTCTCTTCATGAGGAAGTCAAGGGTTGACTCTAATGAGGAGTCAGAAATA
1 ATAACAAAGATTGACTTCTCTTCACGAAGAAGTCAAGGGTTGACTCTAATGAGGAGTCAGAAATA
*
13724363 AC-ACAGGTTGACTTCTCTTAATGAGGAAGTCAAGA
66 ACAAC-GGTTGACTTCTCTTAACGAGGAAGTCAAGA
* *
13724398 ATAACAAAGGTTGACTTCTCTTCACGAAGAAGTCAAGGGTTGACTCTACTG-GAGAGTCAGAAAT
1 ATAACAAAGATTGACTTCTCTTCACGAAGAAGTCAAGGGTTGACTCTAATGAG-GAGTCAGAAAT
*
13724462 AACAACGGTTGACTTCTCTTCACGAGGAAGTCAAG
65 AACAACGGTTGACTTCTCTTAACGAGGAAGTCAAG
13724497 GGTTGACTCT
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
99 1 0.01
100 88 0.97
101 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (100 bp):
ATAACAAAGATTGACTTCTCTTCACGAAGAAGTCAAGGGTTGACTCTAATGAGGAGTCAGAAATA
ACAACGGTTGACTTCTCTTAACGAGGAAGTCAAGA
Found at i:13724466 original size:162 final size:163
Alignment explanation
Indices: 13724234--13724557 Score: 463
Period size: 162 Copynumber: 2.0 Consensus size: 163
13724224 GAGAGATAGA
* * * **
13724234 AATAACAAATATTGACTTCTCTTGACAAAAAAAGTCAATGATTGACTCTACTAGGGAGTCAGGGA
1 AATAACAAAGATTGACTTCTCTTCACAAAAAAAGTCAAGGATTGACTCTACTAGGGAGTCAGAAA
*
13724299 TAACAAAGATTGACTTCTCTTCATGAGGAAGTCAAGGGTTGACTCTAATGAGGAGTCAGAAATAA
66 TAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTAATGAGGAGTCAGAAATAA
* *
13724364 CACAGGTTGACTTCTCTTAATGAGGAAGTCAAG
131 CAAAGATTGACTTCTCTTAATGAGGAAGTCAAG
* * * *
13724397 AATAACAAAGGTTGACTTCTCTTCAC-GAAGAAGTCAAGGGTTGACTCTACT-GGAGAGTCAGAA
1 AATAACAAAGATTGACTTCTCTTCACAAAAAAAGTCAAGGATTGACTCTACTAGG-GAGTCAGAA
* * * *
13724460 ATAACAACGGTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTATTGAGGAGTCATAAATA
65 ATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTAATGAGGAGTCAGAAATA
* *
13724525 ACAAAGATTTATTTCTCTTAATGAGGAAGTCAA
130 ACAAAGATTGACTTCTCTTAATGAGGAAGTCAA
13724558 AGATTGACTC
Statistics
Matches: 142, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
161 2 0.01
162 117 0.82
163 23 0.16
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (163 bp):
AATAACAAAGATTGACTTCTCTTCACAAAAAAAGTCAAGGATTGACTCTACTAGGGAGTCAGAAA
TAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTAATGAGGAGTCAGAAATAA
CAAAGATTGACTTCTCTTAATGAGGAAGTCAAG
Found at i:13724554 original size:124 final size:125
Alignment explanation
Indices: 13724384--13724619 Score: 334
Period size: 124 Copynumber: 1.9 Consensus size: 125
13724374 CTTCTCTTAA
* * * *
13724384 TGAGGAAGTCAAGAATAACAAAGGTTGACTTCTCTTCACGAAGAAGTCAAGGGTTGACTCTAC-T
1 TGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTAACGAAGAAGTCAAAGATTGACTCTACTT
* *
13724448 GGAGAGTCAGAAATAACAACGGTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTAT
66 GG-GAGTCAGAAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTAT
* * * *
13724509 TGAGG-AGTCATA-AATAACAAAGATTTATTTCTCTTAATGAGGAAGTCAAAGATTGACTCTACT
1 TGAGGAAGTCA-AGAATAACAAAGATTGACTTCTCTTAACGAAGAAGTCAAAGATTGACTCTACT
*
13724572 TGGGAGTCAGAAATAACAAAGATTGACTTCTCTTGACGAGGAAGTCAA
65 TGGGAGTCAGAAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAA
13724620 ACATTACAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
124 89 0.91
125 9 0.09
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (125 bp):
TGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTAACGAAGAAGTCAAAGATTGACTCTACTT
GGGAGTCAGAAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTAT
Found at i:13724557 original size:286 final size:288
Alignment explanation
Indices: 13723945--13724619 Score: 697
Period size: 286 Copynumber: 2.3 Consensus size: 288
13723935 ATTAAATTGG
13723945 AAAGATTGAATTCTCTTAATGAGGAAGTCAATGATTGACTCCT-CTTCAGGAGGGAGTCAGGAAT
1 AAAGATTGAATTCTCTTAATGAGGAAGTCAATGATTGACT-CTAC-T----AGGGAGTCAGGAAT
** *
13724009 AACAAA-AGTTGACTTCTCTTCACGAGGAAGTCAAGGATTAACTCCTCTTCGCGAGTGAGTCAGG
60 AACAAAGA-TTGACTTCTCTTCACGAGGAAGTCAAGGATTAACTCCTAAT--CGAGTGAGTCAGA
* * * * * *
13724073 AATAAGAAAGACTGACTTCTCTTCTCAAGGAAGTCAATAATAAAAATTATTGACTTCTCTTGATG
122 AATAACAAAGACTGACTTCTCTTATCAAGGAAGTCAAGAATAAAAATGATTGACTTCTCTTCACG
* * * * * *
13724138 AGGGAGTCAAATATATACTCTATTGGGGAGTCAAAAATAACAAAGATTGACTTATCTTGACAAAG
187 AAGAAGTCAAAGATATACTCTACTGGAGAGTCAAAAATAACAAAGATTGACTTATCTTCACAAAG
*
13724203 AAGTCAATGATTGCTCTACTAGAGAGATAGAAATAAC
252 AAGTCAAGGATTGCTCTACTAGAGAGATAGAAATAAC
* * * ** *
13724240 AAATATTGACTTCTCTTGACA-AAAAAAGTCAATGATTGACTCTACTAGGGAGTCAGGGATAACA
1 AAAGATTGAATTCTCTT-A-ATGAGGAAGTCAATGATTGACTCTACTAGGGAGTCAGGAATAACA
* * *
13724304 AAGATTGACTTCTCTTCATGAGGAAGTCAAGGGTTGACT-CTAAT-GAG-GAGTCAGAAATAACA
