Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 112 of 144
Found at i:26062450 original size:14 final size:14
Alignment explanation
Indices: 26062431--26062460 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
26062421 TATTATTTAT
26062431 ATATAAAAATAAAA
1 ATATAAAAATAAAA
26062445 ATATAAAAATAAAA
1 ATATAAAAATAAAA
26062459 AT
1 AT
26062461 CAAATCCGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
ATATAAAAATAAAA
Found at i:26064423 original size:38 final size:38
Alignment explanation
Indices: 26064380--26064455 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
26064370 ATAGATTTAC
26064380 AATTCTATTGGCTTTTGGAGGATTCTTAGAGATTTCTT
1 AATTCTATTGGCTTTTGGAGGATTCTTAGAGATTTCTT
*
26064418 AATTCTATTGGCTTTTGGAGGGTTCTTAGAGATTTCTT
1 AATTCTATTGGCTTTTGGAGGATTCTTAGAGATTTCTT
26064456 TTCCTCAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.20, C:0.11, G:0.22, T:0.47
Consensus pattern (38 bp):
AATTCTATTGGCTTTTGGAGGATTCTTAGAGATTTCTT
Found at i:26074690 original size:206 final size:204
Alignment explanation
Indices: 26074333--26074743 Score: 700
Period size: 206 Copynumber: 2.0 Consensus size: 204
26074323 ACCCAGGGGT
*
26074333 TGGCAGGACCTAGCCCCCCTAAAATGAAAAATTTTCGTTTATACTTTTATTTTTAAAAAATTAAA
1 TGGCAGGACCTAGCCCCCCTAAAATGAAAAATTTTCGTTTATACTTTAATTTTTAAAAAATTAAA
*
26074398 TTAGTAAATGTAAAATTATATTTTGACCCCCTAAAATTGATAAAAATTTTAATTTAATCATTTAA
66 TTAGTAAATGTAAAATTATATTTTGACCCCCTAAAATTGATAAAAATATTAATTTAATCATTTAA
** *
26074463 AAATTGTATTTTTATTATCGTAAAAATTACAATTTAATTTCAACCCT-TTAAAAATTTAAAAATT
131 AAATTACATTTTTATTATCGTAAAAATTACAATTTAATTTCAACCCTCTAAAAAATTTAAAAATT
*
26074527 TCAATTTAA
196 ACAATTTAA
*
26074536 TGGCAGGACCTGGCCCCCCTAAAATGGAAAAATTTTCGTTTATACTCTTAATTTTTTAAAAAATT
1 TGGCAGGACCTAGCCCCCCTAAAAT-GAAAAATTTTCGTTTATACT-TTAA-TTTTTAAAAAA-T
26074601 TAAATTAGTAAATGTAAAATTATATTTTGACCCCCTAAAATTGAT-AAAATATTAATTTAATCAT
62 TAAATTAGTAAATGTAAAATTATATTTTGACCCCCTAAAATTGATAAAAATATTAATTTAATCAT
*
26074665 TTAAAAATTACATTTTTATTATCGTAAAAATTACAATTTAATTTCAGCCCTCTAAAAAATTTAAA
127 TTAAAAATTACATTTTTATTATCGTAAAAATTACAATTTAATTTCAACCCTCTAAAAAATTTAAA
26074730 AATTACAATTTAA
192 AATTACAATTTAA
26074743 T
1 T
26074744 TTCGACCTCC
Statistics
Matches: 195, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
203 24 0.12
204 20 0.10
205 3 0.02
206 77 0.39
207 71 0.36
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (204 bp):
TGGCAGGACCTAGCCCCCCTAAAATGAAAAATTTTCGTTTATACTTTAATTTTTAAAAAATTAAA
TTAGTAAATGTAAAATTATATTTTGACCCCCTAAAATTGATAAAAATATTAATTTAATCATTTAA
AAATTACATTTTTATTATCGTAAAAATTACAATTTAATTTCAACCCTCTAAAAAATTTAAAAATT
ACAATTTAA
Found at i:26074730 original size:37 final size:37
Alignment explanation
Indices: 26074689--26074763 Score: 125
Period size: 37 Copynumber: 2.0 Consensus size: 37
26074679 TTTATTATCG
*
26074689 TAAAAATTACAATTTAATTTCAGCCCT-CTAAAAAATT
1 TAAAAATTACAATTTAATTTC-GACCTCCTAAAAAATT
26074726 TAAAAATTACAATTTAATTTCGACCTCCTAAAAAATT
1 TAAAAATTACAATTTAATTTCGACCTCCTAAAAAATT
26074763 T
1 T
26074764 TTTTGGCTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 4 0.11
37 32 0.89
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.36
Consensus pattern (37 bp):
TAAAAATTACAATTTAATTTCGACCTCCTAAAAAATT
Found at i:26075190 original size:30 final size:31
Alignment explanation
Indices: 26075150--26075208 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
26075140 TACATTTCAA
26075150 TCCCTCAAC-TTTGAAAATATGACAAAACAG
1 TCCCTCAACTTTTGAAAATATGACAAAACAG
* *
26075180 TCCCTGAACTTTTGAAAATGTGACAAAAC
1 TCCCTCAACTTTTGAAAATATGACAAAAC
26075209 CATTTTTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (31 bp):
TCCCTCAACTTTTGAAAATATGACAAAACAG
Found at i:26075338 original size:30 final size:31
Alignment explanation
Indices: 26075302--26075373 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 31
26075292 ATTACGTTTA
* * * *
26075302 ACAAAACAGTCACTCAACTT-TGGAAATGTG
1 ACAAAACAGTCACTAAAATTATCGAAAAGTG
26075332 ACAAAACAGTCACTAAAATTATCGAAAAGTG
1 ACAAAACAGTCACTAAAATTATCGAAAAGTG
*
26075363 ACAAAATAGTC
1 ACAAAACAGTC
26075374 CTCTTGTTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 18 0.50
31 18 0.50
ACGTcount: A:0.47, C:0.18, G:0.14, T:0.21
Consensus pattern (31 bp):
ACAAAACAGTCACTAAAATTATCGAAAAGTG
Found at i:26075637 original size:21 final size:21
Alignment explanation
Indices: 26075611--26075654 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
26075601 GTTTCCCGAA
26075611 GCTTCGATTCTAAGTTGAGTG
1 GCTTCGATTCTAAGTTGAGTG
26075632 GCTTCGATTCTAAGTTGAGTG
1 GCTTCGATTCTAAGTTGAGTG
26075653 GC
1 GC
26075655 ATGAATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.16, G:0.30, T:0.36
Consensus pattern (21 bp):
GCTTCGATTCTAAGTTGAGTG
Found at i:26076764 original size:30 final size:31
Alignment explanation
Indices: 26076696--26076767 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
26076686 ATAACAAGAG
* *
26076696 GACTATTTTGTCACTTTTCGATAACTTTAGT
1 GACTGTTTTGTCACTTTTCGATAACTTGAGT
* *
26076727 GAATGTTTTGTCACATTTTC-A-AAGTTGAGT
1 GACTGTTTTGTCAC-TTTTCGATAACTTGAGT
26076757 GACTGTTTTGT
1 GACTGTTTTGT
26076768 TACACGTAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 17 0.49
31 13 0.37
32 5 0.14
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.47
Consensus pattern (31 bp):
GACTGTTTTGTCACTTTTCGATAACTTGAGT
Found at i:26077113 original size:19 final size:19
Alignment explanation
Indices: 26077077--26077123 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
26077067 TATTATGAAT
26077077 TTAAAAATTAAAAAAATA-A
1 TTAAAAA-TAAAAAAATACA
*
26077096 TTAAAAATAAATAGAATACA
1 TTAAAAATAAA-AAAATACA
26077116 -TAAAAATA
1 TTAAAAATA
26077124 TCTTAATCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 4 0.16
19 20 0.80
20 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
TTAAAAATAAAAAAATACA
Found at i:26080204 original size:22 final size:24
Alignment explanation
Indices: 26080169--26080218 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
26080159 TAAAAATAAA
*
26080169 TTAATATATGATAT-TTTTAAAAAT
1 TTAATATATGATATAATTT-AAAAT
26080193 TTAATAT-T-ATATAATTTAAAAT
1 TTAATATATGATATAATTTAAAAT
26080215 TTAA
1 TTAA
26080219 AAATTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 13 0.54
23 4 0.17
24 7 0.29
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TTAATATATGATATAATTTAAAAT
Found at i:26080223 original size:15 final size:15
Alignment explanation
Indices: 26080184--26080228 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
26080174 ATATGATATT
*
26080184 TTTAAAAATTTAATA
1 TTTAAAAATTTAAAA
*
26080199 -TTATATAATTTAAAA
1 TTTA-AAAATTTAAAA
26080214 TTTAAAAATTTAAAA
1 TTTAAAAATTTAAAA
26080229 CAGATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 3 0.12
15 19 0.76
16 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTAAAAATTTAAAA
Found at i:26093483 original size:10 final size:10
Alignment explanation
Indices: 26093470--26093529 Score: 56
Period size: 10 Copynumber: 6.3 Consensus size: 10
26093460 ATATATATAG
26093470 TTTTAATAAT
1 TTTTAATAAT
26093480 TTTTAA-AAT
1 TTTTAATAAT
*
26093489 TTTAAATAAT
1 TTTTAATAAT
*
26093499 TTTT-TTAAT
1 TTTTAATAAT
*
26093508 TTATT-ATACT
1 TT-TTAATAAT
26093518 TTTTAAT-AT
1 TTTTAATAAT
26093527 TTT
1 TTT
26093530 AAACAATTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
9 20 0.49
10 21 0.51
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:26093498 original size:19 final size:19
Alignment explanation
Indices: 26093470--26093538 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
26093460 ATATATATAG
26093470 TTTT-AATAATTTTTAAAA
1 TTTTAAATAATTTTTAAAA
**
26093488 TTTTAAATAATTTTTTTAA
1 TTTTAAATAATTTTTAAAA
* * *
26093507 -TTTATTATACTTTTTAATA
1 TTTTA-AATAATTTTTAAAA
*
26093526 TTTTAAACAATTT
1 TTTTAAATAATTT
26093539 CATCTAATTT
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
18 8 0.21
19 26 0.68
20 4 0.11
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAAATAATTTTTAAAA
Found at i:26093559 original size:10 final size:10
Alignment explanation
Indices: 26093463--26093559 Score: 53
Period size: 10 Copynumber: 10.1 Consensus size: 10
26093453 TATGTGTATA
*
26093463 TATATAGTTT
1 TATATAATTT
26093473 TA-ATAATTT
1 TATATAATTT
*
26093482 T-TAAAATTT
1 TATATAATTT
*
26093491 TAAATAATTT
1 TATATAATTT
*
26093501 T-TTTAA-TT
1 TATATAATTT
*
26093509 TATTATACTTT
1 TA-TATAATTT
26093520 T-TA-ATATTT
1 TATATA-ATTT
* *
26093529 TAAACAATTT
1 TATATAATTT
* *
26093539 CATCTAATTT
1 TATATAATTT
26093549 TATATAATTT
1 TATATAATTT
26093559 T
1 T
26093560 TTTTATAATT
Statistics
Matches: 63, Mismatches: 16, Indels: 16
0.66 0.17 0.17
Matches are distributed among these distances:
8 4 0.06
9 23 0.37
10 32 0.51
11 4 0.06
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (10 bp):
TATATAATTT
Found at i:26107360 original size:20 final size:20
Alignment explanation
Indices: 26107332--26107369 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26107322 GACATAAACA
* *
26107332 ATCCTATCATAGACATCCTC
1 ATCCCATCAAAGACATCCTC
26107352 ATCCCATCAAAGACATCC
1 ATCCCATCAAAGACATCC
26107370 CTCCTACGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.37, G:0.05, T:0.24
Consensus pattern (20 bp):
ATCCCATCAAAGACATCCTC
Found at i:26108874 original size:24 final size:24
Alignment explanation
Indices: 26108812--26108875 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
26108802 ATCTTTTTAA
26108812 AAAT-TATTTTAGA-TTTAAAATTT
1 AAATATATTTTA-ATTTTAAAATTT
* * * *
26108835 AAATTTATGTTGATTTTTAAATTT
1 AAATATATTTTAATTTTAAAATTT
*
26108859 GAATATATTTTAATTTT
1 AAATATATTTTAATTTT
26108876 CAATCCATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 5 0.16
24 27 0.84
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (24 bp):
AAATATATTTTAATTTTAAAATTT
Found at i:26146729 original size:14 final size:14
Alignment explanation
Indices: 26146710--26146736 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26146700 AGCTAAAGGC
26146710 GTATCTTCATACTT
1 GTATCTTCATACTT
26146724 GTATCTTCATACT
1 GTATCTTCATACT
26146737 CATAGTCTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.48
Consensus pattern (14 bp):
