Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009644.1 Hibiscus syriacus cultivar Beakdansim tig00117060_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 611714
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:352604 original size:18 final size:18
Alignment explanation
Indices: 352575--352633 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
352565 TATATATAAC
352575 TATATATATAAACTATATT
1 TATAT-TATAAACTATATT
352594 TATATTATAAACTATA-T
1 TATATTATAAACTATATT
* * *
352611 AATTATTATAAGCTATATA
1 TA-TATTATAAACTATATT
352630 TATA
1 TATA
352634 AATTAGGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
17 2 0.06
18 26 0.76
19 6 0.18
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (18 bp):
TATATTATAAACTATATT
Found at i:352607 original size:31 final size:29
Alignment explanation
Indices: 352547--352634 Score: 83
Period size: 29 Copynumber: 2.9 Consensus size: 29
352537 AAAAAATATA
352547 ATATATATAATATAAGTTTATATATAACT
1 ATATATATAATATAAGTTTATATATAACT
352576 ATATATATAA-ACTATA-TTTATATTATAAACT
1 ATATATATAATA-TA-AGTTTATA-TAT-AACT
* *
352607 ATATA-ATTATTATAAGCTATATATATAA
1 ATATATA-TAATATAAG-TTTATATATAA
352635 ATTAGGTTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
28 1 0.02
29 18 0.37
30 8 0.16
31 16 0.33
32 6 0.12
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (29 bp):
ATATATATAATATAAGTTTATATATAACT
Found at i:352833 original size:19 final size:20
Alignment explanation
Indices: 352811--352893 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 20
352801 TTTTGATTTT
352811 AATTGGG-AATTTAGAGGAA
1 AATTGGGAAATTTAGAGGAA
352830 AATTGGGAAATTTTGAGAATATAGGAA
1 AATTGGGAAA-TTT-AG-----AGGAA
* *
352857 AATTGGG-AATTTAAAGGGA
1 AATTGGGAAATTTAGAGGAA
352876 AATTGGGAAATTTAGAGG
1 AATTGGGAAATTTAGAGG
352894 GAATATAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 17
0.72 0.04 0.24
Matches are distributed among these distances:
19 18 0.35
20 11 0.21
21 3 0.06
22 2 0.04
24 1 0.02
25 3 0.06
26 2 0.04
27 12 0.23
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (20 bp):
AATTGGGAAATTTAGAGGAA
Found at i:352887 original size:20 final size:19
Alignment explanation
Indices: 352856--352896 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
352846 GAATATAGGA
352856 AAATTGGGAATTTAAAGGG
1 AAATTGGGAATTTAAAGGG
*
352875 AAATTGGGAAATTTAGAGGG
1 AAATTGGG-AATTTAAAGGG
352895 AA
1 AA
352897 TATAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (19 bp):
AAATTGGGAATTTAAAGGG
Found at i:352905 original size:46 final size:45
Alignment explanation
Indices: 352811--352912 Score: 134
Period size: 46 Copynumber: 2.2 Consensus size: 45
352801 TTTTGATTTT
* *
352811 AATTGGGAATTTAGAGGAAAATTGGGAAATTTTGAGAATATAGGAA
1 AATTGGGAATTTAAAGGAAAATTGGGAAATTTAGAGAATATA-GAA
*
352857 AATTGGGAATTTAAAGGGAAATTGGGAAATTTAGAGGGAATATA-AA
1 AATTGGGAATTTAAAGGAAAATTGGGAAATTTAGA--GAATATAGAA
352903 AATTTGGGAA
1 AA-TTGGGAA
352913 GTTGGCGCCA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
46 36 0.72
47 7 0.14
48 7 0.14
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.27
Consensus pattern (45 bp):
AATTGGGAATTTAAAGGAAAATTGGGAAATTTAGAGAATATAGAA
Found at i:353331 original size:20 final size:21
Alignment explanation
Indices: 353306--353389 Score: 102
Period size: 20 Copynumber: 4.1 Consensus size: 21
353296 TACATGTATG
*
353306 TATAAACTATGTATAT-TATA
1 TATAAACTATATATATATATA
353326 TATAAACTATATATATATATA
1 TATAAACTATATATATATATA
*
353347 TATATA-TATATATATATATA
1 TATAAACTATATATATATATA
* *
353367 TATATA-TATATATAAACTATA
1 TATAAACTATATATATA-TATA
353388 TA
1 TA
353390 AAGTAAATTA
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
20 44 0.75
21 15 0.25
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (21 bp):
TATAAACTATATATATATATA
Found at i:353389 original size:2 final size:2
Alignment explanation
Indices: 353317--353380 Score: 103
Period size: 2 Copynumber: 32.0 Consensus size: 2
353307 ATAAACTATG
*
353317 TA TA T- TA TA TA TA AA CTA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
353359 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
353381 AACTATATAA
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.02
2 56 0.97
3 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:353429 original size:7 final size:7
Alignment explanation
Indices: 353419--353461 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
353409 TTTATAGAAC
353419 CCCTAAA
1 CCCTAAA
353426 CCCTAAA
1 CCCTAAA
353433 CCCTAAA
1 CCCTAAA
* *
353440 TCATAAA
1 CCCTAAA
*
353447 TCCTAAA
1 CCCTAAA
353454 CCCTAAA
1 CCCTAAA
353461 C
1 C
353462 TATATATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (7 bp):
CCCTAAA
Found at i:353649 original size:57 final size:58
Alignment explanation
Indices: 353583--353734 Score: 168
Period size: 57 Copynumber: 2.6 Consensus size: 58
353573 TAACATATAA
* * *
353583 TATATGTATACATGTAAACTATATATGTAACTTATAGTACATGTATGTATA-AA-CTATG
1 TATATGTAT--ATATAAACTATATATGTAACCTATAGTACATGTATATATACAATCTATG
* * *
353641 TATA-GTATATATAAACCATATATATATAACCTATAGTATATGTATATATACAATCTATT
1 TATATGTATATATAAA-C-TATATATGTAACCTATAGTACATGTATATATACAATCTATG
* *
353700 TATATGT-TATATAAACTAAATATGTAACGTATAGT
1 TATATGTATATATAAACTATATATGTAACCTATAGT
353735 TTATAAACAA
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
55 6 0.08
56 1 0.01
57 48 0.60
58 7 0.09
59 16 0.20
60 2 0.03
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (58 bp):
TATATGTATATATAAACTATATATGTAACCTATAGTACATGTATATATACAATCTATG
Found at i:353664 original size:20 final size:20
Alignment explanation
Indices: 353625--353668 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
353615 TATAGTACAT
* * *
353625 GTATGTATAAACTATGTATA
1 GTATATATAAACCATATATA
353645 GTATATATAAACCATATATA
1 GTATATATAAACCATATATA
353665 -TATA
1 GTATA
353669 ACCTATAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (20 bp):
GTATATATAAACCATATATA
Found at i:353686 original size:24 final size:23
Alignment explanation
Indices: 353659--353712 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
353649 ATATAAACCA
*
353659 TATATATATAACCTATAGTATATG
1 TATATATACAACCTAT-GTATATG
* *
353683 TATATATACAATCTATTTATATG
1 TATATATACAACCTATGTATATG
353706 T-TATATA
1 TATATATA
353713 AACTAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 6 0.22
23 7 0.26
24 14 0.52
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (23 bp):
TATATATACAACCTATGTATATG
Found at i:353769 original size:36 final size:35
Alignment explanation
Indices: 353729--353838 Score: 101
Period size: 36 Copynumber: 3.3 Consensus size: 35
353719 ATATGTAACG
*
353729 TATAGTTTATAAACAATAGTTTATATTAGTGTACTA
1 TATAGTTTATAAAC-ATAGTTTATATTAATGTACTA
* * *
353765 TATAGTTTAT--AC----TTTATA--ACTATAGTA
1 TATAGTTTATAAACATAGTTTATATTAATGTACTA
*
353792 TATAATTTATAAACTATAGTTTATATTAATGTACTA
1 TATAGTTTATAAAC-ATAGTTTATATTAATGTACTA
353828 TATAGTTTATA
1 TATAGTTTATA
353839 TTAATGTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
27 15 0.26
29 8 0.14
34 8 0.14
36 26 0.46
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (35 bp):
TATAGTTTATAAACATAGTTTATATTAATGTACTA
Found at i:353790 original size:20 final size:21
Alignment explanation
Indices: 353765--353816 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
353755 TAGTGTACTA
*
353765 TATAGTTTATACTTTAT-AAC
1 TATAGTTTATAATTTATAAAC
*
353785 TATAGTATATAATTTATAAAC
1 TATAGTTTATAATTTATAAAC
353806 TATAGTTTATA
1 TATAGTTTATA
353817 TTAATGTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (21 bp):
TATAGTTTATAATTTATAAAC
Found at i:353839 original size:22 final size:22
Alignment explanation
Indices: 353744--353845 Score: 88
Period size: 22 Copynumber: 4.8 Consensus size: 22
353734 TTTATAAACA
*
353744 ATAGTTTATATTAGTGTACTAT
1 ATAGTTTATATTAATGTACTAT
* *
353766 ATAGTTTATACTTTAT-AAC--T
1 ATAGTTTATA-TTAATGTACTAT
* * **
353786 ATAGTATATAATTTATAAACTAT
1 ATAGTTTAT-ATTAATGTACTAT
353809 A--GTTTATATTAATGTACTAT
1 ATAGTTTATATTAATGTACTAT
353829 ATAGTTTATATTAATGT
1 ATAGTTTATATTAATGT
353846 TAATTATCTT
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
20 25 0.38
21 9 0.14
22 26 0.40
23 5 0.08
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (22 bp):
ATAGTTTATATTAATGTACTAT
Found at i:353864 original size:15 final size:14
Alignment explanation
Indices: 353834--354109 Score: 99
Period size: 15 Copynumber: 17.4 Consensus size: 14
353824 ACTATATAGT
*
353834 TTATATTAATGTTAA
1 TTATATTAAT-ATAA
*
353849 TTATCTTAACTATAA
1 TTATATTAA-TATAA
353864 TTTATATTAATATAA
1 -TTATATTAATATAA
*
353879 TATATAGTTTATAAACTATA
1 T-TATA--TTA-ATA-TA-A
*
353899 CTATATTAATATTAA
1 TTATATTAATA-TAA
*
353914 TTATATTAACTATAG
1 TTATATTAA-TATAA
*
353929 TT-TATAAACTATACTA
1 TTATATTAA-TATA--A
*
353945 TGTAATTTATAAAATATAGA
1 T-T-A--TAT-TAATATA-A
353965 TTATATTAATATTAA
1 TTATATTAATA-TAA
* *
353980 TTTTA-TAGACTATATT
1 TTATATTA-A-TATA-A
353996 TTATATTAATATTAA
1 TTATATTAATA-TAA
* *
354011 TTACAAATTATAAACTATA
1 TT--ATATTA-ATA-TA-A
354030 TTATATTAATATAA
1 TTATATTAATATAA
354044 GTTAATATTAATATTAA
1 -TT-ATATTAATA-TAA
354061 TTATATTAATATTAA
1 TTATATTAATA-TAA
*
354076 TTATAAT-ATATAA
1 TTATATTAATATAA
354089 TTTATATTAATATTAA
1 -TTATATTAATA-TAA
354105 TTATA
1 TTATA
354110 AATAGTTTAT
Statistics
Matches: 204, Mismatches: 24, Indels: 66
0.69 0.08 0.22
Matches are distributed among these distances:
13 3 0.01
14 23 0.11
15 80 0.39
16 46 0.23
17 22 0.11
18 7 0.03
19 10 0.05
20 3 0.01
21 7 0.03
22 3 0.01
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (14 bp):
TTATATTAATATAA
Found at i:353898 original size:14 final size:14
Alignment explanation
Indices: 353881--353941 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
353871 TAATATAATA
353881 TATAGTTTATAAAC
1 TATAGTTTATAAAC
* * *
353895 TATACTATATTAA-
1 TATAGTTTATAAAC
* *
353908 TATTAATTATATTAAC
1 TA-TAGTT-TATAAAC
353924 TATAGTTTATAAAC
1 TATAGTTTATAAAC
353938 TATA
1 TATA
353942 CTATGTAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
13 2 0.05
14 23 0.62
15 10 0.27
16 2 0.05
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (14 bp):
TATAGTTTATAAAC
Found at i:353914 original size:65 final size:65
Alignment explanation
Indices: 353834--354109 Score: 263
Period size: 65 Copynumber: 4.3 Consensus size: 65
353824 ACTATATAGT
* * *
353834 TTATATTAATGTTAATTATCTTAACTATAATTTATATTAATA-TAATATATAGTTTATAAACTAT
1 TTATATTAATATTAATTATATTAACTATAATTTATATTAATATTAAT-TATAATTTATAAACTAT
353898 A
65 A
* * * * *
353899 CTATATTAATATTAATTATATTAACTATAGTTTATA--AACTA-TACTATGTAATTTATAAAATA
1 TTATATTAATATTAATTATATTAACTATAATTTATATTAA-TATTAAT-TATAATTTATAAACTA
353961 TAGA
64 T--A
* * * *
353965 TTATATTAATATTAATTTTA-TAGACTATATTTTATATTAATATTAATTACAAATTATAAACTAT
1 TTATATTAATATTAATTATATTA-ACTATAATTTATATTAATATTAATTATAATTTATAAACTAT
354029 A
65 A
*
