Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 55 of 226
Found at i:18128278 original size:6 final size:6
Alignment explanation
Indices: 18128267--18128306 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
18128257 TAAACAAAAC
* * *
18128267 AGAGGA AGAGGA AGAGGA AGAGGC AGAGGC AGAGGC AGAG
1 AGAGGA AGAGGA AGAGGA AGAGGA AGAGGA AGAGGA AGAG
18128307 ATGATGAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.42, C:0.07, G:0.50, T:0.00
Consensus pattern (6 bp):
AGAGGA
Found at i:18128284 original size:12 final size:12
Alignment explanation
Indices: 18128266--18128306 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
18128256 ATAAACAAAA
18128266 CAGAGGAAGAGG
1 CAGAGGAAGAGG
*
18128278 AAGAGGAAGAGG
1 CAGAGGAAGAGG
*
18128290 CAGAGGCAGAGG
1 CAGAGGAAGAGG
18128302 CAGAG
1 CAGAG
18128307 ATGATGAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.41, C:0.10, G:0.49, T:0.00
Consensus pattern (12 bp):
CAGAGGAAGAGG
Found at i:18129524 original size:3 final size:3
Alignment explanation
Indices: 18129516--18129545 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
18129506 ATGCTACTCT
18129516 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18129546 AAGGATGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:18133617 original size:3 final size:3
Alignment explanation
Indices: 18133609--18133648 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
18133599 CCAATGGGAA
18133609 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
18133649 GAAAATTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18136808 original size:18 final size:19
Alignment explanation
Indices: 18136777--18136814 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
18136767 AAAATAAGAG
18136777 AAATAATAAGTTTTA-AAA
1 AAATAATAAGTTTTATAAA
18136795 AAATACATAA-TTTTATAAA
1 AAATA-ATAAGTTTTATAAA
18136814 A
1 A
18136815 TAGACACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (19 bp):
AAATAATAAGTTTTATAAA
Found at i:18147302 original size:24 final size:25
Alignment explanation
Indices: 18147269--18147320 Score: 97
Period size: 24 Copynumber: 2.1 Consensus size: 25
18147259 AACTCTAAAT
18147269 ACTGAAGAGTAGACCTGAACAATAA
1 ACTGAAGAGTAGACCTGAACAATAA
18147294 ACTG-AGAGTAGACCTGAACAATAA
1 ACTGAAGAGTAGACCTGAACAATAA
18147318 ACT
1 ACT
18147321 TAGTTTAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.17
Consensus pattern (25 bp):
ACTGAAGAGTAGACCTGAACAATAA
Found at i:18150721 original size:13 final size:13
Alignment explanation
Indices: 18150703--18150730 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18150693 GTATATTGGT
18150703 TATTATGCATGTC
1 TATTATGCATGTC
18150716 TATTATGCATGTC
1 TATTATGCATGTC
18150729 TA
1 TA
18150731 AGTTCAACGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.46
Consensus pattern (13 bp):
TATTATGCATGTC
Found at i:18165129 original size:3 final size:3
Alignment explanation
Indices: 18165123--18165153 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
18165113 AAGAAGCTTT
18165123 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
18165154 GTCATATCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:18175227 original size:16 final size:16
Alignment explanation
Indices: 18175206--18175238 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18175196 TCACAATACT
18175206 AGAGTAAATAAATTTG
1 AGAGTAAATAAATTTG
*
18175222 AGAGTATATAAATTTG
1 AGAGTAAATAAATTTG
18175238 A
1 A
18175239 AAATTTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.33
Consensus pattern (16 bp):
AGAGTAAATAAATTTG
Found at i:18176014 original size:13 final size:15
Alignment explanation
Indices: 18175980--18176009 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18175970 AGCATGCCAT
*
18175980 CATATATATGTATAA
1 CATATTTATGTATAA
18175995 CATATTTATGTATAA
1 CATATTTATGTATAA
18176010 AATTTTTGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (15 bp):
CATATTTATGTATAA
Found at i:18179256 original size:27 final size:26
Alignment explanation
Indices: 18179195--18179258 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
18179185 TGAGATCTGA
* *
18179195 TTTTTAAAAATATTTTCTATTTTTAT
1 TTTTTAAAAATAATTTCCATTTTTAT
**
18179221 TTTCAAAAAATAATTTCCATTTTCTAT
1 TTTTTAAAAATAATTTCCATTTT-TAT
18179248 TTTTTAAAAAT
1 TTTTTAAAAAT
18179259 TAAAAAGCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
26 19 0.61
27 12 0.39
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTTTAAAAATAATTTCCATTTTTAT
Found at i:18184051 original size:24 final size:24
Alignment explanation
Indices: 18184017--18184065 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
18184007 ATTTAGAGAA
*
18184017 TTTTGTGTTTATGTTTT-GAGGGTT
1 TTTTGTGTTTAGGTTTTCG-GGGTT
*
18184041 TTTTGTTTTTAGGTTTTCGGGGTT
1 TTTTGTGTTTAGGTTTTCGGGGTT
18184065 T
1 T
18184066 AGTTTTTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.06, C:0.02, G:0.29, T:0.63
Consensus pattern (24 bp):
TTTTGTGTTTAGGTTTTCGGGGTT
Found at i:18184331 original size:19 final size:19
Alignment explanation
Indices: 18184309--18184350 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
18184299 AATTCATCTA
18184309 CATTTAACTAA-TATCATAT
1 CATTTAACTAATTATCA-AT
* *
18184328 CATTTCAGTAATTATCAAT
1 CATTTAACTAATTATCAAT
18184347 CATT
1 CATT
18184351 CATATTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.43
Consensus pattern (19 bp):
CATTTAACTAATTATCAAT
Found at i:18185611 original size:14 final size:14
Alignment explanation
Indices: 18185592--18185632 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
18185582 ATAAATAATG
18185592 TATAAAGTCATA-AA
1 TATAAAGT-ATACAA
18185606 TATAAAGTATACAA
1 TATAAAGTATACAA
*
18185620 TATTAA-TATACAA
1 TATAAAGTATACAA
18185633 GTTTTGGACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (14 bp):
TATAAAGTATACAA
Found at i:18186720 original size:17 final size:17
Alignment explanation
Indices: 18186698--18186733 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
18186688 TTATTTTGTT
18186698 ATTATTTACCAAAGTAC
1 ATTATTTACCAAAGTAC
18186715 ATTATTTACCAAAGTAC
1 ATTATTTACCAAAGTAC
18186732 AT
1 AT
18186734 AATTGAACAC
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:0.42, C:0.17, G:0.06, T:0.36
Consensus pattern (17 bp):
ATTATTTACCAAAGTAC
Found at i:18190273 original size:19 final size:19
Alignment explanation
Indices: 18190249--18190286 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18190239 TTTTCCCTTT
18190249 CGATTGATATATGTAGGGG
1 CGATTGATATATGTAGGGG
18190268 CGATTGATATATGTAGGGG
1 CGATTGATATATGTAGGGG
18190287 AGAAGGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.37, T:0.32
Consensus pattern (19 bp):
CGATTGATATATGTAGGGG
Found at i:18190923 original size:22 final size:21
Alignment explanation
Indices: 18190876--18190934 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
18190866 AGATTCTATT
* *
18190876 TTTTAATATTTAAGAGTAGAAT
1 TTTTAAAATTTAA-AGTAGAAA
*
18190898 TTTTAAAATTTAAAGTTGGAAA
1 TTTTAAAATTTAAAG-TAGAAA
* *
18190920 TTTTGAAGTTTAAAG
1 TTTTAAAATTTAAAG
18190935 AAACATATGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 2 0.06
22 29 0.94
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (21 bp):
TTTTAAAATTTAAAGTAGAAA
Found at i:18193017 original size:48 final size:48
Alignment explanation
Indices: 18192939--18193035 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
18192929 GTAATTATAA
* *
18192939 CACTTTAACATATTTATGTTATGGGTCCGTTAAAAGTACATTACAAAT
1 CACTCTAACATATTTATGTTATGGGCCCGTTAAAAGTACATTACAAAT
18192987 CACTCTAACATATTTATGTTATGGGCCCGTTAAAAGTACATTACAAAT
1 CACTCTAACATATTTATGTTATGGGCCCGTTAAAAGTACATTACAAAT
18193035 C
1 C
18193036 TTTCCCTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (48 bp):
CACTCTAACATATTTATGTTATGGGCCCGTTAAAAGTACATTACAAAT
Found at i:18197206 original size:13 final size:13
Alignment explanation
Indices: 18197178--18197226 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
18197168 TAATGACTAT
* *
18197178 ATAAAAATTTTCA
1 ATAAAAATATTAA
18197191 ATAAAAATATTAA
1 ATAAAAATATTAA
*
18197204 ATATTAAATATTAA
1 ATA-AAAATATTAA
*
18197218 ATTAAAATA
1 ATAAAAATA
18197227 ATATAAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAAAAATATTAA
Found at i:18197207 original size:7 final size:7
Alignment explanation
Indices: 18197195--18197219 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18197185 TTTTCAATAA
18197195 AAATATT
1 AAATATT
18197202 AAATATT
1 AAATATT
18197209 AAATATT
1 AAATATT
18197216 AAAT
1 AAAT
18197220 TAAAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:18198737 original size:21 final size:22
Alignment explanation
Indices: 18198703--18198755 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
18198693 TTTAAATTTA
* * *
18198703 ATTTTACTTATAATTTAATCTAT
1 ATTTTA-TTTTAATATAATATAT
*
18198726 -TTTTATTTTAATATCATATAT
1 ATTTTATTTTAATATAATATAT
18198747 ATTTTATTT
1 ATTTTATTT
18198756 GTTACTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTTATTTTAATATAATATAT
Found at i:18207512 original size:42 final size:42
Alignment explanation
Indices: 18207466--18207567 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
18207456 GTTTAACTCA
* * *
18207466 TTTGAGTTTCCGTTCAACCCTAATGGGTTTCCGTTCATCTCT
1 TTTGAGCTTCCGTTCAACCCTAATGGGATTCCGTTCAGCTCT
* * * *
18207508 TTTGAGCTACTGTTTAACCCTTATGGGATTCCGTTCAGCTCT
1 TTTGAGCTTCCGTTCAACCCTAATGGGATTCCGTTCAGCTCT
* *
18207550 TATGAACTTCCGTTCAAC
1 TTTGAGCTTCCGTTCAAC
18207568 ATTTACGGGT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (42 bp):
TTTGAGCTTCCGTTCAACCCTAATGGGATTCCGTTCAGCTCT
Found at i:18208954 original size:51 final size:51
Alignment explanation
Indices: 18208878--18209085 Score: 304
Period size: 51 Copynumber: 4.2 Consensus size: 51
18208868 CTAATCACAT
* *
18208878 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
18208929 TTATCACTTGTCACTTGTAATTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
