Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 91 of 136
Found at i:30327060 original size:19 final size:20
Alignment explanation
Indices: 30327019--30327063 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
30327009 AAAAAACCTT
*
30327019 TTTTAAAATTTAATTTATTA
1 TTTTAAAATTTAATTTATCA
30327039 TTTTAAAA-TTAATTT-TACA
1 TTTTAAAATTTAATTTAT-CA
30327058 TTTTAA
1 TTTTAA
30327064 TGGAAAACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 14 0.61
20 8 0.35
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTAAAATTTAATTTATCA
Found at i:30352168 original size:16 final size:16
Alignment explanation
Indices: 30352147--30352184 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
30352137 GATTTGCTAT
30352147 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
30352163 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
30352179 TACACC
1 TACACC
30352185 GAACTTATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.37, C:0.39, G:0.00, T:0.24
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:30357949 original size:17 final size:17
Alignment explanation
Indices: 30357923--30357956 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30357913 ATAATAAGAC
30357923 TAAAAGATTTTTAAATA
1 TAAAAGATTTTTAAATA
* *
30357940 TAAAATATTTTTTAATA
1 TAAAAGATTTTTAAATA
30357957 AATTTCACAA
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:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TAAAAGATTTTTAAATA
Found at i:30358586 original size:19 final size:19
Alignment explanation
Indices: 30358562--30358606 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
30358552 TTATTCTTAT
*
30358562 AATTTTATTTGTAA-TTTAA
1 AATTTTATTT-AAATTTTAA
30358581 AATTTTATTTAAATTTTAA
1 AATTTTATTTAAATTTTAA
30358600 AATTTTA
1 AATTTTA
30358607 AAATGTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 2 0.08
19 22 0.92
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
AATTTTATTTAAATTTTAA
Found at i:30358616 original size:25 final size:24
Alignment explanation
Indices: 30358588--30358656 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
30358578 TAAAATTTTA
30358588 TTTAAATTTTA-AAATTTTAAAATGT
1 TTTAAATTTTATAAATTTT-AAAT-T
* * *
30358613 TTTAATTGTTTATATATTTTCAATT
1 TTTAAAT-TTTATAAATTTTAAATT
30358638 TTTATAATTTTATAAATTT
1 TTTA-AATTTTATAAATTT
30358657 ATGTATATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
25 21 0.58
26 9 0.25
27 6 0.17
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (24 bp):
TTTAAATTTTATAAATTTTAAATT
Found at i:30358641 original size:17 final size:16
Alignment explanation
Indices: 30358612--30358649 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
30358602 TTTTAAAATG
30358612 TTTTAATTGTTTATATA
1 TTTTAATTGTTTATA-A
30358629 TTTTCAATT-TTTATAA
1 TTTT-AATTGTTTATAA
30358645 TTTTA
1 TTTTA
30358650 TAAATTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.05
16 5 0.25
17 10 0.50
18 4 0.20
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTTAATTGTTTATAA
Found at i:30358676 original size:20 final size:21
Alignment explanation
Indices: 30358653--30358691 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30358643 AATTTTATAA
30358653 ATTTA-TGTATATTTTTAATT
1 ATTTACTGTATATTTTTAATT
* *
30358673 ATTTACTTTTTATTTTTAA
1 ATTTACTGTATATTTTTAA
30358692 GTTTTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (21 bp):
ATTTACTGTATATTTTTAATT
Found at i:30365845 original size:4 final size:4
Alignment explanation
Indices: 30365836--30365889 Score: 108
Period size: 4 Copynumber: 13.5 Consensus size: 4
30365826 TCAGGCACCT
30365836 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
30365884 TACA TA
1 TACA TA
30365890 ATAATGTTCC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:30381861 original size:50 final size:49
Alignment explanation
Indices: 30381734--30381936 Score: 136
Period size: 50 Copynumber: 4.1 Consensus size: 49
30381724 GGTCTGAAAT
* * * *** * * *
30381734 CTTCAATCTATTCAATTGCAATGTCGGGGAAACCAGATCCGCTGTCGTAG
1 CTTCAATCTGTTCAACTGCAAT-TCAGGGAAGTAAGATCCGCCGTTGTGG
* * **
30381784 CTTCAATCTGTTCCACCGCACCGTCAGGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCA-ATTCAGGGAAGTAAGATCCGCCGTTGTGG
* * * *** * *
30381834 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGTCGTTGTAG
1 CTTCAATCTGTTCAACTGCAAT-TCAGGGAAGTAAGATCCGCCGTTGTGG
* * * * *
30381884 CTTCAATCTGTTCCACTGTACTGCTAAGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATTC-AGGGAAGTAAGATCCGCCGTTGTGG
30381934 CTT
1 CTT
30381937 TTTATTTTTT
Statistics
Matches: 112, Mismatches: 38, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
49 1 0.01
50 111 0.99
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.30
Consensus pattern (49 bp):
CTTCAATCTGTTCAACTGCAATTCAGGGAAGTAAGATCCGCCGTTGTGG
Found at i:30381946 original size:100 final size:100
Alignment explanation
Indices: 30381734--30381936 Score: 293
Period size: 100 Copynumber: 2.0 Consensus size: 100
30381724 GGTCTGAAAT
* * * *
30381734 CTTCAATCTATTCAATTGCAATGTCGGGGAAACCAGATCCGCTGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCTGTCGTAGCTTCAATCTGTTCCA
*
30381799 CCGCACCGTCAGGGAAGTAAGATCCGCCGTTGTGG
66 CCGCACCGTCAAGGAAGTAAGATCCGCCGTTGTGG
*
30381834 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCG-TCGTTGTAGCTTCAATCTGTTCC
1 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCT-GTCGTAGCTTCAATCTGTTCC
* * *
30381898 ACTGTACTG-CTAAGGAAGTAAGATCCGCCGTTGTGG
65 ACCGCACCGTC-AAGGAAGTAAGATCCGCCGTTGTGG
30381934 CTT
1 CTT
30381937 TTTATTTTTT
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
99 2 0.02
100 90 0.98
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.30
Consensus pattern (100 bp):
CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCTGTCGTAGCTTCAATCTGTTCCA
CCGCACCGTCAAGGAAGTAAGATCCGCCGTTGTGG
Found at i:30383963 original size:7 final size:7
Alignment explanation
Indices: 30383951--30383979 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
30383941 TTTCATCACC
30383951 TCTTTTT
1 TCTTTTT
30383958 TCTTTTT
1 TCTTTTT
30383965 TCTTTTT
1 TCTTTTT
30383972 TCTTTTT
1 TCTTTTT
30383979 T
1 T
30383980 TTAAGACTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TCTTTTT
Found at i:30403577 original size:16 final size:17
Alignment explanation
Indices: 30403543--30403580 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
30403533 CAGAGATCCA
*
30403543 TATTTATATTATAAATT
1 TATTTATATAATAAATT
*
30403560 TATTTA-ATAATAATTT
1 TATTTATATAATAAATT
30403576 TATTT
1 TATTT
30403581 TTAANNNNNN
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTTATATAATAAATT
Found at i:30405406 original size:16 final size:14
Alignment explanation
Indices: 30405385--30405424 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
30405375 TTTTTTTATC
30405385 TTATTTTTATAATTA
1 TTATTTTTATAA-TA
*
30405400 TTAATTTT-TAATA
1 TTATTTTTATAATA
30405413 TTATTTTTATAA
1 TTATTTTTATAA
30405425 AAACCACATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 9 0.41
14 6 0.27
15 7 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTTTATAATA
Found at i:30405545 original size:140 final size:141
Alignment explanation
Indices: 30405293--30405577 Score: 563
Period size: 140 Copynumber: 2.0 Consensus size: 141
30405283 TAAATTCTTT
30405293 TTTAAAAAATTTATTGGTGTGACTAATATGTCAAGCATTATCTAAAGTTACAGTAACAAACATTT
1 TTTAAAAAATTTATTGGTGTGACTAATATGTCAAGCATTATCTAAAGTTACAGTAACAAACATTT
30405358 CATTTTCACAAATAATTTTTTTTTATCTTATTTTTATAATTATTAATTTTTAATATTATTTTTAT
66 CATTTTCACAAATAATTTTTTTTTATCTTATTTTTATAATTATTAATTTTTAATATTATTTTTAT
30405423 -AAAAACCACA
131 AAAAAACCACA
30405433 TTTAAAAAATTTATTGGTGTGACTAATATGTCAAGCATTATCTAAAGTTACAGTAACAAACATTT
1 TTTAAAAAATTTATTGGTGTGACTAATATGTCAAGCATTATCTAAAGTTACAGTAACAAACATTT
30405498 CATTTTCACAAATAATTTTTTTTTATCTTATTTTTATAATTATTAATTTTTAATATTATTTTTAT
66 CATTTTCACAAATAATTTTTTTTTATCTTATTTTTATAATTATTAATTTTTAATATTATTTTTAT
30405563 AAAAAACCACA
131 AAAAAACCACA
30405574 TTTA
1 TTTA
30405578 TATTTTTTTC
Statistics
Matches: 144, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
140 130 0.90
141 14 0.10
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.47
Consensus pattern (141 bp):
TTTAAAAAATTTATTGGTGTGACTAATATGTCAAGCATTATCTAAAGTTACAGTAACAAACATTT
CATTTTCACAAATAATTTTTTTTTATCTTATTTTTATAATTATTAATTTTTAATATTATTTTTAT
AAAAAACCACA
Found at i:30405546 original size:16 final size:14
Alignment explanation
Indices: 30405525--30405564 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
30405515 TTTTTTTATC
30405525 TTATTTTTATAATTA
1 TTATTTTTATAA-TA
*
30405540 TTAATTTT-TAATA
1 TTATTTTTATAATA
30405553 TTATTTTTATAA
1 TTATTTTTATAA
30405565 AAAACCACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 9 0.41
14 6 0.27
15 7 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTTTATAATA
Found at i:30406547 original size:7 final size:7
Alignment explanation
Indices: 30406535--30406561 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
30406525 CAAGTTTCTA
30406535 TTAAAAT
1 TTAAAAT
30406542 TTAAAAT
1 TTAAAAT
30406549 TTAAAAT
1 TTAAAAT
30406556 TTAAAA
1 TTAAAA
30406562 ACATTGGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TTAAAAT
Found at i:30411232 original size:24 final size:25
Alignment explanation
Indices: 30411201--30411254 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
30411191 GGAATCTCCT
*
30411201 TTTA-CAAAGTAAAGTAGTAC-AAC
1 TTTATCAAAGTAAAATAGTACAAAC
30411224 TTTATCAAAGTAAAATAGTACAAAC
1 TTTATCAAAGTAAAATAGTACAAAC
30411249 TTTATC
1 TTTATC
30411255 TACTTTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 4 0.14
24 15 0.54
25 9 0.32
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (25 bp):
TTTATCAAAGTAAAATAGTACAAAC
Found at i:30415232 original size:14 final size:14
Alignment explanation
Indices: 30415215--30415260 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
30415205 TAAAAAAATG
30415215 TTATTAAATTATTA
1 TTATTAAATTATTA
*
30415229 TTATTAAATTAGTA
1 TTATTAAATTATTA
30415243 TTATTAAATTATTA
1 TTATTAAATTATTA
30415257 TTAT
1 TTAT
30415261 ATTTTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TTATTAAATTATTA
Found at i:30415398 original size:3 final size:3
Alignment explanation
Indices: 30415382--30415432 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
30415372 AAGTAAATAA
*
30415382 TAT TAT AAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
30415428 TAT TA
1 TAT TA
30415433 ACTTTATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 43 0.96
4 2 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:30416603 original size:21 final size:21
Alignment explanation
Indices: 30416577--30416641 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
30416567 GCTGAAATTA
30416577 TATCAGGCACCTCGTGTGTCG
1 TATCAGGCACCTCGTGTGTCG
30416598 TATCAGGCACCTCGTGTGTCG
