Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 9 of 161
Found at i:3011794 original size:20 final size:20
Alignment explanation
Indices: 3011756--3011795 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3011746 AATATTTTCT
* *
3011756 AGTAAATTATTTTATAGAAA
1 AGTAAAATATTTTACAGAAA
*
3011776 AGTAAAATATTTTCCAGAAA
1 AGTAAAATATTTTACAGAAA
3011796 TTATTTTACG
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:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (20 bp):
AGTAAAATATTTTACAGAAA
Found at i:3011810 original size:34 final size:35
Alignment explanation
Indices: 3011744--3011810 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
3011734 CAAACAGCAG
* *
3011744 AAAATATTTTCTAGTAAATTATTTTATAGAAAAGT
1 AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
*
3011779 AAAATATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATTATTTTACAGAAAA
3011811 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
Found at i:3012841 original size:17 final size:17
Alignment explanation
Indices: 3012819--3012851 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3012809 AAACACTGTT
*
3012819 GACAAGTATGTAGACCC
1 GACAAGTATGCAGACCC
3012836 GACAAGTATGCAGACC
1 GACAAGTATGCAGACC
3012852 AAGCTGTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.15
Consensus pattern (17 bp):
GACAAGTATGCAGACCC
Found at i:3014272 original size:13 final size:13
Alignment explanation
Indices: 3014256--3014280 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3014246 AAATATATTT
3014256 TAAAAATAAAAAA
1 TAAAAATAAAAAA
3014269 TAAAAATAAAAA
1 TAAAAATAAAAA
3014281 TATTTTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:3015718 original size:34 final size:36
Alignment explanation
Indices: 3015648--3015722 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 36
3015638 TTATTACCAA
*
3015648 TTTAAGGTTTAGTTAGTATTTTTATCAAAAAAAAAGG
1 TTTAAGGTTTAGTCAGTATTTTTAT-AAAAAAAAAGG
3015685 TTTAAGGTTTAGTCAGTA-TTTTAT-AAAAAAAAGG
1 TTTAAGGTTTAGTCAGTATTTTTATAAAAAAAAAGG
3015719 TTTA
1 TTTA
3015723 GGCAGTAGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
34 14 0.38
36 6 0.16
37 17 0.46
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.41
Consensus pattern (36 bp):
TTTAAGGTTTAGTCAGTATTTTTATAAAAAAAAAGG
Found at i:3015735 original size:3 final size:3
Alignment explanation
Indices: 3015729--3015767 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
3015719 TTTAGGCAGT
*
3015729 AGA AGA AGAA AGA AAA AGA AG- AGA AGA AGA AGA AGA AGA
1 AGA AGA AG-A AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
3015768 GAAAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:3015764 original size:17 final size:18
Alignment explanation
Indices: 3015732--3015770 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
3015722 AGGCAGTAGA
3015732 AGAAGAAAGAAAAAGAAG
1 AGAAGAAAGAAAAAGAAG
*
3015750 AGAAG-AAGAAGAAGAAG
1 AGAAGAAAGAAAAAGAAG
3015767 AGAA
1 AGAA
3015771 AAAAATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
AGAAGAAAGAAAAAGAAG
Found at i:3016512 original size:26 final size:26
Alignment explanation
Indices: 3016476--3016527 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
3016466 CAAATTGTAG
3016476 ATGAAAAATACCAATTGGTTTCTAAC
1 ATGAAAAATACCAATTGGTTTCTAAC
3016502 ATGAAAAATACCAATTGGTTTCTAAC
1 ATGAAAAATACCAATTGGTTTCTAAC
3016528 CCTTAACCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (26 bp):
ATGAAAAATACCAATTGGTTTCTAAC
Found at i:3017526 original size:27 final size:26
Alignment explanation
Indices: 3017467--3017526 Score: 61
Period size: 27 Copynumber: 2.2 Consensus size: 26
3017457 ATTTAAAAAA
*
3017467 ATAAAAAATCATAAAATTTATTAAAT
1 ATAAAAAATCATAAAATTGATTAAAT
3017493 ATGAAAAAAT-A-AAAATTGATATAAACTT
1 AT-AAAAAATCATAAAATTGAT-TAAA--T
3017521 ATAAAA
1 ATAAAA
3017527 TTTATAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 8 0.28
26 7 0.24
27 11 0.38
28 3 0.10
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (26 bp):
ATAAAAAATCATAAAATTGATTAAAT
Found at i:3017557 original size:17 final size:17
Alignment explanation
Indices: 3017470--3017559 Score: 53
Period size: 17 Copynumber: 5.1 Consensus size: 17
3017460 TAAAAAAATA
3017470 AAAAATCATAAAATTTAT
1 AAAAAT-ATAAAATTTAT
* *
3017488 -TAAATATGAAAA--AAT
1 AAAAATAT-AAAATTTAT
*
3017503 AAAAATTGATATAAACTTAT
1 AAAAA-T-ATA-AAATTTAT
*
3017523 -AAAATTTATAAATATTAT
1 AAAAATATA-AAAT-TTAT
3017541 AAAAATATAAAATTTAT
1 AAAAATATAAAATTTAT
3017558 AA
1 AA
3017560 TGAATTATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 19
0.68 0.09 0.23
Matches are distributed among these distances:
15 2 0.04
16 5 0.09
17 22 0.39
18 14 0.25
19 11 0.20
20 2 0.04
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (17 bp):
AAAAATATAAAATTTAT
Found at i:3017568 original size:45 final size:44
Alignment explanation
Indices: 3017477--3017572 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
3017467 ATAAAAAATC
3017477 ATAAAATTTATTAAATATGAAAAAATAAAAATTGATATAAACTT
1 ATAAAATTTATTAAATATGAAAAAATAAAAATTGATATAAACTT
* * *
3017521 ATAAAATTTA-TAAATATTATAAAAATATAAAATTTATAATGAA-TT
1 ATAAAATTTATTAAATATGA-AAAAATA-AAAATTGAT-ATAAACTT
3017566 ATAAAAT
1 ATAAAAT
3017573 CAATAAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
43 8 0.17
44 17 0.37
45 17 0.37
46 4 0.09
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.36
Consensus pattern (44 bp):
ATAAAATTTATTAAATATGAAAAAATAAAAATTGATATAAACTT
Found at i:3017579 original size:45 final size:43
Alignment explanation
Indices: 3017488--3017579 Score: 105
Period size: 45 Copynumber: 2.1 Consensus size: 43
3017478 TAAAATTTAT
**
3017488 TAAATATGAAAAAATAAAAATTGATATAAACTTATAAAATTTA
1 TAAATATGAAAAAATAAAAATTGATATAAACTTATAAAATCAA
* * *
3017531 TAAATATTATAAAAATATAAAATTTATAATGAA-TTATAAAATCAA
1 TAAATATGA-AAAAATA-AAAATTGAT-ATAAACTTATAAAATCAA
3017576 TAAA
1 TAAA
3017580 AAATATTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 8 0.20
44 7 0.17
45 22 0.54
46 4 0.10
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (43 bp):
TAAATATGAAAAAATAAAAATTGATATAAACTTATAAAATCAA
Found at i:3018229 original size:19 final size:18
Alignment explanation
Indices: 3018196--3018256 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
3018186 ATACATTTTT
*
3018196 ATTTTAATTATTTTAAATAG
1 ATTTT-ATTAATTT-AATAG
3018216 ATTTTATTAATTTAATA-
1 ATTTTATTAATTTAATAG
* *
3018233 ATTTTTTATAATTTAGTAG
1 ATTTTAT-TAATTTAATAG
3018252 ATTTT
1 ATTTT
3018257 TTTATATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 6 0.17
18 13 0.36
19 12 0.33
20 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTATTAATTTAATAG
Found at i:3018257 original size:19 final size:18
Alignment explanation
Indices: 3018211--3018265 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
3018201 AATTATTTTA
*
3018211 AATAGATTTTATTAATTT
1 AATAGATTTTTTTAATTT
3018229 AATA-ATTTTTTATAATTT
1 AATAGATTTTTT-TAATTT
*
3018247 AGTAGATTTTTTTATATTT
1 AATAGATTTTTTTA-ATTT
3018266 TTATAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 6 0.19
18 15 0.47
19 11 0.34
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (18 bp):
AATAGATTTTTTTAATTT
Found at i:3019320 original size:19 final size:19
Alignment explanation
Indices: 3019296--3019335 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
3019286 TGAATGAAGT
3019296 TATGCTAAAATTGACTGAG
1 TATGCTAAAATTGACTGAG
*
3019315 TATGCTAAAATTGATTGAG
1 TATGCTAAAATTGACTGAG
3019334 TA
1 TA
3019336 CATGAATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (19 bp):
TATGCTAAAATTGACTGAG
Found at i:3019669 original size:27 final size:27
Alignment explanation
Indices: 3019631--3019688 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
3019621 TTCCATGACA
* * **
3019631 TACTTTGAATGGATCGCCTTTGTGGCG
1 TACTCTGAATGGATCACCTTAATGGCG
*
3019658 TACTCTGAATGGTTCACCTTAATGGCG
1 TACTCTGAATGGATCACCTTAATGGCG
3019685 TACT
1 TACT
3019689 TTGTATGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (27 bp):
TACTCTGAATGGATCACCTTAATGGCG
Found at i:3029578 original size:39 final size:40
Alignment explanation
Indices: 3029504--3029587 Score: 125
Period size: 39 Copynumber: 2.0 Consensus size: 40
3029494 TGTGTGAGGA
3029504 AAAGCGTGGGAAGCATTAATTAGTCTTTTCATAAACGCAAAGT
1 AAAGCGTGGGAAGC---AATTAGTCTTTTCATAAACGCAAAGT
*
3029547 AAAGCGTGGGAAGC-ATTAGTCTTTTCCTAAACGCAAAGT
1 AAAGCGTGGGAAGCAATTAGTCTTTTCATAAACGCAAAGT
3029586 AA
1 AA
3029588 TCCACCCACT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
39 26 0.65
43 14 0.35
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.26
Consensus pattern (40 bp):
AAAGCGTGGGAAGCAATTAGTCTTTTCATAAACGCAAAGT
Found at i:3030690 original size:12 final size:12
Alignment explanation
Indices: 3030673--3030697 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3030663 GGTGTTCATT
3030673 CGGTTAACCGAC
1 CGGTTAACCGAC
3030685 CGGTTAACCGAC
1 CGGTTAACCGAC
3030697 C
1 C
3030698 TAAAATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:3030853 original size:9 final size:9
Alignment explanation
Indices: 3030831--3030915 Score: 98
Period size: 9 Copynumber: 9.4 Consensus size: 9
3030821 TTTGGTTAAA
*
3030831 AATTAACCG
1 AATTACCCG
* *
3030840 CATTACCTG
1 AATTACCCG
*
3030849 AATTACCCA
1 AATTACCCG
*
3030858 AATTACTCG
1 AATTACCCG
3030867 AATTACCCG
1 AATTACCCG
*
3030876 AATTAACCG
1 AATTACCCG
*
3030885 AATTACTCG
1 AATTACCCG
3030894 AATTACCCG
1 AATTACCCG
*
3030903 AATTAACCG
1 AATTACCCG
3030912 AATT
1 AATT
3030916 GAATCACTAC
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 62 1.00
ACGTcount: A:0.38, C:0.26, G:0.09, T:0.27
Consensus pattern (9 bp):
AATTACCCG
Found at i:3030871 original size:27 final size:27
Alignment explanation
Indices: 3030841--3030915 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
3030831 AATTAACCGC
* *
3030841 ATTACCTGAATTACCCAAATTACTCGA
1 ATTACCCGAATTAACCAAATTACTCGA
*
3030868 ATTACCCGAATTAACCGAATTACTCGA
1 ATTACCCGAATTAACCAAATTACTCGA
*
3030895 ATTACCCGAATTAACCGAATT
1 ATTACCCGAATTAACCAAATT
3030916 GAATCACTAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.37, C:0.25, G:0.09, T:0.28