64 AAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTAACTCCTAATCGAGTGAGTCAGAAATAACA
* ** * *
13724366 CAGGTTGACTTCTCTTAAT-GAGGAAGTCAAGAATAACAAA-GGTTGACTTCTCTTCACGAAGAA
129 AAGACTGACTTCTCTT-ATCAAGGAAGTCAAGAATAA-AAATGATTGACTTCTCTTCACGAAGAA
* * * * * * * *
13724429 GTCAAGGGT-TGACTCTACTGGAGAGTCAGAAATAACAACGGTTGACTTCTCTTCACGAGGAAGT
192 GTCAAAGATAT-ACTCTACTGGAGAGTCAAAAATAACAAAGATTGACTTATCTTCACAAAGAAGT
* * *
13724493 CAAGGGTTGACTCTA-TTGAG-GAGTCATAAATAAC
256 CAAGGATTG-CTCTACTAGAGAGA-T-AGAAATAAC
* * * * *
13724527 AAAGATTTATTTCTCTTAATGAGGAAGTCAAAGATTGACTCTACTTGGGAGTCAGAAATAACAAA
1 AAAGATTGAATTCTCTTAATGAGGAAGTCAATGATTGACTCTACTAGGGAGTCAGGAATAACAAA
*
13724592 GATTGACTTCTCTTGACGAGGAAGTCAA
66 GATTGACTTCTCTTCACGAGGAAGTCAA
13724620 ACATTACAAA
Statistics
Matches: 316, Mismatches: 53, Indels: 31
0.79 0.13 0.08
Matches are distributed among these distances:
285 4 0.01
286 185 0.59
287 34 0.11
290 3 0.01
291 51 0.16
292 1 0.00
295 18 0.06
296 19 0.06
297 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (288 bp):
AAAGATTGAATTCTCTTAATGAGGAAGTCAATGATTGACTCTACTAGGGAGTCAGGAATAACAAA
GATTGACTTCTCTTCACGAGGAAGTCAAGGATTAACTCCTAATCGAGTGAGTCAGAAATAACAAA
GACTGACTTCTCTTATCAAGGAAGTCAAGAATAAAAATGATTGACTTCTCTTCACGAAGAAGTCA
AAGATATACTCTACTGGAGAGTCAAAAATAACAAAGATTGACTTATCTTCACAAAGAAGTCAAGG
ATTGCTCTACTAGAGAGATAGAAATAAC
Found at i:13724620 original size:62 final size:62
Alignment explanation
Indices: 13724397--13724620 Score: 299
Period size: 62 Copynumber: 3.6 Consensus size: 62
13724387 GGAAGTCAAG
* * *
13724397 AATAACAAAGGTTGACTTCTCTTCACGAAGAAGTCAAGGGTTGACTCTAC-TGGAGAGTCAGA
1 AATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAAGGTTGACTCTACTTGG-GAGTCAGA
* * * *
13724459 AATAACAACGGTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTA-TTGAGGAGTCATA
1 AATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAAGGTTGACTCTACTTG-GGAGTCAGA
* * * * *
13724521 AATAACAAAGATTTATTTCTCTTAATGAGGAAGTCAAAGATTGACTCTACTTGGGAGTCAGA
1 AATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAAGGTTGACTCTACTTGGGAGTCAGA
*
13724583 AATAACAAAGATTGACTTCTCTTGACGAGGAAGTCAAA
1 AATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAA
13724621 CATTACAAAT
Statistics
Matches: 143, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
62 139 0.97
63 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (62 bp):
AATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAAGGTTGACTCTACTTGGGAGTCAGA
Found at i:13724656 original size:224 final size:223
Alignment explanation
Indices: 13724166--13724658 Score: 589
Period size: 224 Copynumber: 2.2 Consensus size: 223
13724156 TCTATTGGGG
* * * *
13724166 AGTCAAAAATAACAAAGATTGACTTATCTTGACAAAGAAGTCAATGATTGCTCTACTAGAGAGAT
1 AGTC-AAAATAACAAAGATTGACTTCTCTTCACGAAGAAGTCAAGGATTGCTCTACTAGAGAGAT
* * *
13724231 AGAAATAACAAATATTGACTTCTCTTGACAAAAAAAGTCAATGATTGACTCTACTAGGGAGTCAG
65 AGAAATAACAAAGATTGACTTCTCTTCACAAAAAAAGTCAAGGATTGACTCTACTAGGGAGTCAG
** * * *
13724296 GGATAACAAAGATTGACTTCTCTTCATGAGGAAGTCAAGGGTTGACTCTAATGAGGAGTCAGAAA
130 AAATAACAAAGATTGACTTCTCTTAATGAGGAAGTCAAAGATTGACTCTAATGAGGAGTCAGAAA
* * *
13724361 TAACACAGGTTGACTTCTCTTAATGAGGA
195 TAACAAAGATTGACTTCTCTTAACGAGGA
* * *
13724390 AGTCAAGAATAACAAAGGTTGACTTCTCTTCACGAAGAAGTCAAGGGTTGACTCTACTGGAGAG-
1 AGTCAA-AATAACAAAGATTGACTTCTCTTCACGAAGAAGTCAAGGATTG-CTCTACTAGAGAGA
* * * ** * *
13724454 TCAGAAATAACAACGGTTGACTTCTCTTCAC-GAGGAAGTCAAGGGTTGACTCTA-TTGAGGAGT
64 T-AGAAATAACAAAGATTGACTTCTCTTCACAAAAAAAGTCAAGGATTGACTCTACTAG-GGAGT
* * * *
13724517 CATAAATAACAAAGATTTATTTCTCTTAATGAGGAAGTCAAAGATTGACTCTACTTG-GGAGTCA
127 CAGAAATAACAAAGATTGACTTCTCTTAATGAGGAAGTCAAAGATTGACTCTA-ATGAGGAGTCA
*
13724581 GAAATAACAAAGATTGACTTCTCTTGACGAGGA
191 GAAATAACAAAGATTGACTTCTCTTAACGAGGA
* * * *
13724614 AGTCAAACATTACAAATATTGACTTCTCTTCATGAGGAAGTCAAG
1 AGTCAAA-ATAACAAAGATTGACTTCTCTTCACGAAGAAGTCAAG
13724659 AATAACAAAA
Statistics
Matches: 228, Mismatches: 35, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
223 5 0.02
224 184 0.81
225 39 0.17
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.27
Consensus pattern (223 bp):
AGTCAAAATAACAAAGATTGACTTCTCTTCACGAAGAAGTCAAGGATTGCTCTACTAGAGAGATA
GAAATAACAAAGATTGACTTCTCTTCACAAAAAAAGTCAAGGATTGACTCTACTAGGGAGTCAGA
AATAACAAAGATTGACTTCTCTTAATGAGGAAGTCAAAGATTGACTCTAATGAGGAGTCAGAAAT
AACAAAGATTGACTTCTCTTAACGAGGA
Found at i:13724815 original size:38 final size:38