1 TATCAGGCACCTCGTGTGTCG
* **
30416619 TTTCAGGCA-CTTATGTGTCG
1 TATCAGGCACCTCGTGTGTCG
30416639 TAT
1 TAT
30416642 ACTGATCAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 11 0.28
21 29 0.73
ACGTcount: A:0.15, C:0.25, G:0.26, T:0.34
Consensus pattern (21 bp):
TATCAGGCACCTCGTGTGTCG
Found at i:30420753 original size:7 final size:7
Alignment explanation
Indices: 30420741--30420781 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
30420731 CAGCTTTCTA
30420741 TTAAAAT
1 TTAAAAT
30420748 TTAAAAT
1 TTAAAAT
30420755 TTAAAAT
1 TTAAAAT
30420762 TTAAAAT
1 TTAAAAT
30420769 TTAAAAT
1 TTAAAAT
30420776 TTAAAA
1 TTAAAA
30420782 GCATTGGTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TTAAAAT
Found at i:30424764 original size:12 final size:12
Alignment explanation
Indices: 30424747--30424773 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30424737 TTCGTGTAAA
30424747 AATGATGAATTC
1 AATGATGAATTC
30424759 AATGATGAATTC
1 AATGATGAATTC
30424771 AAT
1 AAT
30424774 TTGAGCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.33
Consensus pattern (12 bp):
AATGATGAATTC
Found at i:30429126 original size:13 final size:14
Alignment explanation
Indices: 30429106--30429139 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
30429096 CATTATAAAG
30429106 CCAG-TTTATATTA
1 CCAGATTTATATTA
30429119 CCA-ATTTATATTA
1 CCAGATTTATATTA
30429132 CCAGATTT
1 CCAGATTT
30429140 CACCAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (14 bp):
CCAGATTTATATTA
Found at i:30434963 original size:14 final size:14
Alignment explanation
Indices: 30434944--30434972 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
30434934 ATATATTTTT
30434944 TATATTTCTTAAAA
1 TATATTTCTTAAAA
30434958 TATATTTCTTAAAA
1 TATATTTCTTAAAA
30434972 T
1 T
30434973 GTATCAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (14 bp):
TATATTTCTTAAAA
Found at i:30440950 original size:20 final size:21
Alignment explanation
Indices: 30440912--30440952 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
30440902 TTACAATTAA
*
30440912 CTTTATGAGTTTTAACATTGG
1 CTTTATGAGTTATAACATTGG
*
30440933 CTTTAT-AGTTATAGCATTGG
1 CTTTATGAGTTATAACATTGG
30440953 ATAAGAGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (21 bp):
CTTTATGAGTTATAACATTGG
Found at i:30460923 original size:27 final size:27
Alignment explanation
Indices: 30460887--30460958 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
30460877 CACTTGACTG
* * *
30460887 TGTCATTTCATAGTTCATTTCGCAGTT
1 TGTCACTTCACAGTTCATTTCGCAGCT
*
30460914 TGTCACTTCACGGTTCATTTCGCAGCT
1 TGTCACTTCACAGTTCATTTCGCAGCT
* *
30460941 TGTCACTTTACGGTTCAT
1 TGTCACTTCACAGTTCAT
30460959 CATGTGTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (27 bp):
TGTCACTTCACAGTTCATTTCGCAGCT
Found at i:30480181 original size:23 final size:23
Alignment explanation
Indices: 30480144--30480187 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
30480134 AATTGAATTG
30480144 AATTATATTTTTGTTTAATATAT
1 AATTATATTTTTGTTTAATATAT
30480167 AATTA-ATTTTATGTTTAATAT
1 AATTATATTTT-TGTTTAATAT
30480188 GATATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (23 bp):
AATTATATTTTTGTTTAATATAT
Found at i:30480231 original size:29 final size:31
Alignment explanation
Indices: 30480172--30480231 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
30480162 TATATAATTA
* *
30480172 ATTTTATGTTTAATATGATATAAAAATAAAT
1 ATTTTATATTTAAAATGATATAAAAATAAAT
30480203 ATTTTATATTTAAAAT-A-ATAAAAATAAAT
1 ATTTTATATTTAAAATGATATAAAAATAAAT
30480232 TAAAAGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 12 0.44
30 1 0.04
31 14 0.52
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (31 bp):
ATTTTATATTTAAAATGATATAAAAATAAAT
Found at i:30480782 original size:22 final size:22
Alignment explanation
Indices: 30480735--30480785 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
30480725 AATATTACAT
**
30480735 TTAATTTAATTTAAAATTTAGGA
1 TTAATTTAATAAAAAATTTA-GA
30480758 TTAATTTAATAAAAAATTATA-A
1 TTAATTTAATAAAAAATT-TAGA
30480780 TTAATT
1 TTAATT
30480786 AATTAATGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.28
23 16 0.64
24 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TTAATTTAATAAAAAATTTAGA
Found at i:30491596 original size:19 final size:19
Alignment explanation
Indices: 30491575--30491610 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30491565 GAATTGGAAT
*
30491575 TTTTTAA-AATTTTTTAAA
1 TTTTTAATAATGTTTTAAA
30491593 TTTTTAATAATGTTTTAA
1 TTTTTAATAATGTTTTAA
30491611 TTGGACCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTTAATAATGTTTTAAA
Found at i:30496689 original size:20 final size:20
Alignment explanation
Indices: 30496664--30496717 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 20
30496654 GGGTTAATAA
30496664 TTTTATGTATCATTTTTAGT
1 TTTTATGTATCATTTTTAGT
*
30496684 TTTTATG--TCATTTTTTGT
1 TTTTATGTATCATTTTTAGT
*
30496702 ATTT-T-TATCATTTTTA
1 TTTTATGTATCATTTTTA
30496718 AAATTTGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 1 0.03
18 21 0.72
20 7 0.24
ACGTcount: A:0.19, C:0.06, G:0.07, T:0.69
Consensus pattern (20 bp):
TTTTATGTATCATTTTTAGT
Found at i:30497395 original size:25 final size:25
Alignment explanation
Indices: 30497355--30497402 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
30497345 CTTAGTTTCG
*
30497355 TTTTGTTATTTTTTTTTCTTTTAGC
1 TTTTGTTATTTTTTTTTCATTTAGC
30497380 TTTT-TTATTTTATTTTTCATTTA
1 TTTTGTTATTTT-TTTTTCATTTA
30497403 AAATATAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.12, C:0.06, G:0.04, T:0.77
Consensus pattern (25 bp):
TTTTGTTATTTTTTTTTCATTTAGC
Found at i:30497663 original size:25 final size:27
Alignment explanation
Indices: 30497620--30497687 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
30497610 TTGTATTTTC
* * * *
30497620 TATACATATAAATACGCAT-TTTTTTA
1 TATATATATATATAAGCATATTTTTAA
30497646 TATATA-ATATATAAGCATATTTTTAA
1 TATATATATATATAAGCATATTTTTAA
*
30497672 TATATATATTTATAAG
1 TATATATATATATAAG
30497688 TACGCATCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 10 0.29
26 17 0.49
27 8 0.23
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (27 bp):
TATATATATATATAAGCATATTTTTAA
Found at i:30505986 original size:13 final size:13
Alignment explanation
Indices: 30505939--30505984 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
30505929 ATGAAATGAA
30505939 AAAATGAAAAGTG
1 AAAATGAAAAGTG
*
30505952 AAAATGAAAAATG
1 AAAATGAAAAGTG
30505965 AATAATGGAAAAGT-
1 AA-AAT-GAAAAGTG
30505979 AAAATG
1 AAAATG
30505985 GAGAGGCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 1 0.03
13 17 0.59
14 5 0.17
15 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (13 bp):
AAAATGAAAAGTG
Found at i:30507324 original size:44 final size:44
Alignment explanation
Indices: 30507261--30508202 Score: 864
Period size: 44 Copynumber: 21.3 Consensus size: 44
30507251 GAAAAGCAGC
30507261 AGATCTTGTCTTCATGTATTGACATGAAGTAGATC-AGAGATAGT
1 AGATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGATAGT
* *
30507305 AGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAAT
1 AGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGT
* *
30507349 GGATCTTGTTTTCATGTATTGACATGAAGTAGATC-AGAGATAGT
1 AGATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGATAGT
* *
30507393 AGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAAT
1 AGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGT
* * *
30507437 GGATCTTGTCTTCATGTATTGACATGAAGTATATC-AGAGATAGC
1 AGATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGATAGT
* * * *
30507481 AGATCTTATCTTCATGTATTGGCATGAAGTAGATCAAAGATAGC
1 AGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGT
* * * * *** * *
30507525 AGATATTGTCTTCCTATACTGGTGGTGAAGTAGATCAAAGATAAT
1 AGATCTTGTCTTCATGTA-TTGACATGAAGTAGATCGAAGATAGT
*
30507570 AGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAAT
1 AGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGT
* *
30507614 GGATCTTGTCTTCATGTATTGACACGAAGTAGATC-AGAGATAGT
1 AGATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGATAGT
* * * *
30507658 GGGTCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATGGC
1 AGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGT
*** * *** * *
30507702 AGATCTTGTCTTCCCATACTGGTGGTCAAGTAGATCGAAGATAAT
1 AGATCTTGTCTTCATGTA-TTGACATGAAGTAGATCGAAGATAGT
* * * *
30507747 GGATCTTATCTTCATGTATTGACACGAAGTAGATC-AGAGATAAT
1 AGATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGATAGT
* * * *
30507791 GGGTCTTGTCTTCATGTATTGACATGAAATAGATCGAAGAT-GAC
1 AGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAG-T
*** * ** * *
30507835 AGATCTTGTCTTCCCATACTGGTGATCAAGTAGATCGAAGATAAT
1 AGATCTTGTCTTCATGTA-TTGACATGAAGTAGATCGAAGATAGT
* * *
30507880 GGATCTTGTCTTCTTGTATTGGCATGAAGTAGATC-AGAGATAGT
1 AGATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGATAGT
* * * *
30507924 -GTCTCTTGTCTTCATGTATTGACATAAAGTAGATCGAAGATGGC
1 AG-ATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGT
*** * *** *
30507968 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAAT
1 AGATCTTGTCTTCATGTA-TTGACATGAAGTAGATCGAAGATAGT
* *
30508013 GGATCTTGTCTTCATGTATTGACATGAAGTAGAT-TAGAGATAGT
1 AGATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGATAGT
* * * * * *
30508057 GGCTCTTGTCTTCTTGTATTGACATGAAATAGATCGAAGATGGC
1 AGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGT
*** * *
30508101 AGATCTTGTCTTCCCATATTG--GTGGAAAAGTAGATCGAATATA-T
1 AGATCTTGTCTTCATGTATTGACAT-G--AAGTAGATCGAAGATAGT
* * * * *
30508145 CAAATCTTGTCTTCATGTAGTGGCGTGAAGTAGATCAAAGATAGT
1 -AGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGT
30508190 AGATCTTGTCTTC
1 AGATCTTGTCTTC
30508203 CAATACTGGT
Statistics
Matches: 723, Mismatches: 147, Indels: 56
0.78 0.16 0.06
Matches are distributed among these distances:
42 1 0.00
43 8 0.01
44 543 0.75
45 168 0.23
46 1 0.00
47 2 0.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.33
Consensus pattern (44 bp):
AGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGT
Found at i:30507667 original size:133 final size:132
Alignment explanation
Indices: 30507262--30508202 Score: 1048
Period size: 133 Copynumber: 7.1 Consensus size: 132
30507252 AAAAGCAGCA
* * ***
30507262 GATCTTGTCTTCATGTATTGACATGAAGTAGATC-AGAGATAGTAGATCTTATCTTCATGTATTG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGATAGCAGATCTTGTCTTCCCATATTG
*
30507326 ACATGAAGTAGATCGAAGATAATGGATCTTGTTTTCATGTATTGACATGAAGTAGATCAGAGATA
65 ACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATA
*
30507391 GTA
130 GTG
* *** ***
30507394 GATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGA
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGA
* *** * * *
30507459 CATGAAGTATATC-AGAGATAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCAAAGATA
