Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 310 of 356
Found at i:100788425 original size:248 final size:248
Alignment explanation
Indices: 100787843--100788482 Score: 806
Period size: 248 Copynumber: 2.6 Consensus size: 248
100787833 CAGGTGGTTT
** * * * * * *
100787843 AGTACTTTTGTTGACAGTACATCTTGCTTGAAGCATTTTTTTACCCTATATTTTAATAATCATCT
1 AGTACTTTTACTGACAGTGCATCTTACTTGAAGC-GTTTTTGACCCTATTTTTTAAGAATCATCT
* ** * * *
100787908 TCTCAAAATTATTTTTTCAGAAACTACCATAGAAAAAGAGCGTCTAGCTGGGAGCTTTTTTCAGT
65 TTTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAACTGGGAGCTTTTTTAAGT
** * *
100787973 GTTTTTGCTGACAGTGCATCCTGCTTAAAGCATTTTTTACCCTATTTTTTAGAACCATCTTCTCA
130 ACTTTTGCTGAAAGCGCATCCTGCTTAAAGCATTTTTTACCCTATTTTTTAGAACCATCTTCTCA
*
100788038 AAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTC
195 AAATTA---TTTCAGAAACTACTGTAGAAAAAGAGCATCCATGTGGGAGCTTTTTTC
* * * * * *
100788095 TGTACTTTTGCTGACAGTGCATCCTACTTGAAGTGTTTTTGACCTTATTTTTTCAGAATCATCTT
1 AGTACTTTTACTGACAGTGCATCTTACTTGAAGCGTTTTTGACCCTATTTTTTAAGAATCATCTT
*
100788160 CTT-AAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCATCTGGGAGCTTTTTTAAGT
66 -TTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAACTGGGAGCTTTTTTAAGT
* ** *
100788224 ACTTTTGCTGAAAGCGCATCCTGCTTGAAGTGTTTTTTACCTTATTTTTTCAGAACCATCTTCTC
130 ACTTTTGCTGAAAGCGCATCCTGCTTAAAGCATTTTTTACCCTATTTTTT-AGAACCATCTTCTC
* * *
100788289 AAAATTA-TTCAGAAACTACTGTAGAAACATAGCATCTA-GCTGGGAGCTTTTTTC
194 AAAATTATTTCAGAAACTACTGTAGAAAAAGAGCATCCATG-TGGGAGCTTTTTTC
* *
100788343 AGTAGTTTTACTGACAGTGCATCTTACTTGAAGCGTTTTTGACCCTATTTTTTTAGAA-CTATCT
1 AGTACTTTTACTGACAGTGCATCTTACTTGAAGCGTTTTTGACCCTATTTTTTAAGAATC-ATCT
* * * *
100788407 TTTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAATAGCAT-CAACTGAGAACTTTTTTCAA-
65 TTTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAACTGGGAGCTTTTTT-AAG
100788470 TACTTTTGCTGAA
129 TACTTTTGCTGAA
100788483 CAAAAAAAAA
Statistics
Matches: 340, Mismatches: 42, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
247 31 0.09
248 136 0.40
251 123 0.36
252 50 0.15
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (248 bp):
AGTACTTTTACTGACAGTGCATCTTACTTGAAGCGTTTTTGACCCTATTTTTTAAGAATCATCTT
TTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAACTGGGAGCTTTTTTAAGTA
CTTTTGCTGAAAGCGCATCCTGCTTAAAGCATTTTTTACCCTATTTTTTAGAACCATCTTCTCAA
AATTATTTCAGAAACTACTGTAGAAAAAGAGCATCCATGTGGGAGCTTTTTTC
Found at i:100788586 original size:28 final size:27
Alignment explanation
Indices: 100788551--100788714 Score: 80
Period size: 28 Copynumber: 5.6 Consensus size: 27
100788541 CAAAAACCCT
100788551 AAAACCCTAAACAC-AAATTTATTTTTA
1 AAAACCCTAAAC-CTAAATTTATTTTTA
* *
100788578 AAAATCCCTAAACCTTAGTTTATTTTTAAA
1 AAAA-CCCTAAACCTAAATTTATTTTT--A
***
100788608 AAAATAATAAACCTTAATTTAATTTATTTTTTA
1 AAAACCCTAAACC-T-A---AATTTA-TTTTTA
* *
100788641 AAAATCATAAACCCT-AATTTATTTTTTA
1 AAAACCCTAAA-CCTAAATTTA-TTTTTA
* * *
100788669 AAATCCATAAACCTTAATTTATTTTAATA
1 AAAACCCTAAACCTAAATTTATTTT--TA
* *
100788698 AAAACCGTAACCCTAAA
1 AAAACCCTAAACCTAAA
100788715 ACTCTAAACA
Statistics
Matches: 109, Mismatches: 14, Indels: 26
0.73 0.09 0.17
Matches are distributed among these distances:
27 12 0.11
28 46 0.42
29 21 0.19
30 6 0.06
33 12 0.11
34 7 0.06
35 5 0.05
ACGTcount: A:0.45, C:0.15, G:0.01, T:0.38
Consensus pattern (27 bp):
AAAACCCTAAACCTAAATTTATTTTTA
Found at i:100788633 original size:62 final size:61
Alignment explanation
Indices: 100788566--100788694 Score: 163
Period size: 62 Copynumber: 2.1 Consensus size: 61
100788556 CCTAAACACA
* * *
100788566 AATTTA-TTTTTAAAAATCCCTAAACCTTAGTTTATTTTTAAAAAAAT-AATAAACCTTAATTT
1 AATTTATTTTTTAAAAAT-CATAAACCCTAATTTATTTTT--AAAAATCAATAAACCTTAATTT
* *
100788628 AATTTATTTTTTAAAAATCATAAACCCTAATTTATTTTTTAAAATCCATAAACCTTAATTT
1 AATTTATTTTTTAAAAATCATAAACCCTAATTTATTTTTAAAAATCAATAAACCTTAATTT
*
100788689 ATTTTA
1 AATTTA
100788695 ATAAAAACCG
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
60 5 0.08
61 19 0.32
62 24 0.41
63 11 0.19
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.46
Consensus pattern (61 bp):
AATTTATTTTTTAAAAATCATAAACCCTAATTTATTTTTAAAAATCAATAAACCTTAATTT
Found at i:100788635 original size:34 final size:33
Alignment explanation
Indices: 100788596--100788661 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
100788586 TAAACCTTAG
*
100788596 TTTATTTTTAAAAAAATAATAAACCTTAATTTAA
1 TTTATTTTT-AAAAAATAATAAACCCTAATTTAA
* *
100788630 TTTATTTTTTAAAAATCATAAACCCTAATTTA
1 TTTATTTTTAAAAAATAATAAACCCTAATTTA
100788662 TTTTTTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 20 0.69
34 9 0.31
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (33 bp):
TTTATTTTTAAAAAATAATAAACCCTAATTTAA
Found at i:100788673 original size:27 final size:29
Alignment explanation
Indices: 100788566--100788693 Score: 111
Period size: 28 Copynumber: 4.3 Consensus size: 29
100788556 CCTAAACACA
* *
100788566 AATTTA-TTTTTAAAAATCCCTAAACCTT
1 AATTTATTTTTTAAAAATCCATAAACCCT
* * * *
100788594 AGTTTATTTTTAAAAAAAT-AATAAACCTTAATTT
1 AATTTATTTTT-TAAAAATCCATAAACC-----CT
100788628 AATTTATTTTTTAAAAAT-CATAAACCCT
1 AATTTATTTTTTAAAAATCCATAAACCCT
*
100788656 AATTTATTTTTT-AAAATCCATAAACCTT
1 AATTTATTTTTTAAAAATCCATAAACCCT
100788684 AATTTATTTT
1 AATTTATTTT
100788694 AATAAAAACC
Statistics
Matches: 83, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
27 5 0.06
28 37 0.45
29 10 0.12
30 6 0.07
33 13 0.16
34 12 0.14
ACGTcount: A:0.41, C:0.12, G:0.01, T:0.46
Consensus pattern (29 bp):
AATTTATTTTTTAAAAATCCATAAACCCT
Found at i:100789497 original size:20 final size:20
Alignment explanation
Indices: 100789472--100789511 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
100789462 GAGTTAATAT
100789472 TTTAAAATTATAACTAAATC
1 TTTAAAATTATAACTAAATC
100789492 TTTAAAATTATAACTAAATC
1 TTTAAAATTATAACTAAATC
100789512 GATATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTAAAATTATAACTAAATC
Found at i:100790210 original size:18 final size:18
Alignment explanation
Indices: 100790187--100790224 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
100790177 TAATAGAGTT
100790187 ATATAATAATTGATTCGG
1 ATATAATAATTGATTCGG
100790205 ATATAATAATTGATTCGG
1 ATATAATAATTGATTCGG
100790223 AT
1 AT
100790225 TATACTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.39
Consensus pattern (18 bp):
ATATAATAATTGATTCGG
Found at i:100790352 original size:17 final size:19
Alignment explanation
Indices: 100790332--100790377 Score: 69
Period size: 17 Copynumber: 2.5 Consensus size: 19
100790322 GTATGATTAT
100790332 ATTAAAATATAA-TAA-AA
1 ATTAAAATATAATTAATAA
*
100790349 ATTAAAATATAATTAATTA
1 ATTAAAATATAATTAATAA
100790368 ATTAAAATAT
1 ATTAAAATAT
100790378 TTTTATAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 12 0.46
18 3 0.12
19 11 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTAAAATATAATTAATAA
Found at i:100790466 original size:18 final size:17
Alignment explanation
Indices: 100790440--100790478 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
100790430 AAAATTTAAT
*
100790440 ATAACAATAATAAATAGA
1 ATAAAAATAATAAATA-A
*
100790458 ATAAAAATAATTAATAA
1 ATAAAAATAATAAATAA
100790475 ATAA
1 ATAA
100790479 TAAAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
ATAAAAATAATAAATAA
Found at i:100791890 original size:23 final size:23
Alignment explanation
Indices: 100791864--100791919 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
100791854 ATCTTGAAGG
100791864 TTAAAA-TTGT-TATTATATTTATT
1 TTAAAAGTTGTATATTAT-TTT-TT
100791887 TTAAAAGTTGTCATATTATTTTTT
1 TTAAAAGTTGT-ATATTATTTTTT
*
100791911 TTATAAGTT
1 TTAAAAGTT
100791920 AATTTAACGG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 6 0.21
24 14 0.48
25 3 0.10
26 6 0.21
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (23 bp):
TTAAAAGTTGTATATTATTTTTT
Found at i:100806947 original size:22 final size:22
Alignment explanation
Indices: 100806874--100806947 Score: 87
Period size: 22 Copynumber: 3.2 Consensus size: 22
100806864 ATTATTATTA
100806874 ATTTTAAAAATTTTAAA-ATAT
1 ATTTTAAAAATTTTAAATATAT
100806895 ATATTTAAAATATTTTATTAATATAT
1 AT-TTTAAAA-ATTTTA--AATATAT
**
100806921 ATTTTTTAAATTTTAAATATAT
1 ATTTTAAAAATTTTAAATATAT
100806943 ATTTT
1 ATTTT
100806948 GAAATTACTT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
21 2 0.04
22 19 0.41
23 6 0.13
24 6 0.13
25 7 0.15
26 6 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTAAAAATTTTAAATATAT
Found at i:100806968 original size:22 final size:23
Alignment explanation
Indices: 100806941--100806998 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 23
100806931 TTTTAAATAT
*
100806941 ATATTTTGAA-ATTACTTTTTTTA
1 ATATTTTAAATATTA-TTTTTTTA
100806964 A-ATTTTAAATATTATTTTTTTA
1 ATATTTTAAATATTATTTTTTTA
100806986 ATA-TTTAAATATT
1 ATATTTTAAATATT
100806999 TTAAACTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
22 26 0.81
23 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
ATATTTTAAATATTATTTTTTTA
Found at i:100807000 original size:31 final size:33
Alignment explanation
Indices: 100806957--100807079 Score: 98
Period size: 31 Copynumber: 3.8 Consensus size: 33
100806947 TGAAATTACT
*
100806957 TTTTTTAA-ATTTTAAA-TATTATTT-TTTTAA
1 TTTTATAATATTTTAAACTATTATTTATTTTAA
*
100806987 TATTTA-AATATTTTAAACT-TTCAAATTTGTTATTAA
1 T-TTTATAATATTTTAAACTATT---ATTTATT-TTAA
* *
100807023 TTTTATAATAATTTAAA-TATTATTTAATTT-A
1 TTTTATAATATTTTAAACTATTATTTATTTTAA
* *
100807054 TTTTATAATATTTTAAATTATGATTT
1 TTTTATAATATTTTAAACTATTATTT
100807080 TAAAATTATT
Statistics
Matches: 76, Mismatches: 6, Indels: 20
0.75 0.06 0.20
Matches are distributed among these distances:
30 3 0.04
31 30 0.39
32 10 0.13
33 5 0.07
34 4 0.05
35 7 0.09
36 17 0.22
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (33 bp):
TTTTATAATATTTTAAACTATTATTTATTTTAA
Found at i:100807389 original size:16 final size:15
Alignment explanation
Indices: 100807362--100807413 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
100807352 AATTAGAAAA
*
100807362 TAAAAAAT-ATTTGT
1 TAAAAAATAATTTAT
100807376 TAAAAAATAAATTTAT
1 TAAAAAAT-AATTTAT
* *
100807392 TTAAAAATATATATAT
1 TAAAAAATA-ATTTAT
100807408 TAAAAA
1 TAAAAA
100807414 GTAAAATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 8 0.26
15 1 0.03
16 22 0.71
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
TAAAAAATAATTTAT