Consensus pattern (27 bp):
ATTACCCGAATTAACCAAATTACTCGA
Found at i:3030987 original size:20 final size:20
Alignment explanation
Indices: 3030958--3031001 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
3030948 TTAGATTTAG
3030958 TTTTAGTTTTA-GTATTAGAA
1 TTTTAGTTTTATGTATTA-AA
* *
3030978 TTTTATTTTTATTTATTAAA
1 TTTTAGTTTTATGTATTAAA
3030998 TTTT
1 TTTT
3031002 TTGGAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (20 bp):
TTTTAGTTTTATGTATTAAA
Found at i:3031059 original size:94 final size:94
Alignment explanation
Indices: 3030911--3031103 Score: 341
Period size: 94 Copynumber: 2.1 Consensus size: 94
3030901 CGAATTAACC
*
3030911 GAATTGAATCACTACATAATTAAATTATTTTTAGACTTTAGATTTAGTTTTAGTTTTAGTATTAG
1 GAATTGAATCACTACATAATTAAATTATTTTTAGACTTTAGATTTAGTGTTAGTTTTAGTATTAG
3030976 AATTTTATTTTTATTTATTAAATTTTTTG
66 AATTTTATTTTTATTTATTAAATTTTTTG
* * *
3031005 GAATTGAATCACTACATAATTAAATTCTTTTTAGACTTTAGTTTTAGTGTTAGTTTTAGTTTTAG
1 GAATTGAATCACTACATAATTAAATTATTTTTAGACTTTAGATTTAGTGTTAGTTTTAGTATTAG
3031070 AATTTTATTTTTATTTATTAAATTTTTTG
66 AATTTTATTTTTATTTATTAAATTTTTTG
*
3031099 TAATT
1 GAATT
3031104 TTTATGATTG
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.55
Consensus pattern (94 bp):
GAATTGAATCACTACATAATTAAATTATTTTTAGACTTTAGATTTAGTGTTAGTTTTAGTATTAG
AATTTTATTTTTATTTATTAAATTTTTTG
Found at i:3032613 original size:31 final size:29
Alignment explanation
Indices: 3032546--3032615 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
3032536 ACCTCAGATT
*
3032546 ACATTTTAGTCACTTATATTTGAAATGTT
1 ACATTTTAGTCACTTATATTTGAAATGTA
* *
3032575 ACATTTTAGTCACTT-TCATTATCGTATTGTA
1 ACATTTTAGTCACTTAT-ATT-T-GAAATGTA
3032606 ACATTTTAGT
1 ACATTTTAGT
3032616 TACTGAGCCG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.03
29 18 0.51
30 1 0.03
31 15 0.43
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.49
Consensus pattern (29 bp):
ACATTTTAGTCACTTATATTTGAAATGTA
Found at i:3032854 original size:203 final size:203
Alignment explanation
Indices: 3032608--3033223 Score: 1160
Period size: 203 Copynumber: 3.0 Consensus size: 203
3032598 GTATTGTAAC
*
3032608 ATTTTAGTTACTGAGCCGTTAATTGCCGTTAACAGTATAACAGTAAGCTGACGTGGCATGTTAAA
1 ATTTTAGTCACTGAGCCGTTAATTGCCGTTAACAGTATAACAGTAAGCTGACGTGGCATGTTAAA
3032673 TCATCATTTTAAATGAAAATTTTAGATTAAATTATACAATTGATCCCTATATTTTTTTCGTTTTG
66 TCATCATTTTAAATGAAAATTTTAGATTAAATTATACAATTGATCCCTATATTTTTTTCGTTTTG
*
3032738 AGCAATTTAATTTTTTCTTTTATGTTTTTCAACTTTTTTTTCTTATTTTGCATTCTCTTTTGTTT
131 AGCAATTTAATTTTTTCTTTTATGTTTTTCAACTTTTTTTTCTTATTTTCCATTCTCTTTTGTTT
3032803 CTCCCTCT
196 CTCCCTCT
*
3032811 ATTTGAGTCACTGAGCCGTTAATTGCCGTTAACAGTATAACAGTAAGCTGACGTGGCATGTTAAA
1 ATTTTAGTCACTGAGCCGTTAATTGCCGTTAACAGTATAACAGTAAGCTGACGTGGCATGTTAAA
3032876 TCATCATTTTAAATGAAAATTTTAGATTAAATTATACAATTGATCCCTATATTTTTTTCGTTTTG
66 TCATCATTTTAAATGAAAATTTTAGATTAAATTATACAATTGATCCCTATATTTTTTTCGTTTTG
3032941 AGCAATTTAATTTTTTCTTTTATGTTTTTCAACTTTTTTTTCTTATTTTCCATTCTCTTTTGTTT
131 AGCAATTTAATTTTTTCTTTTATGTTTTTCAACTTTTTTTTCTTATTTTCCATTCTCTTTTGTTT
3033006 CTCCCTCT
196 CTCCCTCT
*
3033014 ATTTTAGTCACTGAGCCGTTAATTGCCGTTAACAGTATAACGGTAAGCTGACGTGGCATGTTAAA
1 ATTTTAGTCACTGAGCCGTTAATTGCCGTTAACAGTATAACAGTAAGCTGACGTGGCATGTTAAA
3033079 TCATCATTTTAAATGAAAATTTTAGATTAAATTATACAATTGATCCCTATATTTTTTTCGTTTTG
66 TCATCATTTTAAATGAAAATTTTAGATTAAATTATACAATTGATCCCTATATTTTTTTCGTTTTG
* *
3033144 AGCAATTTAATTTTTTCTTTTATGTTTTTTAACTTTTTTTTTTCTTATTCTCCATTCTCTTTTGT
131 AGCAATTTAATTTTTTCTTTTATGTTTTTCAAC--TTTTTTTTCTTATTTTCCATTCTCTTTTGT
3033209 TTCTCCCTCT
194 TTCTCCCTCT
3033219 ATTTT
1 ATTTT
3033224 CCTCCCTTTT
Statistics
Matches: 404, Mismatches: 7, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
203 360 0.89
205 44 0.11
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (203 bp):
ATTTTAGTCACTGAGCCGTTAATTGCCGTTAACAGTATAACAGTAAGCTGACGTGGCATGTTAAA
TCATCATTTTAAATGAAAATTTTAGATTAAATTATACAATTGATCCCTATATTTTTTTCGTTTTG
AGCAATTTAATTTTTTCTTTTATGTTTTTCAACTTTTTTTTCTTATTTTCCATTCTCTTTTGTTT
CTCCCTCT
Found at i:3039709 original size:20 final size:20
Alignment explanation
Indices: 3039672--3039710 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3039662 AATGACTTGG
*
3039672 AAAATTTTAATTTCGAGACC
1 AAAATTTTAAATTCGAGACC
3039692 AAAATTTTTAAATT-GAGAC
1 AAAA-TTTTAAATTCGAGAC
3039711 GTTTCGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (20 bp):
AAAATTTTAAATTCGAGACC
Found at i:3043317 original size:40 final size:41
Alignment explanation
Indices: 3043133--3043317 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 41
3043123 GCTACTCGTT
* *
3043133 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* * *
3043173 CAATTGCCTTCGGGACTTAACCCAGAT-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
*
3043213 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* * * *
3043252 CAAATGCCTTC-GGATCTTGGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTAGTAAC-TCGCA
3043293 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
3043318 CATCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 74 0.61
41 14 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
Found at i:3048709 original size:27 final size:27
Alignment explanation
Indices: 3048670--3048734 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
3048660 ATATAGAGTA
*
3048670 CGCCACCAAGGCATTCCATTCAGAATT
1 CGCCACAAAGGCATTCCATTCAGAATT
* * *
3048697 TGCCACAAAGGCATTCCTTTCAGAGTT
1 CGCCACAAAGGCATTCCATTCAGAATT
*
3048724 CGCTACAAAGG
1 CGCCACAAAGG
3048735 TTATTCTTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (27 bp):
CGCCACAAAGGCATTCCATTCAGAATT
Found at i:3054192 original size:14 final size:14
Alignment explanation
Indices: 3054170--3054208 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
3054160 ATAACAGTGA
3054170 TAATAATAATAAAT
1 TAATAATAATAAAT
* *
3054184 TAATTATAATAGAT
1 TAATAATAATAAAT
3054198 TAATAATAATA
1 TAATAATAATA
3054209 TTACTGAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
TAATAATAATAAAT
Found at i:3067059 original size:36 final size:36
Alignment explanation
Indices: 3067010--3067078 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
3067000 TTCTTTCTTC
* *
3067010 TTGATTTTTCAGCTCCTGTCCAGCAGCCAAACATTT
1 TTGATTTTCCAGCTCCTGTCCAACAGCCAAACATTT
3067046 TTGATTTTCCAGCTCCTGTCCAACAGCCAAACA
1 TTGATTTTCCAGCTCCTGTCCAACAGCCAAACA
3067079 CTCAGTCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (36 bp):
TTGATTTTCCAGCTCCTGTCCAACAGCCAAACATTT
Found at i:3077222 original size:11 final size:13
Alignment explanation
Indices: 3077206--3077237 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
3077196 ATTTCAATGA
3077206 AAAATTTCG-T-G
1 AAAATTTCGTTCG
3077217 AAAATTTCGTTCG
1 AAAATTTCGTTCG
3077230 AAAATTTC
1 AAAATTTC
3077238 AACGTTTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.47
12 1 0.05
13 9 0.47
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (13 bp):
AAAATTTCGTTCG
Found at i:3078493 original size:51 final size:50
Alignment explanation
Indices: 3078434--3078777 Score: 365
Period size: 51 Copynumber: 6.8 Consensus size: 50
3078424 TATCGATGAA
* * *
3078434 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-GTTGGT
* ** * *
3078485 CACATGTGTAGTACTAAACT-AAGGCTACTATGTGTACCGA-AAAGCTTTGGT
1 CACGTGTGTAGTACT-ATGTGAAGGCTACTACGTGTATCGATAAAG--TTGGT
* * * *
3078536 CACGTGTGTAGTACTATGTGAAGGCTACTACATGAATCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAT-AAAGTTGGT
* * *
3078586 CACGTGTGTAATACTATGTGAAGGCTACTACGTGTACCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-GTTGGT
* * * *
3078637 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAG--TTGGT
* * * *
3078688 CACGTGTGTAGTACTATGTGAAGGCTACTACATGAATCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAT-AAAGTTGGT
3078738 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
3078778 ATGATAAAAG
Statistics
Matches: 241, Mismatches: 39, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
49 2 0.01
50 91 0.38
51 141 0.59
52 7 0.03
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAGTTGGT
Found at i:3078639 original size:101 final size:100
Alignment explanation
Indices: 3078434--3078776 Score: 379
Period size: 101 Copynumber: 3.4 Consensus size: 100
3078424 TATCGATGAA
* *** *
3078434 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAAACTTGGTCACGTGTGTAGTAC
** *
3078499 TAAACT-AAGGCTACTATGTGTACCGA-AAAGCTTTGGT
65 T-ATGTGAAGGCTACTACGTGTACCGATAAAG--TTGGT
* * *
3078536 CACGTGTGTAGTACTATGTGAAGGCTACTACATGAATCGTAAAACTTGATCACGTGTGTAATACT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAACTTGGTCACGTGTGTAGTACT
*
3078601 ATGTGAAGGCTACTACGTGTACCGATAAATGATGGT
66 ATGTGAAGGCTACTACGTGTACCGATAAA-GTTGGT
* * * * *
3078637 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGTCACGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAA-C-TTGGTCACGTGTGTAGTA
* * * * *
3078701 CTATGTGAAGGCTACTACATGAATCG-TAAAACTTGAT
64 CTATGTGAAGGCTACTACGTGTACCGAT-AAAGTTGGT
*
3078738 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG
3078777 AATGATAAAA
Statistics
Matches: 205, Mismatches: 30, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
100 6 0.03
101 116 0.57
102 82 0.40
103 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (100 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAACTTGGTCACGTGTGTAGTACT
ATGTGAAGGCTACTACGTGTACCGATAAAGTTGGT
Found at i:3078670 original size:26 final size:26
Alignment explanation
Indices: 3078590--3078672 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
3078580 CTTGATCACG
* *
3078590 TGTGTAATACTATGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
* * *
3078616 CGTGTACCG-A-TAAATGATGG-TCAC-A
1 TGTGTA--GTACTAAGTGAAGGCT-ACTA
3078641 TGTGTAGTACTAAGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
3078667 TGTGTA
1 TGTGTA
3078673 CCGAAAAGCT
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 17 0.40
26 22 0.52
27 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGAAGGCTACTA
Found at i:3078810 original size:152 final size:152
