Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 62 of 163
Found at i:20377910 original size:29 final size:29
Alignment explanation
Indices: 20377878--20377939 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
20377868 ACTGGAAGTG
* *
20377878 TTTTCCAAAAAAT-GGTCTATTCCCGTAAA
1 TTTTCC-AAAAATCGGCCTATTCACGTAAA
* *
20377907 TTTTCCTAAAATCGGCCTATTCACGTAAT
1 TTTTCCAAAAATCGGCCTATTCACGTAAA
20377936 TTTT
1 TTTT
20377940 TTGACATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (29 bp):
TTTTCCAAAAATCGGCCTATTCACGTAAA
Found at i:20383732 original size:26 final size:26
Alignment explanation
Indices: 20383699--20383759 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
20383689 TATCCGGAGC
* *
20383699 TCCTGATTAAAGGCTCTTCGTGAGCT
1 TCCTGATTAAAAGCTCTTCGTGAACT
* * *
20383725 TCTTGATTAAAAGTTCTTTGTGAACT
1 TCCTGATTAAAAGCTCTTCGTGAACT
20383751 TCCTGATTA
1 TCCTGATTA
20383760 TTACTCTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (26 bp):
TCCTGATTAAAAGCTCTTCGTGAACT
Found at i:20384681 original size:19 final size:19
Alignment explanation
Indices: 20384653--20384690 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
20384643 AATGGCATAT
*
20384653 ATAGGGTAATTGGTCAATA
1 ATAGGGTAATTGGCCAATA
*
20384672 ATAGGTTAATTGGCCAATA
1 ATAGGGTAATTGGCCAATA
20384691 TCGACATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.32
Consensus pattern (19 bp):
ATAGGGTAATTGGCCAATA
Found at i:20387266 original size:11 final size:11
Alignment explanation
Indices: 20387250--20387274 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
20387240 TGGGTTCTGC
20387250 ATGGTAATTGG
1 ATGGTAATTGG
20387261 ATGGTAATTGG
1 ATGGTAATTGG
20387272 ATG
1 ATG
20387275 TGGGGAATCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.36, T:0.36
Consensus pattern (11 bp):
ATGGTAATTGG
Found at i:20404553 original size:46 final size:45
Alignment explanation
Indices: 20404443--20404576 Score: 128
Period size: 46 Copynumber: 2.9 Consensus size: 45
20404433 CAGGTGAAAG
* * * ** *
20404443 TAATAGTGCCCGGTTACCCGTTTGGGTTAAACCTACACGAATAATGAA
1 TAATAGTGCCTGGTCACCTGTAAGGGTTGAACCTACAC--A-AATGAA
* *
20404491 TCATAGTGTCTGGTCACCTGTAAGGGTTGAACCTACACAAATCGAA
1 TAATAGTGCCTGGTCACCTGTAAGGGTTGAACCTACACAAAT-GAA
20404537 TAATAGTGCCTGGTCACCCAT-TAA-GGTTGAACCTACACAA
1 TAATAGTGCCTGGTCA-CC-TGTAAGGGTTGAACCTACACAA
20404577 CAAATTGTTT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
45 3 0.04
46 34 0.47
47 5 0.07
48 31 0.42
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (45 bp):
TAATAGTGCCTGGTCACCTGTAAGGGTTGAACCTACACAAATGAA
Found at i:20408498 original size:36 final size:36
Alignment explanation
Indices: 20408446--20408522 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 36
20408436 AATCCCAATA
*
20408446 AAAATCTAATAATAATTA-AAAATTAAAAATGTTAAT
1 AAAATCTAATAATAATTATAAAA-TAAAAACGTTAAT
* *
20408482 GAAAATCTCA-AATAATTATAAAATAATAACGTTAAT
1 -AAAATCTAATAATAATTATAAAATAAAAACGTTAAT
20408518 AAAAT
1 AAAAT
20408523 TTTAAAATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 5 0.14
36 19 0.53
37 12 0.33
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (36 bp):
AAAATCTAATAATAATTATAAAATAAAAACGTTAAT
Found at i:20409496 original size:22 final size:22
Alignment explanation
Indices: 20409471--20409514 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
20409461 CTTCTTCAAA
*
20409471 AAAGAAAAGATCTTTTCCAGAT
1 AAAGAAAAAATCTTTTCCAGAT
20409493 AAAGAAAAAATCTTTTCCAGAT
1 AAAGAAAAAATCTTTTCCAGAT
20409515 TTATTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (22 bp):
AAAGAAAAAATCTTTTCCAGAT
Found at i:20410106 original size:20 final size:19
Alignment explanation
Indices: 20410045--20410108 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
20410035 AAGAAAACCC
*
20410045 AATAA-AAATAAAAAATGT
1 AATAATAAATATAAAATGT
20410063 AAATAATAAA-ATAATAATGT
1 -AATAATAAATATAA-AATGT
20410083 --TAATAAATATAAAATTGT
1 AATAATAAATATAAAA-TGT
20410101 AATAATAA
1 AATAATAA
20410109 TTAAAAAACA
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
17 9 0.24
18 7 0.18
19 8 0.21
20 14 0.37
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AATAATAAATATAAAATGT
Found at i:20410347 original size:19 final size:19
Alignment explanation
Indices: 20410285--20410348 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
20410275 GGCCTTCGCT
*
20410285 TCGCCTCCTCATCTCTGGC
1 TCGCCTCCTCATCTCTGCC
** *
20410304 TCTGTCCGTCCGTCGGCTTTGCC
1 TC-G-CC-TCC-TCATCTCTGCC
20410327 TCGCCTCCTCATCTCTGCC
1 TCGCCTCCTCATCTCTGCC
20410346 TCG
1 TCG
20410349 TTCTTTGTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
19 13 0.38
20 4 0.12
21 4 0.12
22 4 0.12
23 9 0.26
ACGTcount: A:0.03, C:0.45, G:0.19, T:0.33
Consensus pattern (19 bp):
TCGCCTCCTCATCTCTGCC
Found at i:20420076 original size:18 final size:18
Alignment explanation
Indices: 20420050--20420087 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
20420040 AAATAATTTT
*
20420050 AATATTAAATAATTAATG
1 AATAGTAAATAATTAATG
20420068 AATAGTAAATAATTAATG
1 AATAGTAAATAATTAATG
20420086 AA
1 AA
20420088 AAACATACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (18 bp):
AATAGTAAATAATTAATG
Found at i:20426855 original size:39 final size:40
Alignment explanation
Indices: 20426777--20426852 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
20426767 GCAATAACAC
* *
20426777 AAATTAAAAATAAAAACAAGAAATATTTTTGGATTTTTGA
1 AAATTAAAAAAAAAAACAAGAAATATTTTTGAATTTTTGA
* *
20426817 AAATTAAAAAAAAAAAGAA-AACT-TTTTTGAATTTTT
1 AAATTAAAAAAAAAAACAAGAAATATTTTTGAATTTTT
20426853 TGATTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 12 0.38
39 3 0.09
40 17 0.53
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (40 bp):
AAATTAAAAAAAAAAACAAGAAATATTTTTGAATTTTTGA
Found at i:20432702 original size:15 final size:15
Alignment explanation
Indices: 20432682--20432713 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20432672 CATTTCACTA
*
20432682 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
20432697 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
20432712 TT
1 TT
20432714 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:20433849 original size:15 final size:14
Alignment explanation
Indices: 20433821--20433847 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20433811 GAATTTTCTT
20433821 GAAAAATTAATTTG
1 GAAAAATTAATTTG
20433835 GAAAAATTAATTT
1 GAAAAATTAATTT
20433848 TGATCAAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
GAAAAATTAATTTG
Found at i:20434563 original size:26 final size:26
Alignment explanation
Indices: 20434512--20434562 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
20434502 AGTTGTAGAG
*
20434512 AGAAAATTCTCTGAAGAGATTATTTT
1 AGAAAATTCTCTAAAGAGATTATTTT
* *
20434538 AGAAAATT-TCTAAAGATATTTTTTT
1 AGAAAATTCTCTAAAGAGATTATTTT
20434563 TGATTTACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGAGATTATTTT
Found at i:20436627 original size:22 final size:21
Alignment explanation
Indices: 20436578--20436631 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
20436568 ACTAATATTT
* *
20436578 TTTTTTCATTTTTTAAAAATTA
1 TTTTTT-ATTTTTAAAAAATCA
*
20436600 TCTTTTATTTTTAAAAAATACA
1 TTTTTTATTTTTAAAAAAT-CA
20436622 TTTTTTATTT
1 TTTTTTATTT
20436632 CTCAAGATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTTATTTTTAAAAAATCA
Found at i:20439203 original size:2 final size:2
Alignment explanation
Indices: 20439196--20439224 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20439186 TCGCAAATCA
20439196 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
20439225 TGACGACGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20444870 original size:53 final size:54
Alignment explanation
Indices: 20444792--20444898 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 54
20444782 TACCAACTCG
20444792 GTTAAGTAGGGGGTTTTTTATAAAAATAATATAAAAAAATAAAAAATTACCAAA
1 GTTAAGTAGGGGGTTTTTTATAAAAATAATATAAAAAAATAAAAAATTACCAAA
20444846 GTTAAGTA-GGGGTTTTTTATAAAAATAATATAAAAAAATAAAAAATTACCAAA
1 GTTAAGTAGGGGGTTTTTTATAAAAATAATATAAAAAAATAAAAAATTACCAAA
20444899 ATGTTATAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 45 0.85
54 8 0.15
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.30
Consensus pattern (54 bp):
GTTAAGTAGGGGGTTTTTTATAAAAATAATATAAAAAAATAAAAAATTACCAAA
Found at i:20444927 original size:27 final size:25
Alignment explanation
Indices: 20444891--20444943 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 25
20444881 AAATAAAAAA
*
20444891 TTACCAAAATGTTATAACTTTTTTTAT
1 TTACCAAAAT-ATATAA-TTTTTTTAT
20444918 TTACCAAAATATATAATTTTTTTAT
1 TTACCAAAATATATAATTTTTTTAT
20444943 T
1 T
20444944 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 10 0.40
26 5 0.20
27 10 0.40
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (25 bp):
TTACCAAAATATATAATTTTTTTAT
Found at i:20449542 original size:17 final size:17
Alignment explanation
Indices: 20449520--20449559 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
20449510 TTAGTGTGTT
*
20449520 TTTTTTCTATTTTTTTA
1 TTTTTTCTATTTTTTAA
* *
20449537 TTTTTTTTGTTTTTTAA
1 TTTTTTCTATTTTTTAA
20449554 TTTTTT
1 TTTTTT
20449560 TGATATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTTTTCTATTTTTTAA
Found at i:20449549 original size:16 final size:16
Alignment explanation
Indices: 20449530--20449561 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20449520 TTTTTTCTAT
*
20449530 TTTTTTATTTTTTTTG
1 TTTTTTAATTTTTTTG
20449546 TTTTTTAATTTTTTTG
1 TTTTTTAATTTTTTTG
20449562 ATATATTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.84
Consensus pattern (16 bp):
TTTTTTAATTTTTTTG
Found at i:20449592 original size:25 final size:27
Alignment explanation
Indices: 20449562--20449631 Score: 92
Period size: 29 Copynumber: 2.6 Consensus size: 27
20449552 AATTTTTTTG
20449562 ATATATTTTGGTAAAT-AAAAA-TTAT
1 ATATATTTTGGTAAATAAAAAAGTTAT
20449587 ATATATTTTGGTAAATACAAAAAAAGTTAT
1 ATATATTTTGGTAAAT---AAAAAAGTTAT
20449617 A-ATATTTTGGTAAAT
1 ATATATTTTGGTAAAT
20449632 TTTTTGTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
25 16 0.40
29 19 0.47
30 5 0.12
ACGTcount: A:0.47, C:0.01, G:0.10, T:0.41
Consensus pattern (27 bp):
ATATATTTTGGTAAATAAAAAAGTTAT
Found at i:20449693 original size:19 final size:18
Alignment explanation
Indices: 20449666--20449705 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
20449656 TATAAAACCC
*
20449666 ATAATAAAACATTACAAAA
1 ATAAAAAAACATTA-AAAA
*
20449685 ATAAAAAAATATTAAAAA
1 ATAAAAAAACATTAAAAA
20449703 ATA
1 ATA
20449706 CCAAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (18 bp):
ATAAAAAAACATTAAAAA
Found at i:20449702 original size:18 final size:19
Alignment explanation
Indices: 20449666--20449716 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