18208980 TTATCACTTGTCA-----C--TGATCAGATAAATGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
18209024 TTATCAATCGTCACTTGTCATTGATTAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
18209075 TTATCACTTGT
1 TTATCACTTGT
18209086 TACTGATCAG
Statistics
Matches: 139, Mismatches: 11, Indels: 14
0.85 0.07 0.09
Matches are distributed among these distances:
44 40 0.29
49 1 0.01
51 98 0.71
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:18209047 original size:95 final size:95
Alignment explanation
Indices: 18208882--18209096 Score: 358
Period size: 95 Copynumber: 2.3 Consensus size: 95
18208872 TCACATTTAT
* * * * *
18208882 CACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGT
1 CACTTATCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCAATCGTCACTTGT
18208947 AATTGATCAGATAAGTGTAGCTAAAGCTAC
66 AATTGATCAGATAAGTGTAGCTAAAGCTAC
18208977 CACTTATCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCAATCGTCACTTGT
1 CACTTATCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCAATCGTCACTTGT
* *
18209042 CATTGATTAGATAAGTGTAGCTAAAGCTAC
66 AATTGATCAGATAAGTGTAGCTAAAGCTAC
*
18209072 CACTTATCACTTGTTACTGATCAGA
1 CACTTATCACTTGTCACTGATCAGA
18209097 AGTACTCAAA
Statistics
Matches: 112, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 112 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (95 bp):
CACTTATCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCAATCGTCACTTGT
AATTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:18230037 original size:5 final size:5
Alignment explanation
Indices: 18230029--18230058 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
18230019 AAATCAGATT
18230029 GGGGA GGGGA GGGGA GGGGA GGGGA GGGGA
1 GGGGA GGGGA GGGGA GGGGA GGGGA GGGGA
18230059 AGCAAAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.80, T:0.00
Consensus pattern (5 bp):
GGGGA
Found at i:18235137 original size:17 final size:17
Alignment explanation
Indices: 18235110--18235142 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
18235100 AAAGTTTAGG
18235110 GGGGAAATAAAAAGTTTT
1 GGGGAAAT-AAAAGTTTT
18235128 GGGG-AATAAAAGTTT
1 GGGGAAATAAAAGTTT
18235143 GAGGAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.53
17 3 0.20
18 4 0.27
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.27
Consensus pattern (17 bp):
GGGGAAATAAAAGTTTT
Found at i:18240361 original size:30 final size:31
Alignment explanation
Indices: 18240308--18240367 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
18240298 TTTAAAATAC
* **
18240308 TTTTAAAATAAATTTTTTTTATTT-TTTTAT
1 TTTTAAAACAAATTTTTAATATTTATTTTAT
18240338 TTTTAAAACAAATTTTTAATATTTATTTTA
1 TTTTAAAACAAATTTTTAATATTTATTTTA
18240368 AAAATTGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (31 bp):
TTTTAAAACAAATTTTTAATATTTATTTTAT
Found at i:18242161 original size:16 final size:16
Alignment explanation
Indices: 18242142--18242172 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18242132 CTATCTTCGT
18242142 TTTCATTTTCCTTCTC
1 TTTCATTTTCCTTCTC
18242158 TTTCATTTTCCTTCT
1 TTTCATTTTCCTTCT
18242173 ATCTTAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTCATTTTCCTTCTC
Found at i:18250088 original size:21 final size:21
Alignment explanation
Indices: 18250062--18250101 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18250052 AATAAATACC
*
18250062 AAAAAATTATTTTAAAAATTA
1 AAAAAAGTATTTTAAAAATTA
18250083 AAAAAAGTATTTTAAAAAT
1 AAAAAAGTATTTTAAAAAT
18250102 ATTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAAAAGTATTTTAAAAATTA
Found at i:18250145 original size:45 final size:46
Alignment explanation
Indices: 18250082--18250176 Score: 174
Period size: 45 Copynumber: 2.1 Consensus size: 46
18250072 TTTAAAAATT
18250082 AAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAA-ATTTTAA
1 AAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAGATTTTAA
18250127 AAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAGTATTTTAA
1 AAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAG-ATTTTAA
18250174 AAA
1 AAA
18250177 TATTTTAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 38 0.79
47 10 0.21
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (46 bp):
AAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAGATTTTAA
Found at i:18250161 original size:16 final size:16
Alignment explanation
Indices: 18250096--18250145 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
18250086 AAAGTATTTT
18250096 AAAAATATTTTAAAATTA
1 AAAAATATTTTAAAA--A
*
18250114 AAAAAAATTTTAAAAA
1 AAAAATATTTTAAAAA
*
18250130 AAAAGTATTTTAAAAA
1 AAAAATATTTTAAAAA
18250146 TATTTTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 15 0.52
18 14 0.48
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
AAAAATATTTTAAAAA
Found at i:18250165 original size:31 final size:31
Alignment explanation
Indices: 18250127--18250194 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
18250117 AAAATTTTAA
18250127 AAAAAAAGTATTTTAAAAATATTTTAAAATT
1 AAAAAAAGTATTTTAAAAATATTTTAAAATT
18250158 AAAAAAAGTATTTTAAAAATATTTTAAAATT
1 AAAAAAAGTATTTTAAAAATATTTTAAAATT
18250189 AAAAAA
1 AAAAAA
18250195 TAAATATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (31 bp):
AAAAAAAGTATTTTAAAAATATTTTAAAATT
Found at i:18260569 original size:34 final size:34
Alignment explanation
Indices: 18260530--18260599 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
18260520 TCATGGCACA
18260530 TTCGGACTTATATACCTTTCATATCAATTTACAT
1 TTCGGACTTATATACCTTTCATATCAATTTACAT
18260564 TTCGGACTTATATACCTTTCATATCAATTTACAT
1 TTCGGACTTATATACCTTTCATATCAATTTACAT
18260598 TT
1 TT
18260600 TAACTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.46
Consensus pattern (34 bp):
TTCGGACTTATATACCTTTCATATCAATTTACAT
Found at i:18260619 original size:34 final size:34
Alignment explanation
Indices: 18260530--18260621 Score: 107
Period size: 34 Copynumber: 2.7 Consensus size: 34
18260520 TCATGGCACA
* *
18260530 TTCGGACTTATATACCTTTCATATCAATTTACAT
1 TTCGAACTTATATACCATTCATATCAATTTACAT
* *
18260564 TTCGGACTTATATACCTTTCATATCAATTTACAT
1 TTCGAACTTATATACCATTCATATCAATTTACAT
*
18260598 TT-TAACTTAT-TACCAAATTCATAT
1 TTCGAACTTATATACC--ATTCATAT
18260622 ATAGATGTGC
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
32 4 0.08
33 6 0.11
34 43 0.81
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.45
Consensus pattern (34 bp):
TTCGAACTTATATACCATTCATATCAATTTACAT
Found at i:18262981 original size:15 final size:14
Alignment explanation
Indices: 18262963--18263026 Score: 51
Period size: 15 Copynumber: 4.6 Consensus size: 14
18262953 ATGTTTTGTT
18262963 TTATTATAACATATA
1 TTATTATAACAT-TA
**
18262978 TTATTATATTATTA
1 TTATTATAACATTA
*
18262992 TTATTTTAAC-TT-
1 TTATTATAACATTA
**
18263004 TTATTATTATTATTA
1 TTATTA-TAACATTA
18263019 TTATTATA
1 TTATTATA
18263027 TATATATAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
12 5 0.13
13 4 0.11
14 13 0.34
15 16 0.42
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATTATAACATTA
Found at i:18262982 original size:3 final size:3
Alignment explanation
Indices: 18262976--18263025 Score: 61
Period size: 3 Copynumber: 17.0 Consensus size: 3
18262966 TTATAACATA
18262976 TAT TAT TA- TAT TAT TAT TAT T-T TAACT T-T TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-A-T TAT TAT TAT TAT TAT TAT
18263020 TAT TAT
1 TAT TAT
18263026 ATATATATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 6 0.14
3 34 0.81
5 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:18272833 original size:50 final size:49
Alignment explanation
Indices: 18272752--18273294 Score: 192
Period size: 50 Copynumber: 10.9 Consensus size: 49
18272742 GTGATGTCGA
* * * *
18272752 GGAAGCAATATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACTGCCTG
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATCT-TTCCACTGCACTACCTG
* * * * * *
18272802 GGAAGTAAGATTCGCTGTTGTAGTTTTAATCTTTCTAACTGCAATATCGG
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTC-CACTGCACTACCTG
* * * * *
18272852 GGAAGCAAGATTCGCCGTTGTGGCGTTAATCTATTCCACTGCACCACTTG
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATCT-TTCCACTGCACTACCTG
* * * ** * ** *
18272902 AGAAGTAAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGGCGG
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATC-TTTCCACTGCACTACCTG
* * ** * *
18272952 GGAAGCAAGGTTTGCCATTGTGGCTTTAATCTGTTCCACTACA-T-CGCTTG
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATCT-TTCCACTGCACTAC-C-TG
* * * * * * ** * ** *
18273002 GGGAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCGG
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATC-TTTCCACTGCACTACCTG
* * * * *** *
18273052 GGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCCACTGCACCGTCAG
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATCT-TTCCACTGCACTACCTG
* * * * * ** * ** *
18273102 GGAAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCGG
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATC-TTTCCACTGCACTACCTG
* * * * *
18273152 GGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCA-TCGCCTG
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATCT-TTCCACTGCACT-ACCTG
** * * * * ** * ** *
18273202 GGAATTAGGATTCGCCGCTGTGGCTTTAATCTTTTTTACTGCAATGTCGG
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATC-TTTCCACTGCACTACCTG
* * * * *
18273252 GGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCATTGCA
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATCT-TTCCACTGCA
18273295 TCGCCTGGGA
Statistics
Matches: 373, Mismatches: 104, Indels: 32
0.73 0.20 0.06
Matches are distributed among these distances:
49 10 0.03
50 353 0.95
51 10 0.03
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (49 bp):
GGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTCCACTGCACTACCTG
Found at i:18272859 original size:100 final size:100
Alignment explanation
Indices: 18272735--18273309 Score: 713
Period size: 100 Copynumber: 5.8 Consensus size: 100