Alignment explanation
Indices: 3078434--3078777 Score: 627
Period size: 152 Copynumber: 2.3 Consensus size: 152
3078424 TATCGATGAA
* *
3078434 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATGATGGTCACATGTGTAGTAC
*
3078499 TAAACT-AAGGCTACTATGTGTACCGAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTA
66 T-AAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTA
3078563 CTACATGAATCGTAAAACTTGAT
130 CTACATGAATCGTAAAACTTGAT
* *
3078586 CACGTGTGTAATACTATGTGAAGGCTACTACGTGTACCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATGATGGTCACATGTGTAGTAC
3078651 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTAC
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTAC
3078716 TACATGAATCGTAAAACTTGAT
131 TACATGAATCGTAAAACTTGAT
3078738 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
3078778 ATGATAAAAG
Statistics
Matches: 184, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
151 3 0.02
152 181 0.98
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (152 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTAC
TACATGAATCGTAAAACTTGAT
Found at i:3083936 original size:55 final size:55
Alignment explanation
Indices: 3083852--3083966 Score: 203
Period size: 55 Copynumber: 2.1 Consensus size: 55
3083842 AATTATCTAC
* *
3083852 AAATATGATTGTGTGTATTGTGATGTATGCATGAATATGTATGTATTGACTTTGT
1 AAATATGATTGTGTGTATTGTGATGTATGCATGAATATATATGTATTGACTCTGT
*
3083907 AAATATGATTGTGTGTATTGTGATGTATGCTTGAATATATATGTATTGACTCTGT
1 AAATATGATTGTGTGTATTGTGATGTATGCATGAATATATATGTATTGACTCTGT
3083962 AAATA
1 AAATA
3083967 AACTATTGAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (55 bp):
AAATATGATTGTGTGTATTGTGATGTATGCATGAATATATATGTATTGACTCTGT
Found at i:3085410 original size:50 final size:50
Alignment explanation
Indices: 3085352--3085488 Score: 166
Period size: 50 Copynumber: 2.7 Consensus size: 50
3085342 TATTGAGGTT
* * *
3085352 ATGAGAGGTCCCACGTAAGACCATATCTATGACATGGAATTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGTGACATGGAATGGGCACCGAG
* * * * * *
3085402 ATGAGAGGTCCCCCATAAGACCATGTCTGGGACATAGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGTGACATGGAATGGGCACCGAG
** *
3085452 ATGAGAACTCCCATGTAAGACCATGTCTGTGACATGG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGTGACATGG
3085489 CTTTGGCATG
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGTGACATGGAATGGGCACCGAG
Found at i:3085722 original size:20 final size:20
Alignment explanation
Indices: 3085697--3085746 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
3085687 ATGAGTTATT
3085697 TAAGTAAGCAAGTAAGTAAA
1 TAAGTAAGCAAGTAAGTAAA
3085717 TAAGTAAG-AGAGTAAGTAAA
1 TAAGTAAGCA-AGTAAGTAAA
*
3085737 AAAG-AAGCAA
1 TAAGTAAGCAA
3085747 ATACCGTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.58, C:0.04, G:0.22, T:0.16
Consensus pattern (20 bp):
TAAGTAAGCAAGTAAGTAAA
Found at i:3088558 original size:36 final size:36
Alignment explanation
Indices: 3088513--3088583 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
3088503 GTAAAGCACC
3088513 TCAGTCAGAATAGATCCGAAAGGCTGCTAAACTGAG
1 TCAGTCAGAATAGATCCGAAAGGCTGCTAAACTGAG
* *
3088549 TCAGTCAGAATAGATCCGAAAGGCTGTTGAACTGA
1 TCAGTCAGAATAGATCCGAAAGGCTGCTAAACTGA
3088584 ATAGAGTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.21
Consensus pattern (36 bp):
TCAGTCAGAATAGATCCGAAAGGCTGCTAAACTGAG
Found at i:3093682 original size:20 final size:20
Alignment explanation
Indices: 3093657--3093698 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
3093647 TATGTCGAGG
* *
3093657 TTGGAGCTGAATGAGGTGAC
1 TTGGAGCTAAATGAGGTAAC
3093677 TTGGAGCTAAATGAGGTAAC
1 TTGGAGCTAAATGAGGTAAC
3093697 TT
1 TT
3093699 CTTCACTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.33, T:0.29
Consensus pattern (20 bp):
TTGGAGCTAAATGAGGTAAC
Found at i:3096408 original size:25 final size:25
Alignment explanation
Indices: 3096380--3096427 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
3096370 TTTAAAGGGG
*
3096380 GTAAGGCATTTCGCATGAATTTTTA
1 GTAAGGCATTTCGCATAAATTTTTA
3096405 GTAAGGCATTTCGCATAAATTTT
1 GTAAGGCATTTCGCATAAATTTT
3096428 AAAGTATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (25 bp):
GTAAGGCATTTCGCATAAATTTTTA
Found at i:3100156 original size:7 final size:6
Alignment explanation
Indices: 3100140--3100181 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
3100130 TCACATATTT
*
3100140 AAAAAG AAAAAG AAAAAG AAAAAG AATAAAG AGCAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA-AAAG A-AAAAG AAAA
3100182 GTTTAATCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.69
7 10 0.31
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:3107883 original size:51 final size:50
Alignment explanation
Indices: 3107752--3107939 Score: 189
Period size: 51 Copynumber: 3.7 Consensus size: 50
3107742 TATCATTCGA
* * * * * *
3107752 TACACGTATTAGACTTCACATAGTACTACACACGTGATCAAACTTTCTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACCTTCCGG
* * * *
3107802 TTCATGTAGTAGGCTACACATAGTACTACACACGTGACCAAAGCCTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA-CCTTCCGG
* * * * *
3107853 TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATC-TCTCGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-AACCTTC-CGG
* *
3107904 TACACGTAGTAGCCTGCACTTAGTATTACACACGTG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTG
3107940 GTTATAGGCA
Statistics
Matches: 114, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
50 38 0.33
51 75 0.66
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACCTTCCGG
Found at i:3108778 original size:44 final size:44
Alignment explanation
Indices: 3108715--3108801 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
3108705 GGTAATTTTT
3108715 CAAATTTCAACCCTAGCTCAAAATAACAGTAGAAATAGATAAAC
1 CAAATTTCAACCCTAGCTCAAAATAACAGTAGAAATAGATAAAC
*
3108759 CAAATTTCAACCCTAGCTCAAAATAACATTAGAAATAGATAAA
1 CAAATTTCAACCCTAGCTCAAAATAACAGTAGAAATAGATAAA
3108802 TCGAGCTACG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.51, C:0.20, G:0.08, T:0.22
Consensus pattern (44 bp):
CAAATTTCAACCCTAGCTCAAAATAACAGTAGAAATAGATAAAC
Found at i:3122118 original size:19 final size:19
Alignment explanation
Indices: 3122049--3122175 Score: 94
Period size: 19 Copynumber: 6.7 Consensus size: 19
3122039 ACATACTAGA
* *
3122049 ACATAAAGTGCATGCTAGC
1 ACATAAAGTGCATACTGGC
* *
3122068 ACA-AATAGTGCACACGGGC
1 ACATAA-AGTGCATACTGGC
* *
3122087 ACAGAATGTGCATACTGGC
1 ACATAAAGTGCATACTGGC
* *
3122106 ACATAAAGTGCATATTGAC
1 ACATAAAGTGCATACTGGC
* ** *
3122125 ACACATTGTGTATACTGGC
1 ACATAAAGTGCATACTGGC
* *
3122144 ACATATAGTGCATATTGGC
1 ACATAAAGTGCATACTGGC
* *
3122163 ACACATAGTGCAT
1 ACATAAAGTGCAT
3122176 CATCGGATAA
Statistics
Matches: 84, Mismatches: 22, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
18 2 0.02
19 80 0.95
20 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (19 bp):
ACATAAAGTGCATACTGGC
Found at i:3122140 original size:38 final size:38
Alignment explanation
Indices: 3122093--3122175 Score: 130
Period size: 38 Copynumber: 2.2 Consensus size: 38
3122083 GGGCACAGAA
3122093 TGTGCATACTGGCACATAAAGTGCATATTGACACACAT
1 TGTGCATACTGGCACATAAAGTGCATATTGACACACAT
* * *
3122131 TGTGTATACTGGCACATATAGTGCATATTGGCACACAT
1 TGTGCATACTGGCACATAAAGTGCATATTGACACACAT
*
3122169 AGTGCAT
1 TGTGCAT
3122176 CATCGGATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (38 bp):
TGTGCATACTGGCACATAAAGTGCATATTGACACACAT
Found at i:3144012 original size:20 final size:20
Alignment explanation
Indices: 3143987--3144052 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
3143977 ATCAGGAAGC
*
3143987 TTTGGTAACTTGTCTGCAAT
1 TTTGGTAACTTGTCTACAAT
**
3144007 TTTGGTGGCTTGTCTACAAT
1 TTTGGTAACTTGTCTACAAT
** * *
3144027 ACTGGCAATTTGTCTACAAT
1 TTTGGTAACTTGTCTACAAT
*
3144047 TCTGGT
1 TTTGGT
3144053 GGCTTGTTGA
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (20 bp):
TTTGGTAACTTGTCTACAAT
Found at i:3144059 original size:20 final size:20
Alignment explanation
Indices: 3143995--3144059 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
3143985 GCTTTGGTAA
* *
3143995 CTTGTCTGCAATTTTGGTGG
1 CTTGTCTACAATTCTGGTGG
* ***
3144015 CTTGTCTACAATACTGGCAA
1 CTTGTCTACAATTCTGGTGG
*
3144035 TTTGTCTACAATTCTGGTGG
1 CTTGTCTACAATTCTGGTGG
3144055 CTTGT
1 CTTGT
3144060 TGATCTACCA
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (20 bp):
CTTGTCTACAATTCTGGTGG
Found at i:3148243 original size:27 final size:26
Alignment explanation
Indices: 3148199--3148335 Score: 123
Period size: 27 Copynumber: 5.1 Consensus size: 26
3148189 AACACGTTAG
* * *
3148199 GAAAGAAACTCCTTTGTGATAAACTTT
1 GAAAGAAA-ACCTTTGTGGTGAACTTT
*
3148226 GAAAGAAAACCTTCTGTGGCGAACTTT
1 GAAAGAAAACCTT-TGTGGTGAACTTT
* *
3148253 GAAAGAAAGCCTTTGTGGTGAACTCT
1 GAAAGAAAACCTTTGTGGTGAACTTT
*
3148279 AAAAGAAAACCCTTT-TCGGTGAACTTT
1 GAAAGAAAA-CCTTTGT-GGTGAACTTT
* * * *
3148306 CAAAAAAAACCCTTTGTGGCGAACTCT
1 GAAAGAAAA-CCTTTGTGGTGAACTTT
3148333 GAA
1 GAA
3148336 TGGACTATCC
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
26 23 0.25
27 67 0.74
28 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (26 bp):
GAAAGAAAACCTTTGTGGTGAACTTT
Found at i:3156774 original size:264 final size:264
Alignment explanation
Indices: 3156304--3156841 Score: 1040
Period size: 264 Copynumber: 2.0 Consensus size: 264
3156294 CAGGTAGAAG
3156304 GTGTTAAAACTGCTTAAATTGATATTTTTATGTGTTTATGCAAAAAAACTCAGTTTTTAAATAAA
1 GTGTTAAAACTGCTTAAATTGATATTTTTATGTGTTTATGCAAAAAAACTCAGTTTTTAAATAAA
3156369 ATCTATCAACATCACACTTTTTCACTTCAATATTGAAAAACAAGTTTTTAATAAAATCCAAATTA
66 ATCTATCAACATCACACTTTTTCACTTCAATATTGAAAAACAAGTTTTTAATAAAATCCAAATTA
* *
3156434 GTTTTGAATAATGATTACATTTTTACAAATGAAATACTAAATCTATTAATTTCTAAAATTATCAT
131 ATTTTGAATAATGATTACATTTTTACAAATGAAATACTAAATCTATCAATTTCTAAAATTATCAT
3156499 GTTTTTGAGAAATTAAGATTAACATTCGATTTTACTTATTTTGAATAGATAAACCAATGTTTTTA
196 GTTTTTGAGAAATTAAGATTAACATTCGATTTTACTTATTTTGAATAGATAAACCAATGTTTTTA
3156564 AAAT
261 AAAT
3156568 GTGTTAAAACTGCTTAAATTGATATTTTTATGTGTTTATGCAAAAAAACTCAGTTTTTAAATAAA
