Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1234
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: 51652
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
File 2 of 2
Found at i:48520 original size:25 final size:25
Alignment explanation
Indices: 48061--48520 Score: 133
Period size: 24 Copynumber: 18.8 Consensus size: 25
48051 AGGGAGAGAA
* *
48061 AAAAAAAAAAAAAAGAGGGAAGAGGGAG
1 AAAAAAAGAAAAAAGA--AAAGA-GGAG
**
48089 AAAAAAA-AAAAAAGAAAAGAAAAG
1 AAAAAAAGAAAAAAGAAAAGAGGAG
* * * *
48113 AAAAAAA-AAAAAAAAAAAAAAGAA
1 AAAAAAAGAAAAAAGAAAAGAGGAG
* *
48137 AAAAGAAAGAGGAAACGAAAAG-GG-G
1 AAAA-AAAGA-AAAAAGAAAAGAGGAG
**
48162 AAAAAGAGGAGGAGAAAAA-AAAA-AAAAG
1 AAAAA-A--A-GA-AAAAAGAAAAGAGGAG
* *
48190 AAAAAAAGAAGAAA-AAAAG-GAAAG
1 AAAAAAAGAAAAAAGAAAAGAG-GAG
* *
48214 AAAAAAAAAAAAAAAAAAAG-GGAG
1 AAAAAAAGAAAAAAGAAAAGAGGAG
* *
48238 AAAAAAAAAAAAAAAAAAAGAGGA-
1 AAAAAAAGAAAAAAGAAAAGAGGAG
* **
48262 AAAAAAA-AAAAAGGCAAAA-AAAAG
1 AAAAAAAGAAAAAAG-AAAAGAGGAG
*
48286 AAGAAAAGAAAAAAAGAGAAA-A--A-
1 AAAAAAAG-AAAAAAGA-AAAGAGGAG
**
48309 AAAAGAAAGAGAGAAGGGAAAAG-GGAAG
1 AAAA-AAAGA-A-AAAAGAAAAGAGG-AG
* * *
48337 AGAAAAGGGAAAAA-AAAAGAGG-G
1 AAAAAAAGAAAAAAGAAAAGAGGAG
*
48360 AAAAAAA-AAAAAA-AGAAGAGGATG
1 AAAAAAAGAAAAAAGAAAAGAGGA-G
** *
48384 AGGAAAAG--AAAA-AATA-AGGAG
1 AAAAAAAGAAAAAAGAAAAGAGGAG
* *
48405 AAAAAAATAAAAAAGAAAAAAGAAGGGG
1 AAAAAAAGAAAAAAG--AAAAG-AGGAG
* **
48433 AAAAAAGGAAAGAAA-AAAAGAAAAG
1 AAAAAAAGAAA-AAAGAAAAGAGGAG
*
48458 -AAAAAAG-CAAAAGAAAA-A--A-
1 AAAAAAAGAAAAAAGAAAAGAGGAG
48477 AAGAAAAAG-AAAAA-AAAAGAGGAG
1 AA-AAAAAGAAAAAAGAAAAGAGGAG
48501 AAAAAAAGAAAAAAGAAAAG
1 AAAAAAAGAAAAAAGAAAAG
48521 CATAAGGAAG
Statistics
Matches: 328, Mismatches: 57, Indels: 97
0.68 0.12 0.20
Matches are distributed among these distances:
20 6 0.02
21 17 0.05
22 20 0.06
23 47 0.14
24 116 0.35
25 38 0.12
26 21 0.06
27 25 0.08
28 35 0.11
29 3 0.01
ACGTcount: A:0.77, C:0.01, G:0.22, T:0.01
Consensus pattern (25 bp):
AAAAAAAGAAAAAAGAAAAGAGGAG
Found at i:48557 original size:27 final size:27
Alignment explanation
Indices: 48509--48585 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 27
48499 AGAAAAAAAG
* * * *
48509 AAAAAAGAAAAGCATAAGGAAGGGGGGA
1 AAAAAAAAAAAG-AAAAAGAAGGGGAGA
*
48537 AAAAAAAAAAAGGAAAAGAAGGGGAGA
1 AAAAAAAAAAAGAAAAAGAAGGGGAGA
48564 AAAGAAAAAGAAAGAAAAAGAA
1 AAA-AAAAA-AAAGAAAAAGAA
48586 AGAAAAAAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 14 0.34
28 16 0.39
29 11 0.27
ACGTcount: A:0.69, C:0.01, G:0.29, T:0.01
Consensus pattern (27 bp):
AAAAAAAAAAAGAAAAAGAAGGGGAGA
Found at i:48571 original size:123 final size:120
Alignment explanation
Indices: 48441--48792 Score: 319
Period size: 123 Copynumber: 2.9 Consensus size: 120
48431 GGAAAAAAGG
*
48441 AAAGAAAA-AAAGAAAAGAAAAAAGCAAAAGAAAAAAAAGAAAAAGAAAAAAAAAGAGGAGAAAA
1 AAAGAAAAGAAAGAAAAGAAAAAAG-AAAAGAAAAAAAGGAAAAAGAAAAAAAAAGAGGAGAAAA
*
48505 AAAGAAAAAAGAAAAGCATAAGGAAGGGGGGAAAAAAAAAAAAGGAAAAGAAGGGGAGA
65 AAAGAAAAAAGAAAAG-A-AAGGAAGGGAGGAAAAAAAAAAAAGGAAAAGAAGGGGA-A
* * * ** *
48564 AAAGAAAAAGAAAGAAAAAGAAAGAA-AAAAG-AAAAAAGGAAGAACAAAAAAAAAGAAAAAAAA
1 AAAG-AAAAGAAAG-AAAAGAAAAAAGAAAAGAAAAAAAGGAAAAAGAAAAAAAAAGAGGAGAAA
** * *
48627 AAAAGGGAAAAG-AAA-AAAGAAAGAGAGG-AAAAAAAAAAAGGAAAAGAAGGGGAA
64 AAAAGAAAAAAGAAAAGAAAGGAAGGGAGGAAAAAAAAAAAAGGAAAAGAAGGGGAA
* * *
48681 GAAGAAAGAGGGAAA-AAAA-AAAAAAGAAAAAGGAAAAGAAGGGAAAAAGAGAGAAAAAAAAAA
1 AAAGAAA-A--GAAAGAAAAGAAAAAAG-AAAA-GAAAA-AAAGG-AAAA-AGA-AAAAAAAAGA
* * *
48744 GGGGAAAAAGAA-AAAAAAGAAAAG-GAGAGAAGGGAAGAAAAAAAAAAAA
57 GGAGAAAAA-AAGAAAAAAGAAAAGAAAG-GAAGGGAGGAAAAAAAAAAAA
48793 AAAAGGGAAA
Statistics
Matches: 182, Mismatches: 28, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
116 8 0.04
117 9 0.05
118 29 0.16
119 14 0.08
120 4 0.02
121 4 0.02
122 6 0.03
123 42 0.23
124 28 0.15
125 11 0.06
126 16 0.09
127 11 0.06
ACGTcount: A:0.74, C:0.01, G:0.24, T:0.00
Consensus pattern (120 bp):
AAAGAAAAGAAAGAAAAGAAAAAAGAAAAGAAAAAAAGGAAAAAGAAAAAAAAAGAGGAGAAAAA
AAGAAAAAAGAAAAGAAAGGAAGGGAGGAAAAAAAAAAAAGGAAAAGAAGGGGAA
Found at i:48572 original size:6 final size:6
Alignment explanation
Indices: 48563--48720 Score: 67
Period size: 6 Copynumber: 26.2 Consensus size: 6
48553 AGAAGGGGAG
* **
48563 AAAAGA AAAAG- -AAAGA AAAAGA AAGA-A AAAAGA AAAA-A GGAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
* * *
48607 ACAAAAA AAAAGAA AAAAAA AAAAGGG AAAAGAA AAAAGA AAGAGAGGA
1 A-AAAGA AAAAG-A AAAAGA AAAA-GA AAAAG-A AAAAGA AA-A-A-GA
* * *** * * * *
48656 AAAAAA AAAAGG AAAAGA AGGGGA AGAAGA AAGAGG GAAA-A AAAA-A
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
*
48702 AAAAGA AAAAGG AAAAGA A
1 AAAAGA AAAAGA AAAAGA A
48721 GGGAAAAAGA
Statistics
Matches: 110, Mismatches: 30, Indels: 24
0.67 0.18 0.15
Matches are distributed among these distances:
4 4 0.04
5 15 0.14
6 65 0.59
7 20 0.18
8 2 0.02
9 4 0.04
ACGTcount: A:0.77, C:0.01, G:0.23, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:48585 original size:21 final size:21
Alignment explanation
Indices: 48561--48674 Score: 64
Period size: 21 Copynumber: 5.4 Consensus size: 21
48551 AAAGAAGGGG
48561 AGAAAAGAAAAAGAAAGAAAA
1 AGAAAAGAAAAAGAAAGAAAA
48582 AG-AAAGAAAAAAGAAA-AAAGGA
1 AGAAAAG-AAAAAGAAAGAAA--A
*
48604 AGAACA-AAAAA-AAAGAAAA
1 AGAAAAGAAAAAGAAAGAAAA
**
48623 A-AAAA-AAAGGGAAAAGAAAAA
1 AGAAAAGAAAAAG-AAAG-AAAA
48644 AGAAAGAGAGGAAAA-AAA-AAAA
1 AGAAA-AGA--AAAAGAAAGAAAA
*
48666 GGAAAAGAA
1 AGAAAAGAA
48675 GGGGAAGAAG
Statistics
Matches: 73, Mismatches: 7, Indels: 28
0.68 0.06 0.26
Matches are distributed among these distances:
18 6 0.08
19 3 0.04
20 14 0.19
21 27 0.37
22 14 0.19
23 3 0.04
24 4 0.05
26 2 0.03
ACGTcount: A:0.79, C:0.01, G:0.20, T:0.00
Consensus pattern (21 bp):
AGAAAAGAAAAAGAAAGAAAA
Found at i:48619 original size:31 final size:29
Alignment explanation
Indices: 48578--48671 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 29
48568 AAAAAGAAAG
*
48578 AAAAAGAAAGAAAAAAGAAAAAAGGAAGAAC
1 AAAAAAAAAGAAAAAA-AAAAAAGGAA-AAC
*
48609 AAAAAAAAAGAAAAAAAAAAAAGGGAAAAGA
1 AAAAAAAAAGAAAAAAAAAAAA-GGAAAA-C
48640 AAAAAGAAAGAGAGGAAAAAAAAAAAGGAAAA
1 AAAAA-AAA-AGA--AAAAAAAAAAAGGAAAA
48672 GAAGGGGAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
30 8 0.15
31 24 0.44
32 3 0.05
33 3 0.05
34 6 0.11
35 11 0.20
ACGTcount: A:0.80, C:0.01, G:0.19, T:0.00
Consensus pattern (29 bp):
AAAAAAAAAGAAAAAAAAAAAAGGAAAAC
Found at i:48686 original size:39 final size:34
Alignment explanation
Indices: 48569--48759 Score: 115
Period size: 35 Copynumber: 5.3 Consensus size: 34
48559 GGAGAAAAGA
* ** *
48569 AAAAGAAAGAA-AAAGAAAGAAAAAAGAAAAAAGG
1 AAAAGAAAAAAGAAAGAGGGAAAAAA-AAAAAGGG
*
48603 AAGAACAAAAAA-AAAGA---AAAAAAAAAAAGGG
1 AA-AAGAAAAAAGAAAGAGGGAAAAAAAAAAAGGG
48634 AAAAGAAAAAAGAAAGAGAGGAAAAAAAAAAA-GG
1 AAAAGAAAAAAGAAAGAG-GGAAAAAAAAAAAGGG
* *
48668 AAAAGAAGGGGAAGAAGAAAGAGGGAAAAAAAAAAAAAGA
1 AAAAGAA----AA-AAGAAAGAGGG-AAAAAAAAAAAGGG
* *
48708 AAAAGGAAAAGAAGGGAAAAAGAGAGAAAAAAAAAAGGGG
1 AAAA-GAAAA-AA--G--AAAGAGGGAAAAAAAAAAAGGG
48748 AAAAAGAAAAAA
1 -AAAAGAAAAAA
48760 AAGAAAAGGA