Alignment explanation
Indices: 13724584--13724815 Score: 230
Period size: 38 Copynumber: 6.1 Consensus size: 38
13724574 GGAGTCAGAA
* **
13724584 ATAACAAAGATTGACTTCTCTTGACGAGGAAGTCAAAC
1 ATAACAAAGATTGACTTCTCTTTACGAGGAAGTCAAGG
* * * * *
13724622 ATTACAAATATTGACTTCTCTTCATGAGGAAGTCAAGA
1 ATAACAAAGATTGACTTCTCTTTACGAGGAAGTCAAGG
* * *
13724660 ATAACAAAAATTGACTTCTATTTACGAGGAAGTCAAGT
1 ATAACAAAGATTGACTTCTCTTTACGAGGAAGTCAAGG
* * *
13724698 ATTGACAAAGGTTAACTTCTCTTTACGAGGAAGTCAAGG
1 A-TAACAAAGATTGACTTCTCTTTACGAGGAAGTCAAGG
* ** *
13724737 ATAATTAAAGGCTAACTTCTCTTTACGAGGAAGTCAAGG
1 ATAA-CAAAGATTGACTTCTCTTTACGAGGAAGTCAAGG
* * * * **
13724776 ATAATAAATATTGACTTTTCTTCATAAGGAAGTCAAGG
1 ATAACAAAGATTGACTTCTCTTTACGAGGAAGTCAAGG
13724814 AT
1 AT
13724816 TAACTCTAGG
Statistics
Matches: 163, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
38 95 0.58
39 68 0.42
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (38 bp):
ATAACAAAGATTGACTTCTCTTTACGAGGAAGTCAAGG
Found at i:13725660 original size:20 final size:21
Alignment explanation
Indices: 13725623--13725661 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
13725613 TCAACCAGAT
13725623 GAGCTCTTTGCATAGTGTTTA
1 GAGCTCTTTGCATAGTGTTTA
* *
13725644 GAGCT-TTTGTATGGTGTT
1 GAGCTCTTTGCATAGTGTT
13725662 ACATAGACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.15, C:0.10, G:0.28, T:0.46
Consensus pattern (21 bp):
GAGCTCTTTGCATAGTGTTTA
Found at i:13730980 original size:45 final size:45
Alignment explanation
Indices: 13730884--13731179 Score: 434
Period size: 45 Copynumber: 6.6 Consensus size: 45
13730874 ACATCCATTC
* * * *
13730884 ATGTTTATAATGTA-CCATTATGCATTTTCGACTTTAGCATACTTTT
1 ATGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGCATACTTTT
13730930 ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
13730975 ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
* * *
13731020 ATGTTAATAATGCA-CCATATACATTTCAACTATAGCATATTTTT
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
**
13731064 ATGTTGATAATGCACCCATATGCATTTCAACTATATTATACTTTT
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
* * *
13731109 ATGTTGATAATGCACCCATATGCATTTCAACTATGGCATCCTTTC
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
**
13731154 ATGCCGATAATGCACCCATATGCATT
1 ATGTTGATAATGCACCCATATGCATT
13731180 ATTATCTTGG
Statistics
Matches: 229, Mismatches: 19, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
44 41 0.18
45 167 0.73
46 18 0.08
47 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (45 bp):
ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
Found at i:13731064 original size:89 final size:90
Alignment explanation
Indices: 13730884--13731179 Score: 434
Period size: 89 Copynumber: 3.3 Consensus size: 90
13730874 ACATCCATTC
* * * *
13730884 ATGTTTATAATGTA-CCATTATGCATTTTCGACTTTAGCATACTTTTATGTTGATAATGCACCCA
1 ATGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGCATACTTTTATGTTGATAATGCACCCA
13730948 TATGCATTTCAACTATAGCATACTTTT
64 TATGCATTTCAACTATAGCATACTTTT
*
13730975 ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTATGTTAATAATGCA-CCATA
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGCACCCATA
* *
13731039 TACATTTCAACTATAGCATATTTTT
66 TGCATTTCAACTATAGCATACTTTT
**
13731064 ATGTTGATAATGCACCCATATGCATTTCAACTATATTATACTTTTATGTTGATAATGCACCCATA
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGCACCCATA
* * *
13731129 TGCATTTCAACTATGGCATCCTTTC
66 TGCATTTCAACTATAGCATACTTTT
**
13731154 ATGCCGATAATGCACCCATATGCATT
1 ATGTTGATAATGCACCCATATGCATT
13731180 ATTATCTTGG
Statistics
Matches: 186, Mismatches: 17, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
89 84 0.45
90 81 0.44
91 18 0.10
92 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (90 bp):
ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGCACCCATA
TGCATTTCAACTATAGCATACTTTT
Found at i:13731105 original size:134 final size:134
Alignment explanation
Indices: 13730881--13731179 Score: 445
Period size: 134 Copynumber: 2.2 Consensus size: 134
13730871 ATAACATCCA
* * * *
13730881 TTCATGTTTATAATGTACCATTATGCATTTTCGACTTTAGCATACTTTTATGTTGATAATGCACC
1 TTCATGTTAATAATGCACCA-TATGCA-TTTCAACTATAGCATACTTTTATGTTGATAATGCACC
13730946 CATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAG
64 CATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAG
13731011 CATACT
129 CATACT
* * *
13731017 TTTATGTTAATAATGCACCATATACATTTCAACTATAGCATATTTTTATGTTGATAATGCACCCA
1 TTCATGTTAATAATGCACCATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGCACCCA
** *
13731082 TATGCATTTCAACTATATTATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATGGCA
66 TATGCATTTCAACTATAGCATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGCA
*
13731147 TCCT
131 TACT
***
13731151 TTCATGCCGATAATGCACCCATATGCATT
1 TTCATGTTAATAATGCA-CCATATGCATT
13731180 ATTATCTTGG
Statistics
Matches: 146, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
134 114 0.78
135 15 0.10
136 17 0.12
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (134 bp):
TTCATGTTAATAATGCACCATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGCACCCA
TATGCATTTCAACTATAGCATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGCA
TACT
Found at i:13731191 original size:45 final size:45
Alignment explanation
Indices: 13731114--13731274 Score: 227
Period size: 45 Copynumber: 3.6 Consensus size: 45
13731104 CTTTTATGTT
* *
13731114 GATAATGCACCCATATGCATT-TCAACTATGGCATCCTTTCATGCC
1 GATAATGCACCCATATGCATTATTATCT-TGGCATCCTTTCATGCC
*
13731159 GATAATGCACCCATATGCATTATTATCTTGGCATCCTTTCATACC
1 GATAATGCACCCATATGCATTATTATCTTGGCATCCTTTCATGCC
* * *
13731204 AATAATGCACCCATATGGATTATTATTTTGGCATCCTTTCATGCC
1 GATAATGCACCCATATGCATTATTATCTTGGCATCCTTTCATGCC
*
13731249 -ATTAATGCACCCATATGCACTATTAT
1 GA-TAATGCACCCATATGCATTATTAT
13731275 TTTCATTCAT
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
44 1 0.01
45 100 0.95
46 4 0.04
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (45 bp):
GATAATGCACCCATATGCATTATTATCTTGGCATCCTTTCATGCC
Found at i:13731209 original size:90 final size:90
Alignment explanation
Indices: 13730902--13731267 Score: 398
Period size: 90 Copynumber: 4.1 Consensus size: 90
13730892 AATGTACCAT
* * *
13730902 TATGCATTTTCGACTTTAGCATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGC
1 TATGCA-TTTCAACTATAGCATACTTTTATGTTAATAATGCACCCATATGCATTTCAACTATAGC
* **
13730967 ATACTTTTATGTTGATAATGCACCCA
65 ATACTTTCATGCCGATAATGCACCCA
*
13730993 TATGCATTTCAACTATAGCATACTTTTATGTTAATAATGCA-CCATATACATTTCAACTATAGCA
1 TATGCATTTCAACTATAGCATACTTTTATGTTAATAATGCACCCATATGCATTTCAACTATAGCA
* * **
13731057 TATTTTTATGTTGATAATGCACCCA
66 TACTTTCATGCCGATAATGCACCCA
** * *
13731082 TATGCATTTCAACTATATTATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATGGCA
1 TATGCATTTCAACTATAGCATACTTTTATGTTAATAATGCACCCATATGCATTTCAACTATAGCA
*
13731147 TCCTTTCATGCCGATAATGCACCCA
66 TACTTTCATGCCGATAATGCACCCA
* * * * * *** * * * * *
13731172 TATGCATTATTATCT-TGGCATCCTTTCATACCAATAATGCACCCATATGGATTAT-TATTTTGG
1 TATGCATT-TCAACTATAGCATACTTTTATGTTAATAATGCACCCATATGCATT-TCAACTATAG
*
13731235 CATCCTTTCATGCC-ATTAATGCACCCA
64 CATACTTTCATGCCGA-TAATGCACCCA
13731262 TATGCA
1 TATGCA
13731268 CTATTATTTT
Statistics
Matches: 241, Mismatches: 30, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
89 85 0.35
90 145 0.60
91 11 0.05
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (90 bp):
TATGCATTTCAACTATAGCATACTTTTATGTTAATAATGCACCCATATGCATTTCAACTATAGCA
TACTTTCATGCCGATAATGCACCCA
Found at i:13731727 original size:22 final size:22
Alignment explanation
Indices: 13731695--13731738 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13731685 GTATCAATAC
*
13731695 CCATACCATGGTATCGATACTA
1 CCATACCATGGTACCGATACTA
*
13731717 CCATACTATGGTACCGATACTA
1 CCATACCATGGTACCGATACTA
13731739 GGCTATGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (22 bp):
CCATACCATGGTACCGATACTA
Found at i:13731818 original size:19 final size:19
Alignment explanation
Indices: 13731781--13731830 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
13731771 TTTTTAAATG
*
13731781 GTATCGATACATTCCCTTCA
1 GTATCGATAC-TCCCCTTCA
*
13731801 GTATCGATACTCCCCTTCG
1 GTATCGATACTCCCCTTCA
*
13731820 GTATCAATACT
1 GTATCGATACT
13731831 ACTAAGCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.24, C:0.30, G:0.12, T:0.34
Consensus pattern (19 bp):
GTATCGATACTCCCCTTCA
Found at i:13734951 original size:17 final size:16
Alignment explanation
Indices: 13734910--13734951 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
13734900 AAATACCTTT
13734910 TAAAATAATTTTAAGA
1 TAAAATAATTTTAAGA
13734926 -AAAATAATTTTAAAAGA
1 TAAAATAATTTT--AAGA
13734943 TAAAA-AATT
1 TAAAATAATT
13734952 GATCTGCGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 11 0.48
17 8 0.35
18 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (16 bp):