1 GTGTTAAAACTGCTTAAATTGATATTTTTATGTGTTTATGCAAAAAAACTCAGTTTTTAAATAAA
*
3156633 ATCTGTCAACATCACACTTTTTCACTTCAATATTGAAAAACAAGTTTTTAATAAAATCCAAATTA
66 ATCTATCAACATCACACTTTTTCACTTCAATATTGAAAAACAAGTTTTTAATAAAATCCAAATTA
3156698 ATTTTGAATAATGATTACATTTTTACAAATGAAATACTAAATCTATCAATTTCTAAAATTATCAT
131 ATTTTGAATAATGATTACATTTTTACAAATGAAATACTAAATCTATCAATTTCTAAAATTATCAT
3156763 GTTTTTGAGAAATTAAGATTAACATTCGATTTTACTTATTTTGAATAGATAAACCAATGTTTTTA
196 GTTTTTGAGAAATTAAGATTAACATTCGATTTTACTTATTTTGAATAGATAAACCAATGTTTTTA
3156828 AAAT
261 AAAT
3156832 GTGTTCAAAA
1 GTGTT-AAAA
3156842 TTATGAAATT
Statistics
Matches: 270, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
264 266 0.99
265 4 0.01
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.41
Consensus pattern (264 bp):
GTGTTAAAACTGCTTAAATTGATATTTTTATGTGTTTATGCAAAAAAACTCAGTTTTTAAATAAA
ATCTATCAACATCACACTTTTTCACTTCAATATTGAAAAACAAGTTTTTAATAAAATCCAAATTA
ATTTTGAATAATGATTACATTTTTACAAATGAAATACTAAATCTATCAATTTCTAAAATTATCAT
GTTTTTGAGAAATTAAGATTAACATTCGATTTTACTTATTTTGAATAGATAAACCAATGTTTTTA
AAAT
Found at i:3158136 original size:29 final size:29
Alignment explanation
Indices: 3158094--3158186 Score: 125
Period size: 29 Copynumber: 3.2 Consensus size: 29
3158084 ATGGAGGAGT
3158094 TCAAGTATCCACCAAGTAAATTTCGCAAG
1 TCAAGTATCCACCAAGTAAATTTCGCAAG
3158123 TCAAGTATCCACCAAGTAAAGTTT-GCAAG
1 TCAAGTATCCACCAAGTAAA-TTTCGCAAG
** * * *
3158152 TCAAGTATCTGCCAAGTAAAGTTCCCAAA
1 TCAAGTATCCACCAAGTAAATTTCGCAAG
3158181 TCAAGT
1 TCAAGT
3158187 GTTCGCCAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 2 0.04
29 52 0.91
30 3 0.05
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (29 bp):
TCAAGTATCCACCAAGTAAATTTCGCAAG
Found at i:3158144 original size:16 final size:16
Alignment explanation
Indices: 3158096--3158144 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
3158086 GGAGGAGTTC
3158096 AAGTATCCACCAAGTA
1 AAGTATCCACCAAGTA
* * *
3158112 AA-T-TTC-GCAAGTC
1 AAGTATCCACCAAGTA
3158125 AAGTATCCACCAAGTA
1 AAGTATCCACCAAGTA
3158141 AAGT
1 AAGT
3158145 TTGCAAGTCA
Statistics
Matches: 24, Mismatches: 6, Indels: 6
0.67 0.17 0.17
Matches are distributed among these distances:
13 7 0.29
14 3 0.12
15 3 0.12
16 11 0.46
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.22
Consensus pattern (16 bp):
AAGTATCCACCAAGTA
Found at i:3158173 original size:16 final size:16
Alignment explanation
Indices: 3158119--3158173 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
3158109 GTAAATTTCG
* **
3158119 CAAGTCAAGTATCCAC
1 CAAGTAAAGTATCTGC
3158135 CAAGTAAAGT-T-TG-
1 CAAGTAAAGTATCTGC
*
3158148 CAAGTCAAGTATCTGC
1 CAAGTAAAGTATCTGC
3158164 CAAGTAAAGT
1 CAAGTAAAGT
3158174 TCCCAAATCA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
13 9 0.29
14 1 0.03
15 3 0.10
16 18 0.58
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (16 bp):
CAAGTAAAGTATCTGC
Found at i:3185103 original size:30 final size:28
Alignment explanation
Indices: 3185060--3185149 Score: 110
Period size: 30 Copynumber: 3.2 Consensus size: 28
3185050 CAGTAGTAGT
*
3185060 ACAGTGTGGGCCTTAGCCCATTACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
3185088 ACAGTGTGTGTGCCTTAGCACAATACAGT-
1 ACAGTGTG-G-GCCTTAGCCCAATACAGTA
* * *
3185117 ACAGTGTGGACCTTAGACCAATAAAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
3185145 ACAGT
1 ACAGT
3185150 ACAATGCAGT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
27 14 0.26
28 14 0.26
29 9 0.17
30 16 0.30
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:3185529 original size:27 final size:26
Alignment explanation
Indices: 3185506--3185813 Score: 267
Period size: 27 Copynumber: 11.4 Consensus size: 26
3185496 AGTGGTATAA
*
3185506 TAGTCATTTTACCCTTTTGGGGTATT
1 TAGTCATTTTACCCTTTGGGGGTATT
* * *
3185532 TCGATTATTTTACCCTTCGGGGGTATTT
1 TAG-TCATTTTACCCTTTGGGGGTA-TT
*
3185560 TAGTCATTTTAACCTTTGGGGGTATT
1 TAGTCATTTTACCCTTTGGGGGTATT
***
3185586 TCAGTCATTTTACCCTTCAAGGGTATTT
1 T-AGTCATTTTACCCTTTGGGGGTA-TT
** *
3185614 TAGTCATTTTA-CCTTTCAAGGTTATTT
1 TAGTCATTTTACCCTTT-GGGGGTA-TT
*
3185641 TAGTCATTTTACCCTTTGAGGGTATT
1 TAGTCATTTTACCCTTTGGGGGTATT
* * *
3185667 TCGATCATTTTACCCTTCGAGGGTATTT
1 TAG-TCATTTTACCCTTTGGGGGTA-TT
*
3185695 TAGTCATTTTACCCTTTGAGGGTATT
1 TAGTCATTTTACCCTTTGGGGGTATT
* *
3185721 TTGATCATTTTACCATTTGGGGGTATT
1 TAG-TCATTTTACCCTTTGGGGGTATT
* * * *
3185748 TCGATCATTTTAACCTTCGAGGGTATT
1 TAG-TCATTTTACCCTTTGGGGGTATT
* * *
3185775 TCAATCATTTTACCCTTCGGGGTTATT
1 T-AGTCATTTTACCCTTTGGGGGTATT
*
3185802 TCGGTCATTTTA
1 T-AGTCATTTTA
3185814 GGCCCATTAC
Statistics
Matches: 237, Mismatches: 35, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
26 17 0.07
27 204 0.86
28 16 0.07
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.46
Consensus pattern (26 bp):
TAGTCATTTTACCCTTTGGGGGTATT
Found at i:3185565 original size:54 final size:55
Alignment explanation
Indices: 3185506--3185813 Score: 332
Period size: 54 Copynumber: 5.7 Consensus size: 55
3185496 AGTGGTATAA
* * *
3185506 TAGTCATTTTACCCTTTTGGGGTATTTCGA-TTATTTTACCCTTCGGGGGTATTT
1 TAGTCATTTTACCCTTTCGGGGTATTTCGAGTCATTTTACCCTTCGAGGGTATTT
* * *
3185560 TAGTCATTTTAACCTTTGGGGGTATTTC-AGTCATTTTACCCTTCAAGGGTATTT
1 TAGTCATTTTACCCTTTCGGGGTATTTCGAGTCATTTTACCCTTCGAGGGTATTT
* * * *
3185614 TAGTCATTTTA-CCTTTCAAGGTTATTT-TAGTCATTTTACCCTTTGAGGGTA-TT
1 TAGTCATTTTACCCTTTC-GGGGTATTTCGAGTCATTTTACCCTTCGAGGGTATTT
* * *
3185667 TCGATCATTTTACCC-TTCGAGGGTATTT-TAGTCATTTTACCCTTTGAGGGTATTT
1 TAG-TCATTTTACCCTTTCG-GGGTATTTCGAGTCATTTTACCCTTCGAGGGTATTT
* * *
3185722 T-GATCATTTTACCATTTGGGGGTATTTCGA-TCATTTTAACCTTCGAGGGTATTT
1 TAG-TCATTTTACCCTTTCGGGGTATTTCGAGTCATTTTACCCTTCGAGGGTATTT
* *
3185776 CAATCATTTTACCC-TTCGGGGTTATTTCG-GTCATTTTA
1 TAGTCATTTTACCCTTTCGGGG-TATTTCGAGTCATTTTA
3185814 GGCCCATTAC
Statistics
Matches: 220, Mismatches: 22, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
53 16 0.07
54 195 0.89
55 9 0.04
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.46
Consensus pattern (55 bp):
TAGTCATTTTACCCTTTCGGGGTATTTCGAGTCATTTTACCCTTCGAGGGTATTT
Found at i:3185640 original size:81 final size:81
Alignment explanation
Indices: 3185538--3185813 Score: 353
Period size: 81 Copynumber: 3.4 Consensus size: 81
3185528 TATTTCGATT
* * *
3185538 ATTTTACCCTTCGGGGGTATTTTAGTCATTTTAACCTTTGGGGGTATTTC-AGTCATTTTACCCT
1 ATTTTACCTTTCGAGGTTATTTTAGTCATTTTAACCTTTGGGGGTATTTCGA-TCATTTTACCCT
*
3185602 TCAAGGGTATTTTAGTC
65 TCGAGGGTATTTTAGTC
* * *
3185619 ATTTTACCTTTCAAGGTTATTTTAGTCATTTTACCCTTTGAGGGTATTTCGATCATTTTACCCTT
1 ATTTTACCTTTCGAGGTTATTTTAGTCATTTTAACCTTTGGGGGTATTTCGATCATTTTACCCTT
3185684 CGAGGGTATTTTAGTC
66 CGAGGGTATTTTAGTC
* *
3185700 ATTTTACCCTTT-GAGGGTATTTT-GATCATTTT-ACCATTTGGGGGTATTTCGATCATTTTAAC
1 ATTTTA-CCTTTCGAGGTTATTTTAG-TCATTTTAACC-TTTGGGGGTATTTCGATCATTTTACC
* *
3185762 CTTCGAGGGTATTTCAATC
63 CTTCGAGGGTATTTTAGTC
* * **
3185781 ATTTTACCCTTCGGGGTTATTTCGGTCATTTTA
1 ATTTTACCTTTCGAGGTTATTTTAGTCATTTTA
3185814 GGCCCATTAC
Statistics
Matches: 170, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
80 7 0.04
81 156 0.92
82 7 0.04
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.46
Consensus pattern (81 bp):
ATTTTACCTTTCGAGGTTATTTTAGTCATTTTAACCTTTGGGGGTATTTCGATCATTTTACCCTT
CGAGGGTATTTTAGTC
Found at i:3191800 original size:26 final size:27
Alignment explanation
Indices: 3191765--3191830 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 27
3191755 TTTGGTGAAC
* *
3191765 CCCCCAGTTCACCGAAGTACTGG-AAA
1 CCCCTAGTTCACCGAAGTACAGGCAAA
* * *
3191791 CCCTTAGTTCACAGAAGTACAGGCGAA
1 CCCCTAGTTCACCGAAGTACAGGCAAA
3191818 CCCCTAGTTCACC
1 CCCCTAGTTCACC
3191831 AAAACACTGG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 19 0.59
27 13 0.41
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.18
Consensus pattern (27 bp):
CCCCTAGTTCACCGAAGTACAGGCAAA
Found at i:3207309 original size:27 final size:27
Alignment explanation
Indices: 3207279--3207456 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
3207269 ATATTGAGTC
* * * *
3207279 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
3207306 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
3207333 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
3207361 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
3207388 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
3207415 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
3207442 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
3207457 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:3207418 original size:82 final size:81
Alignment explanation
Indices: 3207300--3207455 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
3207290 TGCTATATAA
* *
3207300 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
3207365 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
3207382 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
3207446 CACTTAGTGC
65 CACTTAGTGC
3207456 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:3209365 original size:51 final size:51
Alignment explanation
Indices: 3209304--3209414 Score: 136
Period size: 51 Copynumber: 2.2 Consensus size: 51
3209294 TTGGGCTGTC
*
3209304 ACACACGTGACCA-AAGCCT-TCCGGTACACATAGTAGCCTGCACATAGTACT
1 ACACACGTGACCATAA-CCTAT-CGATACACATAGTAGCCTGCACATAGTACT
* * * * *
3209355 ACACATGTGACCATTATCTATCGATACACGTAGTAGCCTGCACCTAGTACT
1 ACACACGTGACCATAACCTATCGATACACATAGTAGCCTGCACATAGTACT
3209406 ACACACGTG
1 ACACACGTG
3209415 TTTATAGGCA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
51 49 0.96
52 2 0.04
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (51 bp):
ACACACGTGACCATAACCTATCGATACACATAGTAGCCTGCACATAGTACT
Found at i:3212393 original size:29 final size:29
Alignment explanation
Indices: 3212354--3212431 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
3212344 CTTAATAATC
3212354 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCC-TGTACATTTA
*
3212384 AACTCGCACACTTAGTG-CTGTACATTTTA
1 AACCCGCACACTTAGTGCCTGTACA-TTTA
3212413 AACCCGCACACTTAGTGCC
1 AACCCGCACACTTAGTGCC