18272725 CCTTAATATG
** * * * * * * * *
18272735 TTTAACTGTGATGTCGAGGAAGCAATATTCGCTGTTGTAGCTTCAATCTGTTCCACTACA-CTGC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATC-GC
* * * *
18272799 CTGGGAAGTAAGATTCGCTGTTGTAGTTTTAATCTT
65 CTGGGAAGTAAGATTCGCCGCTGTGGCTTTAATCTT
* * * * * * * * *
18272835 TCTAACTGCAATATCGGGGAAGCAAGATTCGCCGTTGTGGCGTTAATCTATTCCACTGCACCACT
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCC
* ** * *
18272900 TGAGAAGTAAGATTCGTTGTTGTAGCTTTAATCTT
66 TGGGAAGTAAGATTCGCCGCTGTGGCTTTAATCTT
* * ** *
18272935 TTTAACTGCAATGGCGGGGAAGCAAGGTTTGCC-ATTGTGGCTTTAATCTGTTCCACTACATCGC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCACTGCATCGC
* * *
18272999 TTGGGGAGTAGGATTCGCCGCTGTGGCTTTAATCTT
65 CTGGGAAGTAAGATTCGCCGCTGTGGCTTTAATCTT
* * *
18273035 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCCACTGCACCGTC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCC
* *
18273100 AGGGAAGTAGGATTCGCCGCTGTGGCTTTAATCTT
66 TGGGAAGTAAGATTCGCCGCTGTGGCTTTAATCTT
18273135 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCC
* *
18273200 TGGGAATTAGGATTCGCCGCTGTGGCTTTAATCTT
66 TGGGAAGTAAGATTCGCCGCTGTGGCTTTAATCTT
* *
18273235 TTTTACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCATTGCATCGCC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCC
18273300 TGGGAAGTAA
66 TGGGAAGTAA
18273310 AACTGGTATT
Statistics
Matches: 417, Mismatches: 55, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
100 415 1.00
101 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (100 bp):
TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCC
TGGGAAGTAAGATTCGCCGCTGTGGCTTTAATCTT
Found at i:18273305 original size:50 final size:50
Alignment explanation
Indices: 18272848--18273306 Score: 329
Period size: 50 Copynumber: 9.2 Consensus size: 50
18272838 AACTGCAATA
* * * * *
18272848 TCGGGGAAGCAAGATTCGCCGTTGTGGCGTTAATCTATTCCACTGCA-CC
1 TCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCG
* * * * *** * * * **
18272897 ACTTGAGAAGTAAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGCAAT-G
1 TC-GGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC-ATCG
* * ** *
18272948 GCGGGGAAGCAAGGTTTGCC-ATTGTGGCTTTAATCTGTTCCACTACATCG
1 TCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCACTGCATCG
* * * * * * **
18272998 CTTGGGG-AGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAAT-G
1 -TCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC-ATCG
* *
18273048 TCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCCACTGCACCG
1 TCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCG
* * * * * * **
18273098 TCAGGGAAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAAT-G
1 TCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC-ATCG
18273148 TCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCG
1 TCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCG
* * ** * * * * **
18273198 CCTGGGAATTAGGATTCGCCGCTGTGGCTTTAATCTTTTTTACTGCAAT-G
1 TCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC-ATCG
*
18273248 TCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCATTGCATCG
1 TCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCG
* *
18273298 CCTGGGAAG
1 TCGGGGAAG
18273307 TAAAACTGGT
Statistics
Matches: 310, Mismatches: 86, Indels: 27
0.73 0.20 0.06
Matches are distributed among these distances:
49 13 0.04
50 286 0.92
51 11 0.04
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (50 bp):
TCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCG
Found at i:18274389 original size:30 final size:30
Alignment explanation
Indices: 18274328--18274389 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
18274318 TCATTTTGAC
** **
18274328 TTTGATTTTGATTTTTCTTTTTCTTCTTTT
1 TTTGATTTTGATTTTGATTTTTCTTAATTT
* *
18274358 TTTGTTTTTGATTTTGATTTTTTTTAATTT
1 TTTGATTTTGATTTTGATTTTTCTTAATTT
18274388 TT
1 TT
18274390 AATTTTTAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.10, C:0.05, G:0.08, T:0.77
Consensus pattern (30 bp):
TTTGATTTTGATTTTGATTTTTCTTAATTT
Found at i:18274446 original size:20 final size:19
Alignment explanation
Indices: 18274417--18274472 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
18274407 TATCCTTTCC
*
18274417 TTTTTCTTTTTTTATTGCTT
1 TTTTTATTTTTTTATT-CTT
*
18274437 TTTTTATTTTTTTCTTCTT
1 TTTTTATTTTTTTATTCTT
*
18274456 TTTATTATTTATTTATT
1 TTT-TTATTTTTTTATT
18274473 TATTGAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTATTTTTTTATTCTT
Found at i:18274470 original size:28 final size:28
Alignment explanation
Indices: 18274417--18274473 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
18274407 TATCCTTTCC
* *
18274417 TTTTTCTTTTTTTATTGCTTTTTTTATT
1 TTTTTCTTTTTTTATTGATTTATTTATT
18274445 TTTTTCTTCTTTTTATT-ATTTATTTATT
1 TTTTTCTT-TTTTTATTGATTTATTTATT
18274473 T
1 T
18274474 ATTGAATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.81
Consensus pattern (28 bp):
TTTTTCTTTTTTTATTGATTTATTTATT
Found at i:18278796 original size:102 final size:102
Alignment explanation
Indices: 18278674--18278874 Score: 350
Period size: 102 Copynumber: 2.0 Consensus size: 102
18278664 CCAATGAGTC
* **
18278674 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
18278739 CCAATGATTC-GAGGAATCAGCACTTAGCAACCCCTCG
66 CCAATGAGTCAG-GGAATCAGCACTTAGCAACCCCTCG
18278776 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
18278841 CCAATGAGTCAGGGAATCAGCACTTAGCAACCCC
66 CCAATGAGTCAGGGAATCAGCACTTAGCAACCCC
18278875 CTTCAAATTT
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
102 93 0.99
103 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAGTCAGGGAATCAGCACTTAGCAACCCCTCG
Found at i:18278837 original size:42 final size:41
Alignment explanation
Indices: 18278778--18278914 Score: 164
Period size: 42 Copynumber: 3.5 Consensus size: 41
18278768 ACCCCTCGGG
18278778 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCA-ATTTAAGATACGGT
* * *
18278820 GGAATCAGCACTTAGCAA-CCAC--CAA--TGAG-T-CAG-
1 GGAATCAGCACTTAGCAACCCCCTTCAATTTAAGATACGGT
*
18278853 GGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTC-AATTTAAGATACGGT
18278895 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
18278915 ACCAATGAGT
Statistics
Matches: 79, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
33 18 0.23
34 5 0.06
35 1 0.01
36 4 0.05
37 2 0.03
38 1 0.01
39 4 0.05
40 1 0.01
41 5 0.06
42 38 0.48
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCCCCTTCAATTTAAGATACGGT
Found at i:18278871 original size:75 final size:75
Alignment explanation
Indices: 18278777--18278949 Score: 319
Period size: 75 Copynumber: 2.3 Consensus size: 75
18278767 AACCCCTCGG
* *
18278777 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
18278842 CAATGAGTCA
66 CAATGAGTCA
18278852 GGGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
*
18278917 CAATGAGTCG
66 CAATGAGTCA
18278927 GGGAATCAGCACTTAGCAACCCC
1 GGGAATCAGCACTTAGCAACCCC
18278950 TTGGGGGAAT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 95 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (75 bp):
GGGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
CAATGAGTCA
Found at i:18278935 original size:177 final size:177
Alignment explanation
Indices: 18278639--18278979 Score: 583
Period size: 177 Copynumber: 1.9 Consensus size: 177
18278629 TAACCGTTAT
* * * *
18278639 CGGTGGATTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAGTCAGGGAATCAGCACTTAGCAACCCCCTTCAA
* ** *
18278704 ATTTAAGATACGGTGGGTTCAGCACTTAGCAACCACCAATGATTCGAGGAATCAGCACTTAGCAA
66 ATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGAGGAATCAGCACTTAGCAA
18278769 CCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATA
131 CCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATA
18278816 CGGTGGAATCAGCACTTAGCAACCACCAATGAGTCAGGGAATCAGCACTTAGCAACCCCCTTCAA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAGTCAGGGAATCAGCACTTAGCAACCCCCTTCAA
*
18278881 ATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAA
66 ATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGAGGAATCAGCACTTAGCAA
* *
18278946 CCCCTTGGGGGAATCAGCACTTAGCAATCCCCTT
131 CCCCTCGGGGGAATCAGCACTTAGCAACCCCCTT
18278980 TTTATTCAAT
Statistics
Matches: 153, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
177 153 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (177 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAGTCAGGGAATCAGCACTTAGCAACCCCCTTCAA
ATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGAGGAATCAGCACTTAGCAA
CCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATA
Found at i:18278960 original size:27 final size:28
Alignment explanation
Indices: 18278926--18278979 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
18278916 CCAATGAGTC
18278926 GGGGAATCAGCACTTAGCAA-CCCCTTG
1 GGGGAATCAGCACTTAGCAATCCCCTTG
18278953 GGGGAATCAGCACTTAGCAATCCCCTT
1 GGGGAATCAGCACTTAGCAATCCCCTT
18278980 TTTATTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (28 bp):
GGGGAATCAGCACTTAGCAATCCCCTTG
Found at i:18279346 original size:31 final size:30
Alignment explanation
Indices: 18279315--18279372 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
18279305 CCATCCAACT
18279315 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
18279345 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
18279373 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:18288086 original size:61 final size:61
Alignment explanation
Indices: 18287962--18288088 Score: 155
Period size: 61 Copynumber: 2.1 Consensus size: 61
18287952 TTAGACATTA
** * * *
18287962 ATAGAATTTGTAAATCTGAAGGGTTAAATTTATTGAATTATTAAGAATTGGGAGCAAACTG
1 ATAGAATTCATAAATCTGAAGGGTTAAATTTATTGAATTATTAAGAATTAGAACCAAACTG
* * * * **
18288023 ATAGAATTCATAAATGTGGAGGGTTAAATTTGTTGAATTATTTAGAATTAGAACCAATTTG
1 ATAGAATTCATAAATCTGAAGGGTTAAATTTATTGAATTATTAAGAATTAGAACCAAACTG
18288084 ATAGA
1 ATAGA