TAAAATAATTTTAAGA
Found at i:13736201 original size:3 final size:3
Alignment explanation
Indices: 13736195--13736221 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13736185 AATTATTATT
13736195 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
13736222 ATATATGGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13738308 original size:63 final size:63
Alignment explanation
Indices: 13738128--13738335 Score: 212
Period size: 64 Copynumber: 3.3 Consensus size: 63
13738118 TTTATCAAAG
*
13738128 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATGC
1 TGATGCATCGATGCACC-ATCCATGCATCGATGCACTC-TGATATT---TTGAAACATCGAATGC
13738190 ATT
61 ATT
* * **
13738193 TCATGCATCGATGCA-CATACATGCATCGATGCACTAAGGAT-TTTATGAAAACATC-AATGCAT
1 TGATGCATCGATGCACCATCCATGCATCGATGCACT-CTGATATTT-TG-AAACATCGAATGCAT
13738255 T
63 T
* * *
13738256 TGATGCATCGATGCACCAGCCATGAATCGATGCACTCTGACTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCACCATCCATGCATCGATGCACTCTGA-TATTTTGAAACATCGAATGCATT
*
13738320 TGATGCATCAATGCAC
1 TGATGCATCGATGCAC
13738336 TCTTAGTGCA
Statistics
Matches: 120, Mismatches: 13, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
61 1 0.01
62 2 0.02
63 48 0.40
64 53 0.44
65 16 0.13
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (63 bp):
TGATGCATCGATGCACCATCCATGCATCGATGCACTCTGATATTTTGAAACATCGAATGCATT
Found at i:13738352 original size:19 final size:19
Alignment explanation
Indices: 13738330--13738374 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
13738320 TGATGCATCA
13738330 ATGCACTCTTAGTGCACCG
1 ATGCACTCTTAGTGCACCG
13738349 ATGCACTCTTAGTGCACCG
1 ATGCACTCTTAGTGCACCG
13738368 ATGCACT
1 ATGCACT
13738375 AAGGGTCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (19 bp):
ATGCACTCTTAGTGCACCG
Found at i:13743743 original size:44 final size:42
Alignment explanation
Indices: 13743649--13743743 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 42
13743639 TTGTGCTTCA
* *
13743649 TGCATCGATACACCTAACAGTGCATCGATGCATCCTTTAATG
1 TGCATCGATACACCTAACAGTGCACCGATGCATCCTTGAATG
* *
13743691 TACATCGATACACCATGA-AGATGCACCGATGCATGCCTTGAATG
1 TGCATCGATACACC-TAACAG-TGCACCGATGCAT-CCTTGAATG
13743735 TGCATCGAT
1 TGCATCGAT
13743744 GCATCCATCG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
42 15 0.33
43 14 0.31
44 16 0.36
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (42 bp):
TGCATCGATACACCTAACAGTGCACCGATGCATCCTTGAATG
Found at i:13746388 original size:45 final size:46
Alignment explanation
Indices: 13746329--13746436 Score: 116
Period size: 46 Copynumber: 2.4 Consensus size: 46
13746319 TGCACCAATC
*
13746329 CATGCATCGTTGCACCATGA-ATTAAATTG-AACATCGAATGCATTT
1 CATGCATCGATGCACCATGAGATTAAA-TGAAACATCGAATGCATTT
**
13746374 CATGCATCGATGCA-C-TGAGGATTTTATGAAAACATCGAATGCATTT
1 CATGCATCGATGCACCATGA-GATTAAATG-AAACATCGAATGCATTT
* *
13746420 GATGCATCGATTCACCA
1 CATGCATCGATGCACCA
13746437 GCCATGCATC
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
43 3 0.06
44 3 0.06
45 17 0.33
46 28 0.54
47 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (46 bp):
CATGCATCGATGCACCATGAGATTAAATGAAACATCGAATGCATTT
Found at i:13746755 original size:11 final size:11
Alignment explanation
Indices: 13746739--13746774 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
13746729 ACAATCAACA
13746739 AGAATCAAGAG
1 AGAATCAAGAG
13746750 AGAATCAAGAG
1 AGAATCAAGAG
13746761 AGAATCAA-AG
1 AGAATCAAGAG
13746771 AGAA
1 AGAA
13746775 AGCATCAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.58, C:0.08, G:0.25, T:0.08
Consensus pattern (11 bp):
AGAATCAAGAG
Found at i:13746756 original size:21 final size:21
Alignment explanation
Indices: 13746731--13746774 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
13746721 AAGAAACAAC
13746731 AATCAACA-AGAATCAAGAGAG
1 AATCAACAGAGAATCAA-AGAG
*
13746752 AATCAAGAGAGAATCAAAGAG
1 AATCAACAGAGAATCAAAGAG
13746773 AA
1 AA
13746775 AGCATCAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.59, C:0.11, G:0.20, T:0.09
Consensus pattern (21 bp):
AATCAACAGAGAATCAAAGAG
Found at i:13749485 original size:14 final size:14
Alignment explanation
Indices: 13749466--13749525 Score: 56
Period size: 14 Copynumber: 4.6 Consensus size: 14
13749456 AATATGTTTG
13749466 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
* *
13749480 TTTATGTCCGTTCG
1 TTTATGTTCGTTCA
13749494 TTTATG-T--TT-A
1 TTTATGTTCGTTCA
* *
13749504 TTTATGTGCATTCA
1 TTTATGTTCGTTCA