3212432 GAAAACCAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCTGTACATTTA
Found at i:3216878 original size:69 final size:70
Alignment explanation
Indices: 3216746--3216878 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 70
3216736 TAGTTTATTA
* * * * * *
3216746 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCGAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
3216811 CTTAG
66 CTTAG
3216816 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
3216879 GTTATGTACT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 34 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:3218346 original size:47 final size:47
Alignment explanation
Indices: 3218265--3218816 Score: 741
Period size: 47 Copynumber: 11.6 Consensus size: 47
3218255 TATTTGAATA
* *
3218265 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
3218314 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
3218361 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
3218408 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
3218455 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
3218502 AATATGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
3218549 AATATGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
3218596 AATATGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
3218643 AATGTGAAAGTATATATATGCGTGATAAGGTCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATG
* *
3218692 AATGTGAAAGTATATATATGCGTGATAAGGTCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATG
* *
3218741 AATGTGAAAGTATATATATGCGTGATAAGGTCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATG
* * *
3218790 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
3218817 TCCCGAAGGG
Statistics
Matches: 483, Mismatches: 16, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 329 0.68
48 1 0.00
49 152 0.31
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:3235682 original size:26 final size:26
Alignment explanation
Indices: 3235653--3235704 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
3235643 ATATAATTTC
3235653 CAAATCATGTATC-TATATATCATGTA
1 CAAATCAT-TATCATATATATCATGTA
* *
3235679 CAAATCATTTTCATATATCTCATGTA
1 CAAATCATTATCATATATATCATGTA
3235705 AATACCTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (26 bp):
CAAATCATTATCATATATATCATGTA
Found at i:3235914 original size:25 final size:25
Alignment explanation
Indices: 3235886--3235959 Score: 112
Period size: 25 Copynumber: 3.0 Consensus size: 25
3235876 CCGAGTTGAA
*
3235886 TAATGGTAAGCTTGTATGAGCTGAG
1 TAATGGTAAGCTTATATGAGCTGAG
3235911 TAATGGTAAGCTTATATGAGCTGAG
1 TAATGGTAAGCTTATATGAGCTGAG
* * *
3235936 CAATGGTAAGCTCATAAGAGCTGA
1 TAATGGTAAGCTTATATGAGCTGA
3235960 AACTGATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.28
Consensus pattern (25 bp):
TAATGGTAAGCTTATATGAGCTGAG
Found at i:3238398 original size:18 final size:18
Alignment explanation
Indices: 3238375--3238411 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
3238365 CCGATGATGG
3238375 CTAAATTCCTCTAATCCT
1 CTAAATTCCTCTAATCCT
3238393 CTAAATTCCTCTAATCCT
1 CTAAATTCCTCTAATCCT
3238411 C
1 C
3238412 ACTCAACTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.35, G:0.00, T:0.38
Consensus pattern (18 bp):
CTAAATTCCTCTAATCCT
Found at i:3238402 original size:10 final size:10
Alignment explanation
Indices: 3238375--3238406 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
3238365 CCGATGATGG
3238375 CTAAATTCCT
1 CTAAATTCCT
3238385 CT-AA-TCCT
1 CTAAATTCCT
3238393 CTAAATTCCT
1 CTAAATTCCT
3238403 CTAA
1 CTAA
3238407 TCCTCACTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 6 0.30
9 4 0.20
10 10 0.50
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (10 bp):
CTAAATTCCT
Found at i:3244079 original size:8 final size:8
Alignment explanation
Indices: 3244059--3244089 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
3244049 TTTATCCTAG
3244059 AAAATTAAT
1 AAAATT-AT
3244068 AAAATTAT
1 AAAATTAT
3244076 AAAATTAT
1 AAAATTAT
3244084 AAAATT
1 AAAATT
3244090 CACCCCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 16 0.73
9 6 0.27
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAAATTAT
Found at i:3244192 original size:17 final size:17
Alignment explanation
Indices: 3244152--3244186 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3244142 CAGTACTAAT
* *
3244152 TCACATTTCCATCGTCA
1 TCACCTTTCCATCATCA
3244169 TCACCTTTCCATCATCA
1 TCACCTTTCCATCATCA
3244186 T
1 T
3244187 TTCCTTATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.37, G:0.03, T:0.37
Consensus pattern (17 bp):
TCACCTTTCCATCATCA
Found at i:3245707 original size:31 final size:31
Alignment explanation
Indices: 3245671--3245753 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 31
3245661 GTAGTCTTGT
** * *
3245671 GTGTGAAAAATTGGCAATGAGGAGTCTTTAG
1 GTGTGAAAAATCAGCAATGAAGAGCCTTTAG
*
3245702 GTGTGAACAATCAGCAATGAAGAGCCTTTAG
1 GTGTGAAAAATCAGCAATGAAGAGCCTTTAG
*
3245733 GTGTGAACAATCAGCAATGAA
1 GTGTGAAAAATCAGCAATGAA
3245754 AAGTAAAGCA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (31 bp):
GTGTGAAAAATCAGCAATGAAGAGCCTTTAG
Found at i:3247136 original size:6 final size:6
Alignment explanation
Indices: 3247118--3247147 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
3247108 GCAAATGGAT
3247118 CATTTC TCATTTC CATTTC CATTTC CATTT
1 CATTTC -CATTTC CATTTC CATTTC CATTT
3247148 TTATTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (6 bp):
CATTTC
Found at i:3251709 original size:40 final size:40
Alignment explanation
Indices: 3251664--3251762 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
3251654 ATTGCAGACC
* ** *
3251664 GAAGTGCAAATAAAGGCATGAATGTGCT-ATCAGAGCCACT
1 GAAGTGCAAATAGAGGCACAAATGTG-TGATCAAAGCCACT
* *
3251704 GAAGTGCAAACAGAGGCACAAATGTGTGATCAAAGGCACT
1 GAAGTGCAAATAGAGGCACAAATGTGTGATCAAAGCCACT
*
3251744 GAAGTACAAATAGAGGCAC
1 GAAGTGCAAATAGAGGCAC
3251763 CGAAGTGAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
39 1 0.02
40 49 0.98
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.16
Consensus pattern (40 bp):
GAAGTGCAAATAGAGGCACAAATGTGTGATCAAAGCCACT
Found at i:3252736 original size:16 final size:17
Alignment explanation
Indices: 3252711--3252743 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3252701 AGATGATGAC
*
3252711 ATTATTGTTTT-ATTTA
1 ATTATAGTTTTAATTTA
3252727 ATTATAGTTTTAATTTA
1 ATTATAGTTTTAATTTA
3252744 TAAATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
ATTATAGTTTTAATTTA
Found at i:3256052 original size:64 final size:64
Alignment explanation
Indices: 3255970--3256097 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
3255960 TCTTCTTCAA
*
3255970 GTAAAGCTACCTTTCACATTGATGGTGCAAGGGCTATTTCCATGTCTCTTACTCCGCGCAACCC
1 GTAAAGCTACCTTTCACATTGATGGTGCAAGGGCTATTTCCAAGTCTCTTACTCCGCGCAACCC
*
3256034 GTAAAGCTACCTTTCACATTGATGGTGCAAGGGCTATTTCCAAGTCTCTTACTCCGCTCAACCC
1 GTAAAGCTACCTTTCACATTGATGGTGCAAGGGCTATTTCCAAGTCTCTTACTCCGCGCAACCC
3256098 AAATTCAAAC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (64 bp):
GTAAAGCTACCTTTCACATTGATGGTGCAAGGGCTATTTCCAAGTCTCTTACTCCGCGCAACCC
Found at i:3264004 original size:27 final size:25
Alignment explanation
Indices: 3263974--3264062 Score: 88
Period size: 26 Copynumber: 3.4 Consensus size: 25
3263964 CGCCATGAAG
* *
3263974 GCTTCCATTTCATATATTGTCACAAAA
1 GCTTCCATTTCAGATA-T-CCACAAAA
* * *
3264001 GCTTTCATTTCAGATACACCACAAAG
1 GCTTCCATTTCAGATA-TCCACAAAA
*
3264027 GCTTCCATTTCAGATACTCCACAAAT
1 GCTTCCATTTCAGATA-TCCACAAAA
3264053 GCTTCCATTT
1 GCTTCCATTT
3264063 TCTGACATGT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 39 0.74
27 14 0.26
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (25 bp):
GCTTCCATTTCAGATATCCACAAAA
Found at i:3264030 original size:26 final size:26
Alignment explanation
Indices: 3263994--3264062 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
3263984 CATATATTGT
*
3263994 CACAAAAGCTTTCATTTCAGATACAC
1 CACAAAAGCTTCCATTTCAGATACAC
* *
3264020 CACAAAGGCTTCCATTTCAGATACTC
1 CACAAAAGCTTCCATTTCAGATACAC
*
3264046 CACAAATGCTTCCATTT
1 CACAAAAGCTTCCATTT
3264063 TCTGACATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.33, C:0.29, G:0.09, T:0.29
Consensus pattern (26 bp):
CACAAAAGCTTCCATTTCAGATACAC
Found at i:3267038 original size:29 final size:29
Alignment explanation
Indices: 3267005--3267062 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
3266995 TGAATTTTTT
3267005 TTTGTTCAAATTAGGCCCTGAACTTGGCA
1 TTTGTTCAAATTAGGCCCTGAACTTGGCA
*
3267034 TTTGTTCAAATTAGGTCCTGAACTTGGCA
1 TTTGTTCAAATTAGGCCCTGAACTTGGCA
3267063 ATTATTCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (29 bp):
TTTGTTCAAATTAGGCCCTGAACTTGGCA
Found at i:3267748 original size:15 final size:16
Alignment explanation
Indices: 3267728--3267757 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3267718 TAAATAAAAT
3267728 AAAATTT-TAATTTTA
1 AAAATTTCTAATTTTA
3267743 AAAATTTCTAATTTT
1 AAAATTTCTAATTTT
3267758 TTCATTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
AAAATTTCTAATTTTA
Found at i:3267982 original size:20 final size:21
Alignment explanation
Indices: 3267945--3267984 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
3267935 ATTATTAGAA
* *
3267945 AATTTAAAAATTTTAAAAATC
1 AATTTAAAAAGTTCAAAAATC
3267966 AATTT-AAAAGTTCAAAAAT
1 AATTTAAAAAGTTCAAAAAT
3267985 TTACAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (21 bp):
AATTTAAAAAGTTCAAAAATC
Found at i:3269884 original size:15 final size:16
Alignment explanation
Indices: 3269864--3269896 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
3269854 TAATACAAAT
3269864 TTAAAAACTAAAA-AA
1 TTAAAAACTAAAATAA
*
3269879 TTAAAAATTAAAATAA
1 TTAAAAACTAAAATAA
3269895 TT
1 TT
3269897 TTTTTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAAAAACTAAAATAA
Found at i:3270329 original size:30 final size:30
Alignment explanation
Indices: 3270295--3270366 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
3270285 TTTCAAAATT
**
3270295 AATTTTAATTT-AGTGTAGTTATACACATAA