Statistics
Matches: 129, Mismatches: 9, Indels: 33
0.75 0.05 0.19
Matches are distributed among these distances:
30 8 0.06
31 14 0.11
32 6 0.05
34 11 0.09
35 23 0.18
37 5 0.04
38 4 0.03
39 23 0.18
40 21 0.16
41 14 0.11
ACGTcount: A:0.75, C:0.01, G:0.24, T:0.00
Consensus pattern (34 bp):
AAAAGAAAAAAGAAAGAGGGAAAAAAAAAAAGGG
Found at i:48703 original size:80 final size:84
Alignment explanation
Indices: 48612--48804 Score: 211
Period size: 80 Copynumber: 2.3 Consensus size: 84
48602 GAAGAACAAA
48612 AAAAAAGAAAAAAAAAAAAGGGAAAAGAA-AAAAGAAAGAGAGGAAAAAAAAAA-AGG-AAAAGA
1 AAAAAA-AAAAAAAAAAAAGGGAAAAGAAGAAAA-AAAGAGA-GAAAAAAAAAAGAGGAAAAAGA
****
48674 AGGGGAAG-AA-GAAAG-AGGG
63 AAAAAAAGAAAGGAAAGAAGGG
** *
48693 AAAAAAAAAAAAAGAAAAA-GGAAAAGAAGGGAAAAAGAGAGAAAAAAAAAAGGGGAAAAAGAAA
1 AAAAAAAAAAAAA-AAAAAGGGAAAAGAAGAAAAAAAGAGAGAAAAAAAAAAGAGGAAAAAGAAA
*
48757 AAAAAGAAAAGGAGAGAAGGG
65 AAAAAG-AAAGGAAAGAAGGG
48778 AAGAAAAAAAAAAAAAAAAGGGAAAAG
1 AA-AAAAAAAAAAAAAAAAGGGAAAAG
48805 GGGGAGGGAA
Statistics
Matches: 94, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
79 11 0.12
80 25 0.27
81 23 0.24
83 2 0.02
84 4 0.04
85 11 0.12
86 18 0.19
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (84 bp):
AAAAAAAAAAAAAAAAAAGGGAAAAGAAGAAAAAAAGAGAGAAAAAAAAAAGAGGAAAAAGAAAA
AAAAGAAAGGAAAGAAGGG
Found at i:48717 original size:15 final size:15
Alignment explanation
Indices: 48699--48758 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
48689 AGGGAAAAAA
48699 AAAAAAAGAAAAAGG
1 AAAAAAAGAAAAAGG
*
48714 AAAAGAAGGGAAAAAGAG
1 AAAA-AA-AGAAAAAG-G
*
48732 AGAAAAA-AAAAAGG
1 AAAAAAAGAAAAAGG
**
48746 GGAAAAAGAAAAA
1 AAAAAAAGAAAAA
48759 AAAGAAAAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 7 0.19
15 15 0.41
16 2 0.05
17 9 0.24
18 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAGG
Found at i:48761 original size:118 final size:115
Alignment explanation
Indices: 48579--48855 Score: 245
Period size: 120 Copynumber: 2.4 Consensus size: 115
48569 AAAAGAAAGA
48579 AAAAGAAAGAAAAAAGAAAAAAGGAAGAACAAAAAAAAAGAAAAAAAAAAAAGGGAAAAGAAAAA
1 AAAA-AAA-AAAAAAGAAAAAAGGAAGAACAAAAAAAAAGAAAAAAAAAAAAGGGAAAAGAAAAA
*
48644 -AGAA-AGAG-A-GGAAAAAAAAAAAGGAAAAGAAGGGGAAGAAGAAAGAGGG
64 GAAAAGAGAGAAGGGAAAAAAAAAAAGGAAAAGAAGGGGAA-AAGAAAGAGGG
* * *
48693 AAAAAAAAAAAAAG-AAAAAGGAA-AAGAAGGGAAAAAGAGAGAAAAAAAAAAGGGGAAAAAGAA
1 AAAAAAAAAAAAAGAAAAAAGGAAGAACAA---AAAAAAAGA-AAAAAAAAAAAGGG-AAAAG--
* ***
48756 AAAAAAGAAAAGGAGAGAAGGGAAGAAAAAAAAA--AAAA-AAAGGGAAAAGGGGGAGGG
59 -AAAAAGAAAA-GAGAGAAGGGAA-AAAAAAAAAGGAAAAGAAGGGGAAAAGAAAGAGGG
* * *
48813 AAAAAAAAAAAAA-AGGAGAAGG-GGAA-AAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAGA-AAAAAGGAAGAACAAAAAAAAAGAAAAAAA
48856 GGGGAGGGGA
Statistics
Matches: 134, Mismatches: 12, Indels: 32
0.75 0.07 0.18
Matches are distributed among these distances:
110 4 0.03
111 9 0.07
112 7 0.05
113 11 0.08
114 17 0.13
115 5 0.04
116 6 0.04
117 8 0.06
118 5 0.04
119 3 0.02
120 23 0.17
121 18 0.13
122 5 0.04
123 4 0.03
124 9 0.07
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (115 bp):
AAAAAAAAAAAAAGAAAAAAGGAAGAACAAAAAAAAAGAAAAAAAAAAAAGGGAAAAGAAAAAGA
AAAGAGAGAAGGGAAAAAAAAAAAGGAAAAGAAGGGGAAAAGAAAGAGGG
Found at i:48766 original size:39 final size:37
Alignment explanation
Indices: 48562--48774 Score: 147
Period size: 39 Copynumber: 5.7 Consensus size: 37
48552 AAGAAGGGGA
*
48562 GAAAAGAAAAAGAAAGAAAAAGAAAGAAAAAAGAAAAAAG
1 GAAAAGAAAAA-AAAGAAAAAGAGAG-AAAAA-AAAAAAG
* *
48602 G--AAG-AACAAAA-AAAAAGA-A-AAAAAAAAAAGG
1 GAAAAGAAAAAAAAGAAAAAGAGAGAAAAAAAAAAAG
*
48633 GAAAAG--AAAAAAGAAAGAGAG-GAAAAAAAAAAAG
1 GAAAAGAAAAAAAAGAAAAAGAGAGAAAAAAAAAAAG
* * * * *
48667 GAAAAGAAGGGGAAGAAGAAAGAGGGAAAAAAAAAAAAAG
1 GAAAAGAA---AAAAAAGAAAAAGAGAGAAAAAAAAAAAG
* ** *
48707 AAAAAGGAAAAGAAGGGAAAAAGAGAGAAAAAAAAAAGGG
1 GAAAA-GAAAA-AAAAGAAAAAGAGAGAAAAAAAAAA-AG
*
48747 GAAAAAGAAAAAAAAGAAAAGGAGAGAA
1 G-AAAAGAAAAAAAAGAAAAAGAGAGAA
48775 GGGAAGAAAA
Statistics
Matches: 136, Mismatches: 22, Indels: 31
0.72 0.12 0.16
Matches are distributed among these distances:
31 7 0.05
32 10 0.07
33 9 0.07
34 18 0.13
35 7 0.05
36 3 0.02
37 3 0.02
38 4 0.03
39 45 0.33
40 23 0.17
41 7 0.05
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (37 bp):
GAAAAGAAAAAAAAGAAAAAGAGAGAAAAAAAAAAAG
Found at i:48779 original size:30 final size:30
Alignment explanation
Indices: 48689--49219 Score: 147
Period size: 30 Copynumber: 17.5 Consensus size: 30
48679 AAGAAGAAAG
*
48689 AGGGAAAAA-AAAAAAAAGAAAAAGGAAAAGA
1 AGGGAAAAAGAAAAAAAA-AAAAAGG-AGAGA
* *
48720 AGGGAAAAAG-AGAGAAAAAAAA--A-AG-
1 AGGGAAAAAGAAAAAAAAAAAAAGGAGAGA
*
48745 -GGGAAAAAGAAAAAAAAGAAAAGGAGAGA
1 AGGGAAAAAGAAAAAAAAAAAAAGGAGAGA
*
48774 AGGGAAGAAA-AAAAAAAAAAAAAGG-GAAA
1 AGGGAA-AAAGAAAAAAAAAAAAAGGAGAGA
** **
48803 AGGGGGAGGGAAAAAAAAAAAAAAGGAGA-A
1 AGGGAAAAAG-AAAAAAAAAAAAAGGAGAGA
*
48833 GGGGAAAAA-AAAAAAGAAAAAAAGG-G-GA
1 AGGGAAAAAGAAAAAA-AAAAAAAGGAGAGA
* * *
48861 GGGGAGAAAGGAGAAAAAAAAAAAGGAAGGCAAAAGGG
1 AGGGA-AAA--AGAAAAAAAAAAA--AAGG--AGA-GA
* *
48899 AGAGGAAAAAGAAAAAAAAAAAGAA-AAAAGA
1 AG-GGAAAAAGAAAAAAAAAAA-AAGGAGAGA
*
48930 AGGGAAAAA-AAAAAAAGGAAAAAAAGAG-GA
1 AGGGAAAAAGAAAAAAA--AAAAAAGGAGAGA
*
48960 A---AAAAA-AAAAGGGGAAAAAAAAAGGAGAAAAAAA
1 AGGGAAAAAGAAAA----AAAAAAAAAGGAG----AGA
* *
48994 AGGGAAAAAAAAAAAAAAAGAAAAGGAAAAGA
1 AGGGAAAAAGAAAAAAAAA-AAAAGG-AGAGA
** * * *
49026 AGGAGGGGAAAGAAAAGAGAAAAAA-TA-A-A
1 A-G-GGAAAAAGAAAAAAAAAAAAAGGAGAGA
* *
49055 AGGGAGAAAAAAAAAAGAAAAAAAAAGGGAAGACAA
1 A-GG-GAAAAAGAAAA-AAAAAAAAA-GG-AGA-GA
**
49091 AAAGAAAAA-AAAAAAAAAAAAAGGA-AGA
1 AGGGAAAAAGAAAAAAAAAAAAAGGAGAGA
* *
49119 A-AG-AAAA-AAAAAAAAAAAAAGGAGAAA
1 AGGGAAAAAGAAAAAAAAAAAAAGGAGAGA
* * * *
49146 AGGAGGGAAAA-AAAGAAAACAAAAGAAG-GA
1 A-G-GGAAAAAGAAAAAAAAAAAAAGGAGAGA
* * * *
49176 AAGGAAAAGGTAAAAAAGAAAAAGGAG-G-
1 AGGGAAAAAGAAAAAAAAAAAAAGGAGAGA
49204 -GGAGAAAAAGAAAAAA
1 AGG-GAAAAAGAAAAAA
49220 GAAAGATAAA
Statistics
Matches: 381, Mismatches: 59, Indels: 123
0.68 0.10 0.22
Matches are distributed among these distances:
24 9 0.02
25 9 0.02
26 22 0.06
27 17 0.04
28 35 0.09
29 61 0.16
30 68 0.18
31 57 0.15
32 21 0.06
33 14 0.04
34 26 0.07
35 9 0.02
36 16 0.04
37 5 0.01
38 9 0.02
39 3 0.01
ACGTcount: A:0.73, C:0.01, G:0.27, T:0.00
Consensus pattern (30 bp):
AGGGAAAAAGAAAAAAAAAAAAAGGAGAGA
Found at i:48826 original size:23 final size:23
Alignment explanation
Indices: 48800--48847 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
48790 AAAAAAAGGG
* *
48800 AAAAGGGGGAGGGAAAAAAAAAA
1 AAAAGGAGAAGGGAAAAAAAAAA
*
48823 AAAAGGAGAAGGGGAAAAAAAAA
1 AAAAGGAGAAGGGAAAAAAAAAA
48846 AA
1 AA
48848 GAAAAAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (23 bp):
AAAAGGAGAAGGGAAAAAAAAAA
Found at i:48857 original size:23 final size:23
Alignment explanation
Indices: 48810--48860 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
48800 AAAAGGGGGA
*
48810 GGGAAAAAAAAAAAAAAGGAGAAG
1 GGGAAAAAAAAAAAAAA-GAAAAG
48834 GGGAAAAAAAAAAAGAAA-AAAAG
1 GGGAAAAAAAAAAA-AAAGAAAAG
48857 GGGA
1 GGGA
48861 GGGGAGAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 8 0.32