66 CATGAAGTAGATCGA-AGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATA
**
30507523 GCA
130 GTG
* * * * *** * ** ***
30507526 GATATTGTCTTCCTATACTGGTGGTGAAGTAGATCAAAGATAATAGATCTTGTCTTCATGTATTG
1 GATCTTGTCTTCATGTA-TTGACATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTG
*
30507591 ACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACACGAAGTAGATCAGAGATA
65 ACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATA
30507656 GTG
130 GTG
* * *
30507659 GGTCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATGGCAGATCTTGTCTTCCCATACTGG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATA-TTG
*** * * *
30507724 TGGTCAAGTAGATCGAAGATAATGGATCTTATCTTCATGTATTGACACGAAGTAGATCAGAGATA
65 ACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATA
*
30507789 ATG
130 GTG
* * *
30507792 GGTCTTGTCTTCATGTATTGACATGAAATAGATCGAAGAT-GACAGATCTTGTCTTCCCATACTG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAG-CAGATCTTGTCTTCCCATA-TT
** * * *
30507856 GTGATCAAGTAGATCGAAGATAATGGATCTTGTCTTCTTGTATTGGCATGAAGTAGATCAGAGAT
64 GACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
30507921 AGTG
129 AGTG
** * * *
30507925 TCTCTTGTCTTCATGTATTGACATAAAGTAGATCGAAGATGGCAGATCTTGTCTTCCCATACTGG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATA-TTG
*** *
30507990 TGGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATTAGAGATA
65 ACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATA
30508055 GTG
130 GTG
* * * *
30508058 GCTCTTGTCTTCTTGTATTGACATGAAATAGATCGAAGATGGCAGATCTTGTCTTCCCATATTG-
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGA
* * ** * * * *
30508122 -GTGGAAAAGTAGATCGAATAT-ATCAAATCTTGTCTTCATGTAGTGGCGTGAAGTAGATCAAAG
66 CAT-G--AAGTAGATCGAAGATAAT-GGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAG
*
30508185 ATAGTA
127 ATAGTG
30508191 GATCTTGTCTTC
1 GATCTTGTCTTC
30508203 CAATACTGGT
Statistics
Matches: 712, Mismatches: 86, Indels: 21
0.87 0.11 0.03
Matches are distributed among these distances:
130 2 0.00
131 2 0.00
132 166 0.23
133 540 0.76
134 2 0.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.33
Consensus pattern (132 bp):
GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGA
CATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAG
TG
Found at i:30508066 original size:177 final size:176
Alignment explanation
Indices: 30507262--30508202 Score: 914
Period size: 177 Copynumber: 5.3 Consensus size: 176
30507252 AAAAGCAGCA
*
30507262 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTAGATCTTATCTTCATGTATTGA
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTAGATCTTGTCTTCATGTATTGA
* * * * *
30507327 CATGAAGTAGATCGAAGATAATGGATCTTGTTTTCATGTATTGACATGAAGTAGATCAGAGATAG
66 CATGAAGTAGATCGAAGATAGTGGATCTTGTCTTCCTGTATTGGCATGAAGTAGATCAGAGATAA
30507392 TAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
131 TAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
* * * *
30507438 GATCTTGTCTTCATGTATTGACATGAAGTATATCAGAGATAGCAGATCTTATCTTCATGTATTGG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTAGATCTTGTCTTCATGTATTGA
* ** * * * ** *
30507503 CATGAAGTAGATCAAAGATAGCAGATATTGTCTTCCTATACTGGTGGTGAAGTAGATCAAAGATA
66 CATGAAGTAGATCGAAGATAGTGGATCTTGTCTTCCTGTATTGG-CATGAAGTAGATCAGAGATA
*
30507568 ATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
130 ATAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
* * *
30507615 GATCTTGTCTTCATGTATTGACACGAAGTAGATCAGAGATAGTGGGTCTTGTCTTCATGTATTGA
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTAGATCTTGTCTTCATGTATTGA
* ** ** * ** *
30507680 CATGAAGTAGATCGAAGATGGCAGATCTTGTCTTCCCATACTGGTGGTCAAGTAGATC-GAAGAT
66 CATGAAGTAGATCGAAGATAGTGGATCTTGTCTTCCTGTATTGG-CATGAAGTAGATCAG-AGAT
* *
30507744 AATGGATCTTATCTTCATGTATTGACACGAAGTAGATC-AGAGATAATG
129 AATAGATCTTATCTTCATGTATTGACATGAAGTAGATCGA-AGATAATG
* * * ***
30507792 GGTCTTGTCTTCATGTATTGACATGAAATAGATC-GAAGAT-GACAGATCTTGTCTTCCCATACT
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAG-AGATAG-TAGATCTTGTCTTCATGTA-T
* ** * * *
30507855 GGTGATCAAGTAGATCGAAGATAATGGATCTTGTCTTCTTGTATTGGCATGAAGTAGATCAGAGA
63 TGACATGAAGTAGATCGAAGATAGTGGATCTTGTCTTCCTGTATTGGCATGAAGTAGATCAGAGA
* * * * ****
30507920 TAGT-GTCTCTTGTCTTCATGTATTGACATAAAGTAGATCGAAGATGGCA
128 TAATAG-ATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
*** * *** * *
30507969 GATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC-GAAGATAATGGATCTTGTCTTCATGTATT
1 GATCTTGTCTTCATGTA-TTGACATGAAGTAGATCAG-AGATAGTAGATCTTGTCTTCATGTATT
* * * * *
30508033 GACATGAAGTAGAT-TAGAGATAGTGGCTCTTGTCTTCTTGTATTGACATGAAATAGATC-GAAG
64 GACATGAAGTAGATCGA-AGATAGTGGATCTTGTCTTCCTGTATTGGCATGAAGTAGATCAG-AG
*** * *** * * *
30508096 ATGGCAGATCTTGTCTTCCCATATTG--GTGGAAAAGTAGATCGAATAT-ATCA
127 ATAATAGATCTTATCTTCATGTATTGACAT-G--AAGTAGATCGAAGATAAT-G
* * * * *
30508147 AATCTTGTCTTCATGTAGTGGCGTGAAGTAGATCAAAGATAGTAGATCTTGTCTTC
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTAGATCTTGTCTTC
30508203 CAATACTGGT
Statistics
Matches: 633, Mismatches: 113, Indels: 37
0.81 0.14 0.05
Matches are distributed among these distances:
175 1 0.00
176 102 0.16
177 431 0.68
178 99 0.16
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.33
Consensus pattern (176 bp):
GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTAGATCTTGTCTTCATGTATTGA
CATGAAGTAGATCGAAGATAGTGGATCTTGTCTTCCTGTATTGGCATGAAGTAGATCAGAGATAA
TAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
Found at i:30508186 original size:89 final size:89
Alignment explanation
Indices: 30508060--30508228 Score: 230
Period size: 89 Copynumber: 1.9 Consensus size: 89
30508050 AGATAGTGGC
* * * * * *
30508060 TCTTGTCTTCTTGTATTGACATGAAATAGATCGAAGATGGCAGATCTTGTCTTCCCATATTGGTG
1 TCTTGTCTTCATGTAGTGACATGAAATAGATCAAAGATAGCAGATCTTGTCTTCCAATACTGGTG
30508125 GAAAAGTAGATCGAATATATCAAA
66 GAAAAGTAGATCGAATATATCAAA
* * * *
30508149 TCTTGTCTTCATGTAGTGGCGTGAAGTAGATCAAAGATAGTAGATCTTGTCTTCCAATACTGGTG
1 TCTTGTCTTCATGTAGTGACATGAAATAGATCAAAGATAGCAGATCTTGTCTTCCAATACTGGTG
**
30508214 GCGAAGTAGATCGAA
66 GAAAAGTAGATCGAA
30508229 GATACCAGTC
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 68 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (89 bp):
TCTTGTCTTCATGTAGTGACATGAAATAGATCAAAGATAGCAGATCTTGTCTTCCAATACTGGTG
GAAAAGTAGATCGAATATATCAAA
Found at i:30509129 original size:18 final size:18
Alignment explanation
Indices: 30509088--30509132 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
30509078 TTTCTTTTAG
*
30509088 CTTTTTTATTTTATTTTT
1 CTTTTTTATTGTATTTTT
*
30509106 CATTTTTATTGTA-TTTT
1 CTTTTTTATTGTATTTTT
*
30509123 ATTTTTTATT
1 CTTTTTTATT
30509133 TCTCCCATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (18 bp):
CTTTTTTATTGTATTTTT
Found at i:30509346 original size:25 final size:27
Alignment explanation
Indices: 30509303--30509370 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
30509293 TTGTATTTTC
* * * *
30509303 TATACATATAAATACGCAT-TTTTTTA
1 TATATATATATATAAGCATATTTTTAA
30509329 TATATA-ATATATAAGCATATTTTTAA
1 TATATATATATATAAGCATATTTTTAA
*
30509355 TATATATATTTATAAG
1 TATATATATATATAAG
30509371 TACGCATCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 10 0.29
26 17 0.49
27 8 0.23
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (27 bp):
TATATATATATATAAGCATATTTTTAA
Found at i:30509637 original size:2 final size:2
Alignment explanation
Indices: 30509630--30509656 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30509620 ATTCATCTTC
30509630 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
30509657 CTTTTTACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30511497 original size:335 final size:321
Alignment explanation
Indices: 30510900--30511558 Score: 1003
Period size: 335 Copynumber: 2.0 Consensus size: 321
30510890 GAATTTGGAA
*
30510900 TTATTTTGTTATATCAAAACCTTTGAAAATCAAAATTAACAATCTTACATTATTTTAATATGGCA
1 TTATTTTGTTATATCAAAACCTTTGAAAATCAAAATTAACAATCTTACATTATTTTAATATGACA
* * * *
30510965 TTAGAGCCTTTTGTTCTCAGTCCTAGCCTATACACGTTTTTTCACCCCTTCGTTCAAATGAACAT
66 TTAGAGCCTTTTGTTCTCAATCCTAGCCTATACACATTTTCTCACCCCTTCGTTCAAATGAAAAT
*
30511030 ATTCTTGAACCTTCATATGGGTACAACAATTTATCTTTTTCAACTGAAACAATGTTAATTCTTGT
131 ATTCTTGAACCTTCATATGGCTACAACAATTTATCTTTTTCAACTGAAACAATGTTAATTCTTGT
* * * *
30511095 TCATCAAAGTCAATTAATCAACTTTCTTTTATCACCAACCAATTATTGGCTCCTATATCTATTCA
196 TCATCAAAGTCAATCAAACAACTTTATTTTATCACCAACCAATCATTGGCTCCTATATCTATTCA
* * *
30511160 AAGTGGTGAAGTTCATGTCTAACTATCTTGATAGTCAATAAAGGGGCCTTGCCTAATGGATG
261 AAGTGGAGAAGTTCATGCCTAACTATCTTGATAGTCAAGAAAGGGGCC-TGCCTAATGGATG
*
30511222 TTATTTTGTTATATCAAAACCTTTGAAAATCAAAATTAACAATCTTACATTATTTTAATATTACA
1 TTATTTTGTTATATCAAAACCTTTGAAAATCAAAATTAACAATCTTACATTATTTTAATATGACA
*
30511287 TTAGAGCCTTTTGTTTAACAACATGGTTTTCAATCCTAGCCTATACACATTTTCTCACCCTTTCG
66 TTAGAGCCTTTTG-TT-----C-------TCAATCCTAGCCTATACACATTTTCTCACCCCTTCG
* *
30511352 TTCAAATGAAAATATTCTTGAACCTTTATATGGCTACAACAATTTATCTTTTTCAATTGAAACAA
118 TTCAAATGAAAATATTCTTGAACCTTCATATGGCTACAACAATTTATCTTTTTCAACTGAAACAA
30511417 TGTTAATTCTTGTTCATCAAAGTCAATCAAACAACTTTATTTTATCACCAACCAATCATTGGCTC
183 TGTTAATTCTTGTTCATCAAAGTCAATCAAACAACTTTATTTTATCACCAACCAATCATTGGCTC
* * * *
30511482 CTATATCTATTCAAAGTGGAGAAGTTCATGCCTAACTATCTTGATAGTTAGGAGAGGGGTCTGCC
248 CTATATCTATTCAAAGTGGAGAAGTTCATGCCTAACTATCTTGATAGTCAAGAAAGGGGCCTGCC
30511547 TAATGGATG
313 TAATGGATG
30511556 TTA
1 TTA
30511559 AACCACACCT
Statistics
Matches: 303, Mismatches: 21, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
322 76 0.25
323 2 0.01
328 1 0.00
334 16 0.05
335 208 0.69
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.38
Consensus pattern (321 bp):
TTATTTTGTTATATCAAAACCTTTGAAAATCAAAATTAACAATCTTACATTATTTTAATATGACA
TTAGAGCCTTTTGTTCTCAATCCTAGCCTATACACATTTTCTCACCCCTTCGTTCAAATGAAAAT
ATTCTTGAACCTTCATATGGCTACAACAATTTATCTTTTTCAACTGAAACAATGTTAATTCTTGT
TCATCAAAGTCAATCAAACAACTTTATTTTATCACCAACCAATCATTGGCTCCTATATCTATTCA
AAGTGGAGAAGTTCATGCCTAACTATCTTGATAGTCAAGAAAGGGGCCTGCCTAATGGATG
Found at i:30512139 original size:20 final size:20
Alignment explanation
Indices: 30512094--30512144 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
30512084 ACGTAATTCA
*
30512094 AACAGAACAGAACCAAATCG
1 AACAGAACAGAAACAAATCG
* *
30512114 AGCAGAACA-AAACATAATGG
1 AACAGAACAGAAACA-AATCG
*
30512134 AACAGAGCAGA
1 AACAGAACAGA
30512145 GCAATGCTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 4 0.17
20 19 0.79
21 1 0.04
ACGTcount: A:0.55, C:0.20, G:0.20, T:0.06
Consensus pattern (20 bp):
AACAGAACAGAAACAAATCG
Found at i:30512598 original size:13 final size:13
Alignment explanation
Indices: 30512580--30512606 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30512570 TTTTTTAAAG
30512580 CAGACTTATCAAA
1 CAGACTTATCAAA
30512593 CAGACTTATCAAA