354030 TTATATTAATA-TAAGTTAATATTAA-TATTAA-TTATATTAATATTAATTATAA--TATATA--
1 TTATATTAATATTAA-TT-ATATTAACTA-TAATTTATATTAATATTAATTATAATTTATAAACT
354088 AT-
63 ATA
354090 TTATATTAATATTAATTATA
1 TTATATTAATATTAATTATA
354110 AATAGTTTAT
Statistics
Matches: 179, Mismatches: 20, Indels: 30
0.78 0.09 0.13
Matches are distributed among these distances:
59 3 0.02
60 13 0.07
61 5 0.03
63 7 0.04
64 23 0.13
65 70 0.39
66 36 0.20
67 17 0.09
68 5 0.03
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (65 bp):
TTATATTAATATTAATTATATTAACTATAATTTATATTAATATTAATTATAATTTATAAACTATA
Found at i:353931 original size:43 final size:41
Alignment explanation
Indices: 353857--353945 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 41
353847 AATTATCTTA
*
353857 ACTATAATTTATATTAATATAATATATAGTTTATAAACTAT
1 ACTATAATTAATATTAATATAATATATAGTTTATAAACTAT
*
353898 ACTAT-ATTAATATTAATTATATTAACTATAGTTTATAAACTAT
1 ACTATAATTAATATTAA-TATAAT-A-TATAGTTTATAAACTAT
353941 ACTAT
1 ACTAT
353946 GTAATTTATA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
40 10 0.23
41 10 0.23
42 1 0.02
43 22 0.51
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (41 bp):
ACTATAATTAATATTAATATAATATATAGTTTATAAACTAT
Found at i:353968 original size:116 final size:115
Alignment explanation
Indices: 353748--353982 Score: 246
Period size: 116 Copynumber: 2.0 Consensus size: 115
353738 TAAACAATAG
* * * ***
353748 TTTATATTAGTGTACTATATAGTTTATACTTTATAACTATAGTATATAATTTATAAACTATAGTT
1 TTTATATTAATATAATATATAGTTTATAAACTATAACTATAGTATATAATTTATAAACTATAGTT
* * * * *
353813 TATATTAATGTACTATATAGTTTATATTAATGTTAATTATCTTAACTA-TAA
66 TATA-TAATATACTATATAATTTATATAAATGATAATTATATTAA-TATTAA
* *
353864 TTTATATTAATATAATATATAGTTTATAAACTAT-ACTATATTAATATTAATTATATTAACTATA
1 TTTATATTAATATAATATATAGTTTATAAACTATAACTATAGT-ATA-TAATT-TATAAACTATA
*
353928 GTTTATA-AACTATACTATGTAATTTATA-AAAT-ATAGATTATATTAATATTAA
63 GTTTATATAA-TATACTATATAATTTATATAAATGATA-ATTATATTAATATTAA
353980 TTT
1 TTT
353983 TATAGACTAT
Statistics
Matches: 99, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
115 11 0.11
116 51 0.52
117 20 0.20
118 17 0.17
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (115 bp):
TTTATATTAATATAATATATAGTTTATAAACTATAACTATAGTATATAATTTATAAACTATAGTT
TATATAATATACTATATAATTTATATAAATGATAATTATATTAATATTAA
Found at i:353986 original size:24 final size:25
Alignment explanation
Indices: 353959--354005 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
353949 ATTTATAAAA
*
353959 TATAGATTATA-TTAATATTAATTT
1 TATAGACTATATTTAATATTAATTT
*
353983 TATAGACTATATTTTATATTAAT
1 TATAGACTATATTTAATATTAAT
354006 ATTAATTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (25 bp):
TATAGACTATATTTAATATTAATTT
Found at i:354000 original size:31 final size:31
Alignment explanation
Indices: 353828--354106 Score: 139
Period size: 31 Copynumber: 8.7 Consensus size: 31
353818 TAATGTACTA
* * * * *
353828 TATAGTTTATATTAATGTTAATTATCTTAAC
1 TATATTTTATATTAATATTAATTTTATAAAC
*
353859 TATAATTTATATTAATATAATATATAGTTTATAAAC
1 TATATTTTATATTAATAT--TA-AT--TTTATAAAC
* * *
353895 TATA--CTATATTAATATTAATTATATTAAC
1 TATATTTTATATTAATATTAATTTTATAAAC
* * *
353924 TATAGTTTATAAACTATACTATGTAA-TTTATAAAA
1 TATA-TTT-TATA-T-TAATAT-TAATTTTATAAAC
** *
353959 TATAGATTATATTAATATTAATTTTATAGAC
1 TATATTTTATATTAATATTAATTTTATAAAC
353990 TATATTTTATATTAATATTAATTACAAATTATAAAC
1 TATATTTTATATTAATATTAATT-----TTATAAAC
* *
354026 TATA--TTATATTAATA-TAAGTTAATATTAA-
1 TATATTTTATATTAATATTAA-TT-TTATAAAC
*
354055 TAT-TAATTATATTAATATTAA--TTATAATA-
1 TATAT-TTTATATTAATATTAATTTTATAA-AC
*
354084 TATAATTTATATTAATATTAATT
1 TATATTTTATATTAATATTAATT
354107 ATAAATAGTT
Statistics
Matches: 192, Mismatches: 29, Indels: 54
0.70 0.11 0.20
Matches are distributed among these distances:
28 4 0.02
29 33 0.17
30 9 0.05
31 62 0.32
32 6 0.03
33 11 0.06
34 28 0.15
35 15 0.08
36 24 0.12
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (31 bp):
TATATTTTATATTAATATTAATTTTATAAAC
Found at i:354053 original size:50 final size:45
Alignment explanation
Indices: 353998--354112 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 45
353988 ACTATATTTT
*
353998 ATATTAATATTAATTACAAATTATAAACTATATTATATTAATATAAGTTA
1 ATATTAATATTAATTA-AAATTA-AAACTA-ATTATAAT-ATATAA-TTA
* * * *
354048 ATATTAATATTAATT-ATATTAATATTAATTATAATATATAATTT
1 ATATTAATATTAATTAAAATTAAAACTAATTATAATATATAATTA
354092 ATATTAATATTAATTATAAAT
1 ATATTAATATTAATTA-AAAT
354113 AGTTTATTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
44 17 0.30
45 6 0.11
46 10 0.18
47 4 0.07
48 5 0.09
50 15 0.26
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (45 bp):
ATATTAATATTAATTAAAATTAAAACTAATTATAATATATAATTA
Found at i:354054 original size:6 final size:6
Alignment explanation
Indices: 354027--354243 Score: 76
Period size: 6 Copynumber: 37.3 Consensus size: 6
354017 ATTATAAACT
*
354027 ATATT- ATATTA ATA-TA A-GTTA ATATTA ATATT- A-ATT- ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA
*
354069 ATATTA AT-TATA ATATATA AT-TT- ATATTA ATATTA ATTATAA ATAGTT-
1 ATATTA ATAT-TA ATAT-TA ATATTA ATATTA ATATTA A-TATTA ATA-TTA
* ** *
354117 -TATTA ATATAA ATTATATA GGGATGA A-ATTGA A-A-TA AT-TTAAA
1 ATATTA ATATTA A-TAT-TA -ATATTA ATATT-A ATATTA ATATT--A
* * *
354160 ATATAA AGATTA ATATTA ATATTA ATATT- A-ATT- ATATTA ATCTTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA
* * * *
354205 ATTATAA ATATT- TTATTA ATATAA ATAGTTT ATATTA AT
1 A-TATTA ATATTA ATATTA ATATTA ATA-TTA ATATTA AT
354244 GTCCTCATCA
Statistics
Matches: 160, Mismatches: 25, Indels: 53
0.67 0.11 0.22
Matches are distributed among these distances:
4 14 0.09
5 33 0.21
6 82 0.51
7 27 0.17
8 4 0.03
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.47
Consensus pattern (6 bp):
ATATTA
Found at i:354065 original size:131 final size:125
Alignment explanation
Indices: 353827--354108 Score: 308
Period size: 131 Copynumber: 2.2 Consensus size: 125
353817 TTAATGTACT
* * * **
353827 ATATAGTTTATATTAATGTTAATTATCTTAACTATAATTTATATTAATATAATATATAGTTTATA
1 ATATAGATTATATTAATATTAATTATCTTAACTATAATTTATATTAATATAATATACAAATTATA
* *
353892 AACTATACTATATTAATATTAATTATATTAACTATAGTTTATAAACTATACTATGTAATTTATAA
66 AACTATACTATATTAATATTAATTATATTAACTATAGATTAT--A-T-TAATAT-TAA-TTATAA
353957 A
125 A
*
353958 ATATAGATTATATTAATATTAATT-T-TATAGACTATATTTTATATTAATATTAAT-TACAAATT
1 ATATAGATTATATTAATATTAATTATCT-TA-ACTATAATTTATATTAATA-TAATATACAAATT
*
354020 ATAAACTATATTATATTAATA-TAAGTTAATATTAA-TATTA-ATTATATTAATATTAATTATAA
63 ATAAACTATACTATATTAATATTAA-TT-ATATTAACTA-TAGATTATATTAATATTAATTATAA
*
354082 T
125 A
354083 ATATA-ATTTATATTAATATTAATTAT
1 ATATAGA-TTATATTAATATTAATTAT
354109 AAATAGTTTA
Statistics
Matches: 133, Mismatches: 10, Indels: 21
0.81 0.06 0.13
Matches are distributed among these distances:
124 1 0.01
125 28 0.21
126 4 0.03
127 5 0.04
128 1 0.01
129 2 0.02
130 6 0.05
131 73 0.55
132 13 0.10
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (125 bp):
ATATAGATTATATTAATATTAATTATCTTAACTATAATTTATATTAATATAATATACAAATTATA
AACTATACTATATTAATATTAATTATATTAACTATAGATTATATTAATATTAATTATAAA
Found at i:354198 original size:15 final size:15
Alignment explanation
Indices: 354178--354210 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
354168 ATTAATATTA
354178 ATATTAATATTAATT
1 ATATTAATATTAATT
*
354193 ATATTAATCTTAATT
1 ATATTAATATTAATT
354208 ATA
1 ATA
354211 AATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTAATATTAATT
Found at i:354229 original size:17 final size:19
Alignment explanation
Indices: 354202--354243 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
354192 TATATTAATC
354202 TTAATTATAAATA-TTT-TA
1 TTAA-TATAAATAGTTTATA
354220 TTAATATAAATAGTTTATA
1 TTAATATAAATAGTTTATA
354239 TTAAT
1 TTAAT
354244 GTCCTCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.36
18 7 0.32
19 7 0.32
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TTAATATAAATAGTTTATA
Found at i:354779 original size:25 final size:25
Alignment explanation
Indices: 354750--354830 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
354740 ACTAATTATT
*
354750 TAACA-CCTAATGTAACATGAATTAA
1 TAACATCC-AATGCAACATGAATTAA
*
354775 TAACATGCAATGCAACATGAATTAA
1 TAACATCCAATGCAACATGAATTAA
* * * * *
354800 AAACATGCAATACCACATGAATTGA
1 TAACATCCAATGCAACATGAATTAA
354825 TAACAT
1 TAACAT
354831 GTAATTATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 47 0.98
26 1 0.02
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.25
Consensus pattern (25 bp):
TAACATCCAATGCAACATGAATTAA
Found at i:354831 original size:25 final size:25
Alignment explanation
Indices: 354763--354831 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
354753 CACCTAATGT
*
354763 AACATGAATTAATAACATGCAATGC
1 AACATGAATTAATAACATGCAATAC
*
354788 AACATGAATTAAAAACATGCAATAC
1 AACATGAATTAATAACATGCAATAC
* *
354813 CACATGAATTGATAACATG
1 AACATGAATTAATAACATG
354832 TAATTATTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.23
Consensus pattern (25 bp):
AACATGAATTAATAACATGCAATAC
Found at i:355703 original size:23 final size:24
Alignment explanation
Indices: 355675--355728 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 24
355665 TTATTTTTTC
355675 TTTACATAAATTAAACTATA-TAA
1 TTTACATAAATTAAACTATATTAA
355698 TTTACATAAATTAAACTATATTAA
1 TTTACATAAATTAAACTATATTAA
355722 TTTACAT
1 TTTACAT
355729 TTAATCATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTACATAAATTAAACTATATTAA
Found at i:355988 original size:16 final size:16
Alignment explanation
Indices: 355946--356002 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
355936 GGTAATATAT
355946 ATAT-AAGTCAGGTAA
1 ATATCAAGTCAGGTAA
*
355961 ATGTCAAGTCAGGTAA
1 ATATCAAGTCAGGTAA
*
355977 ATATC-AGATCAGGTTA
1 ATATCAAG-TCAGGTAA
*
355993 ATAACAAGTC
1 ATATCAAGTC
356003 GGATCATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 5 0.14
16 28 0.80
17 2 0.06
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.26
Consensus pattern (16 bp):
ATATCAAGTCAGGTAA
Found at i:356849 original size:149 final size:146
Alignment explanation
Indices: 356458--357003 Score: 701
Period size: 149 Copynumber: 3.7 Consensus size: 146
356448 CGGGAATTTT
* * *
356458 AGAAAAATGTATCGATCTTTTCACTCAGCCTATATATGATGAATACGTTTCGAAATTTGAAATT-
1 AGAAAAAAGTATCGATCTTTTCACTCAGCCTATATATGATGCATACGTTTCAAAATTT-AAATTC
* *
356522 TCGATACTTATGCTC--TGTCTCGATACTACATCATATCACTATTGAATATATAGCACTCGAAGT
65 TC-ATACTTATGCTCTGTGTCTCGATACTTCATCATACCACTATTGAATATATAGCACTCGAAGT
* *
356585 TTCAAGTATGGGAGCTTC
129 TTCAAGTATGAGAACTTC
* * * *
356603 AGAAAAAAGTATCGAACTTTTCACCCAGCCTATATATGATGCAAACGTTTCAAAATTTAAATTTT
1 AGAAAAAAGTATCGATCTTTTCACTCAGCCTATATATGATGCATACGTTTCAAAATTTAAA-TTC
* * * *
356668 TGATACTTATGCTCTGTGTCTCGATACTTCATCATGCCACTATTGAATACATAACACTCGAAGTT
65 TCATACTTATGCTCTGTGTCTCGATACTTCATCATACCACTATTGAATATATAGCACTCGAAGTT