20449656 TATAAAACCC
* *
20449666 ATAATAAAACATTACAAAA
1 ATAAAAAAATATTACAAAA
20449685 ATAAAAAAATATTA-AAAA
1 ATAAAAAAATATTACAAAA
**
20449703 ATACCAAAATATTA
1 ATAAAAAAATATTA
20449717 TATATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.24
Consensus pattern (19 bp):
ATAAAAAAATATTACAAAA
Found at i:20462083 original size:18 final size:20
Alignment explanation
Indices: 20462060--20462104 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
20462050 AAAGGAAGAC
20462060 AGAAAAACA-AATCAAAAA-
1 AGAAAAACAGAATCAAAAAG
* *
20462078 AGAAAAAGAGAATGAAAAAG
1 AGAAAAACAGAATCAAAAAG
20462098 AGAAAAA
1 AGAAAAA
20462105 AGAGATTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 8 0.35
20 7 0.30
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.04
Consensus pattern (20 bp):
AGAAAAACAGAATCAAAAAG
Found at i:20462095 original size:19 final size:20
Alignment explanation
Indices: 20462060--20462109 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
20462050 AAAGGAAGAC
*
20462060 AGAAAAACA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
20462078 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
20462098 AGAAAAAAGAGA
1 AG-AAAAAGAGA
20462110 TTGAGAGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 8 0.30
19 8 0.30
20 2 0.07
21 9 0.33
ACGTcount: A:0.74, C:0.04, G:0.18, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:20462156 original size:12 final size:14
Alignment explanation
Indices: 20462133--20462165 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
20462123 GGACACAGAC
20462133 AAGAAGATTGAA-A
1 AAGAAGATTGAAGA
20462146 AAGAA-ATTGAAGA
1 AAGAAGATTGAAGA
20462159 AAGAAGA
1 AAGAAGA
20462166 GAAAATGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.33
13 11 0.61
14 1 0.06
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (14 bp):
AAGAAGATTGAAGA
Found at i:20463730 original size:33 final size:34
Alignment explanation
Indices: 20463693--20463764 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
20463683 GAGTTAGTTT
20463693 ATTAAATTTAGTTCAGCTCAAATAAGTGTAAG-A
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTAAGTA
* * *
20463726 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTAAGTA
20463760 ATTAA
1 ATTAA
20463765 TTTGTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 29 0.83
34 6 0.17
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.39
Consensus pattern (34 bp):
ATTAAATTTAGTTCAGCTCAAATAAGTGTAAGTA
Found at i:20471609 original size:21 final size:20
Alignment explanation
Indices: 20471570--20471609 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20471560 AATTTTAAAG
*
20471570 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATACATTTTT
*
20471590 TATTTTTAAAATACAATTTT
1 TATTTTTAAAATACATTTTT
20471610 AGTGTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTAAAATACATTTTT
Found at i:20472534 original size:24 final size:24
Alignment explanation
Indices: 20472506--20472554 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
20472496 ATATTAAAAA
20472506 ATAAATATCATAATGAACACAAGT
1 ATAAATATCATAATGAACACAAGT
20472530 ATAAATATCATAATGAACACAAGT
1 ATAAATATCATAATGAACACAAGT
20472554 A
1 A
20472555 AGCTAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.24
Consensus pattern (24 bp):
ATAAATATCATAATGAACACAAGT
Found at i:20476399 original size:41 final size:42
Alignment explanation
Indices: 20476301--20476416 Score: 155
Period size: 41 Copynumber: 2.8 Consensus size: 42
20476291 AGCCCGTACA
* *
20476301 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATG-AATCAAATATCG
* *
20476344 ATGCCACTGTCCCAGGCAGGGTCTTACATGAATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGAATCAAATATCG
*
20476385 ATGCCAATGTCCCAGACATGGTCTTACATGAA
1 ATGCCAATGTCCCAGACAGGGTCTTACATGAA
20476417 AACACATATC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 31 0.48
42 8 0.12
43 25 0.38
44 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGAATCAAATATCG
Found at i:20477321 original size:15 final size:14
Alignment explanation
Indices: 20477284--20477327 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
20477274 TTTTATTATA
20477284 ATAACTTTATAATAT
1 ATAACTTTATAAT-T
*
20477299 ATAA-TTTATTATT
1 ATAACTTTATAATT
20477312 ATAACCTTTATAATT
1 ATAA-CTTTATAATT
20477327 A
1 A
20477328 ATATAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 5 0.20
14 7 0.28
15 13 0.52
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAACTTTATAATT
Found at i:20479413 original size:22 final size:22
Alignment explanation
Indices: 20479385--20479439 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
20479375 CTGCTCTCTA
*
20479385 TGTTGCGACATTGGTCTTTTTG
1 TGTTGCGACATTGGTCTTTCTG
20479407 TGTTGCGACATTGGTCTTTCTG
1 TGTTGCGACATTGGTCTTTCTG
20479429 TGTTGCGACAT
1 TGTTGCGACAT
20479440 AGCGACCAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.27, T:0.45
Consensus pattern (22 bp):
TGTTGCGACATTGGTCTTTCTG
Found at i:20481776 original size:20 final size:20
Alignment explanation
Indices: 20481751--20481789 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
20481741 AAAGATGCAT
20481751 AACAGAGGCATCGAA-GTGCG
1 AACAGAGGCA-CGAATGTGCG
20481771 AACAGAGGCACGAATGTGC
1 AACAGAGGCACGAATGTGC
20481790 AGGTAGAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.36, C:0.21, G:0.33, T:0.10
Consensus pattern (20 bp):
AACAGAGGCACGAATGTGCG
Found at i:20495757 original size:44 final size:44
Alignment explanation
Indices: 20495690--20495803 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
20495680 ATGGAGTCTT
* * *
20495690 TCATCCATGGTCTTACTCATTATACTTGGTTA-CCATAGCATCAC
1 TCATCCATGGTCTTACTCCTTATAC-CGGGTAGCCATAGCATCAC
* * **
20495734 TCATCTATGGTCTTACTCCTTATACCGGGTAGCCATGGCATCTT
1 TCATCCATGGTCTTACTCCTTATACCGGGTAGCCATAGCATCAC
* *
20495778 TCATCCATGGTCTTACACCATATACC
1 TCATCCATGGTCTTACTCCTTATACC
20495804 TTTACCTTGT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 4 0.07
44 55 0.93
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (44 bp):
TCATCCATGGTCTTACTCCTTATACCGGGTAGCCATAGCATCAC
Found at i:20503858 original size:21 final size:21
Alignment explanation
Indices: 20503833--20503884 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
20503823 TGCATCTATG
*
20503833 GGCCTTAAAATGGGCTTACGA
1 GGCCTTAAAATGGGATTACGA
* *
20503854 GGCCTTACAATGGGATTATGA
1 GGCCTTAAAATGGGATTACGA
20503875 GGCCTTAAAA
1 GGCCTTAAAA
20503885 ATAGTTAGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (21 bp):
GGCCTTAAAATGGGATTACGA
Found at i:20505264 original size:20 final size:18
Alignment explanation
Indices: 20505234--20505294 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 18
20505224 ATAGATGTAT
*
20505234 AACAGAAGCACCAAAGTGC
1 AACAGAGGCA-CAAAGTGC
20505253 AGACAGAGGCACAAATGTGC
1 A-ACAGAGGCACAAA-GTGC
20505273 AAGCAGAGGCACAGAAGTGC
1 AA-CAGAGGCACA-AAGTGC
20505293 AA
1 AA
20505295 ACAAAGCACG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
19 6 0.16
20 29 0.78
21 2 0.05
ACGTcount: A:0.44, C:0.21, G:0.28, T:0.07
Consensus pattern (18 bp):
AACAGAGGCACAAAGTGC
Found at i:20510947 original size:32 final size:32
Alignment explanation
Indices: 20510911--20511011 Score: 79
Period size: 32 Copynumber: 3.2 Consensus size: 32
20510901 CCCATTACAT
20510911 GCTATGTTAGTCCTAGAATCGACTAAATCGTA
1 GCTATGTTAGTCCTAGAATCGACTAAATCGTA
* *
20510943 GCTATGATA-CCACTA-AAT-G--TAACACCTC-TAA
1 GCTATGTTAGTC-CTAGAATCGACTAA-A--TCGT-A
*
20510974 CTCTATGTTAGTCCTAGAATCGACTAAATCGTA
1 -GCTATGTTAGTCCTAGAATCGACTAAATCGTA
20511007 GCTAT
1 GCTAT
20511012 TATACCACTA
Statistics
Matches: 51, Mismatches: 6, Indels: 24
0.63 0.07 0.30
Matches are distributed among these distances:
28 3 0.06
29 1 0.02
30 2 0.04
31 7 0.14
32 25 0.49
33 7 0.14
34 2 0.04
35 1 0.02
36 3 0.06
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (32 bp):
GCTATGTTAGTCCTAGAATCGACTAAATCGTA
Found at i:20511017 original size:64 final size:64
Alignment explanation
Indices: 20510912--20511040 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
20510902 CCATTACATG
20510912 CTATGTTAGTCCTAGAATCGACTAAATCGTAGCTATGATACCACTAAATGTAACACCTCTAACT
1 CTATGTTAGTCCTAGAATCGACTAAATCGTAGCTATGATACCACTAAATGTAACACCTCTAACT
*
20510976 CTATGTTAGTCCTAGAATCGACTAAATCGTAGCTATTATACCACTAAATGTAACACCTCTAACT
1 CTATGTTAGTCCTAGAATCGACTAAATCGTAGCTATGATACCACTAAATGTAACACCTCTAACT
20511040 C
1 C
20511041 GTATTCATTG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (64 bp):
CTATGTTAGTCCTAGAATCGACTAAATCGTAGCTATGATACCACTAAATGTAACACCTCTAACT
Found at i:20512179 original size:13 final size:13
Alignment explanation
Indices: 20512158--20512187 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20512148 CAAACTGAAC
*
20512158 TTCTTTCCTTATT
1 TTCTATCCTTATT
20512171 TTCTATCCTTATT
1 TTCTATCCTTATT
20512184 TTCT
1 TTCT
20512188 TAAAGTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.67
Consensus pattern (13 bp):
TTCTATCCTTATT
Found at i:20515877 original size:48 final size:48
Alignment explanation
Indices: 20515802--20515971 Score: 214
Period size: 48 Copynumber: 3.5 Consensus size: 48
20515792 TGGGTCACGT
*
20515802 GTGGCATGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
*
20515850 GTGGCACGGACTGTGTGCAGGCTACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
* * * * * ** * *
20515898 GTGGCACGGATTATGTGCAGGCCACCGAGAGTCTGTTATTACACAAAG
1 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
* * *
20515946 GTGGTACAGACTGTGTGTAGGCCACC
1 GTGGCACGGACTGTGTGCAGGCCACC
20515972 GAGAAATCTA
Statistics
Matches: 105, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 105 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
Found at i:20522749 original size:48 final size:48
Alignment explanation
Indices: 20522619--20522737 Score: 159
Period size: 48 Copynumber: 2.5 Consensus size: 48
20522609 CGCATATGCA
*
20522619 GCACGGAC-AGTGTGCAGGCCACCAATATTCTATTAACATACAAGGGTG
1 GCACGGACTA-TGTGCAGGCCACCAATATTCTGTTAACATACAAGGGTG
* * * * *
20522667 GCACGGATTGTGTACAGGCCACCAATATTCTGTTAAGATACAAGGGTT
1 GCACGGACTATGTGCAGGCCACCAATATTCTGTTAACATACAAGGGTG
*
20522715 GCACGGACTATGTGCTGGCCACC
1 GCACGGACTATGTGCAGGCCACC
20522738 GAGAGTCTGT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (48 bp):
GCACGGACTATGTGCAGGCCACCAATATTCTGTTAACATACAAGGGTG
Found at i:20531139 original size:18 final size:18
Alignment explanation
Indices: 20531115--20531157 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
20531105 AAACCTATAA
20531115 AAAATAAATAC-ACTAAGT
1 AAAATAAA-ACTACTAAGT
*
20531133 TAAATAAAACTACTAAGT
1 AAAATAAAACTACTAAGT
20531151 AAAATAA
1 AAAATAA
20531158 CCAAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.63, C:0.09, G:0.05, T:0.23
Consensus pattern (18 bp):
AAAATAAAACTACTAAGT