GTATCTTCATACTT
Found at i:26148793 original size:72 final size:72
Alignment explanation
Indices: 26148676--26148821 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 72
26148666 GTTGTCAAAG
* *
26148676 TCCTAGATTCATAAACAGACAAGACAATTCCTTCATAAGTCAATGGTTTCGAACAAAACAAAAAT
1 TCCTAGATTCATAAACAGACAAGACAATTCCTTCATAAGTCAATGGCTTCAAACAAAACAAAAAT
26148741 AGTTCTA
66 AGTTCTA
26148748 TCCTAGATTCATAAACAGACAAGACAATTCCTTCATAAGTCAATGGCTTCAAACAAAACAAAAAT
1 TCCTAGATTCATAAACAGACAAGACAATTCCTTCATAAGTCAATGGCTTCAAACAAAACAAAAAT
26148813 AGTTCTA
66 AGTTCTA
26148820 TC
1 TC
26148822 AAGATCATTC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (72 bp):
TCCTAGATTCATAAACAGACAAGACAATTCCTTCATAAGTCAATGGCTTCAAACAAAACAAAAAT
AGTTCTA
Found at i:26150368 original size:84 final size:84
Alignment explanation
Indices: 26150238--26150450 Score: 220
Period size: 84 Copynumber: 2.5 Consensus size: 84
26150228 TGTTTTGTAT
* * ** * * * *
26150238 TCAATTAGGTACTTAAATTTTTAAAATATATCAAAAAAATCTTCAAATTTTTTAAAAAAGCAATT
1 TCAATTGGGTACTTAAACTTTTAAAATGCATCAAAAAGACCCTCAAA--CTTT-AAAAA--AATT
26150303 -AAGCCCCT-ATT-TTTTT-T-AC
61 AAAGCCCCTGATTATTTTTATCAC
*
26150322 TCAATTGGGTACTTAAACTTTTAAAATGCATCAAAAAGACCCTCAAACTTTAAAAAAATTAAATC
1 TCAATTGGGTACTTAAACTTTTAAAATGCATCAAAAAGACCCTCAAACTTTAAAAAAATTAAAGC
*
26150387 CCCTGCTTATTTTTATGCAC
66 CCCTGATTATTTTTAT-CAC
* *
26150407 TCAATTGGGTACTTAAACTGTCAAAATGCATCAAAAAGATCCCT
1 TCAATTGGGTACTTAAACTTTTAAAATGCATCAAAAAGA-CCCT
26150451 TACCTGTTAA
Statistics
Matches: 110, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
79 4 0.04
80 7 0.06
81 7 0.06
82 8 0.07
83 1 0.01
84 40 0.36
85 39 0.35
86 4 0.04
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (84 bp):
TCAATTGGGTACTTAAACTTTTAAAATGCATCAAAAAGACCCTCAAACTTTAAAAAAATTAAAGC
CCCTGATTATTTTTATCAC
Found at i:26150591 original size:21 final size:21
Alignment explanation
Indices: 26150565--26150614 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
26150555 GATAAAAAAT
26150565 AAAAATCAATAAAATTT-ATAA
1 AAAAAT-AATAAAATTTAATAA
* *
26150586 AAAAATATTAAATTTTAATAA
1 AAAAATAATAAAATTTAATAA
*
26150607 AAATATAA
1 AAAAATAA
26150615 AATATATAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAATAATAAAATTTAATAA
Found at i:26150598 original size:19 final size:20
Alignment explanation
Indices: 26150562--26150622 Score: 72
Period size: 19 Copynumber: 3.0 Consensus size: 20
26150552 AAAGATAAAA
26150562 AATAAAAATCAATAAAATTTAT
1 AATAAAAAT--ATAAAATTTAT
*
26150584 AA-AAAAATATTAAATTT-T
1 AATAAAAATATAAAATTTAT
*
26150602 AATAAAAATATAAAATATAT
1 AATAAAAATATAAAATTTAT
26150622 A
1 A
26150623 GAGATATAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.09
19 21 0.62
20 2 0.06
21 6 0.18
22 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAAAAATATAAAATTTAT
Found at i:26151061 original size:9 final size:9
Alignment explanation
Indices: 26151041--26151136 Score: 72
Period size: 9 Copynumber: 10.4 Consensus size: 9
26151031 TTTTTATGTC
*
26151041 TTTTATATT
1 TTTTATAAT
*
26151050 TTTTATGAT
1 TTTTATAAT
*
26151059 TTTTATAAAG
1 TTTTAT-AAT
26151069 TTTTA-AAGT
1 TTTTATAA-T
26151078 TTTTATAAT
1 TTTTATAAT
*
26151087 TTTTTTAGGAT
1 TTTTATA--AT
*
26151098 TTTTATGAT
1 TTTTATAAT
*
26151107 TTTTATTTAT
1 TTTTA-TAAT
26151117 TTTTAT--T
1 TTTTATAAT
26151124 TTTTATAAT
1 TTTTATAAT
26151133 TTTT
1 TTTT
26151137 CCACATGTCA
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
7 7 0.10
8 2 0.03
9 38 0.54
10 16 0.23
11 7 0.10
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (9 bp):
TTTTATAAT
Found at i:26151091 original size:19 final size:19
Alignment explanation
Indices: 26151041--26151110 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
26151031 TTTTTATGTC
*
26151041 TTTTAT-ATTTTTTATGAT
1 TTTTATAATTTTTTAAGAT
**
26151059 TTTTATAAAGTTTTAA-AGT
1 TTTTATAATTTTTTAAGA-T
*
26151078 TTTTATAATTTTTTTAGGAT
1 TTTTATAA-TTTTTTAAGAT
*
26151098 TTTTATGATTTTT
1 TTTTATAATTTTT
26151111 ATTTATTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
18 7 0.17
19 20 0.49
20 13 0.32
21 1 0.02
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (19 bp):
TTTTATAATTTTTTAAGAT
Found at i:26151100 original size:20 final size:20
Alignment explanation
Indices: 26151048--26151110 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
26151038 GTCTTTTATA
* *
26151048 TTTTTTATGATTTTTATAAA
1 TTTTTTAAGATTTTTATAAT
* *
26151068 GTTTTAAAG-TTTTTATAAT
1 TTTTTTAAGATTTTTATAAT
* *
26151087 TTTTTTAGGATTTTTATGAT
1 TTTTTTAAGATTTTTATAAT
26151107 TTTT
1 TTTT
26151111 ATTTATTTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (20 bp):
TTTTTTAAGATTTTTATAAT
Found at i:26151330 original size:21 final size:21
Alignment explanation
Indices: 26151304--26151346 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
26151294 GACTTAATTG
*
26151304 TTTTTATTAAGTTTAAGAGTT
1 TTTTTATTAAGTTTAAAAGTT
* *
26151325 TTTTTATTCATTTTAAAAGTT
1 TTTTTATTAAGTTTAAAAGTT
26151346 T
1 T
26151347 AAGTACTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.60
Consensus pattern (21 bp):
TTTTTATTAAGTTTAAAAGTT
Found at i:26162692 original size:18 final size:19
Alignment explanation
Indices: 26162655--26162694 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
26162645 TTCAAAAATC
26162655 AAAAATAAAAAAATATCAT
1 AAAAATAAAAAAATATCAT
* *
26162674 AAAACTAAAGAAATA-CAT
1 AAAAATAAAAAAATATCAT
26162692 AAA
1 AAA
26162695 GTTATAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.72, C:0.07, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAAATAAAAAAATATCAT
Found at i:26163198 original size:30 final size:30
Alignment explanation
Indices: 26163135--26163199 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
26163125 AATAGTCTAT
* *
26163135 ATTTTTATAATTTTTAAATGATTAAATTAA
1 ATTTTTATAATTTTTAAATGATCAAAATAA
26163165 ATTTTTAT-ATTTTTAGAA-GATCAAAATATA
1 ATTTTTATAATTTTTA-AATGATCAAAATA-A
26163195 ATTTT
1 ATTTT
26163200 ATCTTTACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (30 bp):
ATTTTTATAATTTTTAAATGATCAAAATAA
Found at i:26163199 original size:29 final size:30
Alignment explanation
Indices: 26163132--26163201 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
26163122 TTTAATAGTC
* * *
26163132 TATATTTTTATAATTTTTAAATGATTAAAT
1 TATAATTTTATAATTTTTAAATGATCAAAA
26163162 TA-AATTTT-TATATTTTTAGAA-GATCAAAA
1 TATAATTTTATA-ATTTTTA-AATGATCAAAA
26163191 TATAATTTTAT
1 TATAATTTTAT
26163202 CTTTACTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 2 0.06
29 20 0.61
30 10 0.30
31 1 0.03
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (30 bp):
TATAATTTTATAATTTTTAAATGATCAAAA
Found at i:26164427 original size:4 final size:4
Alignment explanation
Indices: 26164418--26164454 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
26164408 ACGATAAGGC
*
26164418 CATA CATA CATA CATA CATA CATA CATG CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA C
26164455 TTTTTTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.46, C:0.27, G:0.03, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:26180974 original size:119 final size:119
Alignment explanation
Indices: 26180763--26181000 Score: 476
Period size: 119 Copynumber: 2.0 Consensus size: 119
26180753 TTCCGAAGTG
26180763 GCAAATAGTGGTGATTGTGGAGAAGAAAGATTGCAAGATTTTGTATGTATCAATTGAACTTCATA
1 GCAAATAGTGGTGATTGTGGAGAAGAAAGATTGCAAGATTTTGTATGTATCAATTGAACTTCATA
26180828 ACATTACAGCGACTTCCCTAACGTTCAAACAAAGTGCAAAAGGGACAATGATTT
66 ACATTACAGCGACTTCCCTAACGTTCAAACAAAGTGCAAAAGGGACAATGATTT
26180882 GCAAATAGTGGTGATTGTGGAGAAGAAAGATTGCAAGATTTTGTATGTATCAATTGAACTTCATA
1 GCAAATAGTGGTGATTGTGGAGAAGAAAGATTGCAAGATTTTGTATGTATCAATTGAACTTCATA
26180947 ACATTACAGCGACTTCCCTAACGTTCAAACAAAGTGCAAAAGGGACAATGATTT
66 ACATTACAGCGACTTCCCTAACGTTCAAACAAAGTGCAAAAGGGACAATGATTT
26181001 TTCAGAAGAG
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 119 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (119 bp):
GCAAATAGTGGTGATTGTGGAGAAGAAAGATTGCAAGATTTTGTATGTATCAATTGAACTTCATA
ACATTACAGCGACTTCCCTAACGTTCAAACAAAGTGCAAAAGGGACAATGATTT
Found at i:26184206 original size:31 final size:30
Alignment explanation
Indices: 26184171--26184230 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
26184161 CTCAAATTTA
*
26184171 ACACTTTTTCTTAATTTGATACCTAAACTTG
1 ACACTTTTT-TTAAGTTGATACCTAAACTTG
* *
26184202 ACACTTTTTTTAAGTTGGTACTTAAACTT
1 ACACTTTTTTTAAGTTGATACCTAAACTT
26184231 TTTGGGATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (30 bp):
ACACTTTTTTTAAGTTGATACCTAAACTTG
Found at i:26184230 original size:30 final size:31
Alignment explanation
Indices: 26184155--26184230 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
26184145 TTGATCTAAT
* * *
26184155 TTGGTACTCAAATTTAACACTTTTTCTTAAT
1 TTGGTACTTAAACTTAACACTTTTTCTTAAG
* * *
26184186 TTGATACCTAAACTTGACACTTTTT-TTAAG
1 TTGGTACTTAAACTTAACACTTTTTCTTAAG
26184216 TTGGTACTTAAACTT
1 TTGGTACTTAAACTT
26184231 TTTGGGATCC
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
30 17 0.46
31 20 0.54
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.46
Consensus pattern (31 bp):
TTGGTACTTAAACTTAACACTTTTTCTTAAG
Found at i:26184465 original size:31 final size:31
Alignment explanation
Indices: 26184430--26184488 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
26184420 ATTAAGAGAA
26184430 AAAAAATATCAAGTTCAGGTACCAAATTAGG
1 AAAAAATATCAAGTTCAGGTACCAAATTAGG
* * *
26184461 AAAAAGTATTAAGTTTAGGTACCAAATT
1 AAAAAATATCAAGTTCAGGTACCAAATT
26184489 GGGTCAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.27
Consensus pattern (31 bp):
AAAAAATATCAAGTTCAGGTACCAAATTAGG
Found at i:26186837 original size:20 final size:21
Alignment explanation
Indices: 26186786--26186839 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
26186776 GATTTATCCA
*
26186786 ATTATCAAATTTAAAATATTT
1 ATTATTAAATTTAAAATATTT
* * *
26186807 ATT-TTATATTTACATTATTT
1 ATTATTAAATTTAAAATATTT
26186827 -TTATTAAATTTAA
1 ATTATTAAATTTAA
26186840 GAAAAATAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATTAAATTTAAAATATTT
Found at i:26187120 original size:23 final size:24
Alignment explanation