*
356733 TGAAGTATGAGAACTTC
130 TCAAGTATGAGAACTTC
* * **
356750 AGAAAAAAAAATATCGATCTTTTTCTCTCAGCCTATATATGATGCATATATTTCAAAATTTAAAT
1 AG--AAAAAAGTATCGATC-TTTTCACTCAGCCTATATATGATGCATACGTTTCAAAATTTAAAT
* * * *
356815 TCTCATACTTATGCTCTATGTCTTGATACTTCATCATGCCATTATTGAATATATAGCACTCGAAG
63 TCTCATACTTATGCTCTGTGTCTCGATACTTCATCATACCACTATTGAATATATAGCACTCGAAG
*
356880 TTTCAAGTATGAGAACTTT
128 TTTCAAGTATGAGAACTTC
* *** *
356899 AGAAACAAGTATCGATCTTCAAACTCAGCC--TATATGATGCATATGTTTCAAAATTTTAAATTC
1 AGAAAAAAGTATCGATCTTTTCACTCAGCCTATATATGATGCATACGTTTCAAAA-TTTAAATTC
*
356962 TCATACTTA--CGCTGTGTCTCGATACTTCATCATACCACTATT
65 TCATACTTATGCTCTGTGTCTCGATACTTCATCATACCACTATT
357004 CTATTGAATT
Statistics
Matches: 350, Mismatches: 43, Indels: 18
0.85 0.10 0.04
Matches are distributed among these distances:
143 28 0.08
144 25 0.07
145 84 0.24
146 10 0.03
147 73 0.21
149 91 0.26
150 39 0.11
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.36
Consensus pattern (146 bp):
AGAAAAAAGTATCGATCTTTTCACTCAGCCTATATATGATGCATACGTTTCAAAATTTAAATTCT
CATACTTATGCTCTGTGTCTCGATACTTCATCATACCACTATTGAATATATAGCACTCGAAGTTT
CAAGTATGAGAACTTC
Found at i:356885 original size:296 final size:290
Alignment explanation
Indices: 356467--357003 Score: 747
Period size: 296 Copynumber: 1.8 Consensus size: 290
356457 TAGAAAAATG
* *
356467 TATCGATCTTTTCACTCAGCCTATATATGATGAATACGTTTCGAAATTTGAAATTTCGATACTTA
1 TATCGATCTTTTCACTCAGCCTATATATGATGAATACATTTCAAAATTTGAAATTTCGATACTTA
* *
356532 TGCTCTGTCTCGATACTACATCATATCACTATTGAATATATAGCACTCGAAGTTTCAAGTATGGG
66 TGCTCTGTCTCGATACTACATCATACCACTATTGAATATATAGCACTCGAAGTTTCAAGTATGAG
* ***
356597 AGCTTCAGAAAAAAGTATCGAACTTTTCACCCAGCCTATATATGATGCAAACGTTTCAAAA-TTT
131 AACTTCAGAAAAAAGTATCGAACTTCAAACCCAGCC--TATATGATGCAAACGTTTCAAAATTTT
* * * *
356661 AAATTTTTGATACTTATGCTCTGTGTCTCGATACTTCATCATGCCACTATTGAATACATAACACT
194 AAA-TTCTCATACTTA--CGCTGTGTCTCGATACTTCATCATACCACTATTGAATACATAACACT
356726 CGAAGTTTGAAGTATGAGAACTTCAGAAAAAAAAA
256 CGAAGTTTGAAGTATGAGAACTTCAGAAAAAAAAA
* * *
356761 TATCGATCTTTTTCTCTCAGCCTATATATGATGCATATATTTCAAAATTT-AAATTCTC-ATACT
1 TATCGATC-TTTTCACTCAGCCTATATATGATGAATACATTTCAAAATTTGAAATT-TCGATACT
* * * *
356824 TATGCTCTATGTCTTGATACTTCATCATGCCATTATTGAATATATAGCACTCGAAGTTTCAAGTA
64 TATGCTC--TGTCTCGATACTACATCATACCACTATTGAATATATAGCACTCGAAGTTTCAAGTA
* * * * * *
356889 TGAGAACTTTAGAAACAAGTATCGATCTTCAAACTCAGCCTATATGATGCATATGTTTCAAAATT
127 TGAGAACTTCAGAAAAAAGTATCGAACTTCAAACCCAGCCTATATGATGCAAACGTTTCAAAATT
356954 TTAAATTCTCATACTTACGCTGTGTCTCGATACTTCATCATACCACTATT
192 TTAAATTCTCATACTTACGCTGTGTCTCGATACTTCATCATACCACTATT
357004 CTATTGAATT
Statistics
Matches: 213, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
292 31 0.15
294 56 0.26
295 44 0.21
296 82 0.38
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (290 bp):
TATCGATCTTTTCACTCAGCCTATATATGATGAATACATTTCAAAATTTGAAATTTCGATACTTA
TGCTCTGTCTCGATACTACATCATACCACTATTGAATATATAGCACTCGAAGTTTCAAGTATGAG
AACTTCAGAAAAAAGTATCGAACTTCAAACCCAGCCTATATGATGCAAACGTTTCAAAATTTTAA
ATTCTCATACTTACGCTGTGTCTCGATACTTCATCATACCACTATTGAATACATAACACTCGAAG
TTTGAAGTATGAGAACTTCAGAAAAAAAAA
Found at i:362490 original size:57 final size:57
Alignment explanation
Indices: 362264--362492 Score: 341
Period size: 57 Copynumber: 4.0 Consensus size: 57
362254 GTTGGAGGAA
* * * * **
362264 GAATACTTGCAGGTTCCTCAGCTTTGTGCTAAGAGCCTTATTGTTCTTGACGGGGAA
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
362321 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
*
362378 GAATACTTGCAGGTTCCTCAGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
* * * * * *
362435 GATTACTTGTAGGTTTCTTGGCTTTGTGCTCAGGGCCTTACTGTTCGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
362492 G
1 G
362493 TAAGGTTATG
Statistics
Matches: 158, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 158 1.00
ACGTcount: A:0.15, C:0.20, G:0.30, T:0.35
Consensus pattern (57 bp):
GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
Found at i:364208 original size:17 final size:17
Alignment explanation
Indices: 364188--364220 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
364178 AATCATTCTA
364188 ATTAA-TATGATTAATTT
1 ATTAATTATGA-TAATTT
364205 ATTAATTATGATAATT
1 ATTAATTATGATAATT
364221 AAATTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
ATTAATTATGATAATTT
Found at i:364212 original size:21 final size:20
Alignment explanation
Indices: 364186--364262 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 20
364176 TAAATCATTC
364186 TAATTAATATGATTAATTTAT
1 TAATT-ATATGATTAATTTAT
* * *
364207 TAATTATGATAATTAAATTAA
1 TAATTAT-ATGATTAATTTAT
*
364228 TAA--ATAT-ACTTAATATAT
1 TAATTATATGA-TTAATTTAT
364246 TAATTATGATGATTAAT
1 TAATTAT-ATGATTAAT
364263 ATACTTTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
17 1 0.02
18 11 0.25
19 2 0.05
20 4 0.09
21 25 0.57
22 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (20 bp):
TAATTATATGATTAATTTAT
Found at i:364286 original size:22 final size:22
Alignment explanation
Indices: 364261--364309 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
364251 ATGATGATTA
364261 ATATACTTTATA-TTTAATACTT
1 ATAT-CTTTATACTTTAATACTT
*
364283 ATATTTTTATACTTTAATACTT
1 ATATCTTTATACTTTAATACTT
364305 ATATC
1 ATATC
364310 CAAACACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (22 bp):
ATATCTTTATACTTTAATACTT
Found at i:364490 original size:24 final size:24
Alignment explanation
Indices: 364457--364502 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
364447 TTGCTGAGGG
364457 ATGAAATTGA-ATTAATTATAAATT
1 ATGAAATTGATATTAA-TATAAATT
*
364481 ATGAAGTTGATATTAATATAAA
1 ATGAAATTGATATTAATATAAA
364503 AATGGACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (24 bp):
ATGAAATTGATATTAATATAAATT
Found at i:367060 original size:32 final size:30
Alignment explanation
Indices: 367006--367100 Score: 82
Period size: 32 Copynumber: 3.0 Consensus size: 30
366996 CTTGAGATCA
*
367006 TTCTTGGGTAGGCCATACGGCCCTAAGATGT
1 TTCTTGGGTAGGCCACA-GGCCCTAAGATGT
* * * * *
367037 GTTCTTAGGTAGGCCCCATGGCCCCAAAATCT
1 -TTCTTGGGTAGGCCACA-GGCCCTAAGATGT
* *
367069 ATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TTCTTGGGTAGGC-CACAGGCCCTAAGATGT
367100 T
1 T
367101 CCCTTAGGTT
Statistics
Matches: 48, Mismatches: 14, Indels: 3
0.74 0.22 0.05
Matches are distributed among these distances:
31 21 0.44
32 27 0.56
ACGTcount: A:0.20, C:0.25, G:0.26, T:0.28
Consensus pattern (30 bp):
TTCTTGGGTAGGCCACAGGCCCTAAGATGT
Found at i:375818 original size:3 final size:3
Alignment explanation
Indices: 375810--375978 Score: 297
Period size: 3 Copynumber: 57.0 Consensus size: 3
375800 TATGTAAATG
375810 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
375858 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
375906 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA CGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
375953 TAA TAA TAA TAA TAA -AA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
375979 AAAAACCCGG
Statistics
Matches: 158, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
2 4 0.03
3 154 0.97
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:376375 original size:130 final size:130
Alignment explanation
Indices: 376165--376612 Score: 641
Period size: 130 Copynumber: 3.4 Consensus size: 130
376155 GTTCGGGTCG
* **
376165 TCTAAGGGTGACAC-GATTCCTACGTGATGAAGAAATCTGGTCGAGGGATGACACTACTCATACA
1 TCTAAGGGTGACACAG-CTCCTACGTGATGAAGAGGTCTGGTCGAGGGATGACACTACTCATACA
376229 TGATGAAGAGTTCTTGGCCATCTCAAGGTGATAACACGGTTCCTACGTGATGAGGACTACTGGTT
65 TGATGAAGAGTTCTTGGCCATCTCAAGGTGATAACACGGTTCCTACGTGATGAGGACTACTGGTT
376294 A
130 A
*
376295 TCTAAGGGTGACACAGCTCCTACGTGATGAGGAGGTCTGGTCGAGGGATGACACTACTCATACAT
1 TCTAAGGGTGACACAGCTCCTACGTGATGAAGAGGTCTGGTCGAGGGATGACACTACTCATACAT
376360 GATGAAGAGTTCTTGGCCATCTCAAGGTGATAACACGGTTCCTACGTGATGAGGACTACTGGTTA
66 GATGAAGAGTTCTTGGCCATCTCAAGGTGATAACACGGTTCCTACGTGATGAGGACTACTGGTTA
*** * *
376425 TCTAAGGGTGACACAGCTCCTACGTGATGAAGAGGTCTGGTCGAGGGATGACACGGTTCCTACGT
1 TCTAAGGGTGACACAGCTCCTACGTGATGAAGAGGTCTGGTCGAGGGATGACACTACTCATACAT
* * * * **
376490 GATGAGGACG-GC-TGGCCATCTTTAGGAGTGGTGATAACTCGGTTCCTACGTGATGAGGACGGC
66 GATGAAGA-GTTCTTGGCCATC-TCA--A--GGTGATAACACGGTTCCTACGTGATGAGGACTAC
376553 TGGTTA
125 TGGTTA
* * * *
376559 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTTGAGGAATGACAC
1 TCTAAGGGTGACACAGCTCCTACGTGATGAAGAGGTCTGGTCGAGGGATGACAC
376613 GGTTCCTATG
Statistics
Matches: 291, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
129 8 0.03
130 193 0.66
131 2 0.01
132 1 0.00
134 87 0.30
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (130 bp):
TCTAAGGGTGACACAGCTCCTACGTGATGAAGAGGTCTGGTCGAGGGATGACACTACTCATACAT
GATGAAGAGTTCTTGGCCATCTCAAGGTGATAACACGGTTCCTACGTGATGAGGACTACTGGTTA
Found at i:376488 original size:40 final size:42
Alignment explanation
Indices: 376262--376638 Score: 213
Period size: 40 Copynumber: 8.7 Consensus size: 42
376252 CAAGGTGATA
** *
376262 ACACGGTTCCTACGTGATGAGGACTACTGGTTATCTAAGGG-TG
1 ACACGGTTCCTACGTGATGAGGACGGCTGG--ATCTGAGGGATG
* *
376305 ACACAGCTCCTACGTGATGAGGA-GGTCTGG-TC-GAGGGATG
1 ACACGGTTCCTACGTGATGAGGACGG-CTGGATCTGAGGGATG
*** * * * * * *
376345 ACACTACTCATACATGATGAAGA-GTTCTTGGCCATCTCAAGGTGATA
1 ACACGGTTCCTACGTGATGAGGACG-GC-TGG--ATCT-GAGG-GATG
** *
376392 ACACGGTTCCTACGTGATGAGGACTACTGGTTATCTAAGGG-TG
1 ACACGGTTCCTACGTGATGAGGACGGCTGG--ATCTGAGGGATG
* * *
376435 ACACAGCTCCTACGTGATGAAGA-GGTCTGG-TC-GAGGGATG
1 ACACGGTTCCTACGTGATGAGGACGG-CTGGATCTGAGGGATG
*
376475 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTTAGGAGTGGTGATA
1 ACACGGTTCCTACGTGATGAGGACGGCTGG--ATC--T--GA--GG-GATG
* *
376526 ACTCGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGG-TG
1 ACACGGTTCCTACGTGATGAGGACGGCTGG--ATCTGAGGGATG
* *
376569 ACACGGCTCCTACGTGATGAGGA-GGTCTGG-T-TGAGGAATG
1 ACACGGTTCCTACGTGATGAGGACGG-CTGGATCTGAGGGATG
*
376609 ACACGGTTCCTATGTGATGAGGACGGCTGG
1 ACACGGTTCCTACGTGATGAGGACGGCTGG
376639 CCATCTTTAG
Statistics
Matches: 261, Mismatches: 45, Indels: 59
0.72 0.12 0.16
Matches are distributed among these distances:
39 12 0.05
40 80 0.31
41 7 0.03
42 2 0.01
43 78 0.30
44 4 0.02
45 6 0.02
46 10 0.04
47 22 0.08
48 2 0.01
49 1 0.00
50 2 0.01
51 35 0.13
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (42 bp):
ACACGGTTCCTACGTGATGAGGACGGCTGGATCTGAGGGATG
Found at i:376626 original size:134 final size:134
Alignment explanation
Indices: 376255--376652 Score: 592
Period size: 134 Copynumber: 3.0 Consensus size: 134
376245 GCCATCTCAA
376255 GGTGATAACACGGTTCCTACGTGATGAGGACTACTGGTTATCTAAGGGTGACACAGCTCCTACGT
1 GGTGATAACACGGTTCCTACGTGATGAGGACTACTGGTTATCTAAGGGTGACACAGCTCCTACGT
*** * * * * *
376320 GATGAGGAGGTCTGGTCGAGGGATGACACTACTCATACATGATGAAGA-GTTCTTGGCCATC-TC