Found at i:100807731 original size:16 final size:16
Alignment explanation
Indices: 100807710--100807757 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
100807700 GTCCGGCCCG
100807710 ATTTTAATATTAAATT
1 ATTTTAATATTAAATT
* **
100807726 ATTTTAAAATTATTTT
1 ATTTTAATATTAAATT
*
100807742 ATTTTTAATTTTAAAT
1 A-TTTTAATATTAAAT
100807758 AACTTTAGTA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTTAATATTAAATT
Found at i:100807967 original size:19 final size:20
Alignment explanation
Indices: 100807943--100807981 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
100807933 GTCCCATTAT
100807943 TTATTTATTTTT-TGTTTTA
1 TTATTTATTTTTATGTTTTA
100807962 TTATTTATTTTTATGTTTTA
1 TTATTTATTTTTATGTTTTA
100807982 AATTTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (20 bp):
TTATTTATTTTTATGTTTTA
Found at i:100807973 original size:20 final size:19
Alignment explanation
Indices: 100807943--100807981 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
100807933 GTCCCATTAT
*
100807943 TTATTTATTTTTTGTTTTA
1 TTATTTATTTTATGTTTTA
100807962 TTATTTATTTTTATGTTTTA
1 TTATTTA-TTTTATGTTTTA
100807982 AATTTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (19 bp):
TTATTTATTTTATGTTTTA
Found at i:100807986 original size:19 final size:19
Alignment explanation
Indices: 100807945--100807986 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
100807935 CCCATTATTT
*
100807945 ATTTATTTTTTGTTTTATT
1 ATTTATTTTTTGTTTTATA
100807964 ATTTATTTTTATGTTTTA-A
1 ATTTATTTTT-TGTTTTATA
100807983 ATTT
1 ATTT
100807987 TTTGATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (19 bp):
ATTTATTTTTTGTTTTATA
Found at i:100808004 original size:24 final size:24
Alignment explanation
Indices: 100807965--100808019 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
100807955 TGTTTTATTA
*
100807965 TTTATTT-TTATGTTTTAAA-TTT
1 TTTATTTATTATATTTTAAAGTTT
100807987 TTTGATTTATTATATTTTAAAGTTT
1 TTT-ATTTATTATATTTTAAAGTTT
100808012 TTTATTTA
1 TTTATTTA
100808020 ATAAAAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 3 0.10
23 4 0.14
24 16 0.55
25 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.69
Consensus pattern (24 bp):
TTTATTTATTATATTTTAAAGTTT
Found at i:100808591 original size:20 final size:20
Alignment explanation
Indices: 100808563--100808634 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
100808553 GTTGGTTATA
*
100808563 ATTTTTAAATTTTAGTACAC
1 ATTTATAAATTTTAGTACAC
*
100808583 ATTTATAAATTTATA-TATTA-
1 ATTTATAAATTT-TAGTA-CAC
* *
100808603 ATTTTTTAATTTTAGTACAC
1 ATTTATAAATTTTAGTACAC
*
100808623 ATTCATAAATTT
1 ATTTATAAATTT
100808635 ATGTACTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
19 3 0.08
20 34 0.85
21 3 0.08
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTATAAATTTTAGTACAC
Found at i:100808605 original size:40 final size:41
Alignment explanation
Indices: 100808561--100808645 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 41
100808551 GTGTTGGTTA
*
100808561 TAATTTTTAAATTTTAGTACACATTTATAAATTTATATA-T
1 TAATTTTTAAATTTTAGTACACATTCATAAATTTATATACT
* *
100808601 TAATTTTTTAATTTTAGTACACATTCATAAATTTATGTACT
1 TAATTTTTAAATTTTAGTACACATTCATAAATTTATATACT
100808642 TAAT
1 TAAT
100808646 ATATATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 36 0.88
41 5 0.12
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.52
Consensus pattern (41 bp):
TAATTTTTAAATTTTAGTACACATTCATAAATTTATATACT
Found at i:100808656 original size:40 final size:40
Alignment explanation
Indices: 100808570--100808656 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
100808560 ATAATTTTTA
* * *
100808570 AATTTTAGTACACATTTATAAATTTATATATTAATTTTTT
1 AATTTTAGTACACATTCATAAATTTATATATTAATTATAT
*
100808610 AATTTTAGTACACATTCATAAATTTATGTACTTAA-TATAT
1 AATTTTAGTACACATTCATAAATTTATATA-TTAATTATAT
*
100808650 ATTTTTA
1 AATTTTA
100808657 ATAGATAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 37 0.90
41 4 0.10
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (40 bp):
AATTTTAGTACACATTCATAAATTTATATATTAATTATAT
Found at i:100811039 original size:30 final size:30
Alignment explanation
Indices: 100810960--100811063 Score: 120
Period size: 30 Copynumber: 3.5 Consensus size: 30
100810950 ACAGAGCAGC
* * * *
100810960 TCATATCACTCAGAAATTGCCAGTTCAAGT
1 TCATATCACCCAGACATAGGCAGTTCAAGT
*
100810990 ACATATCACCC-GAACATAGGCAGTTCAAGT
1 TCATATCACCCAG-ACATAGGCAGTTCAAGT
* *
100811020 TCATATCACCCAGACATAGGCGGTTCGAGT
1 TCATATCACCCAGACATAGGCAGTTCAAGT
*
100811050 TCATTTCACCCAGA
1 TCATATCACCCAGA
100811064 GCAACCACCG
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
29 1 0.02
30 61 0.97
31 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (30 bp):
TCATATCACCCAGACATAGGCAGTTCAAGT
Found at i:100815217 original size:22 final size:23
Alignment explanation
Indices: 100815183--100815225 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
100815173 TTAATTTTAA
*
100815183 ATTTAATAATTTATAAAAATTAT
1 ATTTAATAATTTAAAAAAATTAT
100815206 ATTTAA-AATTTAAAAAAATT
1 ATTTAATAATTTAAAAAAATT
100815226 TAAAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTAATAATTTAAAAAAATTAT
Found at i:100815230 original size:30 final size:29
Alignment explanation
Indices: 100815168--100815253 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 29
100815158 TGAATATCTT
* * *
100815168 TAAAATTAATTTTAAATTT-AATAATTTA
1 TAAAATTAATTTAAAATTTAAAAAAATTA
100815196 TAAAAATTATATTTAAAATTTAAAAAAATT-
1 T-AAAATTA-ATTTAAAATTTAAAAAAATTA
*
100815226 TAAAATATAAATTTAAAATATTATAAAA
1 TAAAAT-T-AATTTAAAAT-TTAAAAAA
100815254 CAAATAATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
28 1 0.02
29 12 0.25
30 21 0.44
31 14 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (29 bp):
TAAAATTAATTTAAAATTTAAAAAAATTA
Found at i:100815239 original size:13 final size:13
Alignment explanation
Indices: 100815221--100815246 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100815211 AAATTTAAAA
100815221 AAATTTAAAATAT
1 AAATTTAAAATAT
100815234 AAATTTAAAATAT
1 AAATTTAAAATAT
100815247 TATAAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTTAAAATAT
Found at i:100815327 original size:24 final size:24
Alignment explanation
Indices: 100815281--100815359 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
100815271 ATGTCATATC
* * *
100815281 TTTAAAAATAATATATTTTAAATGA
1 TTTAAAAATCATA-ATTTAAAATAA
*
100815306 TTTCAAAATCATAATTTAAAATAA
1 TTTAAAAATCATAATTTAAAATAA
100815330 TTTAAAAATCATAA-TTAAAA-AA
1 TTTAAAAATCATAATTTAAAATAA
100815352 TTATAAAA
1 TT-TAAAA
100815360 CAAATTAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
22 4 0.08
23 11 0.23
24 22 0.46
25 11 0.23
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (24 bp):
TTTAAAAATCATAATTTAAAATAA
Found at i:100815349 original size:13 final size:13
Alignment explanation
Indices: 100815310--100815350 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
100815300 AAATGATTTC
*
100815310 AAAATCATAATTT
1 AAAATCATAATTA
*
100815323 AAAAT-A-ATTTA
1 AAAATCATAATTA
100815334 AAAATCATAATTA
1 AAAATCATAATTA
100815347 AAAA
1 AAAA
100815351 ATTATAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 8 0.35
12 2 0.09
13 13 0.57
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATCATAATTA
Found at i:100815359 original size:33 final size:33
Alignment explanation
Indices: 100815318--100815397 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 33
100815308 TCAAAATCAT
100815318 AATT-TAAAATAATTTAAAA-AT-CATAATTAAAA
1 AATTATAAAATAATTTAAAATATACAT--TTAAAA
* *
100815350 AATTATAAAACAAATTAAAATATACATTTAAAA
1 AATTATAAAATAATTTAAAATATACATTTAAAA
*
100815383 TATTATAAAACTAAT
1 AATTATAAAA-TAAT
100815398 AATAAATTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
32 4 0.10
33 28 0.72
34 4 0.10
35 3 0.08
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (33 bp):
AATTATAAAATAATTTAAAATATACATTTAAAA
Found at i:100815454 original size:19 final size:19
Alignment explanation
Indices: 100815432--100815472 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
100815422 TAAAATATTT
*
100815432 AAATATTTTATATTA-TTAA
1 AAATATTTT-TAATATTTAA
100815451 AAATATTTTTAATATTTAA
1 AAATATTTTTAATATTTAA
100815470 AAA
1 AAA
100815473 ATAATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATATTTTTAATATTTAA
Found at i:100815471 original size:18 final size:19
Alignment explanation
Indices: 100815415--100815471 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
100815405 TTGAAAGGTC
*
100815415 ATATCTTTAAAATATTT-AA
1 ATAT-TTTATAATATTTAAA
* *
100815434 ATATTTTATATTATTAAAA
1 ATATTTTATAATATTTAAA
100815453 ATATTTT-TAATATTTAAA
1 ATATTTTATAATATTTAAA
100815471 A
1 A
100815472 AATAATATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 19 0.59
19 13 0.41
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATTTTATAATATTTAAA
Found at i:100815472 original size:20 final size:19
Alignment explanation
Indices: 100815432--100815475 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
100815422 TAAAATATTT
*
100815432 AAATATTTTATATTATTAA
1 AAATATTTTATATTATAAA
100815451 AAATATTTTTAATATT-TAAA
1 AAATA-TTTT-ATATTATAAA
100815471 AAATA
1 AAATA
100815476 ATATTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 12 0.55
21 5 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AAATATTTTATATTATAAA
Found at i:100815482 original size:21 final size:21
Alignment explanation
Indices: 100815433--100815487 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
100815423 AAAATATTTA
* *
100815433 AATATTTTATATTATTAAAAAT
1 AATATTTAATATT-TAAAAAAT
*
100815455 -ATTTTTAATATTTAAAAAAT
1 AATATTTAATATTTAAAAAAT
100815475 AATATTTAA-ATTT
1 AATATTTAATATTT
100815488 TTAAACAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTTAATATTTAAAAAAT
Found at i:100815520 original size:34 final size:34
Alignment explanation
Indices: 100815464--100815564 Score: 109
Period size: 33 Copynumber: 3.0 Consensus size: 34
100815454 TATTTTTAAT
* * *
100815464 ATTTAAAAAATAATATTTAAATTTTTA-AACAATG
1 ATTTAAAAAATAATATTTAAA-ATTTAGAAAAATA
*
100815498 ATTT-AAAAATAACATTTAAAATTTAGAAAAATA
1 ATTTAAAAAATAATATTTAAAATTTAGAAAAATA
* *
100815531 ATTTCAAATATATATATTTAAAATTTA-AAAAATA
1 ATTTAAAAAATA-ATATTTAAAATTTAGAAAAATA
100815565 TATATTATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
32 4 0.07
33 24 0.41
34 17 0.29
35 13 0.22
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (34 bp):