18288089 CTATGTATGT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.35
Consensus pattern (61 bp):
ATAGAATTCATAAATCTGAAGGGTTAAATTTATTGAATTATTAAGAATTAGAACCAAACTG
Found at i:18289583 original size:31 final size:29
Alignment explanation
Indices: 18289548--18289621 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
18289538 AAAATTATAT
18289548 ATAAATTTTGATTCAATGTGCAATATCATAC
1 ATAAATTTTGATTCAATGT--AATATCATAC
* ** * *
18289579 ATAAACTTTGATTTTATGTAATTTTATAC
1 ATAAATTTTGATTCAATGTAATATCATAC
18289608 ATGAAATTTTGATT
1 AT-AAATTTTGATT
18289622 TGATTCAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 10 0.28
30 10 0.28
31 16 0.44
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.46
Consensus pattern (29 bp):
ATAAATTTTGATTCAATGTAATATCATAC
Found at i:18289632 original size:30 final size:29
Alignment explanation
Indices: 18289575--18289633 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
18289565 GTGCAATATC
*
18289575 ATACATAAACTTTGATTTTATGTAATTTT
1 ATACATAAACTTTGATTTGATGTAATTTT
*
18289604 ATACATGAAATTTTGATTTGAT-TCAATTTT
1 ATACAT-AAACTTTGATTTGATGT-AATTTT
18289634 TATAAATTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.51
Consensus pattern (29 bp):
ATACATAAACTTTGATTTGATGTAATTTT
Found at i:18291845 original size:25 final size:25
Alignment explanation
Indices: 18291817--18291865 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18291807 TTTTTATTAA
* *
18291817 TTTATACATTCTAATTTTTAAAATT
1 TTTATACATTCTAAATTTCAAAATT
* *
18291842 TTTATATATTTTAAATTTCAAAAT
1 TTTATACATTCTAAATTTCAAAAT
18291866 AATAATATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTATACATTCTAAATTTCAAAATT
Found at i:18299305 original size:271 final size:272
Alignment explanation
Indices: 18298821--18299360 Score: 1010
Period size: 271 Copynumber: 2.0 Consensus size: 272
18298811 CTCAAATTTT
*
18298821 AAGGATTGCGATGGAGTGACTTGCTTTTGTCGCTCTCAAGTTAAAATCACAATTTCCAACATAAA
1 AAGGATTGCGATGGAGTGACTTGCTTTTGTCCCTCTCAAGTTAAAATCACAATTTCCAACATAAA
*
18298886 TTCTCAATAAAAAAACATATGGGTGGATAAAATATAATAAAAAAATTAAAACAATATTTAAGGCG
66 TTCTCAATAAAAAAACATATGGGTGGATAAAATATAATAAAAAAATTAAAACAATATTTAAGGCA
18298951 TGAATCACTTTCTTTAAGGACCGACATTTAAAGCATGCATTGATATATGTTCCTATTGTATTATT
131 TGAATCACTTTCTTTAAGGACCGACATTTAAAGCATGCATTGATATATGTTCCTATTGTATTATT
*
18299016 ACTAAGCTAGCCTAATTATCAACGTTGTAAAAAAATGTTATTTAAATGGGATATATATAAAATTA
196 ACTAAGCTAGCCTAATTATCAAAGTTGTAAAAAAATGTTATTTAAATGGGATATATATAAAATTA
18299081 TACATGAATCTA
261 TACATGAATCTA
18299093 AAGGATTGCGATGGAGTGACTTGCTTTTGTCCCTCTCAAGTTAAAATCACAATTTCCAACATAAA
1 AAGGATTGCGATGGAGTGACTTGCTTTTGTCCCTCTCAAGTTAAAATCACAATTTCCAACATAAA
18299158 TTCTCAATAAAAAAACATATGGGTGGATAAAATATAA-AAAAAAATTAAAACAATATTTAAGGCA
66 TTCTCAATAAAAAAACATATGGGTGGATAAAATATAATAAAAAAATTAAAACAATATTTAAGGCA
* *
18299222 TGAATCACTTTCTTTAAGGACCGGCATTTAAAGCATGCCTTGATATATGTTCCTATTGTATTATT
131 TGAATCACTTTCTTTAAGGACCGACATTTAAAGCATGCATTGATATATGTTCCTATTGTATTATT
* *
18299287 ACTAAGCTAGCCTAATTATCAAAGTTGTAAAAAATTGTTATTTAAATGGGATATTTATAAAATTA
196 ACTAAGCTAGCCTAATTATCAAAGTTGTAAAAAAATGTTATTTAAATGGGATATATATAAAATTA
18299352 TACATGAAT
261 TACATGAAT
18299361 TTTCATTCAA
Statistics
Matches: 261, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
271 160 0.61
272 101 0.39
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (272 bp):
AAGGATTGCGATGGAGTGACTTGCTTTTGTCCCTCTCAAGTTAAAATCACAATTTCCAACATAAA
TTCTCAATAAAAAAACATATGGGTGGATAAAATATAATAAAAAAATTAAAACAATATTTAAGGCA
TGAATCACTTTCTTTAAGGACCGACATTTAAAGCATGCATTGATATATGTTCCTATTGTATTATT
ACTAAGCTAGCCTAATTATCAAAGTTGTAAAAAAATGTTATTTAAATGGGATATATATAAAATTA
TACATGAATCTA
Found at i:18303859 original size:17 final size:18
Alignment explanation
Indices: 18303820--18303860 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
18303810 TTTTATAAAT
18303820 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGATA
18303838 TGTGAATTA-ATATTGA-A
1 TGTGAATTATAT-TTGATA
18303855 TGTGAA
1 TGTGAA
18303861 AGGAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.44
Consensus pattern (18 bp):
TGTGAATTATATTTGATA
Found at i:18304113 original size:23 final size:23
Alignment explanation
Indices: 18304085--18304159 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
18304075 GTGTTATTGA
* *
18304085 TCAGTGGTAGCTTCTGCTACGTT
1 TCAGTGGTAGCTTCGGCTACATT
*
18304108 TTAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* *
18304131 TCAGTGGTAGCTACGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
18304154 TCAGTG
1 TCAGTG
18304160 TGGCACTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.35
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:18305791 original size:17 final size:18
Alignment explanation
Indices: 18305765--18305807 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
18305755 ACTTTCTCTC
18305765 AAAC-TTTTA-TTCCCCA
1 AAACTTTTTATTTCCCCA
*
18305781 AAACTTTTTATTTTCCCCT
1 AAACTTTTTA-TTTCCCCA
18305800 AAACTTTT
1 AAACTTTT
18305808 ACTTCTCACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 5 0.22
19 14 0.61
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.47
Consensus pattern (18 bp):
AAACTTTTTATTTCCCCA
Found at i:18310972 original size:12 final size:12
Alignment explanation
Indices: 18310952--18310986 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
18310942 TTCTCATCAT
*
18310952 CTCTGCCTCTGC
1 CTCTTCCTCTGC
*
18310964 CTCTTCCTCTTC
1 CTCTTCCTCTGC
18310976 CTCTTCCTCTG
1 CTCTTCCTCTG
18310987 TTTTGTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.49, G:0.09, T:0.43
Consensus pattern (12 bp):
CTCTTCCTCTGC
Found at i:18312420 original size:15 final size:16
Alignment explanation
Indices: 18312397--18312431 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
18312387 AATTCTTTAA
*
18312397 ATTTATAAAAAAATAT
1 ATTTATAAAAAAAAAT
18312413 ATTT-TAAAAAAAAAT
1 ATTTATAAAAAAAAAT
18312428 ATTT
1 ATTT
18312432 CATTGAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTTATAAAAAAAAAT
Found at i:18321994 original size:21 final size:21
Alignment explanation
Indices: 18321964--18322026 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
18321954 TCATAAAATC
*
18321964 AAATTTAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
18321985 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
18322006 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
18322027 TATATATTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.30
Consensus pattern (21 bp):
AAATTCAGCTTATAGAACATA
Found at i:18331178 original size:25 final size:25
Alignment explanation
Indices: 18331150--18331245 Score: 61
Period size: 25 Copynumber: 3.8 Consensus size: 25
18331140 GCTCATCCTG
* * * *
18331150 GCTGAATAGTGGGAAGCTCATGTAA
1 GCTGAATAATAGGAAACTCATGCAA
*
18331175 GCTGTATAATAGGAAACTCATGCAA
1 GCTGAATAATAGGAAACTCATGCAA
* * *
18331200 GCT-ATATAACAGGAAGCTCAAG-AGA
1 GCTGA-ATAATAGGAAACTCATGCA-A
* * *
18331225 GTTGAATATTAGGAAGCTCAT
1 GCTGAATAATAGGAAACTCAT
18331246 ACGAGCTGTG
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
24 1 0.02
25 53 0.96
26 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.24
Consensus pattern (25 bp):
GCTGAATAATAGGAAACTCATGCAA
Found at i:18341262 original size:24 final size:25
Alignment explanation
Indices: 18341218--18341271 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
18341208 GAATGAAAAC
**
18341218 AAAAATAAATAGGAAAGAAAGGGGA
1 AAAAATAAATAGGAAAGAAAGAAGA
*
18341243 AAAAATAAA-GGGAGAA-AAAGAAGA
1 AAAAATAAATAGGA-AAGAAAGAAGA
18341267 AAAAA
1 AAAAA
18341272 GGGGAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.06
Consensus pattern (25 bp):
AAAAATAAATAGGAAAGAAAGAAGA
Found at i:18343452 original size:21 final size:20
Alignment explanation
Indices: 18343426--18343478 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
18343416 AAAGTTGTTG
*
18343426 TATATTATAAAATATTATTAA
1 TATATTATAAAAGATTA-TAA
18343447 TATATTATGAAAAGATTATAA
1 TATATTAT-AAAAGATTATAA
*
18343468 -AAATTATAAAA
1 TATATTATAAAA
18343479 AAGAATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 6 0.21
21 11 0.38
22 8 0.28
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (20 bp):
TATATTATAAAAGATTATAA
Found at i:18343526 original size:21 final size:19
Alignment explanation
Indices: 18343426--18343526 Score: 51
Period size: 21 Copynumber: 4.8 Consensus size: 19
18343416 AAAGTTGTTG
*
18343426 TATATTATAAAATATTATTAA
1 TATATTATAAAA-ATGA-TAA
*
18343447 TATATTATGAAAAGATTATAA
1 TATATTAT-AAAA-ATGATAA
* *
18343468 -AAATTATAAAAAAGAATAAAA
1 TATATTATAAAAATG-AT--AA
* *
18343489 TATAAATATAAATATGACTAA
1 TAT-ATTATAAAAATGA-TAA
18343510 TATATTATGAAAAATGA
1 TATATTAT-AAAAATGA
18343527 AAGGACTATA
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
18 1 0.02
19 6 0.10
20 10 0.16
21 25 0.40
22 10 0.16
23 10 0.16
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (19 bp):
TATATTATAAAAATGATAA
Found at i:18343586 original size:19 final size:19
Alignment explanation
Indices: 18343537--18343608 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 19
18343527 AAGGACTATA
18343537 AAAACATTAT-AAAATT-TT
1 AAAA-ATTATAAAAATTATT
*
18343555 TAAAATTAAATAAAAATTATT
1 AAAAATT--ATAAAAATTATT
*
18343576 AAAAATTATAAAAGTTA-T
1 AAAAATTATAAAAATTATT
18343594 ATAAAATTATTAAAA
1 A-AAAATTA-TAAAA
18343609 CTAGGATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
17 3 0.07
18 5 0.11
19 18 0.40
20 11 0.24
21 8 0.18
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (19 bp):
AAAAATTATAAAAATTATT
Found at i:18343596 original size:11 final size:10
Alignment explanation
Indices: 18343544--18343608 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 10
18343534 ATAAAAACAT
18343544 TATAAAATT-
1 TATAAAATTA
*
18343553 TTTAAAATTA
1 TATAAAATTA
*
18343563 AATAAAAATTA
1 TAT-AAAATTA
18343574 T-TAAAAATTA
1 TAT-AAAATTA
*
18343584 TA-AAAGTTA
1 TATAAAATTA
18343593 TATAAAATTA
1 TATAAAATTA
18343603 T-TAAAA
1 TATAAAA
18343609 CTAGGATTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
