Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 35 of 109
Found at i:11291223 original size:19 final size:18
Alignment explanation
Indices: 11291188--11291225 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
11291178 TGGTTTTCTC
11291188 AAAATGGAAATGAAAATG
1 AAAATGGAAATGAAAATG
11291206 AAAATGAGAAA-GAGAAATG
1 AAAATG-GAAATGA-AAATG
11291225 A
1 A
11291226 TACATTTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.63, C:0.00, G:0.24, T:0.13
Consensus pattern (18 bp):
AAAATGGAAATGAAAATG
Found at i:11291452 original size:26 final size:26
Alignment explanation
Indices: 11291372--11291446 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
11291362 TATTTTCTTG
* *
11291372 AAATTTTACTAGGGGTAAAATCGTCA
1 AAATTTTTCTAGGGGTAAAATTGTCA
** * *
11291398 AAAAATTTATTGGGGTAAAATTGTCA
1 AAATTTTTCTAGGGGTAAAATTGTCA
11291424 AAATTTTTCTAGGGGTAAAATTG
1 AAATTTTTCTAGGGGTAAAATTG
11291447 GGAAAAAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.35
Consensus pattern (26 bp):
AAATTTTTCTAGGGGTAAAATTGTCA
Found at i:11293932 original size:44 final size:44
Alignment explanation
Indices: 11293883--11293972 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
11293873 ATAAACACAC
*
11293883 TAGGTAGGAAACTAATATTAAAATAACCTACACTAATCAGAATT
1 TAGGTAGGAAACTAATATTAAAATAACCTACACTAATAAGAATT
*
11293927 TAGGTAGGAAACTAATATTAAAATAACCTACACTAATAAGAGTT
1 TAGGTAGGAAACTAATATTAAAATAACCTACACTAATAAGAATT
11293971 TA
1 TA
11293973 AGTGAGAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (44 bp):
TAGGTAGGAAACTAATATTAAAATAACCTACACTAATAAGAATT
Found at i:11309798 original size:45 final size:44
Alignment explanation
Indices: 11309747--11310502 Score: 274
Period size: 45 Copynumber: 16.7 Consensus size: 44
11309737 TTTAATCTAT
* * *
11309747 TCCACTGCAACTTCAGGGAAATAATATTCGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTCG-TATCTTCAATCTGC
* * *
11309792 TCCACTGCAACTTTAGGGAGATAAGACTT-GTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTCGTATCTTCAATCTGC
* * * * * *
11309836 TCCACTACAACTTCAAGGAGATAAGGTTAG-AT-AT-GATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTCGTATCTTCAATCTGC
** * * * *
11309877 TTTATTGCAACTTCAGAGAGATAAGA-TCTGTAATTTATAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTC-G-----TAT--CTTCAATCTGC
* * *
11309928 TCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTCG-TATCTTCAATCTGC
* * ** * *
11309973 TCCACTGTAACTTCAGGGAGATAAGGTTTGCTATGATAGATTTAATCCGAC
1 TCCACTGCAACTTCAGGGAGATAA-GATT-C---G-TATCTTCAATCTG-C
* * * ** *
11310024 -CTATTGCAACCTT-AGAGG-TATTGGATT--TATCGTTTTAATCTGC
1 TCCACTGCAA-CTTCAG-GGAGATAAGATTCGTATC--TTCAATCTGC
* * * ** *
11310067 TCTACTACAACTTCAGGGAGATAGGATTAATAGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTCGTATCTTCAATCTGC
* * *
11310111 TCCACTACAACTTCAAGGAGATAAGATTGGTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTCGTATCTTCAATCTGC
* * * * * * *
11310155 TCCACTGTAACTTCAAGGATATAAGGTTTG-AT-AT-GATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTCGTATCTTCAATCTGC
* * * *
11310196 TCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTTATAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTC-G-----TAT--CTTCAATCTGC
* * * * * * *
11310247 TTCACTGCAATTTTAGGGAAATAATATTCGCTATCTTCAGTCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTCG-TATCTTCAATCTGC
* * * * * * *
11310292 TCCACTGCTACTTCAAGGAGATAAAACTT-ATAACTTTGAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTCGTATC-TTCAATCTGC
* * *
11310337 TCCACTGCAACTTTAGGGAGATAAGGTT--T-GCTAT-AATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTCGTATCT-TCAATCTGC
** * * * *
11310378 TTTACTGCAACTTTAGAGAGATAAGA-TCTGTAATTTATAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTC-G-----TAT--CTTCAATCTGC
* * *
11310429 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTCG-TATCTTCAATCTGC
11310474 TCCACTGCAACTTCAGGGAGATAAGATTC
1 TCCACTGCAACTTCAGGGAGATAAGATTC
11310503 ACCATGATGA
Statistics
Matches: 520, Mismatches: 134, Indels: 114
0.68 0.17 0.15
Matches are distributed among these distances:
40 3 0.01
41 81 0.16
42 6 0.01
43 12 0.02
44 135 0.26
45 141 0.27
46 10 0.02
47 14 0.03
48 1 0.00
49 3 0.01
50 22 0.04
51 87 0.17
52 5 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTCGTATCTTCAATCTGC
Found at i:11309815 original size:96 final size:95
Alignment explanation
Indices: 11309691--11309997 Score: 312
Period size: 96 Copynumber: 3.3 Consensus size: 95
11309681 TTTGATATGA
* * *
11309691 TCTGCTCTACTGCAACTTCAGAGG-GATAAGATTTATAATTTATAGCTTTAATCTATTCCACTGC
1 TCTGCTCCACTGCAACTTCAG-GGAGATAAGA-TTATAATTTATAGCTTTAATCTGTTCCACTAC
*
11309755 AACTTCAGGGAAATAATATTCGCTATCTTCAG
64 AACTTCAGGGAAATAAGATTCGCTATCTTCAG
* * * * * *
11309787 TCTGCTCCACTGCAACTTTAGGGAGATAAGA--CT--TGTA-A-CTTCAACCTGCTCCACTACAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAATTTATAGCTTTAATCTGTTCCACTACAA
* * * * * *
11309846 CTTCAAGGAGATAAGGTTAG--AT-ATGA-
66 CTTCAGGGAAATAAGATTCGCTATCTTCAG
** * * *
11309872 TCTGCTTTATTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTAATCTGTTCCACTACA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATAATTTATAGCTTTAATCTGTTCCACTACA
11309937 ACTTCAGGGAAATAAGATTCGCTATCTTCAG
65 ACTTCAGGGAAATAAGATTCGCTATCTTCAG
*
11309968 TCTGCTCCACTGTAACTTCAGGGAGATAAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG
11309998 GTTTGCTATG
Statistics
Matches: 162, Mismatches: 37, Indels: 24
0.73 0.17 0.11
Matches are distributed among these distances:
85 26 0.16
86 2 0.01
87 2 0.01
88 1 0.01
89 31 0.19
90 4 0.02
91 4 0.02
92 34 0.21
93 1 0.01
94 2 0.01
95 4 0.02
96 51 0.31
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (95 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAATTTATAGCTTTAATCTGTTCCACTACAA
CTTCAGGGAAATAAGATTCGCTATCTTCAG
Found at i:11309959 original size:181 final size:181
Alignment explanation
Indices: 11309672--11309997 Score: 553
Period size: 181 Copynumber: 1.8 Consensus size: 181
11309662 CAGCTTCAGA
* * *
11309672 GAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGGGATAAGATTTATAATTTATAGC
1 GAGATAAGGTTAGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAGC
* *
11309737 TTTAATCTATTCCACTGCAACTTCAGGGAAATAATATTCGCTATCTTCAGTCTGCTCCACTGCAA
66 TTTAATCTATTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAA
*
11309802 CTTTAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTTCAAG
131 CTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTTCAAG
* * *
11309853 GAGATAAGGTTAGATATGATCTGCTTTATTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGC
1 GAGATAAGGTTAGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAGC
* *
11309918 TTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGTAA
66 TTTAATCTATTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAA
11309983 CTTCAGGGAGATAAG
131 CTTCAGGGAGATAAG
11309998 GTTTGCTATG
Statistics
Matches: 134, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
181 134 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (181 bp):
GAGATAAGGTTAGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAGC
TTTAATCTATTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAA
CTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTTCAAG
Found at i:11310094 original size:44 final size:44
Alignment explanation
Indices: 11310060--11310173 Score: 156
Period size: 44 Copynumber: 2.6 Consensus size: 44
11310050 TTATCGTTTT
* *
11310060 AATCTGCTCTACTACAACTTCAGGGAGATAGGATTAATAGCTTC
1 AATCTGCTCCACTACAACTTCAAGGAGATAGGATTAATAGCTTC
* ** *
11310104 AATCTGCTCCACTACAACTTCAAGGAGATAAGATTGGTATCTTC
1 AATCTGCTCCACTACAACTTCAAGGAGATAGGATTAATAGCTTC
**
11310148 AATCTGCTCCACTGTAACTTCAAGGA
1 AATCTGCTCCACTACAACTTCAAGGA
11310174 TATAAGGTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTACAACTTCAAGGAGATAGGATTAATAGCTTC
Found at i:11310339 original size:182 final size:182
Alignment explanation
Indices: 11310048--11310497 Score: 564
Period size: 182 Copynumber: 2.5 Consensus size: 182
11310038 GAGGTATTGG
* * * * * * * ** * * *
11310048 ATTTATCGTTTTAATCTGCTCTACTACAACTTCAGGGAGATAGGATT-AATAGCTTCAATCTGCT
1 ATTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACT
* * * * * * * *
11310112 CCACTACAACTTCAAGGAGATAAGA-TTGGTATC-TTCAATCTGCTCCACTGTAACTTCAAGGAT
66 CCACTGCAACTTCAAGGAGATAAAACTT-ATAACTTTGAACCTGCTCCACTGCAACTTCAAGGAG
*
11310175 ATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTA
130 ATAAGGTTTGATATAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTA
* * * *
11310228 ATTTATAGCTTTAATCTGTTTCACTGCAATTTTAGGGAAATAATATTCGCTATCTTCAGTCTACT
1 ATTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACT
* * *
11310293 CCACTGCTACTTCAAGGAGATAAAACTTATAACTTTGAACCTGCTCCACTGCAACTTTAGGGAGA
66 CCACTGCAACTTCAAGGAGATAAAACTTATAACTTTGAACCTGCTCCACTGCAACTTCAAGGAGA
* * *
11310358 TAAGGTTTGCTATAATCTGCTTTACTGCAACTTTAGAGAGATAAGATCTGTA
131 TAAGGTTTGATATAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTA
* *
11310410 ATTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCT
1 ATTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACT
*
11310475 CCACTGCAACTTCAGGGAGATAA
66 CCACTGCAACTTCAAGGAGATAA
11310498 GATTCACCAT
Statistics
Matches: 228, Mismatches: 39, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
180 36 0.16
181 37 0.16
182 155 0.68
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (182 bp):
ATTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACT
CCACTGCAACTTCAAGGAGATAAAACTTATAACTTTGAACCTGCTCCACTGCAACTTCAAGGAGA
TAAGGTTTGATATAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTA
Found at i:11310441 original size:92 final size:92
Alignment explanation
Indices: 11310148--11310500 Score: 317
Period size: 92 Copynumber: 3.8 Consensus size: 92
11310138 TGGTATCTTC
* * * * * *
11310148 AATCTGCTCCACTGTAACTTCAAGGATATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAGA
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATAATCTGCTCTACTGCAACTTCAGA
11310213 GAGATAAGATCTGTAATTTATAGCTTT
66 GAGATAAGATCTGTAATTTATAGCTTT
* * * * * * * * * *
11310240 AATCTGTTTCACTGCAATTTTAGGGAAATAATATTCGCTATCTTCAGTCTACTCCACTGCTACTT
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTA---T-AATCTGCTCTACTGCAACTT
*
11310305 CA-AGGAGATAA-AACT-T-A--TA-A-CTTT
62 CAGA-GAGATAAGATCTGTAATTTATAGCTTT
* * * * * *
11310329 GAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGCTATAATCTGCTTTACTGCAACTTTAG
1 -AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATAATCTGCTCTACTGCAACTTCAG
11310394 AGAGATAAGATCTGTAATTTATAGCTTT
65 AGAGATAAGATCTGTAATTTATAGCTTT
* * *
11310422 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTA---T-AATCTGCTCTACTGCAACTT
*
11310487 CAGGGAGATAAGAT
62 CAGAGAGATAAGAT
11310501 TCACCATGAT
Statistics
Matches: 201, Mismatches: 42, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