24 14 0.56
25 3 0.12
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (23 bp):
GGGAAAAAAAAAAAAAAGAAAAG
Found at i:48867 original size:36 final size:35
Alignment explanation
Indices: 48826--48927 Score: 109
Period size: 37 Copynumber: 2.8 Consensus size: 35
48816 AAAAAAAAAA
*
48826 AGGAGAAGGGGAAAAAAAAAAAGAAAAAAAGGGGAG
1 AGGAGAAGGAGAAAAAAAAAAAGAAAAAAA-GGGAG
* *
48862 GGGAGAAAGGAGAAAAAAAAAAAGGAAGGCAAAAGGGAG
1 AGGAG-AAGGAGAAAAAAAAAAA-GAA--AAAAAGGGAG
*
48901 AGGA-AA-AAGAAAAAAAAAAAGAAAAAA
1 AGGAGAAGGAGAAAAAAAAAAAGAAAAAA
48928 GAAGGGAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
33 3 0.05
35 3 0.05
36 17 0.30
37 18 0.32
38 3 0.05
39 8 0.14
40 4 0.07
ACGTcount: A:0.68, C:0.01, G:0.31, T:0.00
Consensus pattern (35 bp):
AGGAGAAGGAGAAAAAAAAAAAGAAAAAAAGGGAG
Found at i:48987 original size:86 final size:87
Alignment explanation
Indices: 48908--49141 Score: 73
Period size: 86 Copynumber: 2.7 Consensus size: 87
48898 GAGAGGAAAA
* *
48908 AGAAAAAAAAA-AAGAAAAAAGAAGGGAAAAAAAAAAAAGGAAAAA-AAGAGGAAAAAAAAAAAG
1 AGAAAAAAAAAGGAGAAAAAA-AA--GAAAAAAAAAAAA--AAAAAGAAAAGGAAAAAAAAAAA-
* * * *
48971 GGGAAA-AAAAAAGGAGAAAAAAAAGGG
60 AGGAAAGAAAAGAGAAAAAAAAAAAGGG
* ** **** * *
48998 A-AAAAAAAAA--A-AAAAGAAAAGGAAAAGAAGGAGGGGAAAGAAAAGAGAAAAAATAAAAGGG
1 AGAAAAAAAAAGGAGAAAA-AAAA-GAAAAAAAAAAAAAAAAAGAAAAG-GAAAAAAAAAAAAGG
*
49059 AGAA-AAAA-AAAAGAAAAAAAAAGGG
63 A-AAGAAAAGAGAA-AAAAAAAAAGGG
* * ** * *
49084 A-AGACAAAAA-GA-AAAAAAAA-AAAAAAAAAGGAAGAAAGAAAA-AAAAAAAAAAAAAGGA
1 AGAAAAAAAAAGGAGAAAAAAAAGAAAAAAAAAAAAAAAAAGAAAAGGAAAAAAAAAAAAGGA
49142 GAAAAGGAGG
Statistics
Matches: 115, Mismatches: 23, Indels: 20
0.73 0.15 0.13
Matches are distributed among these distances:
82 13 0.11
84 19 0.17
85 10 0.09
86 49 0.43
87 11 0.10
88 3 0.03
89 9 0.08
90 1 0.01
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.00
Consensus pattern (87 bp):
AGAAAAAAAAAGGAGAAAAAAAAGAAAAAAAAAAAAAAAAAGAAAAGGAAAAAAAAAAAAGGAAA
GAAAAGAGAAAAAAAAAAAGGG
Found at i:49147 original size:26 final size:26
Alignment explanation
Indices: 48905--49245 Score: 123
Period size: 26 Copynumber: 12.7 Consensus size: 26
48895 AGGGAGAGGA
*
48905 AAAAGAAAAAAAAAAAGAAAAAAGAAGGG
1 AAAAGAAAAAAAAAAA-AAAAAAG--GAG
*
48934 AAAA-AAAAAAAAGGAAAAAAAGAGGA-
1 AAAAGAAAAAAAA--AAAAAAAAAGGAG
**
48960 AAAA-AAAAAAGGGGAAAAAAAAAGGAG
1 AAAAGAAAAAA--AAAAAAAAAAAGGAG
***
48987 AAAA-AAAAGGGAAAAAAAAAA--A-
1 AAAAGAAAAAAAAAAAAAAAAAGGAG
** * **
49009 AAAAG-AAAAGGAAAAGAAGGAGG-G
1 AAAAGAAAAAAAAAAAAAAAAAGGAG
* * *
49033 GAAAGAAAAGAGAAAAAATAAAAGGGAG
1 AAAAGAAAA-A-AAAAAAAAAAAAGGAG
* *
49061 AAAA-AAAAAAGAAAAAAAAAGGGAAG
1 AAAAGAAAAAAAAAAAAAAAAAGG-AG
49087 ACAAAAAGAAAAAAAAAAAAAAAAAAGGA-
1 ---AAAAG-AAAAAAAAAAAAAAAAAGGAG
49116 AGAAAGAAAAAAAAAAAAAAAAAGGAG
1 A-AAAGAAAAAAAAAAAAAAAAAGGAG
* *
49143 AAAAGGAGGGAAAAAAAGAAAACAAAAGAAGG
1 AAAA-GA---AAAAAAA-AAAAAAAAAGGA-G
* * *
49175 AAAGGAAAAGGTAAAAAAGAAAAAGGAG
1 AAAAGAAAA--AAAAAAAAAAAAAGGAG
*** * * *
49203 GGGAG-AAAAAGAAAAAAGAAA-GATA
1 AAAAGAAAAAAAAAAAAAAAAAGGA-G
49228 AAAAGAAAAAAAAAAAAA
1 AAAAGAAAAAAAAAAAAA
49246 GCGGAAAAAA
Statistics
Matches: 237, Mismatches: 44, Indels: 65
0.68 0.13 0.19
Matches are distributed among these distances:
22 16 0.07
23 1 0.00
24 6 0.03
25 36 0.15
26 60 0.25
27 31 0.13
28 17 0.07
29 23 0.10
30 14 0.06
31 29 0.12
32 4 0.02
ACGTcount: A:0.76, C:0.01, G:0.22, T:0.01
Consensus pattern (26 bp):
AAAAGAAAAAAAAAAAAAAAAAGGAG
Found at i:49147 original size:34 final size:33
Alignment explanation
Indices: 49061--49364 Score: 110
Period size: 31 Copynumber: 9.3 Consensus size: 33
49051 TAAAAGGGAG
* *
49061 AAAAAAAAAAGAAAAA-A-AAAGGGAAGACAA-A
1 AAAAAAAAAAAAAAAAGAGAAAAGGAAGA-AAGA
*
49092 AAGAAAAAAAAAAAAA-A-AAAAGGAAGAAAGA
1 AAAAAAAAAAAAAAAAGAGAAAAGGAAGAAAGA
*
49123 AAAAAAAAAAAAAAAAGGAGAAAAGG-AG--GGA
1 AAAAAAAAAAAAAAAA-GAGAAAAGGAAGAAAGA
* * * *
49154 AAAAAAGAAAACAAAAGAAGGAAAGGAA-AAGGTA
1 AAAAAAAAAAAAAAAAG-AGAAAAGGAAGAAAG-A
** *** * *
49188 AAAAAGAAAAAGGAGGGGAGAAAAAGAAAAAAGA
1 AAAAA-AAAAAAAAAAAGAGAAAAGGAAGAAAGA
49222 AAGATAAAAAGAAAAAAAA-A-AAAAGCG--GAAA-A
1 AA-A-AAAAA-AAAAAAAAGAGAAAAG-GAAGAAAGA
* * *
49254 AAAAAAGAAAAGAGAAAGA-AAGAGAGAAGAAA-A
1 AAAAAA-AAAAAAAAAAGAGAAAAG-GAAGAAAGA
* *
49287 AAAAGAGAAGAAGAAGAAAAG-GAAAAGG--GGAAGA
1 AAAA-A-AA-AA-AAAAAAAGAGAAAAGGAAGAAAGA
* *
49321 AAAAAAAAAATGAAAAAA-AAAAAAGGAAGGAA-A
1 AAAAAAAAAA--AAAAAAGAGAAAAGGAAGAAAGA
49354 AAAAAAAAAAA
1 AAAAAAAAAAA
49365 GGGAGGGAGA
Statistics
Matches: 208, Mismatches: 35, Indels: 60
0.69 0.12 0.20
Matches are distributed among these distances:
30 13 0.06
31 75 0.36
32 17 0.08
33 32 0.15
34 38 0.18
35 19 0.09
36 14 0.07
ACGTcount: A:0.76, C:0.01, G:0.22, T:0.01
Consensus pattern (33 bp):
AAAAAAAAAAAAAAAAGAGAAAAGGAAGAAAGA
Found at i:49157 original size:1 final size:1
Alignment explanation
Indices: 49061--49138 Score: 57
Period size: 1 Copynumber: 78.0 Consensus size: 1
49051 TAAAAGGGAG
* *** * * * ** * *
49061 AAAAAAAAAAGAAAAAAAAAGGGAAGACAAAAAGAAAAAAAAAAAAAAAAAAGGAAGAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
49126 AAAAAAAAAAAAA
1 AAAAAAAAAAAAA
49139 GGAGAAAAGG
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.86, C:0.01, G:0.13, T:0.00
Consensus pattern (1 bp):
A
Found at i:49232 original size:12 final size:11
Alignment explanation
Indices: 49210--49288 Score: 63
Period size: 11 Copynumber: 6.9 Consensus size: 11
49200 GAGGGGAGAA
49210 AAAGAAAAAAG
1 AAAGAAAAAAG
49221 AAAGATAAAAAG
1 AAAGA-AAAAAG
*
49233 AAA-AAAAAAA
1 AAAGAAAAAAG
*
49243 AAAGCGGAAAAAAA
1 AAA---GAAAAAAG
*
49257 AAAGAAAAGAG
1 AAAGAAAAAAG
*
49268 AAAG-AAAGAG
1 AAAGAAAAAAG
49278 AGAAGAAAAAA
1 A-AAGAAAAAA
49289 AAGAGAAGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
10 15 0.26
11 19 0.33
12 13 0.23
14 10 0.18
ACGTcount: A:0.78, C:0.01, G:0.19, T:0.01
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:49244 original size:14 final size:15
Alignment explanation
Indices: 49208--49361 Score: 89
Period size: 15 Copynumber: 9.7 Consensus size: 15
49198 AGGAGGGGAG
*
49208 AAAAAGAAAA-AAGA
1 AAAAAAAAAAGAAGA
* *
49222 AAGATAAAAAGAA-A
1 AAAAAAAAAAGAAGA
**
49236 AAAAAAAAAAGCGGA
1 AAAAAAAAAAGAAGA
*
49251 AAAAAAAAAGAAAAGA
1 AAAAAAAAA-AGAAGA
* *
49267 GAAAGAAAGAGAGAAGA
1 -AAA-AAAAAAAGAAGA
49284 AAAAAAAGAGAAGAAGA
1 AAAAAAA-A-AAGAAGA
*
49301 AGAAAAGGAAAAGGGGAAGA
1 A-AAAA--AAAA--AGAAGA
49321 AAAAAAAAAATGAA-A
1 AAAAAAAAAA-GAAGA
*
49336 AAAAAAAAAGGAAGGA
1 AAAAAAAAAAGAA-GA
49352 AAAAAAAAAA
1 AAAAAAAAAA
49362 AAAGGGAGGG
Statistics
Matches: 106, Mismatches: 19, Indels: 28
0.69 0.12 0.18
Matches are distributed among these distances:
14 20 0.19
15 25 0.24
16 20 0.19
17 19 0.18
18 9 0.08
19 5 0.05
20 8 0.08
ACGTcount: A:0.77, C:0.01, G:0.21, T:0.01
Consensus pattern (15 bp):
AAAAAAAAAAGAAGA
Found at i:49298 original size:17 final size:17
Alignment explanation
Indices: 49205--49306 Score: 73
Period size: 17 Copynumber: 5.9 Consensus size: 17
49195 AAAAGGAGGG
*
49205 GAGAAAAAGAAAAAAGAAA
1 GAGAAGAAG-AAAAA-AAA
* *
49224 GATAAAAAGAAAAAAAA
1 GAGAAGAAGAAAAAAAA