ATTTAAAAAATAATATTTAAAATTTAGAAAAATA
Found at i:100815556 original size:22 final size:23
Alignment explanation
Indices: 100815530--100815585 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
100815520 TTAGAAAAAT
* *
100815530 AATTTCAAATATATATATT-TAA
1 AATTTAAAAAATATATATTATAA
100815552 AATTTAAAAAATATATATTATAAA
1 AATTTAAAAAATATATATTAT-AA
100815576 ACATTTAAAA
1 A-ATTTAAAA
100815586 TATACATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 17 0.59
23 1 0.03
24 3 0.10
25 8 0.28
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (23 bp):
AATTTAAAAAATATATATTATAA
Found at i:100815628 original size:20 final size:18
Alignment explanation
Indices: 100815603--100815639 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
100815593 TTCAAGTTTT
100815603 TTAAAATTAATAATAAAAAA
1 TTAAAA-TAA-AATAAAAAA
100815623 TTAAAATAAAATAAAAA
1 TTAAAATAAAATAAAAA
100815640 TAAATAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 3 0.18
20 6 0.35
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
TTAAAATAAAATAAAAAA
Found at i:100815630 original size:13 final size:14
Alignment explanation
Indices: 100815605--100815633 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
100815595 CAAGTTTTTT
100815605 AAAATTAATAATAA
1 AAAATTAATAATAA
100815619 AAAATTAA-AATAA
1 AAAATTAATAATAA
100815632 AA
1 AA
100815634 TAAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAATTAATAATAA
Found at i:100815738 original size:21 final size:21
Alignment explanation
Indices: 100815719--100815776 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
100815709 AGTAAATTTT
*
100815719 TTTTTTAAAAATATATATTTAA
1 TTTTTAAAAAATA-ATATTTAA
*
100815741 TTTTTAAAAAATAATATTAAA
1 TTTTTAAAAAATAATATTTAA
**
100815762 AATTTAAAAAATAAT
1 TTTTTAAAAAATAAT
100815777 TTAAAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTTTAAAAAATAATATTTAA
Found at i:100815851 original size:23 final size:22
Alignment explanation
Indices: 100815776--100815851 Score: 73
Period size: 23 Copynumber: 3.4 Consensus size: 22
100815766 TAAAAAATAA
100815776 TTTAAAATA-ATATTTAAAATT
1 TTTAAAATATATATTTAAAATT
* **
100815797 TTAAAAAATATATATTATAAAACA
1 TT-TAAAATATATATT-TAAAATT
* *
100815821 TTTCAAATATACATGTTAAAATT
1 TTTAAAATATATAT-TTAAAATT
100815844 TTTAAAAT
1 TTTAAAAT
100815852 TAATAACAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
21 2 0.05
22 6 0.14
23 26 0.62
24 8 0.19
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (22 bp):
TTTAAAATATATATTTAAAATT
Found at i:100816111 original size:11 final size:12
Alignment explanation
Indices: 100816090--100816127 Score: 51
Period size: 11 Copynumber: 3.1 Consensus size: 12
100816080 TAAAAAGCTT
100816090 AATATATTTAAA
1 AATATATTTAAA
100816102 AATA-ATTTAAA
1 AATATATTTAAA
100816113 AATCATAATTTAAA
1 AAT-AT-ATTTAAA
100816127 A
1 A
100816128 TATTATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 10 0.43
12 5 0.22
14 8 0.35
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
AATATATTTAAA
Found at i:100816217 original size:21 final size:22
Alignment explanation
Indices: 100816191--100816244 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
100816181 GAAAGTTTAA
100816191 AATATTT-AAATATTAAAAAA-T
1 AATATTTAAAAT-TTAAAAAAGT
100816212 AATATTTAAAATTTAAAAAAGT
1 AATATTTAAAATTTAAAAAAGT
*
100816234 AAT-TTCAAAAT
1 AATATTTAAAAT
100816245 ATATATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 22 0.73
22 8 0.27
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAGT
Found at i:100816279 original size:24 final size:22
Alignment explanation
Indices: 100816240--100816313 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 22
100816230 AAGTAATTTC
100816240 AAAATATATATTTAAAA-ATTAA
1 AAAATATATATTTAAAATATT-A
*
100816262 AAAATATATATTAATAAAATATTT
1 AAAATATATATT--TAAAATATTA
* * *
100816286 TAAATATATATTTCAAAATTTTT
1 AAAATATATATTT-AAAATATTA
100816309 AAAAT
1 AAAAT
100816314 TAATAATAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
22 13 0.30
23 12 0.27
24 16 0.36
25 3 0.07
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATATATATTTAAAATATTA
Found at i:100816288 original size:34 final size:34
Alignment explanation
Indices: 100816199--100816289 Score: 107
Period size: 34 Copynumber: 2.6 Consensus size: 34
100816189 AAAATATTTA
*
100816199 AATATTAAAAAATAATATTTAAAATTTAAAAAAGT
1 AATATTAAAAAAT-ATATTTAAAAATTAAAAAAGT
*
100816234 AAT-TTCAAAATATATATTTAAAAATTAAAAAA-T
1 AATATT-AAAAAATATATTTAAAAATTAAAAAAGT
100816267 ATATATTAATAAAATAT-TTTAAA
1 A-ATATTAA-AAAATATATTTAAA
100816290 TATATATTTC
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
33 2 0.04
34 30 0.61
35 17 0.35
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (34 bp):
AATATTAAAAAATATATTTAAAAATTAAAAAAGT
Found at i:100816308 original size:22 final size:21
Alignment explanation
Indices: 100816241--100816311 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 21
100816231 AGTAATTTCA
***
100816241 AAATATATATTTAAAAATTAAA
1 AAATATATATTT-AAAATTTTT
100816263 AAATATATATTAATAAAATATTTT
1 AAATATATATT--TAAAAT-TTTT
100816287 AAATATATATTTCAAAATTTTT
1 AAATATATATTT-AAAATTTTT
100816309 AAA
1 AAA
100816312 ATTAATAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
22 19 0.45
23 10 0.24
24 13 0.31
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATATATATTTAAAATTTTT
Found at i:100816330 original size:4 final size:4
Alignment explanation
Indices: 100816321--100816350 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
100816311 AATTAATAAT
100816321 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
100816351 GACAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:100816374 original size:8 final size:8
Alignment explanation
Indices: 100816363--100816392 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
100816353 CAAAAAAACA
100816363 AAAAAAGT
1 AAAAAAGT
100816371 AAAAAAGT
1 AAAAAAGT
*
100816379 TAAAAAGT
1 AAAAAAGT
100816387 AAAAAA
1 AAAAAA
100816393 AAAAAAGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (8 bp):
AAAAAAGT
Found at i:100816376 original size:16 final size:15
Alignment explanation
Indices: 100816355--100816398 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
100816345 AATAAAGACA
100816355 AAAAAACAAAAAAAGT
1 AAAAAA-AAAAAAAGT
**
100816371 AAAAAAGTTAAAAAGT
1 AAAAAA-AAAAAAAGT
100816387 AAAAAAAAAAAA
1 AAAAAAAAAAAA
100816399 GGTACTGACA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.82, C:0.02, G:0.07, T:0.09
Consensus pattern (15 bp):
AAAAAAAAAAAAAGT
Found at i:100819152 original size:59 final size:59
Alignment explanation
Indices: 100819080--100819290 Score: 305
Period size: 59 Copynumber: 3.6 Consensus size: 59
100819070 CGAGGCATAG
* * * * *
100819080 GAAAATTTTGAAAGATAACACAACTAGGGATGTTAATCCGCAAGCTATTTCATACTTTA
1 GAAAATTTTGAAAGATAACACAACTGGGGATTTTAATCTGCGAGCTATTTCATACTTAA
* * * *
100819139 GAAAATTTTGAAAGATAACACAATTGGGGATTTTAATCTACGATCTATTTCGTACTTAA
1 GAAAATTTTGAAAGATAACACAACTGGGGATTTTAATCTGCGAGCTATTTCATACTTAA
* *
100819198 GAAAAATTTGAAAGATAACACAACTGGGGATTTTAATCTGCGAGTTATTTCATACTTAA
1 GAAAATTTTGAAAGATAACACAACTGGGGATTTTAATCTGCGAGCTATTTCATACTTAA
* *
100819257 TAAAATTTTGAAAGATAACACAACTGGGGCTTTT
1 GAAAATTTTGAAAGATAACACAACTGGGGATTTT
100819291 CAACTTTCAC
Statistics
Matches: 134, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 134 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (59 bp):
GAAAATTTTGAAAGATAACACAACTGGGGATTTTAATCTGCGAGCTATTTCATACTTAA
Found at i:100828166 original size:9 final size:9
Alignment explanation
Indices: 100828152--100828193 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
100828142 TGCAAACATT
100828152 AGAAAAGAA
1 AGAAAAGAA
100828161 AGAAAAAGTAA
1 AG-AAAAG-AA
100828172 AG-AAAGAA
1 AGAAAAGAA
*
100828180 AGAAAAGAG
1 AGAAAAGAA
100828189 AGAAA
1 AGAAA
100828194 GGGGCACACG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 4 0.14
9 16 0.55
10 5 0.17
11 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (9 bp):
AGAAAAGAA
Found at i:100829952 original size:22 final size:25
Alignment explanation
Indices: 100829903--100829955 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 25
100829893 TGAGGCTATG
* *
100829903 TTGGTATGTTAGCCTAGTTTATATT
1 TTGGTATGTTAGCCTAGTTTAAAGT
100829928 TTGGTATG-T-GCC-AGTTTAAAGT
1 TTGGTATGTTAGCCTAGTTTAAAGT
100829950 TTGGTA
1 TTGGTA
100829956 GCTTAGCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 14 0.54
23 3 0.12
24 1 0.04
25 8 0.31
ACGTcount: A:0.21, C:0.08, G:0.25, T:0.47
Consensus pattern (25 bp):
TTGGTATGTTAGCCTAGTTTAAAGT
Found at i:100830410 original size:54 final size:54
Alignment explanation
Indices: 100830306--100830410 Score: 122
Period size: 54 Copynumber: 1.9 Consensus size: 54
100830296 AGGGCAACAC
* * * * *
100830306 ACATGAGCGTGTGATCCAAGTTAGTGAGTTATACGGGTAAAGACATAGGCTGAG
1 ACATGAGCATGTGATCCAAGTCAGTGAGTTACACGGGCAAAGACACAGGCTGAG
* * *
100830360 ACATGAGCATGTG-TCTCAAGTCAGTGAGTTACATGGGCAAGGGCACAGGCT
1 ACATGAGCATGTGATC-CAAGTCAGTGAGTTACACGGGCAAAGACACAGGCT
100830411 AGGACACGAT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
53 2 0.05
54 40 0.95
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (54 bp):
ACATGAGCATGTGATCCAAGTCAGTGAGTTACACGGGCAAAGACACAGGCTGAG
Found at i:100851077 original size:51 final size:51
Alignment explanation
Indices: 100851016--100851132 Score: 173
Period size: 51 Copynumber: 2.3 Consensus size: 51
100851006 ACTTCTGATC
*
100851016 AGTGACAAGTGATAAGTAGTAGCTT-TAGCTACACTTATTTGATCAGTGACA
1 AGTGACAAGTGATAAGTAGTAGCTTCT-GCTACACTTATTTGATCAGTGAAA
* * * *
100851067 AGTGATAAGTGATAAGTGGTGGCTTCTGCTACACTTATTTGATCAGTTAAA
1 AGTGACAAGTGATAAGTAGTAGCTTCTGCTACACTTATTTGATCAGTGAAA
100851118 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
100851133 ATGTGATCAG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 58 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTAGTAGCTTCTGCTACACTTATTTGATCAGTGAAA
Found at i:100853852 original size:26 final size:26
Alignment explanation
Indices: 100853823--100853877 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
100853813 GAATCTTTAG
100853823 TGAGGATGTGAAACTCTGTGATATTT
1 TGAGGATGTGAAACTCTGTGATATTT
100853849 TGAGGATGTGAAACTCTGTGATATTT
1 TGAGGATGTGAAACTCTGTGATATTT
100853875 TGA
1 TGA
100853878 ATCAAAGGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.38
Consensus pattern (26 bp):
TGAGGATGTGAAACTCTGTGATATTT