1 AATTTTAATTTGA-TGTAAATATACACATAA
*
3270325 AATTTTAATTGTGATGTAAATATATACATAA
1 AATTTTAATT-TGATGTAAATATACACATAA
*
3270356 AACTTTAATTT
1 AATTTTAATTT
3270367 CGATTTAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 11 0.31
31 24 0.67
32 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (30 bp):
AATTTTAATTTGATGTAAATATACACATAA
Found at i:3270551 original size:29 final size:30
Alignment explanation
Indices: 3270508--3270566 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
3270498 AAATTGGATC
* *
3270508 AAATCAAATTTTCATGTATAAAATTACACA
1 AAATCAAATATTCATATATAAAATTACACA
* *
3270538 AAATCAAA-ATTCATATATACAATTGCACA
1 AAATCAAATATTCATATATAAAATTACACA
3270567 TTAAACTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (30 bp):
AAATCAAATATTCATATATAAAATTACACA
Found at i:3272873 original size:139 final size:140
Alignment explanation
Indices: 3272542--3272891 Score: 427
Period size: 142 Copynumber: 2.5 Consensus size: 140
3272532 ATATTGTTTC
* * *
3272542 AAGCTTGAAGCAACATAAAATAAAAAAATACAAATGTGAGTAGTAGAGGAATTGAACTTGAGACT
1 AAGCTTGAAGCAACATGAAATAAAAAAATACAAATGTGAGTAGGAGAGAAATTGAACTTGAGACT
* * * * * *
3272607 -AAGGATGTAATTGCAGCTATATAACCATCCAACGAAAGGACTAATATGTTAAAAACGTAATTAA
66 CAAGGATGTAATTACAACTATATAACCATCCAACGAAAGAACTAACATATTAAAAAAGTAATTAA
3272671 AATTTAAAAAAAA
131 AATTT---AAAAA
* * *
3272684 AAACTTGAAGCAACATGAAATAAAAAAATACAAATGTGAATAGGAAAGAAATTGAACTTGAGACT
1 AAGCTTGAAGCAACATGAAATAAAAAAATACAAATGTGAGTAGGAGAGAAATTGAACTTGAGACT
* * * * * *
3272749 CAATGATGTATTTACAACTATCTAACCATCTAACTAAAGAACTAACATATTAAAAAAATTAATTA
66 CAAGGATGTAATTACAACTATATAACCATCCAACGAAAGAACTAACATATT-AAAAAAGTAATTA
*
3272814 AAATTT-GAAA
130 AAATTTAAAAA
* * * **
3272824 AAGCCTGAAGTAACATGAAAT-AAAAAATACAAATGTGAGTAGGAGAGAAATCGAACCCGAGACT
1 AAGCTTGAAGCAACATGAAATAAAAAAATACAAATGTGAGTAGGAGAGAAATTGAACTTGAGACT
3272888 CAAG
66 CAAG
3272892 AATAAAAGAA
Statistics
Matches: 178, Mismatches: 28, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
139 41 0.23
140 21 0.12
142 59 0.33
143 40 0.22
144 17 0.10
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.23
Consensus pattern (140 bp):
AAGCTTGAAGCAACATGAAATAAAAAAATACAAATGTGAGTAGGAGAGAAATTGAACTTGAGACT
CAAGGATGTAATTACAACTATATAACCATCCAACGAAAGAACTAACATATTAAAAAAGTAATTAA
AATTTAAAAA
Found at i:3282055 original size:19 final size:19
Alignment explanation
Indices: 3282031--3282075 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
3282021 ATGCTACGGG
3282031 CGTGTGGAAAGGCCTAAGC
1 CGTGTGGAAAGGCCTAAGC
*
3282050 CGTGTGGAAAGGCCTAGGC
1 CGTGTGGAAAGGCCTAAGC
3282069 CGTGTGG
1 CGTGTGG
3282076 GGGTCAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.42, T:0.18
Consensus pattern (19 bp):
CGTGTGGAAAGGCCTAAGC
Found at i:3296883 original size:40 final size:40
Alignment explanation
Indices: 3296824--3297315 Score: 582
Period size: 40 Copynumber: 12.3 Consensus size: 40
3296814 CATTTGAATG
*
3296824 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
3296864 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATT
* *
3296904 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
3296944 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATT
* *
3296984 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
3297024 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATT
* *
3297064 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
3297104 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATT
* *
3297144 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
3297184 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATT
* *
3297224 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
3297264 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
3297304 ATATCC-GGCTAA
1 ATATCCGGGCTAA
3297316 ATTCCGAAGA
Statistics
Matches: 376, Mismatches: 66, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
39 16 0.04
40 350 0.93
41 10 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:3296961 original size:80 final size:80
Alignment explanation
Indices: 3296828--3297295 Score: 918
Period size: 80 Copynumber: 5.8 Consensus size: 80
3296818 TGAATGATAT
* *
3296828 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
3296893 TGCGAGTTGCTATAC
66 TGCGAGTTGCTATAC
3296908 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
3296973 TGCGAGTTGCTATAC
66 TGCGAGTTGCTATAC
3296988 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
3297053 TGCGAGTTGCTATAC
66 TGCGAGTTGCTATAC
3297068 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
3297133 TGCGAGTTGCTATAC
66 TGCGAGTTGCTATAC
3297148 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
3297213 TGCGAGTTGCTATAC
66 TGCGAGTTGCTATAC
3297228 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
3297293 TGC
66 TGC
3297296 TTGTGGTTAT
Statistics
Matches: 386, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 386 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGCTATAC
Found at i:3303271 original size:30 final size:30
Alignment explanation
Indices: 3303235--3303497 Score: 133
Period size: 30 Copynumber: 8.8 Consensus size: 30
3303225 GTCACCATCT
*
3303235 CTTTTCATAGTTCGATAGCCGAAGCTATTC
1 CTTTTCATAGTTCGATAGCCGAAGCTATCC
* * * * * * *
3303265 CTTTTCATATTTTGATGGTCGTCA-CCATCT
1 CTTTTCATAGTTCGATAGCCG-AAGCTATCC
* * ** * *
3303295 CTTTTCATA-TTTGATGGTTGTCA-CCATCC
1 CTTTTCATAGTTCGATAGCCG-AAGCTATCC
* *
3303324 CTTTTTATAGTTTGATAGCCGAAGCTATCC
1 CTTTTCATAGTTCGATAGCCGAAGCTATCC
* * *** *
3303354 CTTTTCATAGTTCAATGGTCTTCA-CCATCC
1 CTTTTCATAGTTCGATAG-CCGAAGCTATCC
* * *
3303384 CTTTTCATAGTT-GATGGTCGTCA-CTATCC
1 CTTTTCATAGTTCGATAGCCG-AAGCTATCC
* * * *
3303413 TTTTTCATAATTTGATAGTCGAAGCTATCC
1 CTTTTCATAGTTCGATAGCCGAAGCTATCC
* * *
3303443 CTTTTCATAATTCAATAGCCAAAGCTATCC
1 CTTTTCATAGTTCGATAGCCGAAGCTATCC
* * *
3303473 CTTTTCATAATTCGACATCCGAAGC
1 CTTTTCATAGTTCGATAGCCGAAGC
3303498 CATACTTTTT
Statistics
Matches: 184, Mismatches: 42, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
29 49 0.27
30 132 0.72
31 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (30 bp):
CTTTTCATAGTTCGATAGCCGAAGCTATCC
Found at i:3303317 original size:29 final size:30
Alignment explanation
Indices: 3303218--3303451 Score: 190
Period size: 30 Copynumber: 7.9 Consensus size: 30
3303208 GTAAAATCAC
* *
3303218 GATGGTCGTCACCATCTCTTTTCATAGTTC
1 GATGGTCGTCACCATCCCTTTTCATAGTTT
* * * * * *
3303248 GATAGCCG-AAGCTATTCCTTTTCATATTTT
1 GATGGTCGTCA-CCATCCCTTTTCATAGTTT
*
3303278 GATGGTCGTCACCATCTCTTTTCATA-TTT
1 GATGGTCGTCACCATCCCTTTTCATAGTTT
* *
3303307 GATGGTTGTCACCATCCCTTTTTATAGTTT
1 GATGGTCGTCACCATCCCTTTTCATAGTTT
* * * * *
3303337 GATAGCCG-AAGCTATCCCTTTTCATAGTTC
1 GATGGTCGTCA-CCATCCCTTTTCATAGTTT
* *
3303367 AATGGTCTTCACCATCCCTTTTCATAG-TT
1 GATGGTCGTCACCATCCCTTTTCATAGTTT
* * *
3303396 GATGGTCGTCACTATCCTTTTTCATAATTT
1 GATGGTCGTCACCATCCCTTTTCATAGTTT
* * *
3303426 GATAGTCG-AAGCTATCCCTTTTCATA
1 GATGGTCGTCA-CCATCCCTTTTCATA
3303452 ATTCAATAGC
Statistics
Matches: 158, Mismatches: 39, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
29 52 0.33
30 104 0.66
31 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (30 bp):
GATGGTCGTCACCATCCCTTTTCATAGTTT
Found at i:3303360 original size:59 final size:59
Alignment explanation
Indices: 3303295--3303481 Score: 166
Period size: 59 Copynumber: 3.2 Consensus size: 59
3303285 GTCACCATCT
*
3303295 CTTTTCATATTTGATGGTTGTCACCATCCCTTTTTATAGTTTGATAGCCGAAGCTATCC
1 CTTTTCATATTTGATGGTTGTCACCATCCCTTTTCATAGTTTGATAGCCGAAGCTATCC
** * * *
3303354 CTTTTCATAGTTCAATGGTCT-TCACCATCCCTTTTCATAG-TTGATGGTCGTCA-CTATCC
1 CTTTTCATA-TTTGATGGT-TGTCACCATCCCTTTTCATAGTTTGATAGCCG-AAGCTATCC
* * * * * * ** *
3303413 TTTTTCATAATTTGATAGTCG-AAGCTATCCCTTTTCATAATTCAATAGCCAAAGCTATCC
1 CTTTTCAT-ATTTGATGGTTGTCA-CCATCCCTTTTCATAGTTTGATAGCCGAAGCTATCC
3303473 CTTTTCATA
1 CTTTTCATA
3303482 ATTCGACATC
Statistics
Matches: 99, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
58 1 0.01
59 52 0.53
60 45 0.45
61 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.41
Consensus pattern (59 bp):
CTTTTCATATTTGATGGTTGTCACCATCCCTTTTCATAGTTTGATAGCCGAAGCTATCC
Found at i:3303372 original size:89 final size:89
Alignment explanation
Indices: 3303218--3303458 Score: 331
Period size: 89 Copynumber: 2.7 Consensus size: 89
3303208 GTAAAATCAC
* * * * * **
3303218 GATGGTCGTCACCATCTCTTTTCATAGTTCGATAGCCGAAGCTATTCCTTTTCATATTTTGATGG
1 GATGGTCGTCACCATCCCTTTTTATAGTTTGATAGCCGAAGCTATCCCTTTTCATAATTCAATGG
* *
3303283 TCGTCACCATCTCTTTTCATATTT
66 TCGTCACCATCCCTTTTCATAGTT
* *
3303307 GATGGTTGTCACCATCCCTTTTTATAGTTTGATAGCCGAAGCTATCCCTTTTCATAGTTCAATGG
1 GATGGTCGTCACCATCCCTTTTTATAGTTTGATAGCCGAAGCTATCCCTTTTCATAATTCAATGG
*
3303372 TCTTCACCATCCCTTTTCATAGTT
66 TCGTCACCATCCCTTTTCATAGTT
* * *
3303396 GATGGTCGTCACTAT-CCTTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATAATTCAAT
1 GATGGTCGTCACCATCCCTTTTT-ATAGTTTGATAGCCGAAGCTATCCCTTTTCATAATTCAAT
3303459 AGCCAAAGCT
Statistics
Matches: 135, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
88 7 0.05
89 128 0.95
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (89 bp):
GATGGTCGTCACCATCCCTTTTTATAGTTTGATAGCCGAAGCTATCCCTTTTCATAATTCAATGG
TCGTCACCATCCCTTTTCATAGTT
Found at i:3303508 original size:119 final size:119
Alignment explanation
Indices: 3303235--3303510 Score: 272
Period size: 119 Copynumber: 2.3 Consensus size: 119
3303225 GTCACCATCT
* * * * *
3303235 CTTTTCATAGTTCGATAGCCGAAGCTATTCCTTTTCATATTTTGATGGTCGTCACCATCTCTTTT
1 CTTTTCATAGTTCGACATCCGAAGCCATACCTTTTCATATGTTGATGGTCGTCACCATCTCTTTT
* * * * * ** *
3303300 CATATTTGATGGTTGTCACCATCCCTTTTTATAGTTTGATAGCCGAAGCTATCC
66 CATATTTGATAGTCGTAACCATCCCTTTTCATAATTCAATAGCCAAAGCTATCC
* ** *** * *
3303354 CTTTTCATAGTTCAATGGTCTTCA-CCATCCCTTTTCATA-GTTGATGGTCGTCACTATC-CTTT
1 CTTTTCATAGTTCGA-CATCCGAAGCCATACCTTTTCATATGTTGATGGTCGTCACCATCTC-TT
*
3303416 TTCATAATTTGATAGTCG-AAGCTATCCCTTTTCATAATTCAATAGCCAAAGCTATCC
64 TTCAT-ATTTGATAGTCGTAA-CCATCCCTTTTCATAATTCAATAGCCAAAGCTATCC
* *
3303473 CTTTTCATAATTCGACATCCGAAGCCATACTTTTTCAT
