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 129 of 226
Found at i:40024971 original size:23 final size:25
Alignment explanation
Indices: 40024919--40024977 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 25
40024909 CAAATAAAAA
40024919 AATAATAATACAACATAACGTTTAG
1 AATAATAATACAACATAACGTTTAG
* * *
40024944 -GTAATAATACTA-ATAA-TTTTAG
1 AATAATAATACAACATAACGTTTAG
40024966 AATAATAATACA
1 AATAATAATACA
40024978 CAATAACTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
22 5 0.18
23 13 0.46
24 10 0.36
ACGTcount: A:0.53, C:0.08, G:0.07, T:0.32
Consensus pattern (25 bp):
AATAATAATACAACATAACGTTTAG
Found at i:40026841 original size:44 final size:45
Alignment explanation
Indices: 40026762--40026918 Score: 142
Period size: 44 Copynumber: 3.6 Consensus size: 45
40026752 TAATCCGCTT
* * * * ** *
40026762 CACTACAACTTCAGGGAGATAGGA-TTATCGACTTCAATCTGCTC
1 CACTGCAACTTCAAGGAGATAAGACTTGTCTTCTTCAGTCTGCTC
* *
40026806 CACTGCAA-TCTCAAGGAGATAAGATTTG-CTTCTTCAGTCTGCCC
1 CACTGCAACT-TCAAGGAGATAAGACTTGTCTTCTTCAGTCTGCTC
** * *
40026850 CACTGTGACTTCAGGGGGATAAGACTTGTCTTC-TCAGTCTGCTC
1 CACTGCAACTTCAAGGAGATAAGACTTGTCTTCTTCAGTCTGCTC
* *
40026894 CACTGCAACTTCAGGGATATAAGAC
1 CACTGCAACTTCAAGGAGATAAGAC
40026919 CTGATGCGAT
Statistics
Matches: 91, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
43 1 0.01
44 83 0.91
45 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (45 bp):
CACTGCAACTTCAAGGAGATAAGACTTGTCTTCTTCAGTCTGCTC
Found at i:40026989 original size:44 final size:44
Alignment explanation
Indices: 40026725--40027190 Score: 129
Period size: 44 Copynumber: 10.7 Consensus size: 44
40026715 CTCTACTGCT
* * * * *
40026725 ACTTTAGAGAGATTAGATCGATTACTTTAATCCGCTTCACTACA
1 ACTTCAGAGAGATAAGATCTATTACTTCAATCCGCTCCACTACA
* * * * *
40026769 ACTTCAGGGAGATAGGAT-TATCGACTTCAATCTGCTCCACTGCA
1 ACTTCAGAGAGATAAGATCTAT-TACTTCAATCCGCTCCACTACA
* * * * * ***
40026813 A-TCTCA-AGGAGATAAGATTTGCTT-CTTCAGTCTGCCCCACTGTG
1 ACT-TCAGA-GAGATAAGATCT-ATTACTTCAATCCGCTCCACTACA
* * * * *
40026857 ACTTCAGGGGGATAAGA-CT-TGT-CTTCTCAGTCTGCTCCACTGCA
1 ACTTCAGAGAGATAAGATCTAT-TAC-T-TCAATCCGCTCCACTACA
* * * * * * * ** *
40026901 ACTTCAGGGATATAAGA-C-CTGA-TGCGATCCACTCTGCTGCA
1 ACTTCAGAGAGATAAGATCTATTACTTCAATCCGCTCCACTACA
*
40026942 ACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACA
1 ACTTCAGAGAGATAAGATCTATTACTTCAATCCGCTCCACTACA
* ** ** *
40026986 ACTTCA-AGGAGATAGGAT-TATCGGCTTCAATATGCTCCACTATA
1 ACTTCAGA-GAGATAAGATCTAT-TACTTCAATCCGCTCCACTACA
* * * * * * * * *
40027030 ACTTCAGGGAAATAAGATTTGTCATCTTCGATCTGCCCCACTGCA
1 ACTTCAGAGAGATAAGATCTATTA-CTTCAATCCGCTCCACTACA
* * * * * * * * *
40027075 ACTTCAGGGGGATAAGACCT-GT--TGCGATCCACTCTACTGCA
1 ACTTCAGAGAGATAAGATCTATTACTTCAATCCGCTCCACTACA
* **
40027116 ACTTCAGAGAGATAAGATCTATTACTTTAAT-CATTCCACTACA
1 ACTTCAGAGAGATAAGATCTATTACTTCAATCCGCTCCACTACA
* * * *
40027159 ACTTCTGGGAGATAGGAT-TATCGACTTCAATC
1 ACTTCAGAGAGATAAGATCTAT-TACTTCAATC
40027191 TACTTCCTTA
Statistics
Matches: 308, Mismatches: 89, Indels: 50
0.69 0.20 0.11
Matches are distributed among these distances:
41 58 0.19
42 8 0.03
43 42 0.14
44 164 0.53
45 35 0.11
46 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
ACTTCAGAGAGATAAGATCTATTACTTCAATCCGCTCCACTACA
Found at i:40027106 original size:174 final size:173
Alignment explanation
Indices: 40026767--40027189 Score: 514
Period size: 173 Copynumber: 2.4 Consensus size: 173
40026757 CGCTTCACTA
* * * * * * *
40026767 CAACTTCAGGGAGATAGGAT-TATCGACTTCAATCTGCTCCACTGCAA-TCTCAAGGAGATAAGA
1 CAACTTCAGAGAGATAAGATCTAT-TACTTTAATCCGCTCCACTACAACT-TCAAGGAGATAGGA
** * * * * ** * *
40026830 TT-TGCTTCTTCAGTCTGCCCCACTGTGACTTCAGGGGGATAAGACTTGTCTTCTCAGTCTGCTC
64 TTAT-CGACTTCAATATGCCCCACTATAACTTCAGGGAAATAAGACTTGTCATCTCAGTCTGCCC
* *
40026894 CACTGCAACTTCAGGGATATAAGACCTGATGCGATCCACTCTGCTG
128 CACTGCAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTG
40026940 CAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATT
* * *
40027005 ATCGGCTTCAATATGCTCCACTATAACTTCAGGGAAATAAGATTTGTCATCTTC-GATCTGCCCC
66 ATCGACTTCAATATGCCCCACTATAACTTCAGGGAAATAAGACTTGTCATC-TCAG-TCTGCCCC
* *
40027069 ACTGCAACTTCAGGGGGATAAGACCTGTTGCGATCCACTCTACTG
129 ACTGCAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTG
** **
40027114 CAACTTCAGAGAGATAAGATCTATTACTTTAAT-CATTCCACTACAACTTCTGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATT
40027178 ATCGACTTCAAT
66 ATCGACTTCAAT
40027190 CTACTTCCTT
Statistics
Matches: 217, Mismatches: 28, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
173 129 0.59
174 88 0.41
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (173 bp):
CAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATT
ATCGACTTCAATATGCCCCACTATAACTTCAGGGAAATAAGACTTGTCATCTCAGTCTGCCCCAC
TGCAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTG
Found at i:40027163 original size:217 final size:217
Alignment explanation
Indices: 40026725--40027132 Score: 511
Period size: 217 Copynumber: 1.9 Consensus size: 217
40026715 CTCTACTGCT
* * * *
40026725 ACTTTAGAGAGATTAGATCGATTACTTTAATCCGCTTCACTACAACTTCAGGGAGATAGGATTAT
1 ACTTCAGAGAGATAAGATCGATTACTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATTAT
* * * *
40026790 CGACTTCAATCTGCTCCACTGCAATCTCAAGGAGATAAGATTTGCTTCTTCAGTCTGCCCCACTG
66 CGACTTCAATATGCTCCACTACAATCTCAAGGAAATAAGATTTGCATCTTCAGTCTGCCCCACTG
** * * ** * *
40026855 TGACTTCAGGGGGATAAGACTTGTCTTCTCAGTCTGCTCCACTGCAACTTCAGGGATATAAGACC
131 CAACTTCAGGGGGATAAGACCTGTCTGCTCAGTCCACTCCACTGCAACTTCAGAGAGATAAGACC
* * ** *
40026920 TGATGCGATCCACTCTGCTGCA
196 TGATACAATCCACTCCACTACA
*
40026942 ACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATTAT
1 ACTTCAGAGAGATAAGATCGATTACTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATTAT
* * *
40027007 CGGCTTCAATATGCTCCACTATAA-CTTCAGGGAAATAAGATTTGTCATCTTC-GATCTGCCCCA
66 CGACTTCAATATGCTCCACTACAATC-TCAAGGAAATAAGATTTG-CATCTTCAG-TCTGCCCCA
* *
40027070 CTGCAACTTCAGGGGGATAAGACCTGT-TGC-GA-TCCACTCTACTGCAACTTCAGAGAGATAAG
128 CTGCAACTTCAGGGGGATAAGACCTGTCTGCTCAGTCCACTCCACTGCAACTTCAGAGAGATAAG
40027132 A
193 A
40027133 TCTATTACTT
Statistics
Matches: 166, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
215 26 0.16
216 2 0.01
217 99 0.60
218 39 0.23
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (217 bp):
ACTTCAGAGAGATAAGATCGATTACTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATTAT
CGACTTCAATATGCTCCACTACAATCTCAAGGAAATAAGATTTGCATCTTCAGTCTGCCCCACTG
CAACTTCAGGGGGATAAGACCTGTCTGCTCAGTCCACTCCACTGCAACTTCAGAGAGATAAGACC
TGATACAATCCACTCCACTACA
Found at i:40027330 original size:128 final size:128
Alignment explanation
Indices: 40027187--40027614 Score: 732
Period size: 128 Copynumber: 3.3 Consensus size: 128
40027177 TATCGACTTC
40027187 AATCTACTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCGATCTGCTCCGCTACTACTTAGGG
1 AATCTACTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCGATCTGCTCCGCTACTACTTAGGG
** *
40027252 AGACAAGATCTGCAATTTCTGACCTATTCCACTGCTGGCCAGGGACATAGGACTTGTGGCTTA
66 AGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTA
*
40027315 AATCTGCTTCCTTACACTTGAAGATAAGATTCG-CTGTCTTCGATCTGCTCCGCTACTACTTAGG
1 AATCTACTTCCTTACACTTGAAGATAAGATTCGTC-GTCTTCGATCTGCTCCGCTACTACTTAGG
* *
40027379 GAGACAAGATCTGCAATTTCCAACTTATTCCACTGCTGGTCAGGGACATAGGACTTGTAGCTTA
65 GAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTA
* * * *
40027443 AATCTACTTTCTTACACTTGAAGATAAGATTCGTCGTCTTCAATCTGCTCTGCTACTGCTTAGGG
1 AATCTACTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCGATCTGCTCCGCTACTACTTAGGG
40027508 AGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTA
66 AGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTA
* *
40027571 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGAT
1 AATCTACTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCGAT
40027615 TTGTTTCCCT
Statistics
Matches: 281, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
127 1 0.00
128 279 0.99
129 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (128 bp):
AATCTACTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCGATCTGCTCCGCTACTACTTAGGG
AGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTA
Found at i:40028940 original size:41 final size:41
Alignment explanation
Indices: 40028730--40028942 Score: 221
Period size: 41 Copynumber: 5.2 Consensus size: 41
40028720 GTTTTCGAGG
** * * * *
40028730 CTTTAGCAACGTTTTTGAAGAAGCGCTGCTAATTCTCGGGT
1 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGT
* ** * * * *
40028771 CTTTAACGATGCTTTTGAATAA-CAGCCGCTAATGCACGGGT
1 CTTTAGCGGCGTTTTTAAAAAAGC-GCCGCTAATGCTCGGGT
* *
40028812 CTTTAACGGCGTTTTTAAAAAAGTGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGT
*
40028853 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGATCGGGT
1 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGT
* * * * *
40028894 CTTTAGCGGCGTTTTTTAAGAAGCGTCGCTAATTCTCGAGT
1 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGT
40028935 CTTTAGCG
1 CTTTAGCG
40028943 CCCCAAAATA
Statistics
Matches: 146, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 145 0.99
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGT
Found at i:40033635 original size:18 final size:18
Alignment explanation
Indices: 40033612--40033671 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
40033602 ATGTAATTCT
40033612 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
40033630 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
40033647 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
40033665 AATGTAA
1 AATGTAA
40033672 CTTGTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:40033948 original size:43 final size:44
Alignment explanation
Indices: 40033879--40033963 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 44
40033869 GTTTTTAGTG
* *
40033879 GCGTTTGTGGTAAAAAGTGCCGCTAAAGGTCTTGGTCTTTAGCA
1 GCGTTTGTGGTAAAAAGTGCCGCTAAAGGTCCTAGTCTTTAGCA
*
40033923 GCGTTTGTGG-GAAAAGTGCCGCTAAAGGTCCTAGTCTTTAG
1 GCGTTTGTGGTAAAAAGTGCCGCTAAAGGTCCTAGTCTTTAG
40033964 TGGCATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 28 0.74
44 10 0.26
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (44 bp):
GCGTTTGTGGTAAAAAGTGCCGCTAAAGGTCCTAGTCTTTAGCA
Found at i:40034477 original size:7 final size:7
Alignment explanation
Indices: 40034467--40034514 Score: 89
Period size: 7 Copynumber: 7.0 Consensus size: 7
40034457 TCCATTTTAC
40034467 TTTTTCA
1 TTTTTCA
40034474 -TTTTCA
1 TTTTTCA
40034480 TTTTTCA
1 TTTTTCA
40034487 TTTTTCA
1 TTTTTCA
40034494 TTTTTCA
1 TTTTTCA
40034501 TTTTTCA
1 TTTTTCA
40034508 TTTTTCA
1 TTTTTCA
40034515 CCCCTTTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 6 0.15
7 34 0.85
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTCA
Found at i:40048261 original size:25 final size:25
Alignment explanation
Indices: 40048199--40048290 Score: 91
Period size: 25 Copynumber: 3.7 Consensus size: 25
40048189 TTCGACCCAT
* * *
40048199 AGCTCGTGTGAGCAAACCGATCTAC
1 AGCTCGAGTGAGCATACTGATCTAC
* *
40048224 AGCTC-ATGAGAGCATACTGATCTAT
1 AGCTCGA-GTGAGCATACTGATCTAC
40048249 AGCTCGAGTGAGCATACTGAT-TCAC
1 AGCTCGAGTGAGCATACTGATCT-AC
40048274 AGCTCGTA-TGAGCATAC
1 AGCTCG-AGTGAGCATAC
40048291 ATGTACAGGA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
24 1 0.02
25 53 0.95
26 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (25 bp):
AGCTCGAGTGAGCATACTGATCTAC
Found at i:40051860 original size:20 final size:20
Alignment explanation
Indices: 40051822--40051860 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
40051812 TTGGCTTGTG
**
40051822 TTATGGTATATTGGTTGTTA
1 TTATGGTATATTGAATGTTA
*
40051842 TTATGGTATTTTGAATGTT
1 TTATGGTATATTGAATGTT
40051861 GACAATGATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.23, T:0.56
Consensus pattern (20 bp):
TTATGGTATATTGAATGTTA
Found at i:40052987 original size:19 final size:19
Alignment explanation
Indices: 40052960--40052997 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
40052950 ACATATCAAT
40052960 CATAAATAAAAAAATATCA
1 CATAAATAAAAAAATATCA
* *
40052979 CATAGATAACAAAATATCA
1 CATAAATAAAAAAATATCA
40052998 ATCTCAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.13, G:0.03, T:0.21
Consensus pattern (19 bp):
CATAAATAAAAAAATATCA
Found at i:40053208 original size:22 final size:22
Alignment explanation
Indices: 40053183--40053225 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
40053173 AAGCCACCAC
40053183 TGATATACAGATATACTGCCAT
1 TGATATACAGATATACTGCCAT
* *
40053205 TGATTTGCAGATATACTGCCA
1 TGATATACAGATATACTGCCA
40053226 CTACTTTCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (22 bp):
TGATATACAGATATACTGCCAT
Found at i:40057862 original size:11 final size:11
Alignment explanation
Indices: 40057837--40057878 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
40057827 TAACATGTTG
40057837 AATTTTA-ATT
1 AATTTTATATT
*
40057847 AATTTTATAAT
1 AATTTTATATT
*
40057858 AATTTTTTATT
1 AATTTTATATT
40057869 AATTTT-TATT
1 AATTTTATATT
40057879 TCTTTTCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 11 0.39
11 17 0.61
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
AATTTTATATT
Found at i:40064990 original size:27 final size:27
Alignment explanation
Indices: 40064958--40065552 Score: 476
Period size: 27 Copynumber: 22.1 Consensus size: 27
40064948 TTTGGACCTA
* *
40064958 AATACCCCCGAAGGGTAAAATGACCGA
1 AATACCCCTGAAGGGTAAAATGACCGT
* * * * *
40064985 AATACCCTTGATGGATAAAATGATCGA
1 AATACCCCTGAAGGGTAAAATGACCGT
* **
40065012 AATA-CCCTCGATGGGTAAAATGACCAA
1 AATACCCCT-GAAGGGTAAAATGACCGT
* * * *
40065039 AAT-GCCCTCAATGGGTAAAATGATCGA
1 AATACCCCTGAA-GGGTAAAATGACCGT
* *
40065066 AATA-CCCTCGATA-GGTAAAATGACTGA
1 AATACCCCT-GA-AGGGTAAAATGACCGT
* * **
40065093 AATGCCCC-CATAGGGTAAAATGACCAA
1 AATACCCCTGA-AGGGTAAAATGACCGT
* *
40065120 AATACCCCT-ATAGGGTAGAAT-ACCGA
1 AATACCCCTGA-AGGGTAAAATGACCGT
* *
40065146 AATACCCC-CATAGGGTAAAATAACCGT
1 AATACCCCTGA-AGGGTAAAATGACCGT
*
40065173 AATACCCCTGTAGGGTAAAATGACCGT
1 AATACCCCTGAAGGGTAAAATGACCGT
* *
40065200 AATACCCCTGTAGGGTAAAATGACTGT
1 AATACCCCTGAAGGGTAAAATGACCGT
* * * *
