Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 92 of 125
Found at i:17986459 original size:14 final size:13
Alignment explanation
Indices: 17986437--17986466 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
17986427 CTTTTAAATT
17986437 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
17986450 AAAAAGAAAAAAAG
1 AAAAA-AAAAAAAG
17986464 AAA
1 AAA
17986467 GGATTTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:17986621 original size:14 final size:14
Alignment explanation
Indices: 17986596--17986630 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
17986586 ATTTATTAAC
17986596 TGAAAA-AAAAAAG
1 TGAAAAGAAAAAAG
17986609 TGAAAAGAAAAAAG
1 TGAAAAGAAAAAAG
17986623 T-AAAAGAA
1 TGAAAAGAA
17986631 GGGTGATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (14 bp):
TGAAAAGAAAAAAG
Found at i:17986627 original size:25 final size:25
Alignment explanation
Indices: 17986599--17986654 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
17986589 TATTAACTGA
17986599 AAAAAAAAAGTGA-AAAGAAAAAAGT
1 AAAAAAAAAGTGATAAAG-AAAAAGT
* ** *
17986624 AAAAGAAGGGTGATAAAGAAAGAGT
1 AAAAAAAAAGTGATAAAGAAAAAGT
17986649 AAAAAA
1 AAAAAA
17986655 GGAAAATTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.09
Consensus pattern (25 bp):
AAAAAAAAAGTGATAAAGAAAAAGT
Found at i:17987373 original size:19 final size:20
Alignment explanation
Indices: 17987333--17987375 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
17987323 AATTAATCTA
* *
17987333 AAAT-AAAATTTATATTATT
1 AAATAAAAATCTATATTACT
17987352 AAATAAAAATCTAT-TTACT
1 AAATAAAAATCTATATTACT
17987371 AAATA
1 AAATA
17987376 TATATAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATAAAAATCTATATTACT
Found at i:17987591 original size:11 final size:11
Alignment explanation
Indices: 17987570--17987611 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 11
17987560 GATTGTAAAA
17987570 ATTTTTA-TTC
1 ATTTTTATTTC
17987580 ATTTTTATTTC
1 ATTTTTATTTC
17987591 AGATTTTTATTTC
1 --ATTTTTATTTC
*
17987604 ATATTTAT
1 ATTTTTAT
17987612 CATTTTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 7 0.25
11 10 0.36
13 11 0.39
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (11 bp):
ATTTTTATTTC
Found at i:17987598 original size:13 final size:13
Alignment explanation
Indices: 17987580--17987609 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17987570 ATTTTTATTC
17987580 ATTTTTATTTCAG
1 ATTTTTATTTCAG
*
17987593 ATTTTTATTTCAT
1 ATTTTTATTTCAG
17987606 ATTT
1 ATTT
17987610 ATCATTTTTT
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:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (13 bp):
ATTTTTATTTCAG
Found at i:17989403 original size:18 final size:18
Alignment explanation
Indices: 17989380--17989432 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
17989370 TTTAAATTTC
17989380 ATTTTCATTTTTATTTTT
1 ATTTTCATTTTTATTTTT
*
17989398 ATTTTCATTTTT-GTTTT
1 ATTTTCATTTTTATTTTT
17989415 ATTTT-ATTATTTTATTTT
1 ATTTTCA-T-TTTTATTTT
17989433 CTTTAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 1 0.03
17 10 0.33
18 16 0.53
19 3 0.10
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (18 bp):
ATTTTCATTTTTATTTTT
Found at i:17989547 original size:58 final size:57
Alignment explanation
Indices: 17989450--17990006 Score: 640
Period size: 58 Copynumber: 9.7 Consensus size: 57
17989440 TAAAATTCAA
* ** *
17989450 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAATTTTC
*** * * *
17989507 AAAAAAGGGTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTCGAAATTAAAAGTTTCC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATT-AAA-TTTTC
* * ** *
17989566 AAAAAATATTTTTG-GGAAAAAGTTAAAAGTATCGATTTTCCTTAAAAATAAATTTTC
1 AAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAATTTTC
* *
17989623 AAAAAA-AGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
1 AAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAA-TTTTC
* * * *
17989681 AAAAAATATTTTTGGGGAAAAATTAAAATTATCAATTTTCCTCGAAATTAAAGTTTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAA--TTTTC
* ** *
17989740 AAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTC
1 AAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAATTTTC
* * * *
17989797 AAAAAA-AGGTTTTTAAGGAAAAGTTGAAAGTATCGATTTTCGTCGAAATTAAAGTTTC
1 AAAAAATA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAATTTTC
* * * *
17989855 CAAAAATA-TTTTGGGGAGAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAATTTTC
* * * *
17989911 TAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAATTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAATTTTC
17989967 TAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 -AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
17990007 TCCTGCATAA
Statistics
Matches: 426, Mismatches: 59, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
56 97 0.23
57 103 0.24
58 134 0.31
59 92 0.22
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (57 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAATTTTC
Found at i:17994796 original size:11 final size:10
Alignment explanation
Indices: 17994778--17994829 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
17994768 ACAATGGATG
17994778 AAAAATGAGA
1 AAAAATGAGA
*
17994788 AAAAGATGATAA
1 AAAA-ATGA-GA
17994800 AAAAATGA-A
1 AAAAATGAGA
17994809 AAAAA--AGA
1 AAAAATGAGA
17994817 AAAAATGAGA
1 AAAAATGAGA
17994827 AAA
1 AAA
17994830 TAAAAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
7 1 0.03
8 6 0.17
9 6 0.17
10 10 0.28
11 8 0.22
12 5 0.14
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (10 bp):
AAAAATGAGA
Found at i:17994821 original size:17 final size:18
Alignment explanation
Indices: 17994798--17994839 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
17994788 AAAAGATGAT
17994798 AAAAAAATGA-AAAA-AA
1 AAAAAAATGAGAAAATAA
17994814 AGAAAAAATGAGAAAATAA
1 A-AAAAAATGAGAAAATAA
17994833 AAAAAAA
1 AAAAAAA
17994840 AGATTCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 1 0.04
17 9 0.39
18 10 0.43
19 3 0.13
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (18 bp):
AAAAAAATGAGAAAATAA
Found at i:17995605 original size:63 final size:63
Alignment explanation
Indices: 17995527--17995661 Score: 207
Period size: 63 Copynumber: 2.1 Consensus size: 63
17995517 GAAACTGGTG
* * * *
17995527 CTGAGAAGCTTATGAATGATGACCAAGTGATAGATGATGAAATTTGTTTTGAAATGGCTAGTA
1 CTGATAAGCTTATGAATGATGACCAAGTGACAGAAGATGAAATTTATTTTGAAATGGCTAGTA
* * *
17995590 TTGATAAGCTTATGAATGATGACCAAGTGACAGAAGATGAAATTTATTTTGAAATGGTTAGTG
1 CTGATAAGCTTATGAATGATGACCAAGTGACAGAAGATGAAATTTATTTTGAAATGGCTAGTA
17995653 CTGATAAGC
1 CTGATAAGC
17995662 CTGGCATGTG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (63 bp):
CTGATAAGCTTATGAATGATGACCAAGTGACAGAAGATGAAATTTATTTTGAAATGGCTAGTA
Found at i:17996352 original size:43 final size:42
Alignment explanation
Indices: 17996304--17996409 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 42
17996294 GTCTTTGAAC
*
17996304 TCAAATGAGAAGCTTTGAATTTTTAGATGTGAATCTCCAAAAT
1 TCAAATGAGAAGCTTTGAATTTTTAGATATGAAT-TCCAAAAT
* * **
17996347 TCAAATGAAAAGCTTT-AGATTTTTTGATATGAATTCCAAGTT
1 TCAAATGAGAAGCTTTGA-ATTTTTAGATATGAATTCCAAAAT
*
17996389 TGCCAAATGAGAACCTTTGAA
1 T--CAAATGAGAAGCTTTGAA
17996410 AAGCCTTGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
42 8 0.15
43 29 0.56
44 14 0.27
45 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (42 bp):
TCAAATGAGAAGCTTTGAATTTTTAGATATGAATTCCAAAAT
Found at i:17996751 original size:41 final size:41
Alignment explanation
Indices: 17996706--17996843 Score: 206
Period size: 41 Copynumber: 3.4 Consensus size: 41
17996696 AGCTTTATTA
*
17996706 CCTCTGTTTAGAGGAG-CAGTTTATTTCTCAAAGTCGTTGAG
1 CCTCTGATTAGAGGAGCCA-TTTATTTCTCAAAGTCGTTGAG
* * *
17996747 CCTCTGATTAGAGGAGTCATTTATTTTTCAAAGTCATTGAG
1 CCTCTGATTAGAGGAGCCATTTATTTCTCAAAGTCGTTGAG
*
17996788 CTTCTGATTAGAGGAGCCATTTATTTCTCAAAGTCGTTGAG
1 CCTCTGATTAGAGGAGCCATTTATTTCTCAAAGTCGTTGAG
*
17996829 CCTCTGCTTAGAGGA
1 CCTCTGATTAGAGGA
17996844 CCTTTGATCA
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 85 0.98
42 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.36
Consensus pattern (41 bp):
CCTCTGATTAGAGGAGCCATTTATTTCTCAAAGTCGTTGAG
Found at i:17996874 original size:10 final size:10
Alignment explanation
Indices: 17996859--17996894 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
17996849 GATCAAAATT
17996859 TAAAAATAAA
1 TAAAAATAAA
*
17996869 TAAAAAGAAA
1 TAAAAATAAA
*
17996879 CAAAAATAAA
1 TAAAAATAAA
17996889 TAAAAA
1 TAAAAA
17996895 AATTACCTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:17996987 original size:107 final size:106
Alignment explanation
Indices: 17996811--17997200 Score: 442
Period size: 97 Copynumber: 3.6 Consensus size: 106
17996801 GAGCCATTTA
*
17996811 TTTCTCAAAGTCGTTGAGCCTCTGCTTAGAGGACCTTTGATCAAAATTTAAAAATAAATAAAAAG
1 TTTCTCAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTTGATCAAAA-TT-----TAAA-AAAAA-
*
17996876 AAACAAAAATAAATAAAAAAATTACCTCTATTTAGAGGAACTTTGTTTATG
58 AAAC-AAAA-AAATAAAAAAATTACCTCTGTTTAGAGGAACTTTGTTTATG
* * *
17996927 TTTCTCAAAGTCGTTGGGCCTCTGCTTAGAGGAGCTTTGGT-GAAATTTAAAAAAAAAAAC----
1 TTTCTCAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTTGATCAAAATTTAAAAAAAAAAACAAAA
*