13749518 TTTATGTT
1 TTTATGTT
13749526 TATTACAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
10 6 0.17
11 2 0.06
13 2 0.06
14 26 0.72
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (14 bp):
TTTATGTTCGTTCA
Found at i:13749506 original size:24 final size:24
Alignment explanation
Indices: 13749479--13749529 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
13749469 ATGTTCGTTC
* *
13749479 ATTTATGTCCGTTCGTTTATGTTT
1 ATTTATGTCCATTCATTTATGTTT
*
13749503 ATTTATGTGCATTCATTTATGTTT
1 ATTTATGTCCATTCATTTATGTTT
13749527 ATT
1 ATT
13749530 ACAATCTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.18, C:0.10, G:0.14, T:0.59
Consensus pattern (24 bp):
ATTTATGTCCATTCATTTATGTTT
Found at i:13749709 original size:10 final size:10
Alignment explanation
Indices: 13749696--13749764 Score: 57
Period size: 10 Copynumber: 6.2 Consensus size: 10
13749686 AATAATTTCA
13749696 TTTATGTTCG
1 TTTATGTTCG
*
13749706 TTTATATTCG
1 TTTATGTTCG
13749716 TTTATTTGTGTTCG
1 TTTA----TGTTCG
*
13749730 TCTATGTTCG
1 TTTATGTTCG
13749740 TTTATTGTGTTCG
1 TTTA---TGTTCG
13749753 TTTATGTTCG
1 TTTATGTTCG
13749763 TT
1 TT
13749765 CATTTGTGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
10 30 0.62
13 10 0.21
14 8 0.17
ACGTcount: A:0.10, C:0.10, G:0.19, T:0.61
Consensus pattern (10 bp):
TTTATGTTCG
Found at i:13749727 original size:24 final size:24
Alignment explanation
Indices: 13749695--13749781 Score: 131
Period size: 24 Copynumber: 3.7 Consensus size: 24
13749685 TAATAATTTC
* *
13749695 ATTTATGTTCGTTTATATTCGTTT
1 ATTTGTGTTCGTTTATGTTCGTTT
*
13749719 ATTTGTGTTCGTCTATGTTCGTTT
1 ATTTGTGTTCGTTTATGTTCGTTT
*
13749743 A-TTGTGTTCGTTTATGTTCGTTC
1 ATTTGTGTTCGTTTATGTTCGTTT
13749766 ATTTGTGTTCGTTTAT
1 ATTTGTGTTCGTTTAT
13749782 CATTTAAATG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
23 21 0.37
24 36 0.63
ACGTcount: A:0.11, C:0.10, G:0.18, T:0.60
Consensus pattern (24 bp):
ATTTGTGTTCGTTTATGTTCGTTT
Found at i:13752003 original size:398 final size:397
Alignment explanation
Indices: 13751315--13752113 Score: 1526
Period size: 398 Copynumber: 2.0 Consensus size: 397
13751305 TTGCTATGTT
13751315 TTTACACTATAGTCCCTAATTTTCTACTTTTTATTTTTATTTCAAATATTTTTGTCCTAATTGTA
1 TTTACACTATAGTCCCTAATTTTCTACTTTTTATTTTTATTTCAAATATTTTTGTCCTAATTGTA
13751380 TGATTTTCCATTTTATTGTTTGTTCTTTAATCTACTTAGAAATTTAGGTGTAATGTCTATTTAAT
66 TGATTTTCCATTTTATTGTTTGTTCTTTAATCTACTTAGAAATTTAGGTGTAATGTCTATTTAAT
*
13751445 TCTTCCAATTGTGACGTGGTTTTACATTTTGATCATTAGCTTTGTTTTGAATTTGTTATGATTTT
131 TCTTCCAATTGTGACGTGGTTTTACATTTTGATCATTAGCTCTGTTTTGAATTTGTTATGATTTT
13751510 TCTGCTTTGTTTATATTTATTTAAATATGGTCCCTGTTTCCACCACTTATGTTTTATTATAATTT
196 TCTGCTTTGTTTATATTTATTTAAATATGGTCCCTGTTTCCACCACTTATGTTTTATTATAATTT
*
13751575 AGCCCCTTAAGCTTTTATTTTTTTTATGTTTTAATCCCTAAATTAGTTGTATCATTAATTAAGCC
261 AGCCCCTTAAGCTTTTATTTTTGTTATGTTTTAATCCCTAAATTAGTTGTATCATTAATTAAGCC
* *
13751640 TAATACTAATTAGTTTATTAAATTTTTAATTTGCAATTTTTAATTTTTAATTTGTATTACTAATT
326 TAATACTAATAAGTTTATTAAATTTTTAATTTGCAATTTTT-ACTTTTAATTTGTATTACTAATT
13751705 ATAGCTTA
390 ATAGCTTA
*
13751713 TTTACACTATAGTCCCTAATTTTGTACTTTTTATTTTTATTTCAAATATTTTTGTCCTAATTGTA
1 TTTACACTATAGTCCCTAATTTTCTACTTTTTATTTTTATTTCAAATATTTTTGTCCTAATTGTA
*
13751778 TGATTTTCCATTTTATTGTTTGTTCTTTAATCTACTTAGAAATTTAGGTGTAATGTCTATTTAGT
66 TGATTTTCCATTTTATTGTTTGTTCTTTAATCTACTTAGAAATTTAGGTGTAATGTCTATTTAAT
*
13751843 TCTTCCAATTGTGACGTGTTTTTACATTTTGATCATTAGCTCTGTTTTGAATTTGTTATGATTTT
131 TCTTCCAATTGTGACGTGGTTTTACATTTTGATCATTAGCTCTGTTTTGAATTTGTTATGATTTT
13751908 TCTGCTTTGTTTATATTTATTTAAATATGGTCCCTGTTTCCACCACTTATGTTTTATTATAATTT
196 TCTGCTTTGTTTATATTTATTTAAATATGGTCCCTGTTTCCACCACTTATGTTTTATTATAATTT
13751973 AGCCCCTTAAGCTTTTATTTTTGTTATGTTTTAATCCCTAAATTAGTTGTATCATTAATTAAGCC
261 AGCCCCTTAAGCTTTTATTTTTGTTATGTTTTAATCCCTAAATTAGTTGTATCATTAATTAAGCC
13752038 TAATACTAATAAGTTTATTAAATTTTTAATTTGCAATTTTTACTTTTAATTTGTATTACTAATTA
326 TAATACTAATAAGTTTATTAAATTTTTAATTTGCAATTTTTACTTTTAATTTGTATTACTAATTA
13752103 TAGCTTA
391 TAGCTTA
13752110 TTTA
1 TTTA
13752114 GCTTTAAATG
Statistics
Matches: 394, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
397 34 0.09
398 360 0.91
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.53
Consensus pattern (397 bp):
TTTACACTATAGTCCCTAATTTTCTACTTTTTATTTTTATTTCAAATATTTTTGTCCTAATTGTA
TGATTTTCCATTTTATTGTTTGTTCTTTAATCTACTTAGAAATTTAGGTGTAATGTCTATTTAAT