9 21 0.46
10 18 0.39
11 7 0.15
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (10 bp):
TATAAAATTA
Found at i:18344446 original size:12 final size:12
Alignment explanation
Indices: 18344431--18344459 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18344421 ATTTTGGTAA
18344431 TTTTTTTC-AAT
1 TTTTTTTCTAAT
18344442 TTTTTTTCTAAT
1 TTTTTTTCTAAT
18344454 TTTTTT
1 TTTTTT
18344460 ATATTAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTCTAAT
Found at i:18344912 original size:27 final size:27
Alignment explanation
Indices: 18344874--18344934 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
18344864 CCAACATCGT
* * *
18344874 CCGATTTAATATCCACCACTTCAGTTC
1 CCGATCTAATATCCACCACATCAGATC
18344901 CCGATCTAATATCCACCACATCAGATC
1 CCGATCTAATATCCACCACATCAGATC
18344928 CCGATCT
1 CCGATCT
18344935 TACACCCTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.28, C:0.36, G:0.08, T:0.28
Consensus pattern (27 bp):
CCGATCTAATATCCACCACATCAGATC
Found at i:18351198 original size:14 final size:15
Alignment explanation
Indices: 18351179--18351211 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
18351169 AGTTTCAATG
*
18351179 AAATATTTTTTTTA-
1 AAATATATTTTTTAT
18351193 AAATATATTTTTTAT
1 AAATATATTTTTTAT
18351208 AAAT
1 AAAT
18351212 TTAAAGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AAATATATTTTTTAT
Found at i:18352633 original size:6 final size:6
Alignment explanation
Indices: 18352622--18352655 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
18352612 TAAACAAAAC
* *
18352622 AGAGGA AGAGGA AGAGGA AGAGGC AGAGGC AGAG
1 AGAGGA AGAGGA AGAGGA AGAGGA AGAGGA AGAG
18352656 ATGATGAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.44, C:0.06, G:0.50, T:0.00
Consensus pattern (6 bp):
AGAGGA
Found at i:18353839 original size:20 final size:20
Alignment explanation
Indices: 18353814--18353851 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18353804 TGGGGTAAAG
18353814 GGGGAAAA-ATAAAAGTTTAA
1 GGGGAAAATA-AAAAGTTTAA
18353834 GGGGAAAATAAAAAGTTT
1 GGGGAAAATAAAAAGTTT
18353852 TGAGGGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.21
Consensus pattern (20 bp):
GGGGAAAATAAAAAGTTTAA
Found at i:18354513 original size:20 final size:21
Alignment explanation
Indices: 18354480--18354526 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
18354470 GCCCAAAACC
18354480 AAAAATAAAGAAACAGAAT-AT
1 AAAAATAAAGAAACA-AATAAT
18354501 AAAAATAAA-AAACAAATAAT
1 AAAAATAAAGAAACAAATAAT
18354521 AAAAAT
1 AAAAAT
18354527 CCAAGTCCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.12
20 13 0.52
21 9 0.36
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (21 bp):
AAAAATAAAGAAACAAATAAT
Found at i:18356004 original size:14 final size:13
Alignment explanation
Indices: 18355987--18356024 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
18355977 TTTTTTTTTG
18355987 TGTTCTTTTATTC
1 TGTTCTTTTATTC
*
18356000 TTGTTATTTTATTC
1 -TGTTCTTTTATTC
18356014 T-TTCTTTTATT
1 TGTTCTTTTATT
18356025 ATTTTTGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 9 0.41
13 1 0.05
14 12 0.55
ACGTcount: A:0.11, C:0.11, G:0.05, T:0.74
Consensus pattern (13 bp):
TGTTCTTTTATTC
Found at i:18356156 original size:23 final size:23
Alignment explanation
Indices: 18356113--18356157 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
18356103 ATTTATTTAT
* *
18356113 TATTATTATGATATGATTATTAA
1 TATTATTATAATATGAGTATTAA
18356136 TATTATTATAATTAT-AGTATTA
1 TATTATTATAA-TATGAGTATTA
18356158 TAGTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (23 bp):
TATTATTATAATATGAGTATTAA
Found at i:18357186 original size:20 final size:20
Alignment explanation
Indices: 18357161--18357198 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18357151 GTTTTTAATT
*
18357161 TTTAAAAATTAAGTGTAACC
1 TTTAAAAATTAAGAGTAACC
18357181 TTTAAAAATTAAGAGTAA
1 TTTAAAAATTAAGAGTAA
18357199 GCGATCCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (20 bp):
TTTAAAAATTAAGAGTAACC
Found at i:18360669 original size:27 final size:27
Alignment explanation
Indices: 18360639--18360690 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
18360629 TAAAATAAGG
*
18360639 AAAAATAAA-CTAAATGGCAATACCCA
1 AAAAAAAAACCTAAATGGCAATACCCA
18360665 AAAAAAAAACCTAAATGGCAATACCC
1 AAAAAAAAACCTAAATGGCAATACCC
18360691 TTTTCTACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.58, C:0.21, G:0.08, T:0.13
Consensus pattern (27 bp):
AAAAAAAAACCTAAATGGCAATACCCA
Found at i:18369458 original size:9 final size:9
Alignment explanation
Indices: 18369446--18369476 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
18369436 ATTAAACGAA
18369446 TCGAGTTAT
1 TCGAGTTAT
*
18369455 TCGAGTTAA
1 TCGAGTTAT
18369464 TCGAGTTAT
1 TCGAGTTAT
18369473 TCGA
1 TCGA
18369477 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:18379667 original size:20 final size:19
Alignment explanation
Indices: 18379627--18379669 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
18379617 TAAAAACCGA
*
18379627 AAAAGTAAATCATCTCTAG
1 AAAAGTAAATCATCTCCAG
*
18379646 AAAAGTAAATCATTTTCCAG
1 AAAAGTAAATCA-TCTCCAG
18379666 AAAA
1 AAAA
18379670 CATTTTACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (19 bp):
AAAAGTAAATCATCTCCAG
Found at i:18382816 original size:32 final size:32
Alignment explanation
Indices: 18382744--18382820 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
18382734 AGGAATATTG
* *
18382744 TTATCATTTAACAAAATTGAAGTTGTAATTTG
1 TTATCATTTCACAAAATTGAAGTTGTAATTTA
*
18382776 TTACCATTTCACAAAA-TGAAAGTTG-ATATTTA
1 TTATCATTTCACAAAATTG-AAGTTGTA-ATTTA
18382808 TTATCATTTCACA
1 TTATCATTTCACA
18382821 GAACCACGCG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 3 0.08
32 36 0.92
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.42
Consensus pattern (32 bp):
TTATCATTTCACAAAATTGAAGTTGTAATTTA
Found at i:18383644 original size:10 final size:11
Alignment explanation
Indices: 18383623--18383664 Score: 54
Period size: 10 Copynumber: 4.1 Consensus size: 11
18383613 TCTCAATAAA
18383623 AATTCTAAAAT
1 AATTCTAAAAT
18383634 AATTC-AAAAT
1 AATTCTAAAAT
*
18383644 AATTTTAAAA-
1 AATTCTAAAAT
18383654 AATT-TAAAAT
1 AATTCTAAAAT
18383664 A
1 A
18383665 TTTATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 5 0.18
10 14 0.50
11 9 0.32
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTCTAAAAT
Found at i:18383662 original size:20 final size:20
Alignment explanation
Indices: 18383623--18383674 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
18383613 TCTCAATAAA
*
18383623 AATTCTAAAATAATTCAAAAT
1 AATTTTAAAA-AATTCAAAAT
*
18383644 AATTTTAAAAAATTTAAAAT
1 AATTTTAAAAAATTCAAAAT
18383664 -ATTTATAAAAA
1 AATTT-TAAAAA
18383675 TCCCAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 4 0.14
20 15 0.54
21 9 0.32
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTTTAAAAAATTCAAAAT
Found at i:18389414 original size:6 final size:7
Alignment explanation
Indices: 18389397--18389423 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
18389387 TCATTGTATT
18389397 AAAAAAG
1 AAAAAAG
18389404 AAAAAAG
1 AAAAAAG
18389411 AAAAAAG
1 AAAAAAG
18389418 AAAAAA
1 AAAAAA
18389424 CCTTATCACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:18402005 original size:26 final size:25
Alignment explanation
Indices: 18401976--18402024 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
18401966 CTTTTATATA
* *
18401976 TTTATTTTTTATAAATTTTTAATTCT
1 TTTATATTTAATAAA-TTTTAATTCT
*
18402002 TTTATATTTAATATATTTTAATT
1 TTTATATTTAATAAATTTTAATT
18402025 ATATAGATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTATATTTAATAAATTTTAATTCT
Found at i:18402010 original size:17 final size:17
Alignment explanation
Indices: 18401957--18402010 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
18401947 TGGTTTAGGT
*
18401957 TTTTTAGTTCTTTTATA
1 TTTTTAATTCTTTTATA
*
18401974 TATTT-ATT-TTTTATAAA
1 TTTTTAATTCTTTTAT--A
18401991 TTTTTAATTCTTTTATA
1 TTTTTAATTCTTTTATA
18402008 TTT
1 TTT
18402011 AATATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 6 0.20
16 2 0.07
17 13 0.43
18 3 0.10
19 6 0.20
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTTTAATTCTTTTATA
Found at i:18404746 original size:64 final size:66
Alignment explanation
Indices: 18404618--18404746 Score: 172
Period size: 64 Copynumber: 2.0 Consensus size: 66
18404608 TATAACATAA
* * *** *
18404618 CAATTTATGATATTATTTTTGTTAATATATGTTTAATGGTCGAAAATTTTTATGTCAAAAAAATA
1 CAATTTATGATATTATTTGTGTTAATATATATTTAACAATCGAAAATTTTTATATCAAAAAAATA
18404683 T
66 T
* *
18404684 CAATTTATGATATTA-TTGTGTTAATATATATTTAACAATTG-AAATTTTTATATCAAAGAAATA
1 CAATTTATGATATTATTTGTGTTAATATATATTTAACAATCGAAAATTTTTATATCAAAAAAATA
18404747 GTTTGACATT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 20 0.36
65 20 0.36
66 15 0.27
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (66 bp):
CAATTTATGATATTATTTGTGTTAATATATATTTAACAATCGAAAATTTTTATATCAAAAAAATA
T
Found at i:18411399 original size:19 final size:19
Alignment explanation
Indices: 18411377--18411416 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18411367 CGAGTTAATA
* *
18411377 AATTTTATTTTATTATTTT
1 AATTTGATTTGATTATTTT
*
18411396 AATTTGATTTGATTTTTTT
1 AATTTGATTTGATTATTTT
18411415 AA
1 AA
18411417 ATTAAATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
AATTTGATTTGATTATTTT
Found at i:18411724 original size:19 final size:19
Alignment explanation
Indices: 18411688--18411723 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18411678 TATAATTTAT
18411688 AAAAATATTTTGAATTTTG
1 AAAAATATTTTGAATTTTG
*
18411707 AAAATTATTTTG-ATTTT
1 AAAAATATTTTGAATTTT
18411724 TTTTTGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (19 bp):
AAAAATATTTTGAATTTTG
Found at i:18413210 original size:3 final size:3
Alignment explanation
Indices: 18413197--18413240 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
18413187 TTATCATCTT
*