17996987 ----AAAAAAATTACCTCTGTTTAGAGGAACTTTGTTTACG
66 AAATAAAAAAATTACCTCTGTTTAGAGGAACTTTGTTTATG
* *
17997024 TTTCTCAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTTAATCAAAATTT--AAAAAAAAATAAAA
1 TTTCTCAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTTGATCAAAATTTAAAAAAAAAAACAAAA
* * *
17997087 AAATAAAAAAATTACTTCTGTTTAAAGGAGCTTTGTTTATTATG
66 AAATAAAAAAATTACCTCTGTTTAGAGGAACTTTG--T-TTATG
* * *
17997131 TTTCTCAAAGTCGTTAAGCCTCTGCTTAGAAGAGCTTTGATCAAAATTAAAAAAAAAAAAGGCAA
1 TTTCTCAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTTGATCAAAATTTAAAAAAAAAAA--CAA
17997196 AAAAA
64 AAAAA
17997201 ATCCAGTTGA
Statistics
Matches: 238, Mismatches: 20, Indels: 37
0.81 0.07 0.13
Matches are distributed among these distances:
96 9 0.04
97 73 0.31
98 6 0.03
104 28 0.12
106 1 0.00
107 53 0.22
108 5 0.02
109 13 0.05
111 7 0.03
114 2 0.01
115 3 0.01
116 38 0.16
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (106 bp):
TTTCTCAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTTGATCAAAATTTAAAAAAAAAAACAAAA
AAATAAAAAAATTACCTCTGTTTAGAGGAACTTTGTTTATG
Found at i:17998917 original size:21 final size:19
Alignment explanation
Indices: 17998887--17998925 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
17998877 ATTTTCTGTT
17998887 AGAAAAAATAATTAAGAGAAG
1 AGAAAAAAT-ATTAA-AGAAG
*
17998908 AGAAATAATATTAAAGAA
1 AGAAAAAATATTAAAGAA
17998926 TTTTGGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 8 0.47
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (19 bp):
AGAAAAAATATTAAAGAAG
Found at i:18005938 original size:2 final size:2
Alignment explanation
Indices: 18005891--18005924 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
18005881 CAACCTCTTT
18005891 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18005925 ATTGTAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18011487 original size:129 final size:124
Alignment explanation
Indices: 18011341--18011711 Score: 308
Period size: 124 Copynumber: 3.0 Consensus size: 124
18011331 TTTTTGTAAA
* * ** *
18011341 GGATTATTCAAGGCATTTGT-TGGCCAAAAACATTTTGAATAATCTCCTAATAAAAAAATTTTTA
1 GGATTATTCAAGACATTT-TCTAGCCAAAAACACCTTGAATAA--TCC--ATAAAAAAA-TTGTA
* * *
18011405 ATGGGATTATTGAAGGT-ATTTTTGGCTAGAAATGCCTTCAATAATCCCATTCAATTTGTTGTAT
60 AGGGGATTATTGAAGGTGA-TTTTGGCCAGAAATGCATTCAATAATCCCATTCAATTTGTTGTAT
18011469 G
124 G
* ** *
18011470 GGATTATTCAAGACATTTTCTAGCTAAAAATGCCTTGAATAATCCATAAAAAAATTGTGAGGGGA
1 GGATTATTCAAGACATTTTCTAGCCAAAAACACCTTGAATAATCCATAAAAAAATTGTAAGGGGA
* * * * *
18011535 TTATTGAAGGTGATTTTGGCCAGAAATGCATTTAATAATTCCATTCAATTTTTTTTAAG
66 TTATTGAAGGTGATTTTGGCCAGAAATGCATTCAATAATCCCATTCAATTTGTTGTATG
* * * * * * *
18011594 AGAATATTCAAG--GTGTTT-TAGCCAAAAACACATTTAATAGTCCACTCATAAAAATTG-ACA-
1 GGATTATTCAAGACAT-TTTCTAGCCAAAAACACCTTGAATAATCCA-T-AAAAAAATTGTA-AG
* * * * *
18011654 AGGATTATTCAAGGT-ATTTTTGGTCAGAAACGCATTCAATAACCCCATTCATATTTGT
62 GGGATTATTGAAGGTGA-TTTTGGCCAGAAATGCATTCAATAATCCCATTCA-ATTTGT
18011712 AAAAGATTAT
Statistics
Matches: 198, Mismatches: 36, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
122 22 0.11
123 46 0.23
124 83 0.42
125 10 0.05
127 3 0.02
128 1 0.01
129 33 0.17
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (124 bp):
GGATTATTCAAGACATTTTCTAGCCAAAAACACCTTGAATAATCCATAAAAAAATTGTAAGGGGA
TTATTGAAGGTGATTTTGGCCAGAAATGCATTCAATAATCCCATTCAATTTGTTGTATG
Found at i:18011551 original size:63 final size:62
Alignment explanation
Indices: 18011407--18011551 Score: 143
Period size: 62 Copynumber: 2.3 Consensus size: 62
18011397 AATTTTTAAT
* * ** * *
18011407 GGGATTATTGAAGGTATTTTTGGCTAGAAATGCCTTCAATAATCCCATTCAATTTGTTGTAT
1 GGGATTATTGAAGGTATTTTTAGCTAAAAATGCCTTCAATAATCCCATAAAAATTGTTGTAG
* ** *
18011469 GGGATTATTCAAGACATTTTCTAGCTAAAAATGCCTTGAATAAT-CCATAAAAAAATTG-TG-AG
1 GGGATTATTGAAGGTATTTT-TAGCTAAAAATGCCTTCAATAATCCCAT--AAAAATTGTTGTAG
18011531 GGGATTATTGAAGGTGATTTT
1 GGGATTATTGAAGGT-ATTTT
18011552 GGCCAGAAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
62 34 0.52
63 27 0.41
64 5 0.08
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (62 bp):
GGGATTATTGAAGGTATTTTTAGCTAAAAATGCCTTCAATAATCCCATAAAAATTGTTGTAG
Found at i:18011647 original size:124 final size:122
Alignment explanation
Indices: 18011407--18011711 Score: 310
Period size: 124 Copynumber: 2.5 Consensus size: 122
18011397 AATTTTTAAT
* * * *
18011407 GGGATTATTGAAGGTATTTTTGGCTAGAAATGCCTTCAATAATCCCATTCAATTTGTTGTATGGG
1 GGGATTATTGAAGGTATTTTTGGCCAGAAATGCATTCAATAATCCCATTCAATTTGTTGTAAGAG
* * ** * **
18011472 ATTATTCAAGACATTTTCTAGCTAAAAATGCCTTGAATAATCCATAAAAAAATTGTGA
66 AATATTCAAGA-ATTTTCTAGCCAAAAACACATTGAATAATCCATAAAAAAATTGACA
* * * *
18011530 GGGGATTATTGAAGGTGA-TTTTGGCCAGAAATGCATTTAATAATTCCATTCAATTTTTTTTAAG
1 -GGGATTATTGAAGGT-ATTTTTGGCCAGAAATGCATTCAATAATCCCATTCAATTTGTTGTAAG
* * * *
18011594 AGAATATTCAAG-GTGTTT-TAGCCAAAAACACATTTAATAGTCCACTCATAAAAATTGACA
64 AGAATATTCAAGAAT-TTTCTAGCCAAAAACACATTGAATAATCCA-T-AAAAAAATTGACA
* * * * *
18011654 AGGATTATTCAAGGTATTTTTGGTCAGAAACGCATTCAATAACCCCATTCATATTTGT
1 GGGATTATTGAAGGTATTTTTGGCCAGAAATGCATTCAATAATCCCATTCA-ATTTGT
18011712 AAAAGATTAT
Statistics
Matches: 148, Mismatches: 27, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
122 22 0.15
123 46 0.31
124 79 0.53
125 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Consensus pattern (122 bp):
GGGATTATTGAAGGTATTTTTGGCCAGAAATGCATTCAATAATCCCATTCAATTTGTTGTAAGAG
AATATTCAAGAATTTTCTAGCCAAAAACACATTGAATAATCCATAAAAAAATTGACA
Found at i:18012614 original size:16 final size:18
Alignment explanation
Indices: 18012595--18012646 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 18
18012585 TATTTTCAAG
*
18012595 TATTTAT-TTCATT-TTA
1 TATTTATATACATTATTA
18012611 TATTTATATACATTATTA
1 TATTTATATACATTATTA
* *
18012629 TATTAATA-AAATTATTA
1 TATTTATATACATTATTA
18012646 T
1 T
18012647 TTAATATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.23
17 14 0.45
18 10 0.32
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTTATATACATTATTA
Found at i:18012817 original size:18 final size:17
Alignment explanation
Indices: 18012789--18012831 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
18012779 ATCTTTTATT
*
18012789 TTTTTTCTTTTTTTGTTAA
1 TTTTTT-TTTTGTT-TTAA
18012808 CTTTTTTTTTTGTTTTAA
1 -TTTTTTTTTTGTTTTAA
18012826 TTTTTT
1 TTTTTT
18012832 GAAATTCAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 4 0.18
19 6 0.27
20 6 0.27
ACGTcount: A:0.09, C:0.05, G:0.05, T:0.81
Consensus pattern (17 bp):
TTTTTTTTTTGTTTTAA
Found at i:18013486 original size:17 final size:17
Alignment explanation
Indices: 18013464--18013497 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18013454 TTTTCTTTTC
18013464 TTTTTTTAATTTTTCAA
1 TTTTTTTAATTTTTCAA
**
18013481 TTTTTTTCTTTTTTCAA
1 TTTTTTTAATTTTTCAA
18013498 ATTCTTAATT
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:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTTTAATTTTTCAA
Found at i:18013507 original size:25 final size:25
Alignment explanation
Indices: 18013459--18013507 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
18013449 TCTCTTTTTC
* *
18013459 TTTTCTTTTTTTAATTTTTCAATTT
1 TTTTCTTTTTTAAATTCTTCAATTT
18013484 TTTTCTTTTTTCAAATTCTT-AATT
1 TTTTCTTTTTT-AAATTCTTCAATT
18013508 AATCAAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTTCTTTTTTAAATTCTTCAATTT
Found at i:18013634 original size:17 final size:15
Alignment explanation
Indices: 18013614--18013657 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
18013604 TTTTTATCTT
18013614 TTTTGTTTTTTCCTTTC
1 TTTT-TTTTTTCC-TTC
18013631 TTTTCTATTTTTCCTTC
1 TTTT-T-TTTTTCCTTC
18013648 TTTTTTTTTT
1 TTTTTTTTTT
18013658 GTTTTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 5 0.20
16 1 0.04
17 12 0.48
18 7 0.28
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTTTTTTTCCTTC
Found at i:18013634 original size:18 final size:16
Alignment explanation
Indices: 18013613--18013657 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
18013603 ATTTTTATCT
18013613 TTTTTGTTTTTTCCTTTC
1 TTTTT-TTTTTTCC-TTC
*
18013631 TTTTCTATTTTTCCTTC
1 TTTT-TTTTTTTCCTTC
18013648 TTTTTTTTTT
1 TTTTTTTTTT
18013658 GTTTTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 5 0.21
17 7 0.29
18 11 0.46
19 1 0.04
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTTTTTTTTCCTTC
Found at i:18013641 original size:26 final size:26
Alignment explanation
Indices: 18013593--18013642 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
18013583 TCAATAAACT
*
18013593 TTTTTTCCTTATTTTTATCTTTTTTG
1 TTTTTTCCTTATTTTTATATTTTTTG
*
18013619 TTTTTTCCTT-TCTTTTCTATTTTT
1 TTTTTTCCTTAT-TTTTATATTTTT
18013643 CCTTCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (26 bp):
TTTTTTCCTTATTTTTATATTTTTTG
Found at i:18016960 original size:21 final size:20
Alignment explanation
Indices: 18016928--18016966 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
18016918 ACTTAATGAT
18016928 AATTTAATTTTAGAAATTTTG
1 AATTTAATTTTA-AAATTTTG
18016949 AATTTGAA-TTTAAAATTT
1 AATTT-AATTTTAAAATTT
18016967 GAGAGGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 9 0.53
22 2 0.12
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
AATTTAATTTTAAAATTTTG
Found at i:18017565 original size:14 final size:14