1 CTTTTCATAGTTCGACATCCGAAGCCATACCTTTTCAT
3303511 TGGTCGATGA
Statistics
Matches: 123, Mismatches: 29, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
117 1 0.01
118 28 0.23
119 92 0.75
120 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.41
Consensus pattern (119 bp):
CTTTTCATAGTTCGACATCCGAAGCCATACCTTTTCATATGTTGATGGTCGTCACCATCTCTTTT
CATATTTGATAGTCGTAACCATCCCTTTTCATAATTCAATAGCCAAAGCTATCC
Found at i:3307353 original size:6 final size:6
Alignment explanation
Indices: 3307342--3307370 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
3307332 ACCCAACCCA
3307342 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
3307371 AAATTATACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:3307809 original size:23 final size:23
Alignment explanation
Indices: 3307701--3307984 Score: 179
Period size: 23 Copynumber: 12.4 Consensus size: 23
3307691 TGAATTTGGA
* * * *
3307701 CAGCATTTATATACCAAATTAAA
1 CAGCATATATACACCAAATTGAG
*
3307724 CAGCATTTATACACCAAAACTTG-G
1 CAGCATATATACACC-AAA-TTGAG
* *
3307748 ACAG-ATGATATACAACAAA-TGGG
1 -CAGCAT-ATATACACCAAATTGAG
* *
3307771 CAGCATATACATACCAAATTGAG
1 CAGCATATATACACCAAATTGAG
* * * *
3307794 CAGCATTTTTACACCAAAATTTAA
1 CAGCATATATACACC-AAATTGAG
*
3307818 CAGCATATATACAACAAA-TG-G
1 CAGCATATATACACCAAATTGAG
* *
3307839 CAGCATATACATACCAAATTGAG
1 CAGCATATATACACCAAATTGAG
* * * *
3307862 CAGCATTTTTACACCAAAATTTAA
1 CAGCATATATACACC-AAATTGAG
*
3307886 CAGCATATATACAACAAA-TG-G
1 CAGCATATATACACCAAATTGAG
* *
3307907 CAGCATATACATACCAAATTGAG
1 CAGCATATATACACCAAATTGAG
* * * *
3307930 CAGCATTTTTACACCAAAATTTAA
1 CAGCATATATACACC-AAATTGAG
* * *
3307954 CAGCATATATATAACAAA-TGGG
1 CAGCATATATACACCAAATTGAG
3307976 CAGCATATA
1 CAGCATATA
3307985 CATAATACAT
Statistics
Matches: 197, Mismatches: 50, Indels: 29
0.71 0.18 0.11
Matches are distributed among these distances:
21 30 0.15
22 30 0.15
23 64 0.32
24 61 0.31
25 12 0.06
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (23 bp):
CAGCATATATACACCAAATTGAG
Found at i:3307822 original size:47 final size:46
Alignment explanation
Indices: 3307701--3307984 Score: 170
Period size: 47 Copynumber: 6.2 Consensus size: 46
3307691 TGAATTTGGA
* * * * *
3307701 CAGCATTTATATACCAAATTAAACAGCATTTATACACCAAAACTTG-G
1 CAGCATATATACACCAAATTTAACAGCATATATATACC-AAA-TTGAG
* *** *
3307748 ACAG-ATGATATACAACAAA-TGGGCAGCATATACATACCAAATTGAG
1 -CAGCAT-ATATACACCAAATTTAACAGCATATATATACCAAATTGAG
* * * *
3307794 CAGCATTTTTACACCAAAATTTAACAGCATATATACAACAAA-TG-G
1 CAGCATATATACACC-AAATTTAACAGCATATATATACCAAATTGAG
* * * * * * * * *
3307839 CAGCATATACATACCAAATTGAGCAGCATTTTTACACCAAAATTTAA
1 CAGCATATATACACCAAATTTAACAGCATATATATACC-AAATTGAG
* ** *
3307886 CAGCATATATACAACAAA--TGGCAGCATATACATACCAAATTGAG
1 CAGCATATATACACCAAATTTAACAGCATATATATACCAAATTGAG
* * * *
3307930 CAGCATTTTTACACCAAAATTTAACAGCATATATATAACAAA-TGGG
1 CAGCATATATACACC-AAATTTAACAGCATATATATACCAAATTGAG
3307976 CAGCATATA
1 CAGCATATA
3307985 CATAATACAT
Statistics
Matches: 175, Mismatches: 50, Indels: 24
0.70 0.20 0.10
Matches are distributed among these distances:
44 36 0.21
45 42 0.24
46 22 0.13
47 63 0.36
48 12 0.07
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (46 bp):
CAGCATATATACACCAAATTTAACAGCATATATATACCAAATTGAG
Found at i:3307860 original size:68 final size:69
Alignment explanation
Indices: 3307701--3307988 Score: 465
Period size: 68 Copynumber: 4.2 Consensus size: 69
3307691 TGAATTTGGA
* * * * * **
3307701 CAGCATTTATATACCAAATTAAACAGCATTTATACACCAAAACTTGGACAG-ATGATATACAACA
1 CAGCATATACATACCAAATTGAGCAGCATTTTTACACCAAAA-TTTAACAGCAT-ATATACAACA
3307765 AATGGG
64 AATGGG
3307771 CAGCATATACATACCAAATTGAGCAGCATTTTTACACCAAAATTTAACAGCATATATACAACAAA
1 CAGCATATACATACCAAATTGAGCAGCATTTTTACACCAAAATTTAACAGCATATATACAACAAA
3307836 T-GG
66 TGGG
3307839 CAGCATATACATACCAAATTGAGCAGCATTTTTACACCAAAATTTAACAGCATATATACAACAAA
1 CAGCATATACATACCAAATTGAGCAGCATTTTTACACCAAAATTTAACAGCATATATACAACAAA
3307904 T-GG
66 TGGG
*
3307907 CAGCATATACATACCAAATTGAGCAGCATTTTTACACCAAAATTTAACAGCATATATATAACAAA
1 CAGCATATACATACCAAATTGAGCAGCATTTTTACACCAAAATTTAACAGCATATATACAACAAA
3307972 TGGG
66 TGGG
3307976 CAGCATATACATA
1 CAGCATATACATA
3307989 ATACATCACA
Statistics
Matches: 208, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
68 135 0.65
69 34 0.16
70 39 0.19
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (69 bp):
CAGCATATACATACCAAATTGAGCAGCATTTTTACACCAAAATTTAACAGCATATATACAACAAA
TGGG
Found at i:3308837 original size:41 final size:41
Alignment explanation
Indices: 3308792--3308931 Score: 174
Period size: 41 Copynumber: 3.4 Consensus size: 41
3308782 TTGTATAAAA
* * * * * *
3308792 CACCGACATAAAGCCTGCTAGGCACAAAGCCCGATACATTT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
* *
3308833 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
*
3308874 CACCGGCACAGAA-CCTGCTAGGCATAAATCCTGATATAATT
1 CACCGGCACA-AAGCCTGCTAGGCATAAAGCCTGATATAATT
*
3308915 CACCGGCATAAAGCCTG
1 CACCGGCACAAAGCCTG
3308932 AACTTACAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 2 0.02
41 81 0.95
42 2 0.02
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.19
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
Found at i:3320663 original size:34 final size:35
Alignment explanation
Indices: 3320625--3320707 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 35
3320615 TTGAATAGTT
* **
3320625 TGGGCCTAAGCCCATAT-CAGTCGCAATATCAGTG
1 TGGGCCTTAGCCCATATACAGTAACAATATCAGTG
* *
3320659 TGGGCCTTAGCCCA-ATACAGTAATAGTATCAGTG
1 TGGGCCTTAGCCCATATACAGTAACAATATCAGTG
*
3320693 TAGGCCTTAGCCCAT
1 TGGGCCTTAGCCCAT
3320708 TTTAATACAG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
33 2 0.05
34 39 0.95
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (35 bp):
TGGGCCTTAGCCCATATACAGTAACAATATCAGTG
Found at i:3325283 original size:19 final size:19
Alignment explanation
Indices: 3325259--3325297 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3325249 TTTTAATTAT
* *
3325259 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
3325278 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
3325297 T
1 T
3325298 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:3329300 original size:40 final size:40
Alignment explanation
Indices: 3329241--3329588 Score: 561
Period size: 40 Copynumber: 8.7 Consensus size: 40
3329231 GAGCATTGGA
3329241 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
*
3329281 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
*
3329321 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* *
3329361 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* *
3329401 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
**
3329441 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGACG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* *
3329481 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* *
3329521 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* * *
3329561 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTATGACCCGAAGGCAA
3329589 ATGTGTTTGC
Statistics
Matches: 294, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 294 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
Found at i:3336613 original size:40 final size:40
Alignment explanation
Indices: 3336553--3336757 Score: 347
Period size: 40 Copynumber: 5.1 Consensus size: 40
3336543 TGAGCATTGG
*
3336553 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
*
3336593 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
* * *
3336633 AATATATCCGGGCTATGACCCGAAGGCAATTTTGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
*
3336673 GATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
*
3336713 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
3336753 GATAT
1 GATAT
3336758 GTCTATGTAC
Statistics
Matches: 155, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 155 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
Found at i:3339786 original size:27 final size:26
Alignment explanation
Indices: 3339730--3339786 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
3339720 CAACCTTAAC
* * *
3339730 CCTAGGGGTATATCAATAATTTTGCT
1 CCTAGGGGTAAATCAATAATTTTCCA
*
3339756 CCTAGGGGTAAATCTATAAATTTTCCA
1 CCTAGGGGTAAATCAAT-AATTTTCCA
3339783 CCTA
1 CCTA
3339787 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAATAATTTTCCA
Found at i:3345090 original size:33 final size:34
Alignment explanation
Indices: 3345028--3345098 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
3345018 GCAATATTAT
*
3345028 TGTGGGCCTTAGCCCAATACAAAATAGTATCA-A
1 TGTGGGCCTTAGCCCAATACAAAACAGTATCAGA
* * **
3345061 TGTGGGCCTTAGCCCATTTCAGTACAGTATCAGA
1 TGTGGGCCTTAGCCCAATACAAAACAGTATCAGA
3345095 TGTG
1 TGTG
3345099 CATACAAAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 27 0.84
34 5 0.16
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (34 bp):
TGTGGGCCTTAGCCCAATACAAAACAGTATCAGA
Found at i:3347787 original size:44 final size:44
Alignment explanation
Indices: 3347679--3347774 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 44
3347669 ATATGTTATC
* * * *
3347679 GTGTAAGACCACGTGTGGGACGTTGGCATTATTTTGAGATGTAA
1 GTGTAAGACCACATTTGGGATGTTGGCATGATTTTGAGATGTAA
*
3347723 GTGTAAGACCACATTTGGGATGTTGGCATCGA-TTTGAGATTTAA
1 GTGTAAGACCACATTTGGGATGTTGGCAT-GATTTTGAGATGTAA
3347767 GTGTAAGA
1 GTGTAAGA
3347775 TCCTGTCTGG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 45 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.30, T:0.32
Consensus pattern (44 bp):
GTGTAAGACCACATTTGGGATGTTGGCATGATTTTGAGATGTAA
Found at i:3353096 original size:45 final size:45
Alignment explanation
Indices: 3353031--3353151 Score: 179
Period size: 45 Copynumber: 2.7 Consensus size: 45
3353021 TAGGATTCTG
* * ** *
3353031 ATGTGTTTTCATGTATGACCACATCTGGGACGTTGGCATCGATAT
1 ATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCAATAT
3353076 ATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCAATAT
1 ATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCAATAT
* *