Found at i:100859471 original size:22 final size:22
Alignment explanation
Indices: 100859446--100859584 Score: 140
Period size: 22 Copynumber: 6.1 Consensus size: 22
100859436 CTTGAGCTGA
*
100859446 TGAACAGTAAGCTCTACTGAAC
1 TGAACAGTAAGCTCTACTGAGC
* *
100859468 TGAAACGGTAAGCTCTATTGAGC
1 TG-AACAGTAAGCTCTACTGAGC
*
100859491 TGAACAGTAAGTTCTACTGAGC
1 TGAACAGTAAGCTCTACTGAGC
*
100859513 TGAACAGTAAGCTCATACT-AGA
1 TGAACAGTAAGCTC-TACTGAGC
*
100859535 TGAA-ATGATAAGCTCTATTGAGC
1 TGAACA-G-TAAGCTCTACTGAGC
100859558 TGTAAACAGTAAGCTCTTAC-GAGC
1 TG--AACAGTAAGCTC-TACTGAGC
100859582 TGA
1 TGA
100859585 TATATAGGTA
Statistics
Matches: 97, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
21 1 0.01
22 43 0.44
23 34 0.35
24 13 0.13
25 5 0.05
26 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (22 bp):
TGAACAGTAAGCTCTACTGAGC
Found at i:100859500 original size:45 final size:44
Alignment explanation
Indices: 100859444--100859574 Score: 149
Period size: 45 Copynumber: 2.9 Consensus size: 44
100859434 CTCTTGAGCT
* * *
100859444 GATGAACAGTAAGCTCTACTGAACTGAAACGGTAAGCTCTATTGA
1 GATGAACAGTAAGCTCTACTGAGCTGAAACAGTAAGCTCTACT-A
* *
100859489 GCTGAACAGTAAGTTCTACTGAGCTG-AACAGTAAGCTCATACTA
1 GATGAACAGTAAGCTCTACTGAGCTGAAACAGTAAGCTC-TACTA
*
100859533 GATGAA-ATGATAAGCTCTATTGAGCTGTAAACAGTAAGCTCT
1 GATGAACA-G-TAAGCTCTACTGAGCTG-AAACAGTAAGCTCT
100859575 TACGAGCTGA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 18 0.25
45 41 0.56
46 1 0.01
47 12 0.16
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (44 bp):
GATGAACAGTAAGCTCTACTGAGCTGAAACAGTAAGCTCTACTA
Found at i:100859549 original size:67 final size:68
Alignment explanation
Indices: 100859446--100859584 Score: 187
Period size: 67 Copynumber: 2.0 Consensus size: 68
100859436 CTTGAGCTGA
* *
100859446 TGAACAGTAAGCTCTACTGAACTGAAACGGTAAGCTCTATTGAGCTG-AACAGTAAGTTC-TACT
1 TGAACAGTAAGCTCTACTGAACTGAAACGATAAGCTCTATTGAGCTGAAACAGTAAGCTCTTAC-
100859509 GAGC
65 GAGC
*
100859513 TGAACAGTAAGCTCATACT-AGA-TGAAATGATAAGCTCTATTGAGCTGTAAACAGTAAGCTCTT
1 TGAACAGTAAGCTC-TACTGA-ACTGAAACGATAAGCTCTATTGAGCTG-AAACAGTAAGCTCTT
100859576 ACGAGC
63 ACGAGC
100859582 TGA
1 TGA
100859585 TATATAGGTA
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
67 38 0.59
68 5 0.08
69 18 0.28
70 3 0.05
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (68 bp):
TGAACAGTAAGCTCTACTGAACTGAAACGATAAGCTCTATTGAGCTGAAACAGTAAGCTCTTACG
AGC
Found at i:100862377 original size:41 final size:41
Alignment explanation
Indices: 100862320--100862402 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
100862310 GAATGGGGCT
100862320 GCTCTTTCCAGAACTTTTCTGGAATACAGAACCACACGCCA
1 GCTCTTTCCAGAACTTTTCTGGAATACAGAACCACACGCCA
*
100862361 GCTCTTTCCAGAACTTTTCTGGAATACAGAACCACATGCCA
1 GCTCTTTCCAGAACTTTTCTGGAATACAGAACCACACGCCA
100862402 G
1 G
100862403 GAATTACTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (41 bp):
GCTCTTTCCAGAACTTTTCTGGAATACAGAACCACACGCCA
Found at i:100863914 original size:13 final size:15
Alignment explanation
Indices: 100863886--100863916 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
100863876 ATATATTAAG
100863886 ATAACGAATAATAAT
1 ATAACGAATAATAAT
100863901 ATAACGATATAATAAT
1 ATAACGA-ATAATAAT
100863917 GGTATTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (15 bp):
ATAACGAATAATAAT
Found at i:100871931 original size:17 final size:16
Alignment explanation
Indices: 100871906--100871953 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 16
100871896 TTGTTGTTGG
100871906 AAACTCGTGTTTGTTAGA
1 AAACTCGTGTTT-TT-GA
100871924 AAAC-CGTGCTATTTTGA
1 AAACTCGTG-T-TTTTGA
100871941 AAACTCGTGTTTT
1 AAACTCGTGTTTT
100871954 CCTAGACTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.11
17 11 0.41
18 11 0.41
19 2 0.07
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (16 bp):
AAACTCGTGTTTTTGA
Found at i:100872261 original size:33 final size:33
Alignment explanation
Indices: 100872214--100872290 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
100872204 ATAACATAGC
* *
100872214 ATCACTACAGTCTGGGCAAAAGCCCTATTCAGT
1 ATCAGTACAGTCTGGGCAAAAGCCCTATACAGT
* *
100872247 ATCAGTACAGTCTGGGCCAGAGCCCTATACAGT
1 ATCAGTACAGTCTGGGCAAAAGCCCTATACAGT
*
100872280 ATCAGTTCAGT
1 ATCAGTACAGT
100872291 GCGAAATGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (33 bp):
ATCAGTACAGTCTGGGCAAAAGCCCTATACAGT
Found at i:100876063 original size:42 final size:41
Alignment explanation
Indices: 100875957--100876107 Score: 142
Period size: 43 Copynumber: 3.6 Consensus size: 41
100875947 ATCTGAGACA
* *
100875957 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCG-ATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGTATT--GATT
* **
100875999 TACGTATAAGACCATGTCTGGGACATTGGCATCGTATCTGATT
1 T-CGTGTAAGACCATGTCTGGGACACAGGCATCGTAT-TGATT
* *
100876042 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCG-TATTG-ATT
* * * *
100876085 ACATGTAAGACCAAGTCCGGGAC
1 TCGTGTAAGACCATGTCTGGGAC
100876108 GTCGACATTG
Statistics
Matches: 90, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
42 31 0.34
43 56 0.62
44 2 0.02
45 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGTATTGATT
Found at i:100883183 original size:20 final size:20
Alignment explanation
Indices: 100883144--100883183 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
100883134 TCTAATCTGT
* *
100883144 AACACACATTTTTAAGAAAA
1 AACACACATATATAAGAAAA
*
100883164 AACACACATATATAATAAAA
1 AACACACATATATAAGAAAA
100883184 CACAGTGGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.15, G:0.03, T:0.23
Consensus pattern (20 bp):
AACACACATATATAAGAAAA
Found at i:100883333 original size:25 final size:25
Alignment explanation
Indices: 100883301--100883348 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
100883291 CGCGGTGTTA
100883301 AGACGTTTCGAACTCTGACCGCCGT
1 AGACGTTTCGAACTCTGACCGCCGT
100883326 AGACGTTTCGAACTCTGACCGCC
1 AGACGTTTCGAACTCTGACCGCC
100883349 CTACATGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.33, G:0.23, T:0.23
Consensus pattern (25 bp):
AGACGTTTCGAACTCTGACCGCCGT
Found at i:100884126 original size:23 final size:22
Alignment explanation
Indices: 100884098--100884153 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
100884088 ATATAATAAA
100884098 ATTATTTTATTAT-GTATTATTAT
1 ATTATTTTATTATGGTA-TA-TAT
100884121 ATTATTTTA-TATGGTATATAT
1 ATTATTTTATTATGGTATATAT
100884142 ATTATTTATATT
1 ATTATTT-TATT
100884154 TTTTTAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 10 0.33
22 7 0.23
23 13 0.43
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
ATTATTTTATTATGGTATATAT
Found at i:100884543 original size:12 final size:12
Alignment explanation
Indices: 100884523--100884593 Score: 51
Period size: 12 Copynumber: 5.9 Consensus size: 12
100884513 TTGTATACTG
*
100884523 TATACATTTTAT
1 TATATATTTTAT
100884535 TATATA-TTT-T
1 TATATATTTTAT
100884545 TATAT-TATTTAT
1 TATATAT-TTTAT
100884557 TATATGATTTATAT
1 TATAT-ATTT-TAT
* *
100884571 TATTTAATTTA-
1 TATATATTTTAT
100884582 TATTATATTTTA
1 TA-TATATTTTA
100884594 CCATATTTCC
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
10 6 0.13
11 8 0.17
12 20 0.43
13 5 0.11
14 8 0.17
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (12 bp):
TATATATTTTAT
Found at i:100884550 original size:8 final size:9
Alignment explanation
Indices: 100884531--100884590 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 9
100884521 TGTATACATT
100884531 TTATTATATA
1 TTATT-TATA
100884541 TT-TTTATA
1 TTATTTATA
100884549 TTATTTATTA
1 TTATTTA-TA
100884559 TATGATTTATA
1 T-T-ATTTATA
100884570 TTATTTA-A
1 TTATTTATA
100884578 TTTATATTATA
1 -TTAT-TTATA
100884589 TT
1 TT
100884591 TTACCATATT
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
8 7 0.16
9 15 0.35
10 11 0.26
11 5 0.12
12 5 0.12
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TTATTTATA
Found at i:100884569 original size:21 final size:21
Alignment explanation
Indices: 100884530--100884585 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 21
100884520 CTGTATACAT
100884530 TTTATTATATATTTTTATATTA
1 TTTATTATATA-TTTTATATTA
100884552 TTTATTATATGA-TTTATATTA
1 TTTATTATAT-ATTTTATATTA
100884573 TTTAATT-TATATT
1 TTT-ATTATATATT
100884586 ATATTTTACC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
20 1 0.03
21 16 0.52
22 13 0.42
23 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTATTATATATTTTATATTA
Found at i:100884573 original size:14 final size:14
Alignment explanation
Indices: 100884554--100884589 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
100884544 TTATATTATT
*
100884554 TATTATATGATTTA
1 TATTATATAATTTA
*
100884568 TATTATTTAATTTA
1 TATTATATAATTTA
100884582 TATTATAT
1 TATTATAT
100884590 TTTACCATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
TATTATATAATTTA
Found at i:100893013 original size:528 final size:528
Alignment explanation
Indices: 100892017--100893076 Score: 2093
Period size: 528 Copynumber: 2.0 Consensus size: 528
100892007 GAAGTAGATT
*
100892017 AGACGAAACTAGTTGGTTTATTGGAGACAGAAGAAAATGGCATAGGTGAATTATACCTAGGAGGG
1 AGACGAAACTAGTTGGTCTATTGGAGACAGAAGAAAATGGCATAGGTGAATTATACCTAGGAGGG
100892082 TCCTTAAAAATAGTTTTGACTTTCCTGGCAATATGGAAACTGTCTACCAACGTTTGAGGTCTAAA
66 TCCTTAAAAATAGTTTTGACTTTCCTGGCAATATGGAAACTGTCTACCAACGTTTGAGGTCTAAA
100892147 GAGTTGAAGATATTGACTAATTTCCAATTTCAGATTACTAACAAATATATTGAAGGCATAAGACT
131 GAGTTGAAGATATTGACTAATTTCCAATTTCAGATTACTAACAAATATATTGAAGGCATAAGACT
100892212 CAGGCTTTCAAAAGACTTACAAACTGGTCATGGTAGTGCTCCTTAGATTCTTGTCGCTTCAGTGT
196 CAGGCTTTCAAAAGACTTACAAACTGGTCATGGTAGTGCTCCTTAGATTCTTGTCGCTTCAGTGT
100892277 CACCAACTCCACCTTAGGATCCTTGAAGATGCTCAACTCAAATCCCTCTTAAACTGTAAGCATAA
261 CACCAACTCCACCTTAGGATCCTTGAAGATGCTCAACTCAAATCCCTCTTAAACTGTAAGCATAA
100892342 CATGTCCAATGTAGCAAATGGAGACCACCATGCTTCTAGGCATAAAAATGGTGCCAATCGAATGC
326 CATGTCCAATGTAGCAAATGGAGACCACCATGCTTCTAGGCATAAAAATGGTGCCAATCGAATGC
100892407 CCAACCCTCCAGATGTAACATCATTGTGCACACTTTATCACAATCAAGCACTCCTTCAGCAATGA
391 CCAACCCTCCAGATGTAACATCATTGTGCACACTTTATCACAATCAAGCACTCCTTCAGCAATGA
100892472 AAATATTGTTCAAGCTTCACCCATCAGCCCTTGAAATCCGTACTTATAACAACCTAATTTCCGGT
456 AAATATTGTTCAAGCTTCACCCATCAGCCCTTGAAATCCGTACTTATAACAACCTAATTTCCGGT
100892537 GGTGTTAA
521 GGTGTTAA
100892545 AGACGAAACTAGTTGGTCTATTGGAGACAGAAGAAAATGGCATAGGTGAATTATACCTAGGAGGG