Found at i:20535079 original size:20 final size:20
Alignment explanation
Indices: 20535056--20535110 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
20535046 ACATGCAGAA
* *
20535056 AAAGGCACAAATTTGCAAGC
1 AAAGGCACAAATGTGCAAAC
20535076 AAAGGCACCAAA-GTGCAAAC
1 AAAGGCA-CAAATGTGCAAAC
*
20535096 AAATGCACAAATGTG
1 AAAGGCACAAATGTG
20535111 GGATCAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.13
20 22 0.73
21 4 0.13
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (20 bp):
AAAGGCACAAATGTGCAAAC
Found at i:20540193 original size:32 final size:32
Alignment explanation
Indices: 20540157--20540220 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
20540147 CCCAGCATGA
20540157 TTGTTGCTACCTTTTTATATGTTGCAAAATAG
1 TTGTTGCTACCTTTTTATATGTTGCAAAATAG
20540189 TTGTTGCTACCTTTTTATATGTTGCAAAATAG
1 TTGTTGCTACCTTTTTATATGTTGCAAAATAG
20540221 CCATACTATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (32 bp):
TTGTTGCTACCTTTTTATATGTTGCAAAATAG
Found at i:20541898 original size:201 final size:201
Alignment explanation
Indices: 20541550--20541951 Score: 795
Period size: 201 Copynumber: 2.0 Consensus size: 201
20541540 TATACAACTC
20541550 ACGATGTTGGGACAATGATGATCTCAAGTCTGAGGATCATATACATAGTTATCACTTTGAGTAAT
1 ACGATGTTGGGACAATGATGATCTCAAGTCTGAGGATCATATACATAGTTATCACTTTGAGTAAT
20541615 GTTGTGACTATTACATAATAATCCAAGAAACAAACTCATAGTGAGTCAGTCCAATATGTTGTTCT
66 GTTGTGACTATTACATAATAATCCAAGAAACAAACTCATAGTGAGTCAGTCCAATATGTTGTTCT
*
20541680 TTAACACATATTCATGTATTGATTTTGACATCTCTATGTCAATGACAACACTTTGTCATCAATCA
131 TTAACACATACTCATGTATTGATTTTGACATCTCTATGTCAATGACAACACTTTGTCATCAATCA
20541745 ACTATA
196 ACTATA
20541751 ACGATGTTGGGACAATGATGATCTCAAGTCTGAGGATCATATACATAGTTATCACTTTGAGTAAT
1 ACGATGTTGGGACAATGATGATCTCAAGTCTGAGGATCATATACATAGTTATCACTTTGAGTAAT
20541816 GTTGTGACTATTACATAATAATCCAAGAAACAAACTCATAGTGAGTCAGTCCAATATGTTGTTCT
66 GTTGTGACTATTACATAATAATCCAAGAAACAAACTCATAGTGAGTCAGTCCAATATGTTGTTCT
20541881 TTAACACATACTCATGTATTGATTTTGACATCTCTATGTCAATGACAACACTTTGTCATCAATCA
131 TTAACACATACTCATGTATTGATTTTGACATCTCTATGTCAATGACAACACTTTGTCATCAATCA
20541946 ACTATA
196 ACTATA
20541952 CATTAGTCTT
Statistics
Matches: 200, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
201 200 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (201 bp):
ACGATGTTGGGACAATGATGATCTCAAGTCTGAGGATCATATACATAGTTATCACTTTGAGTAAT
GTTGTGACTATTACATAATAATCCAAGAAACAAACTCATAGTGAGTCAGTCCAATATGTTGTTCT
TTAACACATACTCATGTATTGATTTTGACATCTCTATGTCAATGACAACACTTTGTCATCAATCA
ACTATA
Found at i:20544398 original size:17 final size:18
Alignment explanation
Indices: 20544359--20544399 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
20544349 TGAATGAATG
20544359 AATAAATAGATTATAAAA
1 AATAAATAGATTATAAAA
*
20544377 CATAAATA-ATTA-AAACA
1 AATAAATAGATTATAAA-A
20544394 AATAAA
1 AATAAA
20544400 ACTTAGTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 3 0.15
17 10 0.50
18 7 0.35
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (18 bp):
AATAAATAGATTATAAAA
Found at i:20548812 original size:23 final size:24
Alignment explanation
Indices: 20548786--20548831 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
20548776 TGCTAACTAA
*
20548786 ATGAAGGGGA-AAATGAAAGGTTT
1 ATGAAGGAGAGAAATGAAAGGTTT
* *
20548809 ATGAATGAGAGAAATGAGAGGTT
1 ATGAAGGAGAGAAATGAAAGGTT
20548832 AGTGAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.43, C:0.00, G:0.35, T:0.22
Consensus pattern (24 bp):
ATGAAGGAGAGAAATGAAAGGTTT
Found at i:20550961 original size:17 final size:17
Alignment explanation
Indices: 20550932--20550964 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20550922 TATCGTTTGT
20550932 TTATCTTTCTTATTTAG
1 TTATCTTTCTTATTTAG
20550949 TTAT-TTTCATTATTTA
1 TTATCTTTC-TTATTTA
20550965 TTTTTATCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.21, C:0.09, G:0.03, T:0.67
Consensus pattern (17 bp):
TTATCTTTCTTATTTAG
Found at i:20552359 original size:29 final size:29
Alignment explanation
Indices: 20552317--20552372 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
20552307 TATTATATTA
* * *
20552317 ATTTAATATTAAAGTGGTTAAGTTTAAAC
1 ATTTAACATCAAAGTGATTAAGTTTAAAC
20552346 ATTTAACATCAAAGTGATTAAGTTTAA
1 ATTTAACATCAAAGTGATTAAGTTTAA
20552373 TTATAGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.39
Consensus pattern (29 bp):
ATTTAACATCAAAGTGATTAAGTTTAAAC
Found at i:20557960 original size:259 final size:259
Alignment explanation
Indices: 20557501--20558798 Score: 2227
Period size: 259 Copynumber: 5.0 Consensus size: 259
20557491 ATTTGGTATA
* * * * *
20557501 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAAAATTGATACTTTATCCGATGGTATCGAT
1 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
* * *
20557566 ATTTTTTGATAGTTGGGCTTTTACTCGAGAAACAGTATGCTCATTTGGTATCGTTTTTCCAAGTG
66 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
* * *
20557631 GTATCGAAACCACTTAAGGAAAATATGGATAACTAGATATCAATATCAATACCTACGGACATTTT
131 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTACGGACATTTT
* *
20557696 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAATATGTATGATCAATTAACAAAT
196 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
*
20557760 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCAAT
1 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
* * * *
20557825 ATTTTTTGATAGTTGGGTTTTTAATTGACAAACAGTATGCTCATTTGGTATTGTTTTTCCAAGTG
66 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
*
20557890 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATCCCTACGGACATTTT
131 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTACGGACATTTT
* *
20557955 TATGAAATTTTGCTAATTAGCCCTTAAGCATGATGCTGGCAGTATGTATGATCAATTAACAAAT
196 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
* * * *
20558019 GATACCTTGGCTTGAGTATCAATACTCGAGGAAGAAATATCGATACTTTACTCGGTGGTATCGAT
1 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
* *
20558084 ATTTCTTGATAGTTGGGTTTTTAATCGAGAAATAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
66 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
*
20558149 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTATGGACATTTT
131 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTACGGACATTTT
* * *
20558214 TATGAAATTTTGCTAACTAGCCCTTATGCATGATGTTGGCAGTATGTATGACCGATTAACAAAT
196 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
20558278 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
1 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
*
20558343 ATTTTTTTATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
66 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
**
20558408 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTACAAACATTTT
131 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTACGGACATTTT
*
20558473 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCGATTAACAAAT
196 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
* **
20558537 GATACCTTGGCTCGAGTATCAATACTCAGGGAAGAAATATCGATACTTTATTCGGTGGTACTAAT
1 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
*
20558602 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAATATGCTCATTTGGTATCGTGTTTCCAAGTG
66 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
*
20558667 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTACAGACATTTT
131 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTACGGACATTTT
*
20558732 TATGAAAATTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
196 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
20558796 GAT
1 GAT
20558799 TTGCATGTAA
Statistics
Matches: 984, Mismatches: 55, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
259 984 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (259 bp):
GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTACGGACATTTT
TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
Found at i:20559081 original size:5 final size:5
Alignment explanation
Indices: 20559062--20559098 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
20559052 TTATACTTGT
*
20559062 TTATA ATAT- TTATA TTATA TTATA TTATA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
20559099 CATCTTGTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:20561876 original size:41 final size:42
Alignment explanation
Indices: 20561831--20561973 Score: 157
Period size: 41 Copynumber: 3.4 Consensus size: 42
20561821 TACTCGGTGA
* * *
20561831 AATCAGCACTTAGTAACCACC-TTATATTCAATGATACGGGG
1 AATCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGG
* * *
20561872 AATCAGCACATAGCAACC-CCTTTCACAATCAAGGATATGGTGG
1 AATCAGCACTTAGCAACCACCTTT-ACAATCAATGATACGG-GG
* * * *
20561915 AATTAGCACTTAGCAACCACCTTTAGAATCAATAATTC-GGG
1 AATCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGG
20561956 AATCAGCACTTAGCAACC
1 AATCAGCACTTAGCAACC
20561974 CCTCGGGGAA
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
40 2 0.02
41 37 0.44
42 13 0.15
43 27 0.32
44 5 0.06
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (42 bp):
AATCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGG
Found at i:20561931 original size:43 final size:40
Alignment explanation
Indices: 20561869--20561976 Score: 126
Period size: 43 Copynumber: 2.6 Consensus size: 40
20561859 CAATGATACG
* * *
20561869 GGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATATG
1 GGGAATCAGCACTTAGCAACCCCTTT-ACAATCAAGAAT-TC
* * *
20561911 GTGGAATTAGCACTTAGCAACCACCTTTAGAATCAATAATTC
1 G-GGAATCAGCACTTAGCAACC-CCTTTACAATCAAGAATTC
20561953 GGGAATCAGCACTTAGCAACCCCT
1 GGGAATCAGCACTTAGCAACCCCT
20561977 CGGGGAAATT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
40 3 0.05
41 19 0.33
42 3 0.05
43 27 0.47
44 5 0.09
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (40 bp):
GGGAATCAGCACTTAGCAACCCCTTTACAATCAAGAATTC
Found at i:20562033 original size:67 final size:68
Alignment explanation
Indices: 20561915--20562041 Score: 161
Period size: 67 Copynumber: 1.9 Consensus size: 68
20561905 GATATGGTGG
*
20561915 AATTAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGAATCAGCACTTAGCAACCCCTCGG
1 AATTAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGAATCAGCACTTAACAACCCCTCGG
20561980 GGA
66 GGA
* * * * *
20561983 AATT-GCACTTAGCAACCTCTTTTTG-ATCAGTAATTTGGGGAATCTA-CACTTAACAACCC
1 AATTAGCACTTAGCAACCACCTTTAGAATCAATAA-TTCGGGAATC-AGCACTTAACAACCC
20562042 ATTTTCGATC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
66 7 0.14
67 39 0.76
68 5 0.10
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (68 bp):
AATTAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGAATCAGCACTTAACAACCCCTCGG
GGA
Found at i:20562040 original size:41 final size:41
Alignment explanation
Indices: 20561988--20562082 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
20561978 GGGGAAATTG