* * **
49241 AAAAAGCGGAAAAAAAA
1 GAGAAGAAGAAAAAAAA
* *
49258 AAGAA-AAGAGAAAGAAA
1 GAGAAGAAGA-AAAAAAA
49275 GAG-AGAAGAAAAAAAA
1 GAGAAGAAGAAAAAAAA
49291 GAGAAGAAGAAGAAAA
1 GAGAAGAAGAA-AAAA
49307 GGAAAAGGGG
Statistics
Matches: 67, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
16 12 0.18
17 38 0.57
18 9 0.13
19 8 0.12
ACGTcount: A:0.76, C:0.01, G:0.22, T:0.01
Consensus pattern (17 bp):
GAGAAGAAGAAAAAAAA
Found at i:49307 original size:47 final size:46
Alignment explanation
Indices: 48906--49365 Score: 172
Period size: 47 Copynumber: 10.0 Consensus size: 46
48896 GGGAGAGGAA
* **
48906 AAAG-AAAAA-AAAAAAGAAAAAAGAAGGGAAAAAAAA-AAAAG-G
1 AAAGAAAAAAGAAAAAAAAAAAAAGAAGAAAAAAAAAAGAAAAGAG
* * * *
48948 AAA-AAAAGAG-GAAAAAAAAAAAG-GGGAAAAAAAAAG----GAG
1 AAAGAAAAAAGAAAAAAAAAAAAAGAAGAAAAAAAAAAGAAAAGAG
* ** * *
48987 AAA-AAAAAGGGAAAAAAAAAAAAA-AAGAAAAGGAAAAGAAGGAGGGG
1 AAAGAAAAA-AGAAAAAAAAAAAAAGAAGAAAAAAAAAAGAA--AAGAG
* * * * *
49034 AAAGAAAAGAG-AAAAAATAAAAGGGAGAAAAAAAAAAGAAAA-AA
1 AAAGAAAAAAGAAAAAAAAAAAAAGAAGAAAAAAAAAAGAAAAGAG
** * * * *
49078 AAAGGGAAGACAAAAAGAAAAAAA-AA-AAAAAAAAAGGAAGAA-AG
1 AAAGAAAAAAGAAAAAAAAAAAAAGAAGAAAAAAAAAAGAA-AAGAG
* *
49122 AAA-AAAAAA-AAAAAAAAGGAGAAAAGGAGGGAAAAAAAGAAAACAAAAGAAGG
1 AAAGAAAAAAGAAAAAAAA--A-AAAA-GA-AG-AAAAAA-AAAAGAAAAG-A-G
* * * * * *** * *
49175 AAAGGAAAAGGTAAAAAAGAAAAAGGAGGGGAGAAAAAGAAAAAAG
1 AAAGAAAAAAGAAAAAAAAAAAAAGAAGAAAAAAAAAAGAAAAGAG
**
49221 AAAGATAAAAAGAAAAAAAAAAAAAGCGGAAAAAAAAAAGAAAAGAG
1 AAAGA-AAAAAGAAAAAAAAAAAAAGAAGAAAAAAAAAAGAAAAGAG
* **
49268 AAAGAAAGAGAGAAGAAAAAAAAGAGAAGAAGAAGAAAAGGAAAAGGGGAAGA-
1 AAAGAAA-AAAGAA-AAAAAAAA-A-AAGAAGAA-AAAA--AAAA-GAAAAGAG
* *
49321 AAAAAAAAAATGAAAAAAAAAAAAGGAAGGAAAAAAAAAA-AAAAG
1 AAAGAAAAAA-GAAAAAAAAAAAAAGAA-GAAAAAAAAAAGAAAAG
49366 GGAGGGAGAA
Statistics
Matches: 304, Mismatches: 72, Indels: 80
0.67 0.16 0.18
Matches are distributed among these distances:
38 1 0.00
39 8 0.03
40 1 0.00
41 30 0.10
42 25 0.08
43 15 0.05
44 16 0.05
45 14 0.05
46 20 0.07
47 62 0.20
48 24 0.08
49 3 0.01
50 23 0.08
51 14 0.05
52 15 0.05
53 18 0.06
54 9 0.03
55 6 0.02
ACGTcount: A:0.76, C:0.01, G:0.23, T:0.01
Consensus pattern (46 bp):
AAAGAAAAAAGAAAAAAAAAAAAAGAAGAAAAAAAAAAGAAAAGAG
Found at i:49312 original size:25 final size:26
Alignment explanation
Indices: 49208--49312 Score: 65
Period size: 26 Copynumber: 4.1 Consensus size: 26
49198 AGGAGGGGAG
* *
49208 AAAAAGAAAAAAGAAAGATAAAAAGAAA
1 AAAAAG-AGAAAGAAAGA-GAAAAGAAA
* ** * *
49236 AAAAA-AAAAAG-CGGAAAAAAAAAA
1 AAAAAGAGAAAGAAAGAGAAAAGAAA
* *
49260 GAAAAGAGAAAGAAAGAGAGAAGAAA
1 AAAAAGAGAAAGAAAGAGAAAAGAAA
*
49286 AAAAAGAG-AAG-AAGAAGAAAAGGAA
1 AAAAAGAGAAAGAAAG-AGAAAAGAAA
49311 AA
1 AA
49313 GGGGAAGAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
24 15 0.25
25 20 0.33
26 21 0.34
28 5 0.08
ACGTcount: A:0.77, C:0.01, G:0.21, T:0.01
Consensus pattern (26 bp):
AAAAAGAGAAAGAAAGAGAAAAGAAA
Found at i:49329 original size:17 final size:17
Alignment explanation
Indices: 49279--49417 Score: 66
Period size: 17 Copynumber: 7.8 Consensus size: 17
49269 AAGAAAGAGA
* **
49279 GAAGAAAAAAAAGAGAA
1 GAAGAAAAAAAAAAGGG
49296 GAAGAAGAAAAGGAAAAGGG
1 GAAGAA-AAAA--AAAAGGG
**
49316 GAAGAAAAAAAAAA-AT
1 GAAGAAAAAAAAAAGGG
49332 GAA-AAAAAAAAAAGGAAG
1 GAAGAAAAAAAAAAGG--G
* *
49350 GAAAAAAAAAAAAAAGG
1 GAAGAAAAAAAAAAGGG
* * *
49367 GAGGGAGAAAAAAGAGGAAAG
1 GA-AGAAAAAAAAAAGG---G
* *
49388 GAACAAAAAAAGAAGGG
1 GAAGAAAAAAAAAAGGG
*
49405 AAAGAAAAAAAAA
1 GAAGAAAAAAAAA
49418 CAAAAAAGGG
Statistics
Matches: 90, Mismatches: 21, Indels: 22
0.68 0.16 0.17
Matches are distributed among these distances:
15 10 0.11
16 3 0.03
17 24 0.27
18 16 0.18
19 15 0.17
20 19 0.21
21 3 0.03
ACGTcount: A:0.73, C:0.01, G:0.26, T:0.01
Consensus pattern (17 bp):
GAAGAAAAAAAAAAGGG
Found at i:49420 original size:27 final size:27
Alignment explanation
Indices: 49393--49444 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
49383 GAAAGGAACA
49393 AAAAAAGAAG-GGAAAGAAAAAAAAAC
1 AAAAAAGAAGAGGAAAGAAAAAAAAAC
**
49419 AAAAAAGGGGAGGAAAGAAAAAAAAA
1 AAAAAAGAAGAGGAAAGAAAAAAAAA
49445 GAAAGGGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (27 bp):
AAAAAAGAAGAGGAAAGAAAAAAAAAC
Found at i:49445 original size:20 final size:19
Alignment explanation
Indices: 49332--49445 Score: 72
Period size: 20 Copynumber: 5.7 Consensus size: 19
49322 AAAAAAAAAT
49332 GAAAAAAAAAAAA-GGAAG
1 GAAAAAAAAAAAAGGGAAG
49350 GAAAAAAAAAAAAAAGGG-AG
1 G--AAAAAAAAAAAAGGGAAG
* * * *
49370 G-GAGAAAAAAGAGGAAAG
1 GAAAAAAAAAAAAGGGAAG
*
49388 GAACAAAAAAAGAAGGGAAAG
1 GAA-AAAAAAAAAAGGG-AAG
* *
49409 AAAAAAAAACAAAAAAGGGGAG
1 --GAAAAAA-AAAAAAGGGAAG
49431 GAAAGAAAAAAAAAG
1 GAAA-AAAAAAAAAG
49446 AAAGGGAAAA
Statistics
Matches: 72, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
17 10 0.14
18 4 0.06
20 34 0.47
21 8 0.11
22 6 0.08
23 10 0.14
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (19 bp):
GAAAAAAAAAAAAGGGAAG
Found at i:49453 original size:20 final size:20
Alignment explanation
Indices: 49229--49454 Score: 61
Period size: 17 Copynumber: 11.2 Consensus size: 20
49219 AGAAAGATAA
*
49229 AAAGAAAAAAAAAAAAAGCGG
1 AAAGAAAAAAAAAGAAAG-GG
* *
49250 AAAAAAAAAAGAAAAGAGAA-AG
1 -AAAGAAAAA-AAAAGA-AAGGG
*
49272 AAAGAGAGAAGAAAAA-AAAGAG
1 AAAGA-A-AA-AAAAAGAAAGGG
*
49294 -AAGAAGAAGAAAAGGAAAAGGG
1 AAAGAA-AA-AAAAAG-AAAGGG
* *
49316 GAAG-AAAAAAAA-AAA-TG
1 AAAGAAAAAAAAAGAAAGGG
*
49333 AAA-AAAAAAAAAGGAA-GG
1 AAAGAAAAAAAAAGAAAGGG
49351 -AA-AAAAAAAAA-AAAGGG
1 AAAGAAAAAAAAAGAAAGGG
* * *
49368 -AGGGAGAAAAAAG--A-GG
1 AAAGAAAAAAAAAGAAAGGG
49384 AAAGGAACAAAAAAAG-AAGGG
1 AAA-GAA-AAAAAAAGAAAGGG
*
49405 AAAGAAAAAAAAACAAAAAAGGGGAGG
1 AAAG--AAAAAAA-AAGAAA---G-GG
49432 AAAGAAAAAAAAAGAAAGGG
1 AAAGAAAAAAAAAGAAAGGG
49452 AAA
1 AAA
49455 AAGAAAGAAG
Statistics
Matches: 157, Mismatches: 20, Indels: 56
0.67 0.09 0.24
Matches are distributed among these distances:
16 4 0.03
17 27 0.17
18 15 0.10
19 7 0.04
20 20 0.13
21 23 0.15
22 23 0.15
23 16 0.10
24 8 0.05
25 7 0.04
26 1 0.01
27 6 0.04
ACGTcount: A:0.73, C:0.01, G:0.25, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAAAAAGAAAGGG
Found at i:49457 original size:22 final size:22
Alignment explanation
Indices: 49392--49469 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
49382 GGAAAGGAAC
49392 AAAAAAAG-AAGGGAAAGAA-AA
1 AAAAAAAGAAAGGGAAA-AAGAA
* *
49413 AAAAACAAAAAAGGGGAGGAAAGAA
1 AAAAA-AAGAAA-GGGA-AAAAGAA
49438 AAAAAAAGAAAGGGAAAAAGAA
1 AAAAAAAGAAAGGGAAAAAGAA
* *
49460 AGAAGAAGAA
1 AAAAAAAGAA
49470 GAGAAGGGGG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
21 5 0.11
22 16 0.35
23 6 0.13
24 11 0.24
25 8 0.17
ACGTcount: A:0.73, C:0.01, G:0.26, T:0.00
Consensus pattern (22 bp):
AAAAAAAGAAAGGGAAAAAGAA
Found at i:49510 original size:17 final size:16
Alignment explanation
Indices: 49478--49520 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
49468 AAGAGAAGGG
*
49478 GGGAAAAAGGGGGAAA
1 GGGAAAAAGAGGGAAA
49494 GGGAAAAGAGAGGGAAA
1 GGGAAAA-AGAGGGAAA
49511 GAGGAAAAAG
1 G-GGAAAAAG
49521 GAAAAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 11 0.46