1 CAGACTTATCAAA
30512606 C
1 C
30512607 CTCAACAGAC
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:0.44, C:0.26, G:0.07, T:0.22
Consensus pattern (13 bp):
CAGACTTATCAAA
Found at i:30516398 original size:18 final size:18
Alignment explanation
Indices: 30516365--30516417 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
30516355 ATTCACCTAA
*
30516365 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
30516384 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
30516402 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
30516418 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:30516456 original size:21 final size:20
Alignment explanation
Indices: 30516432--30516507 Score: 57
Period size: 21 Copynumber: 3.8 Consensus size: 20
30516422 AAAAATTAAA
*
30516432 AAAATTTTAATAAATAAAAAT
1 AAAATTCTAA-AAATAAAAAT
* *
30516453 AAAATTCTAAAACTAAAACT
1 AAAATTCTAAAAATAAAAAT
* **
30516473 -AAA-TCTAAAACTAAAGTCT
1 AAAATTCTAAAAATAAA-AAT
*
30516492 AAAAGTCTAAAAATAA
1 AAAATTCTAAAAATAA
30516508 TTTAATTATG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
18 12 0.26
19 5 0.11
20 11 0.23
21 19 0.40
ACGTcount: A:0.62, C:0.09, G:0.03, T:0.26
Consensus pattern (20 bp):
AAAATTCTAAAAATAAAAAT
Found at i:30516494 original size:13 final size:12
Alignment explanation
Indices: 30516459--30516495 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
30516449 AAATAAAATT
*
30516459 CTAAAACTAAAA
1 CTAAATCTAAAA
30516471 CTAAATCTAAAA
1 CTAAATCTAAAA
30516483 CTAAAGTCTAAAA
1 CTAAA-TCTAAAA
30516496 GTCTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.59, C:0.16, G:0.03, T:0.22
Consensus pattern (12 bp):
CTAAATCTAAAA
Found at i:30516541 original size:9 final size:9
Alignment explanation
Indices: 30516527--30516602 Score: 73
Period size: 9 Copynumber: 8.4 Consensus size: 9
30516517 GTAGTGATTC
30516527 AATTCGGTT
1 AATTCGGTT
*
30516536 AATTCGGGT
1 AATTCGGTT
* *
30516545 AATTGGGGT
1 AATTCGGTT
**
30516554 AATTTAGTT
1 AATTCGGTT
30516563 AATTCAGG-T
1 AATTC-GGTT
*
30516572 AATTCAGTT
1 AATTCGGTT
*
30516581 AATTCAGTT
1 AATTCGGTT
30516590 AATTCGGTT
1 AATTCGGTT
30516599 AATT
1 AATT
30516603 TTTAACCAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
8 1 0.02
9 54 0.96
10 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:30516563 original size:27 final size:27
Alignment explanation
Indices: 30516527--30516602 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
30516517 GTAGTGATTC
* **
30516527 AATTCGGTTAATTCGGGTAATTGGGGT
1 AATTCAGTTAATTCGGGTAATTCAGGT
* * *
30516554 AATTTAGTTAATTCAGGTAATTCAGTT
1 AATTCAGTTAATTCGGGTAATTCAGGT
*
30516581 AATTCAGTTAATTCGGTTAATT
1 AATTCAGTTAATTCGGGTAATT
30516603 TTTAACCAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
AATTCAGTTAATTCGGGTAATTCAGGT
Found at i:30519125 original size:13 final size:13
Alignment explanation
Indices: 30519107--30519137 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
30519097 TGGAATCCAA
30519107 TTTATGCATTGAC
1 TTTATGCATTGAC
30519120 TTTATGCATTGAC
1 TTTATGCATTGAC
*
30519133 ATTAT
1 TTTAT
30519138 TGCACCATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (13 bp):
TTTATGCATTGAC
Found at i:30520687 original size:9 final size:9
Alignment explanation
Indices: 30520670--30520706 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
30520660 TGAGTTTTCG
30520670 AATTCGAAT
1 AATTCGAAT
*
30520679 AACTCGAAT
1 AATTCGAAT
30520688 AATTCGAAT
1 AATTCGAAT
30520697 AATTCGAAT
1 AATTCGAAT
30520706 A
1 A
30520707 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:30523469 original size:19 final size:21
Alignment explanation
Indices: 30523445--30523483 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
30523435 GGCTTACTGT
*
30523445 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
30523464 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
30523484 TTAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:30523705 original size:3 final size:3
Alignment explanation
Indices: 30523697--30523768 Score: 58
Period size: 3 Copynumber: 23.7 Consensus size: 3
30523687 ACTAATTAAT
* * * *
30523697 TTA TTA TTA TTA TTA TTA TTTA TTA ATC CTA TTA TTA TT- TGTA CTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA T-TA TTA
*
30523743 TTA TTG TTA TTA TTA TT- TTCA TTA TT
1 TTA TTA TTA TTA TTA TTA TT-A TTA TT
30523769 TCTTCTTATC
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 3 0.05
3 47 0.85
4 5 0.09
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:30527729 original size:14 final size:14
Alignment explanation
Indices: 30527710--30527738 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
30527700 GTGGTGTCCC
30527710 CTTTCTACCAGAAA
1 CTTTCTACCAGAAA
30527724 CTTTCTACCAGAAA
1 CTTTCTACCAGAAA
30527738 C
1 C
30527739 CAATGTTGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.31, G:0.07, T:0.28
Consensus pattern (14 bp):
CTTTCTACCAGAAA
Found at i:30530485 original size:45 final size:44
Alignment explanation
Indices: 30530391--30530612 Score: 261
Period size: 44 Copynumber: 5.0 Consensus size: 44
30530381 TAGCTGGTCC
* *
30530391 TGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAAGCAGATCT
1 TGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGAAGCAGATCT
30530434 TGTCTTCCTATATTGGTGGCGGAA-TAGATCGAAGAAAGCAGATCT
1 TGTCTTCCTATATTGGTGGC-GAAGTAGATCGAAG-AAGCAGATCT
* * **
30530479 TGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATTCAGATCT
1 TGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGAAGCAGATCT
* *
30530523 TGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCT
1 TGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG-AAGCAGATCT
* * * * * * *
30530568 TATCTTCATGTATTGG-CGTGAAGTAGATCGAAGATGTAGATCT
1 TGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGAAGCAGATCT
30530611 TG
1 TG
30530613 NNNNNNNNNN
Statistics
Matches: 152, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
43 27 0.18
44 65 0.43
45 60 0.39
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (44 bp):
TGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGAAGCAGATCT
Found at i:30530526 original size:89 final size:88
Alignment explanation
Indices: 30530391--30530612 Score: 306
Period size: 89 Copynumber: 2.5 Consensus size: 88
30530381 TAGCTGGTCC
** * *
30530391 TGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAAGCAGATCTTGTCTTCCTATATTGGTGGCGG
1 TGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATTCAGATCTTGTCTTCCCATACTGGTGGC-G
30530456 AA-TAGATCGAAGAAAGCAGATCT
65 AAGTAGATCGAAGAAAGCAGATCT
30530479 TGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATTCAGATCTTGTCTTCCCATACTGGTGGCG
1 TGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATTCAGATCTTGTCTTCCCATACTGGTGGCG
30530544 AAGTAGATCGAAGAAAGCAGATCT
65 AAGTAGATCGAAGAAAGCAGATCT
* * * * *
30530568 TATCTTCATGTATTGG-CGTGAAGTAGATCGAAGATGT-AGATCTTG
1 TGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-TCAGATCTTG
30530613 NNNNNNNNNN
Statistics
Matches: 121, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
88 46 0.38
89 75 0.62
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (88 bp):
TGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATTCAGATCTTGTCTTCCCATACTGGTGGCGA
AGTAGATCGAAGAAAGCAGATCT
Found at i:30531635 original size:88 final size:88
Alignment explanation
Indices: 30531318--30531621 Score: 518
Period size: 88 Copynumber: 3.5 Consensus size: 88
30531308 TAGATCGAAG
* * * *
30531318 ATAGTAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACATCAGCCTTGCCTCCTTT
1 ATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
30531383 GGTTGCAGCGGAGCAGGCTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
*
30531406 ATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTG
1 ATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
*
30531471 GGTTGCAGCGGAGCATGCTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
*
30531494 ATAGTGGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
* *
30531559 GGTTACAGCGGAGCAGGTTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
*
30531582 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
1 ATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
30531622 TGATGACCTC
Statistics
Matches: 203, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 203 1.00
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.20
Consensus pattern (88 bp):
ATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
GGTTGCAGCGGAGCAGGCTAAAA
Found at i:30531701 original size:44 final size:44
Alignment explanation
Indices: 30531635--30531840 Score: 222
Period size: 44 Copynumber: 4.7 Consensus size: 44
30531625 TGACCTCAGC
* *
30531635 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTATGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTATGAAT
*
30531679 CCTATCTCCCTGGTCAGCAGTGGAATAGGGTGAAGATTGA-GAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT-ATGAAT
* * * * *
30531723 GCTATCTCCCTGGGCAGTAGTGGAAT-GGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGG-TTGAAGATTATGA-AT
* * * *
30531767 CATATTTCCCTGGTCAGCAGTGGAATAGGTTGAAGATCATGAAC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTATGAAT
* *
30531811 CCTATCTCCCTGAGT-AGCACTGGAGTAGGT
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGT
30531841 GGAAAATAGC
Statistics
Matches: 133, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
43 3 0.02
44 124 0.93
45 6 0.05
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTATGAAT
Found at i:30532279 original size:23 final size:23
Alignment explanation
Indices: 30532249--30532306 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
30532239 AGATATGATA
30532249 TGTAATCTTAGAAGATGTGATTT
1 TGTAATCTTAGAAGATGTGATTT
30532272 TGTAATCTTAGAAGATGTGATTT
1 TGTAATCTTAGAAGATGTGATTT
30532295 TGTAATCTTAGA
1 TGTAATCTTAGA
30532307 GATTTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (23 bp):
TGTAATCTTAGAAGATGTGATTT
Found at i:30532502 original size:18 final size:21
Alignment explanation
Indices: 30532478--30532516 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
30532468 TGGCTTACTG
*
30532478 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
30532497 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
30532517 TTAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:30536194 original size:3 final size:3
Alignment explanation
Indices: 30536188--30536735 Score: 1096
Period size: 3 Copynumber: 182.7 Consensus size: 3
30536178 TTATTATTAT
30536188 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
30536236 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
30536284 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
30536332 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