66 GATGAGGAGGTCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGACG-GC-TGGCCATCTTT
376383 A--A--
129 AGGAGT
376385 GGTGATAACACGGTTCCTACGTGATGAGGACTACTGGTTATCTAAGGGTGACACAGCTCCTACGT
1 GGTGATAACACGGTTCCTACGTGATGAGGACTACTGGTTATCTAAGGGTGACACAGCTCCTACGT
*
376450 GATGAAGAGGTCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTTAG
66 GATGAGGAGGTCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTTAG
376515 GAGT
131 GAGT
* ** *
376519 GGTGATAACTCGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGT
1 GGTGATAACACGGTTCCTACGTGATGAGGACTACTGGTTATCTAAGGGTGACACAGCTCCTACGT
* * *
376584 GATGAGGAGGTCTGGTTGAGGAATGACACGGTTCCTATGTGATGAGGACGGCTGGCCATCTTTAG
66 GATGAGGAGGTCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTTAG
376649 GAGT
131 GAGT
376653 TATGATTTCA
Statistics
Matches: 245, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
129 8 0.03
130 109 0.44
131 1 0.00
132 1 0.00
134 126 0.51
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (134 bp):
GGTGATAACACGGTTCCTACGTGATGAGGACTACTGGTTATCTAAGGGTGACACAGCTCCTACGT
GATGAGGAGGTCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTTAG
GAGT
Found at i:376750 original size:31 final size:28
Alignment explanation
Indices: 376658--376753 Score: 106
Period size: 28 Copynumber: 3.3 Consensus size: 28
376648 GGAGTTATGA
* * *
376658 TTTCAAGAGAAACCGATTCAAAGATTTG
1 TTTCAAAAGAAACAGACTCAAAGATTTG
376686 TTTCAAAAGAAACAGACTCAAAGATTTG
1 TTTCAAAAGAAACAGACTCAAAGATTTG
376714 TTTCAAGAA-AAACA-AGCTCAAAGATAATGTG
1 TTTCAA-AAGAAACAGA-CTCAAAGAT--T-TG
376745 TTTCAAAAG
1 TTTCAAAAG
376754 CAACTGTCTC
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
27 1 0.02
28 45 0.76
29 2 0.03
30 3 0.05
31 8 0.14
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.26
Consensus pattern (28 bp):
TTTCAAAAGAAACAGACTCAAAGATTTG
Found at i:376944 original size:66 final size:63
Alignment explanation
Indices: 376755--376937 Score: 152
Period size: 66 Copynumber: 2.8 Consensus size: 63
376745 TTTCAAAAGC
* ** * *
376755 AACTGTCTCGAAAGAGACAAAATTCGTTTCAAATGAAAC-AACTCAAAAGATGACGTTTAAAGGG
1 AACTGTCTC-AAAGAGACAAAATTCATTTCAAGGGAAACGATCTC-AAAGATGATGTTTAAAGGG
* * * ** * * * * * *
376819 AATTGTCTCAAGCGAGATAAAATTTGTTTTTAAGGGAAACGTTCTCAAATATCGGTGTTTCATGG
1 AACTGTCTCAA-AGAGACAAAA-TTCATTTCAAGGGAAACGATCTCAAAGAT-GATGTTTAAAGG
376884 G
63 G
376885 AAACTGTCTCAAATGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATG
1 -AACTGTCTCAAA-GAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATG
376938 TTTGTTTTGT
Statistics
Matches: 90, Mismatches: 23, Indels: 11
0.73 0.19 0.09
Matches are distributed among these distances:
63 2 0.02
64 16 0.18
65 18 0.20
66 36 0.40
67 18 0.20
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (63 bp):
AACTGTCTCAAAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGATGTTTAAAGGG
Found at i:377787 original size:37 final size:37
Alignment explanation
Indices: 377730--377856 Score: 117
Period size: 37 Copynumber: 3.6 Consensus size: 37
377720 GAAACAGATT
*
377730 CAAAGATTTTTTTTCAAAAGAAAATATCTTAAGAGAGA
1 CAAA-ATTTTGTTTCAAAAGAAAATATCTTAAGAGAGA
* * *
377768 CAAAATTTTGTTTCCAAAGAAACAGA-C-TCA-A-AG-
1 CAAAATTTTGTTTCAAAAGAAA-ATATCTTAAGAGAGA
* *
377801 ---ATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGA
1 CAAAATTTTGTTTCAAAAGAAAATATCTTAAGAGAGA
*
377835 CAAAATTTTGTTTCCAAAGAAA
1 CAAAATTTTGTTTCAAAAGAAA
377857 CAGACTCAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 19
0.70 0.11 0.19
Matches are distributed among these distances:
29 1 0.01
30 18 0.26
31 2 0.03
32 1 0.01
33 2 0.03
34 2 0.03
35 1 0.01
36 2 0.03
37 34 0.49
38 6 0.09
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (37 bp):
CAAAATTTTGTTTCAAAAGAAAATATCTTAAGAGAGA
Found at i:377807 original size:30 final size:30
Alignment explanation
Indices: 377773--377903 Score: 115
Period size: 30 Copynumber: 4.1 Consensus size: 30
377763 AGAGACAAAA
*
377773 TTTTGTTTCCAAAGAAACAGACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAGACTCAAAGAT
**
377803 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAA-A-
1 TTTTGTTTCAAAAG-AA--A-C-----AGACTCAAAGAT
*
377840 TTTTGTTTCCAAAGAAACAGACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAGACTCAAAGAT
377870 TTTTGTTTCAAAAGAAACA-ATCTCAAAGAT
1 TTTTGTTTCAAAAGAAACAGA-CTCAAAGAT
377900 TTTT
1 TTTT
377904 TTCACAAAAT
Statistics
Matches: 82, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
28 7 0.09
29 2 0.02
30 44 0.54
31 2 0.02
33 2 0.02
34 2 0.02
36 2 0.02
37 13 0.16
38 1 0.01
39 7 0.09
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAACAGACTCAAAGAT
Found at i:377831 original size:67 final size:67
Alignment explanation
Indices: 377719--377886 Score: 311
Period size: 67 Copynumber: 2.5 Consensus size: 67
377709 TCATTTTAAG
*
377719 AGAAACAGATTCAAAGATTTTT-TTTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTCC
1 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTCC
377783 AA
66 AA
*
377785 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCC
1 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTCC
377850 AA
66 AA
377852 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAA
1 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAA
377887 CAATCTCAAA
Statistics
Matches: 99, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
66 21 0.21
67 78 0.79
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.30
Consensus pattern (67 bp):
AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTCC
AA
Found at i:377912 original size:30 final size:29
Alignment explanation
Indices: 377835--377912 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
377825 TTAAGAGAGA
377835 CAAA-ATTTTGTTTCC-AAAGAAACAGACT
1 CAAAGATTTT-TTTCCAAAAGAAACAGACT
*
377863 CAAAGATTTTTGTTTCAAAAGAAACA-ATCT
1 CAAAGATTTTT-TTCCAAAAGAAACAGA-CT
377893 CAAAGATTTTTTTCACAAAA
1 CAAAGATTTTTTTC-CAAAA
377913 TTGTCTCAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 5 0.12
29 11 0.26
30 27 0.63
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (29 bp):
CAAAGATTTTTTTCCAAAAGAAACAGACT
Found at i:377965 original size:52 final size:53
Alignment explanation
Indices: 377891--377994 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 53
377881 AAGAAACAAT
377891 CTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
1 CTCAAAGA-TTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
*
377945 CTCAAAGA-TTTTTCACAAAATTGTCTTAAGAGAGACAAAACTTTGTTTCA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
377995 AAAGAAATAG
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
52 41 0.84
54 8 0.16
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (53 bp):
CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
Found at i:378066 original size:29 final size:29
Alignment explanation
Indices: 377986--378074 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
377976 GAGACAAAAC
*
377986 TTTGTTTCAAAAGAAATAGACTCAAAGAT
1 TTTGTTTCAAAAGAAACAGACTCAAAGAT
378015 ATTTGTTTCAAAAGAAACA-ACTCAAAGAT
1 -TTTGTTTCAAAAGAAACAGACTCAAAGAT
*
378044 TTT-TATTCAAAAGGAACAGACTCAAAGAT
1 TTTGT-TTCAAAAGAAACAGACTCAAAGAT
378073 TT
1 TT
378075 ATCTCAAGAG
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.02
28 15 0.27
29 22 0.40
30 17 0.31
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (29 bp):
TTTGTTTCAAAAGAAACAGACTCAAAGAT
Found at i:378081 original size:28 final size:27
Alignment explanation
Indices: 377991--378088 Score: 99
Period size: 28 Copynumber: 3.4 Consensus size: 27
377981 AAAACTTTGT
* *
377991 TTCAAAAGAAATAGACTCAAAGATATTTGT
1 TTCAAAAGAAACAGACTCAAAG--ATTT-A
378021 TTCAAAAGAAACA-ACTCAAAGATTTTTA
1 TTCAAAAGAAACAGACTCAAAGA--TTTA
*
378049 TTCAAAAGGAACAGACTCAAAGATTTA
1 TTCAAAAGAAACAGACTCAAAGATTTA
*
378076 TCTCAAGAGAAAC
1 T-TCAAAAGAAAC
378089 TGTCTCAAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
27 6 0.10
28 21 0.36
29 20 0.34
30 12 0.20
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (27 bp):
TTCAAAAGAAACAGACTCAAAGATTTA
Found at i:378417 original size:36 final size:36
Alignment explanation
Indices: 378333--378436 Score: 124
Period size: 36 Copynumber: 3.0 Consensus size: 36
378323 GAGAAAATGA
* * *
378333 TGTCTCAAGCAAGACAAAATTTG-CTTTA-AGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
* **
378367 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
*
378403 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAA
378437 ACGATCTCAA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
34 19 0.33
35 10 0.17
36 29 0.50
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.33
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
Found at i:378464 original size:36 final size:36
Alignment explanation
Indices: 378334--378452 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 36
378324 AGAAAATGAT
** * *
378334 GTCTCAAGCAAGACAAAATTTG-CTTTA-AGATATA-
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGA-AAAC
* **
378368 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
* *
378404 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
378439 GATCTCAAGTGAGA
1 G-TCTCAAGTGAGA
378453 TCAACTTTGT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
34 19 0.28
35 12 0.17
36 38 0.55
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (36 bp):
GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:378583 original size:105 final size:101
Alignment explanation
Indices: 378404--378636 Score: 292
Period size: 105 Copynumber: 2.3 Consensus size: 101
378394 TAGAGAAATT
*
378404 GTCTCAAGCGAGAC-AAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAAT
1 GTCTCAAGCGAGACGAAA-TTTG-TTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAAT
* *
378468 GTGAAACAAATTCGAAATTTGAATCTCAAAGGGAAAAG
64 GTGAAACAAATTCAAAATTTGAATCTCAAAGGAAAAAG
* *
378506 GTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACGAAATTTGTTTTG--AG-AA-AACAATCTCAA-GTGAGATCAACTTTG-TT
* * *
378570 TAA-GTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
60 TAATGTGAAACAAATTCAAAATTTGAATCTCAAAGGAAAAAG
*
378611 GTCTCAAGCGAGACGCAATTTGTTTT
1 GTCTCAAGCGAGACGAAATTTGTTTT
378637 AAAATTCTCA
Statistics
Matches: 115, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
101 5 0.04
102 18 0.16
103 5 0.04
104 4 0.03
105 78 0.68
106 5 0.04
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.30
Consensus pattern (101 bp):
GTCTCAAGCGAGACGAAATTTGTTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATGT
GAAACAAATTCAAAATTTGAATCTCAAAGGAAAAAG
Found at i:380317 original size:13 final size:12
Alignment explanation
Indices: 380284--380318 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
380274 TTTTCTACGC
380284 TTTTTCTTTGAT
1 TTTTTCTTTGAT
*
380296 TTTTGCTTTGAT
1 TTTTTCTTTGAT
380308 TTTTCTCTTTG
1 TTTT-TCTTTG
380319 CTCTTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.06, C:0.11, G:0.11, T:0.71