18 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (16 bp):
GGGAAAAAGAGGGAAA
Found at i:49535 original size:16 final size:16
Alignment explanation
Indices: 49514--49547 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
49504 AGGGAAAGAG
49514 GAAAAAGGAAA-AAAAA
1 GAAAAA-GAAATAAAAA
49530 GAAAAAGAAATAAAAA
1 GAAAAAGAAATAAAAA
49546 GA
1 GA
49548 GAAGGAGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (16 bp):
GAAAAAGAAATAAAAA
Found at i:49567 original size:43 final size:43
Alignment explanation
Indices: 49511--49706 Score: 110
Period size: 41 Copynumber: 4.7 Consensus size: 43
49501 GAGAGGGAAA
49511 GAGGA-AAAA-GGAAAAAAAAGAAAAAGAAATAAAAAGAGAAG
1 GAGGAGAAAAGGGAAAAAAAAGAAAAAGAAATAAAAAGAGAAG
* * **
49552 GAGGAGAAAAGGG--AAAAAGGAAACAGAAAT--AAAG-GGGG
1 GAGGAGAAAAGGGAAAAAAAAGAAAAAGAAATAAAAAGAGAAG
* * * ** *
49590 GGGGAGAGAAGGGGAAAAAGAAA-AAAAACAAGGAAAAAGGGGAAG
1 GAGGAGA-AAAGGGAAAAA-AAAGAAAAAGAAATAAAAA-GAGAAG
* *** *
49635 GAAG-GAAAAGGGAAAAAAAAGGGGAA-AAATAAAAAGA-AAA
1 GAGGAGAAAAGGGAAAAAAAAGAAAAAGAAATAAAAAGAGAAG
* *
49675 GAGGAAGAAAAAGG-AAAGAAAGAAAATAGAAA
1 GAGG-AGAAAAGGGAAAAAAAAGAAAA-AGAAA
49707 AAGGGGAAAG
Statistics
Matches: 111, Mismatches: 29, Indels: 28
0.66 0.17 0.17
Matches are distributed among these distances:
38 8 0.07
39 9 0.08
40 5 0.05
41 38 0.34
42 24 0.22
43 20 0.18
44 3 0.03
45 4 0.04
ACGTcount: A:0.65, C:0.01, G:0.32, T:0.02
Consensus pattern (43 bp):
GAGGAGAAAAGGGAAAAAAAAGAAAAAGAAATAAAAAGAGAAG
Found at i:49744 original size:23 final size:23
Alignment explanation
Indices: 49704--49749 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
49694 AAGAAAATAG
*
49704 AAAAAGGGGAAAGGGAAAAGAAA
1 AAAAAGGGGAAAGAGAAAAGAAA
*
49727 AAAAAGGGAGAAA-AGAAAGGAAA
1 AAAAAGGG-GAAAGAGAAAAGAAA
49750 GGGGGGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (23 bp):
AAAAAGGGGAAAGAGAAAAGAAA
Found at i:49808 original size:33 final size:34
Alignment explanation
Indices: 49711--49810 Score: 89
Period size: 35 Copynumber: 2.9 Consensus size: 34
49701 TAGAAAAAGG
*
49711 GGAAAGGGAAAAGAAAAAAA-AGG-GAGAAAAGAAA
1 GGAAAGGGAAAA-AAAAAAAGAGGAG-GGAAAGAAA
*** *
49745 GGAAAGGGGGGTAAAAAAAGGAGGGAAGGGAAAGAAA
1 GGAAA-GGGAAAAAAAAAAAGA-GG-AGGGAAAGAAA
49782 -GAAAGGGAAAAAAAAAAAGAGGAGGGAAA
1 GGAAAGGGAAAAAAAAAAAGAGGAGGGAAA
49811 AAGAGGGAAG
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
33 7 0.13
34 13 0.25
35 17 0.33
36 6 0.12
37 8 0.15
38 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.38, T:0.01
Consensus pattern (34 bp):
GGAAAGGGAAAAAAAAAAAGAGGAGGGAAAGAAA
Found at i:49957 original size:65 final size:63
Alignment explanation
Indices: 49855--50097 Score: 207
Period size: 64 Copynumber: 3.9 Consensus size: 63
49845 GGAGGGGGGG
* * * * * *
49855 AAAAAAGA-AA-AAAAAGAAAGAAAAGAGAAAAAAAAAAAAGAGAGATAAAGAAGGATAGG-AA
1 AAAAAAGAGAAGAAAGAGAAAAAAAAGGGAAAAAAAAAAAAGA-AAATAAAGAAGAAAAGGTAA
* * *
49916 AAAATAAGA-AAGAAGGAGAAAGGAAAAAGGGAAAAAGAAAAAAGAAAATAAGGAAGAAAAGGTA
1 AAAA-AAGAGAAGAAAGAGAAA--AAAAAGGGAAAAAAAAAAAAGAAAATAAAGAAGAAAAGGTA
49980 A
63 A
* * * *
49981 GAAAGAGAGAAGAAAGAGAAAAAAAAGGGGAAAAAAAAAAAAGAAAAAAAAGGAGAAAA-G-AA
1 AAAAAAGAGAAGAAAGAGAAAAAAAA-GGGAAAAAAAAAAAAGAAAATAAAGAAGAAAAGGTAA
* * * * * *
50043 AAAAAGGAAAAGAAATAGGAAGAAAA-GGAAAAAGAAAAAAGAAAA-AAA-AAGAAAA
1 AAAAAAGAGAAGAAAGAGAAAAAAAAGGGAAAAAAAAAAAAGAAAATAAAGAAGAAAA
50098 AAAAAGAAAG
Statistics
Matches: 150, Mismatches: 25, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
58 6 0.04
59 3 0.02
60 18 0.12
61 4 0.03
62 27 0.18
63 13 0.09
64 44 0.29
65 35 0.23
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (63 bp):
AAAAAAGAGAAGAAAGAGAAAAAAAAGGGAAAAAAAAAAAAGAAAATAAAGAAGAAAAGGTAA
Found at i:50039 original size:8 final size:8
Alignment explanation
Indices: 50009--50505 Score: 84
Period size: 8 Copynumber: 60.9 Consensus size: 8
49999 AAAAAAAAGG
50009 GGAAAAAA
1 GGAAAAAA
50017 --AAAAAA
1 GGAAAAAA
*
50023 GAAAAAAAA
1 G-GAAAAAA
*
50032 GGAGAAAA
1 GGAAAAAA
*
50040 GAAAAAAA
1 GGAAAAAA
50048 GGAAAAGAAATA
1 GG--AA-AAA-A
50060 GGAAGAAAA
1 GGAA-AAAA
50069 GG-AAAAA
1 GGAAAAAA
50076 -GAAAAAA
1 GGAAAAAA
50083 -GAAAAAA
1 GGAAAAAA
50090 --AAAGAAA
1 GGAAA-AAA
50097 --AAAAAA
1 GGAAAAAA
50103 -GAAAGGAAA
1 GGAAA--AAA
50112 GGAAAGAAA
1 GGAAA-AAA
**
50121 ATAAAAAA
1 GGAAAAAA
50129 -G-AAAAA
1 GGAAAAAA
50135 GGAAAGAAA
1 GGAAA-AAA
50144 GGAAAAAAA
1 GG-AAAAAA
*
50153 AGAAAAAA
1 GGAAAAAA
50161 --AAAAAA
1 GGAAAAAA
50167 -GAAAAAA
1 GGAAAAAA
* * *
50174 AG-AGAAG
1 GGAAAAAA
50181 GAGAACAAGAA
1 G-GAA-AA-AA
*
50192 AGAAAAAA
1 GGAAAAAA
*
50200 AG-AAAAA
1 GGAAAAAA
50207 GGAAAAAAA
1 GG-AAAAAA
*
50216 GAAAAAGGAA
1 GGAAAA--AA
50226 GGAAAAAAA
1 GG-AAAAAA
*
50235 AGAAAGAAA
1 GGAAA-AAA
**
50244 GATGACAGGAA
1 G--GA-AAAAA
50255 GGAAAAAAA
1 GG-AAAAAA
*
50264 AGAAAAGAA
1 GGAAAA-AA
*
50273 GGCAAAAA
1 GGAAAAAA
50281 -GAAAAAA
1 GGAAAAAA
50288 --AAAGAAGA
1 GGAAA-AA-A
50296 GGGAAACAAGA
1 -GGAAA-AA-A
50307 GGAAAAAGA
1 GGAAAAA-A
*
50316 AGAAAAAA
1 GGAAAAAA
*
50324 AGAAAAAA
1 GGAAAAAA
50332 GGAAGAGAAA
1 GGAA-A-AAA
50342 --AAAAAA
1 GGAAAAAA
* *
50348 -GAAGAGA
1 GGAAAAAA
*
50355 GGGAAAAA
1 GGAAAAAA
*
50363 GAAAAAAA
1 GGAAAAAA
* **
50371 GG--GAGG
1 GGAAAAAA
50377 GGAAAAAA
1 GGAAAAAA
* **
50385 GG-AGAGG
1 GGAAAAAA
*
50392 GGAAAAGGA
1 GGAAAA-AA
50401 GGAATAAAA
1 GGAA-AAAA
50410 -GAAGAAAA
1 GGAA-AAAA
50418 GGAAAAGAA
1 GGAAAA-AA
*
50427 GAAAAAAAA
1 G-GAAAAAA
*
50436 GAAAAAAAA
1 G-GAAAAAA
* *
50445 GG-AGAAG
1 GGAAAAAA
50452 GGAAAAAA
1 GGAAAAAA
*
50460 -GAAAAAG
1 GGAAAAAA
50467 GAGAAAAGAA
1 G-GAAAA-AA
50477 GGAAAAAA
1 GGAAAAAA
50485 --AAAAAA
1 GGAAAAAA
*
50491 AGAAAAAA
1 GGAAAAAA
50499 GGAAAAA
1 GGAAAAA
50506 GAAAGAGGGG
Statistics
Matches: 371, Mismatches: 61, Indels: 114
0.68 0.11 0.21
Matches are distributed among these distances:
6 39 0.11
7 69 0.19
8 100 0.27
9 100 0.27
10 39 0.11
11 20 0.05
12 4 0.01
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.01
Consensus pattern (8 bp):
GGAAAAAA
Found at i:50066 original size:72 final size:70
Alignment explanation
Indices: 49979--50243 Score: 247
Period size: 72 Copynumber: 3.7 Consensus size: 70
49969 AAGAAAAGGT
*
49979 AAGAAAGAGAGAAGAAAGAGAAAAA-AAAGGGGAAAAAAAAAAAAGAAAAA-AAAGGAGAAAAGA
1 AAGAAAAAG-GAAGAAAGAGAAAAAGAAA--GGAAAAAAAAAAAAGAAAAAGAAAGGAGAAAAGA
50042 AAAAAAGGAA
63 AAAAAA--AA
* * * *
50052 AAGAAATAGGAAGAAA-AGGAAAAAGAAAAAAGAAAAAAAAAGAAAAAAAAAGAAAGGAAAGGAA
1 AAGAAAAAGGAAGAAAGA-GAAAAAG--AAAGGAAAAAAAAA-AAAGAAAAAGAAAGG--AGAAA
*
50116 AGAAAATAAAA
60 AGAAAAAAAAA
50127 AAGAAAAAGGAAAGAAAG-GAAAAA-AAA-GAAAAAAAAAAAAGAAAAAAAGAGAAGGAGAACAA
1 AAGAAAAAGG-AAGAAAGAGAAAAAGAAAGGAAAAAAAAAAAAG--AAAAAGA-AAGGAGAA-AA
*
50189 GAAAGAAAAA
61 GAAAAAAAAA
* * *
50199 AAGAAAAAGGAA-AAAAAGAAAAAGGAAGGAAAAAAAAGAAAGAAA
1 AAGAAAAAGGAAGAAAGAGAAAAAGAAAGGAAAAAAAAAAAAGAAA
50244 GATGACAGGA
Statistics
Matches: 162, Mismatches: 13, Indels: 36
0.77 0.06 0.17
Matches are distributed among these distances:
70 6 0.04
71 25 0.15
72 45 0.28
73 35 0.22
74 8 0.05
75 25 0.15
76 6 0.04
77 12 0.07