Indices: 26187088--26187133 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
26187078 AGTTTTTATC
*
26187088 TGTCTCTGTGGCACGTTTTTCTTA
1 TGTCTCTGTGACACGTTTTTCTTA
26187112 TGTCT-TGTGACACGTTTTTCTT
1 TGTCTCTGTGACACGTTTTTCTT
26187134 CTACCTTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.09, C:0.20, G:0.20, T:0.52
Consensus pattern (24 bp):
TGTCTCTGTGACACGTTTTTCTTA
Found at i:26187141 original size:23 final size:23
Alignment explanation
Indices: 26187094--26187142 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
26187084 TATCTGTCTC
* **
26187094 TGTGGCACGTTTTTCTTATGTCT
1 TGTGACACGTTTTTCTTATACCT
*
26187117 TGTGACACGTTTTTCTTCTACCT
1 TGTGACACGTTTTTCTTATACCT
26187140 TGT
1 TGT
26187143 AGTACGCTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.10, C:0.20, G:0.18, T:0.51
Consensus pattern (23 bp):
TGTGACACGTTTTTCTTATACCT
Found at i:26189132 original size:19 final size:19
Alignment explanation
Indices: 26189118--26189157 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 19
26189108 ATATTTTTTA
26189118 AAAAGTATAAAATTTATTAT
1 AAAA-TATAAAATTTATTAT
26189138 AAAATATAAATTATTTATTA
1 AAAATATAAA--ATTTATTA
26189158 ATATTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
AAAATATAAAATTTATTAT
Found at i:26189140 original size:21 final size:20
Alignment explanation
Indices: 26189106--26189157 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
26189096 TTAATATAAA
*
26189106 AAATATTTTTTA-AAAAGTAT
1 AAATATTTATTATAAAA-TAT
26189126 AAA-ATTTATTATAAAATAT
1 AAATATTTATTATAAAATAT
26189145 AAATTATTTATTA
1 AAA-TATTTATTA
26189158 ATATTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 13 0.46
20 7 0.25
21 8 0.29
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
AAATATTTATTATAAAATAT
Found at i:26193347 original size:19 final size:19
Alignment explanation
Indices: 26193323--26193372 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
26193313 TTTAATTAGG
26193323 AAATTTTGGTATCCATTAA
1 AAATTTTGGTATCCATTAA
* ***
26193342 AAATTTTGATATTTGTTAA
1 AAATTTTGGTATCCATTAA
26193361 AAATTTTGGTAT
1 AAATTTTGGTAT
26193373 GAGCAAATCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (19 bp):
AAATTTTGGTATCCATTAA
Found at i:26193509 original size:18 final size:19
Alignment explanation
Indices: 26193471--26193511 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
26193461 ATGTTATAAA
* *
26193471 TAAAATATACAAAAGATAT
1 TAAAATATACAAAAAAAAT
26193490 TAAAA-ATACAAAAAAAAT
1 TAAAATATACAAAAAAAAT
26193508 TAAA
1 TAAA
26193512 GAAATTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
TAAAATATACAAAAAAAAT
Found at i:26193596 original size:39 final size:38
Alignment explanation
Indices: 26193527--26193608 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 38
26193517 TAAAATAAAC
** *
26193527 GAAATTTTGGTATCTGTTAAAAATTATGGTATCTGTTA
1 GAAATTTTGGTATCAATTAAAAATTATGGTATCTATTA
26193565 GAAATTTTGGTACTCAATTAAAAA-TATTGGTATCTATTA
1 GAAATTTTGGTA-TCAATTAAAAATTA-TGGTATCTATTA
*
26193604 AAAAT
1 GAAAT
26193609 ATTGATATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 14 0.37
39 24 0.63
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.41
Consensus pattern (38 bp):
GAAATTTTGGTATCAATTAAAAATTATGGTATCTATTA
Found at i:26193609 original size:19 final size:19
Alignment explanation
Indices: 26193528--26193612 Score: 91
Period size: 19 Copynumber: 4.4 Consensus size: 19
26193518 AAAATAAACG
* *
26193528 AAATTTTGGTATCTGTTAA
1 AAATATTGGTATCTATTAA
* *
26193547 AAAT-TATGGTATCTGTTAG
1 AAATAT-TGGTATCTATTAA
* *
26193566 AAATTTTGGTACTCAATTAA
1 AAATATTGGTA-TCTATTAA
26193586 AAATATTGGTATCTATTAA
1 AAATATTGGTATCTATTAA
26193605 AAATATTG
1 AAATATTG
26193613 ATATTTGATT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
18 1 0.02
19 40 0.70
20 16 0.28
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (19 bp):
AAATATTGGTATCTATTAA
Found at i:26200912 original size:73 final size:73
Alignment explanation
Indices: 26200770--26200988 Score: 300
Period size: 73 Copynumber: 3.0 Consensus size: 73
26200760 AGGAAACTTC
* * *
26200770 TAATGCCAAAATCCAAAGCATTTGCTTTGCTTTCTC-TGTTT-TCACATCAACCAAACAAAGCCA
1 TAATGCCAAAATCCAAAGCTTTTGCCTTGCTTTCTCTTGTTTCCCA-ATCAACCAAACAAAGCCA
26200833 AATGGATTA
65 AATGGATTA
* *
26200842 TAATGCCAAAATCCGAACCTTTTGCCTTGCTTTCTCTTGTTTCCCAATCAACCAAACAAAGCCAA
1 TAATGCCAAAATCCAAAGCTTTTGCCTTGCTTTCTCTTGTTTCCCAATCAACCAAACAAAGCCAA
26200907 ATGGATTA
66 ATGGATTA
* * * **
26200915 TAACGCCAAAATCCAAAGCTTTCGCCTTGCTTTCTCTTATTTTCCC-ATCAGGCAAACAAAGCCA
1 TAATGCCAAAATCCAAAGCTTTTGCCTTGCTTTCTCTT-GTTTCCCAATCAACCAAACAAAGCCA
*
26200979 AATGAATTA
65 AATGGATTA
26200988 T
1 T
26200989 TGAAGTACAT
Statistics
Matches: 131, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
72 32 0.24
73 91 0.69
74 8 0.06
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (73 bp):
TAATGCCAAAATCCAAAGCTTTTGCCTTGCTTTCTCTTGTTTCCCAATCAACCAAACAAAGCCAA
ATGGATTA
Found at i:26201694 original size:17 final size:17
Alignment explanation
Indices: 26201672--26201707 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
26201662 ATCGTCGTCG
26201672 TTGTTCATGTCACTGAT
1 TTGTTCATGTCACTGAT
26201689 TTGTTCATGTCACTGAT
1 TTGTTCATGTCACTGAT
26201706 TT
1 TT
26201708 TGGCTTCCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (17 bp):
TTGTTCATGTCACTGAT
Found at i:26202091 original size:21 final size:21
Alignment explanation
Indices: 26202025--26202092 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 21
26202015 CACCTTTTAT
*
26202025 AGTTACAAGTCAAAACCATTA
1 AGTTAAAAGTCAAAACCATTA
* *
26202046 AGTTAAAAAGTAAAATTATGTCATTA
1 AGTT-AAAAGTCAAA--A--CCATTA
26202072 AGTTAAAAGTCAAAACCATTA
1 AGTTAAAAGTCAAAACCATTA
26202093 TATTGTTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
21 9 0.24
22 8 0.22
23 1 0.03
24 1 0.03
25 9 0.24
26 9 0.24
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (21 bp):
AGTTAAAAGTCAAAACCATTA
Found at i:26206178 original size:166 final size:165
Alignment explanation
Indices: 26205892--26206215 Score: 542
Period size: 166 Copynumber: 1.9 Consensus size: 165
26205882 AAAGATCGAA
* *
26205892 AGTTTTGTTTGCATACCACAAAAGGCTCTTCATCACCTTTTGGCATCTTGAGGAGGTCCTCCAAT
1 AGTTTTGTTTGCATACCACAAAAGGCTCGTCAT--CCTTTTGGCATCTTGAGAAGGTCCTCCAAT
*
26205957 CCGGTTCTCACCCTTTGATCCTTCCGGGAAGCATCAGAATCTGGTGACACACTTCTTGCATTGCT
64 CCGGTTCTCACCCTTTGATCCTTCCGGGAAGCATCAGAATCTGGTGACACACTTCTGGCATTGCT
26206022 AGGATCAGCATTTGGTATTTGTCCCAATAAAGAATGGT
129 AGGATCAGCATTTGGTATTTGT-CCAATAAAGAATGGT
* *
26206060 AGTTTTGTTTGTATACCACAAAAGGCTCGTCAT-CTTTTGGCATCTTGAGAAGGTCCTCCAATCT
1 AGTTTTGTTTGCATACCACAAAAGGCTCGTCATCCTTTTGGCATCTTGAGAAGGTCCTCCAATCC
26206124 GGTTCTCACCCTTTTGATCCTTCCGGGAAGCATCAGAATCTGGTGACACACTTCTGGCATTGCTA
66 GGTTCTCACCC-TTTGATCCTTCCGGGAAGCATCAGAATCTGGTGACACACTTCTGGCATTGCTA
**
26206189 GGATCAGTGTTTGGTATTTGTCCAATA
130 GGATCAGCATTTGGTATTTGTCCAATA
26206216 GATTTTTGTT
Statistics
Matches: 148, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
165 46 0.31
166 71 0.48
168 31 0.21
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (165 bp):
AGTTTTGTTTGCATACCACAAAAGGCTCGTCATCCTTTTGGCATCTTGAGAAGGTCCTCCAATCC
GGTTCTCACCCTTTGATCCTTCCGGGAAGCATCAGAATCTGGTGACACACTTCTGGCATTGCTAG
GATCAGCATTTGGTATTTGTCCAATAAAGAATGGT
Found at i:26208425 original size:22 final size:22
Alignment explanation
Indices: 26208400--26208441 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
26208390 TTGATCAAGA
*
26208400 TAAAAAAATATTAAAAATTATT
1 TAAAAAAACATTAAAAATTATT
*
26208422 TAAAAGAACATTAAAAATTA
1 TAAAAAAACATTAAAAATTA
26208442 AAGTGAAAAC
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:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAAAAACATTAAAAATTATT
Found at i:26208518 original size:23 final size:22
Alignment explanation
Indices: 26208492--26208535 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
26208482 GACACCCTAA
26208492 ATCT-ATTAGGGCAATCAATTTTG
1 ATCTCATT-GGGC-ATCAATTTTG
*
26208515 ATCTCATTGGGCATCGATTTT
1 ATCTCATTGGGCATCAATTTT
26208536 ATTGAATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.42
23 8 0.42
24 3 0.16
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (22 bp):
ATCTCATTGGGCATCAATTTTG
Found at i:26216230 original size:2 final size:2
Alignment explanation
Indices: 26216223--26216255 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
26216213 AAAGGAAAAT
26216223 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
26216256 ATTACCGGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:26217368 original size:3 final size:3
Alignment explanation
Indices: 26217360--26217403 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
26217350 ATTCAATATT
* * *
26217360 TCA TCA TCA TCA TCA TCA TCA TCC TCA TCC TCA TCC TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
26217404 CATTTCATTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.25, C:0.41, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:26217377 original size:12 final size:12
Alignment explanation
Indices: 26217360--26217403 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
26217350 ATTCAATATT
*
26217360 TCATCATCATCA
1 TCATCATCATCC
26217372 TCATCATCATCC
1 TCATCATCATCC
*
26217384 TCATCCTCATCC
1 TCATCATCATCC
26217396 TCATCATC
1 TCATCATC
26217404 CATTTCATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.25, C:0.41, G:0.00, T:0.34
Consensus pattern (12 bp):
TCATCATCATCC
Found at i:26228301 original size:23 final size:23
Alignment explanation
Indices: 26228258--26228301 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
26228248 TAAAATGATG
* *
26228258 AAATTATATTTTTATTATCGTAA
1 AAATTATAATTTAATTATCGTAA
26228281 AAATATATAATTTAATT-TCGT
1 AAAT-TATAATTTAATTATCGT
26228302 CCCCTCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 8 0.44
24 10 0.56
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (23 bp):
AAATTATAATTTAATTATCGTAA
Found at i:26229170 original size:206 final size:206
Alignment explanation
Indices: 26228816--26229230 Score: 767
Period size: 206 Copynumber: 2.0 Consensus size: 206
26228806 TTCAACCTCC
*
26228816 AGACCCGGTCTTGAATTTCCATCAGCAGAATCAGTTTTCCGATGGAATTCGGAGCTTGGATTCGC