86 23 0.11
87 5 0.02
88 1 0.00
89 5 0.02
90 33 0.16
91 4 0.02
92 65 0.32
93 5 0.02
94 1 0.00
95 6 0.03
96 53 0.26
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (92 bp):
AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATAATCTGCTCTACTGCAACTTCAGA
GAGATAAGATCTGTAATTTATAGCTTT
Found at i:11310466 original size:319 final size:314
Alignment explanation
Indices: 11309781--11310498 Score: 819
Period size: 319 Copynumber: 2.3 Consensus size: 314
11309771 TATTCGCTAT
* * * * *
11309781 CTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTCAATCTGCTCCACTGCAA
* *
11309846 CTTCAAGGAGATAAGGTTAGATATGATCTGCTTTATTGCAACTTCAGAGAGATAAGATCTGTAAT
65 CTTCAAGGAGATAAGGTTAGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAAT
*
11309911 TTATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCC
130 TTATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACTCC
* ** * *
11309976 ACTGTAACTTCAGGGAGATAAGGTTTGCTATGATAGATTTAATCCGACCTATTGCAACCTTAGAG
195 ACTGTAACTTCAAGGAGATAA-G--AACTATGATAGATTTAATCCGACCCACTGCAACCTTAGAG
* * * * *
11310041 GTATTGGATTTATCGTTTTAATCTGCTCTACTACAACTTCAGGGAGATAGGATTAATAG
257 ATATAGGA-TTATCGCTATAATCTGCTCTACTACAACTTCAGAGAGATAGGATTAATAG
* * *
11310100 CTTCAATCTGCTCCACTACAACTTCAAGGAGATAAGATTGGTATCTTCAATCTGCTCCACTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTATCTTCAATCTGCTCCACTGCAA
* *
11310165 CTTCAAGGATATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAAT
65 CTTCAAGGAGATAAGGTTAGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAAT
* * * * *
11310230 TTATAGCTTTAATCTGTTTCACTGCAATTTTAGGGAAATAATATTCGCTATCTTCAGTCTACTCC
130 TTATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACTCC
*
11310295 ACTGCT-ACTTCAAGGAGATAA-AACT-T-ATA-ACTTTGAA-CCTG-CTCCACTGCAACTTTAG
195 ACTG-TAACTTCAAGGAGATAAGAACTATGATAGA-TTT-AATCC-GAC-CCACTGCAACCTTA-
* * * *
11310353 GGAGATA-AGG-TT-T-GCTATAATCTGCTTTACTGCAACTTTAGAGAGATAAGATCTGTAATTT
254 -GAGATATAGGATTATCGCTATAATCTGCTCTACTACAACTTCAGAGAGAT-AG----G--ATTA
11310414 ATAG
311 ATAG
* * * *
11310418 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TATCTTCAATCTGCTCCACTGCA
*
11310483 ACTTCAGGGAGATAAG
64 ACTTCAAGGAGATAAG
11310499 ATTCACCATG
Statistics
Matches: 340, Mismatches: 42, Indels: 34
0.82 0.10 0.08
Matches are distributed among these distances:
311 28 0.08
312 4 0.01
313 11 0.03
314 15 0.04
315 4 0.01
316 6 0.02
318 42 0.12
319 229 0.67
320 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (314 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTATCTTCAATCTGCTCCACTGCAAC
TTCAAGGAGATAAGGTTAGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATT
TATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACTCCA
CTGTAACTTCAAGGAGATAAGAACTATGATAGATTTAATCCGACCCACTGCAACCTTAGAGATAT
AGGATTATCGCTATAATCTGCTCTACTACAACTTCAGAGAGATAGGATTAATAG
Found at i:11314821 original size:20 final size:21
Alignment explanation
Indices: 11314798--11314838 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
11314788 ATATATGTAC
11314798 ATATATA-AGTTAT-AAAATAA
1 ATATATATA-TTATGAAAATAA
11314818 ATATATATATTATGAAAATAA
1 ATATATATATTATGAAAATAA
11314839 TGATTACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (21 bp):
ATATATATATTATGAAAATAA
Found at i:11314861 original size:26 final size:23
Alignment explanation
Indices: 11314795--11314861 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 23
11314785 TATATATATG
11314795 TACATATATAAGTTATAAAATAAA
1 TACATATATAAGTTA-AAAATAAA
* * *
11314819 TATATATATTA--TGAAAATAATGA
1 TACATATATAAGTTAAAAATAA--A
11314842 TTACATATATAAGTTAAAAA
1 -TACATATATAAGTTAAAAA
11314862 AATAGAAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
21 7 0.22
22 1 0.03
23 1 0.03
24 18 0.56
26 5 0.16
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (23 bp):
TACATATATAAGTTAAAAATAAA
Found at i:11316424 original size:45 final size:45
Alignment explanation
Indices: 11316325--11316960 Score: 453
Period size: 45 Copynumber: 14.5 Consensus size: 45
11316315 TCTCAATCTA
** * *
11316325 CTCCACTGCAACTTCAGGGAGATAAGA-TTTTTTTATTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
* * *
11316369 CCCCATTGCAATTTCAAGGG-GATAAGACTTGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTC-AGGGAGATAAGACTTGCTTTCTTGAGTCTG
* *
11316414 CTCCACTGCAACTTCAGGGAGATAAGATTTG--AT-TTGA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
** * * * * * **
11316455 CTTTACTGCAACTTCAGAGAGATAAAATCCAT-CATTC-T-AATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTTCTTGAGTCTG
* * * * * *
11316499 CTCCACTACAACTTTAGGGAGATAGGATTTG-TTTATTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
* *
11316543 C-CCAACTGCAATTTCAAGGG-GATAAGATTTGCTTTCTTGAGTCTG
1 CTCC-ACTGCAACTTC-AGGGAGATAAGACTTGCTTTCTTGAGTCTG
*
11316588 CTCCACTGCAACTTCAGGGAAATAAGACTTGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
*
11316633 CTCCACTGCAACCTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
* * * * * * *
11316678 CCCCACTGCAACCTCAGGGGGATAAGACCTGCTTAC-TCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
* * * *
11316722 CTCCACTGCAACTTCAGGGAGATAAGAATAG-ATGC--GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
* * * * *
11316763 CT-CTCTGCAACTTCAGAGAGATAAGA--T-CTATCACTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCT-T-TCTTGAGTCTG
* * * * * *
11316806 CTCCACCGCAACTTCAGGGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTT-TCTTGAGTCTG
** *
11316850 CTCCACTGCAACTTCAGGGAGATAAGA-TTCGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCTTTCTTGAGTCTG
* * **
11316895 -TCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTCT-AATCCA
1 CT-CCACTGCAACTTCAGGGA-GATAAGACTTGCTTTCT-TGAGTCTG
*
11316940 CTCCACTGTAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAG
11316961 TCAGGATTTG
Statistics
Matches: 469, Mismatches: 90, Indels: 65
0.75 0.14 0.10
Matches are distributed among these distances:
39 1 0.00
40 23 0.05
41 32 0.07
42 9 0.02
43 14 0.03
44 166 0.35
45 215 0.46
46 9 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
Found at i:11316821 original size:44 final size:44
Alignment explanation
Indices: 11316769--11316878 Score: 159
Period size: 44 Copynumber: 2.5 Consensus size: 44
11316759 TCTGCTCTCT
*
11316769 GCAACTTCAGAGAGATAAGATCTA-TCACTTTAATCTGCTCCACC
1 GCAACTTCAGGGAGATAAGAT-TATTCACTTTAATCTGCTCCACC
* ** *
11316813 GCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACT
1 GCAACTTCAGGGAGATAAGATTATTCACTTTAATCTGCTCCACC
11316857 GCAACTTCAGGGAGATAAGATT
1 GCAACTTCAGGGAGATAAGATT
11316879 CGCCATCTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 2 0.03
44 57 0.97
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (44 bp):
GCAACTTCAGGGAGATAAGATTATTCACTTTAATCTGCTCCACC
Found at i:11316946 original size:307 final size:308
Alignment explanation
Indices: 11316319--11316960 Score: 782
Period size: 307 Copynumber: 2.1 Consensus size: 308
11316309 TGGTTTTCTC
** * **
11316319 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTTTTTATTCAGTCTGCCCCATTGCAATTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTGCTTTATTCAGTCTGCCCCACTGCAACCTC
* * * * * * **
11316384 AAGGGGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGATTT
66 AAGGGGATAAGACCTGCTTACTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGAATAGATGC
* * *
11316449 GATCTGCTTTACTGCAACTTCAGAGAGATAAAATCCATCATTCTAATCCACTCCACTACAACTTT
131 GATCTGCTCTACTGCAACTTCAGAGAGATAAAATCCATCATTCTAATCCACTCCACCACAACTTC
** * * * **
11316514 AGGGAGATAGGATTTGTTTATTCAGTCTGCCCAACTGCAATTTCAAGGGGATAAGATTTGCTTTC
196 AGGGAGATAGGATTTGGCTATTCAATCTGCCCAACTGCAACTTCAAGGGGATAAGATTCGCCATC
* *
11316579 TTGAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTTGCTTTCTTG
261 TTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTTGCTTACTTG
* * * * *
11316627 AGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCTTTCTTGAGTCTGCCCCACTGCAACCT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGA-TTGCTTTATTCAGTCTGCCCCACTGCAACCT
*
11316692 CAGGGGGATAAGACCTGCTTAC-TCAGTCTACTCCACTGCAACTTCAGGGAGATAAGAATAGATG
65 CAAGGGGATAAGACCTGCTTACTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGAATAGATG
* * ** *
11316756 CGATCTGCTCT-CTGCAACTTCAGAGAGATAAGATCTATCACTT-TAATCTGCTCCACCGCAACT
130 CGATCTGCTCTACTGCAACTTCAGAGAGATAAAATCCATCA-TTCTAATCCACTCCACCACAACT
11316819 TCAGGGAGATAGGATTATTGGCT-TT-AATCTGCTCC-ACTGCAACTTC-AGGGAGATAAGATTC
194 TCAGGGAGATAGGA-T-TTGGCTATTCAATCTGC-CCAACTGCAACTTCAAGGG-GATAAGATTC
*
11316880 GCCATCTTCAGTCTG-TCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTCT-
255 GCCATCTTCAGTCTGCT-CCACTGCAACTTCAGGGA-AATAAGACTTGCTTACT-TG
* *
11316934 AATCCACTCCACTGTAACTTCAGGGAG
1 AATCTACTCCACTGCAACTTCAGGGAG
11316961 TCAGGATTTG
Statistics
Matches: 283, Mismatches: 42, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
306 8 0.03
307 144 0.51
308 84 0.30
309 47 0.17
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (308 bp):
AATCTACTCCACTGCAACTTCAGGGAGATAAGATTGCTTTATTCAGTCTGCCCCACTGCAACCTC
AAGGGGATAAGACCTGCTTACTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGAATAGATGC
GATCTGCTCTACTGCAACTTCAGAGAGATAAAATCCATCATTCTAATCCACTCCACCACAACTTC
AGGGAGATAGGATTTGGCTATTCAATCTGCCCAACTGCAACTTCAAGGGGATAAGATTCGCCATC
TTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTTGCTTACTTG
Found at i:11329015 original size:24 final size:26
Alignment explanation
Indices: 11328948--11329016 Score: 70
Period size: 28 Copynumber: 2.6 Consensus size: 26
11328938 ACATTCTTTT
* *
11328948 AAAATATAAATGAAAACAAAAATAAA
1 AAAATATAAAGGAATACAAAAATAAA
*
11328974 TAAATGAGTGAAAGGAATA-AAAAATAAA
1 AAAAT-A-T-AAAGGAATACAAAAATAAA
11329002 AAAATATAAA-GAATA
1 AAAATATAAAGGAATA
11329017 TAAGGTGTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
24 5 0.14
25 3 0.08
26 5 0.14
27 2 0.06
28 14 0.39
29 7 0.19
ACGTcount: A:0.71, C:0.01, G:0.10, T:0.17
Consensus pattern (26 bp):
AAAATATAAAGGAATACAAAAATAAA
Found at i:11329232 original size:20 final size:21
Alignment explanation
Indices: 11329209--11329249 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
11329199 ATATATGTAC
11329209 ATATATA-AGTTAT-AAAATAA
1 ATATATATA-TTATGAAAATAA
11329229 ATATATATATTATGAAAATAA
1 ATATATATATTATGAAAATAA
11329250 TGATTACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (21 bp):
ATATATATATTATGAAAATAA
Found at i:11329272 original size:26 final size:23
Alignment explanation
Indices: 11329206--11329272 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 23
11329196 TATATATATG
11329206 TACATATATAAGTTATAAAATAAA
1 TACATATATAAGTTA-AAAATAAA
* * *
11329230 TATATATATTA--TGAAAATAATGA
1 TACATATATAAGTTAAAAATAA--A
11329253 TTACATATATAAGTTAAAAA
1 -TACATATATAAGTTAAAAA
11329273 ATAGAAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
21 7 0.22
22 1 0.03
23 1 0.03
24 18 0.56