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (70 bp):
AAGAAAAAGGAAGAAAGAGAAAAAGAAAGGAAAAAAAAAAAAGAAAAAGAAAGGAGAAAAGAAAA
AAAAA
Found at i:50093 original size:53 final size:52
Alignment explanation
Indices: 49955--50205 Score: 157
Period size: 53 Copynumber: 4.8 Consensus size: 52
49945 GGAAAAAGAA
** *
49955 AAAAGAAAATAAGGAAGAAAAGGTAAGAAAGAGAGAAGAAAGAGAAAA-AAAAGGGGAA-
1 AAAAGAAAA-AA-GAA-AAAAGAAAAGAAA-AGA-AA-AAA-AGAAAAGAAAA-GGAAAG
*
50013 AAAA-AAAAAAGAAAAAA-AAGGAGAAAAGAAAAAAAGGAAAAGAAATAGG-AAG
1 AAAAGAAAAAAGAAAAAAGAA-AAGAAAAGAAAAAAA-GAAAAGAAA-AGGAAAG
* * * *
50065 AAAAGGAAAAAGAAAAAAGAAAAAAAAAGAAAAAAAAAGAAAGGAAAGGAAAG
1 AAAAGAAAAAAGAAAAAAGAAAAGAAAAGAAAAAAAGA-AAAGAAAAGGAAAG
* * * *
50118 AAAATAAAAAAG-AAAAAGGAAAGAAAGGAAAAAAAAGAAAA-AAAA-AAAAG
1 AAAAGAAAAAAGAAAAAAGAAAAGAAAAG-AAAAAAAGAAAAGAAAAGGAAAG
* **
50168 -AAA-AAAAGAG-AAGGAGAACAAG-AAAGAAAAAAAGAAAA
1 AAAAGAAAAAAGAAAAAAGAA-AAGAAAAGAAAAAAAGAAAA
50206 AGGAAAAAAA
Statistics
Matches: 161, Mismatches: 21, Indels: 33
0.75 0.10 0.15
Matches are distributed among these distances:
47 12 0.07
48 14 0.09
49 6 0.04
50 5 0.03
51 13 0.08
52 31 0.19
53 56 0.35
54 11 0.07
55 3 0.02
56 2 0.01
57 4 0.02
58 4 0.02
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (52 bp):
AAAAGAAAAAAGAAAAAAGAAAAGAAAAGAAAAAAAGAAAAGAAAAGGAAAG
Found at i:50123 original size:64 final size:62
Alignment explanation
Indices: 50009--50350 Score: 198
Period size: 61 Copynumber: 5.4 Consensus size: 62
49999 AAAAAAAAGG
*
50009 GGAAAAAAAAAAAAGAAAAAAAAGGAGAAAAGAAAA-AAAGG---AAAAGAAATAGGAAGAAAA
1 GGAAAAAAAAAAAAGAAAAAAAA--AGAAAAAAAAAGAAAGGAAAAAAAGAAATAGGAAGAAAA
* * *
50069 GGAAAAAGAAAAAAGAAAAAAAAAGAAAAAAAAAGAAAGGAAAGGAAAGAAA-A-TAA-AAAA
1 GGAAAAAAAAAAAAGAAAAAAAAAGAAAAAAAAAGAAAGGAAA-AAAAGAAATAGGAAGAAAA
* * *
50129 -GAAAAAGGAAAGAAAGGAAAAAAAAGAAAAAAAAA-AAA-GAAAAAAAGAGA-AGG-AGAACAA
1 GGAAAAA--AAAAAAAGAAAAAAAAAGAAAAAAAAAGAAAGGAAAAAAAGAAATAGGAAGAA-AA
* * * * * *
50189 -G-AAAGAAAAAAAGAAAAAGGAAAA-AAAGAAAAAGGAAGGAAAAAAAAGAAAGAAAGATGACA
1 GGAAAAAAAAAAAAGAAAAA--AAAAGAAAAAAAAAGAAAGG-AAAAAAAGAAA-TAGGAAGA-A
50251 GGAA
61 --AA
** * *
50255 GGAAAAAAAAGAAAAGAAGGCAAAAAGAAAAAAAAAGAAGAGGGAAACAAGAGGAAA-AAGAAGA
1 GGAAAAAAAA-AAAAGAA-AAAAAAAGAAAAAAAAAGAA-A-GGAAA-AA-AAGAAATAGGAAGA
50319 AAA
60 AAA
50322 --AAAGAAAAAAGGAAGAGAAAAAAAAAGAA
1 GGAAA-AAAAAA--AA-AGAAAAAAAAAGAA
50351 GAGAGGGAAA
Statistics
Matches: 221, Mismatches: 28, Indels: 59
0.72 0.09 0.19
Matches are distributed among these distances:
57 11 0.05
58 26 0.12
59 26 0.12
60 33 0.15
61 36 0.16
62 1 0.00
63 9 0.04
64 2 0.01
65 5 0.02
66 7 0.03
67 13 0.06
68 14 0.06
69 18 0.08
70 11 0.05
71 4 0.02
72 5 0.02
ACGTcount: A:0.76, C:0.01, G:0.22, T:0.01
Consensus pattern (62 bp):
GGAAAAAAAAAAAAGAAAAAAAAAGAAAAAAAAAGAAAGGAAAAAAAGAAATAGGAAGAAAA
Found at i:50173 original size:158 final size:157
Alignment explanation
Indices: 49956--50372 Score: 355
Period size: 162 Copynumber: 2.6 Consensus size: 157
49946 GAAAAAGAAA
** * * * * ** *
49956 AAAGAAAATAAGGAAG-AAAAGGTAAGAAAGAGAGAAGAAAGAGAAAAAAAAGGGGAAAAAAAAA
1 AAAGAAAATAAAAAAGAAAAAGGAAAGAAAG-GAAAAAAAAGAAAAAAAAAAAAGAAAAAAAAAA
*
50020 AAAGAAAAAAAAGGAGAAAAGAAAAAAAGGAAAAGAAATAGGAAGAAAAGGAAAAAGAAA-AAAG
65 AAAGAAAAAAAAGGA-AAAAGAAAAAAAGGAAAAGAAAAAGGAAGAAAA--AAAAAGAAAGAAAG
*
50084 A-AAAAAAAAGAAAAAAAAAGAAAGGAAAGG-
127 ATAAAAAAAAGAAAAAAAAAGAAAAG-AAGGC
50114 AAAGAAAATAAAAAAGAAAAAGGAAAGAAAGGAAAAAAAAGAAAAAAAAAAAAGAAAAAAAGAGA
1 AAAGAAAATAAAAAAGAAAAAGGAAAGAAAGGAAAAAAAAGAAAAAAAAAAAAGAAAAAAA-A-A
** * *
50179 AGGAGAACAAGAAA-GAAAAA-AAGAAAAAGGAAAAAAAGAAAAAGGAAGGAAAAAAAAGAAAGA
64 AAAAGAA-AAAAAAGGAAAAAGAA-AAAAAGG---AAAAGAAAAAGGAAGAAAAAAAAAGAAAGA
* * ** *
50242 AAGATGACAGGAAGGAAAAAAAAGAAAAGAAGGC
124 AAGATAAAAAAAAGAAAAAAAAAGAAAAGAAGGC
* * * * * *
50276 AAA-AAGAAAAAAAAAGAAGAGGGAAACAAGAGGAAAAAGAAGAAAAAAAGAAAAAAGGAAGAGA
1 AAAGAA-AATAAAAAAGAAAAAGGAAAGAA-AGGAAAAAAAAG-AAAAAA-AAAAAA-GAA-AAA
* * *
50340 AAAAAAAAG-AAGAGAGGGAAAAAGAAAAAAAGG
60 AAAAAAAAGAAAAAAAAGGAAAAAGAAAAAAAGG
50373 GAGGGGAAAA
Statistics
Matches: 208, Mismatches: 32, Indels: 32
0.76 0.12 0.12
Matches are distributed among these distances:
158 40 0.19
159 25 0.12
160 17 0.08
161 16 0.08
162 57 0.27
163 13 0.06
164 20 0.10
165 12 0.06
166 4 0.02
167 4 0.02
ACGTcount: A:0.74, C:0.01, G:0.24, T:0.01
Consensus pattern (157 bp):
AAAGAAAATAAAAAAGAAAAAGGAAAGAAAGGAAAAAAAAGAAAAAAAAAAAAGAAAAAAAAAAA
AAGAAAAAAAAGGAAAAAGAAAAAAAGGAAAAGAAAAAGGAAGAAAAAAAAAGAAAGAAAGATAA
AAAAAAGAAAAAAAAAGAAAAGAAGGC
Found at i:50266 original size:72 final size:68
Alignment explanation
Indices: 50071--50289 Score: 210
Period size: 72 Copynumber: 3.1 Consensus size: 68
50061 GAAGAAAAGG
* * * *
50071 AAAAAGAAAAAAGA-AAAAAAAAGAAAAAAAAAGAAAGGAAAGGAAAGAAAA-TAAAAAAGAAAA
1 AAAAAGAAAAAAAAGAAAAAAAAG-AAAGAAAAGAAAGG-AAGGAAAAAAAAGAAAAAAAGAAAA
50134 AGGAA
64 AGGAA
* *
50139 AGAAAGGAAAAAAAAGAAAAAAAAAAAAGAAAA-AAAGAGAAGGAGAACAAGAAAGAAAAAAAGA
1 A-AAAAGAAAAAAAAGAAAAAAAAGAAAGAAAAGAAAG-GAAGGA-AA-AA-AAAGAAAAAAAGA
50203 AAAAGGAA
61 AAAAGGAA
* * *
50211 AAAAAGAAAAAGGAAGGAAAAAAAAGAAAGAAAGATGACAGGAAGGAAAAAAAAGAAAAGAAGGC
1 AAAAAGAAAAA--AAAGAAAAAAAAGAAAGAAA-A-GAAAGGAAGGAAAAAAAAGAAAA-AAAG-
*
50276 AAAAAGAAA
60 AAAAAGGAA
50285 AAAAA
1 AAAAA
50290 AGAAGAGGGA
Statistics
Matches: 125, Mismatches: 12, Indels: 22
0.79 0.08 0.14
Matches are distributed among these distances:
68 10 0.08
69 21 0.17
70 9 0.07
71 12 0.10
72 25 0.20
73 23 0.18
74 16 0.13
75 6 0.05
76 3 0.02
ACGTcount: A:0.77, C:0.01, G:0.21, T:0.01
Consensus pattern (68 bp):
AAAAAGAAAAAAAAGAAAAAAAAGAAAGAAAAGAAAGGAAGGAAAAAAAAGAAAAAAAGAAAAAG
GAA
Found at i:50290 original size:116 final size:116
Alignment explanation
Indices: 50011--50341 Score: 305
Period size: 111 Copynumber: 2.9 Consensus size: 116
50001 AAAAAAGGGG
* * * * * * ** *
50011 AAAAAAAAAAAAGAAAAAAAAGGAGAAAAGA-AAAAAAGG-AAAAGAAATAGGAAGAAAAGGAAA
1 AAAAAAGAAAAAGGAAAGAAAGGAAAAAAAAGAAAAAAGGAAAAAGAAAAAAAAAGAGAAGGAAA
50074 -AAGAAA-AAAGAAAA-AAAAAGAAAAAAAAAGAAAGGAAAGGAAAGAAAAT
66 CAAGAAAGAAA-AAAAGAAAAAGAAAAAAAAAGAAAGGAAAGGAAAGAAAAT
*
50123 AAAAAAGAAAAAGGAAAGAAAGGAAAAAAAAGAAAAAA--AAAAA-AGAAAAAAAGAGAAGGAGA
1 AAAAAAGAAAAAGGAAAGAAAGGAAAAAAAAGAAAAAAGGAAAAAGAAAAAAAAAGAGAAGGA-A
50185 ACAAGAAAGAAAAAAAGAAAAAGGAAAAAAAGAA-AAAGG-AAGG-AA-AAAA-
65 ACAAGAAAGAAAAAAAGAAAAA-GAAAAAAA-AAGAAAGGAAAGGAAAGAAAAT
* * * * * *
50234 AAGAAAGAAAGATGACAGGAAGGAAAAAAAAGAAAAGAAGGCAAAAAGAAAAAAAAAGAAGAGGG
1 AAAAAAGAAAAAGGAAAGAAAGGAAAAAAAAGAAAA-AAGG-AAAAAGAAAAAAAAAG-AGAAGG
* * *
50299 AAACAAG-AGGAAAAAGAAGAAAAA-AAGAAAAAAGGAAGAGAAA
63 AAACAAGAAAGAAAAA-AAGAAAAAGAAAAAAAAAGAAAG-GAAA
50342 AAAAAAGAAG
Statistics
Matches: 181, Mismatches: 20, Indels: 32
0.78 0.09 0.14
Matches are distributed among these distances:
111 43 0.24
112 38 0.21
113 20 0.11
114 21 0.12
115 26 0.14
116 27 0.15
117 6 0.03
ACGTcount: A:0.76, C:0.01, G:0.22, T:0.01
Consensus pattern (116 bp):
AAAAAAGAAAAAGGAAAGAAAGGAAAAAAAAGAAAAAAGGAAAAAGAAAAAAAAAGAGAAGGAAA
CAAGAAAGAAAAAAAGAAAAAGAAAAAAAAAGAAAGGAAAGGAAAGAAAAT
Found at i:50370 original size:57 final size:59
Alignment explanation