TCTTCCAATTGTGACGTGGTTTTACATTTTGATCATTAGCTCTGTTTTGAATTTGTTATGATTTT
TCTGCTTTGTTTATATTTATTTAAATATGGTCCCTGTTTCCACCACTTATGTTTTATTATAATTT
AGCCCCTTAAGCTTTTATTTTTGTTATGTTTTAATCCCTAAATTAGTTGTATCATTAATTAAGCC
TAATACTAATAAGTTTATTAAATTTTTAATTTGCAATTTTTACTTTTAATTTGTATTACTAATTA
TAGCTTA
Found at i:13754225 original size:34 final size:35
Alignment explanation
Indices: 13754165--13754234 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 35
13754155 ATGAGAATTG
* * *
13754165 AAAAAAAAGAAGGGTTTACTGTCACGTTAGCAAAA
1 AAAAAAAAGAAGGGTTAACTGCCACGTCAGCAAAA
*
13754200 AAAAAAAAGAA-TGTTAACTGCCACGTCAGCAAAA
1 AAAAAAAAGAAGGGTTAACTGCCACGTCAGCAAAA
13754234 A
1 A
13754235 CTAACGGGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 20 0.65
35 11 0.35
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.17
Consensus pattern (35 bp):
AAAAAAAAGAAGGGTTAACTGCCACGTCAGCAAAA
Found at i:13755862 original size:3 final size:3
Alignment explanation
Indices: 13755854--13755882 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13755844 TTGGTCACTT
13755854 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13755883 TGTTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13756186 original size:4 final size:4
Alignment explanation
Indices: 13756177--13756202 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
13756167 CACTAACTTG
13756177 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
13756203 TATGTTCGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:13757973 original size:13 final size:13
Alignment explanation
Indices: 13757955--13757979 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13757945 CTTCGTGGCA
13757955 TTTGCATTTGCAT
1 TTTGCATTTGCAT
13757968 TTTGCATTTGCA
1 TTTGCATTTGCA
13757980 CCTTTACATC
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:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (13 bp):
TTTGCATTTGCAT
Found at i:13761014 original size:14 final size:12
Alignment explanation
Indices: 13760996--13761151 Score: 63
Period size: 11 Copynumber: 12.5 Consensus size: 12
13760986 ATTACACTTG
13760996 AAGAATAGAAAAA
1 AAGAA-AGAAAAA
13761009 ATAGAAAGAAAAA
1 A-AGAAAGAAAAA
13761022 AAG-AAGAAAAA
1 AAGAAAGAAAAA
13761033 GAA-AAAGAAAAA
1 -AAGAAAGAAAAA
*
13761045 AGAGAAAAATAAGAGAA
1 A-AG--AAAGAA-A-AA
*
13761062 AACAAAG-AAAA
1 AAGAAAGAAAAA
* * *
13761073 AGGAAACATAAA
1 AAGAAAGAAAAA
*
13761085 GAGAAAAGAGAAAA
1 AAG-AAAGA-AAAA
**
13761099 AAGATTGAAAAGA
1 AAGAAAGAAAA-A
*
13761112 GAAGAAA-AAATA
1 -AAGAAAGAAAAA
*
13761124 AA-AAAGAAAAG
1 AAGAAAGAAAAA
*
13761135 GAGAAA-AAAAA
1 AAGAAAGAAAAA
13761146 AAGAAA
1 AAGAAA
13761152 ATTGAAATGA
Statistics
Matches: 105, Mismatches: 22, Indels: 34
0.65 0.14 0.21
Matches are distributed among these distances:
10 3 0.03
11 30 0.29
12 25 0.24
13 21 0.20
14 16 0.15
15 5 0.05
16 2 0.02
17 3 0.03
ACGTcount: A:0.76, C:0.01, G:0.19, T:0.04
Consensus pattern (12 bp):
AAGAAAGAAAAA
Found at i:13761086 original size:28 final size:29
Alignment explanation
Indices: 13761013--13761152 Score: 81
Period size: 30 Copynumber: 4.7 Consensus size: 29
13761003 GAAAAAATAG
* * * *
13761013 AAAGAAAAAAAGAAGAAAAAGAAAAAGAAA
1 AAAGAGAAAAATAAGAGAAA-ACAAAGAAA
13761043 AAAGAGAAAAATAAGAGAAAACAAAG-AA
1 AAAGAGAAAAATAAGAGAAAACAAAGAAA
* *
13761071 AAAG-GAAACATAA-AGAGAAA-AGAGAAA
1 AAAGAGAAAAATAAGAGA-AAACAAAGAAA
* * * *
13761098 AAAGATTGAAAAGAGAAGAAAAAATAAAAAAGA
1 AAAGA--GAAAA-ATAAGAGAAAACAAAGAA-A
* *
13761131 AAAGGAGAAAAAAAAAAGAAAA
1 AAA-GAGAAAAATAAGAGAAAA
13761153 TTGAAATGAG
Statistics
Matches: 86, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
26 6 0.07
27 17 0.20
28 6 0.07
29 5 0.06
30 21 0.24
31 14 0.16
32 11 0.13
33 4 0.05
34 2 0.02
ACGTcount: A:0.76, C:0.01, G:0.19, T:0.04
Consensus pattern (29 bp):
AAAGAGAAAAATAAGAGAAAACAAAGAAA
Found at i:13761127 original size:18 final size:18
Alignment explanation
Indices: 13761034--13761152 Score: 54
Period size: 18 Copynumber: 6.7 Consensus size: 18
13761024 GAAGAAAAAG
13761034 AAAAAGA-AAAAAGAGAA-
1 AAAAAGAGAAAAA-AGAAT
* *
13761051 AAATAAGAGAAAACA-AAG
1 AAA-AAGAGAAAAAAGAAT
* *
13761069 AAAAAG-GAAACATA-AAG
1 AAAAAGAGAAA-AAAGAAT
*
13761086 AGAAAAGAGAAAAAAGATT
1 A-AAAAGAGAAAAAAGAAT
*
13761105 GAAAAGAGAAGAAAA-AAT
1 AAAAAGAGAA-AAAAGAAT
* *
13761123 AAAAA-AGAAAAGGAGAAA
1 AAAAAGAGAAAA-AAGAAT
*
13761141 AAAAAAAGAAAA
1 AAAAAGAGAAAA
13761153 TTGAAATGAG
Statistics
Matches: 81, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