Consensus pattern (12 bp):
TTTTTCTTTGAT
Found at i:386037 original size:3 final size:3
Alignment explanation
Indices: 386029--386101 Score: 96
Period size: 3 Copynumber: 25.0 Consensus size: 3
386019 TATGTAAATG
* **
386029 TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA T-A TAA CGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
386076 TAA TAA TAA TAA TAA -AA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
386102 AAAAAACCCG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
2 4 0.07
3 56 0.93
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:386075 original size:32 final size:32
Alignment explanation
Indices: 386034--386101 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
386024 AAATGTAATA
*
386034 ATAATAATAATAATAAAAATAATAATATAACG
1 ATAATAATAATAATAAAAATAATAAAATAACG
* *
386066 ATAATAATAATAATAATAATAATAAAATAATG
1 ATAATAATAATAATAAAAATAATAAAATAACG
386098 ATAA
1 ATAA
386102 AAAAAACCCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (32 bp):
ATAATAATAATAATAAAAATAATAAAATAACG
Found at i:386106 original size:14 final size:14
Alignment explanation
Indices: 386036--386106 Score: 65
Period size: 14 Copynumber: 5.1 Consensus size: 14
386026 ATGTAATAAT
386036 AATAATAATAATAAA
1 AATAATAATAA-AAA
* *
386051 AATAATAATATAAC
1 AATAATAATAAAAA
* *
386065 GATAATAAT--AAT
1 AATAATAATAAAAA
*
386077 AATAATAATAATAA
1 AATAATAATAAAAA
*
386091 AATAATGATAAAAA
1 AATAATAATAAAAA
386105 AA
1 AA
386107 ACCCGGACAA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
12 10 0.22
14 25 0.56
15 10 0.22
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (14 bp):
AATAATAATAAAAA
Found at i:388861 original size:44 final size:44
Alignment explanation
Indices: 388734--388864 Score: 192
Period size: 44 Copynumber: 3.0 Consensus size: 44
388724 TGCGGAAAGC
* * *
388734 GGTAAGGTCTTACCCTAT-CACATAGTAGAGGAGCCTTCAAAAAT
1 GGTAAGGTCTTACCCT-TGCACATAGCAAAGGAGCCTTCAGAAAT
* *
388778 GGTAAGGTCTTACCCTTGCACATAACAAATGAGCCTTCAGAAAT
1 GGTAAGGTCTTACCCTTGCACATAGCAAAGGAGCCTTCAGAAAT
*
388822 GGTAAGGTCTTACCCTTGCACATAGCAAAGGAGACTTCAGAAA
1 GGTAAGGTCTTACCCTTGCACATAGCAAAGGAGCCTTCAGAAA
388865 CATCCTCCAA
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 1 0.01
44 77 0.99
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (44 bp):
GGTAAGGTCTTACCCTTGCACATAGCAAAGGAGCCTTCAGAAAT
Found at i:393172 original size:3 final size:3
Alignment explanation
Indices: 393166--393419 Score: 124
Period size: 3 Copynumber: 84.7 Consensus size: 3
393156 ATTAAATAAC
* * * *
393166 ATT ATT ACTT ACT ATT ATT ACT AAT ATT ATT AGT ATT ATT ATT A-T
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* ** * *
393211 ACT ATT ATT ATT ATT ATT AATT -TT ATT AAA ATT ATT GTT ACTCT ACT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT A-T-T ATT
* * * ** * * * *
393258 ACT ATT ACT ATT ATT AAT A-T ATT A-T ATT GGT GTT GTT TTT A-T ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
393303 ATT ATT ATT ATT AAT GTT ATG ATA ATA ATT ATT ATT AATT ACT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
* * ** * * *
393349 ACT ACT ATT ATT ATT AAC ATT A-T ATT ATT ATT ATT ACT ACT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
393396 ATT ATT ATT ATT AATT ATT ATT AT
1 ATT ATT ATT ATT -ATT ATT ATT AT
393420 CATCGTTAAA
Statistics
Matches: 199, Mismatches: 40, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
2 12 0.06
3 172 0.86
4 13 0.07
5 2 0.01
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (3 bp):
ATT
Found at i:393392 original size:38 final size:38
Alignment explanation
Indices: 393332--393419 Score: 133
Period size: 38 Copynumber: 2.3 Consensus size: 38
393322 TGATAATAAT
*
393332 TATTATTAATTACTACTACTACTATTATTATTAACATTA
1 TATTATT-ATTATTACTACTACTATTATTATTAACATTA
**
393371 TATTATTATTATTACTACTACTATTATTATTATTATTA
1 TATTATTATTATTACTACTACTATTATTATTAACATTA
393409 -ATTATTATTAT
1 TATTATTATTAT
393420 CATCGTTAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
37 11 0.24
38 28 0.61
39 7 0.15
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (38 bp):
TATTATTATTATTACTACTACTATTATTATTAACATTA
Found at i:394512 original size:39 final size:39
Alignment explanation
Indices: 394460--394540 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
394450 AAACCCACCT
394460 AGAAAAACCTAAAAAATCAAGTACGCTTAAATTTAATCA
1 AGAAAAACCTAAAAAATCAAGTACGCTTAAATTTAATCA
* * ** *
394499 AGAATAACTTAAAAAATTGAGTATGCTTAAATTTAATCA
1 AGAAAAACCTAAAAAATCAAGTACGCTTAAATTTAATCA
394538 AGA
1 AGA
394541 TTAAAGGGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.52, C:0.11, G:0.10, T:0.27
Consensus pattern (39 bp):
AGAAAAACCTAAAAAATCAAGTACGCTTAAATTTAATCA
Found at i:395676 original size:45 final size:45
Alignment explanation
Indices: 395625--395778 Score: 238
Period size: 45 Copynumber: 3.4 Consensus size: 45
395615 TATAAAATCT
*
395625 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
395670 CTTACCATTTAATACCATAAGCTCATAAGCTTATTTTACCAATATA
1 CTTACCATTT-ATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
395716 CTTACCATTTGTTCCATAAGCTCGTAAGCTTATTTTACCAATACA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
395761 CTTGCCA-TTATTCCATAA
1 CTTACCATTTATTCCATAA
395779 CCATATACCA
Statistics
Matches: 100, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
44 10 0.10
45 47 0.47
46 43 0.43
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:395800 original size:20 final size:20
Alignment explanation
Indices: 395775--395817 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
395765 CCATTATTCC
* *
395775 ATAACCATATACCATAGACA
1 ATAACCATAAACAATAGACA
395795 ATAACCATAAACAATAGACA
1 ATAACCATAAACAATAGACA
395815 ATA
1 ATA
395818 GCCCAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAACCATAAACAATAGACA
Found at i:395980 original size:59 final size:59
Alignment explanation
Indices: 395879--396007 Score: 170
Period size: 59 Copynumber: 2.2 Consensus size: 59
395869 CGTAGTGCAA
* * **
395879 TCCCGAATATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGT-CAAT
* * **
395939 TCCCGAATA-GACACATAAGGTCGTGCCCGCCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTCAAT
395997 TCCCGAATATG
1 TCCCGAATATG
396008 CAACCTGCTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
58 11 0.18
59 40 0.67
60 9 0.15
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTCAAT
Found at i:398301 original size:58 final size:57
Alignment explanation
Indices: 398231--398384 Score: 191
Period size: 58 Copynumber: 2.7 Consensus size: 57
398221 AAAATTACCA
*
398231 AAATGTCACTTTTTCAAAATAATTCCCAGAATATCACCCGTTTCACAAAAAATCCCG
1 AAATGTCACTTTTTCAAAATAATTCCCAGAATGTCACCCGTTTCACAAAAAATCCCG
* * * *** * * *
398288 AAATGTCATCTTTTGCAAAAAAATTTCCAGAATGTCACATTTTTCATAAAAATTCCTG
1 AAATGTCA-CTTTTTCAAAATAATTCCCAGAATGTCACCCGTTTCACAAAAAATCCCG
*
398346 AAATGTCACATTTTTCAAAATAATTCCCAAAATGTCACC
1 AAATGTCAC-TTTTTCAAAATAATTCCCAGAATGTCACC
398385 GGGTCGGGTC
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
57 9 0.11
58 71 0.89
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (57 bp):
AAATGTCACTTTTTCAAAATAATTCCCAGAATGTCACCCGTTTCACAAAAAATCCCG
Found at i:398309 original size:29 final size:29
Alignment explanation
Indices: 398221--398383 Score: 138
Period size: 29 Copynumber: 5.7 Consensus size: 29
398211 TCCACATTCG
* *
398221 AAAATTACCAAAATGTCAC-TTTTTCAAA
1 AAAATTCCCGAAATGTCACATTTTTCAAA
* * ***
398249 ATAATTCCC-AGAATATCACCCGTTTCACAA
1 AAAATTCCCGA-AATGTCACATTTTTCA-AA
*
398279 AAAA-TCCCGAAATGTCATC-TTTTGCAAA
1 AAAATTCCCGAAATGTCA-CATTTTTCAAA
* *
398307 AAAATTTCC-AGAATGTCACATTTTTCATA
1 AAAATTCCCGA-AATGTCACATTTTTCAAA
*
398336 AAAATTCCTGAAATGTCACATTTTTCAAA
1 AAAATTCCCGAAATGTCACATTTTTCAAA
* *
398365 ATAATTCCCAAAATGTCAC
1 AAAATTCCCGAAATGTCAC
398384 CGGGTCGGGT
Statistics
Matches: 107, Mismatches: 19, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
27 1 0.01
28 22 0.21
29 76 0.71
30 8 0.07
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (29 bp):
AAAATTCCCGAAATGTCACATTTTTCAAA
Found at i:398422 original size:22 final size:23
Alignment explanation
Indices: 398384--398460 Score: 106
Period size: 22 Copynumber: 3.5 Consensus size: 23
398374 AAAATGTCAC
398384 CGGGTCGGGTCCA-TCAACGGGT
1 CGGGTCGGGTCCAGTCAACGGGT
* * *
398406 CTGGCCGGGTTC-GTCAACGGGT
1 CGGGTCGGGTCCAGTCAACGGGT
398428 CGGGTCGGG-CCAGTCAACGGGT
1 CGGGTCGGGTCCAGTCAACGGGT
398450 CGGGTCGGGTC
1 CGGGTCGGGTC
398461 AGACCGATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
21 1 0.02
22 44 0.96
23 1 0.02
ACGTcount: A:0.10, C:0.27, G:0.44, T:0.18
Consensus pattern (23 bp):
CGGGTCGGGTCCAGTCAACGGGT
Found at i:401933 original size:138 final size:137
Alignment explanation
Indices: 401740--402019 Score: 370
Period size: 138 Copynumber: 2.0 Consensus size: 137
401730 GTCAAAGGTT
* * *
401740 CATTTCGACATAAATTGTTTATAAAAGTTATCGAACGATTTTGTTAAATGCATAACGGTGCATTT
1 CATTTCGACATAAATTATGTATAAAAGTTATCGAACGATTTTGTTAAATGCATAACGGCGCATTT
* * * * *
401805 TTGTATCAGTAATGTGTGTACTTTTGGCACTA-GATGTGCAAT-CATTG-TATTCATAATGAGTT
66 TCGTATCAGTAATGTGTGTACTTTCGGCACTATG-TGTGC-ATCCA-TGCAATTCATAATAAATT
401867 TGTGAATTAC
128 TGTGAATTAC
* * *
401877 CATTTCGATATAAAATTATGTATAAAAGTTATC-AATCGATTTTGTTTAATGTATAACGGCGCAT
1 CATTTCGACAT-AAATTATGTATAAAAGTTATCGAA-CGATTTTGTTAAATGCATAACGGCGCAT
*
401941 TTTCGTATCAGTATTGTGTGTACTTTCGGCACTATGTGTGCATCCATGCAATTCATAATAAATTT
64 TTTCGTATCAGTAATGTGTGTACTTTCGGCACTATGTGTGCATCCATGCAATTCATAATAAATTT
*
402006 GTGAATTTC
129 GTGAATTAC
402015 CATTT
1 CATTT
402020 AAGCACTTCG
Statistics
Matches: 125, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
137 16 0.13
138 108 0.86
139 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (137 bp):
CATTTCGACATAAATTATGTATAAAAGTTATCGAACGATTTTGTTAAATGCATAACGGCGCATTT
TCGTATCAGTAATGTGTGTACTTTCGGCACTATGTGTGCATCCATGCAATTCATAATAAATTTGT
GAATTAC
Found at i:415196 original size:131 final size:131
Alignment explanation
Indices: 414961--415318 Score: 495
Period size: 131 Copynumber: 2.7 Consensus size: 131
414951 ATTAATATTG
* * * * *
414961 AAAATAGTAATATCTTTTCATTTCGGTTGGAGTAATAAATGACTGGTTAAAGGCATGAGAGGTCA
1 AAAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCA
* ** * **
415026 TTTATTCTTGATTGGAAATAATTAGATATTGTGGTTTTCTTTTGAATCAATATTGAATTTTAAGA
66 TTTATTCTTGATTGGAAATAATTAGATATTATCATTTTCTCTCAAATCAATATTGAATTTTAAGA
415091 C
131 C
* * * *
415092 GAAATAGTGATATCTCTTCATTTCGATTGGAGTAATGAATGACTGCTTTAAGACATGAAAGGTCA
1 AAAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCA
*
415157 TTTATTCTTGATTGGAAATAATTATATATTATCATTTTCTCTCAAATCAATATTGAATTTTAAGA
66 TTTATTCTTGATTGGAAATAATTAGATATTATCATTTTCTCTCAAATCAATATTGAATTTTAAGA
415222 C
131 C
* * *
415223 AAAATAGTGATATGTCTTCATTTCGATCGGAGTAATAAATAACTGCTTTAAGGC-TGAGAGGTCA
1 AAAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCA
** *
415287 TTTATTACCAG-TTGAAAATAATTAGATATTAT
66 TTTATT-CTTGATTGGAAATAATTAGATATTAT
415319 AGTTTTCATT
Statistics
Matches: 199, Mismatches: 27, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
130 34 0.17
131 165 0.83
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (131 bp):
AAAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCA
TTTATTCTTGATTGGAAATAATTAGATATTATCATTTTCTCTCAAATCAATATTGAATTTTAAGA
C
Found at i:418707 original size:14 final size:14
Alignment explanation
Indices: 418684--418723 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
418674 TGAGTATGGG
*
418684 AAAAATGAAAAAGA
1 AAAAAAGAAAAAGA
* *
418698 AAAAAAGAAAATGT
1 AAAAAAGAAAAAGA
418712 AAAAAAGAAAAA
1 AAAAAAGAAAAA
418724 AAGGGTTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (14 bp):
AAAAAAGAAAAAGA
Found at i:419732 original size:105 final size:105
Alignment explanation
Indices: 419571--420073 Score: 611
Period size: 105 Copynumber: 4.8 Consensus size: 105
419561 AATGAAGATT
* * * *
419571 GATCGACATTTCCAAAAGAGATCATAATGAGAAGAATTTG-CCACAAAGGAGAAAGTTCATAATG
1 GATCGACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCC-CAAAGGAGAAAGTTCATAATG
* * * *
419635 AGAATAACATATTCCTTTCAAATCCATCACAAAAGGAGGTG
65 AGAAGAACCTATTCCTTTCAGATTCATCACAAAAGGAGGTG
* * * * * *
419676 GATCGACATTTCCAGAAGATTTCATAATGATAACAACTCGTCCCAAAAGAGAAAGTTCGTAACGA
1 GATCGACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCCAAAGGAGAAAGTTCATAATGA
*
419741 GAAGAACCTATTCCTTTCAGATTCATCATAGAAAGG-GGTG
66 GAAGAACCTATTCCTTTCAGATTCATCACA-AAAGGAGGTG
419781 GATCGACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCCAAAGGAGAAAGTTCATAATGA
1 GATCGACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCCAAAGGAGAAAGTTCATAATGA
*
419846 GAAGAACCTATTCCTTTTAGATTCATCACAAAAGGAGGTG
66 GAAGAACCTATTCCTTTCAGATTCATCACAAAAGGAGGTG
* * * * *
419886 AATCGACATTTTCGGAATAGTTCATAATGAGAAGAACTCGCCCCAAAGGAGAAAGTTCATAATGA
1 GATCGACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCCAAAGGAGAAAGTTCATAATGA
* * * * *
419951 AAAGAA-CTATTCCTTTCAGATTTAGCACATAAGGAGATG
66 GAAGAACCTATTCCTTTCAGATTCATCACAAAAGGAGGTG
* * * * * **
419990 GATCTACATTTCTAGAAGAGTTCATAATGACAATAACTTG-CCTC-GTGGAGAAAAAGTTCATAA
1 GATCGACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCC-CAAAGGAG--AAAGTTCATAA
* *
420053 TGAGAAGAACTTATTTCTTTC
63 TGAGAAGAACCTATTCCTTTC
420074 TTTCATATTC
Statistics
Matches: 343, Mismatches: 48, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
103 6 0.02
104 65 0.19
105 256 0.75
106 16 0.05
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (105 bp):
GATCGACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCCAAAGGAGAAAGTTCATAATGA
GAAGAACCTATTCCTTTCAGATTCATCACAAAAGGAGGTG
Found at i:420377 original size:3 final size:3
Alignment explanation
Indices: 420371--420718 Score: 179
Period size: 3 Copynumber: 119.3 Consensus size: 3
420361 TATTATTGGC
* * * *
420371 ATT ATT ATT A-T ACT AGT ATT ATT ATT ATT ATT ATT ATT ACT ATT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * ** * * *
420418 GTT ATT AAT GTT GTT AAGT ATT ATT GTT ACG A-T ACT ACT ATT ACT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
420463 ATT ATT ATT A-T ATT A-T ATT A-T ATT -TGT GTT GTT A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
* * * * * **
420504 ATT ATT ATT ATT ATT AAT GTT ATG ATA AAT ACC ATT ATT ATT AATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* * * **
420550 ATT ACT ACT ATT ATC ATT ATT AAC ATT A-T ATT ATT A-T ATT ATT AATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* * * * *
420597 ATT ATT ATC ATT ACT ACT ATT ATC ATT ATT AAT ATT A-T ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
420643 ATT ATT AATT ATT ATT ATT ATT A-A ATT A-T ATT ATC GTT A-T ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
420686 A-T ATT GATT -TT ATT ATT ATT ACT ATT ATC ATT A
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT A
420719 AAATAAAATA
Statistics
Matches: 262, Mismatches: 61, Indels: 44
0.71 0.17 0.12
Matches are distributed among these distances:
2 29 0.11
3 219 0.84
4 14 0.05
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.55
Consensus pattern (3 bp):
ATT
Found at i:420639 original size:53 final size:56
Alignment explanation
Indices: 420537--420718 Score: 232
Period size: 56 Copynumber: 3.3 Consensus size: 56
420527 GATAAATACC
* *
420537 ATTATTATTAATTATTACTACTATTATCATTATTAACATTATATTATTATATTATTA
1 ATTATTATT-ATCATTACTACTATTATCATTATTAATATTATATTATTATATTATTA
420594 ATTATTATTATCATTACTACTATTATCATTATTAATATTATATTATTATATTATTA
1 ATTATTATTATCATTACTACTATTATCATTATTAATATTATATTATTATATTATTA
* * *
420650 ATTATTATTATTATTA--A--ATTAT-ATTATCGTTATATTATATTGATTTTATTATT-
1 ATTATTATTATCATTACTACTATTATCATTAT--TAATATTATATT-ATTATATTATTA
*
420703 ATTACTATTATCATTA
1 ATTATTATTATCATTA
420719 AAATAAAATA
Statistics
Matches: 115, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
51 5 0.04
52 5 0.04
53 25 0.22
54 11 0.10
56 60 0.52
57 9 0.08
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (56 bp):
ATTATTATTATCATTACTACTATTATCATTATTAATATTATATTATTATATTATTA
Found at i:422756 original size:2 final size:2
Alignment explanation
Indices: 422749--422775 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
422739 AGTCCTATGA
422749 AT 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 AT A
422776 CATGTTTCAC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:432183 original size:5 final size:5
Alignment explanation
Indices: 432173--432197 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
432163 ACTTTGTGCC
432173 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
432198 GTCCCTAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:432331 original size:2 final size:2
Alignment explanation
Indices: 432324--432364 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
432314 TAGTCTATGA
432324 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT A
432365 CATGTTTCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:440605 original size:23 final size:25
Alignment explanation
Indices: 440579--440633 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 25
440569 AAATCCAGCA
440579 AAGAAAATCAAAGCACTCAAA-A-G
1 AAGAAAATCAAAGCACTCAAAGAGG
* *
440602 AAGAAATTGAAAGCACTCAAAGAGG
1 AAGAAAATCAAAGCACTCAAAGAGG
440627 AAGAAAA
1 AAGAAAA
440634 AGAAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 19 0.70
24 1 0.04
25 7 0.26
ACGTcount: A:0.60, C:0.13, G:0.18, T:0.09
Consensus pattern (25 bp):
AAGAAAATCAAAGCACTCAAAGAGG
Found at i:440657 original size:15 final size:15
Alignment explanation
Indices: 440631--440663 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
440621 AAGAGGAAGA
440631 AAAAGAAAAAGAAAAG
1 AAAAGAAAAAG-AAAG
440647 AAAAG-AAAAGAAAG
1 AAAAGAAAAAGAAAG
440661 AAA
1 AAA
440664 GTTGAAGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 5 0.29
16 5 0.29
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAGAAAG
Found at i:440664 original size:4 final size:5
Alignment explanation
Indices: 440631--440663 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
440621 AAGAGGAAGA
440631 AAAAG AAAAAG AAAAG AAAAG AAAAG -AAAG AAA
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAA
440664 GTTGAAGCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:443804 original size:91 final size:91
Alignment explanation
Indices: 443629--443809 Score: 206
Period size: 91 Copynumber: 2.0 Consensus size: 91
443619 CCTAGAACAC
** *
443629 CCATGTGCCTTGCATATGACCAGCCCCCATGTGCCTTGCATGTGGATCATTTAGGTGCCAAGATG
1 CCATGTGCCTTGCATATGACCAGCCCAAATGTGCCTTGCATATGGATCATTTAGGTGCCAAGATG
* *
443694 AAGATTTCTCTCCCTATTCGGCCAAG
66 AAGATATCTATCCCTATTCGGCCAAG
** * * * *
443720 CCATGTGTTTTGCATGTGATCAGCCCAAATGTGCCTTGCATATGGTTTATTTA-GTCGCCAAGAT
1 CCATGTGCCTTGCATATGACCAGCCCAAATGTGCCTTGCATATGGATCATTTAGGT-GCCAAGAT
*
443784 GAAGGGCTATCTAT-CC-ATTCGGCCAA
65 GAA--GATATCTATCCCTATTCGGCCAA
443810 TCACCATTAC
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
90 2 0.03
91 65 0.87
92 2 0.03
93 6 0.08
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.30
Consensus pattern (91 bp):
CCATGTGCCTTGCATATGACCAGCCCAAATGTGCCTTGCATATGGATCATTTAGGTGCCAAGATG
AAGATATCTATCCCTATTCGGCCAAG
Found at i:459961 original size:5 final size:5
Alignment explanation
Indices: 459947--460001 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
459937 CCTTTCTATT
* *
459947 TTTTC TTTTTC TTTTC TTTTC ATTTT- ATTTC TTTTC ATTTC ATTTT-
1 TTTTC -TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC -TTTTC
459993 TTTTC TTTT
1 TTTTC TTTT
460002 GCTTCAAGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
4 7 0.17
5 22 0.54
6 12 0.29
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:459977 original size:15 final size:15
Alignment explanation
Indices: 459959--460001 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
459949 TTCTTTTTCT
459959 TTTCTTTTCATTTTA
1 TTTCTTTTCATTTTA
*
459974 TTTCTTTTCATTTCA
1 TTTCTTTTCATTTTA
*
459989 TTTTTTTTC-TTTT
1 TTTCTTTTCATTTT
460002 GCTTCAAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 3 0.12
15 22 0.88
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTCTTTTCATTTTA
Found at i:459977 original size:20 final size:20
Alignment explanation
Indices: 459954--460001 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
459944 ATTTTTTCTT
*
459954 TTTCTTTTCTTTTCATTTTA
1 TTTCTTTTCATTTCATTTTA
*
459974 TTTCTTTTCATTTCATTTTT
1 TTTCTTTTCATTTCATTTTA
459994 TTTCTTTT
1 TTTCTTTT
460002 GCTTCAAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTCTTTTCATTTCATTTTA
Found at i:462286 original size:15 final size:15
Alignment explanation
Indices: 462264--462301 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
462254 CAGAGCCTCT
462264 TAACATTCATCATTC
1 TAACATTCATCATTC
*
462279 TGACATTCATCATTC
1 TAACATTCATCATTC
462294 TAACATTC
1 TAACATTC
462302 TTCAGGAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (15 bp):
TAACATTCATCATTC
Found at i:470144 original size:19 final size:19
Alignment explanation
Indices: 470107--470145 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
470097 CAAAGAACTT
*
470107 AAAATCTAAGACTTGATTA
1 AAAATCTAAGACTTAATTA
470126 AAAATCTAAAGAC-TAATTA
1 AAAATCT-AAGACTTAATTA
470145 A
1 A
470146 TATTAGTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (19 bp):
AAAATCTAAGACTTAATTA
Found at i:473600 original size:243 final size:243
Alignment explanation
Indices: 473151--473711 Score: 637
Period size: 243 Copynumber: 2.3 Consensus size: 243
473141 AAACCAAATG
* * * * * *
473151 AGATCGACTCAACTTCATGACGAATGAGTCATCCGCAATATAGTTCAACTCAACAACGAGGAGCT
1 AGATAGACTCAAATTAACGACGAATGAGTCATCCACAATTTAGTT-AACTCAACAACGAGGAGCT
* ** * * *
473216 ATTTTTCAAACCAAGGTCTTCAAGTCGAATTTTAAGTTCATGACGAAGGATATTGCACTAGAAGA
65 ATTTTTC-AACCAAGGTCTTCAAGTCGAATTTCAACATCACGAAGAAGGATATTGCACTAAAAGA