26 5 0.16
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (23 bp):
TACATATATAAGTTAAAAATAAA
Found at i:11333635 original size:19 final size:19
Alignment explanation
Indices: 11333595--11333637 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
11333585 TAATTGATTT
* *
11333595 AATAAAATAATAATAAGTA
1 AATAAAATAATAAAAAGAA
11333614 AATAAAATAA-AAAAAGGAA
1 AATAAAATAATAAAAA-GAA
11333633 AATAA
1 AATAA
11333638 TAAGGGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (19 bp):
AATAAAATAATAAAAAGAA
Found at i:11338095 original size:20 final size:20
Alignment explanation
Indices: 11338070--11338118 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
11338060 TTACCCTGAA
11338070 TATCGATACTCAAGAAGTGG
1 TATCGATACTCAAGAAGTGG
11338090 TATCGATACTCAAGAAGTGG
1 TATCGATACTCAAGAAGTGG
11338110 TATCGATAC
1 TATCGATAC
11338119 CAAAGTGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (20 bp):
TATCGATACTCAAGAAGTGG
Found at i:11340306 original size:17 final size:17
Alignment explanation
Indices: 11340275--11340307 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11340265 CTCCTAATTT
11340275 AATCCCTTTTGAAAAAC
1 AATCCCTTTTGAAAAAC
11340292 AATCCACTTTT-AAAAA
1 AATCC-CTTTTGAAAAA
11340308 TTAAAGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.30
Consensus pattern (17 bp):
AATCCCTTTTGAAAAAC
Found at i:11351965 original size:2 final size:2
Alignment explanation
Indices: 11351960--11351984 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11351950 GATTTAACCC
11351960 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
11351985 TTTTCACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11354428 original size:4 final size:4
Alignment explanation
Indices: 11354419--11354443 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11354409 ATATGCATAA
11354419 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
11354444 TTGTGACAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:11357546 original size:43 final size:43
Alignment explanation
Indices: 11357470--11357784 Score: 325
Period size: 43 Copynumber: 7.3 Consensus size: 43
11357460 ACGTCGCTAA
* * * * *
11357470 CTTTTGCGGCGCTTACAGAAGAAAACGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGCTTA-GGAAAAAAACGCCGCTAAAAGTAATGTT
* * * *
11357514 CTTTAGTGGCGCTTAGGAAAAAAATGCCGCT-AATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAG-TAATGTT
* * *
11357557 CTTTAGCGGCACTT-GGGAAAAAACGCCGCT-AAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAG-TAATGTT
11357599 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTT
* * * *
11357642 CTATAGCGGCGCTTCGTAAAAAAACACCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTT
* * * * *
11357685 CTATAGCGGCGCTT-GGTAGAAAACGCTGATAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTT
*** * *
11357727 CTTTAGCGGCGCTTCA-TCTACAAACGCCGCTAAAAGTAGTGTT
1 CTTTAGCGGCGCTT-AGGAAAAAAACGCCGCTAAAAGTAATGTT
11357770 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
11357785 TTTCACAAAT
Statistics
Matches: 233, Mismatches: 33, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
42 77 0.33
43 139 0.60
44 17 0.07
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTT
Found at i:11357582 original size:85 final size:86
Alignment explanation
Indices: 11357491--11357784 Score: 317
Period size: 85 Copynumber: 3.4 Consensus size: 86
11357481 CTTACAGAAG
* * * *
11357491 AAAACGCCGCTAAAGGTCATGTTCTTTAGTGGCGCTTAGGAAAAAAATGCCGCT-AATGATCATG
1 AAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAG-TAATG
* *
11357555 TTCTTTAGCGGCACTT-GGGAA
65 TTCTATAGCGGCACTTCGGAAA
*
11357576 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGT
1 AAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGT
* *
11357641 TCTATAGCGGCGCTTCGTAAA
66 TCTATAGCGGCACTTCGGAAA
* * * * * * * *
11357662 AAAACACCGCTAAAAGTAATGTTCTATAGCGGCGCTT-GGTAGAAAACGCTGATAAAAGTAATGT
1 AAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGT
* * ****
11357726 TCTTTAGCGGCGCTTCATCTA
66 TCTATAGCGGCACTTCGGAAA
* *
11357747 CAAACGCCGCTAAAAGT-AGTGTTCTTTAGCGGCGCTTA
1 AAAACGCCGCTAAAGGTCA-TGTTCTTTAGCGGCGCTTA
11357785 TTTCACAAAT
Statistics
Matches: 180, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
84 1 0.01
85 141 0.78
86 38 0.21
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (86 bp):
AAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGT
TCTATAGCGGCACTTCGGAAA
Found at i:11357726 original size:128 final size:127
Alignment explanation
Indices: 11357470--11357784 Score: 346
Period size: 128 Copynumber: 2.4 Consensus size: 127
11357460 ACGTCGCTAA
* * * * *
11357470 CTTTTGCGGCGCTTACAGAAGAAAACGCCGCTAAAGGTCATGTTCTTTAGTGGCGCTTAGGAAAA
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAGGAAAA
** * * * * *
11357535 AAATGCCGCTAATGATCATGTTCTTTAGCGGCACTTGGGAAAAAACGCCGCTAAAGATCATGTT
64 AAACACCGCTAAAGATAATGTTCTATAGCGGCACTTGGGAAAAAACGCCGATAAAGATAATGTT
* * *
11357599 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTCGTAAAAA
1 CTTTAGCGGCGCTTA-GAAAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAGGAAAAA
* * * *
11357664 AACACCGCTAAA-AGTAATGTTCTATAGCGGCGCTTGGTAGAAAACGCTGATAAA-AGTAATGTT
65 AACACCGCTAAAGA-TAATGTTCTATAGCGGCACTTGGGAAAAAACGCCGATAAAGA-TAATGTT
*** * *
11357727 CTTTAGCGGCGCTTCATCTACAAACGCCGCTAAAAGTAGTGTTCTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTT-AGAAAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTA
11357785 TTTCACAAAT
Statistics
Matches: 156, Mismatches: 26, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
127 3 0.02
128 139 0.89
129 14 0.09
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (127 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAGGAAAAAA
ACACCGCTAAAGATAATGTTCTATAGCGGCACTTGGGAAAAAACGCCGATAAAGATAATGTT
Found at i:11361484 original size:22 final size:22
Alignment explanation
Indices: 11361437--11361485 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
11361427 TATATACATT
* **
11361437 TAAAATAATATTTATTATGTTT
1 TAAAAAAATATTTATTATGTGA
11361459 TAAAAAAATATTTATTACT-TGA
1 TAAAAAAATATTTATTA-TGTGA
11361481 TAAAA
1 TAAAA
11361486 GGAATGAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (22 bp):
TAAAAAAATATTTATTATGTGA
Found at i:11363941 original size:19 final size:18
Alignment explanation
Indices: 11363910--11363966 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
11363900 TCAAAACTCA
11363910 TTAATAATAATTTTAAAT
1 TTAATAATAATTTTAAAT
* *
11363928 TTATCTATTAATTTTAACA-
1 TTA-ATAATAATTTTAA-AT
11363947 TTAATAATAATTTTAAAT
1 TTAATAATAATTTTAAAT
11363965 TT
1 TT
11363967 TAAATAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
17 1 0.03
18 16 0.50
19 14 0.44
20 1 0.03
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATAATAATTTTAAAT
Found at i:11365827 original size:24 final size:24
Alignment explanation
Indices: 11365800--11365856 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
11365790 GGAGCTATTA
*
11365800 TGCGAACTCTTATG-GTAATTGTAC
1 TGCGAACCCTTATGTG-AATTGTAC
**
11365824 TGCGAACCCTTATGTGAATTGTTG
1 TGCGAACCCTTATGTGAATTGTAC
11365848 TGCGAACCC
1 TGCGAACCC
11365857 CTTAATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 28 0.97
25 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (24 bp):
TGCGAACCCTTATGTGAATTGTAC
Found at i:11366017 original size:32 final size:34
Alignment explanation
Indices: 11365976--11366066 Score: 114
Period size: 36 Copynumber: 2.7 Consensus size: 34
11365966 AACTTTATGT
11365976 GAACCCTCATGTAATTTAGTAT-A-TGAGCATGC
1 GAACCCTCATGTAATTTAGTATGATTGAGCATGC
* * *
11366008 GAACCCTCATGTACTTTAGTATGAGATTTAGTATGC
1 GAACCCTCATGTAATTTAGTAT--GATTGAGCATGC
*
11366044 GAACCCTCATGAAATTTAGTATG
1 GAACCCTCATGTAATTTAGTATG
11366067 TGATTTAATG
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
32 21 0.42
34 1 0.02
35 1 0.02
36 27 0.54
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (34 bp):
GAACCCTCATGTAATTTAGTATGATTGAGCATGC
Found at i:11366051 original size:36 final size:36
Alignment explanation
Indices: 11366004--11366140 Score: 161
Period size: 36 Copynumber: 3.8 Consensus size: 36
11365994 GTATATGAGC
* * * *
11366004 ATGCGAACCCTCATGTACTTTAGTATGAGATTTAGT
1 ATGCGAACCCTCATGAAATTTAGTATGTGATTTAAT
11366040 ATGCGAACCCTCATGAAATTTAGTATGTGATTTAAT
1 ATGCGAACCCTCATGAAATTTAGTATGTGATTTAAT
* * *
11366076 GTGTGAACCCTTATGAAATTTAGTATGTGATTTAAT
1 ATGCGAACCCTCATGAAATTTAGTATGTGATTTAAT
* * *
11366112 GTGCGAATCCTATATG-AA-TTAGTATGTGA
1 ATGCGAACCCT-CATGAAATTTAGTATGTGA
11366141 ACATATATGA
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
35 11 0.12
36 76 0.84
37 4 0.04
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (36 bp):
ATGCGAACCCTCATGAAATTTAGTATGTGATTTAAT
Found at i:11366150 original size:22 final size:22
Alignment explanation
Indices: 11366122--11366164 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11366112 GTGCGAATCC
*
11366122 TATATGAATTAGTATGTGAACA
1 TATATGAACTAGTATGTGAACA
*
11366144 TATATGAACTATTATGTGAAC
1 TATATGAACTAGTATGTGAAC
11366165 CCTATGTGAA
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:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (22 bp):
TATATGAACTAGTATGTGAACA
Found at i:11366178 original size:23 final size:22
Alignment explanation
Indices: 11366120--11366212 Score: 87
Period size: 23 Copynumber: 4.1 Consensus size: 22
11366110 ATGTGCGAAT
* *
11366120 CCTATATGAATTAGTATGTGAA
1 CCTATATGAACTATTATGTGAA
*
11366142 CATATATGAACTATTATGTGAA
1 CCTATATGAACTATTATGTGAA
* **
11366164 CCCTATGTGAACTATTATACGAA
1 -CCTATATGAACTATTATGTGAA
* * *
11366187 TCCTGTATGAACTATTAAGCGAA
1 -CCTATATGAACTATTATGTGAA
11366210 CCT
1 CCT
11366213 TGTGTGATTT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
22 22 0.38
23 36 0.62
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.33
Consensus pattern (22 bp):
CCTATATGAACTATTATGTGAA
Found at i:11366231 original size:23 final size:22
Alignment explanation
Indices: 11366205--11366261 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
11366195 GAACTATTAA
*
11366205 GCGAACCTTGTGTGATTTAGTAT
1 GCGAACCTTGTGTG-TTTAGCAT
**
11366228 GCGAACCCTCATGTGTTTAGCAT
1 GCGAA-CCTTGTGTGTTTAGCAT
*
11366251 GCGAACATTGT
1 GCGAACCTTGT
11366262 ATGCGACCCT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 3 0.11
23 17 0.63
24 7 0.26
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (22 bp):
GCGAACCTTGTGTGTTTAGCAT
Found at i:11369527 original size:21 final size:22
Alignment explanation
Indices: 11369492--11369534 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
11369482 TAAATATTGT
11369492 TTAATTTAACTTAATTAAATAAA
1 TTAATTT-ACTTAATTAAATAAA
11369515 TTAATTT-CTTAATTAAATAA
1 TTAATTTACTTAATTAAATAA
11369535 TTTTCTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 13 0.65
23 7 0.35