30536380 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
30536428 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
30536476 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
30536524 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
30536572 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
30536620 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
30536668 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
30536716 TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TA
30536736 TTAAGATGTT
Statistics
Matches: 545, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 545 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TAG
Found at i:30539835 original size:27 final size:27
Alignment explanation
Indices: 30539797--30539873 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
30539787 TAGTATTGGC
30539797 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
30539824 GCCTACCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
30539851 GCC-ATTCTGAGAGGCGCCAATGG
1 GCCTA-TCTGGGAGGCGCCAATGG
30539874 GCGGGGCTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.17, C:0.25, G:0.39, T:0.19
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:30540105 original size:19 final size:19
Alignment explanation
Indices: 30540083--30540120 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
30540073 AATTTAATTT
*
30540083 ATTAGTAATAAATTACTAA
1 ATTACTAATAAATTACTAA
*
30540102 ATTACTAATAAGTTACTAA
1 ATTACTAATAAATTACTAA
30540121 TAAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTACTAATAAATTACTAA
Found at i:30540942 original size:10 final size:11
Alignment explanation
Indices: 30540914--30540948 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
30540904 CCGTATTTTT
30540914 TTAAAAAAATTA
1 TTAAAAAAA-TA
30540926 TTAAAAAAATA
1 TTAAAAAAATA
30540937 TT-AAAAAATA
1 TTAAAAAAATA
30540947 TT
1 TT
30540949 TTATTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.43
11 4 0.17
12 9 0.39
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TTAAAAAAATA
Found at i:30544368 original size:23 final size:23
Alignment explanation
Indices: 30544338--30544385 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
30544328 AAGATGGATG
30544338 TTAAGTTTCTTGTATGCGTTTAT
1 TTAAGTTTCTTGTATGCGTTTAT
*
30544361 TTAAGTTTTTTGTATGCGTTTAT
1 TTAAGTTTCTTGTATGCGTTTAT
30544384 TT
1 TT
30544386 CGATGGAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.06, G:0.17, T:0.60
Consensus pattern (23 bp):
TTAAGTTTCTTGTATGCGTTTAT
Found at i:30547134 original size:11 final size:11
Alignment explanation
Indices: 30547118--30547144 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
30547108 GCTTAAGCTT
30547118 AAATTGTATCC
1 AAATTGTATCC
30547129 AAATTGTATCC
1 AAATTGTATCC
30547140 AAATT
1 AAATT
30547145 AAGTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (11 bp):
AAATTGTATCC
Found at i:30549609 original size:13 final size:13
Alignment explanation
Indices: 30549588--30549625 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
30549578 TTCAGTAAAA
30549588 ATATATTATTTTT
1 ATATATTATTTTT
*
30549601 ATATTTTATTATTT
1 ATATATTATT-TTT
30549615 -TATATTATTTT
1 ATATATTATTTT
30549626 AGTGTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 2 0.09
13 17 0.77
14 3 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
ATATATTATTTTT
Found at i:30549617 original size:15 final size:16
Alignment explanation
Indices: 30549591--30549626 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
30549581 AGTAAAAATA
30549591 TATTATTTTTATATTT
1 TATTATTTTTATATTT
30549607 TATTATTTTATATTATTT
1 TATTATTTT-TA-TATTT
30549625 TA
1 TA
30549627 GTGTATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTATTTTTATATTT
Found at i:30549774 original size:159 final size:154
Alignment explanation
Indices: 30549353--30549828 Score: 454
Period size: 159 Copynumber: 3.0 Consensus size: 154
30549343 TGCAAGTTGA
30549353 AAAAAAAGTTAGTAAAAACCTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGTATTTTATT
1 AAAAAAAGTTAGTAAAAA-CTCTTACTTCGGCCATTTGTTCGTATTTTTTT-TCCG-ATTTTATT
30549418 ACTTTAAAAAATATCGTAATTTCTAATTTTATCATTTTACATTATTTCAGTGCATAATGTTTGAA
63 ACTTTAAAAAATATCGTAATTTCTAATTTTATCATTTTACATTATTTCAGTGCATAATGTTTGAA
*
30549483 A---TTTATTAATTTAGTGTGTTTTTT
128 ATTTTTTATTAATTTAGTGTCTTTTTT
** * * * * * *
30549507 AAATTAATTTGGTGTAAGAAAAAAAC-CTTA-TCCCTGCC-TTTGCTCGTATTATTTTCCCGATT
1 AAA--AA--AAGT-T-AG-TAAAAACTCTTACT-TCGGCCATTTGTTCGTATTTTTTTTCCGA-T
* * * * * * *
30549569 TTTATTACTTTCAGTAAAAATAT-ATTATTTTTATATTTTATTATTTTATATTATTTTAGTGTAT
57 TTTATTACTTT-A--AAAAATATCGTAATTTCTA-ATTTTATCATTTTACATTATTTCAGTGCAT
** *
30549633 TTTGTTTGAAATTTTTGTATTAA-TTA-TTTCTAAATTTTT
118 AATGTTTGAAATTTTT-TATTAATTTAGTGTCT---TTTTT
* * *
30549672 AAAAAAAGTTAGTAATACACTCTTACTTCGGCCATTTGTTCGTATTTTTTTATCTGCATTATATT
1 AAAAAAAGTTAGTAA-AAACTCTTACTTCGGCCATTTGTTCGTATTTTTTT-TCCG-ATTTTATT
30549737 ACTTTAAAAAATATCGTAATTTCTAATTTTATCATTTTACATTATTTCAGTGCATAATGTTTGAA
63 ACTTTAAAAAATATCGTAATTTCTAATTTTATCATTTTACATTATTTCAGTGCATAATGTTTGAA
*
30549802 A---TTTATTAATTTAGTGTGTTTTTT
128 ATTTTTTATTAATTTAGTGTCTTTTTT
30549826 AAA
1 AAA
30549829 TTAATTTGGT
Statistics
Matches: 252, Mismatches: 41, Indels: 58
0.72 0.12 0.17
Matches are distributed among these distances:
154 11 0.04
155 6 0.02
156 8 0.03
157 18 0.07
158 21 0.08
159 64 0.25
160 62 0.25
161 24 0.10
162 16 0.06
163 8 0.03
164 6 0.02
165 8 0.03
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (154 bp):
AAAAAAAGTTAGTAAAAACTCTTACTTCGGCCATTTGTTCGTATTTTTTTTCCGATTTTATTACT
TTAAAAAATATCGTAATTTCTAATTTTATCATTTTACATTATTTCAGTGCATAATGTTTGAAATT
TTTTATTAATTTAGTGTCTTTTTT
Found at i:30550538 original size:158 final size:157
Alignment explanation
Indices: 30550049--30550568 Score: 551
Period size: 158 Copynumber: 3.3 Consensus size: 157
30550039 NNNNNNNNGT
*
30550049 ATTTTATTATTTTATATTATTTCAGTGCATTTTGTTTGAAATTTTTGTATTAATTATTTCTGAAT
1 ATTTTATTATTTTACATTATTTCAGTGCATTTTGTTTGAAA-TTTTGTATTAATTATTTCTGAAT
* * *
30550114 TTTTAAAAAATTTAGTAATACACTCTTACTTCGACCATTTGTTCGTATTTTTTTATCCGCATTAT
65 TTTTAAAAAATTTAGTAATACACTCTTACTTCGGCCATTTGTTCGTAATTTTTTATTCGCATTAT
30550179 ATTATTTTAAAAAATATCGTAATTTCTA
130 ATTATTTTAAAAAATATCGTAATTTCTA
* ** * * *
30550207 ATTTTATCATTTTACATTATTTCAGTGCATAATGTTTGAAA--TT-TATTAATT-TAGTGTG-TT
1 ATTTTATTATTTTACATTATTTCAGTGCATTTTGTTTGAAATTTTGTATTAATTAT-TTCTGAAT
* * * * * * *
30550267 TTTTAAATTAATTTGGTGTAAGAAAAAAAC-CTTA-TTCCTGCC-TTTGCTCGT-ATTATTT-TT
65 TTTTAAA--AA-AT--T-T-AGTAATACACTCTTACTT-CGGCCATTTGTTCGTAATTTTTTATT
* * ** *
30550327 C-CGATTTTTATTACTTTCAATAAAAATATATTATTTTCGT-
122 CGC-A-TTATATTA-TTT-TA-AAAAATATCGTAATTTC-TA
* *
30550367 ATTTTATTATTTTATATTATTTCAGTGCATTTTGTTGGAAACTTTTGTATTAATTATTTCTGAAT
1 ATTTTATTATTTTACATTATTTCAGTGCATTTTGTTTGAAA-TTTTGTATTAATTATTTCTGAAT
30550432 TTTTAAAAAATTTAGTAATACACTCTTACTTCGGCCATTTGTTCGTAATTTTTTATTCGCATTAT
65 TTTTAAAAAATTTAGTAATACACTCTTACTTCGGCCATTTGTTCGTAATTTTTTATTCGCATTAT
*
30550497 ATTATTTTAAAAAATTTCGTAATTTCTA
130 ATTATTTTAAAAAATATCGTAATTTCTA
** *
30550525 ATTTTATTATTTTACATTATTTCAGTGCATAATATTTGAAATTT
1 ATTTTATTATTTTACATTATTTCAGTGCATTTTGTTTGAAATTT
30550569 GTTAAATATA
Statistics
Matches: 286, Mismatches: 48, Indels: 57
0.73 0.12 0.15
Matches are distributed among these distances:
153 9 0.03
154 11 0.04
155 5 0.02
156 4 0.01
157 16 0.06
158 107 0.37
159 19 0.07
160 71 0.25
161 14 0.05
162 5 0.02
163 5 0.02
164 11 0.04
165 9 0.03
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.52
Consensus pattern (157 bp):
ATTTTATTATTTTACATTATTTCAGTGCATTTTGTTTGAAATTTTGTATTAATTATTTCTGAATT
TTTAAAAAATTTAGTAATACACTCTTACTTCGGCCATTTGTTCGTAATTTTTTATTCGCATTATA
TTATTTTAAAAAATATCGTAATTTCTA
Found at i:30550915 original size:5 final size:5
Alignment explanation
Indices: 30550901--30551087 Score: 56
Period size: 5 Copynumber: 38.8 Consensus size: 5
30550891 TAAAAATTAC
* * * ** *
30550901 CTTTT TTTTT CTTTT -TTTT CATTC CTTCC CTCTT CTTCTT C-TTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTT-TT CTTTT CTTTT
* * * * *
30550950 -TTTCT CTTCT CTTCTC CTTTC CTTTT CTTTC CTTCT -TTTT C-TTT CTTTT
1 CTTT-T CTTTT CTT-TT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
* * * * * * * * *
30550999 -TCTT CTTCT CCTTT C-CTT CTTTT -TCTTT CTTTC CTCTC CTTTC CTTTC
1 CTTTT CTTTT CTTTT CTTTT CTTTT CT-TTT CTTTT CTTTT CTTTT CTTTT
*
30551047 CTTTT CTTTC CTTTT C-TTT C-TTT C-TTT C-TTT CTTCTT CTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTT-TT CTTT
30551088 CCCTCTCATT
Statistics
Matches: 137, Mismatches: 31, Indels: 28
0.70 0.16 0.14
Matches are distributed among these distances:
4 40 0.29
5 83 0.61
6 14 0.10
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (5 bp):
CTTTT
Found at i:30550946 original size:10 final size:10
Alignment explanation
Indices: 30550933--30551088 Score: 75
Period size: 10 Copynumber: 15.3 Consensus size: 10
30550923 TCCTTCCCTC
30550933 TTCTTCTTCT
1 TTCTTCTTCT
30550943 TTCTT-TT-T
1 TTCTTCTTCT
30550951 TTC-TCTTC-
1 TTCTTCTTCT
*
30550959 -TCTTCTCCT
1 TTCTTCTTCT
30550968 TTCCTT-TTCT
1 TT-CTTCTTCT
30550978 TTCCTTCTT-T
1 TT-CTTCTTCT
30550988 TTCTTTCTT-T
1 TTC-TTCTTCT
30550998 TTCTTCTTCT
1 TTCTTCTTCT
*
30551008 CCTT-TCCTTCT
1 --TTCTTCTTCT
30551019 TT-TTCTTTCT
1 TTCTTC-TTCT
30551029 TTCCTCTCCTTTCCT
1 TT-CT-T-C-TT-CT
30551044 TTCCTT-TTCT
1 TT-CTTCTTCT
30551054 TTCCTT-TTCT
1 TT-CTTCTTCT
30551064 TTCTTTCTTTCT
1 TTC-TTC-TTCT
30551076 TTCTTCTTCT
1 TTCTTCTTCT
30551086 TTC
1 TTC
30551089 CCTCTCATTC
Statistics
Matches: 122, Mismatches: 4, Indels: 40
0.73 0.02 0.24
Matches are distributed among these distances:
7 3 0.02
8 10 0.08
9 13 0.11
10 57 0.47
11 16 0.13
12 10 0.08
13 1 0.01
14 5 0.04
15 7 0.06
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
TTCTTCTTCT
Found at i:30550985 original size:43 final size:43
Alignment explanation
Indices: 30550904--30551088 Score: 129
Period size: 43 Copynumber: 4.3 Consensus size: 43
30550894 AAATTACCTT
* * *
30550904 TTTTTTTCTTT-TTTTTCATTCCTTCCCTCTTC-TT-CTTCTTTC
1 TTTTTTTCTTTCTTCTTC--TCCTTTCCTTTTCTTTCCTTCTTTC
30550946 TTTTTTTCTCTTC-TCTTCTCCTTTCCTTTTCTTTCCTTCTTT-
1 TTTTTTTCT-TTCTTCTTCTCCTTTCCTTTTCTTTCCTTCTTTC
*
30550988 TTCTTTCTT-TTTCTTCTTCTCCTTTCCTTCTT-TTTCTTTCTTTCC
1 TT-TTT-TTCTTTCTTCTTCTCCTTTCCTT-TTCTTTCCTTCTTT-C
* * * *
30551033 TCTCCTTTCCTTTC--CTT-TTCTTTCCTTTTCTTTCTTTCTTTC
1 T-T-TTTTTCTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCTTTC
30551075 TTTCTTCTTCTTTC
1 TTT-TT-TTCTTTC
30551089 CCTCTCATTC
Statistics
Matches: 119, Mismatches: 9, Indels: 30
0.75 0.06 0.19
Matches are distributed among these distances:
41 14 0.12
42 26 0.22
43 62 0.52
44 7 0.06
45 2 0.02
46 8 0.07
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.69
Consensus pattern (43 bp):
TTTTTTTCTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCTTTC
Found at i:30551015 original size:33 final size:32
Alignment explanation
Indices: 30550976--30551088 Score: 121
Period size: 33 Copynumber: 3.6 Consensus size: 32
30550966 CTTTCCTTTT
30550976 CTTTCCTTCTTTTTCTTTCTTTTTCTTCTTCTC
1 CTTTCCTTCTTTTTCTTTC-TTTTCTTCTTCTC
30551009 CTTTCCTTCTTTTTCTTTC-TTTC--C-TCTC
1 CTTTCCTTCTTTTTCTTTCTTTTCTTCTTCTC
*
30551037 CTTTCCTTTCCTTTTCTTTCCTTTTCTTTCTT-T-
1 CTTTCC-TTCTTTTTCTTT-CTTTTC-TTCTTCTC
* *
30551070 CTTTCTTTCTTCTTCTTTC
1 CTTTCCTTCTTTTTCTTTC
30551089 CCTCTCATTC
Statistics
Matches: 69, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
28 10 0.14
29 12 0.17
30 1 0.01
31 9 0.13
32 10 0.14
33 24 0.35
34 2 0.03
35 1 0.01
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (32 bp):
CTTTCCTTCTTTTTCTTTCTTTTCTTCTTCTC
Found at i:30552178 original size:99 final size:100
Alignment explanation
Indices: 30552007--30552208 Score: 388
Period size: 99 Copynumber: 2.0 Consensus size: 100
30551997 TGAATAAAAC
30552007 TCTAAGCATCTTAATTATCACTTAATTAATATTAGAGTTATATACCAATTAAAATTTAATGTTAG
1 TCTAAGCATCTTAATTATCACTTAATTAATATTAGAGTTATATACCAATTAAAATTTAATGTTAG
30552072 CTTTATAAATAGCATTCAATAATT-ACATATTCAA
66 CTTTATAAATAGCATTCAATAATTAACATATTCAA
30552106 TCTAAGCATCTTAATTATCACTTAATTAATATTAGAGTTATATACCAATTAAAATTTAATGTTAG
1 TCTAAGCATCTTAATTATCACTTAATTAATATTAGAGTTATATACCAATTAAAATTTAATGTTAG
30552171 CTTTATAAATAGCATTCAATAATTAGACATATTCAA
66 CTTTATAAATAGCATTCAATAATTA-ACATATTCAA
30552207 TC
1 TC
30552209 AAATAGTATC
Statistics
Matches: 101, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
99 89 0.88
101 12 0.12
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.40
Consensus pattern (100 bp):
TCTAAGCATCTTAATTATCACTTAATTAATATTAGAGTTATATACCAATTAAAATTTAATGTTAG
CTTTATAAATAGCATTCAATAATTAACATATTCAA
Found at i:30553135 original size:11 final size:11
Alignment explanation
Indices: 30553121--30553187 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
30553111 TTTTTTTAAA
30553121 TTTTAAAATAT
1 TTTTAAAATAT
30553132 TTTTAAAATACT
1 TTTTAAAATA-T
**
30553144 TTTTTTAAT-T
1 TTTTAAAATAT
*
30553154 TTTT----TAA
1 TTTTAAAATAT
30553161 TTTTAAAATAT
1 TTTTAAAATAT
30553172 TTTTAAAATACT
1 TTTTAAAATA-T
30553184 TTTT
1 TTTT
30553188 TTAATNNNNN
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
6 1 0.02
7 4 0.09
10 5 0.11
11 22 0.49
12 13 0.29
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:30553189 original size:40 final size:40
Alignment explanation
Indices: 30553071--30553192 Score: 210
Period size: 40 Copynumber: 3.0 Consensus size: 40
30553061 AAATATATTT
* *
30553071 ATTTTTTTAATTTTAAAATATTTTTTACATAC-TTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
30553110 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTT-AATTTTAAAATATTTTTAAAATACTTTTTTTA
30553151 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
30553191 AT
1 AT
30553193 NNNNNNNNNN
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
39 8 0.10
40 56 0.71
41 15 0.19
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:30555767 original size:14 final size:14
Alignment explanation
Indices: 30555748--30555777 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30555738 AATAAGATTA
30555748 AATTAATTAAACTT
1 AATTAATTAAACTT
*
30555762 AATTAATTAAAGTT
1 AATTAATTAAACTT
30555776 AA
1 AA
30555778 ACTAAGTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (14 bp):
AATTAATTAAACTT
Found at i:30559088 original size:14 final size:12
Alignment explanation
Indices: 30559069--30559102 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 12
30559059 GAGAAAACTG
30559069 AAGAAAAATAGAGA
1 AAGAAAAATA-A-A
30559083 AAGAAAAATAAA
1 AAGAAAAATAAA
30559095 AAGAAAAA
1 AAGAAAAA
30559103 GTGAAAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.45
13 1 0.05
14 10 0.50
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (12 bp):
AAGAAAAATAAA
Found at i:30559170 original size:17 final size:17
Alignment explanation
Indices: 30559148--30559189 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
30559138 AATTCTTTAG
30559148 TAAAATAATAATAAAAT-
1 TAAAATAA-AATAAAATA
30559165 TAAAATTAAAATAAAATA
1 TAAAA-TAAAATAAAATA
30559183 TAAAATA
1 TAAAATA
30559190 TAAGAAACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATAAAATAAAATA
Found at i:30559189 original size:12 final size:12
Alignment explanation
Indices: 30559148--30559189 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
30559138 AATTCTTTAG
30559148 TAAAATAATAATA
1 TAAAATAA-AATA
*
30559161 -AAATTAAAAT-
1 TAAAATAAAATA
30559171 TAAAATAAAATA
1 TAAAATAAAATA
30559183 TAAAATA
1 TAAAATA
30559190 TAAGAAACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 12 0.48
12 13 0.52
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
TAAAATAAAATA
Found at i:30561160 original size:70 final size:70
Alignment explanation
Indices: 30561045--30561194 Score: 196
Period size: 70 Copynumber: 2.1 Consensus size: 70
30561035 AACACACCAT
* * * *
30561045 TTTCATTAAATGGTATTGACTCAAAATGAATCGTTTTGAATACGACTCAGA-CCTTAGCTACGAC
1 TTTCATTAAACGGTATTGACTCAAAATCAATCATTTTGAACACGACTCAGATCC-TAGCTACGAC
*
30561109 GCATTG
65 GCACTG
* **
30561115 TTTCATTAAACGGTATTGACTCAAAA-CAAGTCATTTTGAACACGACTTAGATCCTAGCTGTGAC
1 TTTCATTAAACGGTATTGACTCAAAATCAA-TCATTTTGAACACGACTCAGATCCTAGCTACGAC
30561179 GCACTG
65 GCACTG
30561185 TTTCATTAAA
1 TTTCATTAAA
30561195 GTTTCTAACA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
69 2 0.03
70 66 0.94
71 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (70 bp):
TTTCATTAAACGGTATTGACTCAAAATCAATCATTTTGAACACGACTCAGATCCTAGCTACGACG
CACTG
Found at i:30563176 original size:5 final size:5
Alignment explanation
Indices: 30563168--30563193 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30563158 AAAAAAAAAA
30563168 CGCCT CGCCT CGCCT CGCCT CGCCT C
1 CGCCT CGCCT CGCCT CGCCT CGCCT C
30563194 CATCTCTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.62, G:0.19, T:0.19
Consensus pattern (5 bp):
CGCCT
Found at i:30567403 original size:229 final size:230
Alignment explanation
Indices: 30567002--30567461 Score: 913
Period size: 229 Copynumber: 2.0 Consensus size: 230
30566992 TTTTGTTGAT
30567002 TCACTAAATATTAGATTTTGTTTCTTTAATATTTTTTAGTCTCAATTTTTATAAAATTATGGTAA
1 TCACTAAATATTAGATTTTGTTTCTTTAATATTTTTTAGTCTCAATTTTTATAAAATTATGGTAA
30567067 ATTATTACAATTCTTACTTTCTATTACAATTTATATATTAATAAGTAATTATATTGTGTTGAAAT
66 ATTATTACAATTCTTACTTTCTATTACAATTTATATATTAATAAGTAATTATATTGTGTTGAAAT
30567132 GAATTGATAAATCATAATTATAATAATTCATGAAGAAGTAGTTGCAACACCAACCATAATTATAT
131 GAATTGATAAATCATAATTATAATAATTCATGAAGAAGTAGTTGCAACACCAACCATAATTATAT
30567197 TTATAACTATAATTAATATATTAAT-AATAGATTA
196 TTATAACTATAATTAATATATTAATAAATAGATTA
30567231 TCACTAAATATTAGATTTTGTTTCTTTAATATTTTTTAGTCTCAATTTTTATAAAATTATGGTAA
1 TCACTAAATATTAGATTTTGTTTCTTTAATATTTTTTAGTCTCAATTTTTATAAAATTATGGTAA
30567296 ATTATTACAATTCTTACTTTCTATTACAATTTATATATTAATAAGTAATTATATTGTGTTGAAAT
66 ATTATTACAATTCTTACTTTCTATTACAATTTATATATTAATAAGTAATTATATTGTGTTGAAAT
30567361 GAATTGATAAATCATAATTATAATAATTCATGAAGAAGTAGTTGCAACACCAACCATAATTATAT
131 GAATTGATAAATCATAATTATAATAATTCATGAAGAAGTAGTTGCAACACCAACCATAATTATAT
30567426 TTATAACTATAATTAATATATTAATAAATAGATTA
196 TTATAACTATAATTAATATATTAATAAATAGATTA
30567461 T
1 T
30567462 TAAATAAAAT
Statistics
Matches: 230, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
229 220 0.96
230 10 0.04
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.44
Consensus pattern (230 bp):
TCACTAAATATTAGATTTTGTTTCTTTAATATTTTTTAGTCTCAATTTTTATAAAATTATGGTAA
ATTATTACAATTCTTACTTTCTATTACAATTTATATATTAATAAGTAATTATATTGTGTTGAAAT
GAATTGATAAATCATAATTATAATAATTCATGAAGAAGTAGTTGCAACACCAACCATAATTATAT
TTATAACTATAATTAATATATTAATAAATAGATTA
Found at i:30574183 original size:2 final size:2
Alignment explanation
Indices: 30574178--30574202 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30574168 AAAGGGGGGA
30574178 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
30574203 GTGAAGGAAT
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:30577740 original size:22 final size:22
Alignment explanation
Indices: 30577698--30577741 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30577688 TACACTAAAA
* *
30577698 TAGGTCTTTAGCGGCATTTTTT
1 TAGGCCTTTAGCGGCACTTTTT
*
30577720 TAGGCCTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCACTTTTT
30577742 AACGCCGCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.45
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCACTTTTT
Found at i:30577877 original size:40 final size:41
Alignment explanation
Indices: 30577791--30577912 Score: 185
Period size: 39 Copynumber: 3.0 Consensus size: 41
30577781 ATTTGCAGCG
* *
30577791 TTTTTCTCTAAGCGCCTCTAAAGAACATGGTCTTTAGCGGC
1 TTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGC
*
30577832 GTTTTTTTCTAAGCGTCGCTAAAG-A-ATGGTCTTTAGCGGC
1 -TTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGC
*
30577872 TTTTTTTCTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGC
1 TTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGC
30577913 GCTTTTATAC
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
39 22 0.30
40 16 0.22
41 15 0.21
42 20 0.27
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (41 bp):
TTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGC
Found at i:30577891 original size:39 final size:42
Alignment explanation
Indices: 30577788--30577918 Score: 196
Period size: 42 Copynumber: 3.2 Consensus size: 42
30577778 AACATTTGCA
* *
30577788 GCGTTTTTCTCTAAGCGCCTCTAAAGAACATGGTCTTTAGCG
1 GCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCG
*
30577830 GCGTTTTTTTCTAAGCGTCGCTAAAG-A-ATGGTCTTTAGCG
1 GCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCG
*
30577870 GC-TTTTTTTCTAAGCGCCGCTAAAGAACATGTTCTTTAGCG
1 GCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCG
*
30577911 GCGCTTTT
1 GCGTTTTT
30577919 ATACAAAAAC
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
39 22 0.28
40 16 0.20
41 15 0.19
42 27 0.34
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (42 bp):
GCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCG
Found at i:30578260 original size:21 final size:21
Alignment explanation
Indices: 30578234--30578278 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
30578224 TTTGCTCTGT
*
30578234 TCTGCTTCTCTCGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCC
*
30578255 TCTGCTTCCCTCGCTGCCGCC
1 TCTGCTTCCCTCGCTGCAGCC
30578276 TCT
1 TCT
30578279 ACTTTAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.47, G:0.18, T:0.33
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCAGCC
Found at i:30581605 original size:7 final size:7
Alignment explanation