Indices: 50258--50371 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 59
50248 ACAGGAAGGA
*
50258 AAAAAAAGAAAAGAAGGCAAAAAGAAAAAAAAAGAAGAGGGAAACAAGAGGAAAAAGAAG
1 AAAAAAAGAAAAGAAGG-AAAAAGAAAAAAAAAGAAGAGGGAAACAAGAGAAAAAAGAAG
*
50318 AAAAAAAGAAAA-AAGG-AAGAGAAAAAAAAAGAAGAGAGGGAAA-AAGA-AAAAAAG
1 AAAAAAAGAAAAGAAGGAAAAAGAAAAAAAAAG-A-AGAGGGAAACAAGAGAAAAAAG
50372 GGAGGGGAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
57 20 0.40
58 5 0.10
59 13 0.26
60 12 0.24
ACGTcount: A:0.74, C:0.02, G:0.25, T:0.00
Consensus pattern (59 bp):
AAAAAAAGAAAAGAAGGAAAAAGAAAAAAAAAGAAGAGGGAAACAAGAGAAAAAAGAAG
Found at i:50376 original size:20 final size:20
Alignment explanation
Indices: 50320--50383 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
50310 AAAAGAAGAA
* *
50320 AAAAAG-AAAAAAGGAAGAG
1 AAAAAGAAAAAAAGGGAGGG
* *
50339 AAAAA-AAAAGAAGAGAGGG
1 AAAAAGAAAAAAAGGGAGGG
50358 AAAAAGAAAAAAAGGGAGGGG
1 AAAAAGAAAAAAAGGGA-GGG
50379 AAAAA
1 AAAAA
50384 AGGAGAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 19 0.53
20 9 0.25
21 8 0.22
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAAGGGAGGG
Found at i:50381 original size:15 final size:16
Alignment explanation
Indices: 50363--50397 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
50353 GAGGGAAAAA
50363 GAAAAAAAGG-GAGGG
1 GAAAAAAAGGAGAGGG
50378 G-AAAAAAGGAGAGGG
1 GAAAAAAAGGAGAGGG
50393 GAAAA
1 GAAAA
50398 GGAGGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 8 0.44
15 7 0.39
16 3 0.17
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (16 bp):
GAAAAAAAGGAGAGGG
Found at i:50385 original size:22 final size:23
Alignment explanation
Indices: 50315--50383 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
50305 GAGGAAAAAG
* *
50315 AAGAAAAAAAGAA-AAAAGGAAGA
1 AAGAAAAAAAGAAGAGAGGGAA-A
50338 GAA-AAAAAAAGAAGAGAGGGAAA
1 -AAGAAAAAAAGAAGAGAGGGAAA
*
50361 AAGAAAAAAAG-GGAG-GGGAAA
1 AAGAAAAAAAGAAGAGAGGGAAA
50382 AA
1 AA
50384 AGGAGAGGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 8 0.20
22 5 0.12
23 19 0.47
24 8 0.20
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (23 bp):
AAGAAAAAAAGAAGAGAGGGAAA
Found at i:50403 original size:16 final size:15
Alignment explanation
Indices: 50365--50397 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
50355 GGGAAAAAGA
50365 AAAAAAGG-GAGGGG
1 AAAAAAGGAGAGGGG
50379 AAAAAAGGAGAGGGG
1 AAAAAAGGAGAGGGG
50394 AAAA
1 AAAA
50398 GGAGGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (15 bp):
AAAAAAGGAGAGGGG
Found at i:50421 original size:26 final size:25
Alignment explanation
Indices: 50392--50509 Score: 106
Period size: 25 Copynumber: 4.8 Consensus size: 25
50382 AAAGGAGAGG
* *
50392 GGAAAAGGAGGAATAAAAGAAGAAAA
1 GGAAAAGAAGGAA-AAAAGAAAAAAA
*
50418 GGAAAAGAAGAAAAAAAAGAAAAAAAA
1 GGAAAAGAAG-GAAAAAAG-AAAAAAA
* *
50445 GGAGAAG--GGAAAAAAG-AAAAAG
1 GGAAAAGAAGGAAAAAAGAAAAAAA
50467 GAGAAAAGAAGGAAAAAA-AAAAAAA
1 G-GAAAAGAAGGAAAAAAGAAAAAAA
50492 -GAAAA-AAGG-AAAAAGAAA
1 GGAAAAGAAGGAAAAAAGAAA
50510 GAGGGGGGAA
Statistics
Matches: 77, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
21 5 0.06
22 13 0.17
23 10 0.13
24 7 0.09
25 14 0.18
26 14 0.18
27 14 0.18
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.01
Consensus pattern (25 bp):
GGAAAAGAAGGAAAAAAGAAAAAAA
Found at i:50441 original size:94 final size:97
Alignment explanation
Indices: 50285--50465 Score: 223
Period size: 94 Copynumber: 1.9 Consensus size: 97
50275 CAAAAAGAAA
* *
50285 AAAAAAGAAGAGGGAAACAAGAGGAAAAAGAAGAAAAAAAGAAAAAAGGAAGAGAAAAAAAAAGA
1 AAAAAAGAAGAGGGAAACAAGAGGAAAAAGAAGAAAAAAAGAAAAAAGGAAGAAAAAAAAAAAAA
50350 A-GAG-AGGG-AAAAAGAAAAAAAGGGAGGGG
66 AGGAGAAGGGAAAAAAGAAAAAAAGGGAGGGG
* * * *
50379 AAAAAAGGAGAGGGGAAA-AGGAGGAATAA-AAGAAGAAAAGGAAAAGAA-GAA-AAAAAAGAAA
1 AAAAAAGAAGA-GGGAAACAAGAGGAAAAAGAAGAA-AAAAAGAAAA-AAGGAAGAAAAAA-AAA
50440 AAAAAGGAGAAGGGAAAAAAGAAAAA
62 AAAAAGGAGAAGGGAAAAAAGAAAAA
50466 GGAGAAAAGA
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
93 10 0.14
94 38 0.51
95 11 0.15
96 4 0.05
97 11 0.15
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.01
Consensus pattern (97 bp):
AAAAAAGAAGAGGGAAACAAGAGGAAAAAGAAGAAAAAAAGAAAAAAGGAAGAAAAAAAAAAAAA
AGGAGAAGGGAAAAAAGAAAAAAAGGGAGGGG
Found at i:50459 original size:15 final size:16
Alignment explanation
Indices: 50439--50482 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
50429 AAAAAAAGAA
*
50439 AAAAAAGGAGAAGG-G
1 AAAAAAGGAAAAGGAG
*
50454 AAAAAAGAAAAAGGAG
1 AAAAAAGGAAAAGGAG
50470 AAAAGAAGGAAAA
1 AAAA-AAGGAAAA
50483 AAAAAAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.50
16 5 0.21
17 7 0.29
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
AAAAAAGGAAAAGGAG
Found at i:50472 original size:33 final size:35
Alignment explanation
Indices: 50394--50511 Score: 95
Period size: 33 Copynumber: 3.5 Consensus size: 35
50384 AGGAGAGGGG
* *
50394 AAAAGGAGGAATAAAAGAAGAAAAGGAAAAGAAGA
1 AAAAGGAGAAAAAAAAGAAGAAAAGGAAAAGAAGA
** * *
50429 AAAAAAAGAAAAAAAAGGAG-AAGGGAAAA-AAGA
1 AAAAGGAGAAAAAAAAGAAGAAAAGGAAAAGAAGA
* * *
50462 AAAAGGAGAAAAGAAGGAA-AAAA--AAAAAAAGAA
1 AAAAGGAGAAAAAAAAGAAGAAAAGGAAAAGAAG-A
*
50495 AAAAGGA-AAAAGAAAGA
1 AAAAGGAGAAAAAAAAGA
50512 GGGGGGAAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
31 4 0.06
32 12 0.18
33 28 0.42
34 8 0.12
35 15 0.22
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.01
Consensus pattern (35 bp):
AAAAGGAGAAAAAAAAGAAGAAAAGGAAAAGAAGA
Found at i:50505 original size:14 final size:13
Alignment explanation
Indices: 50406--50509 Score: 63
Period size: 14 Copynumber: 7.6 Consensus size: 13
50396 AAGGAGGAAT
*
50406 AAAAGAAGAAAAGG
1 AAAAGAA-AAAAGA
*
50420 AAAAGAAGAAA-A
1 AAAAGAAAAAAGA
50432 AAAAGAAAAAA-A
1 AAAAGAAAAAAGA
50444 AGGAGAAGGGAAAAAAGA
1 A--A-AA--GAAAAAAGA
*
50462 AAAAGGAGAAAAGA
1 AAAA-GAAAAAAGA
*
50476 AGGAA-AAAAAA-A
1 A-AAAGAAAAAAGA
50488 AAAAGAAAAAAGGA
1 AAAAGAAAAAA-GA
50502 AAAAGAAA
1 AAAAGAAA
50510 GAGGGGGGAA
Statistics
Matches: 73, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
11 2 0.03
12 20 0.27
13 8 0.11
14 27 0.37
15 6 0.08
16 1 0.01
17 7 0.10
18 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAGA
Found at i:50549 original size:63 final size:62
Alignment explanation
Indices: 50461--50618 Score: 148
Period size: 63 Copynumber: 2.5 Consensus size: 62
50451 GGGAAAAAAG
* * *
50461 AAAAAGGAGAAAAGAAGGAA--AAAAAAAAAAAGAAAAAAG-GAAAA-AGAAAGAGGGGGGAAA
1 AAAAAGGAAAAAAGAAGGAAGGCAAAAAAAAAAGAAAAAAGAGAAAAGAG-AAGAGAGGGG-AA
* ** *
50521 AAAAAGGGAAAAAAGAAGGAAGGCAAAAAAAGAA-AAGGAAGAGAAAAGAGAAGCGAGGGGAA
1 AAAAA-GGAAAAAAGAAGGAAGGCAAAAAAAAAAGAAAAAAGAGAAAAGAGAAGAGAGGGGAA
*
50583 AAAAA-GAAGAAAGAGAAGAAAAGGCAAAAAAAAAAG
1 AAAAAGGAA-AAA-AGAAG-GAAGGCAAAAAAAAAAG
50619 GGGAGGAAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 14
0.78 0.09 0.14
Matches are distributed among these distances:
60 8 0.10
61 17 0.21
62 17 0.21
63 36 0.45
64 2 0.03
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (62 bp):
AAAAAGGAAAAAAGAAGGAAGGCAAAAAAAAAAGAAAAAAGAGAAAAGAGAAGAGAGGGGAA
Found at i:50556 original size:35 final size:36