Alignment explanation
Indices: 18017546--18017577 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
18017536 GTCCAAAGAT
18017546 AGAAAAAAAAAAAA
1 AGAAAAAAAAAAAA
*
18017560 AGAAAAAAAGAAAA
1 AGAAAAAAAAAAAA
18017574 AGAA
1 AGAA
18017578 GCAAACAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAAAAA
Found at i:18019307 original size:20 final size:20
Alignment explanation
Indices: 18019284--18019321 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18019274 AGATTTACAA
18019284 AAATT-AAAAAATATTTTAAC
1 AAATTCAAAAAA-ATTTTAAC
*
18019304 AAATTCACAAAAATTTTA
1 AAATTCAAAAAAATTTTA
18019322 GAAAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATTCAAAAAAATTTTAAC
Found at i:18019389 original size:36 final size:36
Alignment explanation
Indices: 18019345--18019419 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
18019335 AATATGAAAT
*
18019345 ATTTAAAAAAT-TAT-AAAACTAAAATATTTAAAAAA
1 ATTTTAAAAATATATGAAAACTAAAA-ATTTAAAAAA
** *
18019380 ATTTTAAAAATATATGAAAACTTTAAATTTCAAAAA
1 ATTTTAAAAATATATGAAAACTAAAAATTTAAAAAA
18019416 ATTT
1 ATTT
18019420 CGAAACTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
35 10 0.29
36 16 0.47
37 8 0.24
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (36 bp):
ATTTTAAAAATATATGAAAACTAAAAATTTAAAAAA
Found at i:18019424 original size:26 final size:25
Alignment explanation
Indices: 18019378--18019430 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
18019368 ATATTTAAAA
*
18019378 AAATTTTAAAAATATATGAAAACTTT
1 AAATTTCAAAAATATATG-AAACTTT
*
18019404 AAATTTCAAAAA-ATTTCGAAACTTT
1 AAATTTCAAAAATATAT-GAAACTTT
18019429 AA
1 AA
18019431 TAAATGTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.36
Consensus pattern (25 bp):
AAATTTCAAAAATATATGAAACTTT
Found at i:18019731 original size:17 final size:16
Alignment explanation
Indices: 18019699--18019734 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
18019689 TTATTAAATA
*
18019699 TTTTATTTTTCTAATT
1 TTTTATTTTTCGAATT
18019715 TTTTATTTTTCAGAATT
1 TTTTATTTTTC-GAATT
18019732 TTT
1 TTT
18019735 AATAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (16 bp):
TTTTATTTTTCGAATT
Found at i:18019733 original size:16 final size:16
Alignment explanation
Indices: 18019693--18019735 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
18019683 GGATTTTTAT
18019693 TAAATATTTTATTTTTC
1 TAAAT-TTTTATTTTTC
*
18019710 TAATTTTTTATTTTTC
1 TAAATTTTTATTTTTC
18019726 -AGAATTTTTA
1 TA-AATTTTTA
18019736 ATAAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 1 0.04
16 18 0.78
17 4 0.17
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (16 bp):
TAAATTTTTATTTTTC
Found at i:18019814 original size:57 final size:57
Alignment explanation
Indices: 18019711--18019831 Score: 131
Period size: 57 Copynumber: 2.1 Consensus size: 57
18019701 TTATTTTTCT
* * * *
18019711 AATTTTTTATTTTTCAGAATTTTTAATAAATTTTTTAGTATATTTTAT-AATTTTGA
1 AATTTTTAATTTTTCAAAATTTTTAATAAATTTTTAAGAATATTTTATAAATTTTGA
* *
18019767 AATTGTTTAATTTTTCAAAATCTTTT-A-AAATTTTTAAGAATTTTTTTATAAATTTTTA
1 AATT-TTTAATTTTTCAAAAT-TTTTAATAAATTTTTAAGAA-TATTTTATAAATTTTGA
*
18019825 GATTTTT
1 AATTTTT
18019832 TACAAAAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
56 15 0.28
57 25 0.46
58 14 0.26
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (57 bp):
AATTTTTAATTTTTCAAAATTTTTAATAAATTTTTAAGAATATTTTATAAATTTTGA
Found at i:18019822 original size:22 final size:19
Alignment explanation
Indices: 18019789--18019832 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
18019779 TTTCAAAATC
18019789 TTTTAAAATTTTTAAGAATTT
1 TTTTAAAATTTTT-AG-ATTT
18019810 TTTTATAAATTTTTAGATTT
1 TTTTA-AAATTTTTAGATTT
18019830 TTT
1 TTT
18019833 ACAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 7 0.32
22 8 0.36
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTTAAAATTTTTAGATTT
Found at i:18020007 original size:10 final size:9
Alignment explanation
Indices: 18019983--18020009 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
18019973 AAGTTTCAAT
18019983 AATTTTTAA
1 AATTTTTAA
18019992 AATTTTTAA
1 AATTTTTAA
18020001 AATTTTTAA
1 AATTTTTAA
18020010 TAATATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AATTTTTAA
Found at i:18026459 original size:36 final size:36
Alignment explanation
Indices: 18026418--18026490 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
18026408 TTTATAATTA
* *
18026418 ACAAATACATATTTATTTTAATGTTAACATACATAT
1 ACAAATACATAATTATTTTAACGTTAACATACATAT
* *
18026454 ACAAATATATAATTATTTTAACGTTAGCATACATAT
1 ACAAATACATAATTATTTTAACGTTAACATACATAT
18026490 A
1 A
18026491 TAAAAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (36 bp):
ACAAATACATAATTATTTTAACGTTAACATACATAT
Found at i:18031479 original size:8 final size:7
Alignment explanation
Indices: 18031453--18031477 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18031443 AATCAATCAG
18031453 TTTTAAT
1 TTTTAAT
18031460 TTTTAAT
1 TTTTAAT
18031467 TTTTAAT
1 TTTTAAT
18031474 TTTT
1 TTTT
18031478 TATAACTTAT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:18032276 original size:21 final size:22
Alignment explanation
Indices: 18032231--18032283 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
18032221 AAATTATATT
*
18032231 AATAATTTAAATTGTATAAAAA
1 AATAATTTTAATTGTATAAAAA
* *
18032253 AATAATTTTGATTG-ATAAATA
1 AATAATTTTAATTGTATAAAAA
*
18032274 AATTATTTTA
1 AATAATTTTA
18032284 TCTTAATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (22 bp):
AATAATTTTAATTGTATAAAAA
Found at i:18032334 original size:5 final size:5
Alignment explanation
Indices: 18032326--18032360 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
18032316 AAATAAAATA
18032326 ATTTT ATTTT ATTTT ATTTAT AATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTT-T -ATTTT ATTTT ATT
18032361 CTATCATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 22 0.79
6 2 0.07
7 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:18032406 original size:2 final size:2
Alignment explanation
Indices: 18032390--18032422 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
18032380 TATTCCAAAC
*
18032390 AT AT -T AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18032423 GCGTGTACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18035813 original size:10 final size:9
Alignment explanation
Indices: 18035798--18035831 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
18035788 TTGTATCTTT
18035798 ATTTTTTTAC
1 ATTTTTTT-C
18035808 ATTTTTTTC
1 ATTTTTTTC
*
18035817 ATTTTTGTC
1 ATTTTTTTC
18035826 ATTTTT
1 ATTTTT
18035832 AATTAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.74
Consensus pattern (9 bp):
ATTTTTTTC
Found at i:18036322 original size:31 final size:31
Alignment explanation
Indices: 18036277--18036343 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
18036267 TTTCAAAAGT
*
18036277 TTTTTTTAATTTTTT-TTATTTTCTTGATTTTA
1 TTTTTTTAATTTTTTGGT-TTTTCTTGA-TTTA
*
18036309 TTTTTTTCA-TTTTTGGTTTTTCTTGATTTA
1 TTTTTTTAATTTTTTGGTTTTTCTTGATTTA
18036339 TTTTT
1 TTTTT
18036344 ATTTTTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 9 0.28
31 14 0.44
32 9 0.28
ACGTcount: A:0.12, C:0.04, G:0.06, T:0.78
Consensus pattern (31 bp):
TTTTTTTAATTTTTTGGTTTTTCTTGATTTA
Found at i:18036518 original size:22 final size:22
Alignment explanation
Indices: 18036490--18036537 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
18036480 GCCCAAAAAA
18036490 CTTAGAGATTACGCGTC-GAGGT
1 CTTAGAGATTACGC-TCGGAGGT
*
18036512 CTTAGAGATTATGCTCGGAGGT
1 CTTAGAGATTACGCTCGGAGGT
18036534 CTTA
1 CTTA
18036538 CAAATCTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (22 bp):
CTTAGAGATTACGCTCGGAGGT
Found at i:18037080 original size:23 final size:24
Alignment explanation
Indices: 18037022--18037087 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
18037012 AAAACCTTTC
* *
18037022 AGTGCCAACTAATCTAGGCTTAAT
1 AGTGCCAGCTAATCTAAGCTTAAT
* *
18037046 A-TGCTAGTTAATCTAAGCTTAA-
1 AGTGCCAGCTAATCTAAGCTTAAT
*
18037068 AGTGCCAGCTAATCTGAGCT
1 AGTGCCAGCTAATCTAAGCT
18037088 CGGATGCTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
22 1 0.03
23 32 0.94
24 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (24 bp):
AGTGCCAGCTAATCTAAGCTTAAT
Found at i:18037192 original size:32 final size:32
Alignment explanation
Indices: 18037106--18037200 Score: 93
Period size: 32 Copynumber: 3.0 Consensus size: 32
18037096 AACTAATCTT
* * *
18037106 GGCTTAGGTTGATTTGGGTGCCAACTA-ACCTA
1 GGCTTAGTTTGATTTAGGTGCCAGCTAGA-CTA
** ** *
18037138 GGCTTAGTTAAATCAAGATGCCAGCTAGACTA
1 GGCTTAGTTTGATTTAGGTGCCAGCTAGACTA
*
18037170 GGCTTAGTTTGATTTAGGTGCCAGTTAGACT
1 GGCTTAGTTTGATTTAGGTGCCAGCTAGACT
18037201 GGAATTAAAT
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
32 47 0.98
33 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (32 bp):
GGCTTAGTTTGATTTAGGTGCCAGCTAGACTA
Found at i:18037419 original size:21 final size:21
Alignment explanation
Indices: 18037393--18037442 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
18037383 TTTATTTGCC
*
18037393 TTTTTTCATTATTTTTTCTTT
1 TTTTTTCATTATTTTCTCTTT
** *
18037414 TTTTTTTTTTGTTTTCTCTTT
1 TTTTTTCATTATTTTCTCTTT
18037435 TTTTTTCA
1 TTTTTTCA
18037443 AACTCTTTCC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.06, C:0.10, G:0.02, T:0.82