40065227 AATACCCTTGTAGGGTAAAATAACTGT
1 AATACCCCTGAAGGGTAAAATGACCGT
* **
40065254 AATACCCCTGTAGGGTAAAATGATTGT
1 AATACCCCTGAAGGGTAAAATGACCGT
* *
40065281 AATGCCCCTGAAAGGTAAAATGACCGT
1 AATACCCCTGAAGGGTAAAATGACCGT
* * *
40065308 AATGCCCCTGTAGGGTAAAATGACCAT
1 AATACCCCTGAAGGGTAAAATGACCGT
* *
40065335 AATACCCCTGTAGGGTAAAATGACCGC
1 AATACCCCTGAAGGGTAAAATGACCGT
* * *
40065362 AATGCCCCTGTAGGGTAAAATGACTGT
1 AATACCCCTGAAGGGTAAAATGACCGT
* *
40065389 AATGCCCCT-ATAGGATAAAATGACCGT
1 AATACCCCTGA-AGGGTAAAATGACCGT
* * **
40065416 AAT-GCCCTTATAGGGTAAAATGATAGT
1 AATACCCCTGA-AGGGTAAAATGACCGT
* * *
40065443 AATACCCTTGTAGGGTAAAATGACCCT
1 AATACCCCTGAAGGGTAAAATGACCGT
** *
40065470 AATACGTCTGTAGGGTAAAATGACCGT
1 AATACCCCTGAAGGGTAAAATGACCGT
* * * *
40065497 AATA-CCTTGTAGGGTAAAATTACCAT
1 AATACCCCTGAAGGGTAAAATGACCGT
40065523 AATACCCCT-ATAGGGTAAAATGACCGT
1 AATACCCCTGA-AGGGTAAAATGACCGT
40065550 AAT
1 AAT
40065553 GCCCTGGTGT
Statistics
Matches: 476, Mismatches: 75, Indels: 34
0.81 0.13 0.06
Matches are distributed among these distances:
26 55 0.12
27 413 0.87
28 7 0.01
29 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
AATACCCCTGAAGGGTAAAATGACCGT
Found at i:40065650 original size:24 final size:24
Alignment explanation
Indices: 40065623--40065674 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
40065613 TTAAATGATA
*
40065623 GATTTGTCTGTG-TTTAGTATGACT
1 GATTTGTCTGTGATTT-GAATGACT
40065647 GATTTGTCTGTGATTTGAATGACT
1 GATTTGTCTGTGATTTGAATGACT
40065671 GATT
1 GATT
40065675 CTGAACATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.19, C:0.08, G:0.25, T:0.48
Consensus pattern (24 bp):
GATTTGTCTGTGATTTGAATGACT
Found at i:40065794 original size:27 final size:27
Alignment explanation
Indices: 40065739--40065802 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
40065729 TGGAGGAAGT
*
40065739 ACTA-TACTGGTGGCTCTGCCACAATC
1 ACTATTACTGGTGGCTCTGCAACAATC
*
40065765 ACTGTTACTGGTGGCT-TGGCAACAGA-C
1 ACTATTACTGGTGGCTCT-GCAACA-ATC
40065792 ACTATTACTGG
1 ACTATTACTGG
40065803 CAGCTTTGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 4 0.12
27 27 0.84
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (27 bp):
ACTATTACTGGTGGCTCTGCAACAATC
Found at i:40065855 original size:26 final size:26
Alignment explanation
Indices: 40065800--40065855 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
40065790 ACACTATTAC
** *
40065800 TGGCAGCTTTGCTGCAATACTGTTGT
1 TGGCAGCTTTGCTGCAATACTACTGA
* *
40065826 TGGCAGCTTTGCTGCGATGCTACTGA
1 TGGCAGCTTTGCTGCAATACTACTGA
40065852 TGGC
1 TGGC
40065856 TTTGTGCCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.14, C:0.21, G:0.30, T:0.34
Consensus pattern (26 bp):
TGGCAGCTTTGCTGCAATACTACTGA
Found at i:40065887 original size:32 final size:32
Alignment explanation
Indices: 40065846--40066060 Score: 204
Period size: 32 Copynumber: 6.7 Consensus size: 32
40065836 GCTGCGATGC
* **
40065846 TACTGATGGCTTTGTGCCAATCATAGT-ACCAT
1 TACTGATGGCTTTGTGCCGATCATA-TCACTGT
* * *
40065878 TACTGATGGCTTTGTGTCGATTATATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATCACTGT
* * *
40065910 TACCGATGG-TTATGTGTCGATCATTTCACTGT
1 TACTGATGGCTT-TGTGCCGATCATATCACTGT
* *
40065942 TACTGATGG-TTGTGTGTCGATCATATCACTGC
1 TACTGATGGCTT-TGTGCCGATCATATCACTGT
* * **
40065974 TACTGATGGCTTTGTGCCGATCATGTTACCAT
1 TACTGATGGCTTTGTGCCGATCATATCACTGT
* *
40066006 TATTGATGG-TTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTT-TGTGCCGATCATATCACTGT
*
40066038 TACTGATGGCTTTGTGCCAATCA
1 TACTGATGGCTTTGTGCCGATCA
40066061 CATTACTATA
Statistics
Matches: 151, Mismatches: 27, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
31 5 0.03
32 142 0.94
33 4 0.03
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATCACTGT
Found at i:40066082 original size:64 final size:64
Alignment explanation
Indices: 40065843--40066066 Score: 274
Period size: 64 Copynumber: 3.5 Consensus size: 64
40065833 TTTGCTGCGA
* * *
40065843 TGCTACTGATGGCTTTGTGCCAATCATAGTACCATTACTGATGGCTT-TGTGTCGATTATATTAC
1 TGCTACTGATGGCTTTGTGCCAATCATATTACCATTACTGATGG-TTGTGTGTCGATCATATCAC
* * * * **
40065907 TGTTACCGATGG-TTATGTGTCGATCAT-TTCACTGTTACTGATGGTTGTGTGTCGATCATATCA
1 TGCTACTGATGGCTT-TGTGCCAATCATATT-ACCATTACTGATGGTTGTGTGTCGATCATATCA
40065970 C
64 C
* * * *
40065971 TGCTACTGATGGCTTTGTGCCGATCATGTTACCATTATTGATGGTTGTGTGCCGATCATATCAC
1 TGCTACTGATGGCTTTGTGCCAATCATATTACCATTACTGATGGTTGTGTGTCGATCATATCAC
*
40066035 TGCTACTGATGGCTTTGTGCCAATCACATTAC
1 TGCTACTGATGGCTTTGTGCCAATCATATTAC
40066067 TATACTTATG
Statistics
Matches: 136, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
63 5 0.04
64 127 0.93
65 4 0.03
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (64 bp):
TGCTACTGATGGCTTTGTGCCAATCATATTACCATTACTGATGGTTGTGTGTCGATCATATCAC
Found at i:40074632 original size:79 final size:81
Alignment explanation
Indices: 40074496--40074680 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
40074486 TTGAATGATG
* *
40074496 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
40074560 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
40074575 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
40074637 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
40074655 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40074681 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:40074694 original size:40 final size:40
Alignment explanation
Indices: 40074497--40074680 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
40074487 TGAATGATGT
* * * *
40074497 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
40074537 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
40074577 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
40074615 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
40074656 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
40074681 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:40074702 original size:79 final size:79
Alignment explanation
Indices: 40074549--40074713 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
40074539 GGACTAAGAT
* * **
40074549 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
40074614 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
40074628 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
40074691 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
40074707 CCGAAGG
1 CCGAAGG
40074714 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:40082498 original size:40 final size:39
Alignment explanation
Indices: 40082415--40082598 Score: 201
Period size: 40 Copynumber: 4.6 Consensus size: 39
40082405 TGAATGATGC
* * * *
40082415 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAAT
* * *
40082455 CCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAAT
*
40082495 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
40082534 CCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA-
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AAT
*
40082574 CCGGGCTATGTCCGGAAGGCATTTG
1 CCGGGCTAAGTCC-GAAGGCATTTG
40082599 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 37 0.30
40 75 0.61
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:40082550 original size:79 final size:81
Alignment explanation
Indices: 40082415--40082598 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
40082405 TGAATGATGC
* *
40082415 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
*
40082479 GTGCGAGATACTA-ATT
66 GTGCGAGATACTATA-A
* * * **
40082495 CCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAAT
*
40082557 TGTGCGAGTTACTATAA
65 TGTGCGAGATACTATAA
* *
40082574 CCGGGCTATGTCCGGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
40082599 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.64
80 31 0.35
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATAA
Found at i:40082620 original size:79 final size:79
Alignment explanation
Indices: 40082467--40082631 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
40082457 GGACTAAGAT
* * **
40082467 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
40082532 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
40082546 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCGGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
40082609 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
40082625 CCGAAGG
1 CCGAAGG
40082632 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:40087511 original size:24 final size:24
Alignment explanation
Indices: 40087462--40087512 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
40087452 CAACCCATAA
* * *
40087462 TTATTTTTTATTTTTCTTTTCTTT
1 TTATATTTTATTTTTCTCTACTTT
40087486 TTATATTTTATTTTTTCTCTACTTT
1 TTATATTTTA-TTTTTCTCTACTTT
40087511 TT
1 TT
40087513 CAACCACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (24 bp):
TTATATTTTATTTTTCTCTACTTT
Found at i:40097532 original size:30 final size:30
Alignment explanation
Indices: 40097477--40097534 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
40097467 TCCGATATTT
*
40097477 GGGGTAAAAGTGTAAATATGTAAAAGTTTA
1 GGGGTAAAAGTGTAAATATGGAAAAGTTTA
* * *
40097507 GGGGTAAAATTGTAATTTTGGAAAAGTT
1 GGGGTAAAAGTGTAAATATGGAAAAGTT
40097535 AGAGTCGATG
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:0.40, C:0.00, G:0.28, T:0.33
Consensus pattern (30 bp):
GGGGTAAAAGTGTAAATATGGAAAAGTTTA
Found at i:40097984 original size:50 final size:50
Alignment explanation
Indices: 40097872--40098111 Score: 198
Period size: 50 Copynumber: 4.7 Consensus size: 50
40097862 ATTTGGGTAA
* * * *
40097872 AGAGATCCCATCTAAGACCATGTCTGGGACATGACATTGGCATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATG
* *
40097928 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
40097978 AGAGGTCCTC-CGTAAGACCATGTTTGGGACATGGCATGGGCACCAATATG
1 AGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
40098028 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** *
40098077 AAACATCCCATGTAAGACAATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
40098112 TTAGGCATGT
Statistics
Matches: 153, Mismatches: 28, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
49 33 0.22
50 77 0.50
51 1 0.01
52 1 0.01
53 2 0.01
55 1 0.01
56 38 0.25
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:40108763 original size:225 final size:224
Alignment explanation
Indices: 40108363--40108828 Score: 819
Period size: 225 Copynumber: 2.1 Consensus size: 224
40108353 CATCATCCAT
* * *
40108363 GACTATAAACATTAGCAAACTCATAACAAAACCTATATACATGCCACAACCCAAAAAGAGATACA
1 GACTATAAACATTAACAAACTCATAACAAAACCTATATACATGCCACAACCCAAAAAAAGATAAA
*
40108428 AAAGCTACCAAAATAGTTGGATAGTGTGAGCTTTATGGCTGATCCTTCCGATCAGTCCACAACTG
66 AAAGCTACCAAAATAGTTGGATAGTGTGAGCTTTATGGCTGATCCTTCCGATCAGGCCACAACTG
* *
40108493 TTATCTACAAAATAACGTGAGAAAAATAATAAGCTCAAGTAGCTTAGTAAGATCATAGTGTAATA
131 TTATCTACAAAATAACATGAGAAAAATAATAAGCTCAAATAGCTTAGTAAGATCATAGTGTAATA
40108558 TCTACTTGACTTATTTTAGTTAACATAAG
196 TCTACTTGACTTATTTTAGTTAACATAAG
*
40108587 GACTATCAACATTAACAAACTCATAACAAAACCTATATACATGCCACAACCCAAAAAAAGATAAA
1 GACTATAAACATTAACAAACTCATAACAAAACCTATATACATGCCACAACCCAAAAAAAGAT-AA
40108652 AAAAGCTACCAAAATAGTTGGATAGTGTGAGCTTTATGGCCT-ATCCTTCCGATCAGGCCACAAC
65 AAAAGCTACCAAAATAGTTGGATAGTGTGAGCTTTATGG-CTGATCCTTCCGATCAGGCCACAAC
40108716 TGTTATCTACAAAATAACATGAGAAAAATAATAAGCTCAAATAGCTTAGTAAGATCATAGTGTAA
129 TGTTATCTACAAAATAACATGAGAAAAATAATAAGCTCAAATAGCTTAGTAAGATCATAGTGTAA
40108781 TATCTACTTGACTTATTTTAGTTAACATAAG
194 TATCTACTTGACTTATTTTAGTTAACATAAG
*
40108812 GACT-TAAAAATATAACA
1 GACTATAAACAT-TAACA
40108829 TGCTAACTAA
Statistics
Matches: 230, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
224 64 0.28
225 164 0.71
226 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (224 bp):
GACTATAAACATTAACAAACTCATAACAAAACCTATATACATGCCACAACCCAAAAAAAGATAAA
AAAGCTACCAAAATAGTTGGATAGTGTGAGCTTTATGGCTGATCCTTCCGATCAGGCCACAACTG
TTATCTACAAAATAACATGAGAAAAATAATAAGCTCAAATAGCTTAGTAAGATCATAGTGTAATA
TCTACTTGACTTATTTTAGTTAACATAAG
Found at i:40109073 original size:20 final size:20
Alignment explanation
Indices: 40109050--40109111 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
40109040 ATGTAGTTAA
*
40109050 GGGCACCGAACTGCAAACAG
1 GGGCACCGAAGTGCAAACAG
*
40109070 GGGCA-CG-AGTGTGAGAACAG
1 GGGCACCGAAGTG-CA-AACAG
*
40109090 GGGCACCGAAGTGCAAATAG
1 GGGCACCGAAGTGCAAACAG
40109110 GG
1 GG
40109112 ACATTGAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.09
19 3 0.09
20 21 0.62
21 3 0.09
22 4 0.12
ACGTcount: A:0.32, C:0.21, G:0.39, T:0.08
Consensus pattern (20 bp):
GGGCACCGAAGTGCAAACAG
Found at i:40109135 original size:40 final size:40
Alignment explanation
Indices: 40109041--40109198 Score: 110
Period size: 40 Copynumber: 4.0 Consensus size: 40
40109031 GGCACATACA
* * *
40109041 TGTAGTTAA-GGGCACCGAACTGCAAACAGGGGCA-CG-AG
1 TGTA-TTAAGGGGCACCGAAGTGCAAATAGGGACATCGAAG
** *
40109079 TGTGAGAACAGGGGCACCGAAGTGCAAATAGGGACATTGAAG
1 TGT-ATTA-AGGGGCACCGAAGTGCAAATAGGGACATCGAAG
* * * *
40109121 TGTATTCAGTGGCA-C-AATTGTGCAAATAGGCACACCGAAG
1 TGTATTAAGGGGCACCGAA--GTGCAAATAGGGACATCGAAG
* ** *
40109161 TGTATTAAGGGGCACAGTTGTGCAAACAGGGACATCGA
1 TGTATTAAGGGGCACCGAAGTGCAAATAGGGACATCGA
40109199 GTTATATTCT
Statistics
Matches: 90, Mismatches: 21, Indels: 16
0.71 0.17 0.13
Matches are distributed among these distances:
38 6 0.07
39 3 0.03
40 74 0.82
41 2 0.02
42 5 0.06
ACGTcount: A:0.33, C:0.18, G:0.32, T:0.18
Consensus pattern (40 bp):
TGTATTAAGGGGCACCGAAGTGCAAATAGGGACATCGAAG
Found at i:40115277 original size:47 final size:46
Alignment explanation
Indices: 40115224--40115341 Score: 157
Period size: 47 Copynumber: 2.5 Consensus size: 46
40115214 ATGAGTTTTC
*
40115224 GTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGATA-T
* * *
40115271 GTATAAGGCTATATCTGGGATATAGCATCAGTGTGATATGTGATAT
1 GTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGATAT
* *
40115317 GTAGAAGACCATGAT-TGGGCTATGG
1 GTATAAGACCAT-ATCTGGGATATGG
40115342 TTTCGGTGTG
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
46 18 0.30
47 43 0.70
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (46 bp):
GTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGATAT
Found at i:40116874 original size:18 final size:18
Alignment explanation
Indices: 40116851--40116888 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
40116841 ATTACTGATC
*
40116851 TGAACTGAGTTGAAAGTT
1 TGAACTAAGTTGAAAGTT
40116869 TGAACTAAGTTGAAAGTT
1 TGAACTAAGTTGAAAGTT
40116887 TG
1 TG
40116889 GTAATGCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.34
Consensus pattern (18 bp):
TGAACTAAGTTGAAAGTT
Found at i:40120831 original size:47 final size:50
Alignment explanation
Indices: 40120762--40120890 Score: 129
Period size: 53 Copynumber: 2.6 Consensus size: 50
40120752 ATTGATGAAA
* * * *
40120762 AAGACCATGGTTGGACTATGGCAACA-TGCGATATG-TGA-TTTTCGTAT
1 AAGACCATAGCTGGGCTATGGCAACAGTGCGATATGATGAGTTTCCGTAT
* *
40120809 AAGACCATAGCTGGGCTATGGCATCAGTGTGATATGATTATGAGTTTCCGTAT
1 AAGACCATAGCTGGGCTATGGCAACAGTGCGATATG---ATGAGTTTCCGTAT
* * *
40120862 AAGACCATATCTGGGTTATGGCATCAGTG
1 AAGACCATAGCTGGGCTATGGCAACAGTG
40120891 TGTTAGCTAG
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
47 22 0.32
48 8 0.12
52 3 0.04
53 35 0.51
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (50 bp):
AAGACCATAGCTGGGCTATGGCAACAGTGCGATATGATGAGTTTCCGTAT
Found at i:40121253 original size:20 final size:20
Alignment explanation
Indices: 40121230--40121302 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
40121220 TCAGTAGTAC
*
40121230 AGATAAGCTGCCAGTATTGT
1 AGATAAACTGCCAGTATTGT
* * *
40121250 AGATAAACTGCTAGTAATGC
1 AGATAAACTGCCAGTATTGT
* * *
40121270 AGACAAGCTACCAGTATTGT
1 AGATAAACTGCCAGTATTGT
40121290 AGATAAACTGCCA
1 AGATAAACTGCCA
40121303 ATAGTGTGGT
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (20 bp):
AGATAAACTGCCAGTATTGT
Found at i:40121317 original size:40 final size:40
Alignment explanation
Indices: 40121229--40121305 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
40121219 GTCAGTAGTA
* * * *
40121229 CAGATAAGCTGCCAGTATTGTAGATAAACTGCTAGTAATG
1 CAGACAAGCTACCAGTATTGTAGATAAACTGCCAATAATG
40121269 CAGACAAGCTACCAGTATTGTAGATAAACTGCCAATA
1 CAGACAAGCTACCAGTATTGTAGATAAACTGCCAATA
40121306 GTGTGGTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (40 bp):
CAGACAAGCTACCAGTATTGTAGATAAACTGCCAATAATG
Found at i:40128857 original size:15 final size:15
Alignment explanation
Indices: 40128834--40128864 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
40128824 TGTTTAAAAG
40128834 TTATGATTTTTATTT
1 TTATGATTTTTATTT
*
40128849 TTATTATTTTTATTT
1 TTATGATTTTTATTT
40128864 T
1 T
40128865 GAAAGATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
TTATGATTTTTATTT
Found at i:40133449 original size:101 final size:102
Alignment explanation
Indices: 40133330--40133514 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
40133320 AAAGTGGTGG
*
40133330 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-C-CAAAATGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGCAAAATGAT-GGTCACATGTGTAGT
40133393 ACTATGTGCAGGCTACTATGCGCACCAGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGCACCAGATAGCTTCGA
* * *
40133431 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGCAAAATGATGGTCACATGTGTAGTA
*
40133496 CTATGTGTAGGCTACTATG
66 CTATGTGCAGGCTACTATG
40133515 TGAACCGGTA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 37 0.48
102 34 0.44
103 6 0.08
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGCAAAATGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGCACCAGATAGCTTCGA
Found at i:40133460 original size:51 final size:49
Alignment explanation
Indices: 40133327--40133512 Score: 203
Period size: 51 Copynumber: 3.7 Consensus size: 49
40133317 GTGAAAGTGG
* *
40133327 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCA-AAATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATA-G-T
* * * * *
40133377 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGCACCAGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-T
* * * *
40133427 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT
*
40133477 GATGGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
40133513 TGTGAACCGG
Statistics
Matches: 112, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
50 40 0.36
51 71 0.63
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT
Found at i:40133609 original size:46 final size:43
Alignment explanation
Indices: 40133518--40133616 Score: 101
Period size: 46 Copynumber: 2.2 Consensus size: 43
40133508 TACTATGTGA
* *
40133518 ACCGGTATCATTAATTATAAGGTGGTTGCTATATGCTGATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATATGCTAATCCC
* * *
40133561 ACCGGATATCATTGATTAGAAAGGGTGGTTGCTGTGTGCTAAAT-CC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATATGCT-AATCCC
40133607 ACCGTGTATC
1 ACCG-GTATC
40133617 TGTTACTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.24
45 2 0.04
46 25 0.54
47 3 0.07
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATATGCTAATCCC
Found at i:40135707 original size:22 final size:23
Alignment explanation
Indices: 40135682--40135737 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
40135672 GATTACCCAA
*
40135682 TTAAATTAATTC-TATAATTAAT
1 TTAAATTAATGCGTATAATTAAT
*
40135704 TT-AATTCATGCGTATAATTAAT
1 TTAAATTAATGCGTATAATTAAT
*
40135726 TT-AATTCATGCG
1 TTAAATTAATGCG
40135738 ACAACCAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (23 bp):
TTAAATTAATGCGTATAATTAAT
Found at i:40140995 original size:49 final size:47
Alignment explanation
Indices: 40140935--40143614 Score: 3702
Period size: 47 Copynumber: 54.6 Consensus size: 47
40140925 GATAATTGTG
* *
40140935 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40140982 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40141031 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40141080 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40141129 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40141176 ATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40141225 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40141272 ATGTGAAAGTGTCTATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40141319 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC--------G-A--TGTGATGA
* * * *
40141379 ATGTGAAAGTGTATATATATG-TGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGAT-A-AGGCCT-AATGGCCGATGTGATGA
*
40141428 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40141475 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40141522 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC--------G-A--TGTGATGA
* * * *
40141580 ATGTGAAAGTGTATATATATG-TGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGAT-A-AGGCCT-AATGGCCGATGTGATGA
*
40141629 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTAATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40141676 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40141725 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40141772 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40141819 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40141866 ATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40141915 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40141962 ATGTGAAAGTGTCTATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40142009 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC--------G-A--TGTGATGA
* * * *
40142069 ATGTGAAAGTGTATATATATG-TGATAAGGCCTAATGG-CGATGTGATGA
1 ATGTGAAAGTGTATATATGTGAT-A-AGGCCT-AATGGCCGATGTGATGA
*
40142117 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40142164 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40142211 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC--------G-A--TGTGATGA
* * * *
40142269 ATGTGAAAGTGTATATATATG-TGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGAT-A-AGGCCT-AATGGCCGATGTGATGA
*
40142318 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTAATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40142365 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40142414 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40142461 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40142510 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40142559 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC--------G-A--TGTGATGA
* * * *
40142617 ATGTGAAAGTGTATATATATG-TGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGAT-A-AGGCCT-AATGGCCGATGTGATGA
40142666 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40142713 ATGTGAAAGTGTATA-ATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40142759 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40142806 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGTGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA--TG-TG-A----TGA
40142861 TGATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 --ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40142912 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40142959 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40143006 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40143055 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40143104 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40143151 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC--------G-A--TGTGATGA
* * * *
40143209 ATGTGAAAGTGTATATATATG-TGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGAT-A-AGGCCT-AATGGCCGATGTGATGA
40143258 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40143305 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40143354 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40143401 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40143448 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40143495 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
40143542 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40143589 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
40143615 TCCCGAAGGG
Statistics
Matches: 2409, Mismatches: 100, Indels: 248
0.87 0.04 0.09
Matches are distributed among these distances:
46 49 0.02
47 1224 0.51
48 44 0.02
49 775 0.32
50 8 0.00
51 10 0.00
52 5 0.00
55 8 0.00
56 6 0.00
57 21 0.01
58 138 0.06
59 46 0.02
60 75 0.03
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:40141037 original size:96 final size:94
Alignment explanation
Indices: 40140935--40143614 Score: 4014
Period size: 96 Copynumber: 27.3 Consensus size: 94
40140925 GATAATTGTG
* *
40140935 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
40141000 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
40141031 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
40141096 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
62 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40141129 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTGTATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATAT
40141194 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40141225 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTCTATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
40141290 GTGATAAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
40141319 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGTGATGAATGTG
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC--------G-A--TGTGATGAATGTG
40141384 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
53 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40141428 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
40141493 GTGATAAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
*
40141522 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGTGATGAATGTGAA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC--------G-A--TGTGATGAATGTGAA
40141587 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
55 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40141629 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTAATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
40141694 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
40141725 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
40141790 GTGATAAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
*
40141819 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTGTATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATAT
40141884 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40141915 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTCTATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
40141980 GTGATAAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
40142009 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGTGATGAATGTG
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC--------G-A--TGTGATGAATGTG
40142074 AAAGTGTATATATATGTGATAAGGCCTAATGG-CGATGTGATGA
53 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40142117 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
40142182 GTGATAAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
*
40142211 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGTGATGAATGTGAA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC--------G-A--TGTGATGAATGTGAA
40142276 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
55 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40142318 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTAATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
40142383 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
40142414 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
40142479 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40142510 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
40142575 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGTGATGA
64 ATGTGATAAGGCCTAATGGCC--------G-A--TGTGATGA
40142617 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
40142682 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40142713 ATGTGAAAGTGTATA-ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
40142777 GTGATAAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
*