* * *
20561988 CACTTAGCAACCTC-TTTTTGATCAGTAATTTGGGGAATCTA
1 CACTTAGCAACC-CATTTTCGATCAATAATTCGGGGAATCTA
* * *
20562029 CACTTAACAACCCATTTTCGATCAATGATTCGGGGAATCTG
1 CACTTAGCAACCCATTTTCGATCAATAATTCGGGGAATCTA
20562070 CACTTAGCAACCC
1 CACTTAGCAACCC
20562083 CTTACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 1 0.02
41 45 0.98
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (41 bp):
CACTTAGCAACCCATTTTCGATCAATAATTCGGGGAATCTA
Found at i:20565114 original size:18 final size:16
Alignment explanation
Indices: 20565080--20565147 Score: 68
Period size: 15 Copynumber: 4.2 Consensus size: 16
20565070 TAATAATAAT
20565080 AAAGAAAGAAAAAGAA
1 AAAGAAAGAAAAAGAA
*
20565096 ATAGAAAGAACAAACGAA
1 AAAGAAAGAA-AAA-GAA
* *
20565114 AAAGAAAGAAACA-TA
1 AAAGAAAGAAAAAGAA
*
20565129 AAGGAAAG-AAAAGAA
1 AAAGAAAGAAAAAGAA
20565144 AAAG
1 AAAG
20565148 GGAAGGAAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
14 3 0.07
15 12 0.29
16 9 0.22
17 5 0.12
18 12 0.29
ACGTcount: A:0.74, C:0.04, G:0.19, T:0.03
Consensus pattern (16 bp):
AAAGAAAGAAAAAGAA
Found at i:20565157 original size:16 final size:16
Alignment explanation
Indices: 20565083--20565159 Score: 52
Period size: 16 Copynumber: 4.8 Consensus size: 16
20565073 TAATAATAAA
*
20565083 GAAAGAAAAAGAAATA-
1 GAAAG-AAAAGAAAAAG
20565099 GAAAGAACAAACGAAAAA-
1 GAAAG-A-AAA-GAAAAAG
* *
20565117 GAAAG-AAACATAAAG
1 GAAAGAAAAGAAAAAG
20565132 GAAAGAAAAGAAAAAG
1 GAAAGAAAAGAAAAAG
* *
20565148 GGAAGGAAAGAA
1 GAAAGAAAAGAA
20565160 GGAGAAAGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
14 4 0.08
15 8 0.16
16 25 0.50
17 3 0.06
18 10 0.20
ACGTcount: A:0.70, C:0.04, G:0.23, T:0.03
Consensus pattern (16 bp):
GAAAGAAAAGAAAAAG
Found at i:20565843 original size:2 final size:2
Alignment explanation
Indices: 20565838--20565895 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
20565828 TATATATATA
20565838 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
20565880 TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG
20565896 ATTATATGAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:20567089 original size:11 final size:11
Alignment explanation
Indices: 20567069--20567102 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
20567059 ATAAAAAAAT
*
20567069 TATTTGTTTTAG
1 TATTT-TTTTAA
20567081 TATTTTTTTAA
1 TATTTTTTTAA
20567092 TATTTTTTTAA
1 TATTTTTTTAA
20567103 AAAAATAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (11 bp):
TATTTTTTTAA
Found at i:20573237 original size:29 final size:29
Alignment explanation
Indices: 20573195--20573254 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
20573185 TTTTCAAGAC
*
20573195 CTGCTTAAAAGCAATTATATTAGAGCGAA
1 CTGCTTAAAAGCAATTATATTAGAGAGAA
20573224 CTGCTTAAAAGCAATTATATTAGAGAGAA
1 CTGCTTAAAAGCAATTATATTAGAGAGAA
20573253 CT
1 CT
20573255 ACCAGATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (29 bp):
CTGCTTAAAAGCAATTATATTAGAGAGAA
Found at i:20578461 original size:43 final size:43
Alignment explanation
Indices: 20578400--20578711 Score: 351
Period size: 43 Copynumber: 7.0 Consensus size: 43
20578390 TTGCGGCGTT
* * * *
20578400 TATAGATCATGATCTTTAGCTGCACTTTTTCCACAAACGCCGC
1 TATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGC
* *
20578443 TATAGATCAGGACCTTTAGCGGCGATTTTTCCACAAACGCCGC
1 TATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGC
* *
20578486 TATAAATCAATACCTTTAGCGGCGC-TTTTCACACAAACGCCGC
1 TATAGATCAAGACCTTTAGCGGCGCTTTTTC-CACAAACGCCGC
* ***
20578529 TATAGATCAATACCTTTAGCGGCGCTTTCGACACAAACGCCGC
1 TATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGC
* *
20578572 TATAGCTCAAGA-CTTTAGCGGCGCTTTCTCCACAAACGCCGC
1 TATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGC
*
20578614 TATAGATCAAGATATAGCTCAAACTTTAGCGGCGCTTTCTCCACAAACGCCGC
1 TATAGATCAAG----A---C---CTTTAGCGGCGCTTTTTCCACAAACGCCGC
*
20578667 TATAGATCAAGACCTTTAGCGGCGC-TTTTCACACAAATGCCGC
1 TATAGATCAAGACCTTTAGCGGCGCTTTTTC-CACAAACGCCGC
20578710 TA
1 TA
20578712 AAAAACTATC
Statistics
Matches: 235, Mismatches: 20, Indels: 28
0.83 0.07 0.10
Matches are distributed among these distances:
42 47 0.20
43 142 0.60
44 2 0.01
46 2 0.01
49 1 0.00
53 41 0.17
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (43 bp):
TATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGC
Found at i:20578653 original size:53 final size:54
Alignment explanation
Indices: 20578572--20578678 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 54
20578562 CAAACGCCGC
20578572 TATAGCTCAAGACTTTAGCGGCGCTTTCTCCACAAACGCCGCTATAGATCAAGA
1 TATAGCTCAAGACTTTAGCGGCGCTTTCTCCACAAACGCCGCTATAGATCAAGA
20578626 TATAGCTCAA-ACTTTAGCGGCGCTTTCTCCACAAACGCCGCTATAGATCAAGA
1 TATAGCTCAAGACTTTAGCGGCGCTTTCTCCACAAACGCCGCTATAGATCAAGA
20578679 CCTTTAGCGG
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 43 0.81
54 10 0.19
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (54 bp):
TATAGCTCAAGACTTTAGCGGCGCTTTCTCCACAAACGCCGCTATAGATCAAGA
Found at i:20584580 original size:26 final size:26
Alignment explanation
Indices: 20584548--20584609 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
20584538 TTTGGCAATA
20584548 CTTTTGAAAAGTG-ATGTGAAAAAGTG
1 CTTTTGAAAAGTGCATGTG-AAAAGTG
* * * *
20584574 CTTTTGAGAAGTGCTTTTGAGAAGTG
1 CTTTTGAAAAGTGCATGTGAAAAGTG
20584600 CTTTTGAAAA
1 CTTTTGAAAA
20584610 ATTTGAGTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 27 0.90
27 3 0.10
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (26 bp):
CTTTTGAAAAGTGCATGTGAAAAGTG
Found at i:20584585 original size:13 final size:13
Alignment explanation
Indices: 20584569--20584606 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
20584559 TGATGTGAAA
20584569 AAGTGCTTTTGAG
1 AAGTGCTTTTGAG
20584582 AAGTGCTTTTGAG
1 AAGTGCTTTTGAG
20584595 AAGTGCTTTTGA
1 AAGTGCTTTTGA
20584607 AAAATTTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.29, T:0.39
Consensus pattern (13 bp):
AAGTGCTTTTGAG
Found at i:20591848 original size:46 final size:47
Alignment explanation
Indices: 20591797--20591964 Score: 189
Period size: 46 Copynumber: 3.6 Consensus size: 47
20591787 TAAGCTCATT
* *
20591797 CATATGTTGCAGACTCGAGATTACAGGAA-TAGGTTTCGAGCTCCTA
1 CATATGTTGCAGACTCGAGAATACAGGAATTAGGTTTCGAGCTCCTG
* * * *
20591843 CATATGTTGTAGACTCGAGAATATA-GAATTAGGTTCCAAGCTCCTG
1 CATATGTTGCAGACTCGAGAATACAGGAATTAGGTTTCGAGCTCCTG
* * * * *
20591889 CATATGTTGCGGACTTGAGAATAC-GGAATTAGGTTTTGTGTTCCTG
1 CATATGTTGCAGACTCGAGAATACAGGAATTAGGTTTCGAGCTCCTG
* * *
20591935 TATCTGTTGCAGACTCGAGAATACAAGAAT
1 CATATGTTGCAGACTCGAGAATACAGGAAT
20591965 ATTAAGCCTT
Statistics
Matches: 99, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
45 3 0.03
46 92 0.93
47 4 0.04
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (47 bp):
CATATGTTGCAGACTCGAGAATACAGGAATTAGGTTTCGAGCTCCTG
Found at i:20591943 original size:92 final size:92
Alignment explanation
Indices: 20591781--20591957 Score: 221
Period size: 92 Copynumber: 1.9 Consensus size: 92
20591771 GAGTTTGCCC
* * *
20591781 AGGTTCTAAGCTCATTCATATGTTGCAGACTCGAGATTACAGGAATAGGTTTCGAGCTCCTACAT
1 AGGTTCCAAGCTCATGCATATGTTGCAGACTCGAGAATACAGGAATAGGTTTCGAGCTCCTACAT
*
20591846 ATGTTGTAGACTCGAGAATATAGAATT
66 ATGTTGCAGACTCGAGAATATAGAATT
* * * * * * **
20591873 AGGTTCCAAGCTCCTGCATATGTTGCGGACTTGAGAATAC-GGAATTAGGTTTTGTGTTCCTGTA
1 AGGTTCCAAGCTCATGCATATGTTGCAGACTCGAGAATACAGGAA-TAGGTTTCGAGCTCCTACA
*
20591937 TCTGTTGCAGACTCGAGAATA
65 TATGTTGCAGACTCGAGAATA
20591958 CAAGAATATT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
91 4 0.06
92 67 0.94
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (92 bp):
AGGTTCCAAGCTCATGCATATGTTGCAGACTCGAGAATACAGGAATAGGTTTCGAGCTCCTACAT
ATGTTGCAGACTCGAGAATATAGAATT
Found at i:20602403 original size:75 final size:75
Alignment explanation
Indices: 20602265--20602405 Score: 210
Period size: 75 Copynumber: 1.9 Consensus size: 75
20602255 GACTTACTAG
* * *
20602265 TTAACATTCAACCTTTCTTTTCTACCAACAAATTTACATATCAAACAACCTATATAGATTCATAT
1 TTAACATTCAACCTTTCTTTTCTACCAACAAATTTACATATCAAACAACCTATACAAAGTCATAT
20602330 TACTCATTAC
66 TACTCATTAC
* * ** *
20602340 TTAATATTCAACCTTTCTTTTCTATCAGTAGATTTACATATCAAACAACCTATACAAAGTCATAT
1 TTAACATTCAACCTTTCTTTTCTACCAACAAATTTACATATCAAACAACCTATACAAAGTCATAT
20602405 T
66 T
20602406 TGCTTATTCG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 58 1.00
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.38
Consensus pattern (75 bp):
TTAACATTCAACCTTTCTTTTCTACCAACAAATTTACATATCAAACAACCTATACAAAGTCATAT
TACTCATTAC
Found at i:20606109 original size:10 final size:10
Alignment explanation
Indices: 20606062--20606109 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
20606052 CCATTACGTA
20606062 TTTAATTGTGT
1 TTTAATT-TGT
*
20606073 GTTTATTTTGT
1 -TTTAATTTGT
*
20606084 TTTAAGTTGT
1 TTTAATTTGT
20606094 TTTAATTTGT
1 TTTAATTTGT
*
20606104 CTTAAT
1 TTTAAT
20606110 AGATTTAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 22 0.71
11 3 0.10
12 6 0.19
ACGTcount: A:0.19, C:0.02, G:0.15, T:0.65
Consensus pattern (10 bp):
TTTAATTTGT
Found at i:20615375 original size:49 final size:50
Alignment explanation
Indices: 20615295--20615533 Score: 142
Period size: 50 Copynumber: 4.7 Consensus size: 50
20615285 GATAATAACA
* * * * *
20615295 TGCCAAAGCCATGTCCCAGACATGGTATTACATGAGATGTT-TCATGT-AC
1 TGCCAATGCCATGTCCTAGATATGGTCTTACATGAGA-GTTCTCATATCAC
* * * * *
20615344 TGCCAATGCCATATCCTAGATATGATCTTACATGGGAGTTCTTATATCAG
1 TGCCAATGCCATGTCCTAGATATGGTCTTACATGAGAGTTCTCATATCAC
* ** * ** * *
20615394 TGCCCATGCCATGTCCTAGATATGGTCTTACGGGGGACCTCTCATCTTGA-
1 TGCCAATGCCATGTCCTAGATATGGTCTTACATGAGAGTTCTCAT-ATCAC
* * * * ** *
20615444 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCTAGATATGGTCTTACATGAGAGTTCTCAT-A--TC---AC
* *
20615500 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCTAGATATGGTCTTACATG
20615534 GGATCTCATT
Statistics
Matches: 151, Mismatches: 30, Indels: 11
0.79 0.16 0.06
Matches are distributed among these distances:
48 3 0.02
49 34 0.23
50 77 0.51
51 2 0.01
52 1 0.01
55 1 0.01
56 33 0.22
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCTAGATATGGTCTTACATGAGAGTTCTCATATCAC
Found at i:20616497 original size:46 final size:46
Alignment explanation
Indices: 20616445--20616832 Score: 490
Period size: 46 Copynumber: 8.5 Consensus size: 46
20616435 ACTAACTATA
*
20616445 ATGTAACAAATTGGGCAGCATTTA-AGCATCAAAATTGGACAGCATT
1 ATGTAACAAATTGGGCAGCATTTAGA-CATCAAAATTGGGCAGCATT
* *
20616491 ATGTAACAAATTGGGTAGCA-TTATGTA-A-C-ATATTGGGCAGCATTT
1 ATGTAACAAATTGGGCAGCATTTA-G-ACATCAAAATTGGGCAGCA-TT
* * * * *
20616536 AGGCATCAAAATTGGACAGCA-TTATGTA-A-C-AAATTGGGTAGCATT
1 ATGTAAC-AAATTGGGCAGCATTTA-G-ACATCAAAATTGGGCAGCATT
* * *
20616581 ATGTAACATATTGGGCAGCATTTAGGCATCAAAATTGGACAGCATT