Consensus pattern (21 bp):
TTTTTTCATTATTTTCTCTTT
Found at i:18039495 original size:149 final size:149
Alignment explanation
Indices: 18039215--18039500 Score: 321
Period size: 149 Copynumber: 1.9 Consensus size: 149
18039205 TTTGGAAACA
* * * *
18039215 TTTTATTGGAAATATTTGACTTTATCTTTAACATTTTACTTTCTTAAATTCTATCTTCTTTTTAC
1 TTTTATTGGAAACATCTGACTTCAACTTTAACATTTTACTTTCTTAAATTCTATCTTCTTTTTAC
* * * * ****
18039280 TTAGAATTCTAACTAAAGCTTTATTCAGTTTTTACCTTGGATCCTCATCTCTAAGGTGTTTGTCT
66 TTAGAATTCTAACTAAAGCTTTATTCACTTTTTACCCTGGATCCTCATCTCCAAGATGCACATCT
18039345 TT-TTTTCTTTGCTATTTC
131 TTGTTTTCTTTGCTATTTC
** * * *
18039363 TTTT-TTGGAAACATCTGACTTCAACTTTAGTATTTTATTTTCTTGAATTCTATCTGTTTTTTTT
1 TTTTATTGGAAACATCTGACTTCAACTTTAACATTTTACTTTCTTAAATTCTATC--TTCTTTTT
* *
18039427 ACTT-GAGATTCTAACTAAAGCTTTATTCACTTTTTGTCCCT-GA-CTCTCATTTCCAAGATGCA
64 ACTTAGA-ATTCTAACTAAAGCTTTATTCACTTTTT-ACCCTGGATC-CTCATCTCCAAGATGCA
18039489 CATCTTTGTTTT
126 CATCTTTGTTTT
18039501 TTTACCTTTT
Statistics
Matches: 113, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
147 42 0.37
148 7 0.06
149 57 0.50
150 7 0.06
ACGTcount: A:0.22, C:0.17, G:0.09, T:0.52
Consensus pattern (149 bp):
TTTTATTGGAAACATCTGACTTCAACTTTAACATTTTACTTTCTTAAATTCTATCTTCTTTTTAC
TTAGAATTCTAACTAAAGCTTTATTCACTTTTTACCCTGGATCCTCATCTCCAAGATGCACATCT
TTGTTTTCTTTGCTATTTC
Found at i:18040595 original size:17 final size:17
Alignment explanation
Indices: 18040563--18040595 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18040553 AAGATAACTT
18040563 TTTCTCTTTCTTTTTTC
1 TTTCTCTTTCTTTTTTC
18040580 TTTCT-TTTCTTATTTT
1 TTTCTCTTTCTT-TTTT
18040596 ATTTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTCTCTTTCTTTTTTC
Found at i:18041314 original size:15 final size:15
Alignment explanation
Indices: 18041291--18041321 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18041281 TATGATAGGG
18041291 AAATGGGGTTGATGA
1 AAATGGGGTTGATGA
*
18041306 AAATTGGGTTGATGA
1 AAATGGGGTTGATGA
18041321 A
1 A
18041322 GAGGATAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (15 bp):
AAATGGGGTTGATGA
Found at i:18046964 original size:19 final size:18
Alignment explanation
Indices: 18046940--18046987 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
18046930 CCTAAAAATG
18046940 TATATTTTTATAAATATT
1 TATATTTTTATAAATATT
**
18046958 T-TATATTTTATATTTATT
1 TATAT-TTTTATAAATATT
18046976 TATATTTATTAT
1 TATATTT-TTAT
18046988 TATTAGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 3 0.12
18 15 0.60
19 7 0.28
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATATTTTTATAAATATT
Found at i:18046966 original size:18 final size:17
Alignment explanation
Indices: 18046940--18046982 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
18046930 CCTAAAAATG
18046940 TATATTTTTATAAATATTT
1 TATA-TTTTATAAATA-TT
**
18046959 TATATTTTATATTTATT
1 TATATTTTATAAATATT
18046976 TATATTT
1 TATATTT
18046983 ATTATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 9 0.41
18 9 0.41
19 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATATTTTATAAATATT
Found at i:18070432 original size:8 final size:8
Alignment explanation
Indices: 18070419--18070443 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18070409 TTGAAGGATG
18070419 ATAATAAA
1 ATAATAAA
18070427 ATAATAAA
1 ATAATAAA
18070435 ATAATAAA
1 ATAATAAA
18070443 A
1 A
18070444 AAAGGCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
ATAATAAA
Found at i:18072531 original size:28 final size:27
Alignment explanation
Indices: 18072492--18072563 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 27
18072482 TTCCAAAATT
*
18072492 TTTTAAAAAAATTTAAATATTTTAAAA
1 TTTTAAAAAAATTTAAATATTGTAAAA
* * *
18072519 TTTTATTAAAAATTAAAATATTGTAATA
1 TTTTA-AAAAAATTTAAATATTGTAAAA
18072547 TTTTAAAAAAATTTAAA
1 TTTTAAAAAAATTTAAA
18072564 AAAATATGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 15 0.39
28 23 0.61
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (27 bp):
TTTTAAAAAAATTTAAATATTGTAAAA
Found at i:18080734 original size:333 final size:330
Alignment explanation
Indices: 18080091--18080986 Score: 1206
Period size: 333 Copynumber: 2.7 Consensus size: 330
18080081 CTTAGTAATT
* * *
18080091 AATTACAGAAGGCACTTGTTAGA-AATAGATGACTTCAAAATTTTCTCACTAAATATTTTGAA-A
1 AATTACTGAAGGCATTTGTTA-ATAATAGATGCCTTCAAAATTTTCTCACTAAATATTTT-AAGA
* ** * * * * * * *
18080154 AGTATTAAAGGCATCTTCTATTGTAAAATGCCTTATATATACCGCTACATATATTGTAATAGTAT
64 ATTATT-AAGGTGTCTTCTACTGTAAAATACTTTATATATACCGCTACACATATTGTAACACTGT
*
18080219 TATTGAAGGCGTATATTTAAGATAGACACCTTTAATAATTTTATCACAATTTGTATATAATTACT
128 TATTGAA-GCGTATATTTAAGATAGACACCTTTAATAATTTTATCACAGTTTGTATATAATTACT
* * * * *** *
18080284 AAAGGCAATTTCAGATAATAACGACTTCAATAATTTTTTTAATAAAAGTTTTCAGGATTATTAAA
192 GAAGGTAGTTTCAGATAACAACGACTTCAATAATTTCCCTAATAAAAGTTTTCAAGATTATTAAA
* *
18080349 GTCGTCTTTTATTATAAGCCTCATTCGATATACCACGATGGTAATTGAAGGCGAGTATTAGAAAA
257 GACGTCTTTTATTATAAGCCACATTCGATATACCACGATGGTAATTGAAGGCGAGTATTAGAAAA
**
18080414 GGTGCCTTC
322 GGCACCTTC
* * *
18080423 AATTACTGAAGGCATTTGTTAATAACAGACGCCTTCAAAATTTTTTCACTAAATATTTTAAGAAT
1 AATTACTGAAGGCATTTGTTAATAATAGATGCCTTCAAAATTTTCTCACTAAATATTTTAAGAAT
*
18080488 TATTGAAGGTGTCTTCTACTGTAAAATACTTTTTATATACCGCTACACATATTGTAACACTGTTA
66 TATT-AAGGTGTCTTCTACTGTAAAATACTTTATATATACCGCTACACATATTGTAACACTGTTA
* * *
18080553 TTGAAGACATATATTTAAGATAGACACCTTTAATAATTCCTATCACAGTTTGTATATAATTATTG
130 TTGAAG-CGTATATTTAAGATAGACACCTTTAATAATT-TTATCACAGTTTGTATATAATTACTG
* *
18080618 AAGGTAGTTTCAGATAACAACGTCTTTAATAATTTCCCTAATAAAAGTTTTCAAGATTATTAAAG
193 AAGGTAGTTTCAGATAACAACGACTTCAATAATTTCCCTAATAAAAGTTTTCAAGATTATTAAAG
* *
18080683 ACGTCTTTTATTATAAGCCACATTTGATATACCATGATGGTAATTGAAGGCGAGTATTAGAAAAG
258 ACGTCTTTTATTATAAGCCACATTCGATATACCACGATGGTAATTGAAGGCGAGTATTAGAAAAG
18080748 GCACCTTC
323 GCACCTTC
* *
18080756 AATTACTGAAGGCGTTTGTTAATAATAGATGCCTTTAAAATTTTCTCACTAAATATTTTAAGAAT
1 AATTACTGAAGGCATTTGTTAATAATAGATGCCTTCAAAATTTTCTCACTAAATATTTTAAGAAT
* * * *
18080821 TATTAATGATGTCTTCTACTGTAAAATA-TCTTCTATATACTGCTACACAAATTGTAACACTGTT
66 TATTAA-GGTGTCTTCTACTGTAAAATACT-TTATATATACCGCTACACATATTGTAACACTGTT
* * * *
18080885 ATTAAATGTGTATATTTAAAATAGACGCCTTTAATAATTTTTATCACAGTTTGTATATAATTACT
129 ATTGAA-GCGTATATTTAAGATAGACACCTTTAATAA-TTTTATCACAGTTTGTATATAATTACT
* * *
18080950 GAAGAT-GATTTCAGATAACAACGCCTTCAATATTTTC
192 GAAGGTAG-TTTCAGATAACAACGACTTCAATAATTTC
18080987 TCAACAGAAT
Statistics
Matches: 497, Mismatches: 58, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
331 4 0.01
332 146 0.29
333 344 0.69
334 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.38
Consensus pattern (330 bp):
AATTACTGAAGGCATTTGTTAATAATAGATGCCTTCAAAATTTTCTCACTAAATATTTTAAGAAT
TATTAAGGTGTCTTCTACTGTAAAATACTTTATATATACCGCTACACATATTGTAACACTGTTAT
TGAAGCGTATATTTAAGATAGACACCTTTAATAATTTTATCACAGTTTGTATATAATTACTGAAG
GTAGTTTCAGATAACAACGACTTCAATAATTTCCCTAATAAAAGTTTTCAAGATTATTAAAGACG
TCTTTTATTATAAGCCACATTCGATATACCACGATGGTAATTGAAGGCGAGTATTAGAAAAGGCA
CCTTC
Found at i:18081859 original size:25 final size:25
Alignment explanation
Indices: 18081800--18081861 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
18081790 AATGGTTTGT
*
18081800 TGAAGGGTGTGTATAAGCATATTGC
1 TGAAGAGTGTGTATAAGCATATTGC
* **
18081825 TGAAGGGTGTGTATGGGCATATTGC
1 TGAAGAGTGTGTATAAGCATATTGC
*
18081850 TGAATAGTGTGT
1 TGAAGAGTGTGT
18081862 TAAATGATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.24, C:0.06, G:0.35, T:0.34
Consensus pattern (25 bp):
TGAAGAGTGTGTATAAGCATATTGC
Found at i:18081861 original size:27 final size:25
Alignment explanation
Indices: 18081800--18081853 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
18081790 AATGGTTTGT
18081800 TGAAGGGTGTGTATAAGCATATTGC
1 TGAAGGGTGTGTATAAGCATATTGC
**
18081825 TGAAGGGTGTGTATGGGCATATTGC
1 TGAAGGGTGTGTATAAGCATATTGC
18081850 TGAA
1 TGAA
18081854 TAGTGTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.07, G:0.35, T:0.31
Consensus pattern (25 bp):
TGAAGGGTGTGTATAAGCATATTGC
Found at i:18087408 original size:61 final size:61
Alignment explanation
Indices: 18087293--18087497 Score: 161
Period size: 61 Copynumber: 3.4 Consensus size: 61
18087283 AAGTATGCTA
* * * *
18087293 TAAAAGG-TATTATAGTAATTTT-AGCTAATTATAGTA-G-GGGAG-ATATTCTCATAATTATGG
1 TAAAAGGACATTATAATAATTTTGATC-AATTATAGTATGAGGG-GTATA-TCT-ATAATTATAG
* *
18087353 TAAAAGGACATTATAGTAATTTTGATCAATTATAGTATGAGGGGTATATCTATAATTATAA
1 TAAAAGGACATTATAATAATTTTGATCAATTATAGTATGAGGGGTATATCTATAATTATAG
** ** * ** * * *
18087414 TATGAGGGTATTATAATAATTTTGATTAATTATAAAAT-AGGGGTATTTTTGTAATTATAG
1 TAAAAGGACATTATAATAATTTTGATCAATTATAGTATGAGGGGTATATCTATAATTATAG
** *
18087474 TAAAAAAACATTATAATAAATTTG
1 TAAAAGGACATTATAATAATTTTG
18087498 TATATATGTC
Statistics
Matches: 117, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
60 42 0.36
61 62 0.53
62 7 0.06
63 6 0.05
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (61 bp):
TAAAAGGACATTATAATAATTTTGATCAATTATAGTATGAGGGGTATATCTATAATTATAG
Found at i:18087432 original size:25 final size:26
Alignment explanation
Indices: 18087380--18087434 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
18087370 AATTTTGATC
* *
18087380 AATTATAGTATGAGGGGTATATCTAT
1 AATTATAATATGAGGGGTATATCAAT