40142806 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGTGATGATGTGAAA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA--TG-TG-A----TGA--ATGTGAAA
40142871 GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
56 GTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40142912 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
40142977 GTGATAAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
40143006 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
*
40143071 ATATGTGATAAGGCCTAATAGCCGATGTGATGA
62 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
40143104 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
40143169 GTGATAAGGCCTAATAGCCGATGTGATGAATGTGTGATGA
66 GTGATAAGGCCTAATGGCC--------G-A--TGTGATGA
40143209 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
40143274 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
40143305 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
40143370 ATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
40143401 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
40143466 GTGATAAGGCCTAATAGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
*
40143495 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * *
40143560 GTGACAGGGCCGAGTGGCCAACGTGATGG
66 GTGATAAGGCCTAATGGCCGATGTGATGA
*
40143589 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
40143615 TCCCGAAGGG
Statistics
Matches: 2438, Mismatches: 40, Indels: 214
0.91 0.01 0.08
Matches are distributed among these distances:
93 116 0.05
94 601 0.25
95 19 0.01
96 843 0.35
97 3 0.00
98 201 0.08
99 5 0.00
102 7 0.00
103 5 0.00
104 16 0.01
105 60 0.02
106 99 0.04
107 372 0.15
108 22 0.01
109 69 0.03
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:40141378 original size:60 final size:60
Alignment explanation
Indices: 40141311--40141633 Score: 287
Period size: 60 Copynumber: 5.0 Consensus size: 60
40141301 TAATGGCCGA
40141311 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
40141371 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* * *** ****
40141431 TGAAAGTGTAT-ATATGTGATAAG-GCCTA-ATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 T----GTG-ATGA-ATGTGA-AAGTG--TATATA---TATGTGAT-AAGGCCTAA-TG-GCCGAT
40141493 GTGATAAGGCCTAATGGCCG
51 GTGAT---G---AAT----G
*
40141513 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
1 -TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
40141572 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
40141632 TG
1 TG
40141634 AAAGTGTATA
Statistics
Matches: 212, Mismatches: 20, Indels: 62
0.72 0.07 0.21
Matches are distributed among these distances:
58 19 0.09
59 1 0.00
60 101 0.48
63 3 0.01
64 4 0.02
65 9 0.04
66 7 0.03
67 2 0.01
69 14 0.07
70 6 0.03
71 7 0.03
72 14 0.07
75 4 0.02
77 3 0.01
78 12 0.06
79 4 0.02
82 1 0.00
83 1 0.00
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.31
Consensus pattern (60 bp):
TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
Found at i:40142073 original size:60 final size:60
Alignment explanation
Indices: 40142001--40142322 Score: 278
Period size: 60 Copynumber: 5.0 Consensus size: 60
40141991 TAATGGCCGA
40142001 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
40142061 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CGATGTGATGAATG
1 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* * *** ****
40142120 TGAAAGTGTAT-ATATGTGATAAG-GCCTA-ATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 T----GTG-ATGA-ATGTGA-AAGTG--TATATA---TATGTGAT-AAGGCCTAA-TG-GCCGAT
40142182 GTGATAAGGCCTAATGGCCG
51 GTGAT---G---AAT----G
*
40142202 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
1 -TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
40142261 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
40142321 TG
1 TG
40142323 AAAGTGTATA
Statistics
Matches: 211, Mismatches: 19, Indels: 64
0.72 0.06 0.22
Matches are distributed among these distances:
58 19 0.09
59 16 0.08
60 85 0.40
63 7 0.03
64 9 0.04
65 6 0.03
66 3 0.01
68 7 0.03
69 12 0.06
70 3 0.01
71 5 0.02
72 14 0.07
75 4 0.02
77 3 0.01
78 12 0.06
79 4 0.02
82 1 0.00
83 1 0.00
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (60 bp):
TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
Found at i:40145932 original size:40 final size:40
Alignment explanation
Indices: 40145877--40146152 Score: 419
Period size: 40 Copynumber: 6.9 Consensus size: 40
40145867 CTCGACAATG
40145877 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
*
40145917 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
*
40145957 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* *
40145997 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
*
40146037 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * * * *
40146077 ATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTGGT-TTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * * *
40146116 ATCCAGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
40146153 CGTGTATTCG
Statistics
Matches: 215, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 31 0.14
40 184 0.86
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
Found at i:40149510 original size:47 final size:47
Alignment explanation
Indices: 40149458--40149908 Score: 776
Period size: 47 Copynumber: 9.6 Consensus size: 47
40149448 GATAATTGTG
* *
40149458 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40149505 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40149552 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40149601 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40149648 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40149695 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40149742 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40149789 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
40149836 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40149883 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
40149909 TCCCGAAGGG
Statistics
Matches: 386, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 339 0.88
49 47 0.12
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:40159528 original size:50 final size:51
Alignment explanation
Indices: 40159459--40159601 Score: 209
Period size: 50 Copynumber: 2.8 Consensus size: 51
40159449 GAAAGTGAAG
*
40159459 GTGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGA-A
1 GTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATA
* * * *
40159509 -TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATA
1 GTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATA
*
40159560 GTGATGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTG
1 GTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
40159602 AAATGATATC
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
49 4 0.05
50 39 0.48
51 35 0.43
52 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (51 bp):
GTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATA
Found at i:40162954 original size:38 final size:38
Alignment explanation
Indices: 40162900--40163031 Score: 203
Period size: 38 Copynumber: 3.4 Consensus size: 38
40162890 TATATAATTA
40162900 TACCCCTGATCGCACTTACGTGCCCTGTTGTACTTCGG
1 TACCCCTGATCGCACTTACGTGCCCTGTTGTACTTCGG
* *
40162938 TACCCCTGATCACACTTACGTGCCCTATTGTACTTCGG
1 TACCCCTGATCGCACTTACGTGCCCTGTTGTACTTCGG
*
40162976 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGA
1 TACCCCTGATCGCACTTACGTG-CCCTGTTGTACTTCGG
*
40163015 TACTCCC-GATAGCACTT
1 TAC-CCCTGATCGCACTT
40163032 TTGTATCGTG
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
38 57 0.66
39 26 0.30
40 3 0.03
ACGTcount: A:0.17, C:0.35, G:0.17, T:0.31
Consensus pattern (38 bp):
TACCCCTGATCGCACTTACGTGCCCTGTTGTACTTCGG
Found at i:40163001 original size:20 final size:20
Alignment explanation
Indices: 40162902--40163003 Score: 81
Period size: 20 Copynumber: 5.3 Consensus size: 20
40162892 TATAATTATA
40162902 CCCCTGATCGCACTTACGTG
1 CCCCTGATCGCACTTACGTG
* * *
40162922 -CCCTG-TTGTACTT-CGGTA
1 CCCCTGATCGCACTTAC-GTG
*
40162940 CCCCTGATCACACTTACGTG
1 CCCCTGATCGCACTTACGTG
* * *
40162960 -CCCT-ATTGTACTT-CGGTA
1 CCCCTGATCGCACTTAC-GTG
40162978 CCCCTGATCGCACTTACGTG
1 CCCCTGATCGCACTTACGTG
40162998 CCCCTG
1 CCCCTG
40163004 TTGTACTTCG
Statistics
Matches: 60, Mismatches: 14, Indels: 16
0.67 0.16 0.18
Matches are distributed among these distances:
17 2 0.03
18 16 0.27
19 18 0.30
20 22 0.37
21 2 0.03
ACGTcount: A:0.15, C:0.37, G:0.19, T:0.29
Consensus pattern (20 bp):
CCCCTGATCGCACTTACGTG
Found at i:40165489 original size:49 final size:49
Alignment explanation
Indices: 40165435--40165532 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
40165425 ACACAAAAAG
* *
40165435 AAAATACATGTTGAATTTACTGAATATGCTATTAAGGTTACAAATCTTA
1 AAAATACATGTTGAATTTACTAAATATACTATTAAGGTTACAAATCTTA
40165484 AAAATACATGTTGAATTTACTAAATATACTATTAAGGTTACAAATCTTA
1 AAAATACATGTTGAATTTACTAAATATACTATTAAGGTTACAAATCTTA
40165533 TAGGTCGGTG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (49 bp):
AAAATACATGTTGAATTTACTAAATATACTATTAAGGTTACAAATCTTA
Found at i:40169541 original size:39 final size:39
Alignment explanation
Indices: 40169468--40169746 Score: 321
Period size: 39 Copynumber: 7.2 Consensus size: 39
40169458 TATATAATTA
* * * * *
40169468 TACCCCTGATTGCACCTACGCG-CCCTATTGTACTTCGG
1 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTTGG
* * *
40169506 TACCTCTGATCGCACTTACGTGCCCCTGTTATACTTCGG
1 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTTGG
* * *
40169545 TACCCCTGATCGCACTTACGTACCCCTATTCTACTTTGG
1 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTTGG
* **
40169584 TACCCCCGATCATACTTACGTGCCCCTGTTGTACTTTGG
1 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTTGG
* *
40169623 TACCCCTGATCGCACTTACATG-CCCTGTTGTAATTTGG
1 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTTGG
* *
40169661 TACCCCTGATCGCATTTACGTG-CCTTGTTGTACTTTGG
1 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTTGG
* * * * * *
40169699 TACCCTTGATTGCACTTACATGCACCTATTGTACTTCGG
1 TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTTGG
40169738 TACCCCTGA
1 TACCCCTGA
40169747 CCGAACTTTT
Statistics
Matches: 204, Mismatches: 35, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
38 85 0.42
39 119 0.58
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (39 bp):
TACCCCTGATCGCACTTACGTGCCCCTGTTGTACTTTGG
Found at i:40169550 original size:19 final size:19
Alignment explanation
Indices: 40169528--40169630 Score: 57
Period size: 19 Copynumber: 5.3 Consensus size: 19
40169518 CACTTACGTG
40169528 CCCCTGTTATACTTCGGTA
1 CCCCTGTTATACTTCGGTA
***
40169547 CCCCTGATCGCACTTAC-GTA
1 CCCCTG-TTATACTT-CGGTA
* * *
40169567 CCCCTATTCTACTTTGGTA
1 CCCCTGTTATACTTCGGTA
* * *
40169586 CCCCCGATCATACTTAC-GTG
1 CCCCTG-TTATACTT-CGGTA
* *
40169606 CCCCTGTTGTACTTTGGTA
1 CCCCTGTTATACTTCGGTA
40169625 CCCCTG
1 CCCCTG
40169631 ATCGCACTTA
Statistics
Matches: 59, Mismatches: 19, Indels: 12
0.66 0.21 0.13
Matches are distributed among these distances:
19 32 0.54
20 26 0.44
21 1 0.02
ACGTcount: A:0.16, C:0.36, G:0.16, T:0.33
Consensus pattern (19 bp):
CCCCTGTTATACTTCGGTA
Found at i:40169660 original size:38 final size:38
Alignment explanation
Indices: 40169468--40169778 Score: 316
Period size: 39 Copynumber: 8.1 Consensus size: 38
40169458 TATATAATTA
* * * * *
40169468 TACCCCTGATTGCACCTACGCGCCCTATTGTACTTCGG
1 TACCCCTGATCGCACTTACGTGCCCTGTTGTACTTTGG
* * *
40169506 TACCTCTGATCGCACTTACGTGCCCCTGTTATACTTCGG
1 TACCCCTGATCGCACTTACGTG-CCCTGTTGTACTTTGG
* * *
40169545 TACCCCTGATCGCACTTACGTACCCCTATTCTACTTTGG
1 TACCCCTGATCGCACTTACGT-GCCCTGTTGTACTTTGG
* **
40169584 TACCCCCGATCATACTTACGTGCCCCTGTTGTACTTTGG
1 TACCCCTGATCGCACTTACGTG-CCCTGTTGTACTTTGG
* *
40169623 TACCCCTGATCGCACTTACATGCCCTGTTGTAATTTGG
1 TACCCCTGATCGCACTTACGTGCCCTGTTGTACTTTGG
* *
40169661 TACCCCTGATCGCATTTACGTGCCTTGTTGTACTTTGG
1 TACCCCTGATCGCACTTACGTGCCCTGTTGTACTTTGG
* * * * *
40169699 TACCCTTGATTGCACTTACATGCACCTATTGTACTTCGG
1 TACCCCTGATCGCACTTACGTGC-CCTGTTGTACTTTGG
* * *** * *
40169738 TACCCCTGACCGAACTTTTATGCCCTGTTGGACTTCGG
1 TACCCCTGATCGCACTTACGTGCCCTGTTGTACTTTGG
40169776 TAC
1 TAC
40169779 TCCCAATAGC
Statistics
Matches: 228, Mismatches: 41, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
38 102 0.45
39 126 0.55
ACGTcount: A:0.17, C:0.32, G:0.18, T:0.34
Consensus pattern (38 bp):
TACCCCTGATCGCACTTACGTGCCCTGTTGTACTTTGG
Found at i:40178760 original size:45 final size:45
Alignment explanation
Indices: 40178662--40178845 Score: 257
Period size: 45 Copynumber: 4.1 Consensus size: 45
40178652 AATAATAACA
* * *
40178662 GATACACGGTGG-ATCAGCACATAGC-ACCACCCTTATAGTCAAT
1 GATACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
* *
40178705 GATACTCGGTGGAATCAGCACATAGCAACCACCTTCATAATCAAT
1 GATACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
40178750 -AGTACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
1 GA-TACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
* * *
40178795 GATATCTGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT
1 GATACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
*
40178840 GGTACC
1 GATACC
40178846 TGGTACACGT
Statistics
Matches: 126, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
43 11 0.09
44 14 0.11
45 100 0.79
46 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (45 bp):
GATACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
Found at i:40186580 original size:22 final size:22
Alignment explanation
Indices: 40186550--40186591 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
40186540 ACACCAAAAC
*
40186550 AGGCTTTTAGCG-GCTCTTTTTT
1 AGGCCTTTAGCGTGCT-TTTTTT
40186572 AGGCCTTTAGCGTGCTTTTT
1 AGGCCTTTAGCGTGCTTTTT
40186592 AGCACCGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.48
Consensus pattern (22 bp):
AGGCCTTTAGCGTGCTTTTTTT
Found at i:40186716 original size:43 final size:43
Alignment explanation
Indices: 40186655--40186906 Score: 292
Period size: 43 Copynumber: 5.9 Consensus size: 43
40186645 GCATTTTTTT