1 AGACGAAACTAGTTGGTCTATTGGAGACAGAAGAAAATGGCATAGGTGAATTATACCTAGGAGGG
100892610 TCCTTAAAAATAGTTTTGACTTTCCTGGCAATATGGAAACTGTCTACCAACGTTTGAGGTCTAAA
66 TCCTTAAAAATAGTTTTGACTTTCCTGGCAATATGGAAACTGTCTACCAACGTTTGAGGTCTAAA
100892675 GAGTTGAAGATATTGACTAATTTCCAATTTCAGATTACTAACAAATATATTGAAGGCATAAGACT
131 GAGTTGAAGATATTGACTAATTTCCAATTTCAGATTACTAACAAATATATTGAAGGCATAAGACT
100892740 CAGGCTTTCAAAAGACTTACAAACTGGTCATGGTAGTGCTCCTTAGATTCTTGTCGCTTCAGTGT
196 CAGGCTTTCAAAAGACTTACAAACTGGTCATGGTAGTGCTCCTTAGATTCTTGTCGCTTCAGTGT
100892805 CACCAACTCCACCTTAGGATCCTTGAAGATGCTCAACTCAAATCCCTCTTAAACTGTAAGCATAA
261 CACCAACTCCACCTTAGGATCCTTGAAGATGCTCAACTCAAATCCCTCTTAAACTGTAAGCATAA
*
100892870 CATGTCCAATGTAGCAAATGGAGACCACCATGCTTCTAGGCATAGAAATGGTGCCAATCGAATGC
326 CATGTCCAATGTAGCAAATGGAGACCACCATGCTTCTAGGCATAAAAATGGTGCCAATCGAATGC
100892935 CCAACCCTCCAGATGTAACATCATTGTGCACACTTTATCACAATCAAGCACTCCTTCAGCAATGA
391 CCAACCCTCCAGATGTAACATCATTGTGCACACTTTATCACAATCAAGCACTCCTTCAGCAATGA
*
100893000 AAATATTGTTCAAGCTTCACCCATCAGCCTTTGAAATCCGTACTTATAACAACCTAATTTCCGGT
456 AAATATTGTTCAAGCTTCACCCATCAGCCCTTGAAATCCGTACTTATAACAACCTAATTTCCGGT
100893065 GGTGTTAA
521 GGTGTTAA
100893073 AGAC
1 AGAC
100893077 AGTGATTCAA
Statistics
Matches: 529, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
528 529 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (528 bp):
AGACGAAACTAGTTGGTCTATTGGAGACAGAAGAAAATGGCATAGGTGAATTATACCTAGGAGGG
TCCTTAAAAATAGTTTTGACTTTCCTGGCAATATGGAAACTGTCTACCAACGTTTGAGGTCTAAA
GAGTTGAAGATATTGACTAATTTCCAATTTCAGATTACTAACAAATATATTGAAGGCATAAGACT
CAGGCTTTCAAAAGACTTACAAACTGGTCATGGTAGTGCTCCTTAGATTCTTGTCGCTTCAGTGT
CACCAACTCCACCTTAGGATCCTTGAAGATGCTCAACTCAAATCCCTCTTAAACTGTAAGCATAA
CATGTCCAATGTAGCAAATGGAGACCACCATGCTTCTAGGCATAAAAATGGTGCCAATCGAATGC
CCAACCCTCCAGATGTAACATCATTGTGCACACTTTATCACAATCAAGCACTCCTTCAGCAATGA
AAATATTGTTCAAGCTTCACCCATCAGCCCTTGAAATCCGTACTTATAACAACCTAATTTCCGGT
GGTGTTAA
Found at i:100894497 original size:42 final size:42
Alignment explanation
Indices: 100894450--100894565 Score: 146
Period size: 42 Copynumber: 2.8 Consensus size: 42
100894440 TCGTATGATT
**
100894450 TTCAGTTTAACCC-TATTGGGTTTTCGTTTAGCTCTTTTGAGC
1 TTCAGTTTAACCCTTA-TGGGTTTTCGTTTAGCTCTTACGAGC
* *
100894492 TTCAGTTTAACCCTTATGGGTTTTTGTTCAGCTCTTACGAGC
1 TTCAGTTTAACCCTTATGGGTTTTCGTTTAGCTCTTACGAGC
* *
100894534 TTCTA-TTCAACCCTTACGGGTTTTCGTTTAGC
1 TTC-AGTTTAACCCTTATGGGTTTTCGTTTAGC
100894566 ACTTGTGTGC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 61 0.95
43 3 0.05
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.45
Consensus pattern (42 bp):
TTCAGTTTAACCCTTATGGGTTTTCGTTTAGCTCTTACGAGC
Found at i:100896510 original size:22 final size:22
Alignment explanation
Indices: 100896492--100896535 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
100896482 GTCTTTCTTA
100896492 GCCAAAGTTCCTTTATTTCAGT
1 GCCAAAGTTCCTTTATTTCAGT
100896514 GCCAAAGTTCCTTTATTTCAGT
1 GCCAAAGTTCCTTTATTTCAGT
100896536 TTCGACCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.41
Consensus pattern (22 bp):
GCCAAAGTTCCTTTATTTCAGT
Found at i:100902013 original size:17 final size:18
Alignment explanation
Indices: 100901977--100902014 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
100901967 ACTTACTAAG
* *
100901977 TCTTTTGCATCATCTTTC
1 TCTTTTGCAACATATTTC
100901995 TCTTTTGCAAC-TATTTC
1 TCTTTTGCAACATATTTC
100902012 TCT
1 TCT
100902015 CACCATAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.13, C:0.26, G:0.05, T:0.55
Consensus pattern (18 bp):
TCTTTTGCAACATATTTC
Found at i:100903850 original size:6 final size:6
Alignment explanation
Indices: 100903839--100903902 Score: 56
Period size: 6 Copynumber: 10.2 Consensus size: 6
100903829 TGGCAATCTC
* * * *
100903839 TTCTTT TTCTTT TTCTTC TTCTTT TACCTTT TCTTTTGT TTCTGT TTCTTT
1 TTCTTT TTCTTT TTCTTT TTCTTT T-TCTTT T-TCTT-T TTCTTT TTCTTT
*
100903890 TTCCTT TTCTTT T
1 TTCTTT TTCTTT T
100903903 ACTTCATCTG
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
6 34 0.76
7 9 0.20
8 2 0.04
ACGTcount: A:0.02, C:0.20, G:0.03, T:0.75
Consensus pattern (6 bp):
TTCTTT
Found at i:100907720 original size:18 final size:18
Alignment explanation
Indices: 100907699--100907742 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
100907689 TTAAAAAGAA
100907699 TATAAATTTTG-AAACTTT
1 TATAAATTTTGTAAA-TTT
*
100907717 TATAAATATTGTAAATTT
1 TATAAATTTTGTAAATTT
*
100907735 TAAAAATT
1 TATAAATT
100907743 ATTTTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (18 bp):
TATAAATTTTGTAAATTT
Found at i:100910507 original size:7 final size:7
Alignment explanation
Indices: 100910495--100910519 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
100910485 GTTGCGAGCT
100910495 CATAATC
1 CATAATC
100910502 CATAATC
1 CATAATC
100910509 CATAATC
1 CATAATC
100910516 CATA
1 CATA
100910520 CAGACTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
CATAATC
Found at i:100919519 original size:3 final size:3
Alignment explanation
Indices: 100919511--100919537 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
100919501 TATATATTAA
100919511 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
100919538 AATAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:100919542 original size:3 final size:3
Alignment explanation
Indices: 100919536--100919582 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
100919526 GATGATGATG
100919536 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
100919583 GGTAGTAAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:100921968 original size:23 final size:22
Alignment explanation
Indices: 100921940--100921995 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
100921930 ATATAATAAA
100921940 ATTATTTTATTAT-GTATTATTAT
1 ATTATTTTATTATGGTA-TA-TAT
100921963 ATTATTTTA-TATGGTATATAT
1 ATTATTTTATTATGGTATATAT
100921984 ATTATTTATATT
1 ATTATTT-TATT
100921996 TTATTAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 10 0.33
22 7 0.23
23 13 0.43
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
ATTATTTTATTATGGTATATAT
Found at i:100922409 original size:12 final size:11
Alignment explanation
Indices: 100922372--100922410 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
100922362 CTATATACAT
100922372 TTTATTATATA
1 TTTATTATATA
100922383 TTT-TTATATTA
1 TTTATTATA-TA
100922394 TTTATTATATGA
1 TTTATTATAT-A
100922406 TTTAT
1 TTTAT
100922411 ACTTTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.20
11 9 0.36
12 11 0.44
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (11 bp):
TTTATTATATA
Found at i:100927083 original size:27 final size:26
Alignment explanation
Indices: 100927047--100927131 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
100927037 CCTAGCAAGA
100927047 TTGAGTGGGTCT-GAGGACCCTTGAGT
1 TTGAGTGGGT-TAGAGGACCCTTGAGT
* *
100927073 TTGAGATGGGTTAGAGGTCTCTTGAGT
1 TTGAG-TGGGTTAGAGGACCCTTGAGT
** * * *
100927100 TTGAGTTAGTTGGAGGACCTTTGAAT
1 TTGAGTGGGTTAGAGGACCCTTGAGT
100927126 TTGAGT
1 TTGAGT
100927132 TGGTCGGAGG
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
26 26 0.54
27 22 0.46
ACGTcount: A:0.19, C:0.09, G:0.35, T:0.36
Consensus pattern (26 bp):
TTGAGTGGGTTAGAGGACCCTTGAGT
Found at i:100927132 original size:26 final size:26
Alignment explanation
Indices: 100927094--100927143 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
100927084 TAGAGGTCTC
* *
100927094 TTGAGTTTGAGTTAGTTGGAGGACCT
1 TTGAATTTGAGTTAGTCGGAGGACCT
*
100927120 TTGAATTTGAGTTGGTCGGAGGAC
1 TTGAATTTGAGTTAGTCGGAGGAC
100927144 TATGAGCGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.08, G:0.36, T:0.36
Consensus pattern (26 bp):
TTGAATTTGAGTTAGTCGGAGGACCT
Found at i:100932518 original size:16 final size:16
Alignment explanation
Indices: 100932497--100932527 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
100932487 TTCACTATTA
*
100932497 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
100932513 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
100932528 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:100934169 original size:3 final size:3
Alignment explanation
Indices: 100933951--100934151 Score: 76
Period size: 3 Copynumber: 68.3 Consensus size: 3
100933941 ATTATAGTAT
* * * * *
100933951 ATA AAA ATA ATA GTA A-A ATA ATA ATA GT- ATA ATA ATA TTTA AGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * * * * * * *
100933995 AAA AGA ATA ATA AAA ATA GTA ATG GTA ATA ATA ATGT ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * * * *
100934041 AGA ATA ATA ATA ATA ATA ATA ATA TTA GTA AAA AGA ATA AGA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
100934088 A-A A-A ATA A-A ATA AGGA AT- GTA ATA GTA ATA TATA ATA ATC ATG
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* *
100934131 A-A ATA ACA CTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
100934152 AAAATTGGAA
Statistics
Matches: 141, Mismatches: 46, Indels: 22
0.67 0.22 0.11
Matches are distributed among these distances:
2 13 0.09
3 119 0.84
4 9 0.06
ACGTcount: A:0.62, C:0.01, G:0.09, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:100934185 original size:19 final size:18
Alignment explanation
Indices: 100934144--100934188 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
100934134 TAACACTAAT
100934144 AATAATAAAAAATTGGAA
1 AATAATAAAAAATTGGAA
*
100934162 GATAATAAAAAATAAT-GAA
1 AATAATAAAAAAT--TGGAA
100934181 AATAATAA
1 AATAATAA
100934189 TATTAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 12 0.52
19 10 0.43
20 1 0.04
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (18 bp):
AATAATAAAAAATTGGAA
Found at i:100936046 original size:2 final size:2
Alignment explanation
Indices: 100936039--100936063 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100936029 GGACATTTAG
100936039 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
100936064 GTTAAATTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100939010 original size:13 final size:13
Alignment explanation
Indices: 100938953--100939012 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
100938943 AATTATTAAT
100938953 TAAATAA-TTTTA
1 TAAATAATTTTTA
100938965 TAAA-ATATTTATTA
1 TAAATA-ATTT-TTA
* * *
100938979 TTACTATTTTTTA
1 TAAATAATTTTTA
100938992 TAAAATAATTTTTA
1 T-AAATAATTTTTA
100939006 TAAATAA
1 TAAATAA
100939013 AAAATTAAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
11 1 0.03
12 5 0.14
13 12 0.32