18413197 TTA TTA TTTA TTA TTA CTA TTA TTA TTA TTA CTTA -TA TTA TTA T
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T
18413241 ATAATAGCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 28 0.78
4 6 0.17
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:18413224 original size:15 final size:15
Alignment explanation
Indices: 18413198--18413240 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
18413188 TATCATCTTT
18413198 TATTATTTATTATTAC
1 TATTA-TTATTATTAC
18413214 TATTATTATTATTAC
1 TATTATTATTATTAC
18413229 T-TATATTATTAT
1 TAT-TATTATTAT
18413241 ATAATAGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.04
15 20 0.77
16 5 0.19
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:18426212 original size:129 final size:128
Alignment explanation
Indices: 18425961--18426290 Score: 421
Period size: 129 Copynumber: 2.5 Consensus size: 128
18425951 AAAAATTTTA
* * * * * *
18425961 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCGCCCTGAGATTA
1 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGAA-TCAG-G-TCTTATCTCCCTGAGATTA
18426026 CAGCGGAGCAGATCAAAGATACTATCCTATCTCCCTGAAGTTACAGTGAAGTGGATTAAAATAAA
63 CAGCGGAGCAGATCAAAGATACTATCCTATCTCCCTGAAGTTACAGTGAAGTGGATTAAAATAAA
18426091 G
128 G
* *
18426092 GATCTTATCTCTCTGAAGTTACAGTAGATTAGATCGTATCAGGTCTTATCTCCCTGAGATTACAG
1 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGAATCAGGTCTTATCTCCCTGAGATTACAG
** * * **
18426157 CGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTG-AGATTACAGT-AGAGTGGATTAAAATTTA
66 CGGAGCAGATCAAAGATACT-ATCCTATCTCCCTGAAG-TTACAGTGA-AGTGGATTAAAATAAA
18426220 G
128 G
* * * *
18426221 GATATTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
1 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGAATCAGGTCTTATCTCCCTGAGATTACAG
*
18426286 TGGAG
66 CGGAG
18426291 TAGACCGAAA
Statistics
Matches: 176, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
128 40 0.23
129 101 0.57
130 3 0.02
131 32 0.18
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (128 bp):
GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGAATCAGGTCTTATCTCCCTGAGATTACAG
CGGAGCAGATCAAAGATACTATCCTATCTCCCTGAAGTTACAGTGAAGTGGATTAAAATAAAG
Found at i:18426342 original size:175 final size:175
Alignment explanation
Indices: 18425952--18426616 Score: 570
Period size: 175 Copynumber: 3.8 Consensus size: 175
18425942 AGATTAGTGA
* * * * * *
18425952 AAAATTTTAGATCTTATCTCCCTGA-AGTTACAGTGGAGCAGATTGAAGCCAG-AGATCTTATCG
1 AAAATTTCAGATCTTATCTCTCTGAGA-TTACAGCGGAGCAGATTGAAGCTAGTA-ATCCTATCT
* ** * ** * *
18426015 CCCTGAGATTACAGCGGAGCAGATCAAAGAT--ACTATCCTATCTCCCTGAAGTTACAGT-GAAG
64 CCCTGAGATTACAGTGGAGTGGATTAAA-ATAAAGGATCTTATCTCTCTGAAGTTACAGTAG-AG
* *** * * * * ***
18426077 TGGATTAAAATAAAG-GATCTTATCTCTCTGAAGTTACAGTAGATTAGAT
127 TAGA-TCGCATCAAGCGATCCTATCTCCCTGAAGGTACAGTAGAGCCGAT
** * * *
18426126 --CGTATCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCC
1 AAAATTTCAGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCC
* ** * *
18426189 CTGAGATTACAGTAGAGTGGATTAAAATTTAGGATATTATCTCTCTGAGGTTACAGTAGAGTAGA
66 CTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGA
*
18426254 TCGCATC-AG-G-TCTTATCTCCCTG-AGGTTACAGTGGAGTAGACCGA-
131 TCGCATCAAGCGATCCTATCTCCCTGAAGG-TACAGT--AG-AG-CCGAT
* * *
18426299 AAAATTTCAGATCTTATCTCTCTAAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTTC
1 AAAATTTCAGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCC
* *
18426364 CTGAGATTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGA
66 CTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGA
* *
18426429 TCACATCAGATTGAAGCCGATAATCCTATCTCCCTGAAGGTACAGTAGAGCGGATT
131 TCGCATC------AAG-CG---ATCCTATCTCCCTGAAGGTACAGTAGAGCCGA-T
* * * *
18426485 AAAATTT-AGGATCCTATCTCTCTGAGATTACAGCAGAGCAGATTGAAGAC-ACT-ATCCTATCC
1 AAAATTTCA-GATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAG-CTAGTAATCCTATCT
* *
18426547 CCCTAAGATTTCAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTA
64 CCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTA
18426612 GATCG
129 GATCG
18426617 TGTCAGATAT
Statistics
Matches: 401, Mismatches: 60, Indels: 49
0.79 0.12 0.10
Matches are distributed among these distances:
169 2 0.00
170 18 0.04
171 5 0.01
172 76 0.19
173 29 0.07
174 3 0.01
175 119 0.30
182 2 0.00
184 4 0.01
185 75 0.19
186 47 0.12
188 18 0.04
189 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (175 bp):
AAAATTTCAGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCC
CTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGA
TCGCATCAAGCGATCCTATCTCCCTGAAGGTACAGTAGAGCCGAT
Found at i:18426420 original size:44 final size:45
Alignment explanation
Indices: 18426308--18426614 Score: 141
Period size: 44 Copynumber: 6.8 Consensus size: 45
18426298 AAAAATTTCA
* ** * *
18426308 GATCTTATCTCTCT-AAGATTACAGCGGAGCAGATTGAAGAT-AGT
1 GATCCTATCTCTCTGAAGATTACAGTAGAGCAGATT-AAAATAAAT
* * *
18426352 AATCCTATCT-TCCTG-AGATTACAGTGGAGCGGATTAAAATAAAT
1 GATCCTATCTCT-CTGAAGATTACAGTAGAGCAGATTAAAATAAAT
* * *
18426396 GATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCACATCAGATTGAAGCCGAT
1 GATCCTATCTCTCTGAAGATTACAGTAGAGCAGATTA-A--A-A-T-AA----AT
* * * * ** *
18426450 AATCCTATCTCCCTGAAG-GTACAGTAGAGCGGATTAAAATTTAG
1 GATCCTATCTCTCTGAAGATTACAGTAGAGCAGATTAAAATAAAT
* * * *
18426494 GATCCTATCTCTCTG-AGATTACAGCAGAGCAGATTGAAGA-CACT
1 GATCCTATCTCTCTGAAGATTACAGTAGAGCAGATT-AAAATAAAT
* * * * ** *
18426538 -ATCCTATCCCCCT-AAGATTTCAGTGGAGTGGATTAAAATAAAG
1 GATCCTATCTCTCTGAAGATTACAGTAGAGCAGATTAAAATAAAT
* *
18426581 GATCTTATCTCTCTGAAG-TTACAGTAGAGTAGAT
1 GATCCTATCTCTCTGAAGATTACAGTAGAGCAGAT
18426615 CGTGTCAGAT
Statistics
Matches: 193, Mismatches: 49, Indels: 42
0.68 0.17 0.15
Matches are distributed among these distances:
42 3 0.02
43 34 0.18
44 106 0.55
45 10 0.05
47 1 0.01
48 1 0.01
49 2 0.01
50 3 0.02
51 1 0.01
53 1 0.01
54 31 0.16
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (45 bp):
GATCCTATCTCTCTGAAGATTACAGTAGAGCAGATTAAAATAAAT
Found at i:18426506 original size:98 final size:98
Alignment explanation
Indices: 18426351--18426527 Score: 241
Period size: 98 Copynumber: 1.8 Consensus size: 98
18426341 TTGAAGATAG
* * * * *
18426351 TAATCCTATCTTCCTGAGATTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGA-AGT
1 TAATCCTATCTCCCTGAGAGTACAGTAGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAGA-T
* *
18426415 TACAGTAGAGTAGATCACATCAGATTGAAGCCGA
65 TACAGCAGAGCAGATCACATCAGATTGAAGCCGA
**
18426449 TAATCCTATCTCCCTGA-AGGTACAGTAGAGCGGATTAAAATTTAGGATCCTATCTCTCTGAGAT
1 TAATCCTATCTCCCTGAGA-GTACAGTAGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAGAT
18426513 TACAGCAGAGCAGAT
65 TACAGCAGAGCAGAT
18426528 TGAAGACACT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
97 1 0.01
98 66 0.97
99 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (98 bp):
TAATCCTATCTCCCTGAGAGTACAGTAGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAGATT
ACAGCAGAGCAGATCACATCAGATTGAAGCCGA
Found at i:18426677 original size:44 final size:44
Alignment explanation
Indices: 18426620--18427163 Score: 486
Period size: 44 Copynumber: 12.7 Consensus size: 44
18426610 TAGATCGTGT
* *
18426620 CAGATATTCTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
* * * *
18426664 CAGATCTTATCTCCCTAAGTAGTAGTCGAGCAGATCGAAGATGG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
* * ** *
18426708 C-GAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAG-CCA
1 CAG-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
* * * *
18426751 CCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGA
1 -CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGA
* * *
18426796 -AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGA
* *
18426840 -AGAACTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
*
18426883 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-ACA-TC-A
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-AGACGA
*
18426925 -AG-TTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
*
18426967 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-ACA-TC-A
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-AGACGA
* * * *
18427009 -AG-TTTTATCCCCCTAAGTAGTAGTGGAGCAGA-GGAAAGAC-A
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-AAGACGA
* ** * * * * * *
18427050 CCA-ATCCTATCTCCCTGAAGTGGCAGCGGAGCGGAT-TAAAACCA
1 -CAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGACGA
* *
18427094 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCA-TC-A
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
* *
18427136 -AG-TCTTATCTACCTAAGCAGTAGAGGAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAG
18427164 TAGACAGAAG
Statistics
Matches: 415, Mismatches: 60, Indels: 54
0.78 0.11 0.10
Matches are distributed among these distances:
40 84 0.20
41 11 0.03
42 4 0.01
43 71 0.17
44 243 0.59
45 2 0.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (44 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
Found at i:18426775 original size:131 final size:130
Alignment explanation
Indices: 18426629--18427002 Score: 465
Period size: 131 Copynumber: 2.9 Consensus size: 130
18426619 TCAGATATTC
* *
18426629 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAGATCTTATCTCCCTAAGTAGTAGTCGAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATC-AAGACGA-AGATCTTATCTCCCTAAGCAGTAGTGGAG
* * **
18426694 CAGATCGAAGATGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAG-CCACCAG-TC
64 CAGATCGAAGATGGCGAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCA-CAGATC
18426757 CTA
128 CTA
* *
18426760 TCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATC-AAGA-CGAAGATCTTATCTCCCTAAGCAGTAGTGGAG
* * * **
18426825 CAGGTCAAAGATGGAAGAA-CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACAGATC
64 CAGATCGAAGATGG-CGAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCACAGATC
*
18426889 TTA
128 CTA
* *