1 AGACCCGGTCTTGAATTTCCATCAGCAGAATCAGCTTTCCGATGGAATTCGGAGCTTGGATTCGC
26228881 GACAATAGGTTGATTTCTGGAACTGGGGTTCTCATACTTATCCTGGAAAAACAAAGACAAAAATC
66 GACAATAGGTTGATTTCTGGAACTGGGGTTCTCATACTTATCCTGGAAAAACAAAGACAAAAATC
26228946 AGATGGATTGATCAATTGAACAGCTTAAGTTCTTGGGTAAATTACCTGATAGAGGGAAGGGACGA
131 AGATGGATTGATCAATTGAACAGCTTAAGTTCTTGGGTAAATTACCTGATAGAGGGAAGGGACGA
26229011 TTGAAGGATCT
196 TTGAAGGATCT
*
26229022 AGACCCGGTCTTGAATTTCCGTCAGCAGAATCAGCTTTCCGATGGAATTCGGAGCTTGGATTCGC
1 AGACCCGGTCTTGAATTTCCATCAGCAGAATCAGCTTTCCGATGGAATTCGGAGCTTGGATTCGC
* * *
26229087 GGCAATAGGTTGATTTCTGGAACTGGGGTTCTCATACTTATCCTGGAAAGACAAAGACAAATATC
66 GACAATAGGTTGATTTCTGGAACTGGGGTTCTCATACTTATCCTGGAAAAACAAAGACAAAAATC
* *
26229152 AGATGGATTGATCAATTGAACAGCTTAAGTTGTTGGGTAAATTACCTGATAGAGGGGAGGGACGA
131 AGATGGATTGATCAATTGAACAGCTTAAGTTCTTGGGTAAATTACCTGATAGAGGGAAGGGACGA
26229217 TTGAAGGATCT
196 TTGAAGGATCT
26229228 AGA
1 AGA
26229231 GGAGGAAGGT
Statistics
Matches: 202, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
206 202 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.27
Consensus pattern (206 bp):
AGACCCGGTCTTGAATTTCCATCAGCAGAATCAGCTTTCCGATGGAATTCGGAGCTTGGATTCGC
GACAATAGGTTGATTTCTGGAACTGGGGTTCTCATACTTATCCTGGAAAAACAAAGACAAAAATC
AGATGGATTGATCAATTGAACAGCTTAAGTTCTTGGGTAAATTACCTGATAGAGGGAAGGGACGA
TTGAAGGATCT
Found at i:26229939 original size:24 final size:23
Alignment explanation
Indices: 26229904--26229967 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
26229894 ACATTGTTTG
*
26229904 TGAACATATTCAATTATATGTTCA
1 TGAACATGTTCAATTAT-TGTTCA
* * *
26229928 TGAGCATGTTCATTTGATTGTTCG
1 TGAACATGTTCAATT-ATTGTTCA
*
26229952 TGAACATGTTCGATTA
1 TGAACATGTTCAATTA
26229968 AGTTAAACGA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 1 0.03
24 29 0.91
25 2 0.06
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.42
Consensus pattern (23 bp):
TGAACATGTTCAATTATTGTTCA
Found at i:26229996 original size:23 final size:23
Alignment explanation
Indices: 26229953--26229998 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
26229943 GATTGTTCGT
* *
26229953 GAACATGTTCGATTAAGTTAAAC
1 GAACATGTTCGATGAAATTAAAC
26229976 GAACATGTTCG-TGAACATTAAAC
1 GAACATGTTCGATGAA-ATTAAAC
26229999 AAATAAACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (23 bp):
GAACATGTTCGATGAAATTAAAC
Found at i:26230993 original size:11 final size:11
Alignment explanation
Indices: 26230979--26231020 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
26230969 AAATTAAATT
26230979 TAATATTAAAA
1 TAATATTAAAA
26230990 TAATA--AAAA
1 TAATATTAAAA
*
26230999 TATTATTAAAA
1 TAATATTAAAA
26231010 TAATTATTAAA
1 TAA-TATTAAA
26231021 TTAAATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 8 0.31
11 11 0.42
12 7 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:26231023 original size:17 final size:17
Alignment explanation
Indices: 26230956--26231025 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
26230946 TATTTATCTA
26230956 TAAAATAAATATTAAAT
1 TAAAATAAATATTAAAT
* * *
26230973 TAAATTTAATATTAAAA
1 TAAAATAAATATTAAAT
26230990 TAATAA-AAATATT--AT
1 TAA-AATAAATATTAAAT
*
26231005 TAAAATAATTATTAAAT
1 TAAAATAAATATTAAAT
26231022 TAAA
1 TAAA
26231026 TTTTTATAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
14 2 0.05
15 10 0.24
17 29 0.69
18 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAAATAAATATTAAAT
Found at i:26233486 original size:21 final size:21
Alignment explanation
Indices: 26233462--26233502 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
26233452 AGTAAATTAA
*
26233462 GATTGATTAAAACTA-AAATAT
1 GATTAATTAAAA-TATAAATAT
26233483 GATTAATTAAAATATAAATA
1 GATTAATTAAAATATAAATA
26233503 AACTTTATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.34
Consensus pattern (21 bp):
GATTAATTAAAATATAAATAT
Found at i:26233697 original size:14 final size:14
Alignment explanation
Indices: 26233678--26233716 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
26233668 AAGAAGTAAG
26233678 TCATTTTTCAGAAA
1 TCATTTTTCAGAAA
*
26233692 TCATTTTTCAGAAG
1 TCATTTTTCAGAAA
*
26233706 CCATTTTTCAG
1 TCATTTTTCAG
26233717 TGAAACAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (14 bp):
TCATTTTTCAGAAA
Found at i:26233979 original size:23 final size:23
Alignment explanation
Indices: 26233945--26233990 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
26233935 ATACTACCAT
26233945 TATCTAAATAAAATAATAATAAA
1 TATCTAAATAAAATAATAATAAA
* *
26233968 TATCTAAGTAAAATATTAATAAA
1 TATCTAAATAAAATAATAATAAA
26233991 ACAATATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (23 bp):
TATCTAAATAAAATAATAATAAA
Found at i:26234253 original size:31 final size:31
Alignment explanation
Indices: 26234213--26234282 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
26234203 AATTAGGCTA
*
26234213 TTTT-CACTTTTGGT-CCTTCAAATTTCT-AAT
1 TTTTACACTTTTGATCCCTT-AAATTT-TGAAT
26234243 TTTTACAC-TTTGATCCCTTAAATTTTGAAT
1 TTTTACACTTTTGATCCCTTAAATTTTGAAT
*
26234273 ATTTACACTT
1 TTTTACACTT
26234283 GAGCAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
29 1 0.03
30 25 0.74
31 8 0.24
ACGTcount: A:0.24, C:0.19, G:0.06, T:0.51
Consensus pattern (31 bp):
TTTTACACTTTTGATCCCTTAAATTTTGAAT
Found at i:26236118 original size:30 final size:30
Alignment explanation
Indices: 26236055--26236275 Score: 195
Period size: 30 Copynumber: 7.4 Consensus size: 30
26236045 TTTAAGGGTG
* *
26236055 AAATGGTAATTTTT-GAAAG-TTTCAGGGTAA
1 AAAT-GTAATTTTTGGAAAGTTTTGA-GGTCA
* *
26236085 AAATGCAATTTTTTGGAAA-TTTTGCGGTCA
1 AAATGTAA-TTTTTGGAAAGTTTTGAGGTCA
* * *
26236115 AAATATGA-TTTTGGAAAGGTTTTGGGGTCA
1 AAATGTAATTTTTGGAAA-GTTTTGAGGTCA
26236145 AAATGTAA-TTTTGGAAAAGTTTTGAGGTCA
1 AAATGTAATTTTTGG-AAAGTTTTGAGGTCA
* * *
26236175 AAATGTAATTTTAGAAAAGTTTCGAGGTCA
1 AAATGTAATTTTTGGAAAGTTTTGAGGTCA
** *
26236205 AAATGTAA-TTTTGGAAAAAATTTGGGGTCA
1 AAATGTAATTTTTGG-AAAGTTTTGAGGTCA
* *
26236235 AAATGTAA-TTTTGGAAAAATTTTAAGGTCA
1 AAATGTAATTTTTGG-AAAGTTTTGAGGTCA
26236265 AAATGTAATTT
1 AAATGTAATTT
26236276 CTAGAAAATT
Statistics
Matches: 159, Mismatches: 23, Indels: 17
0.80 0.12 0.09
Matches are distributed among these distances:
28 9 0.06
29 7 0.04
30 127 0.80
31 16 0.10
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.37
Consensus pattern (30 bp):
AAATGTAATTTTTGGAAAGTTTTGAGGTCA
Found at i:26236178 original size:90 final size:91
Alignment explanation
Indices: 26236084--26236283 Score: 269
Period size: 90 Copynumber: 2.2 Consensus size: 91
26236074 TTTCAGGGTA
* * * * * * ***
26236084 AAAATGCAATTTTTTGGAAA-TTTTGCGGTCAAAATATGATTTTGGAAAGGTTTTGGGGTCAAAA
1 AAAATGTAATTTTTAGAAAAGTTTCGAGGTCAAAATATAATTTTGGAAAAAATTTGGGGTCAAAA
* *
26236148 TGTAATTTTGGAAAAGTTTTGAGGTC
66 TGTAATTTTGGAAAAATTTTAAGGTC
*
26236174 AAAATGTAA-TTTTAGAAAAGTTTCGAGGTCAAAATGTAATTTTGGAAAAAATTTGGGGTCAAAA
1 AAAATGTAATTTTTAGAAAAGTTTCGAGGTCAAAATATAATTTTGGAAAAAATTTGGGGTCAAAA
26236238 TGTAATTTTGGAAAAATTTTAAGGTC
66 TGTAATTTTGGAAAAATTTTAAGGTC
*
26236264 AAAATGTAATTTCTAGAAAA
1 AAAATGTAATTTTTAGAAAA
26236284 TTTAGGGACT
Statistics
Matches: 95, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
89 8 0.08
90 78 0.82
91 9 0.09
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.35
Consensus pattern (91 bp):
AAAATGTAATTTTTAGAAAAGTTTCGAGGTCAAAATATAATTTTGGAAAAAATTTGGGGTCAAAA
TGTAATTTTGGAAAAATTTTAAGGTC
Found at i:26236284 original size:30 final size:29
Alignment explanation
Indices: 26236095--26236286 Score: 224
Period size: 30 Copynumber: 6.4 Consensus size: 29
26236085 AAATGCAATT
* * *
26236095 TTTTGG-AAATTTTGCGGTCAAAATATGA
1 TTTTGGAAAATTTTGAGGTCAAAATGTAA
* *
26236123 TTTTGGAAAGGTTTTGGGGTCAAAATGTAA
1 TTTTGGAAA-ATTTTGAGGTCAAAATGTAA
26236153 TTTTGGAAAAGTTTTGAGGTCAAAATGTAA
1 TTTTGGAAAA-TTTTGAGGTCAAAATGTAA
* *
26236183 TTTTAGAAAAGTTTCGAGGTCAAAATGTAA
1 TTTTGGAAAA-TTTTGAGGTCAAAATGTAA
* *
26236213 TTTTGGAAAAAATTTGGGGTCAAAATGTAA
1 TTTTGG-AAAATTTTGAGGTCAAAATGTAA
*
26236243 TTTTGGAAAAATTTTAAGGTCAAAATGTAA
1 TTTTGG-AAAATTTTGAGGTCAAAATGTAA
*
26236273 TTTCTAGAAAATTT
1 TTT-TGGAAAATTT
26236287 AGGGACTAAC
Statistics
Matches: 143, Mismatches: 16, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
28 6 0.04
29 2 0.01
30 129 0.90
31 6 0.04
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (29 bp):
TTTTGGAAAATTTTGAGGTCAAAATGTAA
Found at i:26238194 original size:6 final size:6
Alignment explanation
Indices: 26238178--26238260 Score: 68
Period size: 6 Copynumber: 14.0 Consensus size: 6
26238168 TTAAATTTGT
**
26238178 TTTATAA TTTAAA TTTAAA TTTAAA TTT-AA GGTAAA TTTAAA TAATTAAA
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
*
26238228 TTTAAGA --TAAA TTTAAA TTCAAA --TAAA TTTAAA
1 TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
26238261 ATCAATTTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
4 4 0.06
5 6 0.10
6 41 0.66
7 5 0.08
8 6 0.10
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:26238226 original size:25 final size:25
Alignment explanation
Indices: 26238187--26238271 Score: 102
Period size: 25 Copynumber: 3.4 Consensus size: 25
26238177 TTTTATAATT
*
26238187 TAAATTTAAAT--TTAAATTTAAGG
1 TAAATTTAAATAATTAAATTTAAGA
26238210 TAAATTTAAATAATTAAATTTAAGA
1 TAAATTTAAATAATTAAATTTAAGA
* *
26238235 TAAATTTAAATTCAAATAAATTTAAAA
1 TAAATTTAAA-T-AATTAAATTTAAGA
*
26238262 TCAATTTAAA
1 TAAATTTAAA
26238272 CTCTAAATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
23 11 0.20
25 21 0.39
26 1 0.02
27 21 0.39
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (25 bp):
TAAATTTAAATAATTAAATTTAAGA
Found at i:26238806 original size:75 final size:75
Alignment explanation
Indices: 26238632--26239368 Score: 968
Period size: 75 Copynumber: 9.9 Consensus size: 75
26238622 GCTTCGTCTA
* * * *
26238632 GCTCTTGCTTCAATTTCAGAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGAT
1 GCTCTTACTTCAATTTC--AGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGAGGAT
26238697 AGGAAAATGATCTT
63 AGG-AAATGATCTT
* *
26238711 GCTCTTATTTCAATTCCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATAGG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATAGG
26238776 AAATGATCTT