14 18 0.49
15 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (13 bp):
TAAATAATTTTTA
Found at i:100939631 original size:8 final size:7
Alignment explanation
Indices: 100939613--100939749 Score: 80
Period size: 7 Copynumber: 19.0 Consensus size: 7
100939603 ACTAATTAAT
100939613 CTAAACC
1 CTAAACC
100939620 CTAAATCC
1 CTAAA-CC
100939628 CT-AACC
1 CTAAACC
*
100939634 CTTAACCC
1 C-TAAACC
*
100939642 CATAACCC
1 C-TAAACC
100939650 CTAAACC
1 CTAAACC
*
100939657 TTAAACC
1 CTAAACC
* *
100939664 ATAAAAC
1 CTAAACC
*
100939671 ATAAACC
1 CTAAACC
*
100939678 CTTAACC
1 CTAAACC
*
100939685 CTTAACCC
1 C-TAAACC
100939693 CTAAACC
1 CTAAACC
*
100939700 TTAAACC
1 CTAAACC
* *
100939707 CCAACCCC
1 CTAA-ACC
*
100939715 CTAAAAC
1 CTAAACC
*
100939722 TTAAACC
1 CTAAACC
100939729 CT-AACC
1 CTAAACC
*
100939735 CTTAACC
1 CTAAACC
100939742 CATAAACC
1 C-TAAACC
100939750 ATTAACCATA
Statistics
Matches: 100, Mismatches: 23, Indels: 13
0.74 0.17 0.10
Matches are distributed among these distances:
6 9 0.09
7 61 0.61
8 30 0.30
ACGTcount: A:0.40, C:0.41, G:0.00, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:100939652 original size:22 final size:21
Alignment explanation
Indices: 100939626--100939788 Score: 98
Period size: 22 Copynumber: 7.6 Consensus size: 21
100939616 AACCCTAAAT
*
100939626 CCCTAACCCTTAACCCCATAAC
1 CCCTAAACCTTAA-CCCATAAC
* *
100939648 CCCTAAACCTTAAACCATAAA
1 CCCTAAACCTTAACCCATAAC
* * *
100939669 ACATAAACCCTTAACCCTTAAC
1 CCCTAAA-CCTTAACCCATAAC
*
100939691 CCCTAAACCTTAAACCCCA-ACC
1 CCCTAAACCTT-AA-CCCATAAC
*
100939713 CCCTAAAACTTAAACCC-TAAC
1 CCCTAAACCTT-AACCCATAAC
* * * *
100939734 CCTTAACCCATAAACCATTAA-
1 CCCTAAACCTTAACCCA-TAAC
* * *
100939755 CCATAATCCTTAAACCCATAAT
1 CCCTAAACCTT-AACCCATAAC
*
100939777 CCATAAACCTTA
1 CCCTAAACCTTA
100939789 CAATAGTAAC
Statistics
Matches: 109, Mismatches: 24, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
20 4 0.04
21 39 0.36
22 63 0.58
23 3 0.03
ACGTcount: A:0.40, C:0.39, G:0.00, T:0.21
Consensus pattern (21 bp):
CCCTAAACCTTAACCCATAAC
Found at i:100939725 original size:43 final size:42
Alignment explanation
Indices: 100939634--100939750 Score: 101
Period size: 43 Copynumber: 2.7 Consensus size: 42
100939624 ATCCCTAACC
* *
100939634 CTTAACCCCATAACCCCTAAACCTTAAACCATAAAACATAAACC
1 CTTAA-CCC-TAACCCCTAAACCTTAAACCACAAAACATAAACA
* ** *
100939678 CTTAACCCTTAACCCCTAAACCTTAAACCCCAACCCCCTAAA-A
1 CTTAACCC-TAACCCCTAAACCTTAAACCACAA-AACATAAACA
* * *
100939721 CTTAAACCCTAACCCTTAACCCATAAACCA
1 CTT-AACCCTAACCCCTAAACCTTAAACCA
100939751 TTAACCATAA
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
43 45 0.75
44 15 0.25
ACGTcount: A:0.41, C:0.40, G:0.00, T:0.19
Consensus pattern (42 bp):
CTTAACCCTAACCCCTAAACCTTAAACCACAAAACATAAACA
Found at i:100939754 original size:29 final size:30
Alignment explanation
Indices: 100939641--100939785 Score: 83
Period size: 29 Copynumber: 5.1 Consensus size: 30
100939631 ACCCTTAACC
* *
100939641 CCATAACCCCTAAA-CCTTAAACCA-TAAA
1 CCATAACCCTTAAACCCATAAACCATTAAA
* * **
100939669 ACATAAACCCTT-AACCC-TTAACCCCTAAA
1 CCAT-AACCCTTAAACCCATAAACCATTAAA
* * * * *
100939698 CCTTAAACCC-CAACCCCCTAAAAC-TTAAA
1 CCAT-AACCCTTAAACCCATAAACCATTAAA
*
100939727 CCCTAACCCTT-AACCCATAAACCATT-AA
1 CCATAACCCTTAAACCCATAAACCATTAAA
* *
100939755 CCATAATCCTTAAACCCATAATCCA-TAAA
1 CCATAACCCTTAAACCCATAAACCATTAAA
100939784 CC
1 CC
100939786 TTACAATAGT
Statistics
Matches: 89, Mismatches: 19, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
28 36 0.40
29 49 0.55
30 4 0.04
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.20
Consensus pattern (30 bp):
CCATAACCCTTAAACCCATAAACCATTAAA
Found at i:100939758 original size:14 final size:15
Alignment explanation
Indices: 100939731--100939785 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
100939721 CTTAAACCCT
*
100939731 AACCCTTAACCCATA
1 AACCATTAACCCATA
100939746 AACCATTAA-CCATA
1 AACCATTAACCCATA
*
100939760 ATCC-TTAAACCCATA
1 AACCATT-AACCCATA
* *
100939775 ATCCATAAACC
1 AACCATTAACC
100939786 TTACAATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 2 0.06
14 10 0.29
15 21 0.62
16 1 0.03
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.22
Consensus pattern (15 bp):
AACCATTAACCCATA
Found at i:100939839 original size:14 final size:14
Alignment explanation
Indices: 100939614--100939785 Score: 60
Period size: 14 Copynumber: 11.9 Consensus size: 14
100939604 CTAATTAATC
*
100939614 TAAACCCTAAATCCC
1 TAAACCCTAAA-CCA
*
100939629 T-AACCCTTAACCCCA
1 TAAACCC-TAA-ACCA
* *
100939644 TAACCCCTAAACCT
1 TAAACCCTAAACCA
* *
100939658 TAAACCATAAAACA
1 TAAACCCTAAACCA
* *
100939672 TAAACCCTTAACCCT
1 TAAACCC-TAAACCA
* *
100939687 TAACCCCTAAACCT
1 TAAACCCTAAACCA
* * *
100939701 TAAACCCCAACCCCC
1 TAAACCCTAA-ACCA
* * *
100939716 TAAAACTTAAACCC
1 TAAACCCTAAACCA
*
100939730 T-AACCCTTAACCCA
1 TAAACCC-TAAACCA
* *
100939744 TAAACCATTAACCA
1 TAAACCCTAAACCA
* *
100939758 TAATCCTTAAACCCA
1 TAAACCCTAAA-CCA
* *
100939773 TAATCCATAAACC
1 TAAACCCTAAACC
100939786 TTACAATAGT
Statistics
Matches: 115, Mismatches: 34, Indels: 17
0.69 0.20 0.10
Matches are distributed among these distances:
13 3 0.03
14 62 0.54
15 46 0.40
16 4 0.03
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:100939875 original size:13 final size:13
Alignment explanation
Indices: 100939859--100939885 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
100939849 ATTCAATATT
100939859 TTAAAATTAATAC
1 TTAAAATTAATAC
100939872 TTAAAATTAATAC
1 TTAAAATTAATAC
100939885 T
1 T
100939886 ATCTCTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAAAATTAATAC
Found at i:100940329 original size:12 final size:12
Alignment explanation
Indices: 100940312--100940339 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
100940302 TTTTTCATTC
100940312 AAACGCCGCTAA
1 AAACGCCGCTAA
100940324 AAACGCCGCTAA
1 AAACGCCGCTAA
100940336 AAAC
1 AAAC
100940340 CTGTTTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.32, G:0.14, T:0.07
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:100942561 original size:54 final size:54
Alignment explanation
Indices: 100942494--100942687 Score: 281
Period size: 54 Copynumber: 3.7 Consensus size: 54
100942484 TTAAAAAAAA
*
100942494 TTTGGTGCTGGCCTGTCAATGGCCGGCACCAAGTACAAAAAAAAATCAAAATTT
1 TTTGGTGCTGGCCTATCAATGGCCGGCACCAAGTACAAAAAAAAATCAAAATTT
*
100942548 TTTGGTGCTGGCCTATCAATGGCCGGTACCAAGTACAAAAAAAAATCAAAATTT
1 TTTGGTGCTGGCCTATCAATGGCCGGCACCAAGTACAAAAAAAAATCAAAATTT
* *
100942602 TTTGGTGCTGGCCTATCAATGGCCGGTACCAAGT----AAAAAAATTAAAATTT
1 TTTGGTGCTGGCCTATCAATGGCCGGCACCAAGTACAAAAAAAAATCAAAATTT
* **
100942652 TTT-GTGCTGGCCTGTCAATGGCTAGCACCAGAGTAC
1 TTTGGTGCTGGCCTATCAATGGCCGGCACCA-AGTAC
100942688 GAGTTTCAAA
Statistics
Matches: 130, Mismatches: 7, Indels: 8
0.90 0.05 0.06
Matches are distributed among these distances:
49 23 0.18
50 21 0.16
54 86 0.66
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (54 bp):
TTTGGTGCTGGCCTATCAATGGCCGGCACCAAGTACAAAAAAAAATCAAAATTT
Found at i:100942758 original size:55 final size:55
Alignment explanation
Indices: 100942651--100942808 Score: 200
Period size: 55 Copynumber: 3.0 Consensus size: 55
100942641 AATTAAAATT
* ** * *
100942651 TTTTGTGCTGGCCTGTCAATGGCTAGCACCAGAGTACGAG--TTTCAAAAAAAAA
1 TTTTGTGCTGGCTTGTCAATGGCCGGCACCAGAGTACTAGTATTTAAAAAAAAAA
*
100942704 TTTTGTGCTGACTTGTCAATGGCCGGCACCAGAGTACTAGTATTTAAAAAAAAAA
1 TTTTGTGCTGGCTTGTCAATGGCCGGCACCAGAGTACTAGTATTTAAAAAAAAAA
* * *
100942759 TTTAGAGCTGGCTTGTCAATGGCCGGCACCAGACT--TAGTA-TTAAAAAAAA
1 TTTTGTGCTGGCTTGTCAATGGCCGGCACCAGAGTACTAGTATTTAAAAAAAA
100942809 TTTCTTTTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
52 10 0.11
53 40 0.43
55 43 0.46
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (55 bp):
TTTTGTGCTGGCTTGTCAATGGCCGGCACCAGAGTACTAGTATTTAAAAAAAAAA
Found at i:100944354 original size:207 final size:207
Alignment explanation
Indices: 100943999--100944413 Score: 830
Period size: 207 Copynumber: 2.0 Consensus size: 207
100943989 GAATGTCGAG
100943999 TTATGCTCCATTCACTGAGACATATTGATTTACATGAGAGTGCATAGCTTCGCCTGCACTTATGG
1 TTATGCTCCATTCACTGAGACATATTGATTTACATGAGAGTGCATAGCTTCGCCTGCACTTATGG
100944064 GACATGTTATAAGACTCTATGAGTCATTCTAAGACATTATAAGGAGATTTGCATATCCAACAGAT
66 GACATGTTATAAGACTCTATGAGTCATTCTAAGACATTATAAGGAGATTTGCATATCCAACAGAT
100944129 AAGATAAGTAAGTTAAGACAAGTGTGAGAACATATTTTATGTTTCTCAACAATTCTGATAAGACA
131 AAGATAAGTAAGTTAAGACAAGTGTGAGAACATATTTTATGTTTCTCAACAATTCTGATAAGACA
100944194 AGTATGTGAGCA
196 AGTATGTGAGCA
100944206 TTATGCTCCATTCACTGAGACATATTGATTTACATGAGAGTGCATAGCTTCGCCTGCACTTATGG
1 TTATGCTCCATTCACTGAGACATATTGATTTACATGAGAGTGCATAGCTTCGCCTGCACTTATGG
100944271 GACATGTTATAAGACTCTATGAGTCATTCTAAGACATTATAAGGAGATTTGCATATCCAACAGAT
66 GACATGTTATAAGACTCTATGAGTCATTCTAAGACATTATAAGGAGATTTGCATATCCAACAGAT
100944336 AAGATAAGTAAGTTAAGACAAGTGTGAGAACATATTTTATGTTTCTCAACAATTCTGATAAGACA
131 AAGATAAGTAAGTTAAGACAAGTGTGAGAACATATTTTATGTTTCTCAACAATTCTGATAAGACA
100944401 AGTATGTGAGCA
196 AGTATGTGAGCA
100944413 T
1 T
100944414 GTTTCATGCT
Statistics
Matches: 208, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
207 208 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (207 bp):
TTATGCTCCATTCACTGAGACATATTGATTTACATGAGAGTGCATAGCTTCGCCTGCACTTATGG
GACATGTTATAAGACTCTATGAGTCATTCTAAGACATTATAAGGAGATTTGCATATCCAACAGAT
AAGATAAGTAAGTTAAGACAAGTGTGAGAACATATTTTATGTTTCTCAACAATTCTGATAAGACA
AGTATGTGAGCA
Found at i:100960509 original size:2 final size:2
Alignment explanation
Indices: 100960502--100960526 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100960492 AAATAAATAA
100960502 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
100960527 AGAAGAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100960534 original size:3 final size:3
Alignment explanation
Indices: 100960526--100960577 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
100960516 ATATATATAT
100960526 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
100960574 AAG A
1 AAG A
100960578 TAAATAAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:100960664 original size:44 final size:45
Alignment explanation
Indices: 100960608--100960704 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 45
100960598 AAATCGGAAA
* * *
100960608 AATAAAAATAAGAATGTAAACAATAATC-ATAAAACAACTAAAGAT
1 AATAATAATAAGAATATAAACAAAAATCAATAAAA-AACTAAAGAT