1 ATGTAACAAATTGGGCAGCATTTAGACATCAAAATTGGGCAGCATT
*
20616627 ATGTAACAAATTGGGCAGCATTTAGACATCAAAATTGGGTAGCATT
1 ATGTAACAAATTGGGCAGCATTTAGACATCAAAATTGGGCAGCATT
*
20616673 ATGTAACAAATTGGGCAGCATTTAGACATCAAAATTGGGTAGCATT
1 ATGTAACAAATTGGGCAGCATTTAGACATCAAAATTGGGCAGCATT
*
20616719 ATGTAACAAATTGGGCAGCATTTAGACATCAAAAATTGGACA-CATT
1 ATGTAACAAATTGGGCAGCATTTAGACATC-AAAATTGGGCAGCATT
*
20616765 ATGTAACAAATTGGGCAGCATTTAGACATCAAAATTGGGTAGCATT
1 ATGTAACAAATTGGGCAGCATTTAGACATCAAAATTGGGCAGCATT
*
20616811 ATGTAACAAATTGGGTAGCATT
1 ATGTAACAAATTGGGCAGCATT
20616833 ATGTAACAAA
Statistics
Matches: 304, Mismatches: 27, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
44 24 0.08
45 29 0.10
46 241 0.79
47 9 0.03
48 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.28
Consensus pattern (46 bp):
ATGTAACAAATTGGGCAGCATTTAGACATCAAAATTGGGCAGCATT
Found at i:20616824 original size:206 final size:206
Alignment explanation
Indices: 20616498--20617030 Score: 774
Period size: 206 Copynumber: 2.6 Consensus size: 206
20616488 ATTATGTAAC
20616498 AAATTGGGTAGCATTATGTAACATATTGGGCAGCATTTAGGCATCAAAATTGGACAGCATTATGT
1 AAATTGGGTAGCATTATGTAACATATTGGGCAGCATTTAGGCATCAAAATTGGACAGCATTATGT
* * * * *
20616563 AACAAATTGGGTAGCA-TTATGTA-A-C-ATATTGGGCAGCATTTAGGCATCAAAATTGGACAGC
66 AACAAATTGGGCAGCATTTA-G-ACATCAAAATTGGGCAGCA-TTATGTAAC-AAATTGGACAGC
** *
20616624 ATTATGTAACAAATTGGGCAGCATTTAGACATCAAAATTGGGTAGCATTATGTAACAAATTGGGC
127 ATTATGTAACAAATTGGGCAGCATTTAGACATCAAAATTGGACAACATTATGTAACAAATTGGGC
20616689 AGCATTT-AGACATCA
192 AGCATTTAAG-CATCA
* *
20616704 AAATTGGGTAGCATTATGTAACAAATTGGGCAGCATTTAGACATCAAAAATTGGACA-CATTATG
1 AAATTGGGTAGCATTATGTAACATATTGGGCAGCATTTAGGCATC-AAAATTGGACAGCATTATG
* **
20616768 TAACAAATTGGGCAGCATTTAGACATCAAAATTGGGTAGCATTATGTAACAAATTGGGTAGCATT
65 TAACAAATTGGGCAGCATTTAGACATCAAAATTGGGCAGCATTATGTAACAAATTGGACAGCATT
* *
20616833 ATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGGACAACATTATGTAACAATTTGGGCAGC
130 ATGTAACAAATTGGGCAGCATTTAGACATCAAAATTGGACAACATTATGTAACAAATTGGGCAGC
20616898 ATTTAAGCATCA
195 ATTTAAGCATCA
* ** *
20616910 AAATTCGACAGCATTATGTAACATATTGGGCGGCATTTAGGCATCAAAATTGGACAGCATTATGT
1 AAATTGGGTAGCATTATGTAACATATTGGGCAGCATTTAGGCATCAAAATTGGACAGCATTATGT
*
20616975 AACAAATTGGGCAGCATTTA-AGCATCAAAATTGGACAGCATTATGTAACAAATTGG
66 AACAAATTGGGCAGCATTTAGA-CATCAAAATTGGGCAGCATTATGTAACAAATTGG
20617031 GCAACATTTA
Statistics
Matches: 296, Mismatches: 23, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
205 13 0.04
206 249 0.84
207 23 0.08
208 11 0.04
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (206 bp):
AAATTGGGTAGCATTATGTAACATATTGGGCAGCATTTAGGCATCAAAATTGGACAGCATTATGT
AACAAATTGGGCAGCATTTAGACATCAAAATTGGGCAGCATTATGTAACAAATTGGACAGCATTA
TGTAACAAATTGGGCAGCATTTAGACATCAAAATTGGACAACATTATGTAACAAATTGGGCAGCA
TTTAAGCATCA
Found at i:20616868 original size:46 final size:46
Alignment explanation
Indices: 20616818--20617141 Score: 522
Period size: 46 Copynumber: 7.0 Consensus size: 46
20616808 ATTATGTAAC
** *
20616818 AAATTGGGTAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
* *
20616864 AAATTGGACAACATTATGTAACAATTTGGGCAGCATTTAAGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
* * * *
20616910 AAATTCGACAGCATTATGTAACATATTGGGCGGCATTTAGGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
20616956 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
*
20617002 AAATTGGACAGCATTATGTAACAAATTGGGCAACATTTAAGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
* *
20617048 AAATTGGACAGCATTATGTAACAAATTGGGCAACATTTAGGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
* *
20617094 AAATTGGACAGCATTATGCAACAAATTGGGCAGCATTTATGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
20617140 AA
1 AA
20617142 TCAATCCATC
Statistics
Matches: 258, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 258 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (46 bp):
AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
Found at i:20616868 original size:92 final size:92
Alignment explanation
Indices: 20616476--20617141 Score: 541
Period size: 92 Copynumber: 7.3 Consensus size: 92
20616466 TTAAGCATCA
* * * ** * *
20616476 AAATTGGACAGCA-TTATGTAAC-AAATTGGGTAGCATTATGTAACATATTGGGCAGCATTTAGG
1 AAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTATG
*
20616539 CATCAAAATTGGACAGCATTATGTAAC
66 CAACAAAATTGGACAGCATTATGTAAC
* * * * * * * * *
20616566 AAATTGGGTAGCA-TTATGTAAC-ATATTGGGCAGCATTTAGGCATCAAAATTGGACAGCA-TTA
1 AAATTGGGCAGCATTTATGCATCAAAATTGGACAGCA-TTATGTAAC-AAATTGGGCAGCATTTA
* *
20616628 TGTAAC-AAATTGGGCAGCATT-TAG-ACATC
64 TGCAACAAAATTGGACAGCATTAT-GTA-A-C
* * * * *
20616657 AAAATTGGGTAGCA-TTATGTAAC-AAATTGGGCAGCATT-TAG-ACATCAAAATTGGGTAGCA-
1 -AAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATTAT-GTA-A-C-AAATTGGGCAGCAT
* *
20616717 TTATGTAAC-AAATTGGGCAGCATT-TAG-ACATC
61 TTATGCAACAAAATTGGACAGCATTAT-GTA-A-C
* * * * *
20616749 AAAAATTGGACA-CA-TTATGTAAC-AAATTGGGCAGCATT-TAG-ACATCAAAATTGGGTAGCA
1 --AAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATTAT-GTA-A-C-AAATTGGGCAGCA
* **
20616809 -TTATGTAAC-AAATTGGGTAGCATTATGTAAC
60 TTTATGCAACAAAATTGGACAGCATTATGTAAC
* * * *
20616840 AAATTGGGCAGCATTTAGGCATCAAAATTGGACAACATTATGTAACAATTTGGGCAGCATTTAAG
1 AAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTATG
* *
20616905 CATCAAAATTCGACAGCATTATGTAAC
66 CAACAAAATTGGACAGCATTATGTAAC
* * * *
20616932 ATATTGGGCGGCATTTAGGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAG
1 AAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTATG
*
20616997 CATCAAAATTGGACAGCATTATGTAAC
66 CAACAAAATTGGACAGCATTATGTAAC
* * * *
20617024 AAATTGGGCAACATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAACATTTAGG
1 AAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTATG
* *
20617089 CATCAAAATTGGACAGCATTATGCAAC
66 CAACAAAATTGGACAGCATTATGTAAC
20617116 AAATTGGGCAGCATTTATGCATCAAA
1 AAATTGGGCAGCATTTATGCATCAAA
20617142 TCAATCCATC
Statistics
Matches: 508, Mismatches: 49, Indels: 36
0.86 0.08 0.06
Matches are distributed among these distances:
89 11 0.02
90 61 0.12
91 30 0.06
92 393 0.77
93 13 0.03
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (92 bp):
AAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTATG
CAACAAAATTGGACAGCATTATGTAAC
Found at i:20616897 original size:252 final size:252
Alignment explanation
Indices: 20616498--20617077 Score: 934
Period size: 252 Copynumber: 2.3 Consensus size: 252
20616488 ATTATGTAAC
** * *
20616498 AAATTGGGTAGCATTATGTAACATATTGGGCAGCATTTAGGCATCAAAATTGGACAGCATTATGT
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGACATCAAAATTGGACAGCATTATGT
* *
20616563 AACAAATTGGGTAGCATTATGTAACATATTGGGCAGCATTTAGGCATCAAAATTGGACAGCATTA
66 AACAAATTGGGTAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGGACAACATTA
* **
20616628 TGTAACAAATTGGGCAGCATTT-AGACATCAAAATTGGGTAGCATTATGTAACAAATTGGGCAGC
131 TGTAACAAATTGGGCAGCATTTAAG-CATCAAAATTCGACAGCATTATGTAACAAATTGGGCAGC
**
20616692 ATTTAGACATCAAAATTGGGTAGCATTATGTAACAAATTGGGCAGCATTT-AGACATCAA
195 ATTTAGACATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAG-CATC-A
**
20616751 AAATTGGACA-CATTATGTAACAAATTGGGCAGCATTTAGACATCAAAATTGGGTAGCATTATGT
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGACATCAAAATTGGACAGCATTATGT
20616815 AACAAATTGGGTAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGGACAACATTA
66 AACAAATTGGGTAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGGACAACATTA
* * *
20616880 TGTAACAATTTGGGCAGCATTTAAGCATCAAAATTCGACAGCATTATGTAACATATTGGGCGGCA
131 TGTAACAAATTGGGCAGCATTTAAGCATCAAAATTCGACAGCATTATGTAACAAATTGGGCAGCA
*
20616945 TTTAGGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
196 TTTAGACATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
*
20617002 AAATTGGACAGCATTATGTAACAAATTGGGCAACATTTA-AGCATCAAAATTGGACAGCATTATG
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGA-CATCAAAATTGGACAGCATTATG
20617066 TAACAAATTGGG
65 TAACAAATTGGG
20617078 CAACATTTAG
Statistics
Matches: 303, Mismatches: 20, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
251 12 0.04
252 279 0.92
253 12 0.04
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (252 bp):
AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGACATCAAAATTGGACAGCATTATGT
AACAAATTGGGTAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGGACAACATTA
TGTAACAAATTGGGCAGCATTTAAGCATCAAAATTCGACAGCATTATGTAACAAATTGGGCAGCA
TTTAGACATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
Found at i:20616914 original size:138 final size:137
Alignment explanation
Indices: 20616498--20617141 Score: 536
Period size: 138 Copynumber: 4.7 Consensus size: 137
20616488 ATTATGTAAC
** * *
20616498 AAATTGGGTAGCATTATGTAACATATTGGGCAGCATTTAGGCATCAAAATTGGACAGCATTATGT
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCAACAAAATTGGACAGCATTATGT
* * * * * * * * *
20616563 AACAAATTGGGTAGCA-TTATGTAAC-ATATTGGGCAGCATTTAGGCATCAAAATTGGACAGCA-
66 AACAAATTGGGCAGCATTTATGCATCAAAATTGGACAGCA-TTATGTAAC-AAATTGGGCA-CAT
* * *
20616625 TTATGTAAC-
128 TTAAGCATCA
* * * * *
20616634 AAATTGGGCAGCATT-TAG-ACATCAAAATTGGGTAGCA-TTATGTAAC-AAATTGGGCAGCATT
1 AAATTGGACAGCATTAT-GTA-A-C-AAATTGGGCAGCATTTAGGCAACAAAATTGGACAGCATT
* * * *
20616695 -TAG-ACATCAAAATTGGGTAGCA-TTATGTAAC-AAATTGGGCAGCATT-TAG-ACATCAAAAA
62 AT-GTA-A-C-AAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATTAT-GTA-A-C--AAA
* * * *
20616754 TTGGACACA-TTATGTAAC-
118 TTGGGCACATTTAAGCATCA
* * * * **
20616772 AAATTGGGCAGCATT-TAG-ACATCAAAATTGGGTAGCA-TTATGTAAC-AAATTGGGTAGCATT
1 AAATTGGACAGCATTAT-GTA-A-C-AAATTGGGCAGCATTTAGGCAACAAAATTGGACAGCATT
* * *
20616833 ATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGGACAACATTATGTAACAATTTGGGCAGC
62 ATGTAACAAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCA-C
20616898 ATTTAAGCATCA
126 ATTTAAGCATCA
* * * *
20616910 AAATTCGACAGCATTATGTAACATATTGGGCGGCATTTAGGCATCAAAATTGGACAGCATTATGT
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCAACAAAATTGGACAGCATTATGT
*
20616975 AACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAACATTT
66 AACAAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATTATGTAACAAATTGGGC-ACATTT
20617040 AAGCATCA
130 AAGCATCA
* * *
20617048 AAATTGGACAGCATTATGTAACAAATTGGGCAACATTTAGGCATCAAAATTGGACAGCATTATGC
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCAACAAAATTGGACAGCATTATGT
20617113 AACAAATTGGGCAGCATTTATGCATCAAA
66 AACAAATTGGGCAGCATTTATGCATCAAA
20617142 TCAATCCATC
Statistics
Matches: 441, Mismatches: 41, Indels: 50
0.83 0.08 0.09
Matches are distributed among these distances:
135 12 0.03
136 57 0.13
137 32 0.07
138 322 0.73
139 18 0.04
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.28
Consensus pattern (137 bp):
AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCAACAAAATTGGACAGCATTATGT
AACAAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCACATTTA
AGCATCA
Found at i:20618029 original size:43 final size:43
Alignment explanation
Indices: 20617963--20618086 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 43
20617953 AACTCGTACA
* *
20617963 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCACATA-CCG
1 ATGCC-ACTGTCCCAGACGTGGTCTTACACGTAAACACA-AGCCG
*
20618006 ATGCCACTGTCCCAGACAG-GGTCTTACACGTAAACACAAGTCG
1 ATGCCACTGTCCCAGAC-GTGGTCTTACACGTAAACACAAGCCG
* *
20618049 ATGCCAATGTCCCAGATGTGGTCTTACACG-ATAACACA
1 ATGCCACTGTCCCAGACGTGGTCTTACACGTA-AACACA
20618087 TATCGAAAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
42 5 0.07
43 65 0.92
44 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACGTGGTCTTACACGTAAACACAAGCCG
Found at i:20625151 original size:46 final size:47
Alignment explanation
Indices: 20624971--20625188 Score: 325
Period size: 47 Copynumber: 4.6 Consensus size: 47
20624961 TCAATTAGGG
* * *
20624971 CAGCATATATATACAACAATTTGGGTAGCATTTAAGCATCAAAATTGGA
1 CAGCATATATGT--AACAAATTGGGCAGCATTTAAGCATCAAAATTGGA
* *
20625020 CAGCATATATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGAA
1 CAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGA
*
20625067 CAGCATATATATAACAAATTGGGCAGCATTTAAGCATCAAAATTGGA
1 CAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGA
20625114 CAGCAT-TATGTAACAAATTGGGCAGCATTT-AGACATCAAAATTGGA
1 CAGCATATATGTAACAAATTGGGCAGCATTTAAG-CATCAAAATTGGA
*
20625160 CAGCAT-TATGTAACAAATTGGGTAGCATT
1 CAGCATATATGTAACAAATTGGGCAGCATT
20625189 ATGTAACATA
Statistics
Matches: 158, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
45 2 0.01
46 64 0.41
47 81 0.51
49 11 0.07
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (47 bp):
CAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGA
Found at i:20625206 original size:114 final size:115
Alignment explanation
Indices: 20625068--20625295 Score: 370
Period size: 114 Copynumber: 2.0 Consensus size: 115
20625058 AAAATTGAAC
20625068 AGCATATATATAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATT
1 AGCATATATATAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATT
* *
20625133 GGGCAGCATTT-AGACATCAAAATTGGACAGCATTATGTAACAAATTGGGT
66 GGGCAGCATTTAAG-CATCAAAATTCGACAACATTATGTAACAAATTGGGT
* * * *
20625183 AGCAT-TATGTAACATATTGGGCAGCATTTAGGCATCAAAATTGGACAGCATTATGTAACAATTT
1 AGCATATATATAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATT
*
20625247 GGGCAGCATTTAAGCATCAAAATTCGACAACATTATGTAACATATTGGG
66 GGGCAGCATTTAAGCATCAAAATTCGACAACATTATGTAACAAATTGGG
20625296 CGGCATTTAG
Statistics
Matches: 105, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
114 98 0.93
115 7 0.07
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (115 bp):
AGCATATATATAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATT
GGGCAGCATTTAAGCATCAAAATTCGACAACATTATGTAACAAATTGGGT
Found at i:20625224 original size:46 final size:46
Alignment explanation
Indices: 20625174--20625451 Score: 430
Period size: 46 Copynumber: 6.0 Consensus size: 46
20625164 ATTATGTAAC
** *
20625174 AAATTGGGTAGCATTATGTAACATATTGGGCAGCATTTAGGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
* *
20625220 AAATTGGACAGCATTATGTAACAATTTGGGCAGCATTTAAGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
* * * *
20625266 AAATTCGACAACATTATGTAACATATTGGGCGGCATTTAGGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
*
20625312 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
* *
20625358 AAATTGGATAGCATTATGTAACAAATTGGGCAGCGTTTAGGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
* *
20625404 AAATTGGACAGCATTATGCAACAAATTGGGCAGCATTTATGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
20625450 AA
1 AA
20625452 TCAATCCATC
Statistics
Matches: 209, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 209 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (46 bp):
AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
Found at i:20625296 original size:160 final size:161
Alignment explanation
Indices: 20625012--20625348 Score: 559
Period size: 160 Copynumber: 2.1 Consensus size: 161
20625002 TTAAGCATCA
*
20625012 AAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGAACAGCATATAT
1 AAATTGGGCAGCAT-TATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGAACAGCATATAT
* *
20625077 ATAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCAT
65 ATAACAAATTGGGCAGCATTTAAGCATCAAAATTCGACAACATTATGTAACAAATTGGGCAGCAT
20625142 TTAGACATCAAAATTGGACAGCATTATGTAAC
130 TTAGACATCAAAATTGGACAGCATTATGTAAC
* * * *
20625174 AAATTGGGTAGCATTATGTAACATATTGGGCAGCATTTAGGCATCAAAATTGGACAGCAT-TATG
1 AAATTGGGCAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGAACAGCATATATA
* * *
20625238 TAACAATTTGGGCAGCATTTAAGCATCAAAATTCGACAACATTATGTAACATATTGGGCGGCATT
66 TAACAAATTGGGCAGCATTTAAGCATCAAAATTCGACAACATTATGTAACAAATTGGGCAGCATT
*
20625303 TAGGCATCAAAATTGGACAGCATTATGTAAC
131 TAGACATCAAAATTGGACAGCATTATGTAAC
20625334 AAATTGGGCAGCATT
1 AAATTGGGCAGCATT
20625349 TAAGCATCAA
Statistics
Matches: 163, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
160 107 0.66
161 44 0.27
162 12 0.07
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (161 bp):
AAATTGGGCAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGAACAGCATATATA
TAACAAATTGGGCAGCATTTAAGCATCAAAATTCGACAACATTATGTAACAAATTGGGCAGCATT
TAGACATCAAAATTGGACAGCATTATGTAAC
Found at i:20626342 original size:43 final size:43
Alignment explanation
Indices: 20626276--20626399 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 43
20626266 AACCCGTACA
* * *
20626276 ATGCCAACATCCCAGATGTGGTCTTACATGTAATCACATA-CCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAACACA-AGCCG
*
20626319 ATGCC-ACTGTCCCAGATAG-GGTCTTACACGTAAACACAAGTCG
1 ATGCCAAC-GTCCCAGAT-GTGGTCTTACACGTAAACACAAGCCG
*
20626362 ATGCCAACGTCCCAGACGTGGTCTTACACG-ATAACACA
1 ATGCCAACGTCCCAGATGTGGTCTTACACGTA-AACACA
20626400 TATCAGAAAT
Statistics
Matches: 70, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
42 5 0.07
43 62 0.89
44 3 0.04
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGATGTGGTCTTACACGTAAACACAAGCCG
Found at i:20631606 original size:50 final size:49
Alignment explanation
Indices: 20631516--20631636 Score: 116
Period size: 50 Copynumber: 2.4 Consensus size: 49
20631506 TTATGTACAT
* * * *
20631516 GTATGCTCATACGAGCTATGAATCGGTATGCTCACTCGAGCCATAGATTA
1 GTATGCTCTTACGAGCTAT-AATCAGTATGCTCACACGAGCCATAAATTA
* ** * *
20631566 GTATGCTCTTAGGAGCTATAATTCAGTATGCTTTCACGAGCTATAAATTG
1 GTATGCTCTTACGAGCTATAA-TCAGTATGCTCACACGAGCCATAAATTA
* * *
20631616 GCATGCTCTCATGAGCTATAA
1 GTATGCTCTTACGAGCTATAA
20631637 ATTGGTATAC
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
49 2 0.03
50 56 0.97
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (49 bp):
GTATGCTCTTACGAGCTATAATCAGTATGCTCACACGAGCCATAAATTA
Found at i:20631621 original size:25 final size:25
Alignment explanation
Indices: 20631518--20631657 Score: 95
Period size: 25 Copynumber: 5.6 Consensus size: 25
20631508 ATGTACATGT
* * *
20631518 ATGCTCAT-ACGAGCTATGAATCGGT
1 ATGCTC-TCACGAGCTATAAATTGGC
* * * * * *
20631543 ATGCTCACTCGAGCCATAGATTAGT
1 ATGCTCTCACGAGCTATAAATTGGC
* * * *
20631568 ATGCTCTTAGGAGCTAT-AATTCAGT
1 ATGCTCTCACGAGCTATAAATT-GGC
*
20631593 ATGCTTTCACGAGCTATAAATTGGC
1 ATGCTCTCACGAGCTATAAATTGGC
* *
20631618 ATGCTCTCATGAGCTATAAATTGGT
1 ATGCTCTCACGAGCTATAAATTGGC
*
20631643 ATACTCTCACGAGCT
1 ATGCTCTCACGAGCT
20631658 GTGGATTATC
Statistics
Matches: 89, Mismatches: 23, Indels: 6
0.75 0.19 0.05
Matches are distributed among these distances:
24 3 0.03
25 82 0.92
26 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (25 bp):
ATGCTCTCACGAGCTATAAATTGGC
Found at i:20637582 original size:23 final size:23
Alignment explanation
Indices: 20637539--20637591 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
20637529 GATTGTATAA
*
20637539 TTTTCTCTTTAGATTTAGTTTTAT
1 TTTTCTCTTTA-ACTTAGTTTTAT
20637563 TTTTCTCTTT-ACTTAGGTTTTAT
1 TTTTCTCTTTAACTTA-GTTTTAT
*
20637586 ATTTCT
1 TTTTCT
20637592 ATTCTTATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 4 0.15
23 12 0.46
24 10 0.38
ACGTcount: A:0.15, C:0.11, G:0.08, T:0.66
Consensus pattern (23 bp):
TTTTCTCTTTAACTTAGTTTTAT
Found at i:20639004 original size:17 final size:17
Alignment explanation
Indices: 20638984--20639017 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20638974 ATCTAACTAA
* *
20638984 TATAATGAAACATATAT
1 TATAATAAAACAAATAT
20639001 TATAATAAAACAAATAT
1 TATAATAAAACAAATAT
20639018 AGTAGAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (17 bp):
TATAATAAAACAAATAT
Found at i:20639254 original size:18 final size:18
Alignment explanation
Indices: 20639227--20639261 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20639217 CATTTGGTAT
20639227 CGATACTTCTATGAGTAC
1 CGATACTTCTATGAGTAC
*
20639245 CGATATTTCTATGAGTA
1 CGATACTTCTATGAGTA
20639262 TCAATACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (18 bp):
CGATACTTCTATGAGTAC
Found at i:20642422 original size:18 final size:19
Alignment explanation
Indices: 20642399--20642439 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
20642389 AATATTACAC
20642399 ATTTCAATTTT-ACATTAA
1 ATTTCAATTTTCACATTAA
*
20642417 ATTTCAATTTTCACATTAT
1 ATTTCAATTTTCACATTAA
20642436 ATTT
1 ATTT
20642440 TGCTTATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTCAATTTTCACATTAA
Found at i:20647609 original size:25 final size:24
Alignment explanation
Indices: 20647578--20647628 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
20647568 ATGGTTTTAA
20647578 TTAATTTTTAAATTTTTTATAAATT
1 TTAA-TTTTAAATTTTTTATAAATT
** *
20647603 TTAATTTTATGTTTTTTATATATT
1 TTAATTTTAAATTTTTTATAAATT
20647627 TT
1 TT
20647629 TAAAATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TTAATTTTAAATTTTTTATAAATT
Found at i:20658020 original size:25 final size:24
Alignment explanation
Indices: 20657989--20658039 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
20657979 ATGGTTTTAA
20657989 TTAATTTTTAAATTTTTTATAAATT
1 TTAA-TTTTAAATTTTTTATAAATT
** *
20658014 TTAATTTTATGTTTTTTATATATT
1 TTAATTTTAAATTTTTTATAAATT
20658038 TT
1 TT
20658040 TAAAATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TTAATTTTAAATTTTTTATAAATT
Found at i:20664226 original size:94 final size:94
Alignment explanation
Indices: 20664096--20664343 Score: 289
Period size: 94 Copynumber: 2.6 Consensus size: 94
20664086 GAGTTTGCCG
* * * *
20664096 AGACAGTAAACACGAGGTAGTCTACCATGACGTTAAACATGGGGTTACATGTGTAAGACCTTATC
1 AGACAGTAAACACGGGGTAGTCTACCAGGACATTAAACATGGGGTTACATGTGTAAGACCTTAGC
* * *
20664161 TCAACTATGGCAATATAAGGAGTCCATCA