* *
40186655 ACCTTTAGCGGCGCTTTTCCCATAAACGCCGCTAAAGACCAGG
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAG
*
40186698 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATG
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAG
* * ** * *
40186741 ACCTTTAACAGCG-TATTTTACACAAATGCCGCTAAAGACCATG
1 ACCTTTAGCGGCGCT-TTTCCCACAAACGCCGCTAAAGACCAAG
* *
40186784 ACCTTTAGCGGGGCTTTTCTCACAAACGCCGCTAAAGACCAAG
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAG
* ** * *
40186827 ACCTTTAACGGTACTTTTACCACAAACGCCGCTAAAGAACAAG
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAG
* * * *
40186870 ACATTTAGTGGCGC-TTTCTCCAAAAACGCCACTAAAG
1 ACCTTTAGCGGCGCTTTTC-CCACAAACGCCGCTAAAG
40186907 GTCACGAAAA
Statistics
Matches: 178, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
42 4 0.02
43 173 0.97
44 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (43 bp):
ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAG
Found at i:40187841 original size:23 final size:23
Alignment explanation
Indices: 40187814--40188331 Score: 280
Period size: 23 Copynumber: 22.7 Consensus size: 23
40187804 GTATCACTTT
40187814 AACACTTCAATTTACAGCATTTA
1 AACACTTCAATTTACAGCATTTA
* * *
40187837 AACACCTCAATTTGCAGTACTTT-
1 AACACTTCAATTTACAGCA-TTTA
* * *
40187860 AACA-TATCAATTAAAAACATTTA
1 AACACT-TCAATTTACAGCATTTA
* * * *
40187883 TACACATCAA-TTATAGCGA-TAA
1 AACACTTCAATTTACAGC-ATTTA
* **
40187905 AACA-TCTCAATTTCCAGCAACTA
1 AACACT-TCAATTTACAGCATTTA
* *
40187928 AACACTTCAATTTGCAGCACTTA
1 AACACTTCAATTTACAGCATTTA
*
40187951 AACACTTCAATTTATAGCATTTA
1 AACACTTCAATTTACAGCATTTA
* * *
40187974 AACACTTAAATTTTCAGCACTTA
1 AACACTTCAATTTACAGCATTTA
* *
40187997 AACA-TATCAATTAACAACATTTA
1 AACACT-TCAATTTACAGCATTTA
* * *
40188020 TACACCTCAA-TTACAGACA-TAA
1 AACACTTCAATTTACAG-CATTTA
* * **
40188042 AAAATCTT-AATTTCCAGCAACTA
1 AACA-CTTCAATTTACAGCATTTA
* *
40188065 AACACTTCAATTTGCAGCACTTA
1 AACACTTCAATTTACAGCATTTA
* *
40188088 AATACTTCAATTTGCAGCACTTT-
1 AACACTTCAATTTACAGCA-TTTA
* *
40188111 AACA-TATCAATTAACAACATTTA
1 AACACT-TCAATTTACAGCATTTA
* * * *
40188134 TACACCTCAA-TTATAGCGA-TAA
1 AACACTTCAATTTACAGC-ATTTA
* **
40188156 AACA-TCTCAATTTCCAGCAACTA
1 AACACT-TCAATTTACAGCATTTA
* *
40188179 AACACTTCAATTTGCAGCACTTA
1 AACACTTCAATTTACAGCATTTA
* *
40188202 AACACTTCAATTTGCAGCACTTA
1 AACACTTCAATTTACAGCATTTA
* *
40188225 AACA-TATCAATTAACAACATTTA
1 AACACT-TCAATTTACAGCATTTA
* * *
40188248 TACACCTCAA-TTACAGCGA-TAA
1 AACACTTCAATTTACAGC-ATTTA
* **
40188270 AACA-TCTCAATTTCCAGCAACTA
1 AACACT-TCAATTTACAGCATTTA
* * *
40188293 AATACTTCAATTTGCAGCACTTA
1 AACACTTCAATTTACAGCATTTA
40188316 AACACTTCAATTTACA
1 AACACTTCAATTTACA
40188332 AATCCACCAT
Statistics
Matches: 371, Mismatches: 92, Indels: 64
0.70 0.17 0.12
Matches are distributed among these distances:
22 67 0.18
23 296 0.80
24 8 0.02
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (23 bp):
AACACTTCAATTTACAGCATTTA
Found at i:40188054 original size:114 final size:114
Alignment explanation
Indices: 40187934--40188328 Score: 650
Period size: 114 Copynumber: 3.5 Consensus size: 114
40187924 ACTAAACACT
* ** * * *
40187934 TCAATTTGCAGC-ACTTAAACACTTCAATTTATAGCATTTAAACACTTAAATTTTCAGCACTTAA
1 TCAATTTCCAGCAAC-TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAGCACTTAA
*
40187998 ACATATCAATTAACAACATTTATACACCTCAATTACAGAC-ATAAAAAATC
65 ACATATCAATTAACAACATTTATACACCTCAATTACAG-CGATAAAACATC
* * *
40188048 TTAATTTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAATACTTCAATTTGCAGCACTTTAA
1 TCAATTTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAGCACTTAAA
*
40188113 CATATCAATTAACAACATTTATACACCTCAATTATAGCGATAAAACATC
66 CATATCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATC
40188162 TCAATTTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAGCACTTAAA
1 TCAATTTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAGCACTTAAA
40188227 CATATCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATC
66 CATATCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATC
*
40188276 TCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTT
1 TCAATTTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTT
40188329 ACAAATCCAC
Statistics
Matches: 263, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
113 1 0.00
114 260 0.99
115 2 0.01
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (114 bp):
TCAATTTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAGCACTTAAA
CATATCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATC
Found at i:40188054 original size:137 final size:137
Alignment explanation
Indices: 40187808--40188112 Score: 459
Period size: 137 Copynumber: 2.2 Consensus size: 137
40187798 TGGAATGTAT
* * * *
40187808 CACTTTAACACTTCAATTTACAGCATTTAAACACCTCAATTTGCAGTACTTTAACATATCAATTA
1 CACTTAAACACTTCAATTTACAGCATTTAAACACCTAAATTTGCAGCACTTAAACATATCAATTA
* *
40187873 AAAACATTTATACACATCAATTATAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAA
66 AAAACATTTATACACATCAATTACAGCGATAAAAAATCTCAATTTCCAGCAACTAAACACTTCAA
40187938 TTTGCAG
131 TTTGCAG
* * *
40187945 CACTTAAACACTTCAATTTATAGCATTTAAACACTTAAATTTTCAGCACTTAAACATATCAATTA
1 CACTTAAACACTTCAATTTACAGCATTTAAACACCTAAATTTGCAGCACTTAAACATATCAATTA
* * *
40188010 ACAACATTTATACACCTCAATTACAGAC-ATAAAAAATCTTAATTTCCAGCAACTAAACACTTCA
66 AAAACATTTATACACATCAATTACAG-CGATAAAAAATCTCAATTTCCAGCAACTAAACACTTCA
40188074 ATTTGCAG
130 ATTTGCAG
* *
40188082 CACTTAAATACTTCAATTTGCAGCACTTTAA
1 CACTTAAACACTTCAATTTACAGCA-TTTAA
40188113 CATATCAATT
Statistics
Matches: 151, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
137 145 0.96
138 6 0.04
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (137 bp):
CACTTAAACACTTCAATTTACAGCATTTAAACACCTAAATTTGCAGCACTTAAACATATCAATTA
AAAACATTTATACACATCAATTACAGCGATAAAAAATCTCAATTTCCAGCAACTAAACACTTCAA
TTTGCAG
Found at i:40188144 original size:137 final size:137
Alignment explanation
Indices: 40187808--40188252 Score: 413
Period size: 137 Copynumber: 3.2 Consensus size: 137
40187798 TGGAATGTAT
* * * ** ** * *
40187808 CACTTTAACACTTCAATTTACAGCATTTAAACACCTCAATTTGCAGTACTTTAACATATCAATTA
1 CACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTAACAACACTTAAACACATCAATTA
* *
40187873 AAAACATTTATACACATCAATTATAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAA
66 AAAACATTTATACACATCAATTACAGCGATAAAAAATCTCAATTTCCAGCAACTAAACACTTCAA
40187938 TTTGCAG
131 TTTGCAG
* ** * *
40187945 CACTTAAACACTTCAATTTATAGCATTTAAACACTTAAATTTTCAGCACTTAAACATATCAATTA
1 CACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTAACAACACTTAAACACATCAATTA
* * *
40188010 ACAACATTTATACACCTCAATTACAGAC-ATAAAAAATCTTAATTTCCAGCAACTAAACACTTCA
66 AAAACATTTATACACATCAATTACAG-CGATAAAAAATCTCAATTTCCAGCAACTAAACACTTCA
40188074 ATTTGCAG
130 ATTTGCAG
* * * * * *
40188082 CACTTAAATACTTCAATTTGCAGCACTTT-AACA-TATCAATTAACAACATTTATACACCTCAAT
1 CACTTAAACACTTCAATTTACAGCA-TTTAAACACT-TAAATTAACAACACTTAAACACATCAAT
* * * * * * * * *
40188145 T-ATAGCGA-TAAAACATC-TCAATTTCCAGCAACTAAACACT-TCAATTTGCAGC-ACTTAAAC
64 TAAAAAC-ATTTATACA-CATCAA-TTACAGCGA-TAAAAAATCTCAATTTCCAGCAAC-TAAAC
40188205 ACTTCAATTTGCAG
124 ACTTCAATTTGCAG
* * *
40188219 CACTTAAACA-TATCAATTAACAACATTTATACAC
1 CACTTAAACACT-TCAATTTACAGCATTTAAACAC
40188253 CTCAATTACA
Statistics
Matches: 259, Mismatches: 37, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
136 20 0.08
137 229 0.88
138 10 0.04
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (137 bp):
CACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTAACAACACTTAAACACATCAATTA
AAAACATTTATACACATCAATTACAGCGATAAAAAATCTCAATTTCCAGCAACTAAACACTTCAA
TTTGCAG
Found at i:40193030 original size:41 final size:41
Alignment explanation
Indices: 40192968--40193211 Score: 337
Period size: 41 Copynumber: 6.0 Consensus size: 41
40192958 TCAATTCGGG
* * *
40192968 ATTAGCGGCGTTTTTTAAAAAATGCCACTAAAGATCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAATGCCACTAAAGACCCGAGC
* *
40193009 ATTAGCGGTGCTTTTTCAAAAATGTCACTAAAGACCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAATGCCACTAAAGACCCGAGC
* *
40193050 ATTAGCGGCACTTTTTCAAAAATGCCGCTAAAGACCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAATGCCACTAAAGACCCGAGC
* * * *
40193091 ATTAGCGGTGCTTTTTCAAAAACGCCGCGAAAGACCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAATGCCACTAAAGACCCGAGC
*
40193132 ATTAGCGGCGCTTTTTCAAAAATGCCACTAAAGACCCGACC
1 ATTAGCGGCGCTTTTTCAAAAATGCCACTAAAGACCCGAGC
* * *
40193173 AATAGCGGCGCTTTTTCAAAAACG-CAGCTAAAGCCCCGA
1 ATTAGCGGCGCTTTTTCAAAAATGCCA-CTAAAGACCCGA
40193212 AAGGTCAAAA
Statistics
Matches: 181, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 2 0.01
41 179 0.99
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAATGCCACTAAAGACCCGAGC
Found at i:40196992 original size:41 final size:41
Alignment explanation
Indices: 40196925--40197226 Score: 301
Period size: 41 Copynumber: 7.4 Consensus size: 41
40196915 TGTAAACGGA
* * *
40196925 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAGG
1 GGCACGTAAGTGCAATTTAGGGGTACCGAAGTACAAATAGG
* * * *
40196966 GGAACGCAAGTGCAATTTAGGAGTACCAAAGTACAACA-A-G
1 GGCACGTAAGTGCAATTTAGGGGTACCGAAGTACAA-ATAGG
* * * *
40197006 GGCATGCAAGTGCAATTCAAGGGTACCGAAGTACAAATAGG
1 GGCACGTAAGTGCAATTTAGGGGTACCGAAGTACAAATAGG
* * * *
40197047 GGCACATTAGTGTAATTTAGGGGTACCGTAGTACAAA-AGGG
1 GGCACGTAAGTGCAATTTAGGGGTACCGAAGTACAAATA-GG
* * * * *
40197088 GGCACGTAACTGTAATTCT-GGGGTATCGAATTACAAATAGA
1 GGCACGTAAGTGCAATT-TAGGGGTACCGAAGTACAAATAGG
* * *
40197129 GGCA-GATAAGTGCAATTTAGGGGTACCAAAGTACAAACATG
1 GGCACG-TAAGTGCAATTTAGGGGTACCGAAGTACAAATAGG
* *
40197170 GGCACGTAAATGTAATTTAGGGGTACCGAAGTAC-AATAGG
1 GGCACGTAAGTGCAATTTAGGGGTACCGAAGTACAAATAGG
40197210 GGCACGTAAGTGCAATT
1 GGCACGTAAGTGCAATT
40197227 CAAGGTATAA
Statistics
Matches: 211, Mismatches: 41, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
39 1 0.00
40 54 0.26
41 152 0.72
42 4 0.02
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (41 bp):
GGCACGTAAGTGCAATTTAGGGGTACCGAAGTACAAATAGG
Found at i:40196997 original size:21 final size:21
Alignment explanation
Indices: 40196934--40196997 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
40196924 AGGCACGTAT
*
40196934 GTGCAATTCAGGGGTACCAAA
1 GTGCAATTTAGGGGTACCAAA
* * *
40196955 GTACAA-ATAGGGGAACGC-AA
1 GTGCAATTTAGGGGTAC-CAAA
*
40196975 GTGCAATTTAGGAGTACCAAA
1 GTGCAATTTAGGGGTACCAAA
40196996 GT
1 GT
40196998 ACAACAAGGG
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.38, C:0.16, G:0.28, T:0.19
Consensus pattern (21 bp):
GTGCAATTTAGGGGTACCAAA
Found at i:40198706 original size:53 final size:53
Alignment explanation
Indices: 40198626--40198731 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
40198616 AATGACCTGA
*
40198626 GGGACTGAACTAGACCCATCATAACATGCATATAGGGGTCTTTTCTAGGCATC
1 GGGACTCAACTAGACCCATCATAACATGCATATAGGGGTCTTTTCTAGGCATC
*
40198679 GGGACTCAACTAGACCTATCATAACATGCATATAGGGGTCTTTTCTAGGCATC
1 GGGACTCAACTAGACCCATCATAACATGCATATAGGGGTCTTTTCTAGGCATC
40198732 CCATGTCTAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (53 bp):
GGGACTCAACTAGACCCATCATAACATGCATATAGGGGTCTTTTCTAGGCATC
Found at i:40199971 original size:27 final size:26
Alignment explanation
Indices: 40199923--40200014 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 26
40199913 ACCATACCGA
* * **
40199923 CCATGTTTATTATCCCAATAGACTAC
1 CCATGTTTACTATCTCGGTAGACTAC
40199949 CACATGTTTACTATC-CTGGTAGACTAC
1 C-CATGTTTACTATCTC-GGTAGACTAC
* *
40199976 CTCGTGTTTACTATTTCGGTAGACTAC
1 C-CATGTTTACTATCTCGGTAGACTAC
40200003 CCTATGTTTACT
1 CC-ATGTTTACT
40200015 GTCCCGACGG
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
26 3 0.05
27 51 0.93
28 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (26 bp):
CCATGTTTACTATCTCGGTAGACTAC
Found at i:40209557 original size:48 final size:48
Alignment explanation
Indices: 40209481--40209577 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
40209471 TAAATTTTTA
* *
40209481 AAAAGAAAAACAACAGCAGAAATGGAAACTTACCAACAACACATATCC
1 AAAAGAAAAACAACAACAGAAATGGAAACTTACCAACAAAACATATCC
* *
40209529 AAAATAAAAACAACAACAGAAATGGAAACTTACCAACAAAACATCTCC
1 AAAAGAAAAACAACAACAGAAATGGAAACTTACCAACAAAACATATCC
40209577 A
1 A
40209578 CTCCCCTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.58, C:0.23, G:0.08, T:0.11
Consensus pattern (48 bp):
AAAAGAAAAACAACAACAGAAATGGAAACTTACCAACAAAACATATCC
Found at i:40257321 original size:26 final size:26
Alignment explanation
Indices: 40257290--40257376 Score: 95
Period size: 26 Copynumber: 3.3 Consensus size: 26
40257280 CTAATTTCGT
40257290 AACAAAGCTACCAGTAATAGTAACGC
1 AACAAAGCTACCAGTAATAGTAACGC
* * * *
40257316 AGCAAAGCTGCCAGTAACAGTAATGC
1 AACAAAGCTACCAGTAATAGTAACGC
* *
40257342 AACAGAGCTACCAGT-ATCAATAACGC
1 AACAAAGCTACCAGTAAT-AGTAACGC
*
40257368 ATCAAAGCT
1 AACAAAGCT
40257377 GCCAATAACA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
25 1 0.02
26 47 0.98
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.16
Consensus pattern (26 bp):
AACAAAGCTACCAGTAATAGTAACGC
Found at i:40257374 original size:52 final size:52
Alignment explanation
Indices: 40257290--40257389 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 52
40257280 CTAATTTCGT
* *
40257290 AACAAAGCTACCAGTAATAGTAACGCAGCAAAGCTGCCAGTAACAGTAATGC
1 AACAAAGCTACCAGTAATAATAACGCAGCAAAGCTGCCAATAACAGTAATGC
* *
40257342 AACAGAGCTACCAGT-ATCAATAACGCATCAAAGCTGCCAATAACAGTA
1 AACAAAGCTACCAGTAAT-AATAACGCAGCAAAGCTGCCAATAACAGTA
40257390 TTTGTGGCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.05
52 41 0.95
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.16
Consensus pattern (52 bp):
AACAAAGCTACCAGTAATAATAACGCAGCAAAGCTGCCAATAACAGTAATGC
Found at i:40257627 original size:27 final size:27
Alignment explanation
Indices: 40257594--40257857 Score: 245
Period size: 27 Copynumber: 9.8 Consensus size: 27
40257584 TACACTATAG
* *
40257594 GGGTATTTCTGAAATTTTACCCATCAA
1 GGGTATTTCTGTAATTTTACCCATCGA
* ** * *
40257621 GGTTATTTCAATAATTTTAACCATCGG
1 GGGTATTTCTGTAATTTTACCCATCGA
*
40257648 GGGTATTT-TGGTCATTTTACCCATCGA
1 GGGTATTTCT-GTAATTTTACCCATCGA
* *
40257675 GGGTATTT-TGGTAGTTTTACCAATC-A