* * *
100960653 AA-AATAATAAGAATATAAATAAAAATCAATAAAAACCTAAATAT
1 AATAATAATAAGAATATAAACAAAAATCAATAAAAAACTAAAGAT
100960697 AATAATAA
1 AATAATAA
100960705 AAATGATAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
44 31 0.70
45 13 0.30
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (45 bp):
AATAATAATAAGAATATAAACAAAAATCAATAAAAAACTAAAGAT
Found at i:100960693 original size:22 final size:20
Alignment explanation
Indices: 100960651--100960707 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 20
100960641 ACAACTAAAG
* **
100960651 ATAAAATAATAAGAATATAA
1 ATAAAATAATAAAAACCTAA
100960671 ATAAAAATCAATAAAAACCTAA
1 AT-AAAAT-AATAAAAACCTAA
*
100960693 ATATAATAATAAAAA
1 ATAAAATAATAAAAA
100960708 TGATAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 10 0.32
21 9 0.29
22 12 0.39
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (20 bp):
ATAAAATAATAAAAACCTAA
Found at i:100974681 original size:21 final size:21
Alignment explanation
Indices: 100974657--100974698 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
100974647 ATGATGTATG
*
100974657 CAATAATAATACTAAATATAA
1 CAATAATAATACTAAAAATAA
*
100974678 CAATAATAATATTAAAAATAA
1 CAATAATAATACTAAAAATAA
100974699 TAGCAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (21 bp):
CAATAATAATACTAAAAATAA
Found at i:100974706 original size:21 final size:21
Alignment explanation
Indices: 100974670--100974726 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 21
100974660 TAATAATACT
100974670 AAAT-ATAACAATAATAATATTAA
1 AAATAATAACAATAA-AA-A-TAA
*
100974693 AAATAATAGCAATAAAAATAA
1 AAATAATAACAATAAAAATAA
*
100974714 GAATAATAACAAT
1 AAATAATAACAAT
100974727 GATAAAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 14 0.47
22 1 0.03
23 6 0.20
24 9 0.30
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.25
Consensus pattern (21 bp):
AAATAATAACAATAAAAATAA
Found at i:100974721 original size:15 final size:15
Alignment explanation
Indices: 100974674--100974722 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
100974664 AATACTAAAT
*
100974674 ATAACAATAATAATA
1 ATAAAAATAATAATA
* **
100974689 TTAAAAATAATAGCA
1 ATAAAAATAATAATA
*
100974704 ATAAAAATAAGAATA
1 ATAAAAATAATAATA
100974719 ATAA
1 ATAA
100974723 CAATGATAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (15 bp):
ATAAAAATAATAATA
Found at i:100976797 original size:17 final size:17
Alignment explanation
Indices: 100976775--100976818 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
100976765 ATTACAAAAT
*
100976775 CATATCTTCTAAGATTG
1 CATATCATCTAAGATTG
100976792 CATATCACATCTAAGATTG
1 CATAT--CATCTAAGATTG
100976811 CATATCAT
1 CATATCAT
100976819 TGAAGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 8 0.33
19 16 0.67
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (17 bp):
CATATCATCTAAGATTG
Found at i:100977627 original size:44 final size:44
Alignment explanation
Indices: 100977443--100977793 Score: 248
Period size: 44 Copynumber: 7.9 Consensus size: 44
100977433 TAAAGGTTAG
*
100977443 ATCTGCTATGTCTTCGATTTG-TTCCT-TGCAAACACAAGAATGCCCAA
1 ATCTGCTA--TCTTCGATTTGTTTCCTAT--AAACACAAGGATG-CCAA
* * * * *
100977490 ATATGCTATCTTCAACTTGTTTTCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCGATTTGTTTCCTATAAACACAAGGATGCCAA
** * ** * * *
100977532 ATGCTGAAATCTTCGATCTACTTCACTGTAAGCAC-AGGAATGTCAA
1 AT-CTGCTATCTTCGATTTGTTTC-CTATAAACACAAGG-ATGCCAA
*
100977578 ATCTGCTATCTTCGATTTGTTTCCTATAAAAACAAGGATGCCAA
1 ATCTGCTATCTTCGATTTGTTTCCTATAAACACAAGGATGCCAA
* * * * *
100977622 ATCTGCTATCTTCAACTTGTTCCCTATAAACGCAGGGATGCC--
1 ATCTGCTATCTTCGATTTGTTTCCTATAAACACAAGGATGCCAA
** * * * * * * *
100977664 ATGCTGAAATCTTCGATCTGCTTTGCTGTAAGCACAAGAATGTCAG
1 AT-CTGCTATCTTCGATTTG-TTTCCTATAAACACAAGGATGCCAA
* *
100977710 ATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATTTGTTTCCTATAAACACAAGGATGCCAA
* * * *
100977754 ATCTGCTATCTTCAACTTGTTCCCTATAAATACAAGGATG
1 ATCTGCTATCTTCGATTTGTTTCCTATAAACACAAGGATG
100977794 TCATGCTGAA
Statistics
Matches: 230, Mismatches: 62, Indels: 27
0.72 0.19 0.08
Matches are distributed among these distances:
42 4 0.02
43 26 0.11
44 131 0.57
45 53 0.23
46 8 0.03
47 8 0.03
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCGATTTGTTTCCTATAAACACAAGGATGCCAA
Found at i:100977789 original size:88 final size:88
Alignment explanation
Indices: 100977441--100977796 Score: 290
Period size: 88 Copynumber: 4.0 Consensus size: 88
100977431 TCTAAAGGTT
* ** * *
100977441 AGATCTGCTATGTCTTCGATTTGTTCCTTGCAAACACAAGAATGCCCAAATATGCTATCTTCAAC
1 AGATCTGCTA--TCTTCGATTTGTTCCCTATAAACACAGGAATG-CCAAATCTGCTATCTTCAAC
* *
100977506 TTGTTTTCTATAAACACAGGGATG-C
63 TTGTTTCCTATAAACACAAGGATGTC
* ** ** * * * * * *
100977531 -CATGCTGAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCGATT
1 AGAT-CTGCTATCTTCGAT-TTGTTCCCTATAAACACAGGAATGCCAAATCTGCTATCTTCAACT
* *
100977595 TGTTTCCTATAAAAACAAGGATGCC
64 TGTTTCCTATAAACACAAGGATGTC
* * * * * ** *
100977620 AAATCTGCTATCTTCAACTTGTTCCCTATAAACGCAGGGATGCC--ATGCTGAAATCTTCGA-TC
1 AGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGAATGCCAAAT-CTGCTATCTTCAACT-
* * * *
100977682 TGCTTTGCTGTAAGCACAAGAATGTC
64 TG-TTTCCTATAAACACAAGGATGTC
*
100977708 AGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTG
1 AGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGAATGCCAAATCTGCTATCTTCAACTTG
* *
100977773 TTCCCTATAAATACAAGGATGTC
66 TTTCCTATAAACACAAGGATGTC
100977796 A
1 A
100977797 TGCTGAAATC
Statistics
Matches: 205, Mismatches: 51, Indels: 22
0.74 0.18 0.08
Matches are distributed among these distances:
86 3 0.01
87 13 0.06
88 138 0.67
89 42 0.20
90 9 0.04
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (88 bp):
AGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGAATGCCAAATCTGCTATCTTCAACTTG
TTTCCTATAAACACAAGGATGTC
Found at i:100977815 original size:132 final size:132
Alignment explanation
Indices: 100977441--100977816 Score: 545
Period size: 132 Copynumber: 2.8 Consensus size: 132
100977431 TCTAAAGGTT
* ** * *
100977441 AGATCTGCTATGTCTTCGATTTGTTCCTTGCAAACACAAGAATGCCCAAATATGCTATCTTCAAC
1 AGATCTGCTA--TCTTCGATTTGTTCCCTATAAACACAAGGATG-CCAAATCTGCTATCTTCAAC
** * *
100977506 TTGTTTTCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTAAGCACAGGA
63 TTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAAGA
100977571 ATGTC
128 ATGTC
* * *
100977576 AAATCTGCTATCTTCGATTTGTTTCCTATAAAAACAAGGATGCCAAATCTGCTATCTTCAACTTG
1 AGATCTGCTATCTTCGATTTGTTCCCTATAAACACAAGGATGCCAAATCTGCTATCTTCAACTTG
* **
100977641 TTCCCTATAAACGCAGGGATGCCATGCTGAAATCTTCGATCTGCTTTGCTGTAAGCACAAGAATG
66 TTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAAGAATG
100977706 TC
131 TC
*
100977708 AGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTG
1 AGATCTGCTATCTTCGATTTGTTCCCTATAAACACAAGGATGCCAAATCTGCTATCTTCAACTTG
* * * *
100977773 TTCCCTATAAATACAAGGATGTCATGCTGAAATCTTTGATCTGC
66 TTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGC
100977817 CCTCTGACAA
Statistics
Matches: 217, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
132 182 0.84
133 26 0.12
135 9 0.04
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.32
Consensus pattern (132 bp):
AGATCTGCTATCTTCGATTTGTTCCCTATAAACACAAGGATGCCAAATCTGCTATCTTCAACTTG
TTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAAGAATG
TC
Found at i:100977858 original size:44 final size:44
Alignment explanation
Indices: 100977804--100977888 Score: 136
Period size: 44 Copynumber: 1.9 Consensus size: 44
100977794 TCATGCTGAA
*
100977804 ATCTTTGATCTGCC-CTCTGACAATACAGAGACGCCAAATCTACT
1 ATCTTCGATCTGCCTC-CTGACAATACAGAGACGCCAAATCTACT
*
100977848 ATCTTCGATCTGCTTCCTGACAATACAGAGACGCCAAATCT
1 ATCTTCGATCTGCCTCCTGACAATACAGAGACGCCAAATCT
100977889 GTCATCTTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 37 0.97
45 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.27
Consensus pattern (44 bp):
ATCTTCGATCTGCCTCCTGACAATACAGAGACGCCAAATCTACT
Found at i:100977896 original size:44 final size:44
Alignment explanation
Indices: 100977820--100977907 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
100977810 GATCTGCCCT
*
100977820 CTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTTC
1 CTGACAATACAGAGACGCCAAATCTACTATCTTAGATCTGCTTC
*
100977864 CTGACAATACAGAGACGCCAAATCT-GTCATCTTAGATCTGCTTC
1 CTGACAATACAGAGACGCCAAATCTACT-ATCTTAGATCTGCTTC
100977908 GATGTAAGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 1 0.02
44 40 0.98
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (44 bp):
CTGACAATACAGAGACGCCAAATCTACTATCTTAGATCTGCTTC
Found at i:100978087 original size:84 final size:85
Alignment explanation
Indices: 100977928--100978742 Score: 1111
Period size: 84 Copynumber: 9.6 Consensus size: 85
100977918 TCTGAAGGTC
* * * ** **
100977928 AGATCTGCTATATCTTAGCCTATTACCCTACTGCTTAGGGAGTTAAGGCGA-GTCTTTAATCCAC
1 AGATCTGC-A-ATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGACGTCTTCGATCTGC
100977992 TCCACTACTGCTTAGGGAGATA
64 TCCACTACTGCTTAGGGAGATA
* * * * * *
100978014 GGATTTGTAATTTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCGCATCATCTTCGATCTAC
1 AGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG-A-CGTCTTCGATCTGC
* *
100978079 TCCGCTGCTGCTTAGGGAGATA
64 TCCACTACTGCTTAGGGAGATA
** *
100978101 AGATCTATAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG-CATCTTCGATCTGCTC
1 AGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGACGTCTTCGATCTGCTC
*
100978165 CACTACTGCTTAGGAAGATA
66 CACTACTGCTTAGGGAGATA
* * *
100978185 AGATCTGCAATTTTAACCTGTTACCCTACTGCTTAGGGGATTAAGTCGA-GTCTTCGATCTGCTC
1 AGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGACGTCTTCGATCTGCTC
*
100978249 CACTACTACTTAGGGAGATA
66 CACTACTGCTTAGGGAGATA
* * * * * *
100978269 AGATCTACAAATTTAACCTGTTACCCTACTGTTTAAGGGATTAAGGCGA-GTCTTCGATCTGCTC
1 AGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGACGTCTTCGATCTGCTC
100978333 CACTACTGCTTAGGGAGATA
66 CACTACTGCTTAGGGAGATA
*
100978353 AGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGTGCATCGTCTTCGATCTGC
1 AGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG-A-CGTCTTCGATCTGC
** *
100978418 TCTGCTACTGCTTAAGGAGATA
64 TCCACTACTGCTTAGGGAGATA
* *
100978440 AGATCTGTAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG-GGTCTTCGATCTGCTC
1 AGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGACGTCTTCGATCTGCTC
100978504 CACTACTGCTTAGGGAGATA
66 CACTACTGCTTAGGGAGATA
100978524 AGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCATCGTCTTCGATCTGC
1 AGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG-A-CGTCTTCGATCTGC
* * *
100978589 TTCGCTACTACTTAGGGAGATA
64 TCCACTACTGCTTAGGGAGATA
* * * *
100978611 AGATTTGTAATTTTAGCCTGTTACCCTACTGCTTATGGGGTTAAGGCG-GGTCTTCGATCTGCTC
1 AGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGACGTCTTCGATCTGCTC
100978675 CACTACTGCTTAGGGAGATA
66 CACTACTGCTTAGGGAGATA
* * *
100978695 AGATCTGCAATTTTAGCCTGTTACCCCACTACTTAGGGGATTAAGGCG
1 AGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG
100978743 CTGAATTTTG
Statistics
Matches: 650, Mismatches: 69, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
84 414 0.64
85 3 0.00
86 5 0.01
87 228 0.35
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (85 bp):
AGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGACGTCTTCGATCTGCTC
CACTACTGCTTAGGGAGATA
Found at i:100978412 original size:255 final size:253
Alignment explanation
Indices: 100977928--100978742 Score: 1145
Period size: 255 Copynumber: 3.2 Consensus size: 253
100977918 TCTGAAGGTC
* * ** **
100977928 AGATCTGCTATATCTTAGCCTATTACCCTACTGCTTA-GGGAGTTAAGGCGAGTCTTTAATCCAC
1 AGATCTGC-A-ATTTTAGCCTGTTACCCTACTGCTTAGGGGA-TTAAGGCGAGTCTTCGATCTGC
* * * *
100977992 TCCACTACTGCTTAGGGAGATAGGATTTGTAATTTTAGCCTGTTACCCTACTACTTAGGGGGTTA
63 TCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTA
* * * *
100978057 AGGCGCATCATCTTCGATCTACTCCGCTGCTGCTTAGGGAGATAAGATCTATAATTTTAGCCTGT
128 AGGCGCA-CGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTAGCCTGT
100978122 TACCCTACTGCTTAGGGGGTTAAGGCGCA-TCTTCGATCTGCTCCACTACTGCTTAGGAAGATA
192 TACCCTACTGCTTAGGGGGTTAAGG-GCAGTCTTCGATCTGCTCCACTACTGCTTAGG-AGATA
* *
100978185 AGATCTGCAATTTTAACCTGTTACCCTACTGCTTAGGGGATTAAGTCGAGTCTTCGATCTGCTCC
1 AGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCC
* * * * * * *
100978250 ACTACTACTTAGGGAGATAAGATCTACAAATTTAACCTGTTACCCTACTGTTTAAGGGATTAAGG
66 ACTACTGCTTAGGGAGATAAGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
* *
100978315 CG-A-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTAGCCTGTTACC
131 CGCACGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTAGCCTGTTACC
**
100978378 CTACTGCTTAGGGGGTTAAGGTGCATCGTCTTCGATCTGCTCTGCTACTGCTTAAGGAGATA
196 CTACTGCTTAGGGGGTTAAGG-GCA--GTCTTCGATCTGCTCCACTACTGCTT-AGGAGATA
* * *
100978440 AGATCTGTAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGGGTCTTCGATCTGCTCC
1 AGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCC
100978505 ACTACTGCTTAGGGAGATAAGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
66 ACTACTGCTTAGGGAGATAAGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
* * *
100978570 CGCATCGTCTTCGATCTGCTTCGCTACTACTTAGGGAGATAAGATTTGTAATTTTAGCCTGTTAC
131 CGCA-CGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTAGCCTGTTAC
* *
100978635 CCTACTGCTTATGGGGTTAA-GGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
195 CCTACTGCTTAGGGGGTTAAGGGC-AGTCTTCGATCTGCTCCACTACTGCTTA-GGAGATA
* *
100978695 AGATCTGCAATTTTAGCCTGTTACCCCACTACTTAGGGGATTAAGGCG
1 AGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGATTAAGGCG
100978743 CTGAATTTTG
Statistics
Matches: 495, Mismatches: 53, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
252 78 0.16
254 2 0.00
255 322 0.65
256 11 0.02
257 9 0.02
258 73 0.15
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (253 bp):
AGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCC
ACTACTGCTTAGGGAGATAAGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
CGCACGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTAGCCTGTTACC
CTACTGCTTAGGGGGTTAAGGGCAGTCTTCGATCTGCTCCACTACTGCTTAGGAGATA
Found at i:100978508 original size:171 final size:171
Alignment explanation
Indices: 100977928--100978743 Score: 1217
Period size: 171 Copynumber: 4.8 Consensus size: 171
100977918 TCTGAAGGTC
* * * ** **
100977928 AGATCTGCTATATCTTAGCCTATTACCCTACTGCTTAGGGAGTTAAGGCGAGTCTTTAATCCACT
1 AGATCTG-TA-ATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGATCTGCT
* * * *
100977993 CCACTACTGCTTAGGGAGATAGGATTTGTAATTTTAGCCTGTTACCCTACTACTTAGGGGGTTAA
64 CCACTACTGCTTAGGGAGATAAGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAA
* * * *
100978058 GGCGCATCATCTTCGATCTACTCCGCTGCTGCTTAGGGAGATA
129 GGCGCATCGTCTTCGATCTGCTCCGCTACTACTTAGGGAGATA
*
100978101 AGATCTATAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TCTTCGATCTGCTC
1 AGATCTGTAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG-AGTCTTCGATCTGCTC
* * *
100978165 CACTACTGCTTAGGAAGATAAGATCTGCAATTTTAACCTGTTACCCTACTGCTTAGGGGATTAAG
65 CACTACTGCTTAGGGAGATAAGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
* *
100978230 TCG-A--GTCTTCGATCTGCTCCACTACTACTTAGGGAGATA
130 GCGCATCGTCTTCGATCTGCTCCGCTACTACTTAGGGAGATA
** * * * * *
100978269 AGATCTACAAATTTAACCTGTTACCCTACTGTTTAAGGGATTAAGGCGAGTCTTCGATCTGCTCC
1 AGATCTGTAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGATCTGCTCC
100978334 ACTACTGCTTAGGGAGATAAGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
66 ACTACTGCTTAGGGAGATAAGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
* * * *
100978399 TGCATCGTCTTCGATCTGCTCTGCTACTGCTTAAGGAGATA
131 CGCATCGTCTTCGATCTGCTCCGCTACTACTTAGGGAGATA
*
100978440 AGATCTGTAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGGGTCTTCGATCTGCTCC
1 AGATCTGTAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGATCTGCTCC
100978505 ACTACTGCTTAGGGAGATAAGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
66 ACTACTGCTTAGGGAGATAAGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
*
100978570 CGCATCGTCTTCGATCTGCTTCGCTACTACTTAGGGAGATA
131 CGCATCGTCTTCGATCTGCTCCGCTACTACTTAGGGAGATA
* * *
100978611 AGATTTGTAATTTTAGCCTGTTACCCTACTGCTTATGGGGTTAAGGCGGGTCTTCGATCTGCTCC
1 AGATCTGTAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGATCTGCTCC
* * *
100978676 ACTACTGCTTAGGGAGATAAGATCTGCAATTTTAGCCTGTTACCCCACTACTTAGGGGATTAAGG
66 ACTACTGCTTAGGGAGATAAGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
100978741 CGC
131 CGC
100978744 TGAATTTTGT
Statistics
Matches: 584, Mismatches: 54, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
167 1 0.00
168 149 0.26
169 1 0.00
170 1 0.00
171 423 0.72
172 3 0.01
173 6 0.01
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (171 bp):
AGATCTGTAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGATCTGCTCC
ACTACTGCTTAGGGAGATAAGATCTGCAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
CGCATCGTCTTCGATCTGCTCCGCTACTACTTAGGGAGATA
Found at i:100979736 original size:15 final size:13
Alignment explanation
Indices: 100979685--100979744 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
100979675 GGCCTCTCCA
* *
100979685 TTTTCTTTTTCTC
1 TTTTTTTTTTCTT
*
100979698 TTTTTTTATT-TT
1 TTTTTTTTTTCTT
*
100979710 TTATTTTTTTCTT
1 TTTTTTTTTTCTT
100979723 TTCTTTTTTCTTCTT
1 TT-TTTTTT-TTCTT
100979738 TTTTTTT
1 TTTTTTT
100979745 AAAATAGAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
12 9 0.24
13 12 0.32
14 10 0.26
15 7 0.18
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTTCTT
Found at i:100979739 original size:23 final size:23
Alignment explanation
Indices: 100979687--100979742 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
100979677 CCTCTCCATT
* *
100979687 TTCTTTTTCTCTTTTTTTATTTT
1 TTCTTTTTTTCTTTTTTTATTTC
*
100979710 TTATTTTTTTCTTTTCTTT-TTTC
1 TTCTTTTTTTCTTTT-TTTATTTC
100979733 TTCTTTTTTT
1 TTCTTTTTTT
100979743 TTAAAATAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 25 0.89
24 3 0.11
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (23 bp):
TTCTTTTTTTCTTTTTTTATTTC
Found at i:100984993 original size:17 final size:17
Alignment explanation
Indices: 100984958--100985017 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
100984948 AATCATATCT
100984958 TCTAAGATTGCATTCATA
1 TCTAAGATTG-ATTCATA
100984976 TCTAAGATTG-TGTCATA
1 TCTAAGATTGAT-TCATA
* *
100984993 TCTAATATTGCATATCACA
1 TCTAAGATTG-AT-TCATA
100985012 TCTAAG
1 TCTAAG
100985018 TTTGCATATC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 1 0.03
17 14 0.40
18 10 0.29
19 10 0.29
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (17 bp):
TCTAAGATTGATTCATA
Found at i:100985016 original size:19 final size:19
Alignment explanation
Indices: 100984958--100985029 Score: 87
Period size: 19 Copynumber: 3.9 Consensus size: 19
100984948 AATCATATCT
100984958 TCTAAGATTGCAT-TCATA
1 TCTAAGATTGCATATCATA
*
100984976 TCTAAGATTG--TGTCATA
1 TCTAAGATTGCATATCATA
* *
100984993 TCTAATATTGCATATCACA
1 TCTAAGATTGCATATCATA
*
100985012 TCTAAGTTTGCATATCAT
1 TCTAAGATTGCATATCAT
100985030 TGAAGATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
16 1 0.02
17 14 0.31
18 10 0.22
19 20 0.44
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:100999624 original size:29 final size:29
Alignment explanation
Indices: 100999578--100999641 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
100999568 CTGACGTGGC
* *
100999578 TAAACCTTAAATCCTAAATCTCAAAACCT
1 TAAACCTTAAAGCATAAATCTCAAAACCT
* * *
100999607 TAAATCTTAAAGCATAAATCTTAAAACTT
1 TAAACCTTAAAGCATAAATCTCAAAACCT
100999636 TAAACC
1 TAAACC
100999642 CATAAACCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.30
Consensus pattern (29 bp):
TAAACCTTAAAGCATAAATCTCAAAACCT
Found at i:101000285 original size:30 final size:30
Alignment explanation
Indices: 101000249--101000311 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
101000239 ACTTAACAAG
101000249 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
101000279 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
101000309 CAA
1 CAA
101000312 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:101003795 original size:21 final size:21
Alignment explanation
Indices: 101003771--101003835 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
101003761 AAAATAAAGG
101003771 AAAATATAATAACAATAATAA
1 AAAATATAATAACAATAATAA
* * *
101003792 AAAATACAACAATAATAATAGTGA
1 AAAATATAATAACAATAATA---A
*
101003816 AAGATATAATAAC-ATAATAA
1 AAAATATAATAACAATAATAA
101003836 TATAATAGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 7
0.71 0.15 0.15
Matches are distributed among these distances:
20 1 0.03
21 17 0.50
23 6 0.18
24 10 0.29
ACGTcount: A:0.66, C:0.06, G:0.05, T:0.23
Consensus pattern (21 bp):
AAAATATAATAACAATAATAA
Done.