66 TCAACTATGGCAACATAAGGAGCCCACCA
* ** * *
20664190 AGACAGCAAACACGGGGTAGTCTGTCAGGATATTAAACATGGGGATACATGTGTAAGACCTTAGC
1 AGACAGTAAACACGGGGTAGTCTACCAGGACATTAAACATGGGGTTACATGTGTAAGACCTTAGC
*** * ** *
20664255 TTGGCTATGGGAACATGGGGAGCCCACCG
66 TCAACTATGGCAACATAAGGAGCCCACCA
* * * *
20664284 GGATAGTAAACATGGGGTAGTCCACCAGGACATTAAACATGGGGTTACATGTGTAAGACC
1 AGACAGTAAACACGGGGTAGTCTACCAGGACATTAAACATGGGGTTACATGTGTAAGACC
20664344 ATAGTTTGGT
Statistics
Matches: 126, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
94 126 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.22
Consensus pattern (94 bp):
AGACAGTAAACACGGGGTAGTCTACCAGGACATTAAACATGGGGTTACATGTGTAAGACCTTAGC
TCAACTATGGCAACATAAGGAGCCCACCA
Found at i:20664320 original size:27 final size:27
Alignment explanation
Indices: 20664266--20664328 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
20664256 TGGCTATGGG
* *
20664266 AACATGGGG-AGCCCACCGGGATAGTA
1 AACATGGGGTAGCCCACCAGGACAGTA
* *
20664292 AACATGGGGTAGTCCACCAGGACATTA
1 AACATGGGGTAGCCCACCAGGACAGTA
20664319 AACATGGGGT
1 AACATGGGGT
20664329 TACATGTGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 9 0.28
27 23 0.72
ACGTcount: A:0.32, C:0.21, G:0.32, T:0.16
Consensus pattern (27 bp):
AACATGGGGTAGCCCACCAGGACAGTA
Found at i:20674140 original size:20 final size:21
Alignment explanation
Indices: 20674115--20674153 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
20674105 ATAATGTTAT
*
20674115 AAAATTT-TAACAATATAATG
1 AAAATTTATAACAAAATAATG
20674135 AAAATTTATAACAAAATAA
1 AAAATTTATAACAAAATAA
20674154 CATAAATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAATTTATAACAAAATAATG
Found at i:20681264 original size:39 final size:38
Alignment explanation
Indices: 20681206--20681279 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
20681196 CTAACACTCA
**
20681206 CACCAACTAGTTAGTAACTAACATAG-CCTACCAGTGGC
1 CACCAACTAGTTAACAACTAACAT-GTCCTACCAGTGGC
20681244 CACCAAACTAGTTAACAACTAACATGTCCTACCAGT
1 CACC-AACTAGTTAACAACTAACATGTCCTACCAGT
20681280 TGCCTATCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
38 5 0.16
39 27 0.84
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (38 bp):
CACCAACTAGTTAACAACTAACATGTCCTACCAGTGGC
Found at i:20685668 original size:40 final size:40
Alignment explanation
Indices: 20685608--20685707 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
20685598 TCGAAATGCT
* * *
20685608 AACAAAGGCACCGAAGTGCATACAAAGGTACCGAAGTGCA
1 AACAGAGGCACCAAAGTGCATACAAAGGTACCAAAGTGCA
* * *
20685648 AACAGAGGCACTAAAGTGCATACAGAGGTACTAAAGTGCA
1 AACAGAGGCACCAAAGTGCATACAAAGGTACCAAAGTGCA
*
20685688 CACAGAGGCACCAAAGTGCA
1 AACAGAGGCACCAAAGTGCA
20685708 AAAAGAGGCA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.11
Consensus pattern (40 bp):
AACAGAGGCACCAAAGTGCATACAAAGGTACCAAAGTGCA
Found at i:20685714 original size:20 final size:20
Alignment explanation
Indices: 20685608--20685717 Score: 112
Period size: 20 Copynumber: 5.5 Consensus size: 20
20685598 TCGAAATGCT
* *
20685608 AACAAAGGCACCGAAGTGCA
1 AACAGAGGCACCAAAGTGCA
* * * *
20685628 TACAAAGGTACCGAAGTGCA
1 AACAGAGGCACCAAAGTGCA
*
20685648 AACAGAGGCACTAAAGTGCA
1 AACAGAGGCACCAAAGTGCA
* * *
20685668 TACAGAGGTACTAAAGTGCA
1 AACAGAGGCACCAAAGTGCA
*
20685688 CACAGAGGCACCAAAGTGCA
1 AACAGAGGCACCAAAGTGCA
*
20685708 AAAAGAGGCA
1 AACAGAGGCA
20685718 TCGAAGTGTA
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 76 1.00
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.10
Consensus pattern (20 bp):
AACAGAGGCACCAAAGTGCA
Found at i:20685725 original size:40 final size:39
Alignment explanation
Indices: 20685590--20685725 Score: 105
Period size: 40 Copynumber: 3.4 Consensus size: 39
20685580 CAATCGCACC
* * * *
20685590 AGAGAGCATCGAAATGCTAACAAAGGCACCGAAGTGCATACA
1 AGAG-GCATCGAAGTGC-AACAGAGGCACCAAAGTGCA-AAA
* * * * *
20685632 A-AGGTACCGAAGTGCAAACAGAGGCACTAAAGTGCATAC
1 AGAGGCATCGAAGTGC-AACAGAGGCACCAAAGTGCAAAA
* *
20685671 AGAGGTA-CTAAAGTGCACACAGAGGCACCAAAGTGCAAAA
1 AGAGGCATC-GAAGTGCA-ACAGAGGCACCAAAGTGCAAAA
20685711 AGAGGCATCGAAGTG
1 AGAGGCATCGAAGTG
20685726 TAAATCCCGT
Statistics
Matches: 74, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
39 3 0.04
40 67 0.91
41 3 0.04
42 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.26, T:0.12
Consensus pattern (39 bp):
AGAGGCATCGAAGTGCAACAGAGGCACCAAAGTGCAAAA
Found at i:20686733 original size:69 final size:70
Alignment explanation
Indices: 20686649--20686785 Score: 231
Period size: 69 Copynumber: 2.0 Consensus size: 70
20686639 AAGAATTTTT
*
20686649 TTTTAATGTTTTTATGTTTTAACTAATGTTTATAATTTTAATTAATTAACAAATACATTACTTTA
1 TTTTAATGTTTTTATGTTTTAACTAATGTTTATAATTTTAATTAACTAACAAATACATTACTTTA
20686714 ATTTG
66 ATTTG
* * *
20686719 TTTT-ATGTTTTTATGTTTTAACTCATGTTTATAATTTTAGTTAACTAACAAATACATTATTTTA
1 TTTTAATGTTTTTATGTTTTAACTAATGTTTATAATTTTAATTAACTAACAAATACATTACTTTA
20686783 ATT
66 ATT
20686786 AAAACAACCT
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
69 59 0.94
70 4 0.06
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.55
Consensus pattern (70 bp):
TTTTAATGTTTTTATGTTTTAACTAATGTTTATAATTTTAATTAACTAACAAATACATTACTTTA
ATTTG
Found at i:20696204 original size:58 final size:58
Alignment explanation
Indices: 20696135--20696315 Score: 269
Period size: 57 Copynumber: 3.1 Consensus size: 58
20696125 TTTTCCAAAT
*
20696135 CATTTTCATTTTTCATTTAGGAGAAAACCGTATTCATTTCCAAATGTTTTCATTTCTC
1 CATTTTCATTTTTCATTTAGGAGAAAACCATATTCATTTCCAAATGTTTTCATTTCTC
*
20696193 CATTTTCA-TTTTCATTTAGGAGAAAACCATATTCATTTCCAAATGTTTCCATTTCTC
1 CATTTTCATTTTTCATTTAGGAGAAAACCATATTCATTTCCAAATGTTTTCATTTCTC
* * * *
20696250 CATTTTCATTTTCCTTTTA-GAGAAAACCATA-ACAATTTTCAAATGTTTCTCATTTCTC
1 CATTTTCATTTTTCATTTAGGAGAAAACCATATTC-ATTTCCAAATGTTT-TCATTTCTC
20696308 CATTTTCA
1 CATTTTCA
20696316 CAATCTCTAT
Statistics
Matches: 113, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
56 1 0.01
57 80 0.71
58 32 0.28
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (58 bp):
CATTTTCATTTTTCATTTAGGAGAAAACCATATTCATTTCCAAATGTTTTCATTTCTC
Found at i:20698288 original size:40 final size:39
Alignment explanation
Indices: 20698244--20698346 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 39
20698234 TGATATCAAT
20698244 TATGTCCGTTTGAGCCATACCTAGTGAATCTACTAAAACG
1 TATGTCC-TTTGAGCCATACCTAGTGAATCTACTAAAACG
* * *
20698284 TATGTGCTTTCGAGCCATACCTAGTGAATCTACTGAAATG
1 TATGTCCTTT-GAGCCATACCTAGTGAATCTACTAAAACG
*
20698324 AATG-CGCTTTTGAGCCATACCTA
1 TATGTC-C-TTTGAGCCATACCTA
20698347 CCGATTCCAC
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
39 3 0.05
40 49 0.89
41 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (39 bp):
TATGTCCTTTGAGCCATACCTAGTGAATCTACTAAAACG
Found at i:20698359 original size:40 final size:40
Alignment explanation
Indices: 20698255--20698434 Score: 184
Period size: 40 Copynumber: 4.5 Consensus size: 40
20698245 ATGTCCGTTT
* * *
20698255 GAGCCATACCTAGTGAATCTACTAAAACGTATGTGCTTTC
1 GAGCCATACCTACTGAATCTACTGAAACGTATGCGCTTTC
* * * *
20698295 GAGCCATACCTAGTGAATCTACTGAAATGAATGCGCTTTT
1 GAGCCATACCTACTGAATCTACTGAAACGTATGCGCTTTC
* * * *
20698335 GAGCCATACCTACCGATTCCACTGAAACGTATGCGCTATC
1 GAGCCATACCTACTGAATCTACTGAAACGTATGCGCTTTC
* * *
20698375 GAGCCTTACCTACTGATTCTACTGAAA-GTATGC-TTTATC
1 GAGCCATACCTACTGAATCTACTGAAACGTATGCGCTT-TC
* * *
20698414 GATCCATACCTAATGATTCTA
1 GAGCCATACCTACTGAATCTA
20698435 GTGGAAGTTG
Statistics
Matches: 118, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
38 1 0.01
39 26 0.22
40 91 0.77
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (40 bp):
GAGCCATACCTACTGAATCTACTGAAACGTATGCGCTTTC
Found at i:20698385 original size:80 final size:80
Alignment explanation
Indices: 20698252--20698401 Score: 210
Period size: 80 Copynumber: 1.9 Consensus size: 80
20698242 ATTATGTCCG
** * * * *
20698252 TTTGAGCCATACCTAGTGAATCTACTAAAACGTATGTGCTTTCGAGCCATACCTAGTGAATCTAC
1 TTTGAGCCATACCTACCGAATCCACTAAAACGTATGCGCTATCGAGCCATACCTACTGAATCTAC
20698317 TGAAATGAATGCGCT
66 TGAAATGAATGCGCT
* * * *
20698332 TTTGAGCCATACCTACCGATTCCACTGAAACGTATGCGCTATCGAGCCTTACCTACTGATTCTAC
1 TTTGAGCCATACCTACCGAATCCACTAAAACGTATGCGCTATCGAGCCATACCTACTGAATCTAC
20698397 TGAAA
66 TGAAA
20698402 GTATGCTTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 60 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (80 bp):
TTTGAGCCATACCTACCGAATCCACTAAAACGTATGCGCTATCGAGCCATACCTACTGAATCTAC
TGAAATGAATGCGCT
Found at i:20704246 original size:74 final size:74
Alignment explanation
Indices: 20704150--20704299 Score: 228
Period size: 74 Copynumber: 2.0 Consensus size: 74
20704140 AGTGGGCCAT
* * *
20704150 GGCCTCCCAAGGTTTAAAATTTTTTCAATTTAGCCCTTTGTAGATATACTATGGCCCTCCCAAAA
1 GGCCCCCCAAGGTTTAAAATTTTTGCAATTTAGCCCTTTGTAGATATACTATAGCCCTCCCAAAA
*
20704215 ATATAAGTA
66 ATACAAGTA
* ** *
20704224 GGCCCCCCAAGGTTTAAGATTTTTGCAATTTTTCCCTTTGTATATATACTATAGCCCTCCCAAAA
1 GGCCCCCCAAGGTTTAAAATTTTTGCAATTTAGCCCTTTGTAGATATACTATAGCCCTCCCAAAA
20704289 ATACAAGTA
66 ATACAAGTA
20704298 GG
1 GG
20704300 GCCTTCCAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (74 bp):
GGCCCCCCAAGGTTTAAAATTTTTGCAATTTAGCCCTTTGTAGATATACTATAGCCCTCCCAAAA
ATACAAGTA
Found at i:20704702 original size:18 final size:18
Alignment explanation
Indices: 20704675--20704713 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
20704665 TTCTAAATGT
*
20704675 AAAAGAAAAAT-CAAACA
1 AAAAGAAAAATAAAAACA
20704692 AAAATGAAAAATAAAAACA
1 AAAA-GAAAAATAAAAACA
20704711 AAA
1 AAA
20704714 GCAACCCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 7 0.37
19 8 0.42
ACGTcount: A:0.79, C:0.08, G:0.05, T:0.08
Consensus pattern (18 bp):
AAAAGAAAAATAAAAACA
Found at i:20712016 original size:22 final size:21
Alignment explanation
Indices: 20711964--20712030 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 21
20711954 CTGTTACGTT
20711964 TTTTCC-TTCTTCTCTTCTTC
1 TTTTCCTTTCTTCTCTTCTTC
** *
20711984 TTATTTTTTTCTTTTCTTCATTC
1 TT-TTCCTTTCTTCTCTTC-TTC
* *
20712007 TTTTCCTTTCCTCGTGTTCTTC
1 TTTTCCTTTCTTC-TCTTCTTC
20712029 TT
1 TT
20712031 CCTGTTCTTG
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
20 2 0.06
21 2 0.06
22 22 0.63
23 9 0.26
ACGTcount: A:0.03, C:0.27, G:0.03, T:0.67
Consensus pattern (21 bp):
TTTTCCTTTCTTCTCTTCTTC
Found at i:20715385 original size:18 final size:18
Alignment explanation
Indices: 20715362--20715397 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20715352 TGTATAATAT
* *
20715362 TATATCATGTTATTTTTA
1 TATATCAAGTAATTTTTA
20715380 TATATCAAGTAATTTTTA
1 TATATCAAGTAATTTTTA
20715398 ACACATAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (18 bp):
TATATCAAGTAATTTTTA
Found at i:20717961 original size:19 final size:19
Alignment explanation