18426892 TCTCCCTAAGCAGTAGTGGAGCAGATCACA-TC-AAG-TTTTATCTCCCTAAGCAGTAGTGGAGC
1 TCTCCCTAAGCAGTAGTGGAGCAGATCA-AGACGAAGATCTTATCTCCCTAAGCAGTAGTGGAGC
* *
18426954 AGATCGAAGACGAC-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
65 AGATCGAAGATGGCGA-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
18427003 ACATCAAGTT
Statistics
Matches: 212, Mismatches: 24, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
126 1 0.00
127 1 0.00
128 66 0.31
129 3 0.01
131 104 0.49
132 37 0.17
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (130 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCAAGACGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
GATCGAAGATGGCGAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCACAGATCCTA
Found at i:18426969 original size:84 final size:85
Alignment explanation
Indices: 18426620--18427163 Score: 486
Period size: 84 Copynumber: 6.4 Consensus size: 85
18426610 TAGATCGTGT
* * * *
18426620 CAGATATTCTCTCCCTAAGCAGTAGTGGAGCAGATCGA-AGACGACAGATCTTATCTCCCTAAGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-ACA-TC-A-AGATCTTATCTCCCTAAGC
* * *
18426684 AGTAGTCGAGCAGATCGAAGATGG
62 AGTAGTGGAGCAGATCGAAGACGA
* * * * *
18426708 C-GAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCA-CCAG-TCCTATCTCCCTAAG
1 CAG-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA--TCA--CATCAAGATCTTATCTCCCTAAG
* * *
18426770 CAGTAGTGGAGCAGGTCAAAGATGGA
61 CAGTAGTGGAGCAGATCGAAGA-CGA
* * * *
18426796 -AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGAACTTATCTCCCTAAGCA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC--ACAT-CAAGATCTTATCTCCCTAAGCA
*
18426860 GTAGTGGAGCAGATCGAAGATGA
63 GTAGTGGAGCAGATCGAAGACGA
*
18426883 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG-TTTTATCTCCCTAAGCAGTA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGATCTTATCTCCCTAAGCAGTA
18426947 GTGGAGCAGATCGAAGACGA
66 GTGGAGCAGATCGAAGACGA
* * *
18426967 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG-TTTTATCCCCCTAAGTAGTA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGATCTTATCTCCCTAAGCAGTA
*
18427031 GTGGAGCAGA-GGAAAGAC-A
66 GTGGAGCAGATCG-AAGACGA
* ** * * * * * *
18427050 CCA-ATCCTATCTCCCTGAAGTGGCAGCGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGC
1 -CAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCACATCA-AGATCTTATCTCCCTAAGC
* *
18427114 AGTAGTGGAGCAGATCGCA-TC-A
62 AGTAGTGGAGCAGATCGAAGACGA
* *
18427136 -AG-TCTTATCTACCTAAGCAGTAGAGGAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAG
18427164 TAGACAGAAG
Statistics
Matches: 379, Mismatches: 55, Indels: 49
0.78 0.11 0.10
Matches are distributed among these distances:
83 24 0.06
84 140 0.37
85 10 0.03
86 7 0.02
87 94 0.25
88 100 0.26
89 1 0.00
90 2 0.01
92 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (85 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACGA
Found at i:18428550 original size:12 final size:11
Alignment explanation
Indices: 18428528--18428566 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
18428518 TTATCATATT
18428528 TTATTA-TTTA
1 TTATTACTTTA
18428538 TTATTACTATTA
1 TTATTACT-TTA
18428550 TTATTACTTATA
1 TTATTACTT-TA
18428562 TTATT
1 TTATT
18428567 GCTACTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 6 0.23
11 2 0.08
12 18 0.69
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (11 bp):
TTATTACTTTA
Found at i:18428553 original size:15 final size:15
Alignment explanation
Indices: 18428529--18428585 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
18428519 TATCATATTT
18428529 TATTATTTATTA-TTA
1 TATTA-TTATTACTTA
18428544 CTATTATTATTACTTA
1 -TATTATTATTACTTA
**
18428560 TATTATTGCTACTTA
1 TATTATTATTACTTA
18428575 TCA-TATTATTA
1 T-ATTATTATTA
18428586 TATAATGGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 26 0.74
16 9 0.26
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.58
Consensus pattern (15 bp):
TATTATTATTACTTA
Found at i:18430810 original size:17 final size:16
Alignment explanation
Indices: 18430788--18430840 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
18430778 AATTTTTTTA
*
18430788 AAATATTATATAAATAT
1 AAATATTAAATAAA-AT
18430805 AAATATTAAATAAAAT
1 AAATATTAAATAAAAT
18430821 AATTATATTAAA-AAAAT
1 AA--ATATTAAATAAAAT
18430838 AAA
1 AAA
18430841 ACTTTCCCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 1 0.03
16 4 0.12
17 20 0.61
18 8 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATATTAAATAAAAT
Found at i:18430977 original size:13 final size:13
Alignment explanation
Indices: 18430954--18430987 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
18430944 CAACGGTGGA
18430954 GGAGA-GGAGAGG
1 GGAGAGGGAGAGG
18430966 GGAGAGGGAGAGG
1 GGAGAGGGAGAGG
18430979 GGAGAGGGA
1 GGAGAGGGA
18430988 TGGGTTGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (13 bp):
GGAGAGGGAGAGG
Found at i:18430998 original size:5 final size:5
Alignment explanation
Indices: 18430988--18431013 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18430978 GGGAGAGGGA
18430988 TGGGT TGGGT TGGGT TGGGT TGGGT T
1 TGGGT TGGGT TGGGT TGGGT TGGGT T
18431014 TTATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.58, T:0.42
Consensus pattern (5 bp):
TGGGT
Found at i:18433353 original size:15 final size:15
Alignment explanation
Indices: 18433333--18433393 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
18433323 TGATTTGTTC
18433333 AAATGAAGAAGAACA
1 AAATGAAGAAGAACA
18433348 AAATGAAGAAGAATTTTC-
1 AAATGAAGAAGAA----CA
*
18433366 AAGTGAAGAAGAACA
1 AAATGAAGAAGAACA
*
18433381 ACATGAAGAAGAA
1 AAATGAAGAAGAA
18433394 ATTTCAAAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 1 0.03
15 24 0.63
18 12 0.32
19 1 0.03
ACGTcount: A:0.59, C:0.07, G:0.21, T:0.13
Consensus pattern (15 bp):
AAATGAAGAAGAACA
Found at i:18433367 original size:33 final size:33
Alignment explanation
Indices: 18433330--18433401 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
18433320 ACATGATTTG
*
18433330 TTCAAATGAAGAAGAACAAAATGAAGAAGAATT
1 TTCAAATGAAGAAGAACAAAATGAAGAAGAAAT
* *
18433363 TTCAAGTGAAGAAGAACAACATGAAGAAGAAAT
1 TTCAAATGAAGAAGAACAAAATGAAGAAGAAAT
18433396 TTCAAA
1 TTCAAA
18433402 GGAGGATGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.56, C:0.08, G:0.18, T:0.18
Consensus pattern (33 bp):
TTCAAATGAAGAAGAACAAAATGAAGAAGAAAT
Found at i:18433538 original size:21 final size:21
Alignment explanation
Indices: 18433514--18433579 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
18433504 ATTAGAAGTG
* *
18433514 GAAATGAAGGAAGGAAAAGCT
1 GAAATGAAGGAACGAAAAGCA
18433535 GAAATGAAGGAACGAAAAGCA
1 GAAATGAAGGAACGAAAAGCA
* *
18433556 AAAATGAAGGAACTAAAAGCA
1 GAAATGAAGGAACGAAAAGCA
18433577 GAA
1 GAA
18433580 TTTGAGAAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.58, C:0.08, G:0.27, T:0.08
Consensus pattern (21 bp):
GAAATGAAGGAACGAAAAGCA
Found at i:18434340 original size:24 final size:24
Alignment explanation
Indices: 18434305--18434356 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
18434295 AGGTCCATTC
* **
18434305 GACGACGGACAAATAGGATTGGAT
1 GACGACGAACAAATAGGATCAGAT
18434329 GACGACGAACAAATAGGATCAGAT
1 GACGACGAACAAATAGGATCAGAT
18434353 GACG
1 GACG
18434357 GTCAATTCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.15, G:0.31, T:0.13
Consensus pattern (24 bp):
GACGACGAACAAATAGGATCAGAT
Found at i:18436104 original size:40 final size:39
Alignment explanation
Indices: 18436037--18436112 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 39
18436027 TAATTCATTA
18436037 ATTTTTTAAAAATTAAAAAATTCAAAAAATATATAAAAATT
1 ATTTTTTAAAAATTAAAAAATTCAAAAAA-ATA-AAAAATT
*
18436078 ATTTTTT-AAAATTAAAAAGTAT-AAAAAAATAAAAA
1 ATTTTTTAAAAATTAAAAAAT-TCAAAAAAATAAAAA
18436113 TATACATGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
38 4 0.12
39 3 0.09
40 18 0.55
41 8 0.24
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (39 bp):
ATTTTTTAAAAATTAAAAAATTCAAAAAAATAAAAAATT
Found at i:18437383 original size:46 final size:46
Alignment explanation
Indices: 18437301--18437577 Score: 365
Period size: 46 Copynumber: 6.0 Consensus size: 46
18437291 CATGGCAAAG
* * * * *
18437301 TGTGAAACGTAGGTATGGTGTTTCAGTGAAGTAAACCATACTGAAT
1 TGTGAAAAGTAGGTATGGTATTTCGGTGAAGAAAACCATACTGAGT
** * * *
18437347 TGCAAAAAGTAGGTATGGTATTTTGGTAAAGAAAACCATACTGAGC
1 TGTGAAAAGTAGGTATGGTATTTCGGTGAAGAAAACCATACTGAGT
* * *
18437393 TGTGAAAGGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGGTGAAGAAAACCATACTGAGT
* * *
18437439 TGCGAAAAGTAGGTATGATATTTCGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGGTGAAGAAAACCATACTGAGT
*
18437485 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGGTGAAGAAAACCATACTGAGT
* * * *
18437531 TGTGAAAAGTATGTATGGTATTTCCGTGAAGATAACCATATTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGGTGAAGAAAACCATACTGAGT
18437577 T
1 T
18437578 ATAGCAATGT
Statistics
Matches: 198, Mismatches: 33, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 198 1.00
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCGGTGAAGAAAACCATACTGAGT
Found at i:18437576 original size:92 final size:92
Alignment explanation
Indices: 18437301--18437577 Score: 419
Period size: 92 Copynumber: 3.0 Consensus size: 92
18437291 CATGGCAAAG
* * * *
18437301 TGTGAAACGTAGGTATGGTGTTTCAGTGAAGTAAACCATACTGAATTGCAAAAAGTAGGTATGGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGCGAAAAGTAGGTATGGT
* *
18437366 ATTTTGGTAAAGAAAACCATACTGAGC
66 ATTTCGGTAAAGAAAACCATACTGAGT
* *
18437393 TGTGAAAGGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGCGAAAAGTAGGTATGAT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGCGAAAAGTAGGTATGGT
18437458 ATTTCGGTAAAGAAAACCATACTGAGT
66 ATTTCGGTAAAGAAAACCATACTGAGT
* * *
18437485 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTGTGAAAAGTATGTATGGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGCGAAAAGTAGGTATGGT
* * * *
18437550 ATTTCCGTGAAGATAACCATATTGAGT