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (22 bp):
TTAATTTACTTAATTAAATAAA
Found at i:11379716 original size:24 final size:24
Alignment explanation
Indices: 11379648--11379717 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 24
11379638 TCTATCACGA
* *
11379648 TGCCATAATATCTTTCAGCTATGG
1 TGCCATAACATCTTTTAGCTATGG
* *
11379672 T--CTTAATCAT-TTTTAAC-ATGG
1 TGCCATAA-CATCTTTTAGCTATGG
11379693 TGCCATAACATCTTTTAGCTATGG
1 TGCCATAACATCTTTTAGCTATGG
11379717 T
1 T
11379718 CTGACTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
21 5 0.14
22 12 0.34
23 12 0.34
24 6 0.17
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (24 bp):
TGCCATAACATCTTTTAGCTATGG
Found at i:11379729 original size:45 final size:45
Alignment explanation
Indices: 11379613--11379729 Score: 153
Period size: 45 Copynumber: 2.6 Consensus size: 45
11379603 GATGCCAGCG
* * *
11379613 TCTTTCAGCTATGGTCTTACTCATTTCTATCACGATGCCATAATA
1 TCTTTCAGCTATGGTCTTACTCATTTTTAACACGATGCCATAACA
* * *
11379658 TCTTTCAGCTATGGTCTTAATCATTTTTAACATGGTGCCATAACA
1 TCTTTCAGCTATGGTCTTACTCATTTTTAACACGATGCCATAACA
* * *
11379703 TCTTTTAGCTATGGTCTGACTAATTTT
1 TCTTTCAGCTATGGTCTTACTCATTTT
11379730 AGCCATATAG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.43
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTACTCATTTTTAACACGATGCCATAACA
Found at i:11382017 original size:74 final size:74
Alignment explanation
Indices: 11381896--11382049 Score: 281
Period size: 74 Copynumber: 2.1 Consensus size: 74
11381886 ATTTAATTTC
* *
11381896 CTTTCACTAAGCTACTCAGCTAAACCATAACGATTACAACTACAACCTTTTATGACATAGCATAT
1 CTTTCACTAAGCTACTCAGCTAAACCATAACGATTACAACTACAACCTTTTACGACATAACATAT
11381961 CAAGTTCAT
66 CAAGTTCAT
*
11381970 CTTTCACTAAGCTATTCAGCTAAACCATAACGATTACAACTACAACCTTTTACGACATAACATAT
1 CTTTCACTAAGCTACTCAGCTAAACCATAACGATTACAACTACAACCTTTTACGACATAACATAT
11382035 CAAGTTCAT
66 CAAGTTCAT
11382044 CTTTCA
1 CTTTCA
11382050 TTATCTGATT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (74 bp):
CTTTCACTAAGCTACTCAGCTAAACCATAACGATTACAACTACAACCTTTTACGACATAACATAT
CAAGTTCAT
Found at i:11383728 original size:15 final size:15
Alignment explanation
Indices: 11383708--11383739 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
11383698 ACTAATAAAA
11383708 TTTGGGTCGTTACAG
1 TTTGGGTCGTTACAG
11383723 TTTGGGTCGTTACAG
1 TTTGGGTCGTTACAG
11383738 TT
1 TT
11383740 GATCTATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.31, T:0.44
Consensus pattern (15 bp):
TTTGGGTCGTTACAG
Found at i:11388461 original size:1 final size:1
Alignment explanation
Indices: 11388418--11388452 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
11388408 CCCCAAATGC
11388418 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11388453 GAAGAAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:11393061 original size:14 final size:15
Alignment explanation
Indices: 11393044--11393077 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11393034 AATAAATATC
11393044 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
11393058 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
11393073 TAAAA
1 TAAAA
11393078 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:11393304 original size:22 final size:22
Alignment explanation
Indices: 11393274--11393315 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11393264 ATTTGGAGAT
*
11393274 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
11393296 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
11393316 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:11393323 original size:30 final size:30
Alignment explanation
Indices: 11393287--11393345 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
11393277 TTGAAGGAAA
* *
11393287 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAACTTGAGAGT
11393317 TTGAGAGAATTTTGGAAGGAACTTGAGAG
1 TTGAGAGAATTTTGGAAGGAACTTGAGAG
11393346 AATTTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.02, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAACTTGAGAGT
Found at i:11393336 original size:52 final size:51
Alignment explanation
Indices: 11393265--11393366 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 51
11393255 TTAATATGGA
* * *
11393265 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAACGGAA-TTGAGAG
* *
11393316 TTTGAGAGAATTTTGGAAGGAACTTGAGAGAATTTTTGAACGGAATTGAGA
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAACGGAATTGAGA
11393367 TAATTTTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
51 4 0.09
52 36 0.82
53 4 0.09
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAACGGAATTGAGAG
Found at i:11393342 original size:22 final size:21
Alignment explanation
Indices: 11393317--11393386 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 21
11393307 ATTTGAGAGT
*
11393317 TTGAGAGAATTTTGGAAGGAA
1 TTGAGAGAATTTTTGAAGGAA
11393338 CTTGAGAGAATTTTTGAACGGAA
1 -TTGAGAGAATTTTTGAA-GGAA
*
11393361 TTGAGATAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGG-AA
11393383 TTGA
1 TTGA
11393387 TATTGAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.05
22 38 0.86
23 4 0.09
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (21 bp):
TTGAGAGAATTTTTGAAGGAA
Found at i:11393607 original size:40 final size:41
Alignment explanation
Indices: 11393563--11393656 Score: 102
Period size: 42 Copynumber: 2.3 Consensus size: 41
11393553 GCTTCCTCAA
* **
11393563 GGACGCGATTTCCT-TCCACGT-CATCAGGTCGCGCTGACGT
1 GGACGCGATTTCCTAT-CACATACATCACATCGCGCTGACGT
* * *
11393603 GGACGCGATGTCCTATCACATACCCTGACATCGCGCTGACGT
1 GGACGCGATTTCCTATCACATA-CATCACATCGCGCTGACGT
11393645 GGACGCGATTTC
1 GGACGCGATTTC
11393657 GCGGAAAATG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
40 17 0.39
41 1 0.02
42 26 0.59
ACGTcount: A:0.18, C:0.32, G:0.27, T:0.23
Consensus pattern (41 bp):
GGACGCGATTTCCTATCACATACATCACATCGCGCTGACGT
Found at i:11394406 original size:95 final size:94
Alignment explanation
Indices: 11394256--11394452 Score: 229
Period size: 95 Copynumber: 2.1 Consensus size: 94
11394246 AAAAATCCTC
* * *
11394256 AAACTTTTTCAAAAAAAAAAACAATTAAGTCCTTCCTCTTTTTCTTGCACTCAATTGAGCACTTG
1 AAACTTTTCCAAAAAAAAAAAAAATTAAGTCCTTACTCTTTTTCTTGCACTCAATTGAGCACTTG
*
11394321 AA-TGTTCAAAATGCATCAAAAAGGCCCTT
66 AACT-TTCAAAATGCATCAAAAAGACCCTT
* * * *
11394350 AAACTTCTTCCAAAAAAAAAAAAAATTAAG-CCTCTACT-TTATTTTTTTCACTCAATTGGGTAC
1 AAACTT-TTCCAAAAAAAAAAAAAATTAAGTCCT-TACTCTT-TTTCTTGCACTCAATTGAGCAC
* * *
11394413 TTTAACTTTCAAAATGTATCAAAAAGACCCTC
63 TTGAACTTTCAAAATGCATCAAAAAGACCCTT
*
11394445 AAAATTTT
1 AAACTTTT
11394453 TCAGAAAAGC
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
94 13 0.15
95 73 0.84
96 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.34
Consensus pattern (94 bp):
AAACTTTTCCAAAAAAAAAAAAAATTAAGTCCTTACTCTTTTTCTTGCACTCAATTGAGCACTTG
AACTTTCAAAATGCATCAAAAAGACCCTT
Found at i:11398467 original size:84 final size:86
Alignment explanation
Indices: 11398400--11398558 Score: 207
Period size: 86 Copynumber: 1.8 Consensus size: 86
11398390 TTTTAAAAAT
*
11398400 TAAAAG-AAATATTATTAAAAAGTTTATAAAATATGTTTTTTAATATTTTTAATTTTTAA-AAA-
1 TAAAAGTAAA-ATTA-TAAAAAGTTTATAAAAGATGTTTTTTAATATTTTTAATTTTTAACAAAT
*
11398462 AAATTAATTAATTAATAACGTAGCA
64 AAATTAATTAATTAATAAC--AGAA
* * * *
11398487 TATACGTAAAATTATGAAAAGTTTATAAAAGATGTTTTTTAATATTTTTAATTTTTAACAAATTA
1 TAAAAGTAAAATTATAAAAAGTTTATAAAAGATGTTTTTTAATATTTTTAATTTTTAACAAATAA
11398552 ATTAATT
66 ATTAATT
11398559 GCTAACATAG
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
86 42 0.66
87 11 0.17
88 11 0.17
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.45
Consensus pattern (86 bp):
TAAAAGTAAAATTATAAAAAGTTTATAAAAGATGTTTTTTAATATTTTTAATTTTTAACAAATAA
ATTAATTAATTAATAACAGAA
Found at i:11402754 original size:30 final size:30
Alignment explanation
Indices: 11402718--11402810 Score: 123
Period size: 30 Copynumber: 3.1 Consensus size: 30
11402708 GGGTGACTAA
* * *
11402718 GTTGCTCACACAAGTTGACATTATATTAGG
1 GTTGCTCACACAAGATGACATTATATCAAG
* *
11402748 GTTGCTCACACAGGCTGACATTATATCAAG
1 GTTGCTCACACAAGATGACATTATATCAAG
* *
11402778 GTTACTCACACAAGATGAAATTATATCAAG
1 GTTGCTCACACAAGATGACATTATATCAAG
11402808 GTT
1 GTT
11402811 ACCCGTTCGG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (30 bp):
GTTGCTCACACAAGATGACATTATATCAAG
Found at i:11404518 original size:13 final size:14
Alignment explanation
Indices: 11404500--11404550 Score: 54
Period size: 13 Copynumber: 3.7 Consensus size: 14
11404490 TGTTATTTGG
11404500 ATATTAAAATAAT-
1 ATATTAAAATAATA
11404513 ATATTATCAAAT-ATA
1 ATATTA--AAATAATA
*
11404528 ATATTTAAA-AATA
1 ATATTAAAATAATA
11404541 ATATTAAAAT
1 ATATTAAAAT
11404551 CGAAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 20 0.65
14 2 0.06
15 9 0.29
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATTAAAATAATA
Found at i:11429138 original size:28 final size:28
Alignment explanation
Indices: 11429098--11429154 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
11429088 AACATGTAGA
* * *
11429098 AACAGTGTGGGCCTTAGCCCTATATAGT
1 AACAATGTGGGCCTTAGCCCAATACAGT
11429126 AACAATGTGGGCCTTAGCCCAATACAGT
1 AACAATGTGGGCCTTAGCCCAATACAGT
11429154 A
1 A
11429155 TCAGTACAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (28 bp):
AACAATGTGGGCCTTAGCCCAATACAGT
Found at i:11429431 original size:32 final size:32
Alignment explanation
Indices: 11429387--11429538 Score: 142
Period size: 32 Copynumber: 4.8 Consensus size: 32
11429377 AAATATAGTA
* *
11429387 ATATGATTGGCACAAAGCCATCAGTAGTAGTG
1 ATATGATCGGCACAAAGCCATCAGTAGCAGTG
* * * * * *
11429419 ATATGACCGGCACACATCCATCAGTAACGGTA
1 ATATGATCGGCACAAAGCCATCAGTAGCAGTG
* *
11429451 ATATGATAGGCAGAAAGCCATCAGTAGCAGTG
1 ATATGATCGGCACAAAGCCATCAGTAGCAGTG
* * * * *
11429483 ATATGATCGGCACACAGCTATCAGTAACGGTA
1 ATATGATCGGCACAAAGCCATCAGTAGCAGTG
* * *
11429515 ATATGATCAGTATAAAGCCATCAG
1 ATATGATCGGCACAAAGCCATCAG
11429539 CATCATCGCA
Statistics
Matches: 92, Mismatches: 28, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
32 92 1.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (32 bp):
ATATGATCGGCACAAAGCCATCAGTAGCAGTG
Found at i:11429485 original size:64 final size:64
Alignment explanation
Indices: 11429384--11429538 Score: 222
Period size: 64 Copynumber: 2.4 Consensus size: 64
11429374 CATAAATATA
* * *
11429384 GTAATATGATTGGCACAAAGCCATCAGTAGTAGTGATATGACCGGCACACATCCATCAGTAACG
1 GTAATATGATAGGCACAAAGCCATCAGTAGCAGTGATATGACCGGCACACAGCCATCAGTAACG
* * *
11429448 GTAATATGATAGGCAGAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCTATCAGTAACG
1 GTAATATGATAGGCACAAAGCCATCAGTAGCAGTGATATGACCGGCACACAGCCATCAGTAACG
* *
11429512 GTAATATGATCA-GTATAAAGCCATCAG
1 GTAATATGAT-AGGCACAAAGCCATCAG
11429539 CATCATCGCA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