Indices: 20717937--20717975 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
20717927 CAAAATGTAC
20717937 AATATAATTAAATAAATTA
1 AATATAATTAAATAAATTA
*
20717956 AATATAATTAAATAATTTA
1 AATATAATTAAATAAATTA
20717975 A
1 A
20717976 TTAACTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATATAATTAAATAAATTA
Found at i:20717964 original size:10 final size:10
Alignment explanation
Indices: 20717937--20717969 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
20717927 CAAAATGTAC
20717937 AATATAATTA
1 AATATAATTA
20717947 AATA-AATTA
1 AATATAATTA
20717956 AATATAATTA
1 AATATAATTA
20717966 AATA
1 AATA
20717970 ATTTAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AATATAATTA
Found at i:20717975 original size:9 final size:9
Alignment explanation
Indices: 20717937--20717975 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
20717927 CAAAATGTAC
20717937 AATATAATTA
1 AATA-AATTA
20717947 AATAAATTA
1 AATAAATTA
20717956 AATATAATTA
1 AATA-AATTA
*
20717966 AATAATTTA
1 AATAAATTA
20717975 A
1 A
20717976 TTAACTACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 14 0.52
10 13 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
AATAAATTA
Found at i:20720454 original size:30 final size:30
Alignment explanation
Indices: 20720410--20720467 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
20720400 CTAGGCCTTC
* * *
20720410 CCACACGGGTTGGACACACGGCCATGTGAG
1 CCACACAGGATGGACACACAGCCATGTGAG
20720440 CCACACAGGATGGACACACAGCCATGTG
1 CCACACAGGATGGACACACAGCCATGTG
20720468 CCACACCGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.31, G:0.29, T:0.12
Consensus pattern (30 bp):
CCACACAGGATGGACACACAGCCATGTGAG
Found at i:20723068 original size:13 final size:14
Alignment explanation
Indices: 20723050--20723081 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
20723040 GTCAATATTT
20723050 TATAATTACTT-AA
1 TATAATTACTTCAA
20723063 TATAATTACTTCAA
1 TATAATTACTTCAA
20723077 TATAA
1 TATAA
20723082 CAACCTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (14 bp):
TATAATTACTTCAA
Found at i:20727781 original size:25 final size:25
Alignment explanation
Indices: 20727746--20727795 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
20727736 ATACACTCAA
*
20727746 AAAATATAACGTAAACTTAAATCTT
1 AAAATAAAACGTAAACTTAAATCTT
*
20727771 AAAATAAAACGTAAATTTAAATCTT
1 AAAATAAAACGTAAACTTAAATCTT
20727796 GAAGATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.32
Consensus pattern (25 bp):
AAAATAAAACGTAAACTTAAATCTT
Found at i:20736572 original size:32 final size:32
Alignment explanation
Indices: 20736536--20736598 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
20736526 AACAACATGT
20736536 TGTTATAAAGATATAATCTTTATAATCTTACG
1 TGTTATAAAGATATAATCTTTATAATCTTACG
20736568 TGTTATAAAGATATAATCTTTATAATCTTAC
1 TGTTATAAAGATATAATCTTTATAATCTTAC
20736599 TATAGAATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (32 bp):
TGTTATAAAGATATAATCTTTATAATCTTACG
Found at i:20737911 original size:26 final size:27
Alignment explanation
Indices: 20737882--20737935 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
20737872 AAATATTTTT
20737882 AAGCAATAAATATT-ATTATTTATAAA
1 AAGCAATAAATATTAATTATTTATAAA
20737908 AAGCAATAAATATTAATTATTTATAAA
1 AAGCAATAAATATTAATTATTTATAAA
20737935 A
1 A
20737936 TTTAATTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (27 bp):
AAGCAATAAATATTAATTATTTATAAA
Found at i:20742565 original size:6 final size:6
Alignment explanation
Indices: 20742556--20742608 Score: 97
Period size: 6 Copynumber: 8.8 Consensus size: 6
20742546 TCTCCCATGA
*
20742556 ACATGT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
20742604 ACATA
1 ACATA
20742609 AACTTTCTGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (6 bp):
ACATAT
Found at i:20745079 original size:2 final size:2
Alignment explanation
Indices: 20745072--20745120 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
20745062 GATACTACAT
20745072 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
20745114 TC TC TC T
1 TC TC TC T
20745121 TTATTCTCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:20748314 original size:86 final size:83
Alignment explanation
Indices: 20748219--20748607 Score: 350
Period size: 81 Copynumber: 4.7 Consensus size: 83
20748209 ATTAAATCAA
* * * * * *
20748219 AATAAAATTTGTTAAACAGCGAGAATAAATTCCAAAACAGAATTATTTGA-TTAATTCTTTTTGT
1 AATAAAATCTGTTAAACAGAGAGAATAAATCCCGAAACAG-ATT-TTTAATTTAATTCTTTAT-T
*
20748283 TTGGAAAACAAAATCAAAATCG
63 TTGG-AAACAAAATTAAAATCG
* * *
20748305 AATAAAATTTGTTAAACAGAGGGAATAAATCTCGAAACAG-TTTTTCAATTTAATTC--TATTTT
1 AATAAAATCTGTTAAACAGAGAGAATAAATCCCGAAACAGATTTTT-AATTTAATTCTTTATTTT
20748367 GGAAACAAAATTAAAATCG
65 GGAAACAAAATTAAAATCG
* * *
20748386 AATAAAATCTGTTAAAC-GATAGGAATAAATCCCGAAACAGATTTTCAATTTAA-T-TTTATATT
1 AATAAAATCTGTTAAACAGAGA-GAATAAATCCCGAAACAGATTTTTAATTTAATTCTTTATTTT
20748448 GGAAACAAAATTAAAATCG
65 GGAAACAAAATTAAAATCG
* * **
20748467 AATAAAATCTGTTAAACGGAGAGAATAAATCCCGAAACATATTTTATTTAATTTTAATT-TCTCG
1 AATAAAATCTGTTAAACAGAGAGAATAAATCCCGAAACAGA--TT-TTTAA-TTTAATTCT-TTA
* * * *
20748531 TTTTAGCAACAAAATAGAAAATGG
61 TTTTGGAAACAAAAT-TAAAATCG
* * * **
20748555 AATAAAATCTATTAAA-TGACAAGAATAAATCTTGAAACAGA-TTTT-ATTTAATT
1 AATAAAATCTGTTAAACAGA-GAGAATAAATCCCGAAACAGATTTTTAATTTAATT
20748608 TTAATACTCG
Statistics
Matches: 258, Mismatches: 30, Indels: 34
0.80 0.09 0.11
Matches are distributed among these distances:
80 3 0.01
81 115 0.45
82 19 0.07
83 8 0.03
84 10 0.04
85 13 0.05
86 37 0.14
87 15 0.06
88 38 0.15
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (83 bp):
AATAAAATCTGTTAAACAGAGAGAATAAATCCCGAAACAGATTTTTAATTTAATTCTTTATTTTG
GAAACAAAATTAAAATCG
Found at i:20748769 original size:166 final size:167
Alignment explanation
Indices: 20748304--20748775 Score: 437
Period size: 166 Copynumber: 2.9 Consensus size: 167
20748294 AATCAAAATC
* * * * * *
20748304 GAATAAAATTTGTTAAACAGAGGGAATAAATCTCGAAACAG--TTT-TTCAA-TTTAATT-CT-A
1 GAATAAAATCTGTTAAACGGAGAGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTACTCG
* * * * * * * * *
20748363 TTTTGGAAACAAAAT-TAAAATCGAATAAAATCTGTTAAACGATAGGAATAAATCCCGAAACAGA
66 TTTTAGAAACAAAATAAAAAATGGAATAAAATCTATTAAATGACAAGAATAAATCCTGAAACAAA
* * ***** **
20748427 TTTTCAATTTAATTTT-ATA-TTGGAAACAAAATTAAAATC
131 ATTT--ATTTAATTTTAATACTCGTTTGGAAAA--AAAAAG
* *
20748466 GAATAAAATCTGTTAAACGGAGAGAATAAATCCCGAAACATATTTTATTTAATTTTAATTTCTCG
1 GAATAAAATCTGTTAAACGGAGAGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTACTCG
* * * *
20748531 TTTTAGCAACAAAATAGAAAATGGAATAAAATCTATTAAATGACAAGAATAAATCTTGAAACAGA
66 TTTTAGAAACAAAATAAAAAATGGAATAAAATCTATTAAATGACAAGAATAAATCCTGAAACAAA
*
20748596 TTTTATTTAATTTTAATACTCGTTTGGAAAAAAAAAG
131 ATTTATTTAATTTTAATACTCGTTTGGAAAAAAAAAG
* * * * *
20748633 GAATAAAATCTGTTGAATGGCTG-GAATAAATCCTGGAACAGATTTTATTTAAATTTTAA-TACT
1 GAATAAAATCTGTTAAACGG-AGAGAATAAATCCCGAAACAGATTTTATTT-AATTTTAATTACT
* * * * *
20748696 TG-TTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTGAATGACGAGAATAAATCCTGAAACA
64 CGTTTTAGAAACAAAATAAAAAATGGAATAAAATCTATTAAATGACAAGAATAAATCCTGAAACA
20748760 AAATTTATTTAATTTT
129 AAATTTATTTAATTTT
20748776 TATTTTCAAA
Statistics
Matches: 257, Mismatches: 42, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
162 36 0.14
164 3 0.01
165 4 0.02
166 76 0.30
167 62 0.24
168 25 0.10
169 51 0.20
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.33
Consensus pattern (167 bp):
GAATAAAATCTGTTAAACGGAGAGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTACTCG
TTTTAGAAACAAAATAAAAAATGGAATAAAATCTATTAAATGACAAGAATAAATCCTGAAACAAA
ATTTATTTAATTTTAATACTCGTTTGGAAAAAAAAAG
Found at i:20748777 original size:87 final size:86
Alignment explanation
Indices: 20748281--20748775 Score: 419
Period size: 81 Copynumber: 5.9 Consensus size: 86
20748271 AATTCTTTTT
* * * * *
20748281 GTTTGGAAAACAAAAT-CAAAATCGAATAAAATTTGTTAAACAGA-GGGAATAAAT-CTCGAAAC
1 GTTTGG-AAACAAAATAAAAAATGGAATAAAATCTGTTAAA-TGACGAGAATAAATCCT-GAAAC
* * *
20748343 AG--TTT-TTCAA-TTTAATTCTA
63 AGATTTTATTTAATTTTAATACTC
* * * * * *
20748363 TTTTGGAAACAAAAT-TAAAATCGAATAAAATCTGTTAAACGA-TAGGAATAAATCCCGAAACAG
1 GTTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTAAATGACGA-GAATAAATCCTGAAACAG
20748426 ATTTTCAATTTAATTTT-ATA---
65 ATTTT--ATTTAATTTTAATACTC
* * * * *
20748446 --TTGGAAACAAAAT-TAAAATCGAATAAAATCTGTTAAACGGA-GAGAATAAATCCCGAAACAT
1 GTTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTAAA-TGACGAGAATAAATCCTGAAACAG
*
20748507 ATTTTATTTAATTTTAATTTCTC
65 ATTTTATTTAATTTTAA-TACTC
* * * * * *
20748530 GTTTTAGCAACAAAATAGAAAATGGAATAAAATCTATTAAATGACAAGAATAAATCTTGAAACAG
1 G-TTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTAAATGACGAGAATAAATCCTGAAACAG
20748595 ATTTTATTTAATTTTAATACTC
65 ATTTTATTTAATTTTAATACTC
* * *
20748617 GTTTGG-----AAA-AAAAAA-GGAATAAAATCTGTTGAATGGCTG-GAATAAATCCTGGAACAG
1 GTTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTAAATGAC-GAGAATAAATCCTGAAACAG
*
20748674 ATTTTATTTAAATTTTAATACTT
65 ATTTTATTT-AATTTTAATACTC
* *
20748697 GTTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTGAATGACGAGAATAAATCCTGAAACAAA
1 GTTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTAAATGACGAGAATAAATCCTGAAACAGA
*
20748762 ATTTATTTAATTTT
66 TTTTATTTAATTTT
20748776 TATTTTCAAA
Statistics
Matches: 347, Mismatches: 37, Indels: 54
0.79 0.08 0.12
Matches are distributed among these distances:
79 54 0.16
80 26 0.07
81 109 0.31
82 9 0.03
83 3 0.01
85 3 0.01
86 23 0.07
87 66 0.19
88 54 0.16
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (86 bp):
GTTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTAAATGACGAGAATAAATCCTGAAACAGA
TTTTATTTAATTTTAATACTC
Found at i:20749407 original size:20 final size:20
Alignment explanation
Indices: 20749382--20749430 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
20749372 AGGGGCAATT
* *
20749382 AAATCAATTTGATTAAAATC
1 AAATCAAATTGACTAAAATC
20749402 AAATCAAATTGACTAAAATC
1 AAATCAAATTGACTAAAATC
*
20749422 AAATAAAAT
1 AAATCAAAT
20749431 CAGGATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.57, C:0.10, G:0.04, T:0.29
Consensus pattern (20 bp):
AAATCAAATTGACTAAAATC
Found at i:20754352 original size:21 final size:21
Alignment explanation
Indices: 20754322--20754387 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
20754312 GTGCTAAACT
* *
20754322 GAAACCCATAAGGGTTGAA-T
1 GAAAGCCATAAGGGTTGAACA
*
20754342 GGAAGCTCAT-AGGAGTTGAACA
1 GAAAGC-CATAAGG-GTTGAACA
*
20754364 GAAAGCCATAAGGGTTAAAC-
1 GAAAGCCATAAGGGTTGAACA
20754384 GAAA
1 GAAA
20754388 ACTCATATGA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
20 11 0.30
21 18 0.49
22 8 0.22
ACGTcount: A:0.42, C:0.14, G:0.27, T:0.17
Consensus pattern (21 bp):
GAAAGCCATAAGGGTTGAACA
Done.