3353121 ATGTGGTTACGTGTAAGACCATGTCTGGGAC
1 ATGTGTTTTCGTGTAAGACCATGTCTGGGAC
3353152 ATCGACATCG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (45 bp):
ATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCAATAT
Found at i:3359647 original size:27 final size:27
Alignment explanation
Indices: 3359617--3359794 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
3359607 ATATTGAGTC
* * * *
3359617 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
3359644 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
3359671 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
3359699 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
3359726 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
3359753 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
3359780 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
3359795 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:3359756 original size:82 final size:81
Alignment explanation
Indices: 3359638--3359793 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
3359628 TGCTATATAA
* *
3359638 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
3359703 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
3359720 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
3359784 CACTTAGTGC
65 CACTTAGTGC
3359794 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:3363083 original size:21 final size:21
Alignment explanation
Indices: 3362998--3363093 Score: 65
Period size: 21 Copynumber: 4.4 Consensus size: 21
3362988 TATTTGTAAC
* *
3362998 TTATTTATTTTAAATTGTA-TA
1 TTATTTA-TTTATATTTTATTA
*
3363019 -TATATTATTT-TATTTTAATA
1 TTAT-TTATTTATATTTTATTA
*
3363039 TATATGTATTATATATTTTATATTA
1 T-TATTTATT-TATA-TTT-TATTA
3363064 TTATTTATTTATATTTTATTA
1 TTATTTATTTATATTTTATTA
3363085 -TATTATATT
1 TTATT-TATT
3363094 ACTTCATATT
Statistics
Matches: 61, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
19 5 0.08
20 12 0.20
21 16 0.26
22 7 0.11
23 6 0.10
24 10 0.16
25 5 0.08
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTATTTATTTATATTTTATTA
Found at i:3363083 original size:28 final size:28
Alignment explanation
Indices: 3363017--3363090 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 28
3363007 TTAAATTGTA
* * *
3363017 TATATATTATTTTATTTTAATATATATG
1 TATATTTTATTTTATATTATTATATATG
* * *
3363045 TAT-TATATATTTTATATTATTATTTATT
1 TATAT-TTTATTTTATATTATTATATATG
3363073 TATATTTTA--TTATATTAT
1 TATATTTTATTTTATATTAT
3363091 ATTACTTCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
26 9 0.24
27 1 0.03
28 26 0.70
29 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (28 bp):
TATATTTTATTTTATATTATTATATATG
Found at i:3363094 original size:5 final size:5
Alignment explanation
Indices: 3363015--3363094 Score: 53
Period size: 5 Copynumber: 16.4 Consensus size: 5
3363005 TTTTAAATTG
* * * *
3363015 TATA- TATAT TAT-T T-TAT TTTAA TATAT ATGTAT TATA- TATTT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT -TATAT TATAT TATAT TATAT
*
3363062 TATTAT T-TATT TATAT TTTAT TATAT TATAT TA
1 TA-TAT TATA-T TATAT TATAT TATAT TATAT TA
3363095 CTTCATATTT
Statistics
Matches: 59, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
3 1 0.02
4 13 0.22
5 35 0.59
6 10 0.17
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (5 bp):
TATAT
Found at i:3363094 original size:28 final size:26
Alignment explanation
Indices: 3363024--3363094 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 26
3363014 GTATATATAT
*
3363024 TATTTTATTTTA-ATATATATGTATTA
1 TATTTTATTATATATAT-TATGTATTA
* *
3363050 TATATT-TTATAT-TATTATTTATTTA
1 TATTTTATTATATATATTATGTA-TTA
3363075 TATTTTATTATATTATATTA
1 TATTTTATTATA-TATATTA
3363095 CTTCATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
24 5 0.14
25 15 0.42
26 10 0.28
27 1 0.03
28 5 0.14
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (26 bp):
TATTTTATTATATATATTATGTATTA
Found at i:3363128 original size:51 final size:51
Alignment explanation
Indices: 3363018--3363132 Score: 121
Period size: 51 Copynumber: 2.2 Consensus size: 51
3363008 TAAATTGTAT
* *
3363018 ATATATTATTTTATTTTAATATATATGTATTATATATTTTATATTATTATTT
1 ATATA-TATTTTATTATAATATATATGTATTATATATTTTATATTATTATTA
* *
3363070 ATTTATATTTTATTAT-AT-TATAT-TACTTCATAT-TTTTCTATTATCATATTA
1 ATATATATTTTATTATAATATATATGTA-TT-ATATATTTTATATTAT--TATTA
3363121 ATATATATTTTA
1 ATATATATTTTA
3363133 ACATATATCA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
48 2 0.04
49 17 0.31
50 6 0.11
51 25 0.46
52 4 0.07
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (51 bp):
ATATATATTTTATTATAATATATATGTATTATATATTTTATATTATTATTA
Found at i:3363167 original size:41 final size:41
Alignment explanation
Indices: 3363122--3363260 Score: 104
Period size: 44 Copynumber: 3.2 Consensus size: 41
3363112 ATCATATTAA
*
3363122 TATATATTTTAACATATATCATTACTTATTATTTATTATAT
1 TATATATTTTAACATATATTATTACTTATTATTTATTATAT
*
3363163 TATAT-TTTTATCACATAATATTTATATA-TTTTTATATTATTATAT
1 TATATATTTTA--ACAT-ATA-TTAT-TACTTATTAT-TTATTATAT
* * *
3363208 TATTTGACATTTTAACAATATATTATTTCATATTA-TTATTATCTAT
1 TA--T-ATATTTTAAC-ATATATTATTACTTATTATTTATTA--TAT
3363254 TATATAT
1 TATATAT
3363261 ATTTTCATGT
Statistics
Matches: 77, Mismatches: 7, Indels: 26
0.70 0.06 0.24
Matches are distributed among these distances:
40 5 0.06
41 5 0.06
42 4 0.05
43 6 0.08
44 16 0.21
45 14 0.18
46 13 0.17
47 6 0.08
48 3 0.04
49 5 0.06
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (41 bp):
TATATATTTTAACATATATTATTACTTATTATTTATTATAT
Found at i:3363207 original size:24 final size:26
Alignment explanation
Indices: 3363148--3363210 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 26
3363138 TATCATTACT
3363148 TATTATT-TATTATATTATATTTTTA
1 TATTATTATATTATATTATATTTTTA
* *
3363173 TCA-CATAATATT-TA-TATATTTTTA
1 T-ATTATTATATTATATTATATTTTTA
3363197 TATTATTATATTAT
1 TATTATTATATTAT
3363211 TTGACATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
23 1 0.03
24 18 0.60
25 6 0.20
26 5 0.17
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (26 bp):
TATTATTATATTATATTATATTTTTA
Found at i:3363247 original size:16 final size:16
Alignment explanation
Indices: 3363228--3363302 Score: 56
Period size: 16 Copynumber: 4.9 Consensus size: 16
3363218 TTTAACAATA
3363228 TATTATTTCATATTAT
1 TATTATTTCATATTAT
3363244 TATTA--TC-TATTA-
1 TATTATTTCATATTAT
*
3363256 TATATATTTTCATGTATAT
1 TAT-TA-TTTCATAT-TAT
*
3363275 TATTA-TTCACATTAT
1 TATTATTTCATATTAT
3363290 TA-T-TTTCATATTA
1 TATTATTTCATATTA
3363303 AATTGATATT
Statistics
Matches: 47, Mismatches: 4, Indels: 18
0.68 0.06 0.26
Matches are distributed among these distances:
12 3 0.06
13 7 0.15
14 11 0.23
15 5 0.11
16 12 0.26
17 2 0.04
18 4 0.09
19 3 0.06
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (16 bp):
TATTATTTCATATTAT
Found at i:3363450 original size:21 final size:22
Alignment explanation
Indices: 3363416--3363459 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
3363406 TATTTCAAAA
*
3363416 TTCATTATTAATT-ACTATGTT
1 TTCATTATTAATTAAATATGTT
3363437 TTCATGTATT-ATTAAATATGTT
1 TTCAT-TATTAATTAAATATGTT
3363459 T
1 T
3363460 ATTATCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (22 bp):
TTCATTATTAATTAAATATGTT
Found at i:3368365 original size:31 final size:31
Alignment explanation
Indices: 3368327--3368405 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
3368317 TTTAACGGTT
3368327 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* * *
3368358 ACTGGGCCAAAGCCTTTTCATGAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
3368389 ACTGGGCCGAAACCTTT
1 ACTGGGCCGAAGCCTTT
3368406 ACTGTAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:3368476 original size:42 final size:42
Alignment explanation
Indices: 3368429--3368520 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
3368419 TGGCCCATAG
* ** *
3368429 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
3368471 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
3368513 GCCCATTT
1 GCCCATTT
3368521 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:3368736 original size:26 final size:26
Alignment explanation
Indices: 3368665--3368839 Score: 282
Period size: 26 Copynumber: 6.8 Consensus size: 26
3368655 CCTCTTTAAT
**
3368665 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
3368690 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
3368715 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
3368741 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
3368767 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
3368793 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
3368819 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
3368840 GCACTTCCTC
Statistics
Matches: 139, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
25 33 0.24
26 106 0.76
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:3368776 original size:52 final size:52
Alignment explanation
Indices: 3368665--3368839 Score: 336
Period size: 52 Copynumber: 3.4 Consensus size: 52
3368655 CCTCTTTAAT
3368665 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
3368715 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
3368767 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
3368819 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
3368840 GCACTTCCTC
Statistics
Matches: 123, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
50 10 0.08
51 25 0.20
52 88 0.72
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:3369660 original size:27 final size:27
Alignment explanation
Indices: 3369642--3369712 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
3369632 GGGCATATTC
3369642 GTCACTTTACCATACAAGGGTATTACG
1 GTCACTTTACCATACAAGGGTATTACG
* *
3369669 GTCACTTTACCCTACAGGGGGCT-TTACG
1 GTCACTTTACCATACA-AGGG-TATTACG
* *
3369697 GTCTCTTTACCCTACA
1 GTCACTTTACCATACA
3369713 GGGGCTTTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 15 0.38
28 23 0.59
29 1 0.03
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCATACAAGGGTATTACG
Done.