1 GGGTATTTCT-GTAATTTTACCCATCGA
*
40257701 GGGGTATTTC-GATAATTTTACCTATCGA
1 -GGGTATTTCTG-TAATTTTACCCATCGA
40257729 GGGTATTT-TGGTAATTTTACCCATCGA
1 GGGTATTTCT-GTAATTTTACCCATCGA
* *
40257756 GAGTATTTC-GATAGTTTTACCCATCGA
1 GGGTATTTCTG-TAATTTTACCCATCGA
* * *
40257783 GGGTGTTT-TGGTCATTTTACCTATCGA
1 GGGTATTTCT-GTAATTTTACCCATCGA
* *
40257810 GGGTAGTTCAGTAATTTTACCCATCGA
1 GGGTATTTCTGTAATTTTACCCATCGA
*
40257837 GGGTATTTCGGTAATTTTACC
1 GGGTATTTCTGTAATTTTACC
40257858 ATTCGGGGCT
Statistics
Matches: 192, Mismatches: 33, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
26 3 0.02
27 186 0.97
28 3 0.02
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTCTGTAATTTTACCCATCGA
Found at i:40257693 original size:54 final size:53
Alignment explanation
Indices: 40257593--40257865 Score: 298
Period size: 54 Copynumber: 5.1 Consensus size: 53
40257583 TTACACTATA
* * ***
40257593 GGGGTATTTCTGA-AATTTTACCCATCAAGGTTATTTCAATAATTTTAACCATCG
1 GGGGTATTTC-GATAATTTTACCCATCGAGGGTATTTTGGTAATTTT-ACCATCG
* * * * *
40257647 GGGGTATTTTGGTCATTTTACCCATCGAGGGTATTTTGGTAGTTTTACCAATCA
1 GGGGTATTTCGATAATTTTACCCATCGAGGGTATTTTGGTAATTTTACC-ATCG
*
40257701 GGGGTATTTCGATAATTTTACCTATCGAGGGTATTTTGGTAATTTTACCCATCG
1 GGGGTATTTCGATAATTTTACCCATCGAGGGTATTTTGGTAATTTTA-CCATCG
* * * * *
40257755 AGAGTATTTCGATAGTTTTACCCATCGAGGGTGTTTTGGTCATTTTACCTATCG
1 GGGGTATTTCGATAATTTTACCCATCGAGGGTATTTTGGTAATTTTACC-ATCG
* * *
40257809 AGGGTAGTTC-AGTAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCATTCG
1 GGGGTATTTCGA-TAATTTTACCCATCGAGGGTATTTTGGTAATTTTACCA-TCG
40257863 GGG
1 GGG
40257866 CTAATTTAGT
Statistics
Matches: 184, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
53 8 0.04
54 174 0.95
55 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (53 bp):
GGGGTATTTCGATAATTTTACCCATCGAGGGTATTTTGGTAATTTTACCATCG
Found at i:40257709 original size:81 final size:81
Alignment explanation
Indices: 40257594--40257858 Score: 311
Period size: 81 Copynumber: 3.3 Consensus size: 81
40257584 TACACTATAG
* * * * * * * *
40257594 GGGTATTTCTGAAATTTTACCCATCAAGGTTATTTCAATAATTTTAACC-ATCGGGGGTATTTTG
1 GGGTATTTCGGTAGTTTTACCAATCAGGGGTATTTCGATAATTTT-ACCTATCGAGGGTATTTTG
*
40257658 GTCATTTTACCCATCGA
65 GTAATTTTACCCATCGA
*
40257675 GGGTATTTTGGTAGTTTTACCAATCAGGGGTATTTCGATAATTTTACCTATCGAGGGTATTTTGG
1 GGGTATTTCGGTAGTTTTACCAATCAGGGGTATTTCGATAATTTTACCTATCGAGGGTATTTTGG
40257740 TAATTTTACCCATCGA
66 TAATTTTACCCATCGA
* * * * * * *
40257756 GAGTATTTCGATAGTTTTACCCATCGAGGGTGT-TTT-GGTCATTTTACCTATCGAGGGTAGTTC
1 GGGTATTTCGGTAGTTTTACCAATC-AGGG-GTATTTCGATAATTTTACCTATCGAGGGTATTTT
*
40257819 AGTAATTTTACCCATCGA
64 GGTAATTTTACCCATCGA
*
40257837 GGGTATTTCGGTAATTTTACCA
1 GGGTATTTCGGTAGTTTTACCA
40257859 TTCGGGGCTA
Statistics
Matches: 158, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
80 3 0.02
81 146 0.92
82 7 0.04
83 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTCGGTAGTTTTACCAATCAGGGGTATTTCGATAATTTTACCTATCGAGGGTATTTTGG
TAATTTTACCCATCGA
Found at i:40257882 original size:54 final size:52
Alignment explanation
Indices: 40257606--40257911 Score: 238
Period size: 54 Copynumber: 5.7 Consensus size: 52
40257596 GTATTTCTGA
* * ** * *
40257606 AATTTTACCCATCAAGGTTATTTCAATAATTTTAACCATCGGGGGTATTTTGGT
1 AATTTTACCCATCGAGGGTATTTCGGTAATTTT-ACCATC-GGGGTAATTTAGT
* * * *
40257660 CATTTTACCCATCGAGGGTATTTTGGTAGTTTTACCAATCAGGGGT-ATTTCGAT
1 AATTTTACCCATCGAGGGTATTTCGGTAATTTTACC-ATC-GGGGTAATTTAG-T
* * * *
40257714 AATTTTACCTATCGAGGGTATTTTGGTAATTTTACCCATCGAGAGT-ATTTCGAT
1 AATTTTACCCATCGAGGGTATTTCGGTAATTTTA-CCATCG-GGGTAATTTAG-T
* * * * * *
40257768 AGTTTTACCCATCGAGGGTGTTTTGGTCATTTTACCTATCGAGGGTAGTTCAGT
1 AATTTTACCCATCGAGGGTATTTCGGTAATTTTACC-ATCG-GGGTAATTTAGT
40257822 AATTTTACCCATCGAGGGTATTTCGGTAATTTTACCATTCGGGGCTAATTTAGT
1 AATTTTACCCATCGAGGGTATTTCGGTAATTTTACCA-TCGGGG-TAATTTAGT
** * * * * * *
40257876 TTTTTTATCCTTCGGGGGTAATTCGATCATTTTACC
1 AATTTTACCCATCGAGGGTATTTCGGTAATTTTACC
40257912 CTTTTGGGGT
Statistics
Matches: 208, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
53 14 0.07
54 189 0.91
55 5 0.02
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (52 bp):
AATTTTACCCATCGAGGGTATTTCGGTAATTTTACCATCGGGGTAATTTAGT
Found at i:40257882 original size:81 final size:77
Alignment explanation
Indices: 40257661--40257912 Score: 245
Period size: 81 Copynumber: 3.1 Consensus size: 77
40257651 TATTTTGGTC
* *
40257661 ATTTTACCCATCGAGGGTATTTTGGTAGTTTTACCAATCAGGGGTATTTCGATAATTTTACCTAT
1 ATTTTACCCATCGAGGGTATTTCGGTAGTTTTACC-ATC-GGGGTATTTAG-TAATTTTACCTAT
* *
40257726 CGAGGGTATTTTGGTA
63 CGAGGGTA-ATTCGTA
* * * * *
40257742 ATTTTACCCATCGAGAGTATTTCGATAGTTTTACCCATCGAGGGTGTTTTGGTCATTTTACCTAT
1 ATTTTACCCATCGAGGGTATTTCGGTAGTTTTA-CCATCG-GGGT-ATTTAGTAATTTTACCTAT
*
40257807 CGAGGGTAGTTCAGTA
63 CGAGGGTAATTC-GTA
* **
40257823 ATTTTACCCATCGAGGGTATTTCGGTAATTTTACCATTCGGGGCTAATTTAGTTTTTTTATCCT-
1 ATTTTACCCATCGAGGGTATTTCGGTAGTTTTACCA-TCGGGG-T-ATTTAGTAATTTTA-CCTA
* *
40257887 TCGGGGGTAATTCGATC
62 TCGAGGGTAATTCG-TA
40257904 ATTTTACCC
1 ATTTTACCC
40257913 TTTTGGGGTA
Statistics
Matches: 144, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
80 10 0.07
81 125 0.87
82 9 0.06
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (77 bp):
ATTTTACCCATCGAGGGTATTTCGGTAGTTTTACCATCGGGGTATTTAGTAATTTTACCTATCGA
GGGTAATTCGTA
Found at i:40257908 original size:27 final size:27
Alignment explanation
Indices: 40257634--40257934 Score: 83
Period size: 27 Copynumber: 11.1 Consensus size: 27
40257624 TATTTCAATA
* * * * *
40257634 ATTTTAACCATCGGGGGTATTTTGGTC
1 ATTTTACCCTTCGGGGGTAATTCGATC
* * * * *
40257661 ATTTTACCCATCGAGGGTATTTTGGT-
1 ATTTTACCCTTCGGGGGTAATTCGATC
** * * *
40257687 AGTTTTACCAATCAGGGGTATTTCGATA
1 A-TTTTACCCTTCGGGGGTAATTCGATC
* * * * *
40257715 ATTTTA-CCTATCGAGGGTATTTTGGTA
1 ATTTTACCCT-TCGGGGGTAATTCGATC
* * * *
40257742 ATTTTACCCATCGAGAGTATTTCGAT-
1 ATTTTACCCTTCGGGGGTAATTCGATC
* * ** * *
40257768 AGTTTTACCCATCGAGGGTGTTTTGGTC
1 A-TTTTACCCTTCGGGGGTAATTCGATC
* * *
40257796 ATTTTA-CCTATCGAGGGTAGTTC-AGTA
1 ATTTTACCCT-TCGGGGGTAATTCGA-TC
* * * * *
40257823 ATTTTACCCATCGAGGGTATTTCGGTA
1 ATTTTACCCTTCGGGGGTAATTCGATC
* * * *
40257850 ATTTTACCATTCGGGGCTAATT-TAGTT
1 ATTTTACCCTTCGGGGGTAATTCGA-TC
* *
40257877 TTTTTATCCTTCGGGGGTAATTCGATC
1 ATTTTACCCTTCGGGGGTAATTCGATC
** *
40257904 ATTTTACCCTTTTGGGGTAATTCGGTC
1 ATTTTACCCTTCGGGGGTAATTCGATC
40257931 ATTT
1 ATTT
40257935 GTGGCCCATT
Statistics
Matches: 213, Mismatches: 49, Indels: 24
0.74 0.17 0.08
Matches are distributed among these distances:
26 5 0.02
27 201 0.94
28 7 0.03
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTTCGGGGGTAATTCGATC
Found at i:40260701 original size:50 final size:50
Alignment explanation
Indices: 40260585--40260778 Score: 237
Period size: 50 Copynumber: 3.9 Consensus size: 50
40260575 TGATAATAAC
* * ** *
40260585 ATGCCAAAGCCATGTACC-AGACCTGGTCTTACATGGGATGTTCTCATATCG
1 ATGCCAATGCCATGT-CCTAGACATGGTCTTACATGGGA-CCTCTCATCTCG
* * * *
40260636 CTGCCCATGCCATGTCCTAGACATGGTTTTACATGGGACCTCTCATCTTG
1 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCG
40260686 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCG
* * ** *
40260736 GTGTCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCT
40260779 TTACCCAAAT
Statistics
Matches: 124, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
50 94 0.76
51 30 0.24
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCG
Found at i:40264660 original size:50 final size:50
Alignment explanation
Indices: 40264536--40264778 Score: 272
Period size: 50 Copynumber: 4.8 Consensus size: 50
40264526 GATAATAACA
* * * ** * *
40264536 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGTATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGA-CCTCTCATCTCAG
* * * ** *
40264587 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCCCAG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCAG
* * * *
40264637 TGCCTACGCCATGACTCAAACATGGTCTTACATGGGACCTCTCATCTCTG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCAG
* * *
40264687 TGCCAACGCCATGTCCCAGACATTGTCTTACAT-GGATCCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGA-CCTCTCATCTCAG
*
40264737 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCT
40264779 TTACCCAAAT
Statistics
Matches: 162, Mismatches: 28, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
49 3 0.02
50 124 0.77
51 35 0.22
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:40266957 original size:117 final size:119
Alignment explanation
Indices: 40266777--40266997 Score: 297
Period size: 117 Copynumber: 1.9 Consensus size: 119
40266767 TCCTCGTTCA
**
40266777 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
40266842 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTGTAACTCGCACC
* * **
40266896 AATGCCTTCGGG-CTTAGCCCGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
* * *
40266958 TATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
65 TATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
40266998 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
116 3 0.03
117 57 0.64
118 17 0.19
119 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTGTAACTCGCACC
Found at i:40266997 original size:40 final size:39
Alignment explanation
Indices: 40266775--40266997 Score: 272
Period size: 40 Copynumber: 5.7 Consensus size: 39
40266765 GCTCCTCGTT
* *
40266775 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
40266815 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
* *
40266855 CAAATGCCTTCGGGACTTAACCCGGATTTGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * *
40266894 CCAATGCCTTCGGG-CTTAGCCCGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * * *
40266932 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
40266973 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40266998 CATCATTCAA
Statistics
Matches: 160, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
37 2 0.01
38 30 0.19
39 35 0.22
40 81 0.51
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:40274511 original size:118 final size:119
Alignment explanation
Indices: 40274330--40274551 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 119
40274320 TCCTCGTTCA
*
40274330 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
40274395 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * **
40274449 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
40274511 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
40274552 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 66 0.73
119 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:40274551 original size:40 final size:40
Alignment explanation
Indices: 40274328--40274551 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
40274318 GCTCCTCGTT
* *
40274328 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
40274368 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
40274408 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
40274448 C-AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
40274486 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
40274527 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40274552 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 24 0.15
39 21 0.13
40 107 0.65
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:40277717 original size:27 final size:27
Alignment explanation
Indices: 40277676--40278032 Score: 310
Period size: 27 Copynumber: 13.2 Consensus size: 27
40277666 GGCTTGGGCC
* *
40277676 GTAAAATTACCGAAATACTCTCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
* *
40277703 GTAAAATTATAGAAATACCCCCGGAT-G
1 GTAAAATTATCGAAATACCCTC-GATGG
** * *
40277730 GTAAAATTA-CTGAAATATACTCGACGA
1 GTAAAATTATC-GAAATACCCTCGATGG
* * * *
40277757 GTAAATTTACCGAAATACCCTCGACGA
1 GTAAAATTATCGAAATACCCTCGATGG
* * *
40277784 GTAAATTTACCAAAATACCCTCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
* *
40277811 GTAAAATTATCGAAATACCCCCAGA-GC
1 GTAAAATTATCGAAATACCCTC-GATGG
* * *
40277838 GTAAAATTACCGAAATACCCTCCATAG
1 GTAAAATTATCGAAATACCCTCGATGG
* *
40277865 GTAAATTTA-CTGAAATACCCTCGATAG
1 GTAAAATTATC-GAAATACCCTCGATGG
* * *
40277892 GTAAAATTATTGAAATACCCTCAATAG
1 GTAAAATTATCGAAATACCCTCGATGG
* * * *
40277919 GTAAATTTACCGAAATACCGTTGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
* *
40277946 GAAAAATTA-CTAAAATACCCTCGATGG
1 GTAAAATTATC-GAAATACCCTCGATGG
*
40277973 GTAAAATTATCGAAATACCCCCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
* * *
40278000 GTAAAATTACCGTAATACCCTCGTTAGG
1 GTAAAATTATCGAAATACCCTCGAT-GG
40278028 GTAAA
1 GTAAA
40278033 TGACTGCTAG
Statistics
Matches: 269, Mismatches: 50, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
26 5 0.02
27 250 0.93
28 14 0.05
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (27 bp):
GTAAAATTATCGAAATACCCTCGATGG
Found at i:40277814 original size:81 final size:80
Alignment explanation
Indices: 40277676--40278022 Score: 360
Period size: 81 Copynumber: 4.3 Consensus size: 80
40277666 GGCTTGGGCC
* * *
40277676 GTAAAATTACCGAAATACTCTCGATGGGTAAAATTA-TAGAAATACCCCCGGAT-GGTAAAATTA
1 GTAAAATTACCGAAATACCCTCGATGAGTAAAATTACTA-AAATACCCTC-GATGGGTAAAATTA
** *
40277739 -CTGAAATATACTCGACGA
64 TC-GAAATACCCCCGA-GA
* * * *
40277757 GTAAATTTACCGAAATACCCTCGACGAGTAAATTTACCAAAATACCCTCGATGGGTAAAATTATC
1 GTAAAATTACCGAAATACCCTCGATGAGTAAAATTACTAAAATACCCTCGATGGGTAAAATTATC
*
40277822 GAAATACCCCCAGAGC
66 GAAATACCCCC-GAGA
* * * *
40277838 GTAAAATTACCGAAATACCCTCCAT-AGGTAAATTTACTGAAATACCCTCGATAGGTAAAATTAT
1 GTAAAATTACCGAAATACCCTCGATGA-GTAAAATTACTAAAATACCCTCGATGGGTAAAATTAT
* * * *
40277902 TGAAATACCCTCAATA
65 CGAAATACCCCCGAGA
* * * * *
40277918 GGTAAATTTACCGAAATACCGTTGATGGGAAAAATTACTAAAATACCCTCGATGGGTAAAATTAT
1 -GTAAAATTACCGAAATACCCTCGATGAGTAAAATTACTAAAATACCCTCGATGGGTAAAATTAT
*
40277983 CGAAATACCCCCGATGG
65 CGAAATACCCCCGA-GA
*
40278000 GTAAAATTACCGTAATACCCTCG
1 GTAAAATTACCGAAATACCCTCG
40278023 TTAGGGTAAA
Statistics
Matches: 218, Mismatches: 40, Indels: 16
0.80 0.15 0.06
Matches are distributed among these distances:
80 5 0.02
81 209 0.96
82 4 0.02