66 AAATGATCTT
* *
26238786 GTTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGAGGAT--G
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATAGG
26238849 --ATG---TT
66 AAATGATCTT
* *
26238854 GCCCTTACTTCAATTTCGGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATAG
*
26238919 GTAAA-GGTCTT
65 G-AAATGATCTT
* * * * *
26238930 GCTCTTACTTCAATTTCAGATATAAAGACTTGATATCCAACTTTACTTCAATTTCAGGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATAG
*
26238995 GAACTGATCTT
65 GAAATGATCTT
* * * *
26239006 GCTCTTACTTCAATTTCGGAGATAAAGGCTTGCTATCCAACTCTACTTCAATTTCAAGCA-GATA
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAG-AGGATA
26239070 GGAAATGA-CGTT
64 GGAAATGATC-TT
*
26239082 GTTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATAGG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATAGG
26239147 AAATGATCTT
66 AAATGATCTT
* *
26239157 GTTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGAGGATAGG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATAGG
26239222 AAATGATCTT
66 AAATGATCTT
** *
26239232 ATTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGAGGAT--G
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATAGG
*
26239295 --ACG---TT
66 AAATGATCTT
* * **
26239300 GCCCTTACTTCAATTTCGGAGATAAAGACGTACTATCCAACTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATAG
26239365 GAAA
65 GAAA
26239369 AGGTCTTGGT
Statistics
Matches: 594, Mismatches: 45, Indels: 44
0.87 0.07 0.06
Matches are distributed among these distances:
68 69 0.12
69 48 0.08
71 7 0.01
73 4 0.01
74 2 0.00
75 239 0.40
76 190 0.32
77 21 0.04
79 14 0.02
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (75 bp):
GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATAGG
AAATGATCTT
Found at i:26251252 original size:30 final size:29
Alignment explanation
Indices: 26251142--26251341 Score: 163
Period size: 30 Copynumber: 6.7 Consensus size: 29
26251132 TTTAGGGAAG
*
26251142 TTTGAGGGT-AAAATGGTAATTTTTGAAAGT
1 TTTG-GGGTCAAAAT-GTAATTTTGGAAAGT
* * *
26251172 TTCGGGGTAAAAATGCAATTTTTTGGAAA-T
1 TTTGGGGTCAAAATGTAA--TTTTGGAAAGT
** * * *
26251202 TTT-TTGTAAAAATATGATTTTGGAAAGGT
1 TTTGGGGTCAAAATGTAATTTTGGAAA-GT
26251231 TTTGGGGTCAAAATGTAATTTTGGTAAAGT
1 TTTGGGGTCAAAATGTAATTTTGG-AAAGT
**
26251261 TTTGGGGTCAAAATGTAATTTTAAAAAAGT
1 TTTGGGGTCAAAATGTAATTTT-GGAAAGT
* * * *
26251291 TTCGAGGTTAAAATGTAATTTTGGAAAAAT
1 TTTGGGGTCAAAATGTAATTTTGG-AAAGT
*
26251321 TTTAGGGTCAAAATGTAATTT
1 TTTGGGGTCAAAATGTAATTT
26251342 CTAGACAATT
Statistics
Matches: 135, Mismatches: 26, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
27 9 0.07
29 20 0.15
30 95 0.70
31 11 0.08
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.40
Consensus pattern (29 bp):
TTTGGGGTCAAAATGTAATTTTGGAAAGT
Found at i:26252521 original size:22 final size:22
Alignment explanation
Indices: 26252471--26252514 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
26252461 CTCTTTTTTT
26252471 ATATTATTAGTATTATTAATTA
1 ATATTATTAGTATTATTAATTA
* *
26252493 ATATTATTATTATTGTT-ATTA
1 ATATTATTAGTATTATTAATTA
26252514 A
1 A
26252515 ATGTTATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
ATATTATTAGTATTATTAATTA
Found at i:26253261 original size:6 final size:6
Alignment explanation
Indices: 26253250--26253319 Score: 51
Period size: 6 Copynumber: 12.0 Consensus size: 6
26253240 TGTTTTATAG
**
26253250 TTTAAA TTTAAA TTT-AA GGTAAA TTTAAA TAATTAAA TTTAAGA --TAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA TTTAA-A TTTAAA
*
26253298 TTTAAA TTCAAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
26253320 ATCAATTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
4 4 0.08
5 6 0.12
6 33 0.66
7 1 0.02
8 6 0.12
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:26253288 original size:25 final size:25
Alignment explanation
Indices: 26253250--26253330 Score: 94
Period size: 25 Copynumber: 3.2 Consensus size: 25
26253240 TGTTTTATAG
*
26253250 TTTAAAT--TTAAATTTAAGGTAAA
1 TTTAAATAATTAAATTTAAGATAAA
26253273 TTTAAATAATTAAATTTAAGATAAA
1 TTTAAATAATTAAATTTAAGATAAA
* * *
26253298 TTTAAATTCAAATAAATTTAAAATCAA
1 TTTAAA-T-AATTAAATTTAAGATAAA
26253325 TTTAAA
1 TTTAAA
26253331 CTCTAAATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.14
25 21 0.42
26 1 0.02
27 21 0.42
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (25 bp):
TTTAAATAATTAAATTTAAGATAAA
Found at i:26253312 original size:16 final size:16
Alignment explanation
Indices: 26253269--26253324 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
26253259 AAATTTAAGG
*
26253269 TAAATTTAAAT-AA-T
1 TAAATTCAAATAAATT
*
26253283 TAAATTTAAGATAAATT
1 TAAATTCAA-ATAAATT
26253300 TAAATTCAAATAAATT
1 TAAATTCAAATAAATT
*
26253316 TAAAATCAA
1 TAAATTCAA
26253325 TTTAAACTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 9 0.24
15 2 0.05
16 17 0.46
17 9 0.24
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (16 bp):
TAAATTCAAATAAATT
Found at i:26258171 original size:5 final size:5
Alignment explanation
Indices: 26258161--26258185 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
26258151 TACACCTGAT
26258161 GGGCA GGGCA GGGCA GGGCA GGGCA
1 GGGCA GGGCA GGGCA GGGCA GGGCA
26258186 TTTAGTCAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.60, T:0.00
Consensus pattern (5 bp):
GGGCA
Found at i:26260219 original size:180 final size:180
Alignment explanation
Indices: 26259917--26260278 Score: 715
Period size: 180 Copynumber: 2.0 Consensus size: 180
26259907 ACACAAACCC
26259917 AACCAACCATGACAGTATCTGCCTCAACACCATTGCTGACAAACCCAATAACCAAAGTAAAGCAT
1 AACCAACCATGACAGTATCTGCCTCAACACCATTGCTGACAAACCCAATAACCAAAGTAAAGCAT
26259982 TCAAACATGCAGGAAGCATTAGTTTACTACAATACTGTCAGTTTCTTTCTATGTACATGGAGTTT
66 TCAAACATGCAGGAAGCATTAGTTTACTACAATACTGTCAGTTTCTTTCTATGTACATGGAGTTT
26260047 TTACAGGCAATGAAAGCCCTTTTTTCTTTGATTCAGTGCATATACATACA
131 TTACAGGCAATGAAAGCCCTTTTTTCTTTGATTCAGTGCATATACATACA
*
26260097 AACCAACCATGACAGTATCTGCCTCACCACCATTGCTGACAAACCCAATAACCAAAGTAAAGCAT
1 AACCAACCATGACAGTATCTGCCTCAACACCATTGCTGACAAACCCAATAACCAAAGTAAAGCAT
26260162 TCAAACATGCAGGAAGCATTAGTTTACTACAATACTGTCAGTTTCTTTCTATGTACATGGAGTTT
66 TCAAACATGCAGGAAGCATTAGTTTACTACAATACTGTCAGTTTCTTTCTATGTACATGGAGTTT
26260227 TTACAGGCAATGAAAGCCCTTTTTTCTTTGATTCAGTGCATATACATACA
131 TTACAGGCAATGAAAGCCCTTTTTTCTTTGATTCAGTGCATATACATACA
26260277 AA
1 AA
26260279 ACACAAAAAG
Statistics
Matches: 181, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
180 181 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (180 bp):
AACCAACCATGACAGTATCTGCCTCAACACCATTGCTGACAAACCCAATAACCAAAGTAAAGCAT
TCAAACATGCAGGAAGCATTAGTTTACTACAATACTGTCAGTTTCTTTCTATGTACATGGAGTTT
TTACAGGCAATGAAAGCCCTTTTTTCTTTGATTCAGTGCATATACATACA
Found at i:26261710 original size:3 final size:3
Alignment explanation
Indices: 26261702--26261727 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
26261692 GGTAGGATCT
26261702 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
26261728 GTAGGGGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:26268431 original size:13 final size:13
Alignment explanation
Indices: 26268413--26268439 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26268403 AACATCTAAA
26268413 TTGATGACTAGAT
1 TTGATGACTAGAT
26268426 TTGATGACTAGAT
1 TTGATGACTAGAT
26268439 T
1 T
26268440 GACGAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TTGATGACTAGAT
Found at i:26270819 original size:64 final size:64
Alignment explanation
Indices: 26270745--26270877 Score: 266
Period size: 64 Copynumber: 2.1 Consensus size: 64
26270735 TGACTATAAT
26270745 GTGCAGCCTTGTGGGATCCTACAATGTTGGAAGTAATATTAAAATACTTTCAACGTTACAAATA
1 GTGCAGCCTTGTGGGATCCTACAATGTTGGAAGTAATATTAAAATACTTTCAACGTTACAAATA
26270809 GTGCAGCCTTGTGGGATCCTACAATGTTGGAAGTAATATTAAAATACTTTCAACGTTACAAATA
1 GTGCAGCCTTGTGGGATCCTACAATGTTGGAAGTAATATTAAAATACTTTCAACGTTACAAATA
26270873 GTGCA
1 GTGCA
26270878 TCGCATCTAG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (64 bp):
GTGCAGCCTTGTGGGATCCTACAATGTTGGAAGTAATATTAAAATACTTTCAACGTTACAAATA
Found at i:26275224 original size:6 final size:6
Alignment explanation
Indices: 26275207--26275245 Score: 69
Period size: 6 Copynumber: 6.3 Consensus size: 6
26275197 GATAAAGGCT
26275207 AGCAAGA AGCAAA AGCAAA AGCAAA AGCAAA AGCAAA AG
1 AGCAA-A AGCAAA AGCAAA AGCAAA AGCAAA AGCAAA AG
26275246 AGAACATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.64, C:0.15, G:0.21, T:0.00
Consensus pattern (6 bp):
AGCAAA
Found at i:26277155 original size:17 final size:16
Alignment explanation
Indices: 26277137--26277176 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
26277127 TTGAATTGAT
26277137 TTTAAATT-TATTTAAA
1 TTTAAATTGT-TTTAAA
26277153 TTTAAACTTGTTTTAAA
1 TTTAAA-TTGTTTTAAA
26277170 TTTAAAT
1 TTTAAAT
26277177 ACATTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.32
17 14 0.64
18 1 0.05
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTAAATTGTTTTAAA
Found at i:26277182 original size:27 final size:27
Alignment explanation
Indices: 26277108--26277202 Score: 77
Period size: 27 Copynumber: 3.5 Consensus size: 27
26277098 TGGATCAAAA
* * *
26277108 TTTTAATTTTAAATTAAGTTT-GAATTG
1 TTTTAAATTTAAA-TAAATTTAGAATAG
** *
26277135 ATTTTAAATTTATTTAAATTTA-AACTTG
1 -TTTTAAATTTAAATAAATTTAGAA-TAG
*
26277163 TTTTAAATTTAAATACATTTAGAATAG
1 TTTTAAATTTAAATAAATTTAGAATAG
*
26277190 TTTTAAACTTAAA
1 TTTTAAATTTAAA
26277203 ATCAAAATTA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
27 40 0.73
28 15 0.27
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (27 bp):
TTTTAAATTTAAATAAATTTAGAATAG
Found at i:26279070 original size:29 final size:29
Alignment explanation
Indices: 26279028--26279135 Score: 128
Period size: 29 Copynumber: 3.7 Consensus size: 29
26279018 TTGAACTGTC
*
26279028 CAAAAATTACATTTTGACCCCAAAACTTT
1 CAAAAATTACATTTTAACCCCAAAACTTT
* * * *
26279057 AAAAAATTACATTTCAACCCTAAAACTTC
1 CAAAAATTACATTTTAACCCCAAAACTTT
*
26279086 CAAAAATTACCATTTT-ACCCCTAAACTTT
1 CAAAAATTA-CATTTTAACCCCAAAACTTT
* *
26279115 CCAAAATTCCATTTTAACCCC
1 CAAAAATTACATTTTAACCCC
26279136 GATTTTACCA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