Indices: 30581593--30581638 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
30581583 AACCCAATCT
30581593 CTAACCC
1 CTAACCC
30581600 CTAACCC
1 CTAACCC
*
30581607 TTAACCC
1 CTAACCC
* *
30581614 CTGACCT
1 CTAACCC
30581621 CTAACCC
1 CTAACCC
*
30581628 TTAACCC
1 CTAACCC
30581635 CTAA
1 CTAA
30581639 ACCTTATTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.28, C:0.48, G:0.02, T:0.22
Consensus pattern (7 bp):
CTAACCC
Found at i:30581735 original size:7 final size:7
Alignment explanation
Indices: 30581712--30581802 Score: 89
Period size: 7 Copynumber: 13.3 Consensus size: 7
30581702 TAAATTTATA
*
30581712 AACCCTA
1 AACCCTT
30581719 AATCCC-T
1 AA-CCCTT
30581726 AACCCTT
1 AACCCTT
30581733 AACCCTT
1 AACCCTT
*
30581740 AACCCCT
1 AACCCTT
30581747 AA-CC-T
1 AACCCTT
*
30581752 AACCCCT
1 AACCCTT
30581759 AACCCTT
1 AACCCTT
*
30581766 AACCCCT
1 AACCCTT
*
30581773 AACCCCT
1 AACCCTT
30581780 AACCCTT
1 AACCCTT
*
30581787 AACCCAT
1 AACCCTT
*
30581794 AAACCTT
1 AACCCTT
30581801 AA
1 AA
30581803 ATCACATTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
5 3 0.04
6 7 0.10
7 59 0.82
8 3 0.04
ACGTcount: A:0.34, C:0.45, G:0.00, T:0.21
Consensus pattern (7 bp):
AACCCTT
Found at i:30581736 original size:21 final size:21
Alignment explanation
Indices: 30581712--30581833 Score: 60
Period size: 21 Copynumber: 5.8 Consensus size: 21
30581702 TAAATTTATA
30581712 AACCCTAAATCCCTAACCCTT
1 AACCCTAAATCCCTAACCCTT
* *
30581733 AACCCTTAACCCCTAA-CC-T
1 AACCCTAAATCCCTAACCCTT
*
30581752 AACCCCT-AA-CCCTTAACCCCT
1 AA-CCCTAAATCCC-TAACCCTT
*
30581773 AACCCCT-AA-CCCTTAACCCATA
1 AA-CCCTAAATCCC-TAACCC-TT
* *
30581795 AACCTTAAATCACATTAACCCTT
1 AACCCTAAATC-C-CTAACCCTT
*
30581818 AAACC-AGAATCCCTAA
1 AACCCTA-AATCCCTAA
30581834 TCCATAATCT
Statistics
Matches: 81, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
18 3 0.04
19 8 0.10
20 8 0.10
21 40 0.49
22 6 0.07
23 9 0.11
24 7 0.09
ACGTcount: A:0.36, C:0.42, G:0.01, T:0.21
Consensus pattern (21 bp):
AACCCTAAATCCCTAACCCTT
Found at i:30581847 original size:14 final size:15
Alignment explanation
Indices: 30581825--30581858 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
30581815 CTTAAACCAG
*
30581825 AATCCCTAA-TCCAT
1 AATCTCTAATTCCAT
30581839 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
30581854 AATCT
1 AATCT
30581859 ATAAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:30581986 original size:17 final size:18
Alignment explanation
Indices: 30581964--30582000 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
30581954 ATAATTAAAT
*
30581964 TAAATA-TTTAAAATTAA
1 TAAATATTTTAAAATCAA
30581981 TAAATATTTTAAAATCAA
1 TAAATATTTTAAAATCAA
30581999 TA
1 TA
30582001 CTATCTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATATTTTAAAATCAA
Found at i:30582330 original size:114 final size:114
Alignment explanation
Indices: 30582109--30582658 Score: 768
Period size: 114 Copynumber: 4.8 Consensus size: 114
30582099 ATTTTAAATC
* * *
30582109 CCTGAGTATTAGTGGCGCTT-CATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTCGAAAGCTCAGAAAACGGCGTC
30582173 GTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
66 GTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * ** *
30582222 CTTGAGCATTAGCAGCGCTTACATAAAAACGCCACTAAATCCTTC-TCAGCTCAAAAAACGGCGT
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCC-TCGAAAGCTCAGAAAACGGCGT
* *
30582286 CGTTGGGCTGAAGTATTCTTGCGGCGCTTTCCCAAAAACACCGCTAAAGA
65 CGTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * * **
30582336 CCTGAGCTTTAGCGGCGCCTACATAAAAATGCCACTAAATCCTTC-TCAGCTCAGAAAACGGCGT
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCC-TCGAAAGCTCAGAAAACGGCGT
* * * * *
30582400 CGTTGGGCTGAAGTATTGTTGTGGTGCTTTCCCATAAACGCCGCTAAAGC
65 CGTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * *
30582450 CCTGAGTATTAGCGGCGCTTTA-ATAAAAATGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGT
1 CCTGAGCATTAGCGGCGC-TTACATAAAAACGCCACTAAATCCTCGAAAGCTCAGAAAACGGCGT
* * * *
30582514 CGTTGGGCTGAAGAACTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAGGA
65 CGTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
*
30582564 CCTGAGCATTAGCGGCGCTTTCATAAAAACGCCACTAAATCCTCGAAAGC-CAAGAAAACGGCGT
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTCGAAAGCTC-AGAAAACGGCGT
*
30582628 CGTTGGGCTGAAGTGTTTTTGCGGCGCTTTC
65 CGTTGGGCTGAAGTATTTTTGCGGCGCTTTC
30582659 TGAAATTGAA
Statistics
Matches: 387, Mismatches: 44, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
113 20 0.05
114 364 0.94
115 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (114 bp):
CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTCGAAAGCTCAGAAAACGGCGTC
GTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
Found at i:30586170 original size:33 final size:30
Alignment explanation
Indices: 30586133--30586201 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 30
30586123 AATAAATACC
*
30586133 AAAAATTTATTTTAAAAATTAAAACAAAAATTA
1 AAAAATGTATTTTAAAAATT-AAA-AAAAA-TA
* *
30586166 AAAAAAGTATTTTTAAAATTAAAAAAAATA
1 AAAAATGTATTTTAAAAATTAAAAAAAATA
30586196 AAAAAT
1 AAAAAT
30586202 AAAAATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 7 0.22
31 5 0.16
32 3 0.09
33 17 0.53
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (30 bp):
AAAAATGTATTTTAAAAATTAAAAAAAATA
Found at i:30586211 original size:34 final size:33
Alignment explanation
Indices: 30586140--30586211 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
30586130 ACCAAAAATT
** *
30586140 TATTTTAAAAATTAAAACAAAAATTAAAAAAAG
1 TATTTTAAAAATTAAAACAAAAAAAAAAAAAAA
*
30586173 TATTTTTAAAATTAAAA-AAAATAAAAAATAAAAA
1 TATTTTAAAAATTAAAACAAAA-AAAAAA-AAAAA
30586207 TATTT
1 TATTT
30586212 ATTATATTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 4 0.12
33 20 0.61
34 9 0.27
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (33 bp):
TATTTTAAAAATTAAAACAAAAAAAAAAAAAAA
Found at i:30589149 original size:2 final size:2
Alignment explanation
Indices: 30589142--30589244 Score: 199
Period size: 2 Copynumber: 52.0 Consensus size: 2
30589132 ACCTTATCAT
30589142 TC TC TC TC TC TC TC TC TC -C TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
30589183 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
30589225 TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC
30589245 CAGTTTTACT
Statistics
Matches: 100, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 99 0.99
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:30592370 original size:15 final size:15
Alignment explanation
Indices: 30592345--30592379 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
30592335 GACTCTATTT
*
30592345 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
30592359 TAATTAATATTAAGA
1 TAATTAATATTAAGA
30592374 TAATTA
1 TAATTA
30592380 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:30596526 original size:314 final size:313
Alignment explanation
Indices: 30595907--30596538 Score: 1201
Period size: 314 Copynumber: 2.0 Consensus size: 313
30595897 TCTACACTAC
30595907 TAAAGAAATAATCAATAGATTACAAAAGATAAACTAGTTGTTGTTGTTAAAGTTGGTCTTATTAG
1 TAAAGAAATAATCAATAGATTACAAAAGATAAACTAGTTGTTGTTGTTAAAGTTGGTCTTATTAG
30595972 CGTTGGGGTTAATATTTTCTCCCATCACCAACACCACCTAGTTAAAGCACTGTTGAAGTCTAATT
66 CGTTGGGGTTAATATTTTCTCCCATCACCAACACCACCTAGTTAAAGCACTGTTGAAGTCTAATT
*
30596037 TTTGATTGCCGATGTAATGATTAAACTTACCCTACAACTTTAAAAATCCAACTAAAATGTGTAAT
131 TTTGATTGACGATGTAATGATTAAACTTACCCTACAACTTTAAAAATCCAACTAAAATGTGTAAT
30596102 CATGCAGTCTATCATCTCGTCCTTTATCACCATTTCTTTCGTTCCTCTTGGTCAACTTCTTAAAG
196 CATGCAGTCTATCATCTCGTCCTTTATCACCATTTCTTTCGTTCCTCTTGGTCAACTTCTTAAAG
30596167 GCCATTTGTTCTTACAAATCTTTTATTGCAAATGCACCATTAGTTGCAACTTG
261 GCCATTTGTTCTTACAAATCTTTTATTGCAAATGCACCATTAGTTGCAACTTG
30596220 TAAAGAAATAATCAATAGATTACAAAAGATAAACTAGTTGTTGTTGTTAAAGTTGGTCTTATTAG
1 TAAAGAAATAATCAATAGATTACAAAAGATAAACTAGTTGTTGTTGTTAAAGTTGGTCTTATTAG
* *
30596285 CGTTGGGGTTAATCTTTTCTCCCATCACCAGCACCACCTAGTTAAAGCACTGTTGAAGTCTAATT
66 CGTTGGGGTTAATATTTTCTCCCATCACCAACACCACCTAGTTAAAGCACTGTTGAAGTCTAATT
*
30596350 TTTGATTGACGATGTAATGATTAAAACTTACCCTACAACTTTAAAAATTCAACTAAAATGTGTAA
131 TTTGATTGACGATGTAATGATT-AAACTTACCCTACAACTTTAAAAATCCAACTAAAATGTGTAA
*
30596415 TTATGCAGTCTATCATCTCGTCCTTTATCACCATTTCTTTCGTTCCTCTTGGTCAACTTCTTAAA
195 TCATGCAGTCTATCATCTCGTCCTTTATCACCATTTCTTTCGTTCCTCTTGGTCAACTTCTTAAA
*
30596480 GGCCATTTGTTCTTACAAATCTTTTATTGCAAATGCACCATTAGTTGTAACTTG
260 GGCCATTTGTTCTTACAAATCTTTTATTGCAAATGCACCATTAGTTGCAACTTG
30596534 TAAAG
1 TAAAG
30596539 CAATGTTCTT
Statistics
Matches: 312, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
313 149 0.48
314 163 0.52
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (313 bp):
TAAAGAAATAATCAATAGATTACAAAAGATAAACTAGTTGTTGTTGTTAAAGTTGGTCTTATTAG
CGTTGGGGTTAATATTTTCTCCCATCACCAACACCACCTAGTTAAAGCACTGTTGAAGTCTAATT
TTTGATTGACGATGTAATGATTAAACTTACCCTACAACTTTAAAAATCCAACTAAAATGTGTAAT
CATGCAGTCTATCATCTCGTCCTTTATCACCATTTCTTTCGTTCCTCTTGGTCAACTTCTTAAAG
GCCATTTGTTCTTACAAATCTTTTATTGCAAATGCACCATTAGTTGCAACTTG
Found at i:30603312 original size:21 final size:20
Alignment explanation
Indices: 30603283--30603343 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
30603273 ATTTTTTTAG
* *
30603283 TTATT-TTATTAATATTGCTA
1 TTATTATTATTAACATT-ATA
30603303 TTATTATTA-TAACATTATA
1 TTATTATTATTAACATTATA
30603322 -TATTATTATTATACATATATA
1 TTATTATTATTA-ACAT-TATA
30603343 T
1 T
30603344 ACACGTGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
18 8 0.24
19 4 0.12
20 15 0.44
21 7 0.21
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (20 bp):
TTATTATTATTAACATTATA
Found at i:30603344 original size:21 final size:21
Alignment explanation
Indices: 30603301--30603344 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
30603291 TTAATATTGC
30603301 TATTATTATTATAACATTATA
1 TATTATTATTATAACATTATA
30603322 TATTATTATTAT-ACATATATA
1 TATTATTATTATAACAT-TATA
30603343 TA
1 TA
30603345 CACGTGCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTATTATTATAACATTATA
Found at i:30606478 original size:12 final size:12
Alignment explanation
Indices: 30606461--30606485 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30606451 ATATCAACTT
30606461 TAATTTAATATG
1 TAATTTAATATG
30606473 TAATTTAATATG
1 TAATTTAATATG
30606485 T
1 T
30606486 GAAATTTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TAATTTAATATG
Found at i:30606932 original size:3 final size:3
Alignment explanation
Indices: 30606916--30606949 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
30606906 CCACCGTTAG
* *
30606916 TAC TAC AAC AAC TAC TAC TAC TAC TAC TAC TAC T
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC T
30606950 TATTATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.29
Consensus pattern (3 bp):
TAC