16 6 0.07
17 19 0.23
18 37 0.46
19 19 0.23
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (18 bp):
AAAAAGAGAAAAAAGAAT
Found at i:13761150 original size:19 final size:19
Alignment explanation
Indices: 13761015--13761152 Score: 64
Period size: 19 Copynumber: 6.9 Consensus size: 19
13761005 AAAAATAGAA
* *
13761015 AGAAAAAAAGAAGAAAAAG
1 AGAAAAAAAAAAGAAAAGG
* **
13761034 AAAAAGAAAAAAGAGAAAAATA
1 AGAAA-AAAAAA-AG-AAAAGG
* *
13761056 AGAGAAAACAAAGAAAAAGG
1 AGAAAAAAAAAAG-AAAAGG
* * *
13761076 A-AACATAAAGAGAAAA-G
1 AGAAAAAAAAAAGAAAAGG
* **
13761093 AGAAAAAAGATTGAAAAGAG
1 AGAAAAAAAAAAGAAAAG-G
13761113 AAGAAAAAATAAAAAAGAAAAGG
1 -AG--AAAA-AAAAAAGAAAAGG
13761136 AGAAAAAAAAAAGAAAA
1 AGAAAAAAAAAAGAAAA
13761153 TTGAAATGAG
Statistics
Matches: 87, Mismatches: 22, Indels: 20
0.67 0.17 0.16
Matches are distributed among these distances:
17 2 0.02
18 14 0.16
19 21 0.24
20 18 0.21
21 9 0.10
22 9 0.10
23 5 0.06
24 9 0.10
ACGTcount: A:0.76, C:0.01, G:0.19, T:0.04
Consensus pattern (19 bp):
AGAAAAAAAAAAGAAAAGG
Found at i:13765198 original size:61 final size:64
Alignment explanation
Indices: 13765095--13765239 Score: 199
Period size: 61 Copynumber: 2.3 Consensus size: 64
13765085 GCAGGTTTAT
*
13765095 ATTAGCACTAGTGTGTAAGGACACTAAGTGAAGGTGGTGGGCACAACCTTATGTGT-CATATCCG
1 ATTAGCACTAGAGTGTAA-GACACTAAGTGAAGGTGGTGGGCACAACCTTATGT-TCCATATCCG
*
13765159 G
64 A
* *
13765160 ATTAGCACTAGAGTGTAA-AC-C-AAGTGTAGGTGGTGGGCACGACCTTATGTTCCATATCCGA
1 ATTAGCACTAGAGTGTAAGACACTAAGTGAAGGTGGTGGGCACAACCTTATGTTCCATATCCGA
*
13765221 ATTAGCACTAGAGCGTAAG
1 ATTAGCACTAGAGTGTAAG
13765240 CTTAGAGTAG
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
60 1 0.01
61 52 0.71
62 1 0.01
63 2 0.03
65 17 0.23
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (64 bp):
ATTAGCACTAGAGTGTAAGACACTAAGTGAAGGTGGTGGGCACAACCTTATGTTCCATATCCGA
Found at i:13771826 original size:61 final size:64
Alignment explanation
Indices: 13771702--13771849 Score: 178
Period size: 61 Copynumber: 2.3 Consensus size: 64
13771692 GCTGGAAGTT
* *
13771702 TAGATTAGCACTAGTGTGTAAGGACACTAAGTGAAGGTGGTCGGCACAAACTTATGTGTCATATC
1 TAGATTAGCACTAGAGTGTAA-GACACTAAGTGAAGGTGGTCGGCACAAACTTATGTGCCATATC
* * ** *
13771767 TTA-ATTAGCACTAGAGTGTAA-AC-CTAA-TGTAGGTGGTGGGCATGACCTTATGTGCCATATC
1 -TAGATTAGCACTAGAGTGTAAGACACTAAGTGAAGGTGGTCGGCACAAACTTATGTGCCATATC
*
13771828 TAGGTTAGCACTAGAGTGTAAG
1 TAGATTAGCACTAGAGTGTAAG
13771850 CGTAGTGCAG
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
60 2 0.03
61 45 0.62
62 4 0.06
63 2 0.03
65 17 0.24
66 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (64 bp):
TAGATTAGCACTAGAGTGTAAGACACTAAGTGAAGGTGGTCGGCACAAACTTATGTGCCATATC
Found at i:13774324 original size:157 final size:158
Alignment explanation
Indices: 13773987--13774412 Score: 430
Period size: 160 Copynumber: 2.7 Consensus size: 158
13773977 TACAGATTCT
* *
13773987 AATCCATCACAGAAGGAGGTGGAGT-AACATTTCCAATGGAAGGGTTCATAATGAGGAGAACTCA
1 AATCCATCATAGAAGGAGATGGA-TCAACATTTCCAATGGAAGGGTTCATAATGA--A-AACTCA
* * * *
13774051 TTCGAAGAGAAAGAAGAAGTTCATAACGAGAAGAACTTGTTCAACATTTTGCTCGACTCTATCGT
62 TCCGAAGAGAAAGAAGAAGTTCATAACGAGAACAACTTGTTCAACATTTTACTCGAATCTATC--
* ** **
13774116 AAAAAAAGATAAATCAACTTCAACATTTTGTTTG
125 AAAAAAAGATAAATCAACATCAACATTTTCATCA
*
13774150 ATTCCATCATAGAAGGAGATGGATCAACATTTCCAATGGAAGGGTTCATAATGAAAACTCATCCG
1 AATCCATCATAGAAGGAGATGGATCAACATTTCCAATGGAAGGGTTCATAATGAAAACTCATCCG
* * * * * * **
13774215 AAGAGGAAGAAGAATTTTATAATGAGAACAACTTGTTCAACTTTTTACTCGAATCTATC-ACAGG
66 AAGAGAAAGAAGAAGTTCATAACGAGAACAACTTGTTCAACATTTTACTCGAATCTATCAAAAAA
* *
13774279 AGATAGATCATCATCAACATTTTCATCA
131 AGATAAATCAACATCAACATTTTCATCA
* * * ** * *
13774307 AATCCATCATGGTAGGAGGTGGATCTTCATTTCCAATAGAAGGGTT-AGTAATGAAAAGAACTCT
1 AATCCATCATAGAAGGAGATGGATCAACATTTCCAATGGAAGGGTTCA-TAATG--AA-AACTCA
* *
13774371 TCC-AA-AGAAAGTGAAGAAGTTCATAATGAGAAGAACTTGTTC
62 TCCGAAGAGAAA--GAAGAAGTTCATAACGAGAACAACTTGTTC
13774413 GACCTTTTGC
Statistics
Matches: 222, Mismatches: 34, Indels: 17
0.81 0.12 0.06
Matches are distributed among these distances:
156 1 0.00
157 67 0.30
158 4 0.02
159 4 0.02
160 95 0.43
161 1 0.00
162 1 0.00
163 49 0.22
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (158 bp):
AATCCATCATAGAAGGAGATGGATCAACATTTCCAATGGAAGGGTTCATAATGAAAACTCATCCG
AAGAGAAAGAAGAAGTTCATAACGAGAACAACTTGTTCAACATTTTACTCGAATCTATCAAAAAA
AGATAAATCAACATCAACATTTTCATCA
Done.