* *
473281 AGAACCAAAATAAACTGTAATTTAGCTTAACTAAATAACAAGGACCTACTTCCCAATCCAATTTT
129 AGAACCAAAATAAACTGCAATTTAGCTTAACTAAACAACAAGGACCTACTTCCCAATCCAATTTT
* * * **
473346 TGAGCTAGATTTCAACTACAC-GAC-GAATGATATCATACTCAAGTCGTCTG
194 TGAGATAGATTTCAACTACACAG-CTAAAT-ATATCATACTCAAGTCATCCA
* * * * *
473396 AGATAGATTCAACTTAAC-ACGAATGAGTCATTCACAATTTAGATTACCTCAACAGCGAGGAGCT
1 AGATAGACTCAAATTAACGACGAATGAGTCATCCACAATTTAG-TTAACTCAACAACGAGGAGCT
* *
473460 ATTTTTCAACCAAGGTCTTCTAGTCGAATTTCAACATCACGAAGAAGGATATTGGACTAAAAGAA
65 ATTTTTCAACCAAGGTCTTCAAGTCGAATTTCAACATCACGAAGAAGGATATTGCACTAAAAGAA
* * * * * * * *
473525 GACCCAAAATCAACTGCGATTTAGCTTAACTCAACAACGATGAGCTATTTCCCAAGT-CAGA-TT
130 GAACCAAAATAAACTGCAATTTAGCTTAACTAAACAACAAGGACCTACTTCCCAA-TCCA-ATTT
* ** *
473588 TTGAGATAGATTTCAACTTCACAGCTAAATATATCATGTTGAAGTCATCCA
193 TTGAGATAGATTTCAACTACACAGCTAAATATATCATACTCAAGTCATCCA
* * * *
473639 AGATCGACTCAAATTCACGACGAATGAGTCATCCATAATTTAGCTTAACTCAACAACGAAGAGCT
1 AGATAGACTCAAATTAACGACGAATGAGTCATCCACAATTTAG-TTAACTCAACAACGAGGAGCT
473704 ATTTTTCA
65 ATTTTTCA
473712 GCCTAGATTT
Statistics
Matches: 264, Mismatches: 46, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
243 149 0.56
244 99 0.38
245 16 0.06
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (243 bp):
AGATAGACTCAAATTAACGACGAATGAGTCATCCACAATTTAGTTAACTCAACAACGAGGAGCTA
TTTTTCAACCAAGGTCTTCAAGTCGAATTTCAACATCACGAAGAAGGATATTGCACTAAAAGAAG
AACCAAAATAAACTGCAATTTAGCTTAACTAAACAACAAGGACCTACTTCCCAATCCAATTTTTG
AGATAGATTTCAACTACACAGCTAAATATATCATACTCAAGTCATCCA
Found at i:473972 original size:35 final size:35
Alignment explanation
Indices: 473927--473998 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 35
473917 GCATCCAAGT
* * * * *
473927 TTGACTTAACTCGCAATTGATGAGTCATCCACAAC
1 TTGAATTAACTCACAAATGAGGAGTCAACCACAAC
*
473962 TTGAATTAACTCACAAATGAGGAGTCAACCTCAAC
1 TTGAATTAACTCACAAATGAGGAGTCAACCACAAC
473997 TT
1 TT
473999 CACCTACTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.28
Consensus pattern (35 bp):
TTGAATTAACTCACAAATGAGGAGTCAACCACAAC
Found at i:476246 original size:60 final size:60
Alignment explanation
Indices: 476177--476297 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
476167 TGACCTTAGC
476177 TAACCCAAAAGGTTGATGGTGACTCCAAAAAGGTAAACTTCACTTTAGGTCAAAATGTGA
1 TAACCCAAAAGGTTGATGGTGACTCCAAAAAGGTAAACTTCACTTTAGGTCAAAATGTGA
476237 TAACCCAAAAGGTTGATGGTGACTCCAAAAAGGTAAACTTCACTTTAGGTCAAAATGTGA
1 TAACCCAAAAGGTTGATGGTGACTCCAAAAAGGTAAACTTCACTTTAGGTCAAAATGTGA
476297 T
1 T
476298 CTCGAGCCAC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (60 bp):
TAACCCAAAAGGTTGATGGTGACTCCAAAAAGGTAAACTTCACTTTAGGTCAAAATGTGA
Found at i:476404 original size:33 final size:33
Alignment explanation
Indices: 476352--476442 Score: 121
Period size: 36 Copynumber: 2.7 Consensus size: 33
476342 GATTTATATG
*
476352 GAGCAAT-AAACCAATAACTCATTAGTAAATCTA
1 GAGCAATCAAGCCAA-AACTCATTAGTAAATCTA
*
476385 GAGCAATCAAGCCAGAACTCATCATTAGTAAATCTA
1 GAGCAATCAAGCCA-AA-AC-TCATTAGTAAATCTA
476421 GAGCAATCAAGCCAAAACTCAT
1 GAGCAATCAAGCCAAAACTCAT
476443 CGTTAAATGC
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
33 11 0.22
34 7 0.14
35 4 0.08
36 29 0.57
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.21
Consensus pattern (33 bp):
GAGCAATCAAGCCAAAACTCATTAGTAAATCTA
Found at i:476417 original size:36 final size:36
Alignment explanation
Indices: 476370--476443 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
476360 AACCAATAAC
*
476370 TCATTAGTAAATCTAGAGCAATCAAGCCAGAACTCA
1 TCATTAGTAAATCTAGAGCAATCAAGCCAAAACTCA
476406 TCATTAGTAAATCTAGAGCAATCAAGCCAAAACTCA
1 TCATTAGTAAATCTAGAGCAATCAAGCCAAAACTCA
476442 TC
1 TC
476444 GTTAAATGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (36 bp):
TCATTAGTAAATCTAGAGCAATCAAGCCAAAACTCA
Found at i:482205 original size:7 final size:6
Alignment explanation
Indices: 482169--482202 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
482159 GGCCATCATT
*
482169 ATTTAC ATTTTC ATTTTC ATTTTC ATTCTTC ATT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATT-TTC ATT
482203 CTTTATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.62
Consensus pattern (6 bp):
ATTTTC
Found at i:485836 original size:18 final size:18
Alignment explanation
Indices: 485808--485854 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
485798 GCTATACAAG
*
485808 TGTGACTATTCCAAGACT
1 TGTGCCTATTCCAAGACT
* *
485826 TTTGCCTATTCTAAGACT
1 TGTGCCTATTCCAAGACT
*
485844 TGTGCCCATTC
1 TGTGCCTATTC
485855 TATATATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (18 bp):
TGTGCCTATTCCAAGACT
Found at i:498175 original size:30 final size:29
Alignment explanation
Indices: 498141--498217 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
498131 TACCTATCAC
*
498141 TTCATTCATTTCTTAGCATGT-TCCATTCA
1 TTCATTCATTTCATAGCATGTAT-CATTCA
* *
498170 GTTCATTTAATTCATAGCATGTATCATTCA
1 -TTCATTCATTTCATAGCATGTATCATTCA
*
498200 TTCAGTTCATTGCATAGC
1 TTCA-TTCATTTCATAGC
498218 CTGCAACATT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 4 0.10
30 34 0.87
31 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (29 bp):
TTCATTCATTTCATAGCATGTATCATTCA
Found at i:498480 original size:57 final size:57
Alignment explanation
Indices: 498385--498529 Score: 197
Period size: 57 Copynumber: 2.5 Consensus size: 57
498375 GAACACATTG
498385 AGCACCACCGTCACACAAACATCAGACTCGTCCTATAAAATGTATT-CCTGATACTTT
1 AGCACCACCGTCACACAAACATCAGACTCGTCCTATAAAATGTATTCCCTG-TACTTT
* * *
498442 AGCACCACCTTCACACAAA-AGTCATACTTGTGCC-ATAAAATGTATTCCCTGTACTTT
1 AGCACCACCGTCACACAAACA-TCAGACTCGT-CCTATAAAATGTATTCCCTGTACTTT
* *
498499 AGCACCACCGTCACACAGACGTCAGACTCGT
1 AGCACCACCGTCACACAAACATCAGACTCGT
498530 GCTAAATATC
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
56 1 0.01
57 69 0.91
58 6 0.08
ACGTcount: A:0.32, C:0.31, G:0.12, T:0.25
Consensus pattern (57 bp):
AGCACCACCGTCACACAAACATCAGACTCGTCCTATAAAATGTATTCCCTGTACTTT
Found at i:498583 original size:43 final size:45
Alignment explanation
Indices: 498499--498629 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 45
498489 CCTGTACTTT
* * *
498499 AGCACCACCGTCACACAGACGTCAGACTCGTGCTAAATATC-AAC
1 AGCACCATCGTCACACAGACGTCAGACTCGTGCTCAGTATCAAAC
*
498543 A-CACCATCGTCACACAGACGTCAGACTCGTGCTCAGTATCATATAAT
1 AGCACCATCGTCACACAGACGTCAGACTCGTGCTCAGTATC--A-AAC
* * *
498590 AGCACCATCATCACACAAACGTTAGACTCGTGCTCAGTAT
1 AGCACCATCGTCACACAGACGTCAGACTCGTGCTCAGTAT
498630 TATATAATAG
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
43 36 0.48
44 1 0.01
47 3 0.04
48 35 0.47
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.21
Consensus pattern (45 bp):
AGCACCATCGTCACACAGACGTCAGACTCGTGCTCAGTATCAAAC
Found at i:498617 original size:48 final size:48
Alignment explanation
Indices: 498498--498671 Score: 182
Period size: 48 Copynumber: 3.7 Consensus size: 48
498488 CCCTGTACTT
* * *
498498 TAGCACCACCGTCACACAGACGTCAGACTCGTGCT-A--A--ATATCAA
1 TAGCACCATCATCACACAAACGTCAGACTCGTGCTCAGTATCATAT-AA
* * *
498542 CA-CACCATCGTCACACAGACGTCAGACTCGTGCTCAGTATCATATAA
1 TAGCACCATCATCACACAAACGTCAGACTCGTGCTCAGTATCATATAA
* *
498589 TAGCACCATCATCACACAAACGTTAGACTCGTGCTCAGTATTATATAA
1 TAGCACCATCATCACACAAACGTCAGACTCGTGCTCAGTATCATATAA
* * *
498637 TAGCACCA-CGATCACACATACATCATACTCGTGCT
1 TAGCACCATC-ATCACACAAACGTCAGACTCGTGCT
498672 ATAAACATAA
Statistics
Matches: 112, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
43 31 0.28
44 2 0.02
46 1 0.01
47 4 0.04
48 74 0.66
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.22
Consensus pattern (48 bp):
TAGCACCATCATCACACAAACGTCAGACTCGTGCTCAGTATCATATAA
Found at i:502838 original size:21 final size:20
Alignment explanation
Indices: 502810--502849 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
502800 CACTATAGGA
*
502810 ATTTATGGCCTCGACAAAAG
1 ATTTATGGCCTCAACAAAAG
*
502830 ATTTCATGGCTTCAACAAAA
1 ATTT-ATGGCCTCAACAAAA
502850 ACTTTGATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAG
Found at i:515330 original size:21 final size:22
Alignment explanation
Indices: 515291--515333 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
515281 TATAAGACCT
*
515291 TATTTTAAAAATATAAAAATGA
1 TATTTCAAAAATATAAAAATGA
*
515313 TATTTCAAAATTA-AAAAATGA
1 TATTTCAAAAATATAAAAATGA
515334 AAATAGTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (22 bp):
TATTTCAAAAATATAAAAATGA
Found at i:518430 original size:21 final size:22
Alignment explanation
Indices: 518404--518444 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
518394 AATTTGGTGC
*
518404 AAAGA-GAATCGATACCCCCTT
1 AAAGAGGAACCGATACCCCCTT
*
518425 AAAGAGGAACCGATTCCCCC
1 AAAGAGGAACCGATACCCCC
518445 CACGGTGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.37, C:0.32, G:0.17, T:0.15
Consensus pattern (22 bp):
AAAGAGGAACCGATACCCCCTT
Found at i:518945 original size:14 final size:14
Alignment explanation
Indices: 518926--518965 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
518916 CGCATATTAA
518926 TTTTCAAAACTTGT
1 TTTTCAAAACTTGT
*
518940 TTTTC-AAACATAGT
1 TTTTCAAAAC-TTGT
518954 TTTTCAAAACTT
1 TTTTCAAAACTT
518966 TGCCCACTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.47
Consensus pattern (14 bp):
TTTTCAAAACTTGT
Found at i:520655 original size:21 final size:22
Alignment explanation
Indices: 520608--520660 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
520598 TATTTAACAA
* *
520608 AAAGGGGGAGAAGTGTAATAGT
1 AAAGGGGGAGAAGTGAAATAAT
520630 AAAGGGGGTA-AAGTGAAATAAT
1 AAAGGGGG-AGAAGTGAAATAAT
520652 -AAGGGGGAG
1 AAAGGGGGAG
520661 TAATTTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.04
21 7 0.26
22 18 0.67
23 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.42, T:0.15
Consensus pattern (22 bp):
AAAGGGGGAGAAGTGAAATAAT
Found at i:522440 original size:12 final size:12
Alignment explanation
Indices: 522423--522453 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
522413 TCCATGATTT
522423 CATCATCCCTTA
1 CATCATCCCTTA
522435 CATCATCCCTTA
1 CATCATCCCTTA
522447 CATCATC
1 CATCATC
522454 ATAGTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.42, G:0.00, T:0.32
Consensus pattern (12 bp):
CATCATCCCTTA
Found at i:526007 original size:21 final size:24
Alignment explanation
Indices: 525966--526012 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
525956 TAATAGCAAT
525966 AAGTCAGTGACCAAAATT-AAATA
1 AAGTCAGTGACCAAAATTAAAATA
*
525989 AAGT-AGTGA-CAAGATTAAAATA
1 AAGTCAGTGACCAAAATTAAAATA
526011 AA
1 AA
526013 ATAACATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 12 0.55
23 4 0.18
ACGTcount: A:0.55, C:0.09, G:0.15, T:0.21
Consensus pattern (24 bp):
AAGTCAGTGACCAAAATTAAAATA
Found at i:528116 original size:12 final size:12
Alignment explanation
Indices: 528065--528125 Score: 63
Period size: 12 Copynumber: 5.1 Consensus size: 12