28 6 0.09
29 54 0.83
30 5 0.08
ACGTcount: A:0.41, C:0.28, G:0.01, T:0.31
Consensus pattern (29 bp):
CAAAAATTACATTTTAACCCCAAAACTTT
Found at i:26279121 original size:58 final size:55
Alignment explanation
Indices: 26279027--26279282 Score: 189
Period size: 58 Copynumber: 4.4 Consensus size: 55
26279017 CTTGAACTGT
* **
26279027 CCAAAAATTA-CATTTTGACCCCAAAACTTTAAAAAATTACATTTCAACCCTAAAACTT-
1 CCAAAAATTACCATTTT-ACCCCTAAACTTTCCAAAATT-CATTTCAACCC---AACTTA
* **
26279085 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCGATTTTA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATT-CATTTCAA-CCC-AACTTA
** * * *
26279143 CCAAAAATTACCATTTTACCCCCGAACATTCCAAAATTCTATTTTTCATCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTC-A--TTTCAACCCAACTT-A
* *
26279202 CCAAAAATTACCATTTTACCCCTAAA-TCTTCCAAAATCCCATTTTAACCCCAGA-TTA
1 CCAAAAATTACCATTTTACCCCTAAACT-TTCCAAAAT-TCATTTCAA-CCCA-ACTTA
*
26279259 TCCTAAAATTA-CATCTTTACCCCT
1 -CCAAAAATTACCAT-TTTACCCCT
26279283 GAAAGTCAAA
Statistics
Matches: 164, Mismatches: 21, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
57 12 0.07
58 99 0.60
59 48 0.29
60 5 0.03
ACGTcount: A:0.37, C:0.29, G:0.02, T:0.32
Consensus pattern (55 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCATTTCAACCCAACTTA
Found at i:26279149 original size:29 final size:27
Alignment explanation
Indices: 26279112--26279281 Score: 92
Period size: 29 Copynumber: 5.9 Consensus size: 27
26279102 ACCCCTAAAC
26279112 TTTCCAAAATTCCATTTTAACCCCGAT
1 TTTCCAAAATTCCATTTTAACCCCGAT
* *
26279139 TTTACCAAAAATTACCATTTTACCCCCGAAC
1 TTT-CC-AAAATT-CCATTTTAACCCCG-AT
* * * * *
26279170 ATTCCAAAATTCTATTTTTCATCCCAAT
1 TTTCCAAAATTCCA-TTTTAACCCCGAT
* *
26279198 TTCACCAAAAATTACCATTTT-ACCCCTAAAT
1 TT-TCC-AAAATT-CCATTTTAACCCC--GAT
* *
26279229 CTTCCAAAATCCCATTTTAACCCCAGAT
1 TTTCCAAAATTCCATTTTAACCCC-GAT
* *
26279257 TATCCTAAAATTACATCTTT-ACCCC
1 TTTCC-AAAATTCCAT-TTTAACCCC
26279282 TGAAAGTCAA
Statistics
Matches: 109, Mismatches: 21, Indels: 24
0.71 0.14 0.16
Matches are distributed among these distances:
27 3 0.03
28 19 0.17
29 48 0.44
30 30 0.28
31 9 0.08
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.34
Consensus pattern (27 bp):
TTTCCAAAATTCCATTTTAACCCCGAT
Found at i:26279222 original size:59 final size:58
Alignment explanation
Indices: 26279085--26279253 Score: 223
Period size: 59 Copynumber: 2.9 Consensus size: 58
26279075 CCTAAAACTT
* * * *
26279085 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCGATTTTA
1 CCAAAAATTACCATTTTACCCCCAAACATTCCAAAATTCCATTTTAACCCCAATTTCA
* * * *
26279143 CCAAAAATTACCATTTTACCCCCGAACATTCCAAAATTCTATTTTTCATCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACATTCCAAAATTCCA-TTTTAACCCCAATTTCA
* *
26279202 CCAAAAATTACCATTTTACCCCTAAATC-TTCCAAAATCCCATTTTAACCCCA
1 CCAAAAATTACCATTTTACCCCCAAA-CATTCCAAAATTCCATTTTAACCCCA
26279254 GATTATCCTA
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
58 46 0.48
59 48 0.51
60 1 0.01
ACGTcount: A:0.35, C:0.31, G:0.01, T:0.33
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCCAAACATTCCAAAATTCCATTTTAACCCCAATTTCA
Found at i:26279304 original size:117 final size:117
Alignment explanation
Indices: 26279085--26279304 Score: 313
Period size: 117 Copynumber: 1.9 Consensus size: 117
26279075 CCTAAAACTT
* *
26279085 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCGATTTTACCAAAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTAACCCCGATTATACCAAAAA
* * *
26279150 TTACCATTTTACCCCCGAACATTCCAAAATTCTATTTTTCATCCCAATTTCA
66 TTACCATTTTACCCCCGAACAGTCAAAAATTCCATTTTTCATCCCAATTTCA
*
26279202 CCAAAAATTACCATTTTACCCCTAAA-TCTTCCAAAATCCCATTTTAACCCCAGATTAT-CCTAA
1 CCAAAAATTACCATTTTACCCCTAAACT-TTCCAAAATCCCATTTTAACCCC-GATTATACCAAA
*
26279265 AATTA-CATCTTTACCCCTGAA-AGTCAAAAATTACCATTTT
64 AATTACCAT-TTTACCCCCGAACAGTCAAAAATT-CCATTTT
26279305 GCTCTCGGGT
Statistics
Matches: 92, Mismatches: 7, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
116 13 0.14
117 74 0.80
118 5 0.05
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.33
Consensus pattern (117 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTAACCCCGATTATACCAAAAA
TTACCATTTTACCCCCGAACAGTCAAAAATTCCATTTTTCATCCCAATTTCA
Found at i:26279390 original size:22 final size:21
Alignment explanation
Indices: 26279362--26279416 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
26279352 TTCTTTCCTC
26279362 ATCATTATTTGCATTCATTTT
1 ATCATTATTTGCATTCATTTT
** *
26279383 AATCATTATGCGCCTTCATTTT
1 -ATCATTATTTGCATTCATTTT
26279405 A-CATT-TTTGCAT
1 ATCATTATTTGCAT
26279417 GTTATTTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 4 0.15
20 4 0.15
21 1 0.04
22 18 0.67
ACGTcount: A:0.24, C:0.18, G:0.07, T:0.51
Consensus pattern (21 bp):
ATCATTATTTGCATTCATTTT
Found at i:26285753 original size:34 final size:35
Alignment explanation
Indices: 26285715--26285784 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 35
26285705 GCAATGGCAG
*
26285715 ATTCAGTACCATGAAGACA-AGAAGAG-AAAGATTT
1 ATTCAGTACCATAAAGACATA-AAGAGAAAAGATTT
* *
26285749 ATTCAGTATCATAAAGACATAAAGGGAAAAGATTT
1 ATTCAGTACCATAAAGACATAAAGAGAAAAGATTT
26285784 A
1 A
26285785 AGTTGCGATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 21 0.68
35 10 0.32
ACGTcount: A:0.49, C:0.10, G:0.19, T:0.23
Consensus pattern (35 bp):
ATTCAGTACCATAAAGACATAAAGAGAAAAGATTT
Found at i:26286597 original size:200 final size:200
Alignment explanation
Indices: 26286234--26287470 Score: 2024
Period size: 200 Copynumber: 6.2 Consensus size: 200
26286224 CATAAACAGT
* * * * *
26286234 GAGGCGGTCGTCTTCTTGAGGAGATACAGAGAAGAATACCAACTCATCGCTCAATGCGAGCAAAT
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAAT
* * *
26286299 CTTCGAAGCCAGCTTCCTGATGAGACACTGAGAAACAGGTCGAAGCAATAAAAATGTTAGCTTCC
66 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCC
* *
26286364 TGATGAGACACAGAGAAGTGGATCAAATTCGTCTTCCTAAGGAGATCCAGAGAAGCGAATTAAAA
131 TGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAA
26286429 CAAGC
196 CAAGC
* ** * *
26286434 GAGGCAGTCATCTTAATGATGAGATACAGAGAAGAATACCAACACAACGCTCAACGCAAGCAAAT
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAAT
26286499 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCC
66 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCC
*
26286564 TGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCTAGAGAAGCGAATTAAAA
131 TGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAA
26286629 CAAGC
196 CAAGC
* * * *
26286634 AAAGCGGTCATCTTCCTGAGGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGACCAAAT
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAAT
* *
26286699 CTTCGAACCCAGCTTCCTGATGAGACACTAAGAAACAGGTCGAAGCAATAAAAAGGTTAGCTTCC
66 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCC
* **
26286764 TGATGAGACACAGGGAAGTGGACCAAATTCGTCTTTTTGAGGAGATCCAGAGAAGCGAATTAAAA
131 TGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAA
26286829 CAAGC
196 CAAGC
* *
26286834 GAAGCGGTTATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAAT
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAAT
* *
26286899 CTTCGAACCCAGCTTCCTGATGAGACAGTGAGAAGCAGGTCGAAGCAATAAAAATGTTAGCTTCC
66 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCC
* * * *
26286964 TGATGAGACACAGGGAAGTGGACCAAATTAGTCTTCCTGAGGAGATTCAGAGAAGCGAATCAAAA
131 TGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAA
26287029 CAAGC
196 CAAGC
* *
26287034 GAGGCGGTCATCTTCTTGATGAAATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAAT
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAAT
*
26287099 CTTCGAACCCAGCTTCCTGATGAGACAGTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCC
66 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCC
* * *
26287164 TAATGAGACACAGAGAAGTTGACCAAATTCATCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAA
131 TGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAA
26287229 CAAGC
196 CAAGC
*
26287234 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCAAGCAAAT
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAAT
26287299 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCC
66 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCC
* *
26287364 TTATGAGACACAGAGAAGTAGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCTGAATTAAA
131 TGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGC-GAATTAAA
*
26287429 ACAAGT
195 ACAAGC
* * * * * *
26287435 GATGCAGTTAGCTTCCTGATGAGACACTGAGAAGAA
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAA
26287471 GGCCAAACCA
Statistics
Matches: 967, Mismatches: 69, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
200 924 0.96
201 43 0.04
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (200 bp):
GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAAT
CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCC
TGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAA
CAAGC
Found at i:26287860 original size:17 final size:16
Alignment explanation
Indices: 26287842--26287881 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
26287832 TTGAATTGAT
26287842 TTTAAATT-TATTTAAA
1 TTTAAATTGT-TTTAAA
26287858 TTTAAACTTGTTTTAAA
1 TTTAAA-TTGTTTTAAA
26287875 TTTAAAT
1 TTTAAAT
26287882 ACATTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.32
17 14 0.64
18 1 0.05
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTAAATTGTTTTAAA
Found at i:26287887 original size:27 final size:27
Alignment explanation
Indices: 26287813--26287907 Score: 77
Period size: 27 Copynumber: 3.5 Consensus size: 27
26287803 TGGATAAAAA
* * *
26287813 TTTTAATTTTAAATTAAGTTT-GAATTG
1 TTTTAAATTTAAA-TAAATTTAGAATAG
** *
26287840 ATTTTAAATTTATTTAAATTTA-AACTTG
1 -TTTTAAATTTAAATAAATTTAGAA-TAG
*
26287868 TTTTAAATTTAAATACATTTAGAATAG
1 TTTTAAATTTAAATAAATTTAGAATAG
*
26287895 TTTTAAACTTAAA
1 TTTTAAATTTAAA
26287908 ATCAAAATTA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
27 40 0.73
28 15 0.27
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (27 bp):
TTTTAAATTTAAATAAATTTAGAATAG
Found at i:26289778 original size:29 final size:29
Alignment explanation