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (80 bp):
GTAAAATTACCGAAATACCCTCGATGAGTAAAATTACTAAAATACCCTCGATGGGTAAAATTATC
GAAATACCCCCGAGA
Found at i:40278017 original size:54 final size:54
Alignment explanation
Indices: 40277676--40278032 Score: 351
Period size: 54 Copynumber: 6.6 Consensus size: 54
40277666 GGCTTGGGCC
* *
40277676 GTAAAATTACCGAAATACTCTCGATGGGTAAAATTATAGAAATACCCCCGGAT-G
1 GTAAAATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCCC-GATGG
* ** * * * * * * *
40277730 GTAAAATTACTGAAATATACTCGACGAGTAAATTTACCGAAATACCCTCGACGA
1 GTAAAATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCCCGATGG
* * *
40277784 GTAAATTTACCAAAATACCCTCGATGGGTAAAATTATCGAAATACCCCCAGA-GC
1 GTAAAATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCCC-GATGG
* * * * *
40277838 GTAAAATTACCGAAATACCCTCCATAGGTAAATTTA-CTGAAATACCCTCGATAG
1 GTAAAATTACCGAAATACCCTCGATGGGTAAAATTATC-GAAATACCCCCGATGG
** * * * * ***
40277892 GTAAAATTATTGAAATACCCTCAATAGGTAAATTTACCGAAATACCGTTGATGG
1 GTAAAATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCCCGATGG
* **
40277946 GAAAAATTACTAAAATACCCTCGATGGGTAAAATTATCGAAATACCCCCGATGG
1 GTAAAATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCCCGATGG
* *
40278000 GTAAAATTACCGTAATACCCTCGTTAGGGTAAA
1 GTAAAATTACCGAAATACCCTCGAT-GGGTAAA
40278033 TGACTGCTAG
Statistics
Matches: 246, Mismatches: 51, Indels: 11
0.80 0.17 0.04
Matches are distributed among these distances:
53 5 0.02
54 231 0.94
55 10 0.04
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (54 bp):
GTAAAATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCCCGATGG
Found at i:40278189 original size:27 final size:26
Alignment explanation
Indices: 40278159--40278216 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
40278149 GAAGTACTAA
40278159 TACTGGTGGCTCTGCCACA-ACTACTG
1 TACTGGTGGCTCTGCCACATA-TACTG
*
40278185 TTACTGGTGGCTTTGCCACATATACTG
1 -TACTGGTGGCTCTGCCACATATACTG
40278212 TACTG
1 TACTG
40278217 CAGCTTTGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 5 0.17
27 23 0.79
28 1 0.03
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (26 bp):
TACTGGTGGCTCTGCCACATATACTG
Found at i:40297773 original size:27 final size:27
Alignment explanation
Indices: 40297718--40297826 Score: 103
Period size: 27 Copynumber: 4.1 Consensus size: 27
40297708 TAGCAGTCAA
* * * *
40297718 TTTACCCTATGGGGGTATTTTGGTCAT
1 TTTACCCTTTGAGGGTATTTCGGTAAT
*
40297745 TTTACCCTTTGAGGGTACTTCGGTAAT
1 TTTACCCTTTGAGGGTATTTCGGTAAT
* * *
40297772 TTTACTC-TTCAGGGTATTTCGATAAT
1 TTTACCCTTTGAGGGTATTTCGGTAAT
* * **
40297798 TTTACCCTTCGGGGGTATTTTAGTAAT
1 TTTACCCTTTGAGGGTATTTCGGTAAT
40297825 TT
1 TT
40297827 AACAACCTTT
Statistics
Matches: 65, Mismatches: 16, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
26 22 0.34
27 43 0.66
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.45
Consensus pattern (27 bp):
TTTACCCTTTGAGGGTATTTCGGTAAT
Found at i:40302813 original size:19 final size:18
Alignment explanation
Indices: 40302767--40302813 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
40302757 TCTTTATATG
40302767 TTTATTTCTTGTTTTCAAT
1 TTTATTT-TTGTTTTCAAT
* *
40302786 TTTAGTTTTCGTTTTCATT
1 TTTA-TTTTTGTTTTCAAT
40302805 TTTATTTTT
1 TTTATTTTT
40302814 TTTGTTTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 17 0.71
20 3 0.12
ACGTcount: A:0.13, C:0.09, G:0.06, T:0.72
Consensus pattern (18 bp):
TTTATTTTTGTTTTCAAT
Found at i:40304068 original size:18 final size:18
Alignment explanation
Indices: 40304038--40304080 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
40304028 ATTTTAAGTC
*
40304038 ATTTGTTTATTTTTC-TT
1 ATTTATTTATTTTTCGTT
40304055 ATTTATTTATTTTTCGTT
1 ATTTATTTATTTTTCGTT
40304073 ATTTATTT
1 ATTTATTT
40304081 TTATGTCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (18 bp):
ATTTATTTATTTTTCGTT
Found at i:40307313 original size:41 final size:41
Alignment explanation
Indices: 40307268--40307345 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
40307258 ACTAATTGCA
* *
40307268 TCGATGCATTGACTTGGGTATCGATACCTCA-GCCAATGGTG
1 TCGATACATTAACTTGGGTATCGATACC-CATGCCAATGGTG
40307309 TCGATACATTAACTTGGGTATCGATACCCATGCCAAT
1 TCGATACATTAACTTGGGTATCGATACCCATGCCAAT
40307346 TATTGATACC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 2 0.06
41 32 0.94
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (41 bp):
TCGATACATTAACTTGGGTATCGATACCCATGCCAATGGTG
Found at i:40309259 original size:43 final size:43
Alignment explanation
Indices: 40308991--40309242 Score: 333
Period size: 43 Copynumber: 5.9 Consensus size: 43
40308981 TTTTAGAAAA
* *
40308991 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * *
40309034 AAACGCCGCTATAGATCACGAGCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
*
40309077 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
40309120 AAACACTGCTATAGATCAAGACCTTTAGCAGTGCTTTTCCCAA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
40309163 AAACGTCACTATAGCTCAGGACCTTTAGCGGCGCTTTTCCAAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * *
40309206 AAACACCGCTATAGCTCAAGACCTTTAGCGACGCTTT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT
40309243 GATTACAAAC
Statistics
Matches: 181, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 181 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:40309350 original size:16 final size:16
Alignment explanation
Indices: 40309331--40309364 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
40309321 AAATATTAAA
40309331 TATTAAAATAAAAAAT
1 TATTAAAATAAAAAAT
*
40309347 TATTAATATAAAAAAT
1 TATTAAAATAAAAAAT
40309363 TA
1 TA
40309365 ATTAGTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TATTAAAATAAAAAAT
Found at i:40309362 original size:23 final size:22
Alignment explanation
Indices: 40309319--40309360 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
40309309 AAAAACATTT
*
40309319 AAAAATATTAAATATTAAAATA
1 AAAAATATTAAATATAAAAATA
40309341 AAAAATTATT-AATATAAAAA
1 AAAAA-TATTAAATATAAAAA
40309361 ATTAATTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAAATATTAAATATAAAAATA
Found at i:40310760 original size:40 final size:41
Alignment explanation
Indices: 40310716--40310829 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 41
40310706 GCGTTTGGAT
40310716 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCG-CTTTAG
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTCTTTAG
* ** * * * *
40310756 AAAAAACGCCACTAAAGGTCCAGAATTAGCGGCGTTTTTTG
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTCTTTAG
* * * *
40310797 -GAAAATGCCGCTAAAAAT-GAGCATTAGTGGCGT
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGT
40310830 TTTCCAAAAA
Statistics
Matches: 58, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
39 12 0.21
40 42 0.72
41 4 0.07
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTCTTTAG
Found at i:40310955 original size:41 final size:41
Alignment explanation
Indices: 40310888--40311163 Score: 340
Period size: 41 Copynumber: 6.8 Consensus size: 41
40310878 GAGTTTTCAA
*
40310888 GGCTTTAGCGGCGTTTCTGAAAAAGTGCCGCTAATGCTCTG
1 GGCTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGCTCTG
* *
40310929 GGCTTTAGCGGTGTTTTTGAAGAAGTGCCGCTAATGCTCTG
1 GGCTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGCTCTG
* * * * *
40310970 TGCTTTAGCGACGTTTCTGAAAAGGCGCCGCTAATGCTCTG
1 GGCTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGCTCTG
* * * *
40311011 GGCTTTAGCGGCGTTTTTGAAGAAGCGTCGTTAATGCTCTG
1 GGCTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGCTCTG
* *
40311052 GGCTTTAGCGGCGTTTTTTAAAAAGTGTCGCTAATGCTC-G
1 GGCTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGCTCTG
** * *
40311092 GGTCTTTAGCGATGTTTTTGAAAAAGCGCCGCTATTGCTCT-
1 GG-CTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGCTCTG
***
40311133 ATTTTTAGCGGCGTTTTTGAAAAAGTGCCGC
1 GGCTTTAGCGGCGTTTTTGAAAAAGTGCCGC
40311164 AAAAATTATT
Statistics
Matches: 200, Mismatches: 33, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
40 28 0.14
41 172 0.86
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.33
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGCTCTG
Found at i:40315017 original size:47 final size:47
Alignment explanation
Indices: 40314965--40315942 Score: 1591
Period size: 47 Copynumber: 20.5 Consensus size: 47
40314955 GATAATTGTG
* *
40314965 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40315012 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40315059 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40315108 ATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40315154 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40315201 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40315248 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40315297 ATGTGAAAGTGTATATATATGTTATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40315346 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40315393 ATGTGAAAGTGCATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40315442 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40315489 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40315536 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40315583 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40315632 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40315681 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40315728 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTAATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40315777 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40315824 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGACCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * *
40315871 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
40315918 ATGTGAAAGTGTATAAATGTGATAA
1 ATGTGAAAGTGTATATATGTGATAA
40315943 CTCCCGAAGG
Statistics
Matches: 878, Mismatches: 40, Indels: 25
0.93 0.04 0.03
Matches are distributed among these distances:
46 47 0.05
47 507 0.58
48 1 0.00
49 323 0.37
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:40315035 original size:96 final size:94
Alignment explanation
Indices: 40314965--40315942 Score: 1546
Period size: 96 Copynumber: 10.3 Consensus size: 94
40314955 GATAATTGTG
*
40314965 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
40315030 GTGATAAGGCCGAATGGCCAATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
40315059 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
40315124 ATGTGATAAGGCCTAAT-GCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40315154 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
40315219 GTGATAAGGCCGAATGGCCAATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
40315248 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
*
40315313 ATATGTTATAAGGCCTAATGGCCGATGTGATGA
62 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40315346 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGCATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
40315411 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40315442 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
40315507 GTGATGAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
* * *
40315536 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
40315601 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
40315632 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
40315697 ATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40315728 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTAATGAATGTGAAAGTGTATAT
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
40315793 ATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
40315824 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * *
40315889 GTGA-CAGAGCCGAGTGGCCAATGTGATGG
66 GTGATAAG-GCCTAATGGCCGATGTGATGA
* *
40315918 ATGTGAAAGTGTATAAATGTGATAA
1 ATGTGAAAGTATATATATGTGATAA
40315943 CTCCCGAAGG
Statistics
Matches: 834, Mismatches: 38, Indels: 24
0.93 0.04 0.03
Matches are distributed among these distances:
93 71 0.09
94 213 0.26
95 20 0.02
96 442 0.53
98 88 0.11
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:40315633 original size:335 final size:335
Alignment explanation
Indices: 40314965--40315942 Score: 1815
Period size: 335 Copynumber: 2.9 Consensus size: 335
40314955 GATAATTGTG
40314965 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
40315028 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
40315093 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATG
131 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
40315157 TGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
196 TGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
40315222 ATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
261 ATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
40315287 GATGTGATGA
326 GATGTGATGA
*
40315297 ATGTGAAAGTGTATATATATGTTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
40315362 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGCATATATATGTGATAAGGCCTAA
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
40315427 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
131 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
40315492 TGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
196 TGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
40315557 ATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
261 ATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
40315622 GATGTGATGA
326 GATGTGATGA
40315632 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
40315697 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
*
40315762 TGGCCGATGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
131 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
*
40315827 TGAAAGTGTATATATGTGATGAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATATATGTG
196 TGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
* * *
40315892 A-CAGAGCCGAGTGGCCAATGTGATGGATGTGAAAGTGTATA-A-ATGTGATAA
261 ATAAG-GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