528055 ATTTTTCTCA
528065 TTTTTCTTCTTT
1 TTTTTCTTCTTT
528077 TATTTTC--CTTT
1 T-TTTTCTTCTTT
* * *
528088 TCTTTTCTCCCTC
1 T-TTTTCTTCTTT
528101 TTTTTCTTCTTT
1 TTTTTCTTCTTT
528113 TTTTTCTTCTTT
1 TTTTTCTTCTTT
528125 T
1 T
528126 CATTTTTTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
11 10 0.25
12 22 0.55
13 8 0.20
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTCTTCTTT
Found at i:528140 original size:36 final size:36
Alignment explanation
Indices: 528054--528141 Score: 103
Period size: 36 Copynumber: 2.5 Consensus size: 36
528044 TTTATATTTA
528054 CATTTTTCTCA-TTTTTCTTCTTTTATTTTCCTTTT
1 CATTTTTCTCACTTTTTCTTCTTTTATTTTCCTTTT
* *
528089 C-TTTTCTCCCTCTTTTTCTTCTTTT-TTTTCTTCTTTT
1 CATTTT-TCTCACTTTTTCTTCTTTTATTTTC--CTTTT
528126 CATTTTT-TCACTTTTT
1 CATTTTTCTCACTTTTT
528142 GAAAATTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
34 4 0.09
35 9 0.20
36 20 0.45
37 7 0.16
38 4 0.09
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.72
Consensus pattern (36 bp):
CATTTTTCTCACTTTTTCTTCTTTTATTTTCCTTTT
Found at i:528319 original size:42 final size:41
Alignment explanation
Indices: 528205--528320 Score: 117
Period size: 41 Copynumber: 2.8 Consensus size: 41
528195 CATATGAAAA
* *
528205 CATCATGCTTGAAGGTCTTATAGATGGCCCGAAAGACTTAT
1 CATCATGCTTGAAAGACTTATAGATGGCCCGAAAGACTTAT
* * * * * ** *
528246 CATCTTGCTCGAAAAACTGATAGATGACCCGATGGATTTAAT
1 CATCATGCTTGAAAGACTTATAGATGGCCCGAAAGACTT-AT
528288 CATCATGCTTGAAAGACTTACT-GATGGCCCGAA
1 CATCATGCTTGAAAGACTTA-TAGATGGCCCGAA
528321 GGGCATACCA
Statistics
Matches: 57, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
41 29 0.51
42 27 0.47
43 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (41 bp):
CATCATGCTTGAAAGACTTATAGATGGCCCGAAAGACTTAT
Found at i:528663 original size:23 final size:23
Alignment explanation
Indices: 528633--528701 Score: 129
Period size: 23 Copynumber: 3.0 Consensus size: 23
528623 TATTGCTTTC
528633 TTACTTTTCAAAAGTTTCATTTT
1 TTACTTTTCAAAAGTTTCATTTT
528656 TTACTTTTCAAAAGTTTCATTTT
1 TTACTTTTCAAAAGTTTCATTTT
*
528679 TTACTTTTCAAAAATTTCATTTT
1 TTACTTTTCAAAAGTTTCATTTT
528702 CTAGAAATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.28, C:0.13, G:0.03, T:0.57
Consensus pattern (23 bp):
TTACTTTTCAAAAGTTTCATTTT
Found at i:534191 original size:18 final size:18
Alignment explanation
Indices: 534165--534216 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
534155 GCGTAGAATT
* *
534165 TGTCTCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
534183 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
534201 TGTCCTGAAGGACCAC
1 TGTCCCGAAGGACCAC
534217 ATATCGCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:534690 original size:2 final size:2
Alignment explanation
Indices: 534683--534724 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
534673 CATATAACTC
* *
534683 AT AT AT AT AT AT AT AC AT AT AT AT AT AT CAT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT A
534725 ATAACTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:534700 original size:29 final size:28
Alignment explanation
Indices: 534663--534725 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
534653 GGTATAGCTC
534663 ATATAACAT-TCATATA-ACTCATATATAT
1 ATATAACATAT-ATATATA-TCATATATAT
*
534691 ATATATACATATATATATATCATATATGT
1 ATATA-ACATATATATATATCATATATAT
534720 ATATAA
1 ATATAA
534726 TAACTTATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
28 6 0.19
29 23 0.74
30 2 0.06
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.41
Consensus pattern (28 bp):
ATATAACATATATATATATCATATATAT
Found at i:535789 original size:22 final size:22
Alignment explanation
Indices: 535739--535792 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
535729 AAAGTTCCCC
535739 TGGTATCGATACCCTCCACCTA
1 TGGTATCGATACCCTCCACCTA
*
535761 -GGTATCGATACCC-CCTCCATA
1 TGGTATCGATACCCTCCACC-TA
535782 TGGTATCGATA
1 TGGTATCGATA
535793 ATGTTCATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 4 0.14
21 15 0.52
22 10 0.34
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (22 bp):
TGGTATCGATACCCTCCACCTA
Found at i:540357 original size:84 final size:84
Alignment explanation
Indices: 540230--540594 Score: 365
Period size: 84 Copynumber: 4.4 Consensus size: 84
540220 ACCAAGCTGG
* ** * * * * **
540230 AATCGAACTCGACGGT-TTTTATTGACAGGTAGCCCTTATTGCCTTGAGCTAAGCTATAAATGAT
1 AATCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGAT
* *
540294 GTGTATTTGAGCTGAGTAT
66 GTGTCTTTGAGCTGAGTGT
*
540313 AATCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTTGCCTTAAGCTATGCTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGAT
*
540378 GTGCCTTTGAGCTGAGTGT
66 GTGTCTTTGAGCTGAGTGT
* * * * * * * *
540397 AATCGAACTTGAAGGTCTTTTGTTGGAAAATAGCCCTTCTTTCCTTGATCCATGTTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGAT
* *
540462 GTGTCTTGGAGCTGAGCGT
66 GTGTCTTTGAGCTGAGTGT
* * * ** ** *
540481 AGTCGAACTCGAAGGTATTTGGTTGGCAGATAACCCTTCTAACCTTGATTTATACTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGAT
* * *
540546 ATGCCTTTGACCTGA-TCGT
66 GTGTCTTTGAGCTGAGT-GT
* * **
540565 AGTCGAACTCAAAGGTCTTTTATTGGCAGA
1 AATCGAACTCGAAGGTCTTTGGTTGGCAGA
540595 CGACCCTTCT
Statistics
Matches: 233, Mismatches: 47, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
83 15 0.06
84 218 0.94
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (84 bp):
AATCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGAT
GTGTCTTTGAGCTGAGTGT
Found at i:540541 original size:168 final size:168
Alignment explanation
Indices: 540287--540590 Score: 421
Period size: 168 Copynumber: 1.8 Consensus size: 168
540277 GCTAAGCTAT
* * * *
540287 AAATGATGTGTATTTGAGCTGAGTATAATCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTC
1 AAATGATGTGTATTGGAGCTGAGCATAATCGAACTCGAAGGTATTTGGTTGGCAGATAACCCTTC
** * * * **
540352 TTGCCTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT-GTAATCGAACTTGAAGGTCTT
66 TAACCTTAAGCTATACTGCAAATGATATGCCTTTGACCTGA-TCGTAATCGAACTCAAAGGTCTT
*
540416 TTGTTGGAAAATAGCCCTTCTTTCCTTGATCCATGTTGC
130 TTATTGGAAAATAGCCCTTCTTTCCTTGATCCATGTTGC
* * *
540455 AAATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGGCAGATAACCCTTC
1 AAATGATGTGTATTGGAGCTGAGCATAATCGAACTCGAAGGTATTTGGTTGGCAGATAACCCTTC
* ** *
540520 TAACCTTGATTTATACTGCAAATGATATGCCTTTGACCTGATCGTAGTCGAACTCAAAGGTCTTT
66 TAACCTTAAGCTATACTGCAAATGATATGCCTTTGACCTGATCGTAATCGAACTCAAAGGTCTTT
540585 TATTGG
131 TATTGG
540591 CAGACGACCC
Statistics
Matches: 116, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
167 1 0.01
168 115 0.99
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (168 bp):
AAATGATGTGTATTGGAGCTGAGCATAATCGAACTCGAAGGTATTTGGTTGGCAGATAACCCTTC
TAACCTTAAGCTATACTGCAAATGATATGCCTTTGACCTGATCGTAATCGAACTCAAAGGTCTTT
TATTGGAAAATAGCCCTTCTTTCCTTGATCCATGTTGC
Found at i:542534 original size:95 final size:95
Alignment explanation
Indices: 542339--542601 Score: 323
Period size: 95 Copynumber: 2.7 Consensus size: 95
542329 GGCTAGCTGA
* * * ** * *
542339 ATCCATAAAGTCAGGGAGTTTAACCAATTGCTCTAGAGGGACAGTTTAA--TATCATTGTATAAA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCT-TTATTG--T--A
542402 TATTATAATCACCTTTATCAAACTAGCTGAATATT
61 TATTATAATCACCTTTATCAAACTAGCTGAATATT
*
542437 ATCCATAAAGCCGGGGCGTTTAACTAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
** *
542502 TAATCACCTTTATCAGGCTAGCTGAATCTT
66 TAATCACCTTTATCAAACTAGCTGAATATT
* * **
542532 ATCCATAAAGTCGGGGCGTTTAACCAATTGCTTTAGAGGGACAGTTCAAGCTTTATTGTATATAT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAT-T
542597 ATAAT
65 ATAAT
542602 ATTATAATTT
Statistics
Matches: 146, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
95 91 0.62
96 6 0.04
97 1 0.01
98 42 0.29
99 5 0.03
100 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (95 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
TAATCACCTTTATCAAACTAGCTGAATATT
Found at i:546756 original size:30 final size:28
Alignment explanation
Indices: 546702--546778 Score: 75
Period size: 30 Copynumber: 2.7 Consensus size: 28
546692 ATCAATAAAT
*
546702 AAAA-CAAGAAAAAAAGAAATAAAATGA
1 AAAATCAAGAAAAAAATAAATAAAATGA
** *
546729 ATCATCAAGGAAAAAATAAATAAAAAATGA
1 AAAATCAAGAAAAAAATAAAT--AAAATGA
* *
546759 AAAATAAAGTAAAAAATAAA
1 AAAATCAAGAAAAAAATAAA
546779 ACAAATATAG
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
27 2 0.05
28 14 0.36
30 23 0.59
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.13
Consensus pattern (28 bp):
AAAATCAAGAAAAAAATAAATAAAATGA
Found at i:546761 original size:18 final size:18
Alignment explanation
Indices: 546740--546779 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
546730 TCATCAAGGA
546740 AAAAATAAA-TAAAAAAT
1 AAAAATAAAGTAAAAAAT
546757 GAAAAATAAAGTAAAAAAT
1 -AAAAATAAAGTAAAAAAT
546776 AAAA
1 AAAA
546780 CAAATATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (18 bp):
AAAAATAAAGTAAAAAAT
Found at i:546966 original size:9 final size:9
Alignment explanation
Indices: 546954--547056 Score: 51
Period size: 9 Copynumber: 11.4 Consensus size: 9
546944 AAGAATGAAA
546954 AAATAATAT
1 AAATAATAT
546963 AAAT-A-AT
1 AAATAATAT
*
546970 AAATAATAA
1 AAATAATAT
546979 AAAT-ATAT
1 AAATAATAT
*
546987 AATTAAATAT
1 AAAT-AATAT
*
546997 AGATAATAGT
1 AAATAATA-T
547007 AAATACACTATTT
1 AAATA-A-TA--T
547020 AAATAA-A-
1 AAATAATAT
547027 AAATAATA-
1 AAATAATAT
547035 ATAATAATA-
1 A-AATAATAT
547044 ATAATAATA-
1 A-AATAATAT
547053 AAAT
1 AAAT
547057 GTGAGGGGAC
Statistics
Matches: 77, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
7 12 0.16
8 13 0.17
9 30 0.39
10 12 0.16
11 1 0.01
12 3 0.04
13 6 0.08
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
AAATAATAT
Found at i:546967 original size:27 final size:28
Alignment explanation
Indices: 546919--547055 Score: 86
Period size: 28 Copynumber: 4.9 Consensus size: 28
546909 TTAAAATTCT
*
546919 ATAAAAGTAATAATAATAAATAAAAAAGA
1 ATAAAAATAATAAT-ATAAATAAAAAAGA
* * *
546948 ATGAAAA-AATAATATAAATAATAAATA
1 ATAAAAATAATAATATAAATAAAAAAGA
* * *
546975 ATAAAAATATATAAT-TAAAT-ATAGATA
1 ATAAAAATA-ATAATATAAATAAAAAAGA
* * *
547002 ATAGTAAATACACT-ATTTAAATAAAAAATA
1 ATA-AAAATA-A-TAATATAAATAAAAAAGA
*
547032 ATAATAATAATAATA-ATAATAAAA
1 ATAAAAATAATAATATA-AATAAAA
547056 TGTGAGGGGA
Statistics
Matches: 87, Mismatches: 13, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
27 29 0.33
28 30 0.34
29 20 0.23
30 8 0.09
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (28 bp):
ATAAAAATAATAATATAAATAAAAAAGA
Found at i:547036 original size:3 final size:3
Alignment explanation
Indices: 547028--547053 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
547018 TTAAATAAAA
547028 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
547054 AATGTGAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Done.