Indices: 26289746--26289883 Score: 165
Period size: 29 Copynumber: 4.8 Consensus size: 29
26289736 TGAACTGTCC
26289746 AAAAATTACATTTTAACCCTAAAACTTCA
1 AAAAATTACATTTTAACCCTAAAACTTCA
*
26289775 AAAAATTACATTTTTACCCTAAAACTTCA
1 AAAAATTACATTTTAACCCTAAAACTTCA
* *
26289804 AAAAATTACATTTTGA-CCTCAAAACTTCC
1 AAAAATTACATTTTAACCCT-AAAACTTCA
**
26289833 AAAAATTACCATTTT-ACCCCCAAACTTTC-
1 AAAAATTA-CATTTTAACCCTAAAAC-TTCA
* *
26289862 CAAAATTCCATTTTAACCCTAA
1 AAAAATTACATTTTAACCCTAA
26289884 TTTCACCAAA
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
28 9 0.09
29 75 0.79
30 11 0.12
ACGTcount: A:0.43, C:0.25, G:0.01, T:0.32
Consensus pattern (29 bp):
AAAAATTACATTTTAACCCTAAAACTTCA
Found at i:26289816 original size:58 final size:58
Alignment explanation
Indices: 26289745--26289969 Score: 203
Period size: 58 Copynumber: 3.8 Consensus size: 58
26289735 CTGAACTGTC
*
26289745 CAAAAATTACATTTTAACCCTAAAACTTCAAAAAATTA-CATTTTTACCCTAAAAC-TT
1 CAAAAATTACATTTTAACCCTAAAACTTCAAAAAATTACCA-TTTTACCCCAAAACTTT
* * *
26289802 CAAAAAATTACATTTTGA-CCTCAAAACTTCCAAAAATTACCATTTTACCCCCAAACTTT
1 C-AAAAATTACATTTTAACCCT-AAAACTTCAAAAAATTACCATTTTACCCCAAAACTTT
* * * * * *
26289861 CCAAAATTCCATTTTAACCCT--AATTTCACCAAAAAATACCATTTTACCCCTAAATTTT
1 CAAAAATTACATTTTAACCCTAAAACTTCA--AAAAATTACCATTTTACCCCAAAACTTT
* * *
26289919 CAAAAATCT-CATTTTTAACCC-CAGATTTCACCAAAAATTACCATTTTACCC
1 CAAAAAT-TACA-TTTTAACCCTAAAACTTCA--AAAAATTACCATTTTACCC
26289970 TTAAATGTTC
Statistics
Matches: 142, Mismatches: 15, Indels: 19
0.81 0.09 0.11
Matches are distributed among these distances:
56 5 0.04
57 4 0.03
58 89 0.63
59 18 0.13
60 26 0.18
ACGTcount: A:0.40, C:0.26, G:0.01, T:0.32
Consensus pattern (58 bp):
CAAAAATTACATTTTAACCCTAAAACTTCAAAAAATTACCATTTTACCCCAAAACTTT
Found at i:26289903 original size:30 final size:30
Alignment explanation
Indices: 26289863--26289970 Score: 100
Period size: 30 Copynumber: 3.6 Consensus size: 30
26289853 CAAACTTTCC
*
26289863 AAAATTCCATTTTAACCCTAATTTCACCAA
1 AAAATACCATTTTAACCCTAATTTCACCAA
* *
26289893 AAAATACCATTTTACCCCTAAATTT--TC-A
1 AAAATACCATTTTAACCCT-AATTTCACCAA
*
26289921 AAAAT-CTCATTTTTAACCCCAGATTTCACCAA
1 AAAATAC-CA-TTTTAACCCTA-ATTTCACCAA
*
26289953 AAATTACCATTTT-ACCCT
1 AAAATACCATTTTAACCCT
26289971 TAAATGTTCC
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
27 1 0.02
28 9 0.15
29 13 0.21
30 21 0.34
31 10 0.16
32 7 0.11
33 1 0.02
ACGTcount: A:0.38, C:0.27, G:0.01, T:0.34
Consensus pattern (30 bp):
AAAATACCATTTTAACCCTAATTTCACCAA
Found at i:26289968 original size:60 final size:60
Alignment explanation
Indices: 26289831--26290033 Score: 256
Period size: 60 Copynumber: 3.4 Consensus size: 60
26289821 CTCAAAACTT
* *
26289831 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAAT-TCCA-TTTTAACCCTA-ATTTCA
1 CCAAAAATTACCATTTTACCCCTAAATTTTCCAAAATCT-CATTTTTAACCCTAGATTTCA
* * *
26289889 CCAAAAAATACCATTTTACCCCTAAATTTTCAAAAATCTCATTTTTAACCCCAGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAATTTTCCAAAATCTCATTTTTAACCCTAGATTTCA
* * *
26289949 CCAAAAATTACCATTTTACCCTTAAATGTTCCAAAATCCCATTTTTAACCCTAGATTATC-
1 CCAAAAATTACCATTTTACCCCTAAATTTTCCAAAATCTCATTTTTAACCCTAGATT-TCA
*
26290009 CC-AAAATTA-CATCTTTGCCCCTAAA
1 CCAAAAATTACCAT-TTTACCCCTAAA
26290034 AGTAAAAAAT
Statistics
Matches: 127, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
58 38 0.30
59 28 0.22
60 59 0.46
61 2 0.02
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (60 bp):
CCAAAAATTACCATTTTACCCCTAAATTTTCCAAAATCTCATTTTTAACCCTAGATTTCA
Found at i:26290013 original size:30 final size:28
Alignment explanation
Indices: 26289754--26290015 Score: 115
Period size: 29 Copynumber: 8.9 Consensus size: 28
26289744 CCAAAAATTA
* **
26289754 CATTTTAACCCTAAAACTTCAAAAAATTA-
1 CATTTTAACCCT-AAATTTCCCAAAA-TAC
* * **
26289783 CATTTTTACCCTAAAACTTCAAAAAATTA-
1 CATTTTAACCCT-AAATTTCCCAAAA-TAC
* * * *
26289812 CATTTTGACCTCAAAACTTCCAAAAATTAC
1 CATTTTAACC-CTAAATTTCCCAAAA-TAC
* * *
26289842 CATTTTACCCCCAAACTTT-CCAAAATTC
1 CATTTTAACCCTAAA-TTTCCCAAAATAC
26289870 CATTTTAACCCT-AATTTCACCAAAAAATAC
1 CATTTTAACCCTAAATTTC-CC--AAAATAC
* * *
26289900 CATTTTACCCCTAAATTTTCAAAAAT-C
1 CATTTTAACCCTAAATTTCCCAAAATAC
* *
26289927 TCATTTTTAACCCCAGATTTCACCAAAAATTAC
1 -CA-TTTTAACCCTAAATTTC-CC-AAAA-TAC
*
26289960 CATTTT-ACCCTTAAATGTT-CCAAAATCC
1 CATTTTAACCC-TAAAT-TTCCCAAAATAC
*
26289988 CATTTTTAACCCTAGATTATCCCAAAAT
1 CA-TTTTAACCCTAAATT-TCCCAAAAT
26290016 TACATCTTTG
Statistics
Matches: 188, Mismatches: 25, Indels: 39
0.75 0.10 0.15
Matches are distributed among these distances:
26 3 0.02
27 3 0.02
28 26 0.14
29 87 0.46
30 47 0.25
31 16 0.09
32 5 0.03
33 1 0.01
ACGTcount: A:0.39, C:0.26, G:0.02, T:0.33
Consensus pattern (28 bp):
CATTTTAACCCTAAATTTCCCAAAATAC
Found at i:26290060 original size:118 final size:118
Alignment explanation
Indices: 26289831--26290043 Score: 274
Period size: 118 Copynumber: 1.8 Consensus size: 118
26289821 CTCAAAACTT
*
26289831 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTAACCCTAATTTCACCAAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTAACCCTAATTTCACCAAAAA
** *
26289896 ATACCATTTTACCCCTAAATTTTCAAAAATCTCATTTTTAACCCCAGATTTCA
66 ATACCATTTTACCCCTAAATAGTAAAAAATCTCATTTTTAACCCCAGATTTCA
**
26289949 CCAAAAATTACCATTTTACCCTTAAA-TGTTCCAAAATCCCATTTTTAACCCTAGATTATC-CC-
1 CCAAAAATTACCATTTTACCCCCAAACT-TTCCAAAATCCCA-TTTTAACCCTA-ATT-TCACCA
* *
26290011 AAAATTA-CATCTTTGCCCCTAAA-AGTAAAAAAT
62 AAAAATACCAT-TTTACCCCTAAATAGTAAAAAAT
26290044 TACCATTTTG
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
117 1 0.01
118 46 0.56
119 28 0.34
120 5 0.06
121 2 0.02
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.32
Consensus pattern (118 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTAACCCTAATTTCACCAAAAA
ATACCATTTTACCCCTAAATAGTAAAAAATCTCATTTTTAACCCCAGATTTCA
Found at i:26291526 original size:65 final size:65
Alignment explanation
Indices: 26291445--26291575 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
26291435 AAGCAATAAT
26291445 ATCCCTTACTGTCCCCAGCCATTTGACCATTCTAATTTCCTTTACTTTTTATTTTCTTCTACATC
1 ATCCCTTACTGTCCCCAGCCATTTGACCATTCTAATTTCCTTTACTTTTTATTTTCTTCTACATC
26291510 ATCCCTTACTGTCCCCAGCCATTTGACCATTCTAATTTCCTTTACTTTTTATTTTCTTCTACATC
1 ATCCCTTACTGTCCCCAGCCATTTGACCATTCTAATTTCCTTTACTTTTTATTTTCTTCTACATC
26291575 A
1 A
26291576 AGGCCAAGGC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.19, C:0.31, G:0.05, T:0.46
Consensus pattern (65 bp):
ATCCCTTACTGTCCCCAGCCATTTGACCATTCTAATTTCCTTTACTTTTTATTTTCTTCTACATC
Found at i:26293087 original size:20 final size:20
Alignment explanation
Indices: 26293048--26293087 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
26293038 TATCATCTAC
* *
26293048 TTTTATTTATTTGTATTTAT
1 TTTTATCTATTTGTAATTAT
*
26293068 TTTTATCTATTTTTAATTAT
1 TTTTATCTATTTGTAATTAT
26293088 AAATTAATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTTATCTATTTGTAATTAT
Found at i:26297617 original size:16 final size:18
Alignment explanation
Indices: 26297578--26297611 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26297568 TAAGTTTATA
26297578 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
26297595 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
26297612 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:26297733 original size:17 final size:17
Alignment explanation
Indices: 26297695--26297731 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
26297685 GTAAGATGAC
*
26297695 TAAATAAAAAATTTTAA
1 TAAATAAAAAATTGTAA
26297712 TAAATAAAAAATTGT-A
1 TAAATAAAAAATTGTAA
26297728 TAAA
1 TAAA
26297732 ATTATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
TAAATAAAAAATTGTAA
Found at i:26300080 original size:21 final size:20
Alignment explanation
Indices: 26300050--26300088 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
26300040 ACTATAAACT
*
26300050 CTAAATCTTAAATCTTGAACC
1 CTAAACCTTAAA-CTTGAACC
26300071 CTAAACCTTAAACTTGAA
1 CTAAACCTTAAACTTGAA
26300089 TCTAAACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (20 bp):
CTAAACCTTAAACTTGAACC
Found at i:26300140 original size:20 final size:20
Alignment explanation
Indices: 26300102--26300141 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
26300092 AAACTCAAAC
*
26300102 CTTAAACCTTGCACATTGAA
1 CTTAAACCTTGAACATTGAA
* *
26300122 CTTAACCCTTGAACCTTGAA
1 CTTAAACCTTGAACATTGAA
26300142 GCCTGAACCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.30
Consensus pattern (20 bp):
CTTAAACCTTGAACATTGAA
Found at i:26302018 original size:20 final size:20
Alignment explanation
Indices: 26301985--26302039 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
26301975 TTTTAAATTC
*
26301985 TAAAATTATTAAAAAA-TCA
1 TAAAATTATAAAAAAAGTCA
*
26302004 TAAAATTTATAAAAAAAAGTTA
1 TAAAA-TTAT-AAAAAAAGTCA
26302026 TAAAAATTATAAAA
1 T-AAAATTATAAAA
26302040 TTATTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 5 0.17
20 4 0.13
21 10 0.33
22 7 0.23
23 4 0.13
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
TAAAATTATAAAAAAAGTCA
Found at i:26302028 original size:22 final size:21
Alignment explanation
Indices: 26301986--26302039 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
26301976 TTTAAATTCT
*
26301986 AAAATTAT-TAAAAAATCATA
1 AAAATTATAAAAAAAATCATA
* *
26302006 AAATTTATAAAAAAAAGTTATA
1 AAAATTATAAAAAAAA-TCATA
26302028 AAAATTATAAAA
1 AAAATTATAAAA
26302040 TTATTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 7 0.25
21 6 0.21
22 15 0.54
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAATTATAAAAAAAATCATA
Found at i:26303450 original size:31 final size:31
Alignment explanation
Indices: 26303391--26303451 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
26303381 ACTTAACAAC
* *
26303391 CAGTGATTTAAATAAATACTTTTGAATAGTT
1 CAGTGACTTAAATAAATACTTTTAAATAGTT
*
26303422 CAGTGACTTAAATGAA-ACTTTTTAAATAGT
1 CAGTGACTTAAATAAATAC-TTTTAAATAGT
26303452 CCATTGATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (31 bp):
CAGTGACTTAAATAAATACTTTTAAATAGTT
Found at i:26304915 original size:31 final size:32
Alignment explanation