18087406 AATTATAATATGA-GGGTATTAT-AAT
1 AATTATAATATGAGGGGTA-TATCAAT
18087431 AATT
1 AATT
18087435 TTGATTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (26 bp):
AATTATAATATGAGGGGTATATCAAT
Found at i:18088341 original size:61 final size:63
Alignment explanation
Indices: 18088228--18088367 Score: 164
Period size: 61 Copynumber: 2.3 Consensus size: 63
18088218 ATATGAAGAG
*
18088228 CATTTTCATAATTATAGTATAAGGGGATATTATAATAATTTTGATAAATTATGGTAAGAGGGA
1 CATTTTCATAATTATAGTATAAGGGGACATTATAATAATTTTGATAAATTATGGTAAGAGGGA
* * * * *
18088291 TATTTTCATAATTAT-G-AT-AGGATGACATTATAGTAATTTTGACT-AGTTATGGTAGGAGGGA
1 CATTTTCATAATTATAGTATAAGG-GGACATTATAATAATTTTGA-TAAATTATGGTAAGAGGGA
18088352 CATTTATC-TAATTATA
1 CATTT-TCATAATTATA
18088368 ATAAAAGTGC
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
60 3 0.05
61 45 0.68
62 4 0.06
63 14 0.21
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (63 bp):
CATTTTCATAATTATAGTATAAGGGGACATTATAATAATTTTGATAAATTATGGTAAGAGGGA
Found at i:18088908 original size:23 final size:22
Alignment explanation
Indices: 18088877--18088923 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
18088867 AGGATATTAT
18088877 AATAATTTTAATTAATTATAA-AA
1 AATAATTTT-A-TAATTATAATAA
*
18088900 AATATTTTTATAATTATAATAA
1 AATAATTTTATAATTATAATAA
18088922 AA
1 AA
18088924 AGATATTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
22 5 0.23
23 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATAATTTTATAATTATAATAA
Found at i:18089189 original size:60 final size:60
Alignment explanation
Indices: 18089078--18089246 Score: 166
Period size: 60 Copynumber: 2.8 Consensus size: 60
18089068 AGGGCATTTT
* * * * * * *
18089078 TATAATTAT-AGTAAGAAAATATTATAATATTTTTGATCAATTAT-AG-TAAAAATTTTTT
1 TATAATTATGA-TAAGAAGATATTATAATAATTTTAATCAATTATAAGAAAAAAATATATC
* *
18089136 TCATAATTATGATAGGAAGATTATTATAGTAATTTTAATCAATTATAAGAAAAAAATATATC
1 T-ATAATTATGATAAGAAGA-TATTATAATAATTTTAATCAATTATAAGAAAAAAATATATC
* * *
18089198 TGTAATTATGGTAAGAAGATATTATAATAATTTTTA-CTAATTATAAGAA
1 TATAATTATGATAAGAAGATATTATAATAATTTTAATC-AATTATAAGAA
18089247 GATTGATACT
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
58 1 0.01
59 15 0.16
60 49 0.54
61 17 0.19
62 9 0.10
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.41
Consensus pattern (60 bp):
TATAATTATGATAAGAAGATATTATAATAATTTTAATCAATTATAAGAAAAAAATATATC
Found at i:18089429 original size:129 final size:130
Alignment explanation
Indices: 18089260--18089546 Score: 303
Period size: 130 Copynumber: 2.2 Consensus size: 130
18089250 TGATACTTTC
* *
18089260 GTAATTATAATATGAGAGTATTATAGTAAACAATTATAAGAGA-AAGA-TATTTACATAATTATA
1 GTAATT-TAATTTGAGA-TATTTTAGTAAACAATTATAAGA-ATAAGAGTATTTACATAATTATA
* * * * *
18089323 ATATGAGAACATAATAGTAAATTTAAATATATGTCAAATTCTTATAAAATAAGAAGAAAAG-TAT
63 ATATAAAAACATAATAATAAATTTAAACACATGTCAAATTCTTATAAAATAAG-AGAAAAGATAT
18089387 TATA
127 TATA
* * * ** *
18089391 GTAATTTAATTTGAGATATTTTTGTAAATAATTATAAGAATATGAGTATTTTGATAATTATGATA
1 GTAATTTAATTTGAGATATTTTAGTAAACAATTATAAGAATAAGAGTATTTACATAATTATAATA
* * * * * * * **
18089456 TAAAAACATATTAATAAATTTAGACACATGTTAAATTTTTATCAAATATGAGGAGGGATATTATA
66 TAAAAACATAATAATAAATTTAAACACATGTCAAATTCTTATAAAATAAGAGAAAAGATATTATA
*
18089521 GTAATTTAATTAGAGAT-TTTTAGTAA
1 GTAATTTAATTTGAGATATTTTAGTAA
18089547 TTATAGTATA
Statistics
Matches: 129, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
128 1 0.01
129 35 0.27
130 87 0.67
131 6 0.05
ACGTcount: A:0.46, C:0.03, G:0.13, T:0.38
Consensus pattern (130 bp):
GTAATTTAATTTGAGATATTTTAGTAAACAATTATAAGAATAAGAGTATTTACATAATTATAATA
TAAAAACATAATAATAAATTTAAACACATGTCAAATTCTTATAAAATAAGAGAAAAGATATTATA
Found at i:18091074 original size:28 final size:29
Alignment explanation
Indices: 18091015--18091075 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
18091005 TGACATAGCC
* * *
18091015 AAAAGTCTTAATAATTTTAAATTTTTTTA
1 AAAAGTCTTAATAATTTTAAAATTTATAA
18091044 AAAAG-CTTAA-AATATTTAAAATTTATAA
1 AAAAGTCTTAATAAT-TTTAAAATTTATAA
18091072 AAAA
1 AAAA
18091076 ATTCAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 3 0.11
28 20 0.71
29 5 0.18
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (29 bp):
AAAAGTCTTAATAATTTTAAAATTTATAA
Found at i:18091209 original size:17 final size:18
Alignment explanation
Indices: 18091173--18091210 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
18091163 AAAAATTCAA
*
18091173 AAAATGAAAATTTTGATC
1 AAAATGAAAATTTTCATC
*
18091191 AAAAT-AAAATTTTCTTC
1 AAAATGAAAATTTTCATC
18091208 AAA
1 AAA
18091211 TTCATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (18 bp):
AAAATGAAAATTTTCATC
Found at i:18091779 original size:10 final size:9
Alignment explanation
Indices: 18091628--18091815 Score: 54
Period size: 9 Copynumber: 20.7 Consensus size: 9
18091618 AAAATTTTAT
18091628 TTTTATTAAA
1 TTTT-TTAAA
18091638 -TTTTT-AA
1 TTTTTTAAA
18091645 TTTTTT-AA
1 TTTTTTAAA
*
18091653 TTTTTCAACA
1 TTTTTTAA-A
* **
18091663 ATTTTTGGA
1 TTTTTTAAA
18091672 TTTTTTATTAA
1 TTTTTTA--AA
**
18091683 AATTTTAAGA
1 TTTTTTAA-A
*
18091693 TTTTTTGAA
1 TTTTTTAAA
*
18091702 -TTTTTAAG
1 TTTTTTAAA
*
18091710 TTTTTATATA
1 TTTTT-TAAA
18091720 TTTTTT-AA
1 TTTTTTAAA
*
18091728 -TTTTCATAA
1 TTTTTTA-AA
**
18091737 TTTCTAAAAA
1 TTT-TTTAAA
* *
18091747 TATTTCAAA
1 TTTTTTAAA
*
18091756 TTTTTTAATT
1 TTTTTTAA-A
18091766 TTTTTTATAA
1 TTTTTTA-AA
18091776 TTTTTAATAAA
1 TTTTT--TAAA
*
18091787 --TTTTAGA
1 TTTTTTAAA
18091794 TTTTTTAAA
1 TTTTTTAAA
18091803 --TTTTAAA
1 TTTTTTAAA
18091810 TTTTTT
1 TTTTTT
18091816 TTAAAAATTT
Statistics
Matches: 128, Mismatches: 30, Indels: 41
0.64 0.15 0.21
Matches are distributed among these distances:
7 16 0.12
8 21 0.16
9 42 0.33
10 36 0.28
11 11 0.09
12 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:18091804 original size:16 final size:16
Alignment explanation
Indices: 18091768--18091815 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 16
18091758 TTTTAATTTT
18091768 TTTTATAATTTTTAATAAA
1 TTTTA-AATTTTT--TAAA
*
18091787 TTTTAGATTTTTTAAA
1 TTTTAAATTTTTTAAA
18091803 TTTTAAATTTTTT
1 TTTTAAATTTTTT
18091816 TTAAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 16 0.59
18 6 0.22
19 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TTTTAAATTTTTTAAA
Found at i:18094556 original size:153 final size:153
Alignment explanation
Indices: 18094276--18094743 Score: 497
Period size: 149 Copynumber: 3.1 Consensus size: 153
18094266 GTAGATTTTT
* * * *
18094276 TTTTTAATTTTAGGATATTTGTAATTTTTATTATTTACATTTTAAATTATTTTTTGAA-TAAGAT
1 TTTTTAATTTTAAGAAATTTTTAATTTTTATTATTTACATTTTAAA-TATTTTTT-AATTAAGAG
* * * * * * **
18094340 ATAAAATGATAATTGTATAATATGAAATGAGTAAAATAGTCATTATTTAATATTGGAGGCATGTT
64 ATAAAATGGTCATTATATAATATGAAAGGGGTAAAATAGTCATTGTTTAATATTGGACACATGTT
18094405 AA-AATTAAACCACTTAGGGGATAG
129 AACAATTAAACCACTTAGGGGATAG
* *
18094429 TTTTTAATTTTAAGAAATTTTTAATTTTTATTATTTACATTTTAAATATTATTTTAATTAAGGGC
1 TTTTTAATTTTAAGAAATTTTTAATTTTTATTATTTACATTTTAAATATT-TTTTAATTAAGAGA
* * * * ** *
18094494 TAAAATGGTCATTATATAACATGAAGGGGGTAAAATAGAT-ATTGTATAAAATTAAACACATGTC
65 TAAAATGGTCATTATATAATATGAAAGGGGTAAAATAG-TCATTGTTTAATATTGGACACATGTT
* * *
18094558 AACAATTACACCGCTTAGGGAATAG
129 AACAATTAAACCACTTAGGGGATAG
* *
18094583 TTTTTAATTTT-AG-GA-TTTT--TTTTTATTATTTA-AGTTTTAAAATATTTTTTGATTAA-AC
1 TTTTTAATTTTAAGAAATTTTTAATTTTTATTATTTACA-TTTT-AAATATTTTTTAATTAAGA-
* * * *
18094641 GATAAAATGGTCGTTATACAATATGAAAGAGGTAAAATAGTCATTGTTTAATATTGGACATATGT
63 GATAAAATGGTCATTATATAATATGAAAGGGGTAAAATAGTCATTGTTTAATATTGGACACATGT
* * * *
18094706 TAATAAATAAACCACTTACGGGATAA
128 TAACAATTAAACCACTTAGGGGATAG
18094732 TTTTTAATTTTA
1 TTTTTAATTTTA
18094744 GGATACCAAT
Statistics
Matches: 260, Mismatches: 46, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
148 2 0.01
149 107 0.41
150 7 0.03
151 4 0.02
152 7 0.03
153 102 0.39
154 31 0.12
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (153 bp):
TTTTTAATTTTAAGAAATTTTTAATTTTTATTATTTACATTTTAAATATTTTTTAATTAAGAGAT
AAAATGGTCATTATATAATATGAAAGGGGTAAAATAGTCATTGTTTAATATTGGACACATGTTAA
CAATTAAACCACTTAGGGGATAG
Found at i:18096656 original size:26 final size:26
Alignment explanation
Indices: 18096621--18096670 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
18096611 TCTATCTTTT
* *
18096621 TAAAAACCTA-TTTAAGAAATTAAAA
1 TAAAAACCTACTTAAAAAAATTAAAA
18096646 TAAAAACCCTACTTAAAAAAATTAA
1 TAAAAA-CCTACTTAAAAAAATTAA
18096671 GCAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 4 0.19
27 11 0.52
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (26 bp):
TAAAAACCTACTTAAAAAAATTAAAA
Found at i:18099919 original size:29 final size:30
Alignment explanation
Indices: 18099858--18099920 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
18099848 TGACATAGCC
* * *
18099858 AAAAGTCTTAATAATTTTAAAATTTTTTTA
1 AAAAGTCTTAATAATTTTAAAAATTTATAA
18099888 AAAAG-CTTAA-ATATTTTAAAAATTTATAA
1 AAAAGTCTTAATA-ATTTTAAAAATTTATAA
18099917 AAAA
1 AAAA
18099921 TTCAAATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 1 0.03
29 23 0.79
30 5 0.17
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (30 bp):
AAAAGTCTTAATAATTTTAAAAATTTATAA
Found at i:18099927 original size:28 final size:28
Alignment explanation
Indices: 18099896--18099950 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