66 ATTTCGGTAAAGAAAACCATACTGAGT
18437577 T
1 T
18437578 ATAGCAATGT
Statistics
Matches: 169, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 169 1.00
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (92 bp):
TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGCGAAAAGTAGGTATGGT
ATTTCGGTAAAGAAAACCATACTGAGT
Found at i:18437833 original size:51 final size:51
Alignment explanation
Indices: 18437757--18437935 Score: 279
Period size: 51 Copynumber: 3.5 Consensus size: 51
18437747 AGGGTGTTAC
*
18437757 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
*
18437808 ATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTGAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* * * *
18437859 ATCACTTGCCACTTATCACTGATCAGATAAGTGTAACT-AGGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* *
18437909 ATCACTTATCACTTGTTACTGATCAGA
1 ATCACTTGTCACTTGTCACTGATCAGA
18437936 AGTACTGAAA
Statistics
Matches: 117, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
50 34 0.29
51 83 0.71
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
Found at i:18440863 original size:3 final size:3
Alignment explanation
Indices: 18440855--18440888 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
18440845 TTGAATCCAT
18440855 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A-GA AGA
18440889 CAAAATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:18442218 original size:28 final size:28
Alignment explanation
Indices: 18442154--18442218 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
18442144 CTAGTTTGGT
*
18442154 TCCATGCTCTCTTTTTCTCTTCGGTTCA
1 TCCATGCTCTCCTTTTCTCTTCGGTTCA
*
18442182 TCCAAGCTCTCCTTTTCTCTTCGGTTCA
1 TCCATGCTCTCCTTTTCTCTTCGGTTCA
*
18442210 TTCATGCTC
1 TCCATGCTC
18442219 GGCTTCCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.09, C:0.34, G:0.11, T:0.46
Consensus pattern (28 bp):
TCCATGCTCTCCTTTTCTCTTCGGTTCA
Found at i:18453838 original size:33 final size:33
Alignment explanation
Indices: 18453796--18454125 Score: 153
Period size: 33 Copynumber: 9.5 Consensus size: 33
18453786 TAAATGTGAA
18453796 GGTGGTTGCTAAGTGCTGATTCCCCGACTCATT
1 GGTGGTTGCTAAGTGCTGATTCCCCGACTCATT
*
18453829 GGTGGTTGCTAAGTGCTGATTCCACCGTATCTTGAATAT
1 GGTGGTTGCTAAGTGCTGATTCC-CCG-A-C-T-CAT-T
** *
18453868 AAAGAAGGTTGCTAAGTGCTGATT-CCC-A--CA-A
1 ---GGTGGTTGCTAAGTGCTGATTCCCCGACTCATT
* *
18453899 GG-GGTTGTTAAGTGCTGATTCCCCGATTCATT
1 GGTGGTTGCTAAGTGCTGATTCCCCGACTCATT
* *
18453931 GGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGT
1 GGTGGTTGCTAAGTGCTGATTCC-CCG-A--CT-CAT-T
* *
18453970 GAAGGGGGTTGCTAAGTGCTGATT-CCC--C-CA-A
1 ---GGTGGTTGCTAAGTGCTGATTCCCCGACTCATT
* * * *
18454001 GG-GGTTGCTATGTGCTGATTTCCCAAATCATT
1 GGTGGTTGCTAAGTGCTGATTCCCCGACTCATT
* *
18454033 GGTGGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGT
1 GGTGGTTGCTAAGTGCTGATTCC-CC-GA-C--T-CAT-T
* * *
18454073 GAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACT
1 G---GTGGTTGCTAAGTGCTGATTCCCCGACTCATT
18454109 GGTGGTTGCTAAGTGCT
1 GGTGGTTGCTAAGTGCT
18454126 CAATCCACCG
Statistics
Matches: 229, Mismatches: 28, Indels: 80
0.68 0.08 0.24
Matches are distributed among these distances:
27 34 0.15
28 9 0.04
29 1 0.00
31 4 0.02
32 4 0.02
33 77 0.34
34 8 0.03
35 3 0.01
36 3 0.01
37 4 0.02
38 7 0.03
39 4 0.02
40 6 0.03
41 3 0.01
42 41 0.18
43 21 0.09
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (33 bp):
GGTGGTTGCTAAGTGCTGATTCCCCGACTCATT
Found at i:18453930 original size:102 final size:101
Alignment explanation
Indices: 18453794--18454099 Score: 450
Period size: 102 Copynumber: 3.0 Consensus size: 101
18453784 TTTAAATGTG
*
18453794 AAGGTGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAGG-GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
* *
18453859 CTTGAATATAAAGAAGGTTGCTAAGTGCTGATTCCCAC
65 CTTGAATGTAAAG-GGGTTGCTAAGTGCTGATTCCCAC
* * *
18453897 AAGGGGTTGTTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
* * *
18453962 TTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TTGAATGT-AAAGGGGTTGCTAAGTGCTGATTCCCAC
* * * *
18453999 AAGGGGTTGCTATGTGCTGATTTCCCAAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
18454064 TTTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCC
66 -TTGAATGT-AAAGGGGTTGCTAAGTGCTGATTCCC
18454100 CGAATCACTG
Statistics
Matches: 184, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
102 144 0.78
103 40 0.22
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.33
Consensus pattern (101 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTGAATGTAAAGGGGTTGCTAAGTGCTGATTCCCAC
Found at i:18461398 original size:27 final size:30
Alignment explanation
Indices: 18461362--18461443 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 30
18461352 AAATGTGAAG
18461362 GGGGTTGCTAAGTGCTGATTCCC-A-CA-A
1 GGGGTTGCTAAGTGCTGATTCCCGATCATA
*
18461389 GGGGTTGCTAAGTGCTGATTCCCCGATTCATT
1 GGGGTTGCTAAGTGCTGATT-CCCGA-TCATA
18461421 GGTGGTTGCTAAGTGCTGATTCC
1 GG-GGTTGCTAAGTGCTGATTCC
18461444 ACCGTATTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
27 20 0.42
28 3 0.06
29 1 0.02
31 2 0.04
32 4 0.08
33 18 0.38
ACGTcount: A:0.17, C:0.21, G:0.30, T:0.32
Consensus pattern (30 bp):
GGGGTTGCTAAGTGCTGATTCCCGATCATA
Found at i:18461522 original size:102 final size:102
Alignment explanation
Indices: 18461345--18461590 Score: 384
Period size: 102 Copynumber: 2.4 Consensus size: 102
18461335 ATAAGCCGAA
*
18461345 GTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCACAAGGGGTTGCTAAGTGCTGATTC
1 GTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTC
* * *
18461410 CCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACC
66 CCCAAATCATTAGTGGTTGCTAAGTGCTGATTCCACC
* *
18461447 GTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAATGGGTTGCTATGTGCTGATTC
1 GTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTC
18461512 CCCAAATCATTAGTGGTTGCTAAGTGCTGATTCCACC
66 CCCAAATCATTAGTGGTTGCTAAGTGCTGATTCCACC
* * * * *
18461549 ATATCTTTGAATGTGAAAGAGGTTGCTAAGTGTTGATTCCCC
1 GTAT-TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCC
18461591 GAATCACTGG
Statistics
Matches: 132, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
102 99 0.75
103 33 0.25
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (102 bp):
GTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTC
CCCAAATCATTAGTGGTTGCTAAGTGCTGATTCCACC
Found at i:18469635 original size:10 final size:10
Alignment explanation
Indices: 18469622--18469658 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
18469612 TTTTAAAACC
18469622 TTTTTCCATT
1 TTTTTCCATT
18469632 TTTTTCCA-T
1 TTTTTCCATT
18469641 TTTTTCC-TT
1 TTTTTCCATT
18469650 CTTTTTCCA
1 -TTTTTCCA
18469659 GGTTTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTCCATT
Found at i:18469644 original size:19 final size:19
Alignment explanation
Indices: 18469622--18469658 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
18469612 TTTTAAAACC
18469622 TTTTTCCATT-TTTTTCCAT
1 TTTTTCC-TTCTTTTTCCAT
18469641 TTTTTCCTTCTTTTTCCA
1 TTTTTCCTTCTTTTTCCA
18469659 GGTTTTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTCCTTCTTTTTCCAT
Found at i:18469664 original size:19 final size:19
Alignment explanation
Indices: 18469623--18469664 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
18469613 TTTAAAACCT
**
18469623 TTTTCCATTTTTTTCCATT
1 TTTTCCATTTTTTTCCAGG
18469642 TTTTCC-TTCTTTTTCCAGG
1 TTTTCCATT-TTTTTCCAGG
18469661 TTTT
1 TTTT
18469665 TCTTTTCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.07, C:0.21, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTCCATTTTTTTCCAGG
Found at i:18472183 original size:29 final size:29
Alignment explanation
Indices: 18472128--18472183 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
18472118 TAACCATAAC
* * *
18472128 TATCGGATTAGGCCGGTTTTTGTGAAATT
1 TATCGGATTAGGCCGATTTTGGAGAAATT
18472157 TATCGGATTAGGCCGATTTTGGAGAAA
1 TATCGGATTAGGCCGATTTTGGAGAAA
18472184 GAAAGGGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.11, G:0.29, T:0.36
Consensus pattern (29 bp):
TATCGGATTAGGCCGATTTTGGAGAAATT
Found at i:18473053 original size:13 final size:13
Alignment explanation
Indices: 18473035--18473064 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18473025 AGAAAAGGTC
*
18473035 CTACCCAACTCCG
1 CTACCCAACTCCA
18473048 CTACCCAACTCCA
1 CTACCCAACTCCA
18473061 CTAC
1 CTAC
18473065 ACACCTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.53, G:0.03, T:0.17
Consensus pattern (13 bp):
CTACCCAACTCCA
Found at i:18474857 original size:137 final size:131
Alignment explanation
Indices: 18474589--18474890 Score: 331
Period size: 137 Copynumber: 2.2 Consensus size: 131
18474579 GGGTGTGACA
* * *
18474589 TGTATTTTTTATTTAATGTTGCTTAAAACTTTTTAAATTTTTAACTAAATTTTTTAACATATTAG
1 TGTATTTTTTATTTCATGTTGCTTCAAACTTTTTAAAATTTTAACTAAATTTTTTAACATATTAG
* * * * * *
18474654 TTTTTTGGTTAGATGGTTGCAAATACATCCTTGAGTCTCGGGTTAGATTCTTTTCCTATTCACAT
66 TTTTTTGGTTAGATAGTTGCAAATACATCCTTAAATCTCGGGTTAGATTCTTCTACTACTCACAT
18474719 T
131 T
* ** *
18474720 TGTATTTTTTATTTCATGATGCTTCAAGTTTTTTAAAATTTTAA-TTAATTTTTT-ACATATTAG
1 TGTATTTTTTATTTCATGTTGCTTCAAACTTTTTAAAATTTTAACTAAATTTTTTAACATATTAG
* * *
18474783 TTATTTTATTAGATCGTTAGATAGTTGCAATTACATCCTTAAATCTCGAGG-TCGATTCTTCTAT
66 ---TTTT-TT-G---GTTAGATAGTTGCAAATACATCCTTAAATCTCG-GGTTAGATTCTTCTAC
*
18474847 TACTCGCATT
122 TACTCACATT
18474857 TGTATTTTTTTTATTTCATGTTGCTTCAAACTTT
1 TGTA--TTTTTTATTTCATGTTGCTTCAAACTTT
18474891 ATTTAATTAA
Statistics
Matches: 140, Mismatches: 20, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
129 9 0.06
130 9 0.06
131 38 0.27
132 4 0.03
133 2 0.01
134 1 0.01
137 50 0.36
138 2 0.01
139 25 0.18
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.51
Consensus pattern (131 bp):
TGTATTTTTTATTTCATGTTGCTTCAAACTTTTTAAAATTTTAACTAAATTTTTTAACATATTAG
TTTTTTGGTTAGATAGTTGCAAATACATCCTTAAATCTCGGGTTAGATTCTTCTACTACTCACAT
T
Done.