64 81 0.99
65 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (64 bp):
GTAATATGATAGGCACAAAGCCATCAGTAGCAGTGATATGACCGGCACACAGCCATCAGTAACG
Found at i:11429771 original size:24 final size:24
Alignment explanation
Indices: 11429713--11429798 Score: 91
Period size: 24 Copynumber: 3.6 Consensus size: 24
11429703 CCATGCTCAG
** * *
11429713 AATCAGTCATACAATTCACAAACA
1 AATCAGTCATTTAAATCACAGACA
*
11429737 AAACAGTCATTTAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
** *
11429761 AATCAGTCATTTTCATCACGGACA
1 AATCAGTCATTTAAATCACAGACA
*
11429785 AATCAATCATTTAA
1 AATCAGTCATTTAA
11429799 CCTCGAGGGG
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.26
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAGACA
Found at i:11429858 original size:27 final size:27
Alignment explanation
Indices: 11429815--11429882 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
11429805 GGGGCAAAAT
11429815 AGTCA-TTTACCCTCTAGGGGCATTACG
1 AGTCATTTTACCCTCTAGGGGCATTA-G
11429842 -GTCATTTTACCCTCTAGGGGCATTAG
1 AGTCATTTTACCCTCTAGGGGCATTAG
*
11429868 AGTCGTTTTACCCTC
1 AGTCATTTTACCCTC
11429883 ATCCAGCAGC
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
26 5 0.13
27 33 0.87
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (27 bp):
AGTCATTTTACCCTCTAGGGGCATTAG
Found at i:11443769 original size:20 final size:20
Alignment explanation
Indices: 11443746--11443847 Score: 82
Period size: 20 Copynumber: 5.2 Consensus size: 20
11443736 TAACTGTTGT
*
11443746 ACTTAGGTACCCCTGATCGC
1 ACTTAGGTACCCCTGATTGC
* *
11443766 ACTTAGGTGCCCCT-ATTGT
1 ACTTAGGTACCCCTGATTGC
* *
11443785 ACTTCGGTACCACTGATTGC
1 ACTTAGGTACCCCTGATTGC
* * *
11443805 ACTTACGTGCCCCT-ATTGT
1 ACTTAGGTACCCCTGATTGC
* * * *
11443824 ACTTCGGTACTCTTGATAGC
1 ACTTAGGTACCCCTGATTGC
11443844 ACTT
1 ACTT
11443848 TCGTGCCATG
Statistics
Matches: 61, Mismatches: 19, Indels: 4
0.73 0.23 0.05
Matches are distributed among these distances:
19 27 0.44
20 34 0.56
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (20 bp):
ACTTAGGTACCCCTGATTGC
Found at i:11443801 original size:39 final size:39
Alignment explanation
Indices: 11443742--11443833 Score: 148
Period size: 39 Copynumber: 2.4 Consensus size: 39
11443732 TAGATAACTG
* * *
11443742 TTGTACTTAGGTACCCCTGATCGCACTTAGGTGCCCCTA
1 TTGTACTTCGGTACCACTGATCGCACTTACGTGCCCCTA
*
11443781 TTGTACTTCGGTACCACTGATTGCACTTACGTGCCCCTA
1 TTGTACTTCGGTACCACTGATCGCACTTACGTGCCCCTA
11443820 TTGTACTTCGGTAC
1 TTGTACTTCGGTAC
11443834 TCTTGATAGC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.17, C:0.29, G:0.20, T:0.34
Consensus pattern (39 bp):
TTGTACTTCGGTACCACTGATCGCACTTACGTGCCCCTA
Found at i:11443846 original size:39 final size:38
Alignment explanation
Indices: 11443742--11443854 Score: 145
Period size: 39 Copynumber: 2.9 Consensus size: 38
11443732 TAGATAACTG
* * *
11443742 TTGTACTTAGGTACCCCTGATCGCACTTAGGTGCCCCTA
1 TTGTACTTCGGTA-CCCTGATAGCACTTACGTGCCCCTA
*
11443781 TTGTACTTCGGTACCACTGATTGCACTTACGTGCCCCTA
1 TTGTACTTCGGTACC-CTGATAGCACTTACGTGCCCCTA
* *
11443820 TTGTACTTCGGTACTCTTGATAGCACTTTCGTGCC
1 TTGTACTTCGGTAC-CCTGATAGCACTTACGTGCC
11443855 ATGTTTACAT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.03
39 63 0.95
40 1 0.02
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.35
Consensus pattern (38 bp):
TTGTACTTCGGTACCCTGATAGCACTTACGTGCCCCTA
Found at i:11448664 original size:37 final size:36
Alignment explanation
Indices: 11448602--11448693 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 36
11448592 GTCTCCAAAT
*
11448602 TCACATTTCAATTCAATTTCACTTTTTCACTTTCAA
1 TCACATTTCAATTCAATTTCACTTTTCCACTTTCAA
*
11448638 TCACAATTT-AATTCAAATTTCACTTTTCCATTTTCAA
1 TCAC-ATTTCAATTC-AATTTCACTTTTCCACTTTCAA
*
11448675 GTCA-ATATTCATTTCAATT
1 -TCACAT-TTCAATTCAATT
11448694 CCACACATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
36 11 0.23
37 30 0.62
38 7 0.15
ACGTcount: A:0.30, C:0.22, G:0.01, T:0.47
Consensus pattern (36 bp):
TCACATTTCAATTCAATTTCACTTTTCCACTTTCAA
Found at i:11448765 original size:16 final size:16
Alignment explanation
Indices: 11448744--11448775 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11448734 TAATAATAAT
11448744 ACTTACCTTATATTTC
1 ACTTACCTTATATTTC
11448760 ACTTACCTTATATTTC
1 ACTTACCTTATATTTC
11448776 GTTCAACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (16 bp):
ACTTACCTTATATTTC
Found at i:11448824 original size:50 final size:50
Alignment explanation
Indices: 11448721--11448817 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 50
11448711 ATTCAATTGA
** * * *
11448721 ATTTCGTTCAACTTAATAATAATACTTACCTTATATTTCACTTACCTTAT
1 ATTTCGTTCAACTTAATAATAATACTTACCTTATAGCTCAATTACATAAT
* *
11448771 ATTTCGTTCAACTTAATAATAATACTTACTTTTTAGCT-AATTA-ATAA
1 ATTTCGTTCAACTTAATAATAATACTTACCTTATAGCTCAATTACATAA
11448818 AATATTTTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 2 0.05
49 4 0.10
50 34 0.85
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.45
Consensus pattern (50 bp):
ATTTCGTTCAACTTAATAATAATACTTACCTTATAGCTCAATTACATAAT
Found at i:11452986 original size:19 final size:20
Alignment explanation
Indices: 11452960--11453018 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
11452950 AATCACACAT
11452960 ACGTGCCCCTGTTGTACTTC
1 ACGTGCCCCTGTTGTACTTC
* *
11452980 A-GTGCCCCTGATCGCACTT-
1 ACGTGCCCCTG-TTGTACTTC
*
11452999 ACGTGCCCCTGTTGTGCTTC
1 ACGTGCCCCTGTTGTACTTC
11453019 GGTACTCGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.10, C:0.36, G:0.22, T:0.32
Consensus pattern (20 bp):
ACGTGCCCCTGTTGTACTTC
Found at i:11453004 original size:20 final size:20
Alignment explanation
Indices: 11452945--11453009 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
11452935 TACTTTGGTA
* * *
11452945 CCCCTAATCACACATACGTG
1 CCCCTGATCGCACTTACGTG
* *
11452965 CCCCTG-TTGTACTT-CAGTG
1 CCCCTGATCGCACTTAC-GTG
11452984 CCCCTGATCGCACTTACGTG
1 CCCCTGATCGCACTTACGTG
11453004 CCCCTG
1 CCCCTG
11453010 TTGTGCTTCG
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
18 1 0.03
19 13 0.37
20 20 0.57
21 1 0.03
ACGTcount: A:0.17, C:0.40, G:0.17, T:0.26
Consensus pattern (20 bp):
CCCCTGATCGCACTTACGTG
Found at i:11453031 original size:39 final size:39
Alignment explanation
Indices: 11452932--11453069 Score: 168
Period size: 39 Copynumber: 3.5 Consensus size: 39
11452922 TAGACAACTA
* * * * *
11452932 TTGTACTTTGGTACCCCTAATCACACATACGTGCCCCTG
1 TTGTACTTCGGTACTCCTGATCGCACTTACGTGCCCCTG
* * *
11452971 TTGTACTTCAGTGCCCCTGATCGCACTTACGTGCCCCTG
1 TTGTACTTCGGTACTCCTGATCGCACTTACGTGCCCCTG
* * * *
11453010 TTGTGCTTCGGTACTCGTGATCGCAGTTACGTGCCCTTG
1 TTGTACTTCGGTACTCCTGATCGCACTTACGTGCCCCTG
11453049 TTGTACTTCGGTACTCCTGAT
1 TTGTACTTCGGTACTCCTGAT
11453070 AGCAGTTTCG
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.14, C:0.30, G:0.21, T:0.34
Consensus pattern (39 bp):
TTGTACTTCGGTACTCCTGATCGCACTTACGTGCCCCTG
Found at i:11453484 original size:27 final size:27
Alignment explanation
Indices: 11453454--11453509 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
11453444 GAAATCACTT
11453454 GTGAATGGTTTAATGTTGATGAATTAA
1 GTGAATGGTTTAATGTTGATGAATTAA
11453481 GTGAATGGTTTAATGTTGATGAATTAA
1 GTGAATGGTTTAATGTTGATGAATTAA
11453508 GT
1 GT
11453510 TGTTATGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.27, T:0.41
Consensus pattern (27 bp):
GTGAATGGTTTAATGTTGATGAATTAA
Found at i:11453511 original size:13 final size:14
Alignment explanation
Indices: 11453463--11453511 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
11453453 TGTGAATGGT
11453463 TTAATGTTGATGAA
1 TTAATGTTGATGAA
**
11453477 TTAA-G-TGAATGGT
1 TTAATGTTG-ATGAA
11453490 TTAATGTTGATGAA
1 TTAATGTTGATGAA
11453504 TTAA-GTTG
1 TTAATGTTG
11453512 TTATGCTAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
12 2 0.07
13 12 0.43
14 12 0.43
15 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (14 bp):
TTAATGTTGATGAA
Found at i:11456064 original size:20 final size:20
Alignment explanation
Indices: 11456041--11456081 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
11456031 TTTGATCTAC
11456041 AAATAAAGAGGTTGATAATT
1 AAATAAAGAGGTTGATAATT
*
11456061 AAATAAAGAGGTTGGTAATT
1 AAATAAAGAGGTTGATAATT
11456081 A
1 A
11456082 GTGTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (20 bp):
AAATAAAGAGGTTGATAATT
Found at i:11458785 original size:20 final size:21
Alignment explanation
Indices: 11458742--11458785 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
11458732 GCCTTTTATT
*
11458742 AAATATAACTAAAACTAAAGA
1 AAATATAACTAAAACTAAACA
11458763 AAAT-TAACTAAAA-TATAACA
1 AAATATAACTAAAACTA-AACA
11458783 AAA
1 AAA
11458786 ATGCTTGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 15 0.71
21 4 0.19
ACGTcount: A:0.68, C:0.09, G:0.02, T:0.20
Consensus pattern (21 bp):
AAATATAACTAAAACTAAACA
Found at i:11460847 original size:40 final size:42
Alignment explanation
Indices: 11460802--11461018 Score: 123
Period size: 50 Copynumber: 4.6 Consensus size: 42
11460792 CCCATGTAAG
*
11460802 ACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
1 ACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGAT-CC
11460845 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGATCCC
1 -------ACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGAT-CC
* * *
11460895 ATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATGGGAGGTCCCCC
1 -------ACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGAT---CC
* * *
11460947 GTAAGACCATGTCTGGGACATGGCATGGGCACCGACATGAGGACAT-C
1 -----ACCATGTCTGGGACATGGCATTGGCACCGAGATGA-GAGATCC
*
11460994 -CCATGTCTGGGACATGGCTTTGGCA
1 ACCATGTCTGGGACATGGCATTGGCA
11461019 TGTTATTATC
Statistics
Matches: 152, Mismatches: 12, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
41 23 0.15
47 1 0.01
50 122 0.80
51 3 0.02
52 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.20
Consensus pattern (42 bp):
ACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGATCC
Found at i:11460847 original size:50 final size:50
Alignment explanation
Indices: 11460772--11460987 Score: 369
Period size: 50 Copynumber: 4.3 Consensus size: 50
11460762 NNNNNNNNNN
11460772 TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA
1 TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA
11460822 TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA
1 TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA
* *
11460872 TTGGCACCGAGATGAGAGATCCCATGTAAGACCATGTCTGGGACATGACA
1 TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA
* **
11460922 TTGGCACCGAGATGGGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCA
1 TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA
* *
11460972 TGGGCACCGACATGAG
1 TTGGCACCGAGATGAG
11460988 GACATCCCAT
Statistics