Found at i:30606955 original size:3 final size:3
Alignment explanation
Indices: 30606949--30606998 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
30606939 CTACTACTAC
*
30606949 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30606997 TT
1 TT
30606999 TATGTGTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30610149 original size:24 final size:24
Alignment explanation
Indices: 30610122--30610168 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
30610112 AAACCTAATT
30610122 CTAATCAAA-GTCAAATATATTATG
1 CTAAT-AAATGTCAAATATATTATG
*
30610146 CTAATAAATGTTAAATATATTAT
1 CTAATAAATGTCAAATATATTAT
30610169 ATACTCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (24 bp):
CTAATAAATGTCAAATATATTATG
Found at i:30614589 original size:24 final size:24
Alignment explanation
Indices: 30614547--30614598 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
30614537 AATCAAAGTC
* *
30614547 AAATATATTGTGCTAATAAA-AGCT
1 AAATATATTATACTAATAAATA-CT
*
30614571 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
30614595 AAAT
1 AAAT
30614599 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.35
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:30617311 original size:33 final size:34
Alignment explanation
Indices: 30617250--30617319 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
30617240 AAATTTAATA
*
30617250 ATACAATAATTAATATTATGTACTTATCACAAATG
1 ATACAATAACTAATATTA-GTACTTATCACAAATG
* *
30617285 ATACGATAACTAATATTA-TACTTATCATAAATG
1 ATACAATAACTAATATTAGTACTTATCACAAATG
30617318 AT
1 AT
30617320 TACATTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 16 0.50
35 16 0.50
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (34 bp):
ATACAATAACTAATATTAGTACTTATCACAAATG
Found at i:30621758 original size:67 final size:67
Alignment explanation
Indices: 30621650--30621808 Score: 257
Period size: 67 Copynumber: 2.4 Consensus size: 67
30621640 AGAGGAAAAG
* *
30621650 ATTGGTATTTTTCATCTGCAATTTATTTGGTTAGAAATCGATTAACAGGGTTAAGGGTTATA-AA
1 ATTGGTATTTTTCATCTGCAATTTGTTTGGTTAGAAATCGATTAACAAGGTTAAGGGTTA-AGAA
30621714 TCA
65 TCA
30621717 ATTGGTATTTTTCATCTGCAATTTGTTTGGTTAGAAATCGATTAACAAGGTTAAGGGTTAAGAAT
1 ATTGGTATTTTTCATCTGCAATTTGTTTGGTTAGAAATCGATTAACAAGGTTAAGGGTTAAGAAT
*
30621782 CG
66 CA
* *
30621784 ATTGGTATTTTTCATTTACAATTTG
1 ATTGGTATTTTTCATCTGCAATTTG
30621809 CATTTCACTT
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
66 1 0.01
67 85 0.99
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (67 bp):
ATTGGTATTTTTCATCTGCAATTTGTTTGGTTAGAAATCGATTAACAAGGTTAAGGGTTAAGAAT
CA
Found at i:30623323 original size:2 final size:2
Alignment explanation
Indices: 30623316--30623348 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
30623306 AAGATAAAAT
30623316 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30623349 TATCTCTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30631943 original size:34 final size:33
Alignment explanation
Indices: 30631871--30631961 Score: 130
Period size: 34 Copynumber: 2.7 Consensus size: 33
30631861 AGGTTTTTTT
**
30631871 TAAATTAATTAAATTAGGTTTTTGGGTTTTAAA
1 TAAATTAATTAAATTAGGTTTAGGGGTTTTAAA
30631904 TAAATTAATTAAATTAGGATTTAGGGGTTTTTAAA
1 TAAATTAATTAAATTAGG-TTTAGGGG-TTTTAAA
30631939 -AAATTAATTAAATTATGGTTTAG
1 TAAATTAATTAAATTA-GGTTTAG
30631962 TTTTTTTAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
33 18 0.34
34 26 0.49
35 9 0.17
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (33 bp):
TAAATTAATTAAATTAGGTTTAGGGGTTTTAAA
Found at i:30632246 original size:126 final size:125
Alignment explanation
Indices: 30632022--30632416 Score: 483
Period size: 126 Copynumber: 3.1 Consensus size: 125
30632012 AAACTTTGGT
30632022 TTTTTTTCTACAATAGTTTCTGAAAAAATAATTTTGAG-AGACGGTTCTGAA-AAGATAATGTAA
1 TTTTTTTCTACAATAGTTT-TGAAAAAATAATTTTGAGAAGACGGTTCTGAACAA-ATAATGTAA
* * *
30632085 AAAACGCTTCAAGCAGTATGCACTTTCAGCAAAATTACTGAAAAAAGCTCCCACGTGTACGC
64 AAAATGCTTCAAGCAGGATGCACTTTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
* * * *
30632147 TTTTTTTCTAAAATAGTTATTGAAAAAGTAATTTTGAGAAGACAGTTCTGAACAAATATTGTAAA
1 TTTTTTTCTACAATAGTT-TTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAATGTAAA
* * * * * *
30632212 AAATGCCTCAACCAGGATGCACTGTCAGCAAAATTACTGAAAAAATCACCCACGTGGATGC
65 AAATGCTTCAAGCAGGATGCACTTTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
* * ** * *
30632273 TCTTTTTCTACAGTAGTTCCCGAAAAAATAATTTTGAAAAGATGGTTCTGAACAAATAATGTCAA
1 TTTTTTTCTACAATAGTT-TTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAATGT-AA
* * * * *
30632338 TAACT-CTTTAAGCAGGATGCACTTTCAACAAAATTACTGAAAAAAGCTCCCATGTGGACGC
64 AAAATGCTTCAAGCAGGATGCACTTTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
*
30632399 TCTTTTTT-TACAGTAGTT
1 T-TTTTTTCTACAATAGTT
30632417 CTTGTTTGGC
Statistics
Matches: 229, Mismatches: 36, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
125 34 0.15
126 183 0.80
127 12 0.05
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (125 bp):
TTTTTTTCTACAATAGTTTTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAATGTAAAA
AATGCTTCAAGCAGGATGCACTTTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
Found at i:30638049 original size:24 final size:24
Alignment explanation
Indices: 30637993--30638049 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
30637983 AAGAACTTCT
30637993 ATTTTATTAAAAATATAAAAATAA
1 ATTTTATTAAAAATATAAAAATAA
* *
30638017 ATTACTATT-AAAATATTTAAAATAA
1 ATT-TTATTAAAAATA-TAAAAATAA
*
30638042 CTTTTATT
1 ATTTTATT
30638050 TTATTAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTTTATTAAAAATATAAAAATAA
Found at i:30638119 original size:89 final size:90
Alignment explanation
Indices: 30638003--30638184 Score: 330
Period size: 89 Copynumber: 2.0 Consensus size: 90
30637993 ATTTTATTAA
*
30638003 AAATATAAAAATAAATTACTATTAAAATATTTAAAATAACTTTTATTTTATTAAATGAAACAATA
1 AAATATAAAAATAAATTACTATTAAAATATTAAAAATAACTTTTATTTTATTAAATGAAACAATA
*
30638068 TAAAAATAGTTTGTACAAATATATT
66 TAAAAACAGTTTGTACAAATATATT
*
30638093 AAATATATAAA-AAATTACTATTAAAATATTAAAAATAACTTTTATTTTATTAAATGAAACAATA
1 AAATATAAAAATAAATTACTATTAAAATATTAAAAATAACTTTTATTTTATTAAATGAAACAATA
30638157 TAAAAACAGTTTGTACAAATATATT
66 TAAAAACAGTTTGTACAAATATATT
30638182 AAA
1 AAA
30638185 AAATCAATGT
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
89 79 0.89
90 10 0.11
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.37
Consensus pattern (90 bp):
AAATATAAAAATAAATTACTATTAAAATATTAAAAATAACTTTTATTTTATTAAATGAAACAATA
TAAAAACAGTTTGTACAAATATATT
Found at i:30638574 original size:18 final size:18
Alignment explanation
Indices: 30638548--30638590 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
30638538 GACTGGGAAA
* * *
30638548 AGGAAACATATAAGGGTT
1 AGGATACATATAAGAGCT
30638566 AGGATACATATAAGAGCT
1 AGGATACATATAAGAGCT
30638584 AGGATAC
1 AGGATAC
30638591 GCACCTGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGAGCT
Found at i:30644409 original size:18 final size:18
Alignment explanation
Indices: 30644356--30644409 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
30644346 ATTCACCTAA
*
30644356 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCAAACCCAATT
* *
30644375 ATCCAACCCAACCCAATT
1 ACCCAACCAAACCCAATT
*
30644393 ACCCAACCTAACCCAAT
1 ACCCAACCAAACCCAAT
30644410 CATAAAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 25 0.83
19 5 0.17
ACGTcount: A:0.41, C:0.44, G:0.02, T:0.13
Consensus pattern (18 bp):
ACCCAACCAAACCCAATT
Found at i:30644441 original size:6 final size:6
Alignment explanation
Indices: 30644430--30644483 Score: 63
Period size: 6 Copynumber: 8.7 Consensus size: 6
30644420 ACAAATAATT
* * *
30644430 TAAAAA TAAAAA TAAAATTC TAAAAC TAAAAC TAAAAC TAAAAT TAAAAC
1 TAAAAC TAAAAC TAAAA--C TAAAAC TAAAAC TAAAAC TAAAAC TAAAAC
30644480 TAAA
1 TAAA
30644484 GTCTAAAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
6 38 0.88
8 5 0.12
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (6 bp):
TAAAAC
Found at i:30644472 original size:18 final size:19
Alignment explanation
Indices: 30644430--30644491 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 19
30644420 ACAAATAATT
*
30644430 TAAAAATAAAAATAAAATTC
1 TAAAAATAAAACTAAAA-TC
*
30644450 TAAAACTAAAACTAAAA-C
1 TAAAAATAAAACTAAAATC
* *
30644468 TAAAATTAAAACTAAAGTC
1 TAAAAATAAAACTAAAATC
30644487 TAAAA
1 TAAAA
30644492 GTCTAAACTC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 16 0.43
19 6 0.16
20 15 0.41
ACGTcount: A:0.66, C:0.10, G:0.02, T:0.23
Consensus pattern (19 bp):
TAAAAATAAAACTAAAATC
Found at i:30645328 original size:56 final size:56
Alignment explanation
Indices: 30645232--30645477 Score: 271
Period size: 56 Copynumber: 4.4 Consensus size: 56
30645222 TGTTTGCTTG
* * * *
30645232 CTGTCATAAATTGAATTAAAGCTGTTGTTTGAGTGTTTCAAATTGAGCATTTTCATA
1 CTGTCTTAAATTGAA-TAAAGCTGCTATTTTAGTGTTTCAAATTGAGCATTTTCATA
* *
30645289 CTGTCTTAAATTGAATCAAGCTACTATTTTAGTGTTTCAAATTGAGCATTTTCATA
1 CTGTCTTAAATTGAATAAAGCTGCTATTTTAGTGTTTCAAATTGAGCATTTTCATA
* * * * * *
30645345 CTGTCATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGAGCATTTTCATG
1 CTGTCTTAAATTGAA-TAAAGCTGCTATTTTAGTGTTTCAAATTGAGCATTTTCATA
* * * * *
30645402 CTGTCTTAAATTAAATTAAGCTGCTA-TTTAATGTTTCAAATTGAGTATTATT-ATG
1 CTGTCTTAAATTGAATAAAGCTGCTATTTTAGTGTTTCAAATTGAGCATT-TTCATA
* *
30645457 CTGTCCTAAATTAAATTAAAG
1 CTGTCTTAAATTGAA-TAAAG
30645478 TGTTGCTTCA
Statistics
Matches: 161, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
55 37 0.23
56 63 0.39
57 61 0.38
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (56 bp):
CTGTCTTAAATTGAATAAAGCTGCTATTTTAGTGTTTCAAATTGAGCATTTTCATA
Found at i:30645406 original size:57 final size:57
Alignment explanation
Indices: 30645230--30645477 Score: 297
Period size: 57 Copynumber: 4.4 Consensus size: 57
30645220 ACTGTTTGCT
* *
30645230 TGCTGTCATAAATTGAATTAAAGCTGTTGTTTGAGTGTTTCAAATTGAGCATTTTCA
1 TGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTTCA
* * * * *
30645287 TACTGTCTTAAATTGAA-TCAAGCTACTATTTTAGTGTTTCAAATTGAGCATTTTCA
1 TGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTTCA
* * * *
30645343 TACTGTCATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGAGCATTTTCA
1 TGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTTCA
* * * * *
30645400 TGCTGTCTTAAATTAAATT-AAGCTGCT-ATTTAATGTTTCAAATTGAGTATTATT-A
1 TGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATT-TTCA
* *
30645455 TGCTGTCCTAAATTAAATTAAAG
1 TGCTGTCATAAATTGAATTAAAG
30645478 TGTTGCTTCA
Statistics
Matches: 164, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
55 39 0.24
56 61 0.37
57 64 0.39
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.42
Consensus pattern (57 bp):
TGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTTCA
Done.