18099886 TAAAAAGCTT
* *
18099896 AAATATTTTAAAAATTTATAAAAAATTC
1 AAATATTGTAAAAATTTAAAAAAAATTC
* *
18099924 AAATATTGTAATATTTTAAAAAAAATT
1 AAATATTGTAAAAATTTAAAAAAAATT
18099951 TAAAAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (28 bp):
AAATATTGTAAAAATTTAAAAAAAATTC
Found at i:18099947 original size:27 final size:26
Alignment explanation
Indices: 18099883--18099947 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 26
18099873 TTTAAAATTT
** *
18099883 TTTTAAAAAGCTTAAATATTTTAAAA
1 TTTTAAAAAAATTAAATATTGTAAAA
* *
18099909 ATTTATAAAAAATTCAAATATTGTAATA
1 TTTTA-AAAAAATT-AAATATTGTAAAA
18099937 TTTTAAAAAAA
1 TTTTAAAAAAA
18099948 ATTTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 4 0.13
27 12 0.39
28 15 0.48
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (26 bp):
TTTTAAAAAAATTAAATATTGTAAAA
Found at i:18100057 original size:17 final size:18
Alignment explanation
Indices: 18100021--18100058 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
18100011 AAAAATTCAA
*
18100021 AAAATGAAAATTTTGATC
1 AAAATGAAAATTTTCATC
*
18100039 AAAAT-AAAATTTTCTTC
1 AAAATGAAAATTTTCATC
18100056 AAA
1 AAA
18100059 TTCATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (18 bp):
AAAATGAAAATTTTCATC
Found at i:18100493 original size:17 final size:16
Alignment explanation
Indices: 18100473--18100508 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
18100463 TTTAAGAAAA
18100473 TTTTATTTTTATTAATT
1 TTTTATTTTT-TTAATT
18100490 TTTTATTTTTTTAATT
1 TTTTATTTTTTTAATT
18100506 TTT
1 TTT
18100509 CAACAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTATTTTTTTAATT
Found at i:18100632 original size:19 final size:19
Alignment explanation
Indices: 18100608--18100657 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
18100598 TATTTCAAAT
*
18100608 TTTTTAATATTTTTTATAA
1 TTTTTAATATTTTTTAGAA
** *
18100627 TTTTTAATAAATTTTAGAT
1 TTTTTAATATTTTTTAGAA
18100646 TTTTTAA-ATTTT
1 TTTTTAATATTTT
18100658 AAATTTTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 3 0.12
19 22 0.88
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTTAATATTTTTTAGAA
Found at i:18100655 original size:16 final size:16
Alignment explanation
Indices: 18100599--18100666 Score: 64
Period size: 16 Copynumber: 3.9 Consensus size: 16
18100589 TTCTAAAAAT
*
18100599 ATTTCAAATTTTTTAA
1 ATTTTAAATTTTTTAA
18100615 TATTTTTTATAATTTTTAATAA
1 -A--TTTTA-AATTTTT--TAA
*
18100637 ATTTTAGATTTTTTAA
1 ATTTTAAATTTTTTAA
18100653 ATTTTAAATTTTTT
1 ATTTTAAATTTTTT
18100667 TTAAAAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
16 16 0.37
17 1 0.02
18 6 0.14
19 9 0.21
20 7 0.16
21 1 0.02
22 3 0.07
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (16 bp):
ATTTTAAATTTTTTAA
Found at i:18100666 original size:9 final size:9
Alignment explanation
Indices: 18100536--18100666 Score: 60
Period size: 10 Copynumber: 14.4 Consensus size: 9
18100526 TTTATTAAAA
18100536 TTTTAAGATT
1 TTTTAA-ATT
*
18100546 TTTTGAA-T
1 TTTTAAATT
*
18100554 TTTTAAGTT
1 TTTTAAATT
*
18100563 TTTATATATT
1 TTT-TAAATT
18100573 TTTT-AA-T
1 TTTTAAATT
*
18100580 TTTCATAATT
1 TTTTA-AATT
** *
18100590 TCTAAAAATA
1 T-TTTAAATT
*
18100600 TTTCAAATT
1 TTTTAAATT
18100609 TTTTAATATT
1 TTTTAA-ATT
18100619 TTTTATAATT
1 TTTTA-AATT
18100629 TTTAATAAA--
1 TTT--TAAATT
*
18100638 TTTTAGATT
1 TTTTAAATT
18100647 TTTTAAA--
1 TTTTAAATT
18100654 TTTTAAATT
1 TTTTAAATT
18100663 TTTT
1 TTTT
18100667 TTAAAAATTT
Statistics
Matches: 91, Mismatches: 16, Indels: 29
0.67 0.12 0.21
Matches are distributed among these distances:
7 14 0.15
8 7 0.08
9 31 0.34
10 32 0.35
11 5 0.05
12 2 0.02
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTAAATT
Found at i:18101321 original size:12 final size:12
Alignment explanation
Indices: 18101304--18101336 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
18101294 CAAACGATTG
18101304 GACCACCATATC
1 GACCACCATATC
18101316 GACCACCATATC
1 GACCACCATATC
18101328 GACCACCAT
1 GACCACCAT
18101337 CAATGGAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.42, G:0.09, T:0.15
Consensus pattern (12 bp):
GACCACCATATC
Found at i:18103601 original size:149 final size:149
Alignment explanation
Indices: 18103141--18103612 Score: 490
Period size: 149 Copynumber: 3.1 Consensus size: 149
18103131 TAGATTTTTT
* * *
18103141 TTTTTAATTTTAGGATGTTTGTAATTTTTATTATTTACATTTTAAATTATTTTTTGAAT-AAGAT
1 TTTTTAATTTTAGGAT-TTT-T-ATTTTTATTATTTACATTTTAAAATATTTTTTGATTAAAG-G
* * * * **
18103205 ATAAAATGATCATTGTATAATATGAAATGA-GTAAAATAATCATTATTTAATATTGGAGGCATGT
62 ATAAAATGGTCATTATATAATATGAAA-GAGGTAAAATAGTCATTGTTTAATATTGGACACATGT
18103269 TAAAATTAAACCACTTAGGGGATAG
126 TAAAATTAAACCACTTA-GGGATAG
* * *
18103294 TTTTTAATTTTAAGAAATTTTTAATTTTTATTATTTACATTTT-AAATATTATTTTAATTAAGGG
1 TTTTTAATTTT-AG-GATTTTT-ATTTTTATTATTTACATTTTAAAATATT-TTTTGATTAAAGG
* * * * * * **
18103358 CTAAAATGGTCATTATATAACATGAAGGGGGTAAAATAGAT-ATTGTATAAAATTAAACACATGT
62 ATAAAATGGTCATTATATAATATGAAAGAGGTAAAATAG-TCATTGTTTAATATTGGACACATGT
* * **
18103422 CAACAATTACACTGCTTAGGGAATAG
126 TAA-AATTAAACCACTTAGGG-ATAG
18103448 TTTTTAATTTTAGGA-TTTT-TTTTTATTATTTA-AGTTTTAAAATATTTTTTGATTAAAGGATA
1 TTTTTAATTTTAGGATTTTTATTTTTATTATTTACA-TTTTAAAATATTTTTTGATTAAAGGATA
* * *
18103510 AAATGGTCGTTATACAATATGAAAGAGGTAAAATAGTCATTGTTTAATATTGGACATATGTTAAT
65 AAATGGTCATTATATAATATGAAAGAGGTAAAATAGTCATTGTTTAATATTGGACACATGTTAA-
* *
18103575 AAATAAACCACTTACGGGATAA
129 AATTAAACCACTTA-GGGATAG
18103597 TTTTTAATTTTAGGAT
1 TTTTTAATTTTAGGAT
18103613 ACCAATAATT
Statistics
Matches: 261, Mismatches: 45, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
148 2 0.01
149 109 0.42
150 10 0.04
151 4 0.02
152 8 0.03
153 92 0.35
154 34 0.13
155 2 0.01
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.43
Consensus pattern (149 bp):
TTTTTAATTTTAGGATTTTTATTTTTATTATTTACATTTTAAAATATTTTTTGATTAAAGGATAA
AATGGTCATTATATAATATGAAAGAGGTAAAATAGTCATTGTTTAATATTGGACACATGTTAAAA
TTAAACCACTTAGGGATAG
Found at i:18105517 original size:26 final size:26
Alignment explanation
Indices: 18105482--18105531 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
18105472 TCTATCTTTT
* *
18105482 TAAAAACCTA-TTTAAGAAATTAAAA
1 TAAAAACCTACTTAAAAAAATTAAAA
18105507 TAAAAACCCTACTTAAAAAAATTAA
1 TAAAAA-CCTACTTAAAAAAATTAA
18105532 GCAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 4 0.19
27 11 0.52
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (26 bp):
TAAAAACCTACTTAAAAAAATTAAAA
Found at i:18105944 original size:26 final size:26
Alignment explanation
Indices: 18105891--18105946 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
18105881 TTCATAATGT
*
18105891 TATTTATGTAATTATGATATGAAGGG
1 TATTTATGTAATTATGATATAAAGGG
18105917 TATTT-TGTAATTAT-AGTATAAAGCGG
1 TATTTATGTAATTATGA-TATAAAG-GG
18105943 TATT
1 TATT
18105947 ATAATAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 1 0.04
25 15 0.56
26 11 0.41
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.45
Consensus pattern (26 bp):
TATTTATGTAATTATGATATAAAGGG
Found at i:18106595 original size:23 final size:22
Alignment explanation
Indices: 18106568--18106611 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18106558 TATTATAATA
18106568 ATTTTAATTAATTATAAAAAAAT
1 ATTTTAA-TAATTATAAAAAAAT
* *
18106591 ATTTTCATAATTATAATAAAA
1 ATTTTAATAATTATAAAAAAA
18106612 GGATATTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTTAATAATTATAAAAAAAT
Found at i:18108350 original size:20 final size:20
Alignment explanation
Indices: 18108277--18108350 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 20
18108267 AAAAAAACTA
* *
18108277 AAAATTTTCATAAAAATGTT
1 AAAATTTTAATAAAAATATT
* * *
18108297 AAAA-ATTAAAAAAAAAATT
1 AAAATTTTAATAAAAATATT
* **
18108316 CAAATTCAAATAAAAATATT
1 AAAATTTTAATAAAAATATT
*
18108336 AAAATTTTAACAAAA
1 AAAATTTTAATAAAA
18108351 TGAAAAAAAT
Statistics
Matches: 38, Mismatches: 15, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
19 13 0.34
20 25 0.66
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.30
Consensus pattern (20 bp):
AAAATTTTAATAAAAATATT
Found at i:18108412 original size:27 final size:27
Alignment explanation
Indices: 18108325--18108417 Score: 68
Period size: 28 Copynumber: 3.4 Consensus size: 27
18108315 TCAAATTCAA
* *
18108325 ATAAAAATATTAAAATTTTAACAAAATGA-
1 ATAAAAATCTT-AAA-TTTAA-AAAATAAT
* *
18108354 A-AAAAATCCTAAAATTAAAAAA-AATCT
1 ATAAAAATCTTAAATTTAAAAAATAA--T
*
18108381 TTAAAAATCTTAAATTTAAAAAATAAT
1 ATAAAAATCTTAAATTTAAAAAATAAT
18108408 AT-AAAATCTT
1 ATAAAAATCTT
18108418 CTATAAAATC
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
24 1 0.02
25 4 0.08
26 12 0.24
27 5 0.10
28 26 0.51
29 3 0.06
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.31
Consensus pattern (27 bp):
ATAAAAATCTTAAATTTAAAAAATAAT
Found at i:18108448 original size:38 final size:36
Alignment explanation
Indices: 18108374--18108451 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 36
18108364 AAAATTAAAA
*
18108374 AAAATCTTTAAAAATCTTAAATTTAAAAAATAATAT
1 AAAATCTTTAAAAATCTAAAATTTAAAAAATAATAT
*
18108410 AAAATCTTCTATAAAATCTAAAAATTTTAAAAAT-ATAT
1 AAAATCTT-TA-AAAATCT-AAAATTTAAAAAATAATAT
18108448 AAAA
1 AAAA
18108452 CTACAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 8 0.22
37 2 0.05
38 15 0.41
39 12 0.32