Matches: 156, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 156 1.00
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.19
Consensus pattern (50 bp):
TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA
Found at i:11465607 original size:25 final size:25
Alignment explanation
Indices: 11465579--11465637 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
11465569 CTTGTATGAG
* *
11465579 CTTATCGTTATTCAGCTCGGAGAAA
1 CTTACCGTTATTCAACTCGGAGAAA
*
11465604 CTTACCGTTATTCAACTCGGAGGAA
1 CTTACCGTTATTCAACTCGGAGAAA
11465629 CTTACCGTT
1 CTTACCGTT
11465638 TATCGTTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (25 bp):
CTTACCGTTATTCAACTCGGAGAAA
Found at i:11480817 original size:22 final size:19
Alignment explanation
Indices: 11480792--11480833 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
11480782 TGATAATCAT
11480792 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
11480814 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
11480833 T
1 T
11480834 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:11481546 original size:26 final size:26
Alignment explanation
Indices: 11481494--11481546 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
11481484 TTCTCCTAAA
** *
11481494 TTTCAATTTTATTTAATTATTTAATT
1 TTTCAATTTTATGAAATTATTAAATT
11481520 TTTCAA-TTTATGAAATTATTAATATT
1 TTTCAATTTTATGAAATTATTAA-ATT
11481546 T
1 T
11481547 GATACTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTCAATTTTATGAAATTATTAAATT
Found at i:11484434 original size:10 final size:10
Alignment explanation
Indices: 11484419--11484458 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
11484409 ATTAACATGT
11484419 TTAATTTTAA
1 TTAATTTTAA
11484429 TTAATTTTATAA
1 TTAA-TTT-TAA
*
11484441 TTAATTTTGA
1 TTAATTTTAA
11484451 TTAATTTT
1 TTAATTTT
11484459 TTATTTTCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 14 0.52
11 6 0.22
12 7 0.26
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:11495511 original size:19 final size:19
Alignment explanation
Indices: 11495484--11495521 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11495474 TCAAAAATTA
11495484 CATACTGTGTCATGACACT
1 CATACTGTGTCATGACACT
*
11495503 CATAGTGTGTCATGACACT
1 CATACTGTGTCATGACACT
11495522 GAACCGCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (19 bp):
CATACTGTGTCATGACACT
Found at i:11498157 original size:21 final size:21
Alignment explanation
Indices: 11498131--11498182 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
11498121 GCCTTTGGTG
11498131 TCGCGACACAACCAAGGGATA
1 TCGCGACACAACCAAGGGATA
*
11498152 TCGCGACACAACCAAGGGATG
1 TCGCGACACAACCAAGGGATA
11498173 TCGCGACACA
1 TCGCGACACA
11498183 CCTTTGAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.31, G:0.25, T:0.10
Consensus pattern (21 bp):
TCGCGACACAACCAAGGGATA
Found at i:11498602 original size:11 final size:11
Alignment explanation
Indices: 11498586--11498614 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
11498576 CTCTAAACTC
11498586 TATTCTTGTCT
1 TATTCTTGTCT
11498597 TATTCTTGTCT
1 TATTCTTGTCT
11498608 TATTCTT
1 TATTCTT
11498615 TATGTATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.17, G:0.07, T:0.66
Consensus pattern (11 bp):
TATTCTTGTCT
Found at i:11500170 original size:25 final size:25
Alignment explanation
Indices: 11500142--11500289 Score: 117
Period size: 25 Copynumber: 5.9 Consensus size: 25
11500132 CCACAAATAA
* *
11500142 TTTCCAGATAATTCTCCACAAAGGC
1 TTTCCAGAGAATTCGCCACAAAGGC
* *
11500167 TTTCCAAATG-ATAT-GCCACAAAAG-
1 TTTCCAGA-GAAT-TCGCCACAAAGGC
* *
11500191 TTCTCCATAGAATTCACCACAAAGGC
1 TT-TCCAGAGAATTCGCCACAAAGGC
*
11500217 TTTCCAGAGAATTCGCCACATAGGC
1 TTTCCAGAGAATTCGCCACAAAGGC
* **
11500242 TTTCCAAATG-ATAGGCCA-AAAGGGC
1 TTTCCAGA-GAATTCGCCACAAA-GGC
*
11500267 TTTCCAAAGAATTCGCCACAAAG
1 TTTCCAGAGAATTCGCCACAAAG
11500290 TACTTCCAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
24 7 0.07
25 83 0.86
26 7 0.07
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (25 bp):
TTTCCAGAGAATTCGCCACAAAGGC
Found at i:11500268 original size:50 final size:50
Alignment explanation
Indices: 11500214--11500339 Score: 146
Period size: 50 Copynumber: 2.5 Consensus size: 50
11500204 TCACCACAAA
* * * *
11500214 GGCTTTCCAGAGAATTCGCCACATAG-GCTTTCCAAATGATAGGCCAAAAG
1 GGCTTTCCAAAGAATTCGCCACAAAGTAC-TTCCAAATGATACGCCAAAAG
*
11500264 GGCTTTCCAAAGAATTCGCCACAAAGTACTTCCAAATGATACGCCACAAG
1 GGCTTTCCAAAGAATTCGCCACAAAGTACTTCCAAATGATACGCCAAAAG
* ** **
11500314 GGATTTTAAAAGAATTCATCACAAAG
1 GGCTTTCCAAAGAATTCGCCACAAAG
11500340 GCTTTCAGAA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 64 0.98
51 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (50 bp):
GGCTTTCCAAAGAATTCGCCACAAAGTACTTCCAAATGATACGCCAAAAG
Found at i:11500297 original size:75 final size:75
Alignment explanation
Indices: 11500129--11500294 Score: 201
Period size: 75 Copynumber: 2.2 Consensus size: 75
11500119 AAATAACAAC
* * * * *
11500129 TCACCACAAATAATTTCCAGATAATTCTCCACAAAGGCTTTCCAAATGATATGCCACAAAAGTTC
1 TCACCACAAAGACTTTCCAGAGAATTCGCCACAAAGGCTTTCCAAATGATAGGCCACAAAAGTTC
*
11500194 TCCATAGAAT
66 TCCAAAGAAT
* * *
11500204 TCACCACAAAGGCTTTCCAGAGAATTCGCCACATAGGCTTTCCAAATGATAGGCCA-AAAGGGCT
1 TCACCACAAAGACTTTCCAGAGAATTCGCCACAAAGGCTTTCCAAATGATAGGCCACAAA-AG-T
11500268 T-TCCAAAGAAT
64 TCTCCAAAGAAT
*
11500279 TCGCCACAAAGTACTT
1 TCACCACAAAG-ACTT
11500295 CCAAATGATA
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
74 3 0.04
75 69 0.90
76 5 0.06
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (75 bp):
TCACCACAAAGACTTTCCAGAGAATTCGCCACAAAGGCTTTCCAAATGATAGGCCACAAAAGTTC
TCCAAAGAAT
Found at i:11519320 original size:9 final size:9
Alignment explanation
Indices: 11519308--11519351 Score: 81
Period size: 9 Copynumber: 5.0 Consensus size: 9
11519298 AAAAAAATCA
11519308 TAAAAAATT
1 TAAAAAATT
11519317 T-AAAAATT
1 TAAAAAATT
11519325 TAAAAAATT
1 TAAAAAATT
11519334 TAAAAAATT
1 TAAAAAATT
11519343 TAAAAAATT
1 TAAAAAATT
11519352 AGAATTGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 8 0.24
9 26 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TAAAAAATT
Found at i:11519329 original size:7 final size:8
Alignment explanation
Indices: 11519310--11519399 Score: 67
Period size: 8 Copynumber: 10.8 Consensus size: 8
11519300 AAAAATCATA
11519310 AAAAATTT
1 AAAAATTT
11519318 AAAAATTT
1 AAAAATTT
11519326 AAAAAATTT
1 -AAAAATTT
11519335 AAAAAATTT
1 -AAAAATTT
*
11519344 AAAAAATT
1 AAAAATTT
* *
11519352 AGAATTGTT
1 AAAAAT-TT
11519361 AAAAA-TT
1 AAAAATTT
* *
11519368 ATAAAACTG
1 A-AAAATTT
11519377 AAAAATATT
1 AAAAAT-TT
11519386 -AAAATATT
1 AAAAAT-TT
11519394 AAAAAT
1 AAAAAT
11519400 AATAGAAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
7 3 0.04
8 34 0.51
9 30 0.45
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (8 bp):
AAAAATTT
Found at i:11519365 original size:26 final size:26
Alignment explanation
Indices: 11519299--11519352 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
11519289 TTTTTTAAGA
* *
11519299 AAAAAATCATAAAAAATTTAAAAATTT
1 AAAAAAT-TTAAAAAATTTAAAAAATT
11519326 AAAAAATTTAAAAAATTTAAAAAATT
1 AAAAAATTTAAAAAATTTAAAAAATT
11519352 A
1 A
11519353 GAATTGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (26 bp):
AAAAAATTTAAAAAATTTAAAAAATT
Found at i:11519419 original size:16 final size:16
Alignment explanation
Indices: 11519398--11519429 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11519388 AATATTAAAA
11519398 ATAATAGAAAATCATT
1 ATAATAGAAAATCATT
11519414 ATAATAGAAAATCATT
1 ATAATAGAAAATCATT
11519430 TAAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (16 bp):
ATAATAGAAAATCATT
Found at i:11519440 original size:16 final size:16
Alignment explanation
Indices: 11519400--11519441 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
11519390 TATTAAAAAT
*
11519400 AATAGAAAATCATTAT
1 AATAGAAAATCATTAA
11519416 AATAGAAAATCATTTAA
1 AATAGAAAATCA-TTAA
11519433 AATA-AAAAT
1 AATAGAAAAT
11519442 ATATAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (16 bp):
AATAGAAAATCATTAA
Found at i:11519475 original size:25 final size:26
Alignment explanation
Indices: 11519441--11519496 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
11519431 AAAATAAAAA
*
11519441 TATATAATTTT-AAAATTATAA-AAT
1 TATAGAATTTTAAAAATTATAAGAAT
11519465 GTATAGAATTTTCAAAAATTATAAGAAT
1 -TATAGAATTTT-AAAAATTATAAGAAT
11519493 TATA
1 TATA
11519497 AAATATGGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 10 0.37
27 14 0.52
28 3 0.11
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (26 bp):
TATAGAATTTTAAAAATTATAAGAAT
Found at i:11519629 original size:17 final size:18
Alignment explanation
Indices: 11519609--11519647 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11519599 TTCCTTTCTC
*
11519609 TCTTTTC-TCCCTTCTTT
1 TCTTTTCTTCCATTCTTT
*
11519626 TCTTTTCTTCCATTTTTT
1 TCTTTTCTTCCATTCTTT
11519644 TCTT
1 TCTT
11519648 CTCCTTTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (18 bp):
TCTTTTCTTCCATTCTTT
Found at i:11531209 original size:20 final size:20
Alignment explanation
Indices: 11531166--11531209 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11531156 CAAAAAAGCG
*
11531166 TAAATATTTATTATGATAAT
1 TAAATATTTATTATGATAAA
*
11531186 TAAATTTTTATTAT-ATTAAA
1 TAAATATTTATTATGA-TAAA
11531206 TAAA
1 TAAA
11531210 GAAGCCCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TAAATATTTATTATGATAAA
Found at i:11542734 original size:16 final size:16
Alignment explanation
Indices: 11542713--11542765 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
11542703 TTGGTTCGCT
11542713 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
11542729 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
11542745 GTAATGGAATATAGGC
1 GTAATGGAATAGAGGC
*
11542761 ATAAT
1 GTAAT
11542766 AGTAATTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.40, C:0.06, G:0.32, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:11544474 original size:68 final size:68
Alignment explanation
Indices: 11544365--11544505 Score: 264
Period size: 68 Copynumber: 2.1 Consensus size: 68
11544355 AATATGATGT
*
11544365 ATCATTTCATCTCTAATATTGCTAGTTCTAAAGGGAAACTCTCGAGATCATAATTAGATAGCTAC
1 ATCATTTCATCTCTAATATTGCTAGTTCTAAAGGGAAACTCTCGAAATCATAATTAGATAGCTAC
11544430 AAA
66 AAA
*
11544433 ATCATTTCATCTCTAATATTGCTAGTTCTAAAGGGAAACTCTCGAAATCATAATTAGGTAGCTAC
1 ATCATTTCATCTCTAATATTGCTAGTTCTAAAGGGAAACTCTCGAAATCATAATTAGATAGCTAC
11544498 AAA
66 AAA
11544501 ATCAT
1 ATCAT
11544506 ACATAAATTA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.33
Consensus pattern (68 bp):
ATCATTTCATCTCTAATATTGCTAGTTCTAAAGGGAAACTCTCGAAATCATAATTAGATAGCTAC
AAA
Found at i:11544565 original size:28 final size:28
Alignment explanation