40315943 CTCCCGAAGG
Statistics
Matches: 630, Mismatches: 12, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
332 5 0.01
333 11 0.02
334 167 0.27
335 447 0.71
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (335 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
TGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
ATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
GATGTGATGA
Found at i:40317668 original size:15 final size:14
Alignment explanation
Indices: 40317638--40317677 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
40317628 ATTAATTATC
*
40317638 ATTATAGTTTAGGG
1 ATTATAGTTTAAGG
40317652 ATTATAGGTTTAAGG
1 ATTATA-GTTTAAGG
*
40317667 ATTATTGTTTA
1 ATTATAGTTTA
40317678 TGGTTTACGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
ATTATAGTTTAAGG
Found at i:40318174 original size:20 final size:21
Alignment explanation
Indices: 40318140--40318179 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
40318130 GCCTTGTTTT
40318140 CCCTAAATTTCCCCCCTAAAC
1 CCCTAAATTTCCCCCCTAAAC
*
40318161 CCCT-AATTTTCCCCCTAAA
1 CCCTAAATTTCCCCCCTAAA
40318180 ATTGGTATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.28, C:0.45, G:0.00, T:0.28
Consensus pattern (21 bp):
CCCTAAATTTCCCCCCTAAAC
Found at i:40322394 original size:35 final size:34
Alignment explanation
Indices: 40322343--40322408 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
40322333 TAATTGTGTT
40322343 ATTAATTTATTATTTTAAATTCTAAATTTAAATTC
1 ATTAATTTATTATTTTAAATT-TAAATTTAAATTC
* *
40322378 ATTAATTT-TTATTTTTATATTTAGATTTAAA
1 ATTAATTTATTA-TTTTAAATTTAAATTTAAA
40322409 GTTAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 12 0.43
35 16 0.57
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (34 bp):
ATTAATTTATTATTTTAAATTTAAATTTAAATTC
Found at i:40325312 original size:22 final size:24
Alignment explanation
Indices: 40325275--40325318 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
40325265 AATAACTTAG
40325275 GGAAATTTAGGGGAAACGAAGTTA
1 GGAAATTTAGGGGAAACGAAGTTA
*
40325299 GGAAA-TT-GGGGAAATGAAGT
1 GGAAATTTAGGGGAAACGAAGT
40325319 CGGGGAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 2 0.11
24 5 0.26
ACGTcount: A:0.41, C:0.02, G:0.36, T:0.20
Consensus pattern (24 bp):
GGAAATTTAGGGGAAACGAAGTTA
Found at i:40326154 original size:7 final size:7
Alignment explanation
Indices: 40326144--40326175 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
40326134 CACTAACTCT
*
40326144 TAACCTC
1 TAACCCC
40326151 TAACCCC
1 TAACCCC
40326158 TAACCCC
1 TAACCCC
40326165 TAACCCC
1 TAACCCC
40326172 TAAC
1 TAAC
40326176 TACTAAGCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (7 bp):
TAACCCC
Found at i:40326181 original size:14 final size:14
Alignment explanation
Indices: 40326134--40326181 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
40326124 AACCTTAAAT
* *
40326134 CACTAACTCTTAAC
1 CACTAACCCCTAAC
*
40326148 CTCTAACCCCTAAC
1 CACTAACCCCTAAC
*
40326162 CCCTAACCCCTAAC
1 CACTAACCCCTAAC
*
40326176 TACTAA
1 CACTAA
40326182 GCCATAAACC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.23
Consensus pattern (14 bp):
CACTAACCCCTAAC
Found at i:40326311 original size:66 final size:70
Alignment explanation
Indices: 40326186--40326313 Score: 194
Period size: 66 Copynumber: 1.9 Consensus size: 70
40326176 TACTAAGCCA
40326186 TAAACCTTATTTAATATATAAATTAAAAAAACACTAATTAATCTAAACGCTAAAACCTAACCCTA
1 TAAACCTTATTTAATATATAAATTAAAAAAACACTAATTAATCTAAACGCTAAAACCTAACCCTA
40326251 ACCCC
66 ACCCC
* *
40326256 TAAACCTTATTT-A-ATATAAATT-AAAACA-ACTAATTAATCTAAAC-CTTAAACCCTAACC
1 TAAACCTTATTTAATATATAAATTAAAAAAACACTAATTAATCTAAACGC-TAAAACCTAACC
40326314 TGACATTGAA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
65 1 0.02
66 27 0.49
67 5 0.09
68 9 0.16
69 1 0.02
70 12 0.22
ACGTcount: A:0.48, C:0.22, G:0.01, T:0.29
Consensus pattern (70 bp):
TAAACCTTATTTAATATATAAATTAAAAAAACACTAATTAATCTAAACGCTAAAACCTAACCCTA
ACCCC
Found at i:40326976 original size:41 final size:40
Alignment explanation
Indices: 40326828--40326976 Score: 174
Period size: 41 Copynumber: 3.6 Consensus size: 40
40326818 TTTGCGGCAC
* * *
40326828 CTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTAACGACG
1 CTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGACG
* * **
40326868 AGTATTGGAAAACGCCGCTAAATG-CCCGAGCATTAGCGACG
1 -CTTTTCAAAAACGCCGCTAAA-GCCCCGAGCATTAGCGACG
* *
40326909 CTTTTTCAAAAACGCCGCTTAAGCCCCGAGCATTAGCGGCG
1 C-TTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGACG
40326950 CTTTTCCAAAAACGCCGCTAAAGCCCC
1 CTTTT-CAAAAACGCCGCTAAAGCCCC
40326977 AAAAGATCAG
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 5 0.05
41 85 0.93
42 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (40 bp):
CTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGACG
Found at i:40327178 original size:3 final size:3
Alignment explanation
Indices: 40327163--40327221 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
40327153 TCAAACCCTT
* * *
40327163 TTC TTC GTC TTC TTC TTC TTC TTA TTC TTC TTC TTC TTC TTA TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
40327211 TTC TTC TTC TT
1 TTC TTC TTC TT
40327222 TTGGCTTGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.03, C:0.29, G:0.02, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:40327191 original size:18 final size:18
Alignment explanation
Indices: 40327170--40327221 Score: 104
Period size: 18 Copynumber: 2.9 Consensus size: 18
40327160 CTTTTCTTCG
40327170 TCTTCTTCTTCTTCTTAT
1 TCTTCTTCTTCTTCTTAT
40327188 TCTTCTTCTTCTTCTTAT
1 TCTTCTTCTTCTTCTTAT
40327206 TCTTCTTCTTCTTCTT
1 TCTTCTTCTTCTTCTT
40327222 TTGGCTTGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.04, C:0.29, G:0.00, T:0.67
Consensus pattern (18 bp):
TCTTCTTCTTCTTCTTAT
Found at i:40333879 original size:12 final size:12
Alignment explanation
Indices: 40333862--40333903 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
40333852 TTAGGCTGTT
40333862 ACACGGCCTAGC
1 ACACGGCCTAGC
40333874 ACACGGCCTAGC
1 ACACGGCCTAGC
*
40333886 ACATGGCCTAGC
1 ACACGGCCTAGC
40333898 ACACGG
1 ACACGG
40333904 GCGTGTGGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.26, C:0.38, G:0.26, T:0.10
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:40337967 original size:110 final size:111
Alignment explanation
Indices: 40337775--40338027 Score: 321
Period size: 110 Copynumber: 2.3 Consensus size: 111
40337765 CTAGAGACAA
* * * *
40337775 TAAAAAAAATTTTGGTGCTAGCCA-GTAGATGGCCGGCACCAGGTACAATTTTCAGTTCCCAAGG
1 TAAAAAAAATTTGGGTGCTGGCCATGTA-ATGGCCGACACCAAGTACAATTTTCAGTTCCCAAGG
* * * *
40337839 CACATTTTTTTTACTTTGGGACACTGATGCCCGGCACTAGTGTA-TT
65 CACATTATTATTACTTTGGAACACTGATGCCCGGCACCAGTGTATTT
* * * *
40337885 TAAAAAAAAATTGGGTGTTGGCCATGTAATGGCCGACACCAAGTACAATTTTCGGTTCCCAATGC
1 TAAAAAAAATTTGGGTGCTGGCCATGTAATGGCCGACACCAAGTACAATTTTCAGTTCCCAAGGC
* * ** *
40337950 ATATTATTATTATTTTGGAACACTGATGGTCGGTACCAGTGTATTT
66 ACATTATTATTACTTTGGAACACTGATGCCCGGCACCAGTGTATTT
*
40337996 TAAAAAAATTTTGGGTGCTGGCCATGTAATGG
1 TAAAAAAAATTTGGGTGCTGGCCATGTAATGG
40338028 TAGGCACCAA
Statistics
Matches: 121, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
110 87 0.72
111 34 0.28
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (111 bp):
TAAAAAAAATTTGGGTGCTGGCCATGTAATGGCCGACACCAAGTACAATTTTCAGTTCCCAAGGC
ACATTATTATTACTTTGGAACACTGATGCCCGGCACCAGTGTATTT
Found at i:40338078 original size:111 final size:110
Alignment explanation
Indices: 40337775--40338098 Score: 303
Period size: 110 Copynumber: 2.9 Consensus size: 110
40337765 CTAGAGACAA
* * * * * ** * *
40337775 TAAAAAAAATTTTGGTGCTAGCCA-GTAGATGGCCGGCACCAGGTACAATTTTCAG-TTCCCAAG
1 TAAAAAAAAATTGGGTGCTGGCCATGTA-ATGGCAGACACCAAATACAATTTTC-GCCTCCCAAT
* * *
40337838 GCACATTTTTTTTACTTTGGGACACTGATGCCCGGCACTAGTGTATT
64 GCATATTTTTTTTACTTTGGGACACTGATGGCCGGCACCAGTGTATT
* * * **
40337885 TAAAAAAAAATTGGGTGTTGGCCATGTAATGGCCGACACCAAGTACAATTTTCGGTTCCCAATGC
1 TAAAAAAAAATTGGGTGCTGGCCATGTAATGGCAGACACCAAATACAATTTTCGCCTCCCAATGC
* * * * * *
40337950 ATATTATTATTATTTTGGAACACTGATGGTCGGTACCAGTGTATTT
66 ATATTTTTTTTACTTTGGGACACTGATGGCCGGCACCAGTGTA-TT
** * * * * *
40337996 TAAAAAAATTTTGGGTGCTGGCCATGTAATGGTAGGCACCAAATACAGTTTTTGCCTCCCAATGT
1 TAAAAAAAAATTGGGTGCTGGCCATGTAATGGCAGACACCAAATACAATTTTCGCCTCCCAATGC
* *
40338061 A-AGTTTTTTTTACTTTGGGACATTGATGGCTGGCACCA
66 ATA-TTTTTTTTACTTTGGGACACTGATGGCCGGCACCA
40338099 CCTTTTTCGG
Statistics
Matches: 174, Mismatches: 36, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
109 1 0.01
110 87 0.50
111 86 0.49
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (110 bp):
TAAAAAAAAATTGGGTGCTGGCCATGTAATGGCAGACACCAAATACAATTTTCGCCTCCCAATGC
ATATTTTTTTTACTTTGGGACACTGATGGCCGGCACCAGTGTATT
Found at i:40343467 original size:6 final size:6
Alignment explanation
Indices: 40343435--40343480 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
40343425 GTCTACATGC
40343435 AAAAT- AAAAT- AAAATA GAAGGAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA -AA--AATA AAAATA AAAATA AAAATA AAA
40343481 TGTGTAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
5 10 0.27
6 19 0.51
7 2 0.05
8 2 0.05
9 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:40352537 original size:6 final size:6
Alignment explanation
Indices: 40352516--40352559 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
40352506 CTTTTTTTTT
40352516 CATTT- CATTT- CATTTC CATTTC CATTTC CATTTC CATTT- CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
40352560 AAATTATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 15 0.39
6 23 0.61
ACGTcount: A:0.18, C:0.27, G:0.00, T:0.55
Consensus pattern (6 bp):
CATTTC
Found at i:40352631 original size:23 final size:22
Alignment explanation
Indices: 40352552--40352632 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 22
40352542 TCCATTTCCA
*
40352552 TTTCATTTAAATTAT-ATTT-T
1 TTTCATTTAAATTTTAATTTAT
*
40352572 TTCCATTTAAA-TTTAA-TTAT
1 TTTCATTTAAATTTTAATTTAT
* *
40352592 TTCTCATCTCAATTTTTAATTTAT
1 TT-TCAT-TTAAATTTTAATTTAT
40352616 TTTCATTTAAACTTTTA
1 TTTCATTTAAA-TTTTA
40352633 TTCCATTTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
19 4 0.09
20 14 0.30
21 3 0.06
22 6 0.13
23 14 0.30
24 6 0.13
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTCATTTAAATTTTAATTTAT
Found at i:40352631 original size:24 final size:23
Alignment explanation
Indices: 40352583--40352632 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
40352573 TCCATTTAAA
*
40352583 TTTAATTATTTCTCATCTCAATT
1 TTTAATTATTTCTCATCTAAATT
* *
40352606 TTTAATTTATTT-TCATTTAAACT
1 TTTAA-TTATTTCTCATCTAAATT
40352629 TTTA
1 TTTA
40352633 TTCCATTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTAATTATTTCTCATCTAAATT
Found at i:40352887 original size:21 final size:21
Alignment explanation
Indices: 40352845--40352887 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
40352835 TATCAGGGTC
*
40352845 ATTTAAAATTTTTCATATTTT
1 ATTTAAAATTTTTCATAATTT
40352866 ATTTAAAATTTTTC-TCAATTT
1 ATTTAAAATTTTTCAT-AATTT
40352887 A
1 A
40352888 AATATCATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTAAAATTTTTCATAATTT
Found at i:40353158 original size:27 final size:26
Alignment explanation
Indices: 40353128--40353384 Score: 164
Period size: 27 Copynumber: 10.3 Consensus size: 26
40353118 CTTTTTTTTC
40353128 CATTTAAATTTAATTTTTTTCTCATTT
1 CATTTAAATTT-ATTTTTTTCTCATTT
* **
40353155 CATTT--A--TATTGTCTTTCT--TCC
1 CATTTAAATTTATT-TTTTTCTCATTT
*
40353176 CATATAAATTTAATTTTTTTTCTCATTT
1 CATTTAAATTT-A-TTTTTTTCTCATTT
40353204 CATTTAAA-TTATTTTTTT-TC---T
1 CATTTAAATTTATTTTTTTCTCATTT
40353225 -ATTTAAATATTA-TTTTTTCTCATTT
1 CATTTAAAT-TTATTTTTTTCTCATTT
* *
40353250 CATTTAAA-TTA--TCTTT-T-ATTC
1 CATTTAAATTTATTTTTTTCTCATTT
40353271 CATTTAAATTTAATTTTTTTCTCATTT
1 CATTTAAATTT-ATTTTTTTCTCATTT
40353298 CATTTAAA-TTATCTTTCTTTC-CATTTT
1 CATTTAAATTTAT-TTT-TTTCTCA-TTT
* *
40353325 AATTTTAA--T-TTTTTTTCTCATTT
1 CATTTAAATTTATTTTTTTCTCATTT
* *
40353348 CATTTAGATTTAATTTTTCTTCTCTTTT
1 CATTTAAATTT-ATTTTT-TTCTCATTT
40353376 CATTTAAAT
1 CATTTAAAT
40353385 GATCTTTCTT
Statistics
Matches: 180, Mismatches: 19, Indels: 61
0.69 0.07 0.23
Matches are distributed among these distances:
20 7 0.04
21 23 0.13
22 11 0.06
23 25 0.14
24 10 0.06
25 18 0.10
26 24 0.13
27 38 0.21
28 24 0.13
ACGTcount: A:0.25, C:0.13, G:0.01, T:0.62
Consensus pattern (26 bp):
CATTTAAATTTATTTTTTTCTCATTT
Found at i:40353184 original size:48 final size:48
Alignment explanation
Indices: 40353112--40353353 Score: 330
Period size: 48 Copynumber: 5.0 Consensus size: 48
40353102 AGTTCGTTTC
*
40353112 AATTATCTTTTTTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTA
1 AATTATC-TTTCTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTA
* * * *
40353161 TATTGTCTTTCTTCCCATATAAATTTAATTTTTTTTCTCATTTCATTTA
1 AATTATCTTTCTTTCCATTTAAATTTAA-TTTTTTTCTCATTTCATTTA
* *
40353210 AATTAT-TTTTTTTCTATTTAAATATT-A-TTTTTTCTCATTTCATTTA
1 AATTATCTTTCTTTCCATTTAAAT-TTAATTTTTTTCTCATTTCATTTA
40353256 AATTATCTTT-TATTCCATTTAAATTTAATTTTTTTCTCATTTCATTTA
1 AATTATCTTTCT-TTCCATTTAAATTTAATTTTTTTCTCATTTCATTTA
*
40353304 AATTATCTTTCTTTCCATTTTAATTTTAATTTTTTTTCTCATTTCATTTA
1 AATTATCTTTCTTTCCA-TTTAAATTTAA-TTTTTTTCTCATTTCATTTA
40353354 GATTTAATTT
Statistics
Matches: 171, Mismatches: 13, Indels: 17
0.85 0.06 0.08
Matches are distributed among these distances:
46 28 0.16
47 15 0.09
48 66 0.39
49 42 0.25
50 20 0.12
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.62
Consensus pattern (48 bp):
AATTATCTTTCTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTA
Found at i:40353235 original size:19 final size:21
Alignment explanation
Indices: 40353201--40353249 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
40353191 TTTTTTCTCA
40353201 TTTC-ATTTAAATTATT-TTT
1 TTTCTATTTAAATTATTATTT
40353220 TTTCTATTTAAA-TATTATTT
1 TTTCTATTTAAATTATTATTT
40353240 TTTCTCATTT
1 TTTCT-ATTT
40353250 CATTTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.30
20 15 0.56
21 4 0.15
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTCTATTTAAATTATTATTT
Done.