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (36 bp):
AAAATCTTTAAAAATCTAAAATTTAAAAAATAATAT
Found at i:18108546 original size:18 final size:17
Alignment explanation
Indices: 18108509--18108547 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
18108499 TCTTGGGATT
*
18108509 TTTTTTATTTTAATATA
1 TTTTTTATTTTAATAAA
*
18108526 TTTTTTATTTTATTAAAA
1 TTTTTTATTTTAAT-AAA
18108544 TTTT
1 TTTT
18108548 ACGAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTTATTTTAATAAA
Found at i:18108774 original size:20 final size:18
Alignment explanation
Indices: 18108745--18108787 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
18108735 TTTTGTGAAT
18108745 TTTTTGGAATTTTATTAAAA
1 TTTTTGGAA-TTTA-TAAAA
18108765 TCTTTT-GAATTTATAAAA
1 T-TTTTGGAATTTATAAAA
18108783 TTTTT
1 TTTTT
18108788 ATATTTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.18
18 6 0.27
19 4 0.18
20 4 0.18
21 4 0.18
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (18 bp):
TTTTTGGAATTTATAAAA
Found at i:18108833 original size:19 final size:18
Alignment explanation
Indices: 18108811--18108853 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
18108801 ATATTTTGTG
18108811 TTTTCAAAATTATTTGA-AT
1 TTTTCAAAATT-TTT-ATAT
*
18108830 TTTTCATAATTTTTATAT
1 TTTTCAAAATTTTTATAT
18108848 TTTTCA
1 TTTTCA
18108854 TCTTTCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 11 0.50
19 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTCAAAATTTTTATAT
Found at i:18108915 original size:20 final size:21
Alignment explanation
Indices: 18108880--18108934 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
18108870 AATATTTTTG
*
18108880 AAATATTTAG-TTTTTTAACA
1 AAATATTTTGATTTTTTAACA
**
18108900 AAA-ATTTTGATTTTTTTCCA
1 AAATATTTTGATTTTTTAACA
*
18108920 AAATTTTTTGATTTT
1 AAATATTTTGATTTT
18108935 GTAAATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 5 0.17
20 14 0.48
21 10 0.34
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
AAATATTTTGATTTTTTAACA
Found at i:18108962 original size:18 final size:18
Alignment explanation
Indices: 18108919--18108962 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
18108909 ATTTTTTTCC
* **
18108919 AAAATTTTTTGATTTTGT
1 AAAATTTTTTAATTTTAA
*
18108937 AAATTTTTTTAATTTTAA
1 AAAATTTTTTAATTTTAA
18108955 AAAATTTT
1 AAAATTTT
18108963 GATTTTTATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
AAAATTTTTTAATTTTAA
Found at i:18108995 original size:18 final size:19
Alignment explanation
Indices: 18108974--18109015 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
18108964 ATTTTTATTG
18108974 AAATTTTCA-AAATTTTTT
1 AAATTTTCATAAATTTTTT
*
18108992 AAATTTTCATATATTTTTT
1 AAATTTTCATAAATTTTTT
*
18109011 GAATT
1 AAATT
18109016 ATTTATGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (19 bp):
AAATTTTCATAAATTTTTT
Found at i:18109028 original size:20 final size:20
Alignment explanation
Indices: 18109002--18109049 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
18108992 AAATTTTCAT
*
18109002 ATATTTTTTG-AATTATTT-
1 ATATTTTTTGAAAATATTTA
18109020 ATGATTTTTTGAAAATATTTA
1 AT-ATTTTTTGAAAATATTTA
18109041 ATATTTTTT
1 ATATTTTTT
18109050 TAACCTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 2 0.08
19 8 0.31
20 14 0.54
21 2 0.08
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (20 bp):
ATATTTTTTGAAAATATTTA
Found at i:18109899 original size:20 final size:20
Alignment explanation
Indices: 18109876--18109936 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
18109866 TTATTTAAAT
18109876 TTTTCATAATTTTTTTATAA
1 TTTTCATAATTTTTTTATAA
*
18109896 TTTTCAT--TTTTCTTAT-A
1 TTTTCATAATTTTTTTATAA
* *
18109913 TTTTTAAAATTTTTATTA-AA
1 TTTTCATAATTTTT-TTATAA
18109933 TTTT
1 TTTT
18109937 AGATTTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 6 0.18
18 8 0.24
19 4 0.12
20 15 0.45
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTCATAATTTTTTTATAA
Found at i:18109906 original size:17 final size:17
Alignment explanation
Indices: 18109884--18109916 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18109874 ATTTTTCATA
18109884 ATTTTT-TTATAATTTTC
1 ATTTTTCTTAT-ATTTTC
18109901 ATTTTTCTTATATTTT
1 ATTTTTCTTATATTTT
18109917 TAAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTTCTTATATTTTC
Found at i:18109917 original size:18 final size:19
Alignment explanation
Indices: 18109874--18109917 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
18109864 TATTATTTAA
*
18109874 ATTTTTCATAATTTTTTTAT
1 ATTTTTCAT-ATTTTCTTAT
*
18109894 AATTTTCAT-TTTTCTTAT
1 ATTTTTCATATTTTCTTAT
18109912 ATTTTT
1 ATTTTT
18109918 AAAATTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 13 0.62
20 8 0.38
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTCATATTTTCTTAT
Found at i:18110073 original size:29 final size:26
Alignment explanation
Indices: 18110016--18110085 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 26
18110006 GTTTATTAAA
18110016 TTTTCATTTTTTAATGAAATATTTAATTT
1 TTTTCATTTTTT--TGAAATATTTAA-TT
18110045 TTTTCATTTTTTTGAAA-ATTTCAGGATT
1 TTTTCATTTTTTTGAAATATTT-A--ATT
18110073 TTTT-ATTTTTTTG
1 TTTTCATTTTTTTG
18110086 GATTTCTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
26 4 0.11
27 15 0.39
28 6 0.16
29 13 0.34
ACGTcount: A:0.24, C:0.04, G:0.07, T:0.64
Consensus pattern (26 bp):
TTTTCATTTTTTTGAAATATTTAATT
Found at i:18110219 original size:19 final size:19
Alignment explanation
Indices: 18110172--18110221 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
18110162 ATATTTTTTG
*
18110172 AATTTTTTTCAATTTTCAA
1 AATTTTTTTGAATTTTCAA
* * *
18110191 AAGTTTTTTGAATTTTTAT
1 AATTTTTTTGAATTTTCAA
18110210 AATTTTTTTGAA
1 AATTTTTTTGAA
18110222 AAATTTCTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (19 bp):
AATTTTTTTGAATTTTCAA
Found at i:18111847 original size:2 final size:2
Alignment explanation
Indices: 18111840--18111872 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
18111830 GTGCTCTAGA
*
18111840 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18111873 CCTTTTAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:18123550 original size:21 final size:21
Alignment explanation
Indices: 18123525--18123574 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
18123515 ACCCAGTAAA
*
18123525 GGATCAATCC-AGTTGAATTAG
1 GGATCAATCCTA-TTGAATGAG
*
18123546 GGATCGATCCTATTGAATGAG
1 GGATCAATCCTATTGAATGAG
18123567 GG-TCAATC
1 GGATCAATC
18123575 ACCTTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 5 0.20
21 19 0.76
22 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (21 bp):
GGATCAATCCTATTGAATGAG
Found at i:18127556 original size:3 final size:3
Alignment explanation
Indices: 18127548--18127605 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
18127538 AAAAGAAGGG
18127548 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18127596 ATA ATA ATA A
1 ATA ATA ATA A
18127606 AGGCTTATTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18129253 original size:15 final size:16
Alignment explanation
Indices: 18129228--18129267 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
18129218 ACCTTTTCTT
18129228 TTTCTTCTTGTGAATC
1 TTTCTTCTTGTGAATC
*
18129244 TTTC-TCTTGTGGATC
1 TTTCTTCTTGTGAATC
18129259 -TTCTTCTTG
1 TTTCTTCTTG
18129268 AATTGCCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 15 0.68
16 4 0.18
ACGTcount: A:0.07, C:0.20, G:0.15, T:0.57
Consensus pattern (16 bp):
TTTCTTCTTGTGAATC
Found at i:18136166 original size:21 final size:20
Alignment explanation
Indices: 18136127--18136172 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 20
18136117 AATTTTATAT
18136127 TTTAAAAATTAAAATATT-A
1 TTTAAAAATTAAAATATTAA
*
18136146 TTTAAAAATTCAACCATATTAA
1 TTTAAAAATT-AA-AATATTAA
18136168 TTTAA
1 TTTAA
18136173 CAAACCAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 10 0.43
20 2 0.09
21 5 0.22
22 6 0.26
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTAAAAATTAAAATATTAA
Found at i:18136316 original size:21 final size:21
Alignment explanation
Indices: 18136292--18136332 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18136282 AAACTCCAAA
18136292 TTAATAAATAAAGCTTTTATT
1 TTAATAAATAAAGCTTTTATT
* *
18136313 TTAATCAATAAAGGTTTTAT
1 TTAATAAATAAAGCTTTTAT
18136333 CCTTCAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (21 bp):
TTAATAAATAAAGCTTTTATT
Found at i:18138541 original size:5 final size:6
Alignment explanation
Indices: 18138527--18138551 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18138517 CCCAATTGGC
18138527 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
18138552 ATTTGTCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:18138591 original size:27 final size:27
Alignment explanation
Indices: 18138542--18138613 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 27
18138532 TTTTTATTTT
18138542 TATTTTTATTATTTGTCTATTTAT-TAATATA
1 TATTTTTATTA-TT-T-T-TTTATCTAATA-A
*
18138573 TATATTTT-TTATTTTTTTATCTATTAA
1 TAT-TTTTATTATTTTTTTATCTAATAA
18138600 TATTTTTATTATTT
1 TATTTTTATTATTT
18138614 ATCTGCTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
26 4 0.11
27 15 0.41
28 5 0.14
29 1 0.03
30 2 0.05
31 6 0.16
32 4 0.11
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.69
Consensus pattern (27 bp):
TATTTTTATTATTTTTTTATCTAATAA