Indices: 11544524--11544579 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
11544514 TAGACTCAGT
*
11544524 ACCTTGCTTTTCGATTTCCATGTCTGAA
1 ACCTTGCTTGTCGATTTCCATGTCTGAA
11544552 ACCTTGCTTGTCGATTTCCATGTCTGAA
1 ACCTTGCTTGTCGATTTCCATGTCTGAA
11544580 CCAACCTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (28 bp):
ACCTTGCTTGTCGATTTCCATGTCTGAA
Found at i:11558020 original size:19 final size:19
Alignment explanation
Indices: 11557975--11558014 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11557965 AGTTCATGTT
* *
11557975 TTCATTTCACATTTTCATA
1 TTCAATTCACATTTTCAAA
*
11557994 TTCAATTCATATTTTCAAA
1 TTCAATTCACATTTTCAAA
11558013 TT
1 TT
11558015 ATATTCCACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (19 bp):
TTCAATTCACATTTTCAAA
Found at i:11558258 original size:44 final size:43
Alignment explanation
Indices: 11558209--11558339 Score: 183
Period size: 44 Copynumber: 3.0 Consensus size: 43
11558199 AGCAGTAACA
*
11558209 GTAACAGTATTCAACACACAAAGTGCCGAATCTGTAACAGTA-T
1 GTAACAGTATTCGACACACAAAGTGCCGAATC-GTAACAGTACT
*
11558252 GGTAACAGTATTCGACACATAAAGTGCCGAATCGGTAACAGTAACT
1 -GTAACAGTATTCGACACACAAAGTGCCGAATC-GTAACAGT-ACT
*
11558298 GTAACAGTATTCGACACACAAAGTGTCGAATCGATAACAGTA
1 GTAACAGTATTCGACACACAAAGTGCCGAATCG-TAACAGTA
11558340 ACAGTAATAG
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
44 40 0.51
45 38 0.48
46 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (43 bp):
GTAACAGTATTCGACACACAAAGTGCCGAATCGTAACAGTACT
Found at i:11558321 original size:45 final size:45
Alignment explanation
Indices: 11558195--11558351 Score: 217
Period size: 45 Copynumber: 3.5 Consensus size: 45
11558185 TAATCAGTAA
* *
11558195 CGGTAGCAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
1 CGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* ** *
11558240 CTGTAACAGT-ATGGTAACAGTATTCGACACATAAAGTGCCGAAT
1 CGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* *
11558284 CGGTAACAGTAACTGTAACAGTATTCGACACACAAAGTGTCGAAT
1 CGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* *
11558329 CGATAACAGTAACAGTAATAGTA
1 CGGTAACAGTAACAGTAACAGTA
11558352 GTCGGCATAT
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 39 0.40
45 58 0.60
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (45 bp):
CGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
Found at i:11558597 original size:40 final size:40
Alignment explanation
Indices: 11558551--11558637 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
11558541 AATTCATTAC
* * *
11558551 TTCAGTAA-TCTCACAGTTTAATGCAGTA-TACATAACAATA
1 TTCAGTAACT-TCACAATTCAATGCAGTACT-CAAAACAATA
*
11558591 TTCAGTAACTTCACAATTCAATTCAGTACTCAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACTCAAAACAATA
11558631 TTCAGTA
1 TTCAGTA
11558638 TTCCATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 39 0.95
41 2 0.05
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTACTCAAAACAATA
Found at i:11570474 original size:50 final size:50
Alignment explanation
Indices: 11570233--11570474 Score: 254
Period size: 50 Copynumber: 4.9 Consensus size: 50
11570223 GATGATAACA
* ** * * *
11570233 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCT-CGG
* * * ** ** * *
11570282 TGCCAATGCCATATCCCAGATATGGTCTTACATGATAATTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* * * ** * *
11570332 TGCCCATGCCATGTCCGAGACATGGTCTTACGGGGGTCCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
11570382 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
*
11570432 TGCCAACGCCATGTCCCTGACATGGTCTTACATGGGACCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
11570475 TACCCAAATG
Statistics
Matches: 160, Mismatches: 31, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
48 1 0.01
49 36 0.22
50 123 0.77
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
Found at i:11576513 original size:50 final size:50
Alignment explanation
Indices: 11576439--11576616 Score: 268
Period size: 50 Copynumber: 3.6 Consensus size: 50
11576429 CATGTCATAT
* * * *
11576439 CCAGACATGGTCTTAC-GGGAGACCTCTCATCTCGGTGCTAACACCATATC
1 CCAGACATGGTCTTACATGG-GACCTCTTATCTCGGTGCCAACACCATGTC
* * *
11576489 CCAAATATGGTCTTACAAGGGACCTCTTATCTCGGTGCCAACACCATGTC
1 CCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACACCATGTC
*
11576539 CCAGACATGGTCTTACATGGGACCTCTTATCTCAGTGCCAACACCATGTC
1 CCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACACCATGTC
11576589 CCAGACATGGTCTTACATGGGACCTCTT
1 CCAGACATGGTCTTACATGGGACCTCTT
11576617 TACCCAAATG
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
50 115 0.98
51 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (50 bp):
CCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACACCATGTC
Found at i:11584105 original size:37 final size:37
Alignment explanation
Indices: 11584063--11584157 Score: 132
Period size: 30 Copynumber: 2.8 Consensus size: 37
11584053 CTATCACAGA
11584063 ATGCAAATAAGTTTTCACAACAAAAACTGCCTAACGG
1 ATGCAAATAAGTTTTCACAACAAAAACTGCCTAACGG
*
11584100 ATGCAAATAAGTTTT-------GAAACTGCCTAACGG
1 ATGCAAATAAGTTTTCACAACAAAAACTGCCTAACGG
11584130 ATGCAAATAAGTTTTCACAACAAAAACT
1 ATGCAAATAAGTTTTCACAACAAAAACT
11584158 ATTTTTTACA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
30 29 0.59
37 20 0.41
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (37 bp):
ATGCAAATAAGTTTTCACAACAAAAACTGCCTAACGG
Found at i:11588872 original size:16 final size:17
Alignment explanation
Indices: 11588851--11588888 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
11588841 TACCATGCAC
11588851 AATCAAATAATCAT-TT
1 AATCAAATAATCATCTT
* *
11588867 AATCAATTAATTATCTT
1 AATCAAATAATCATCTT
11588884 AATCA
1 AATCA
11588889 TATCATACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.39
Consensus pattern (17 bp):
AATCAAATAATCATCTT
Found at i:11591807 original size:4 final size:4
Alignment explanation
Indices: 11591798--11591826 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
11591788 AATCATTGAT
11591798 TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
11591827 AAATAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:11592182 original size:61 final size:61
Alignment explanation
Indices: 11592114--11592232 Score: 220
Period size: 61 Copynumber: 2.0 Consensus size: 61
11592104 TGTTTATTTA
*
11592114 CATTTATAATCTGATGTGAAAATGTAAGAATTAAGTGTGTATAAGTATTTTCTATGTTTTG
1 CATTTATAATCTGATGTGAAAATGTAAGAATTAAGTGTGTATAACTATTTTCTATGTTTTG
*
11592175 CATTTATAATTTGATGTGAAAATGTAAGAATTAAGTGTGTATAACTATTTTCTATGTT
1 CATTTATAATCTGATGTGAAAATGTAAGAATTAAGTGTGTATAACTATTTTCTATGTT
11592233 CTAAGTGATT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.45
Consensus pattern (61 bp):
CATTTATAATCTGATGTGAAAATGTAAGAATTAAGTGTGTATAACTATTTTCTATGTTTTG
Found at i:11592804 original size:37 final size:38
Alignment explanation
Indices: 11592721--11592814 Score: 102
Period size: 37 Copynumber: 2.5 Consensus size: 38
11592711 TAGGGGCTGC
*
11592721 ATTGT-AAAATTGTGTAAATTTGAGATTTTAAGGACTAA
1 ATTGTAAAAATTGT-AAAATTTGAGATTTTAAGGACTAA
** * *
11592759 ATCATAAAAATTGTAAAATTTGA-ATTTTAGGGACTAT
1 ATTGTAAAAATTGTAAAATTTGAGATTTTAAGGACTAA
* *
11592796 TTTGTAAAAATTTTAAAAT
1 ATTGTAAAAATTGTAAAAT
11592815 CTGATGTATA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
37 27 0.59
38 11 0.24
39 8 0.17
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.40
Consensus pattern (38 bp):
ATTGTAAAAATTGTAAAATTTGAGATTTTAAGGACTAA
Found at i:11609672 original size:173 final size:173
Alignment explanation
Indices: 11609383--11609728 Score: 620
Period size: 173 Copynumber: 2.0 Consensus size: 173
11609373 ACATACTTAT
*
11609383 CATAGGAAATGACATACCTACCTTGCAGTCTATTAAGACTTGGTTAGGAAGTTGTTTTTCCATGA
1 CATAGGAAATGACATACCTACCTTGCAGTCTATTAAGACTTGGTTAGGAAATTGTTTTTCCATGA
*
11609448 AGGACTTGGGCGAAACCACTTACATCTTAGGAGTAAAGATCTATAGAGATAGATCAAGACGACTA
66 AGGACTTGGGCGAAACAACTTACATCTTAGGAGTAAAGATCTATAGAGATAGATCAAGACGACTA
* *
11609513 TTAGGTCTAAGCCAAAGTACATACATAGATAAAGTACTGAAAA
131 CTAGGTCTAAGCCAAAGTACATACATAGACAAAGTACTGAAAA
* *
11609556 CATAGGAAATGACATACCTACCTTGCAGTCTATTAAGACTTGGTTTGGAAATTGTTTTTCTATGA
1 CATAGGAAATGACATACCTACCTTGCAGTCTATTAAGACTTGGTTAGGAAATTGTTTTTCCATGA
* *
11609621 AGGACTTGGGCGAAGCAACTTACATTTTAGGAGTAAAGATCTATAGAGATAGATCAAGACGACTA
66 AGGACTTGGGCGAAACAACTTACATCTTAGGAGTAAAGATCTATAGAGATAGATCAAGACGACTA
11609686 CTAGGTCTAAGCCAAAGTACATACATAGACAAAGTACTGAAAA
131 CTAGGTCTAAGCCAAAGTACATACATAGACAAAGTACTGAAAA
11609729 GGTTCAGTAT
Statistics
Matches: 165, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
173 165 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (173 bp):
CATAGGAAATGACATACCTACCTTGCAGTCTATTAAGACTTGGTTAGGAAATTGTTTTTCCATGA
AGGACTTGGGCGAAACAACTTACATCTTAGGAGTAAAGATCTATAGAGATAGATCAAGACGACTA
CTAGGTCTAAGCCAAAGTACATACATAGACAAAGTACTGAAAA
Found at i:11617186 original size:7 final size:7
Alignment explanation
Indices: 11617174--11617200 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11617164 AATAACAATT
11617174 AATATAG
1 AATATAG
11617181 AATATAG
1 AATATAG
11617188 AATATAG
1 AATATAG
11617195 AATATA
1 AATATA
11617201 TTAATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (7 bp):
AATATAG
Found at i:11617334 original size:20 final size:19
Alignment explanation
Indices: 11617296--11617337 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
11617286 TATACAAGGT
11617296 TTATAACAATTAATATATA
1 TTATAACAATTAATATATA
11617315 TTATAA-AATATAATTATATA
1 TTATAACAAT-TAA-TATATA
11617335 TTA
1 TTA
11617338 GTTGTTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.14
19 9 0.43
20 9 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TTATAACAATTAATATATA
Found at i:11630379 original size:24 final size:24
Alignment explanation
Indices: 11630312--11630372 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
11630302 ATTCTACTAT
*
11630312 CCTTTATGGTGTACTCTGATCTAA
1 CCTTTATGGCGTACTCTGATCTAA
*
11630336 CCTTTATAGCGTACTCTGATCTAA
1 CCTTTATGGCGTACTCTGATCTAA
11630360 CCTTTATGGCGTA
1 CCTTTATGGCGTA
11630373 TTTTGATATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.39
Consensus pattern (24 bp):
CCTTTATGGCGTACTCTGATCTAA
Found at i:11630421 original size:42 final size:42
Alignment explanation
Indices: 11630370--11630542 Score: 238
Period size: 42 Copynumber: 4.1 Consensus size: 42
11630360 CCTTTATGGC
* * * * * *
11630370 GTATTTTGATATGGCCTTTATGACATTTTATTAGCCTTTGTG
1 GTATTTTGATATGGCCTTTGTGGCATTCTGTTAGCCTCTATG
* *
11630412 GTATTTTGATATGGCCTTTGTGGTATTCTGTTAGTCTCTATG
1 GTATTTTGATATGGCCTTTGTGGCATTCTGTTAGCCTCTATG
11630454 GTATTTTGATATGGCCTTTGTGGCATTCTGTTAGCCTCTATG
1 GTATTTTGATATGGCCTTTGTGGCATTCTGTTAGCCTCTATG
* * * *
11630496 GTATTTTTATATTGCCTTTGTGGCATTCTGTTAGTCTCTGTG
1 GTATTTTGATATGGCCTTTGTGGCATTCTGTTAGCCTCTATG
11630538 GTATT
1 GTATT
11630543 CTACTATGGC