Indices: 26304843--26304915 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
26304833 AAACAACAAT
*
26304843 AATTTGACTC-TTTTTAAAAGGTTGATGGTCA
1 AATTTGACTCATTTTTAAAAGGTTGATGGCCA
*
26304874 AATTCGACTCATTTTTAAAA-GTTGA-GTGCCA
1 AATTTGACTCATTTTTAAAAGGTTGATG-GCCA
*
26304905 AATTTAACTCA
1 AATTTGACTCA
26304916 AAAAATAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 1 0.03
31 26 0.72
32 9 0.25
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (32 bp):
AATTTGACTCATTTTTAAAAGGTTGATGGCCA
Found at i:26308399 original size:29 final size:30
Alignment explanation
Indices: 26308338--26308400 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
26308328 ATCATCATTT
*
26308338 AAATAATTTTTAAAATTTTAAAACAATTAA
1 AAATAATTTTTAAAATTTTAAAACAATAAA
*
26308368 AAAT-ATTTTTAAAATTTTTAAA-AATAATA
1 AAATAATTTTTAAAATTTTAAAACAATAA-A
26308397 AAAT
1 AAAT
26308401 TATAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 4 0.13
29 22 0.73
30 4 0.13
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (30 bp):
AAATAATTTTTAAAATTTTAAAACAATAAA
Found at i:26308399 original size:30 final size:30
Alignment explanation
Indices: 26308338--26308399 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
26308328 ATCATCATTT
*
26308338 AAATAATTTTTAAAATTTTAAAACAATTAA
1 AAATAATTTTTAAAATTTTAAAACAAATAA
26308368 AAAT-ATTTTTAAAATTTTTAAAA-ATAATAA
1 AAATAATTTTTAAAA-TTTTAAAACA-AATAA
26308398 AA
1 AA
26308400 TTATAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (30 bp):
AAATAATTTTTAAAATTTTAAAACAAATAA
Found at i:26308414 original size:17 final size:18
Alignment explanation
Indices: 26308377--26308415 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
26308367 AAAATATTTT
* *
26308377 TAAAATTTTTAAAAATAA
1 TAAAATTATAAAAAATAA
26308395 TAAAATTATAAAAAAT-A
1 TAAAATTATAAAAAATAA
26308412 TAAA
1 TAAA
26308416 TATATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATTATAAAAAATAA
Found at i:26326038 original size:22 final size:23
Alignment explanation
Indices: 26325990--26326038 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
26325980 CTTGTACTTT
* * **
26325990 AAAATTTTAAAAATAAAGGGATT
1 AAAATTTTAAAAATAAAAGAAAA
26326013 AAAATTTT-AAAATAAAAGAAAA
1 AAAATTTTAAAAATAAAAGAAAA
26326035 AAAA
1 AAAA
26326039 GATAAAATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.24
Consensus pattern (23 bp):
AAAATTTTAAAAATAAAAGAAAA
Found at i:26328929 original size:21 final size:23
Alignment explanation
Indices: 26328888--26328937 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
26328878 CTAGAAGAAA
26328888 AACAAAATATAAAAGAAAAAA-G
1 AACAAAATATAAAAGAAAAAATG
26328910 AACAAAATATAAAA-AAAAAATG
1 AACAAAATATAAAAGAAAAAATG
26328932 -ACAAAA
1 AACAAAA
26328938 ATACCGACGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.10
Consensus pattern (23 bp):
AACAAAATATAAAAGAAAAAATG
Found at i:26328940 original size:22 final size:22
Alignment explanation
Indices: 26328880--26328937 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
26328870 GATAAAAACT
*
26328880 AGAAGAAA-AACAAAATATAAA
1 AGAAAAAAGAACAAAATATAAA
26328901 AGAAAAAAGAACAAAATATAAA
1 AGAAAAAAGAACAAAATATAAA
26328923 A-AAAAAATG-ACAAAA
1 AGAAAAAA-GAACAAAA
26328938 ATACCGACGA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
21 19 0.56
22 15 0.44
ACGTcount: A:0.78, C:0.05, G:0.09, T:0.09
Consensus pattern (22 bp):
AGAAAAAAGAACAAAATATAAA
Found at i:26337866 original size:317 final size:317
Alignment explanation
Indices: 26337291--26337890 Score: 1130
Period size: 317 Copynumber: 1.9 Consensus size: 317
26337281 ATCCTTTAAA
*
26337291 AAAACACTTTAGATGTACTTTTATTGTTAAAAATATGATATTTCTTTCAAAGTACATAGAAATAA
1 AAAACACTTTAGATGTACTTTTATTGTAAAAAATATGATATTTCTTTCAAAGTACATAGAAATAA
*
26337356 TACTCGAAATTGGTTTTTGAAATTGGAAATTAAATCCAGAATTAAAAAATATAACTTTGAAAAAT
66 TACTCAAAATTGGTTTTTGAAATTGGAAATTAAATCCAGAATTAAAAAATATAACTTTGAAAAAT
26337421 CTAATTGTTCAATCAATAATTTATAAGAAAAATTATGAACATTCAATTTTTCATAAGAAAAAAAA
131 CTAATTGTTCAATCAATAATTTATAAGAAAAATTATGAACATTCAATTTTTCATAAGAAAAAAAA
26337486 TATGAAGTAGTTAATTGGTTTTCCTTTTATTATGAAAAATTCCCAAATTCATTTTTCGATAAAAA
196 TATGAAGTAGTTAATTGGTTTTCCTTTTATTATGAAAAATTCCCAAATTCATTTTTCGATAAAAA
26337551 TACACATAAAATTATAAATAAATCAATAATCATTTTCTTAATTTTTCGACAATGCAC
261 TACACATAAAATTATAAATAAATCAATAATCATTTTCTTAATTTTTCGACAATGCAC
*
26337608 AAAACACTTTAGATGTACTTTTATTGTAAAAAATGTGATATTTCTTTCAAAGTACATAGAAATAA
1 AAAACACTTTAGATGTACTTTTATTGTAAAAAATATGATATTTCTTTCAAAGTACATAGAAATAA
*
26337673 TACAT-AAAATTGGTTTTTGAAATTGGAAATTAAATCCAGAGTTAAAAAATATAACTTTGAAAAA
66 TAC-TCAAAATTGGTTTTTGAAATTGGAAATTAAATCCAGAATTAAAAAATATAACTTTGAAAAA
* *
26337737 TCTAATTGTTCAATCAATAATTTATAAGAATAATTATGAACATTTAATTTTTCATAAGAAAAAAA
130 TCTAATTGTTCAATCAATAATTTATAAGAAAAATTATGAACATTCAATTTTTCATAAGAAAAAAA
26337802 ATATGAAGTAGTTAATTGGTTTTCCTTTTATTATGAAAAATTCCCAAATTCATTTTTCGATAAAA
195 ATATGAAGTAGTTAATTGGTTTTCCTTTTATTATGAAAAATTCCCAAATTCATTTTTCGATAAAA
26337867 ATACACATAAAATTATAAATAAAT
260 ATACACATAAAATTATAAATAAAT
26337891 TTTCATCAAG
Statistics
Matches: 276, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
317 275 1.00
318 1 0.00
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.37
Consensus pattern (317 bp):
AAAACACTTTAGATGTACTTTTATTGTAAAAAATATGATATTTCTTTCAAAGTACATAGAAATAA
TACTCAAAATTGGTTTTTGAAATTGGAAATTAAATCCAGAATTAAAAAATATAACTTTGAAAAAT
CTAATTGTTCAATCAATAATTTATAAGAAAAATTATGAACATTCAATTTTTCATAAGAAAAAAAA
TATGAAGTAGTTAATTGGTTTTCCTTTTATTATGAAAAATTCCCAAATTCATTTTTCGATAAAAA
TACACATAAAATTATAAATAAATCAATAATCATTTTCTTAATTTTTCGACAATGCAC
Found at i:26362181 original size:28 final size:28
Alignment explanation
Indices: 26362113--26362170 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
26362103 TTAATAGATT
*
26362113 AAGATAAATAAAAAATAGAATCATTTTG
1 AAGATAAATAAAAAATAAAATCATTTTG
26362141 AAGATAAATAAAAAATAAAATCATTTTG
1 AAGATAAATAAAAAATAAAATCATTTTG
26362169 AA
1 AA
26362171 TCGATGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.28
Consensus pattern (28 bp):
AAGATAAATAAAAAATAAAATCATTTTG
Found at i:26367665 original size:24 final size:24
Alignment explanation
Indices: 26367610--26367673 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
26367600 GCTGTTGCCT
26367610 TTTTGCCACATCAGCAGTCGTCGC
1 TTTTGCCACATCAGCAGTCGTCGC
* * *
26367634 TCTCGCCACATCAGTAGTCG-CTGC
1 TTTTGCCACATCAGCAGTCGTC-GC
*
26367658 TTTTGCCACGTCAGCA
1 TTTTGCCACATCAGCA
26367674 ACCATCACTC
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
23 1 0.03
24 31 0.97
ACGTcount: A:0.17, C:0.34, G:0.20, T:0.28
Consensus pattern (24 bp):
TTTTGCCACATCAGCAGTCGTCGC
Found at i:26371747 original size:14 final size:14
Alignment explanation
Indices: 26371725--26371767 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
26371715 ATCCTTTACC
*
26371725 TTATGTTTATTTAT
1 TTATTTTTATTTAT
*
26371739 TTATTTTTATTCAT
1 TTATTTTTATTTAT
26371753 TTA-TTTTATTTAT
1 TTATTTTTATTTAT
26371766 TT
1 TT
26371768 CTAGTGTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (14 bp):
TTATTTTTATTTAT
Found at i:26384224 original size:30 final size:30
Alignment explanation
Indices: 26384198--26384423 Score: 224
Period size: 30 Copynumber: 7.5 Consensus size: 30
26384188 TGAAAATAAA
* *
26384198 ATTTTAGAGAAGTTTGAGGGTCAAAATGTG
1 ATTTTGGAAAAGTTTGAGGGTCAAAATGTG
* *
26384228 ATTTTGGAAAAGTTTGGAGGCT-AAAATCTG
1 ATTTTGGAAAAGTTT-GAGGGTCAAAATGTG
* * *
26384258 ATTTTGGAATAGTTTGGGGGTCAAAATATG
1 ATTTTGGAAAAGTTTGAGGGTCAAAATGTG
* *
26384288 ATTTTGGAAAAGTTTGAGGGGTTAAAATGTA
1 ATTTTGGAAAAGTTTGA-GGGTCAAAATGTG
* * *
26384319 ATTTTGGAAAAGTTTG-GAGGTTAAAATATT
1 ATTTTGGAAAAGTTTGAG-GGTCAAAATGTG
* *
26384349 A-TTTGGAAAAGTTTAAGGGTTAAAATGTG
1 ATTTTGGAAAAGTTTGAGGGTCAAAATGTG
* * ** *
26384378 ATTTTAGAAAGGTTCAAGGGTCAAAATGTA
1 ATTTTGGAAAAGTTTGAGGGTCAAAATGTG
*
26384408 ATTTTAGAAAAGTTTG
1 ATTTTGGAAAAGTTTG
26384424 GGGACCTCTT
Statistics
Matches: 164, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
29 29 0.18
30 104 0.63
31 31 0.19
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (30 bp):
ATTTTGGAAAAGTTTGAGGGTCAAAATGTG
Found at i:26384362 original size:90 final size:90
Alignment explanation
Indices: 26384198--26384424 Score: 294
Period size: 90 Copynumber: 2.5 Consensus size: 90
26384188 TGAAAATAAA
* * *
26384198 ATTTTAGAGAAGTTTGAGGGTCAAAATGTGATTTTGGAAAAGTTTGGAGGCTAAAATCTGATTTT
1 ATTTTAGAAAAGTTTGAGGGTCAAAATGTAATTTTGGAAAAGTTTGGAGGCTAAAATATGATTTT
* **
26384263 GGAATAGTTTGGGGGTCAAAATATG
66 GGAAAAGTTTAAGGGTCAAAATATG
* * * *
26384288 ATTTTGGAAAAGTTTGAGGGGTTAAAATGTAATTTTGGAAAAGTTTGGAGGTTAAAATATTA-TT
1 ATTTTAGAAAAGTTTGA-GGGTCAAAATGTAATTTTGGAAAAGTTTGGAGGCTAAAATATGATTT
* *
26384352 TGGAAAAGTTTAAGGGTTAAAATGTG
65 TGGAAAAGTTTAAGGGTCAAAATATG
* ** *
26384378 ATTTTAGAAAGGTTCAAGGGTCAAAATGTAATTTTAGAAAAGTTTGG
1 ATTTTAGAAAAGTTTGAGGGTCAAAATGTAATTTTGGAAAAGTTTGG
26384425 GGACCTCTTA
Statistics
Matches: 118, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
89 28 0.24
90 51 0.43
91 39 0.33
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (90 bp):
ATTTTAGAAAAGTTTGAGGGTCAAAATGTAATTTTGGAAAAGTTTGGAGGCTAAAATATGATTTT
GGAAAAGTTTAAGGGTCAAAATATG
Found at i:26385326 original size:14 final size:14
Alignment explanation
Indices: 26385307--26385353 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
26385297 TTTTAATCTG
*
26385307 TTTTTACATTTTTA
1 TTTTTACTTTTTTA
26385321 TTTTTATCCTTTTTTA
1 TTTTTA--CTTTTTTA
26385337 TTTCTTA-TTTTTTA
1 TTT-TTACTTTTTTA
26385351 TTT
1 TTT
26385354 AAAAGCCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 16 0.55
16 10 0.34
17 3 0.10
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTACTTTTTTA
Found at i:26388256 original size:29 final size:27
Alignment explanation
Indices: 26388223--26388276 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 27
26388213 TGAAATCTGA
26388223 AAAAACA-AAGAAACTAGATTTCTAAAAAT
1 AAAAACACAA-AAACTA-ATTT-TAAAAAT
*
26388252 AAAAATACAAAAACTAATTTTAAAA
1 AAAAACACAAAAACTAATTTTAAAA
26388277 TTTGTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 5 0.22
28 4 0.17
29 12 0.52
30 2 0.09
ACGTcount: A:0.65, C:0.09, G:0.04, T:0.22
Consensus pattern (27 bp):
AAAAACACAAAAACTAATTTTAAAAAT
Done.