Found at i:18138631 original size:33 final size:31
Alignment explanation
Indices: 18138536--18138674 Score: 109
Period size: 33 Copynumber: 4.2 Consensus size: 31
18138526 CTTTTATTTT
*
18138536 TATTTTTATT-TTTATTATTTGTCTATTTATTAA
1 TATTTTTATTATTTATT-CTT-T-TATTTATTAA
* * * * *
18138569 TATATATATTTTTTATTTTTTTATCTATTAA
1 TATTTTTATTATTTATTCTTTTATTTATTAA
*
18138600 TATTTTTATTATTTATCTGCTTTTATTTATTAT
1 TATTTTTATTATTTAT-T-CTTTTATTTATTAA
* *
18138633 TATTGTTATTTATCTATTTCTTTTATTTATCTAA
1 TATTTTTA-TTATTTA-TTCTTTTATTTAT-TAA
18138667 TTATTTTT
1 -TATTTTT
18138675 TGTTATCTAT
Statistics
Matches: 86, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
31 22 0.26
32 2 0.02
33 40 0.47
34 15 0.17
35 7 0.08
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (31 bp):
TATTTTTATTATTTATTCTTTTATTTATTAA
Found at i:18138632 original size:17 final size:15
Alignment explanation
Indices: 18138526--18138662 Score: 59
Period size: 16 Copynumber: 8.7 Consensus size: 15
18138516 GCCCAATTGG
18138526 CTTTTATTT-TTATT
1 CTTTTATTTATTATT
*
18138540 -TTTATTTTTATTATT
1 CTTT-TATTTATTATT
* *
18138555 -TGTCTATTTATTAAT
1 CT-TTTATTTATTATT
* * *
18138570 ATATATATTTTTTATT
1 CT-TTTATTTATTATT
* *
18138586 TTTTTATCTATTAATAT
1 CTTTTATTTATT-AT-T
18138603 -TTTTA-TTATTTATCT
1 CTTTTATTTA-TTAT-T
18138618 GCTTTTATTTATTATT
1 -CTTTTATTTATTATT
*
18138634 ATTGTTATTTATCTATTT
1 CTT-TTATTTAT-TA-TT
18138652 CTTTTATTTAT
1 CTTTTATTTAT
18138663 CTAATTATTT
Statistics
Matches: 94, Mismatches: 16, Indels: 23
0.71 0.12 0.17
Matches are distributed among these distances:
13 3 0.03
14 4 0.04
15 29 0.31
16 31 0.33
17 20 0.21
18 7 0.07
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (15 bp):
CTTTTATTTATTATT
Found at i:18138686 original size:17 final size:18
Alignment explanation
Indices: 18138619--18138686 Score: 74
Period size: 17 Copynumber: 3.9 Consensus size: 18
18138609 TATTTATCTG
18138619 CTTTTATTTAT-TATTAT
1 CTTTTATTTATCTATTAT
*
18138636 -TGTTATTTATCTATT-T
1 CTTTTATTTATCTATTAT
18138652 CTTTTATTTATCTAATTAT
1 CTTTTATTTATCT-ATTAT
18138671 -TTTT-TGTTATCTATTA
1 CTTTTAT-TTATCTATTA
18138687 ATATATTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
16 10 0.23
17 20 0.45
18 13 0.30
19 1 0.02
ACGTcount: A:0.22, C:0.07, G:0.03, T:0.68
Consensus pattern (18 bp):
CTTTTATTTATCTATTAT
Found at i:18138693 original size:22 final size:21
Alignment explanation
Indices: 18138647--18138694 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
18138637 GTTATTTATC
*
18138647 TATTTCTTTTATTTATCTAAT
1 TATTTCTTTTATCTATCTAAT
*
18138668 TATTTTTTGTTATCTAT-TAAT
1 TATTTCTT-TTATCTATCTAAT
18138689 ATATTT
1 -TATTT
18138695 ATCTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (21 bp):
TATTTCTTTTATCTATCTAAT
Found at i:18141314 original size:80 final size:80
Alignment explanation
Indices: 18141174--18141421 Score: 294
Period size: 80 Copynumber: 3.1 Consensus size: 80
18141164 ATTTTTTGCA
* * * *
18141174 CTTAAATAATCTTTTTCTTTTTATGATCCTTTAATTAAAAAAAATAAAATGATTACTTAAGGTGT
1 CTTAAATAATCTTTTTATTTTTATGATCCTTTAATT--AAAAAATAAAAAGATTATTTAAGGTAT
18141239 TTTTGTACAGAAAATGC
64 TTTTGTACAGAAAATGC
* * *
18141256 CTTAAATAATCATTTTATTTTT-TTATCCTTTAATTAAAAAACTAAAAAGATTATTTAAGATATT
1 CTTAAATAATCTTTTTATTTTTATGATCCTTTAATTAAAAAA-TAAAAAGATTATTTAAGGTATT
* * *
18141320 TTTATATAGAAAATAC
65 TTTGTACAGAAAATGC
* *
18141336 CTTAAATAATCCTTTTTATTTTTGTGATCCTTTAATT----AA-AAAAA-ATTATTTAAGGCATT
1 CTTAAATAAT-CTTTTTATTTTTATGATCCTTTAATTAAAAAATAAAAAGATTATTTAAGGTATT
*
18141395 TTTGTACAGAAAATGA
65 TTTGTACAGAAAATGC
18141411 CTTAAATAATC
1 CTTAAATAATC
18141422 CTTTACATAT
Statistics
Matches: 145, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
74 1 0.01
75 35 0.24
76 5 0.03
78 2 0.01
79 6 0.04
80 41 0.28
81 23 0.16
82 32 0.22
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (80 bp):
CTTAAATAATCTTTTTATTTTTATGATCCTTTAATTAAAAAATAAAAAGATTATTTAAGGTATTT
TTGTACAGAAAATGC
Found at i:18141920 original size:36 final size:37
Alignment explanation
Indices: 18141845--18141921 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
18141835 CAAAAACATC
* **
18141845 TTAAATGATCCTTTTATTTTTTTATATTATGGATCAT
1 TTAAATGATCATTTTATTTTTTTATATTAAAGATCAT
*
18141882 TTAAATGATCATTTTATTTTTTTATA-TAAAGATTAT
1 TTAAATGATCATTTTATTTTTTTATATTAAAGATCAT
18141918 TTAA
1 TTAA
18141922 GGCATTTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 11 0.31
37 25 0.69
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.56
Consensus pattern (37 bp):
TTAAATGATCATTTTATTTTTTTATATTAAAGATCAT
Found at i:18149906 original size:21 final size:19
Alignment explanation
Indices: 18149882--18149924 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
18149872 AAAAAAATTT
*
18149882 AAATATAAATACCAAAATAAA
1 AAATATAAA-A-CAAAAAAAA
*
18149903 AAATTTAAAACAAAAAAAA
1 AAATATAAAACAAAAAAAA
18149922 AAA
1 AAA
18149925 CAATGGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 1 0.05
21 8 0.40
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (19 bp):
AAATATAAAACAAAAAAAA
Found at i:18152058 original size:29 final size:29
Alignment explanation
Indices: 18151981--18152058 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
18151971 ATGTGCCGGA
18151981 GACTAAATTCCTTAAAAAATAATACTATAAG
1 GACTAAATT-CTT-AAAAATAATACTATAAG
* ** * *
18152012 GATTAAATTCTTTTAAATAATATTATAGG
1 GACTAAATTCTTAAAAATAATACTATAAG
*
18152041 GACTAAATTATTAAAAAT
1 GACTAAATTCTTAAAAAT
18152059 CGAATAGTAC
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 27 0.71
30 3 0.08
31 8 0.21
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.36
Consensus pattern (29 bp):
GACTAAATTCTTAAAAATAATACTATAAG
Found at i:18153017 original size:32 final size:33
Alignment explanation
Indices: 18152950--18153018 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
18152940 AATTTTTGTT
* * *
18152950 TATAATAAGTTTTATAACTTATCGGATATGGATA
1 TATAATAAGTTATAAAACTTACCGGATAT-GATA
*
18152984 TATAATAAGTTATAAAATTTACCGGATAT-ATA
1 TATAATAAGTTATAAAACTTACCGGATATGATA
18153016 TAT
1 TAT
18153019 TAAAAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 6 0.19
34 25 0.81
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.41
Consensus pattern (33 bp):
TATAATAAGTTATAAAACTTACCGGATATGATA
Found at i:18153064 original size:34 final size:34
Alignment explanation
Indices: 18153025--18153127 Score: 103
Period size: 34 Copynumber: 3.2 Consensus size: 34
18153015 ATATTAAAAA
18153025 ATTTTTAAATTGAAATGAGAAAGAATAATTAAAT
1 ATTTTTAAATTGAAATGAGAAAGAATAATTAAAT
* * * *
18153059 ATTTTT--ATT--TA-GAGATA-CAT-ATTAAAAA
1 ATTTTTAAATTGAAATGAGAAAGAATAATT-AAAT
*
18153087 ACTTTTAAATTGAAATGAGAAAGAATAATTAAAT
1 ATTTTTAAATTGAAATGAGAAAGAATAATTAAAT
18153121 ATTTTTA
1 ATTTTTA
18153128 TTTAGAGATA
Statistics
Matches: 51, Mismatches: 10, Indels: 16
0.66 0.13 0.21
Matches are distributed among these distances:
27 3 0.06
28 10 0.20
29 5 0.10
30 4 0.08
32 4 0.08
33 5 0.10
34 17 0.33
35 3 0.06
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.39
Consensus pattern (34 bp):
ATTTTTAAATTGAAATGAGAAAGAATAATTAAAT
Found at i:18153083 original size:62 final size:62
Alignment explanation
Indices: 18153015--18153138 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
18153005 CCGGATATAT
*
18153015 ATATTAAAAAATTTTTAAATTGAAATGAGAAAGAATAATTAAATATTTTTATTTAGAGATAC
1 ATATTAAAAAACTTTTAAATTGAAATGAGAAAGAATAATTAAATATTTTTATTTAGAGATAC
18153077 ATATTAAAAAACTTTTAAATTGAAATGAGAAAGAATAATTAAATATTTTTATTTAGAGATAC
1 ATATTAAAAAACTTTTAAATTGAAATGAGAAAGAATAATTAAATATTTTTATTTAGAGATAC
18153139 TTTTTTTTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (62 bp):
ATATTAAAAAACTTTTAAATTGAAATGAGAAAGAATAATTAAATATTTTTATTTAGAGATAC
Found at i:18157919 original size:15 final size:15
Alignment explanation
Indices: 18157901--18157943 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
18157891 AAAATATTAA
18157901 AAATTATTTATTATT
1 AAATTATTTATTATT
18157916 AAA-TA--TATTA--
1 AAATTATTTATTATT
18157926 AAATTATTTATTATT
1 AAATTATTTATTATT
18157941 AAA
1 AAA
18157944 ACTATTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 3 0.13
11 2 0.09
12 5 0.22
13 5 0.22
14 2 0.09
15 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AAATTATTTATTATT
Found at i:18157928 original size:25 final size:24
Alignment explanation
Indices: 18157886--18157951 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 24
18157876 ATTGATATAT
18157886 TTATTAAAATATTAAAAATTATTTA
1 TTATTAAAATATT-AAAATTATTTA
18157911 TTATTAAATATATTAAAATTATTTA
1 TTATTAAA-ATATTAAAATTATTTA
18157936 TTATTAAAACTATTAA
1 TTATTAAAA-TATTAA
18157952 TAATAAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.85
26 5 0.13
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TTATTAAAATATTAAAATTATTTA
Found at i:18157940 original size:16 final size:16
Alignment explanation
Indices: 18157910--18157964 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
18157900 AAAATTATTT
18157910 ATTATTAAATATATTAAA
1 ATTATT-AAT-TATTAAA
*
18157928 ATTATTTATTATTAAA
1 ATTATTAATTATTAAA
* * *
18157944 ACTATTAATAATAAAA
1 ATTATTAATTATTAAA
18157960 ATTAT
1 ATTAT
18157965 ATTTTAATTG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 23 0.74
17 2 0.06
18 6 0.19
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTATTAATTATTAAA
Done.