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 117 1.00
ACGTcount: A:0.15, C:0.13, G:0.22, T:0.50
Consensus pattern (42 bp):
GTATTTTGATATGGCCTTTGTGGCATTCTGTTAGCCTCTATG
Found at i:11630429 original size:22 final size:22
Alignment explanation
Indices: 11630370--11630518 Score: 112
Period size: 22 Copynumber: 7.0 Consensus size: 22
11630360 CCTTTATGGC
* *
11630370 GTATTTTGATATGGCCTTTATG
1 GTATTTTGATATAGCCTTTGTG
**
11630392 ACATTTT-AT-TAGCCTTTGTG
1 GTATTTTGATATAGCCTTTGTG
*
11630412 GTATTTTGATATGGCCTTTGTG
1 GTATTTTGATATAGCCTTTGTG
* * * *
11630434 GTATTCTG-T-TAGTCTCTATG
1 GTATTTTGATATAGCCTTTGTG
*
11630454 GTATTTTGATATGGCCTTTGTG
1 GTATTTTGATATAGCCTTTGTG
* * * *
11630476 GCATTCTG-T-TAGCCTCTATG
1 GTATTTTGATATAGCCTTTGTG
* *
11630496 GTATTTTTATATTGCCTTTGTG
1 GTATTTTGATATAGCCTTTGTG
11630518 G
1 G
11630519 CATTCTGTTA
Statistics
Matches: 93, Mismatches: 28, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
20 41 0.44
21 8 0.09
22 44 0.47
ACGTcount: A:0.15, C:0.13, G:0.22, T:0.50
Consensus pattern (22 bp):
GTATTTTGATATAGCCTTTGTG
Found at i:11630543 original size:20 final size:20
Alignment explanation
Indices: 11630400--11630544 Score: 85
Period size: 22 Copynumber: 7.0 Consensus size: 20
11630390 TGACATTTTA
* *
11630400 TTAGCCTTTGTGGTATTTTG
1 TTAGCCTCTGTGGTATTCTG
* *
11630420 ATATGGCCTTTGTGGTATTCTG
1 -T-TAGCCTCTGTGGTATTCTG
* * *
11630442 TTAGTCTCTATGGTATTTTG
1 TTAGCCTCTGTGGTATTCTG
* * *
11630462 ATATGGCCTTTGTGGCATTCTG
1 -T-TAGCCTCTGTGGTATTCTG
* *
11630484 TTAGCCTCTATGGTATT-TT
1 TTAGCCTCTGTGGTATTCTG
* *
11630503 TATATTGCCTTTGTGGCATTCTG
1 T-TA--GCCTCTGTGGTATTCTG
*
11630526 TTAGTCTCTGTGGTATTCT
1 TTAGCCTCTGTGGTATTCT
11630545 ACTATGGCTT
Statistics
Matches: 92, Mismatches: 25, Indels: 15
0.70 0.19 0.11
Matches are distributed among these distances:
19 2 0.02
20 41 0.45
21 4 0.04
22 43 0.47
23 2 0.02
ACGTcount: A:0.13, C:0.14, G:0.23, T:0.50
Consensus pattern (20 bp):
TTAGCCTCTGTGGTATTCTG
Found at i:11630551 original size:84 final size:84
Alignment explanation
Indices: 11630370--11630574 Score: 252
Period size: 84 Copynumber: 2.4 Consensus size: 84
11630360 CCTTTATGGC
* * * * * *
11630370 GTATTTTGATATGGCCTTTATGACATTTTATTAGCCTTTGTGGTATTTTGATATGGCCTTTGTGG
1 GTATTCTGATATGGCCTTTGTGGCATTCTATTAGCCTCTATGGTATTTTGATATGGCCTTTGTGG
*
11630435 TATTCTGTTAGTCTCTATG
66 CATTCTGTTAGTCTCTATG
* * * *
11630454 GTATTTTGATATGGCCTTTGTGGCATTCTGTTAGCCTCTATGGTATTTTTATATTGCCTTTGTGG
1 GTATTCTGATATGGCCTTTGTGGCATTCTATTAGCCTCTATGGTATTTTGATATGGCCTTTGTGG
*
11630519 CATTCTGTTAGTCTCTGTG
66 CATTCTGTTAGTCTCTATG
* *
11630538 GTATTCT-ACTATGG-CTTGGGTGGCATTCTACTAGCCT
1 GTATTCTGA-TATGGCCTT-TGTGGCATTCTATTAGCCT
11630575 TTGTGGCATT
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
83 4 0.04
84 101 0.96
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.47
Consensus pattern (84 bp):
GTATTCTGATATGGCCTTTGTGGCATTCTATTAGCCTCTATGGTATTTTGATATGGCCTTTGTGG
CATTCTGTTAGTCTCTATG
Found at i:11630561 original size:42 final size:40
Alignment explanation
Indices: 11630410--11630566 Score: 188
Period size: 42 Copynumber: 3.7 Consensus size: 40
11630400 TTAGCCTTTG
*
11630410 TGGTATTTTGATATGGCCTTTGTGGTATTCTGTTAGTCTCTA
1 TGGTATTTT-ATATGG-CTTTGTGGCATTCTGTTAGTCTCTA
*
11630452 TGGTATTTTGATATGGCCTTTGTGGCATTCTGTTAGCCTCTA
1 TGGTATTTT-ATATGG-CTTTGTGGCATTCTGTTAGTCTCTA
* *
11630494 TGGTATTTTTATATTGCCTTTGTGGCATTCTGTTAGTCTCTG
1 TGGTA-TTTTATA-TGGCTTTGTGGCATTCTGTTAGTCTCTA
* *
11630536 TGGTATTCTACTATGGCTTGGGTGGCATTCT
1 TGGTATTTTA-TATGGCTT-TGTGGCATTCT
11630567 ACTAGCCTTT
Statistics
Matches: 103, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
41 9 0.09
42 88 0.85
43 6 0.06
ACGTcount: A:0.13, C:0.15, G:0.24, T:0.48
Consensus pattern (40 bp):
TGGTATTTTATATGGCTTTGTGGCATTCTGTTAGTCTCTA
Found at i:11630582 original size:20 final size:20
Alignment explanation
Indices: 11630509--11630584 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
11630499 TTTTTATATT
**
11630509 GCCTTTGTGGCATTCTGTTA
1 GCCTTTGTGGCATTCTACTA
* * *
11630529 GTCTCTGTGGTATTCTACTA
1 GCCTTTGTGGCATTCTACTA
* *
11630549 TGGCTTGGGTGGCATTCTACTA
1 -GCCTT-TGTGGCATTCTACTA
11630571 GCCTTTGTGGCATT
1 GCCTTTGTGGCATT
11630585 GTCTATCTGG
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
20 23 0.53
21 7 0.16
22 13 0.30
ACGTcount: A:0.12, C:0.20, G:0.26, T:0.42
Consensus pattern (20 bp):
GCCTTTGTGGCATTCTACTA
Found at i:11631001 original size:16 final size:15
Alignment explanation
Indices: 11630976--11631005 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11630966 ATTAACTTAA
11630976 TTAACTAAATGCAAG
1 TTAACTAAATGCAAG
11630991 TTAACCTAAATGCAA
1 TTAA-CTAAATGCAA
11631006 ATGAAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (15 bp):
TTAACTAAATGCAAG
Found at i:11632830 original size:29 final size:28
Alignment explanation
Indices: 11632797--11632854 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
11632787 TCAAGATCAC
*
11632797 GGGTATCCACTAAAAAGTTTGATCAGTAA
1 GGGTATCCAC-AAAAAGTGTGATCAGTAA
* *
11632826 GGGTATCTACCAAAAGTGTGATCAGTAA
1 GGGTATCCACAAAAAGTGTGATCAGTAA
11632854 G
1 G
11632855 TGATATCCGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (28 bp):
GGGTATCCACAAAAAGTGTGATCAGTAA
Found at i:11637607 original size:27 final size:27
Alignment explanation
Indices: 11637575--11637790 Score: 301
Period size: 27 Copynumber: 8.1 Consensus size: 27
11637565 CGATATCTAC
* *
11637575 ACCGAAACACCCCCATAGGGTAGAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
* *
11637602 ATCGAAATACCCCCATAGGGTAGAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
*
11637629 ACCGAAATACCCCAATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
*
11637656 ATCGAAATACCCCCATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
* * *
11637683 ACCGAAATA-CCCCATATGGTAGAATA
1 ACCGAAATACCCCCATAGGGTAAAATG
*
11637709 ACCGAAATACCCTCATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
**
11637736 ACCGAAATACCTTCATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
*
11637763 ACCGAAATA-CCCCATAGGTTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
11637789 AC
1 AC
11637791 TATTATACCC
Statistics
Matches: 169, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
26 39 0.23
27 130 0.77
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.18
Consensus pattern (27 bp):
ACCGAAATACCCCCATAGGGTAAAATG
Found at i:11637730 original size:80 final size:80
Alignment explanation
Indices: 11637575--11637780 Score: 315
Period size: 80 Copynumber: 2.6 Consensus size: 80
11637565 CGATATCTAC
* * * *
11637575 ACCGAAACACCCCCATAGGGTAGAATGATCGAAATACCCCCATAGGGTAGAATGACCGAAATACC
1 ACCGAAATACCCCCATAGGGTAAAATGACCGAAATA-CCCCATAGGGTAGAATAACCGAAATACC
11637640 CCAATAGGGTAAAATG
65 CCAATAGGGTAAAATG
* *
11637656 ATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCATATGGTAGAATAACCGAAATACCC
1 ACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCATAGGGTAGAATAACCGAAATACCC
11637721 TC-ATAGGGTAAAATG
66 -CAATAGGGTAAAATG
**
11637736 ACCGAAATACCTTCATAGGGTAAAATGACCGAAATACCCCATAGG
1 ACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCATAGG
11637781 TTAAAATGAC
Statistics
Matches: 114, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
80 81 0.71
81 33 0.29
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.17
Consensus pattern (80 bp):
ACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCATAGGGTAGAATAACCGAAATACCC
CAATAGGGTAAAATG
Found at i:11637813 original size:53 final size:51
Alignment explanation
Indices: 11637575--11637817 Score: 227
Period size: 54 Copynumber: 4.5 Consensus size: 51
11637565 CGATATCTAC
* * * * *
11637575 ACCGAAACACCCCCATAGGGTAGAATGATCGAAATACCCCCATAGGGTAGAATG
1 ACCGAAATA-CCCC-TAAGGTAAAATGACCGAAATA-CCCCATAGGGTAAAATG
* *
11637629 ACCGAAATACCCCAATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATG
1 ACCGAAATACCCC--TAAGGTAAAATGACCGAAATA-CCCCATAGGGTAAAATG
* * *
11637683 ACCGAAATACCCCATATGGTAGAATAACCGAAATACCCTCATAGGGTAAAATG
1 ACCGAAATACCCC-TAAGGTAAAATGACCGAAATACCC-CATAGGGTAAAATG
* * *
11637736 ACCGAAATACCTTCATAGGGTAAAATGACCGAAATACCCCATAGGTTAAAATG
1 ACCGAAATACC--CCTAAGGTAAAATGACCGAAATACCCCATAGGGTAAAATG
* *
11637789 A-CTATTATACCCCTAAGAGATAAAATGAC
1 ACCGA-AATACCCCTAAG-G-TAAAATGAC
11637818 TGTTATGGCC
Statistics
Matches: 166, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
51 4 0.02
52 6 0.04
53 75 0.45
54 80 0.48
55 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.19
Consensus pattern (51 bp):
ACCGAAATACCCCTAAGGTAAAATGACCGAAATACCCCATAGGGTAAAATG
Found at i:11637813 original size:80 final size:79
Alignment explanation
Indices: 11637575--11637817 Score: 278
Period size: 80 Copynumber: 3.0 Consensus size: 79
11637565 CGATATCTAC
* * *
11637575 ACCGAAACACCCCCATAGGGTAGAATGATCGAAATACCCCCATAGGGTAGAATGACCGAAATACC
1 ACCGAAATACCCCCATAGGGTAAAATGACCGAAATA-CCCCATA-GGTAGAATGACCGAAATACC
*
11637640 CC-AATAGGGTAAAATG
64 CCTAAGA-GGTAAAATG
* *
11637656 ATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCATATGGTAGAATAACCGAAATA-CC
1 ACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCATA-GGTAGAATGACCGAAATACCC
11637720 CTCATAG-GGTAAAATG
65 CT-A-AGAGGTAAAATG
** * * *
11637736 ACCGAAATACCTTCATAGGGTAAAATGACCGAAATACCCCATAGGTTAAAATGA-CTATTATACC
1 ACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCATAGG-TAGAATGACCGA-AATACC
*
11637800 CCTAAGAGATAAAATG
64 CCTAAGAGGTAAAATG
11637816 AC
1 AC
11637818 TGTTATGGCC
Statistics
Matches: 140, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.06
80 93 0.66
81 37 0.26
82 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.19
Consensus pattern (79 bp):
ACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCATAGGTAGAATGACCGAAATACCCC
TAAGAGGTAAAATG
Found at i:11638060 original size:26 final size:26
Alignment explanation
Indices: 11638024--11638104 Score: 101
Period size: 26 Copynumber: 3.1 Consensus size: 26
11638014 TTTGCCACAT
* *
11638024 ATACTGTTACTGGTAGCTTTGCTGTG
1 ATACTGATACTGGCAGCTTTGCTGTG
* *
11638050 ATACTGATACTGGCAGCTCTGCTGCG
1 ATACTGATACTGGCAGCTTTGCTGTG
*
11638076 ATGCT-ATTACTGGCAGCTTTGCTGTG
1 ATACTGA-TACTGGCAGCTTTGCTGTG
11638102 ATA
1 ATA
11638105 TTGGTGTGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 1 0.02
26 45 0.98
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTGTG
Found at i:11638223 original size:28 final size:28
Alignment explanation
Indices: 11638183--11638245 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
11638173 TTATTGCACT
11638183 ACACTGTTACTATATTGGGCTAAAGCCC
1 ACACTGTTACTATATTGGGCTAAAGCCC
*
11638211 ACACTGTTACTATATTGGGCTAAGGCCC
1 ACACTGTTACTATATTGGGCTAAAGCCC
11638239 ACACTGT
1 ACACTGT
11638246 ACTGTCACTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (28 bp):
ACACTGTTACTATATTGGGCTAAAGCCC
Done.