Alignment explanation
Indices: 50517--50604 Score: 88
Period size: 35 Copynumber: 2.4 Consensus size: 36
50507 AAAGAGGGGG
*
50517 GAAAAAAAAGGGAAAAAAGAAG-GAAGGCAAAAAAA
1 GAAAAAAAAGAGAAAAAAGAAGCGAAGGCAAAAAAA
** * * *
50552 GAAAAGGAAGAGAAAAGAGAAGCGAGGGGAAAAAAA
1 GAAAAAAAAGAGAAAAAAGAAGCGAAGGCAAAAAAA
* *
50588 GAAGAAAGAGAAGAAAA
1 GAAAAAAAAG-AGAAAA
50605 GGCAAAAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
35 18 0.44
36 17 0.41
37 6 0.15
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (36 bp):
GAAAAAAAAGAGAAAAAAGAAGCGAAGGCAAAAAAA
Found at i:50587 original size:62 final size:61
Alignment explanation
Indices: 50386--50614 Score: 161
Period size: 64 Copynumber: 3.7 Consensus size: 61
50376 GGGAAAAAAG
** * * * *
50386 GAGAGGGGAAAAGGAGGAATAAA-AGAAGAAAAGG-AAAAGAAGAAAAAAAAGAAAAA-AAA
1 GAGAGGGGAAAAAAAAGAAGAAAGAGAAGAAAAGGCAAAAAAAG-AAAAAAGGAAAAAGAAA
* * * **
50445 GGAGAAGGGAAAAAAGAAAAAGGAGAAAAGAAGGAAAA-AAAAAAAAAGAAAAAAGGAAAAAGAA
1 -GAGAGGGGAAAAAA-AAGAA-GA-AAGAGAA-GAAAAGGCAAAAAAAGAAAAAAGGAAAAAGAA
50509 A
61 A
* *
50510 GAGGGGGGAAAAAAAAGGGAA-AAA-AGAAG-GAAGGCAAAAAAAGAAAAGGAA-GAGAAAAGAG
1 GAGAGGGGAAAAAAAA--GAAGAAAGAGAAGAAAAGGCAAAAAAAGAAAA--AAGGA-AAAAGA-
50571 AA
60 AA
*
50573 GCGAGGGG-AAAAAAAGAAGAAAGAGAAGAAAAGGCAAAAAAA
1 GAGAGGGGAAAAAAAAGAAGAAAGAGAAGAAAAGGCAAAAAAA
50615 AAAGGGGAGG
Statistics
Matches: 134, Mismatches: 18, Indels: 31
0.73 0.10 0.17
Matches are distributed among these distances:
59 2 0.01
60 27 0.20
61 12 0.09
62 23 0.17
63 25 0.19
64 28 0.21
65 17 0.13
ACGTcount: A:0.68, C:0.01, G:0.30, T:0.00
Consensus pattern (61 bp):
GAGAGGGGAAAAAAAAGAAGAAAGAGAAGAAAAGGCAAAAAAAGAAAAAAGGAAAAAGAAA
Found at i:50639 original size:21 final size:21
Alignment explanation
Indices: 50613--50673 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
50603 AAGGCAAAAA
50613 AAAAAGG-GGAGGAAAAAAGGG
1 AAAAAGGAGGAGGAAAAAA-GG
* *
50634 AAAAAGGAGGGGGATAAAAGG
1 AAAAAGGAGGAGGAAAAAAGG
* *
50655 AAAAAGAAGGAGAAAAAAA
1 AAAAAGGAGGAGGAAAAAA
50674 AAAGGGAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 24 0.73
22 9 0.27
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (21 bp):
AAAAAGGAGGAGGAAAAAAGG
Found at i:50672 original size:14 final size:14
Alignment explanation
Indices: 50655--50844 Score: 98
Period size: 13 Copynumber: 13.6 Consensus size: 14
50645 GGATAAAAGG
*
50655 AAAAAGAAGGAGAA
1 AAAAAAAAGGAGAA
50669 AAAAAAAAGG-GAA
1 AAAAAAAAGGAGAA
*
50682 AAAAAAAGAGG-GGA
1 AAAAAAA-AGGAGAA
*
50696 AGAAAAAAGGA-AA
1 AAAAAAAAGGAGAA
*
50709 AAAAAAAAAGAGGAA
1 AAAAAAAAGGA-GAA
*
50724 AGGAAAAAAA--AAAA
1 A--AAAAAAAGGAGAA
50738 AAAAAAAAGG-G-A
1 AAAAAAAAGGAGAA
*
50750 AAAAGAAAGGAGAA
1 AAAAAAAAGGAGAA
* *
50764 AGGGAAGAAAA-GAGGA
1 A---AAAAAAAGGAGAA
* *
50780 AAAGAAAAGAGAAAA
1 AAAAAAAAG-GAGAA
50795 AAAAAAAAGGAAGAA
1 AAAAAAAAGG-AGAA
50810 AAAAAGAAA--A-AA
1 AAAAA-AAAGGAGAA
50822 AAAAAAACAGG-GAA
1 AAAAAAA-AGGAGAA
50836 AATAAAAAA
1 AA-AAAAAA
50845 AAAAAAAGGC
Statistics
Matches: 138, Mismatches: 16, Indels: 44
0.70 0.08 0.22
Matches are distributed among these distances:
11 2 0.01
12 25 0.18
13 32 0.23
14 31 0.22
15 28 0.20
16 8 0.06
17 12 0.09
ACGTcount: A:0.76, C:0.01, G:0.23, T:0.01
Consensus pattern (14 bp):
AAAAAAAAGGAGAA
Found at i:50687 original size:29 final size:28
Alignment explanation
Indices: 50655--50844 Score: 96
Period size: 27 Copynumber: 6.8 Consensus size: 28
50645 GGATAAAAGG
*
50655 AAAAAGAAGGAGAAAAAAAAAAGGGAAA
1 AAAAAAAAGGAGAAAAAAAAAAGGGAAA
* * *
50683 AAAAAAGAGG-GGAAGAAAAAA-GGAAA
1 AAAAAAAAGGAGAAAAAAAAAAGGGAAA
* *
50709 AAAAAAAAAGAGGAAAGGAAAAAAA--AAAA
1 AAAAAAAAGGA-GAAA--AAAAAAAGGGAAA
*
50738 AAAAAAAAGG-G-AAAAAGAAAGGAGAAA
1 AAAAAAAAGGAGAAAAAAAAAAGG-GAAA
* * * * *
50765 GGGAAGAAAA-GAGGAAAAGAAAAGAGAAAA
1 --AAAAAAAAGGAGAAAAAAAAAAG-GGAAA
50795 AAAAAAAAGGAAGAAAAAAAGAAA---AAA
1 AAAAAAAAGG-AGAAAAAAA-AAAGGGAAA
50822 AAAAAAACAGG-GAAAATAAAAAA
1 AAAAAAA-AGGAGAAAA-AAAAAA
50845 AAAAAAAGGC
Statistics
Matches: 124, Mismatches: 21, Indels: 36
0.69 0.12 0.20
Matches are distributed among these distances:
24 6 0.05
26 23 0.19
27 26 0.21
28 21 0.17
29 20 0.16
30 24 0.19
31 4 0.03
ACGTcount: A:0.76, C:0.01, G:0.23, T:0.01
Consensus pattern (28 bp):
AAAAAAAAGGAGAAAAAAAAAAGGGAAA
Found at i:50716 original size:57 final size:55
Alignment explanation
Indices: 50662--50851 Score: 146
Period size: 56 Copynumber: 3.5 Consensus size: 55
50652 AGGAAAAAGA
* *
50662 AGGAGAAAAAAAAAAGGGAAAAAAAAAGAGGGGAAGAAAAAAGGAAAAAAAAAAAAG
1 AGGAGAAAAAAAAAA-GGAAAAAAAAA-AAGGGAAGAAAAAAGGAAAAAAAAAAAAC
** *
50719 AGGA-AAGGAAAAAAAA--AAAAAAAAAAAGGGAA-AAAGAAAGGAGAAAGGGAAGAAA-
1 AGGAGAA--AAAAAAAAGGAAAAAAAAAAAGGGAAGAAA-AAAGGA-AAA-AAAAAAAAC
* * * *
50774 A-GAGGAAAAGAAAAGAGAAAAAAAAAAAAGGAAGAAAAAAAGAAAAAAAAAAAAAC
1 AGGAGAAAAAAAAAAG-GAAAAAAAAAAAGGGAAG-AAAAAAGGAAAAAAAAAAAAC
*
50830 AGG-GAAAATAAAAA--AAAAAAAA
1 AGGAGAAAAAAAAAAGGAAAAAAAA
50852 GGCAAAAGGA
Statistics
Matches: 106, Mismatches: 14, Indels: 30
0.71 0.09 0.20
Matches are distributed among these distances:
53 18 0.17
54 14 0.13
55 19 0.18
56 34 0.32
57 10 0.09
58 11 0.10
ACGTcount: A:0.76, C:0.01, G:0.23, T:0.01
Consensus pattern (55 bp):
AGGAGAAAAAAAAAAGGAAAAAAAAAAAGGGAAGAAAAAAGGAAAAAAAAAAAAC
Found at i:50811 original size:12 final size:10
Alignment explanation
Indices: 50779--50828 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 10
50769 AGAAAAGAGG
50779 AAAAGAAAAGA
1 AAAAGAAAA-A
50790 GAAAA-AAAAA
1 -AAAAGAAAAA
*
50800 AAAGGAAGAAA
1 AAAAGAA-AAA
50811 AAAAGAAAAA
1 AAAAGAAAAA
50821 AAAA-AAAA
1 AAAAGAAAA
50829 CAGGGAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 7 0.21
10 10 0.29
11 13 0.38
12 4 0.12
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:50837 original size:25 final size:25
Alignment explanation
Indices: 50783--50851 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
50773 AAGAGGAAAA
* **
50783 GAAAAGAGAAAAAAAAAAAAGGAAG
1 GAAAAAAGAAAAAAAAAAAAACAAG
* *
50808 AAAAAAAGAAAAAAAAAAAAACAGG
1 GAAAAAAGAAAAAAAAAAAAACAAG
*
50833 GAAAATA-AAAAAAAAAAAA
1 GAAAAAAGAAAAAAAAAAAA
50852 GGCAAAAGGA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
24 12 0.32
25 25 0.68
ACGTcount: A:0.83, C:0.01, G:0.14, T:0.01
Consensus pattern (25 bp):
GAAAAAAGAAAAAAAAAAAAACAAG
Found at i:50907 original size:111 final size:113
Alignment explanation
Indices: 50664--50912 Score: 270
Period size: 106 Copynumber: 2.3 Consensus size: 113
50654 GAAAAAGAAG
* *
50664 GAGAAAAA-AAAA-AG-GGAAAAAAAAAGAGGGGAAGAAAAAAGGAAAAAAAAAAAAGAGGAAAG
1 GAGAAAAAGAAAAGAGAGGAAAAAAAAAGAGAGGAAGAAAAAAAGAAAAAAAAAAAAGA-GAAAG
*
50726 GAAAAAAAAAAAAAAAAAAAGGGAAAAAGAAAGGAGAAAGGGAAGAAAA
65 GAAAAAAAAAAAAAAAAAAAGGCAAAAAGAAAGGAGAAAGGGAAGAAAA
* *
50775 GAGGAAAAGAAAAGAGA--AAAAAAAAA-A-AGGAAGAAAAAAAG-AAAAAAAAAAA-A-ACAGG
1 GAGAAAAAGAAAAGAGAGGAAAAAAAAAGAGAGGAAGAAAAAAAGAAAAAAAAAAAAGAGAAAGG
* * * * *
50833 GAAAATAAAAAAAAAAAAAGGCAAAAGGAGAAGGAGGAGGGGAAG-AAA
66 AAAAAAAAAAAAAAAAAAAGGCAAAAAGA-AAGGAGAAAGGGAAGAAAA
50881 GA-AAAAAGGAAAAAGGAAGAGGAAAAAAAAAG
1 GAGAAAAA-G-AAAA-G-AGAGGAAAAAAAAAG
50913 GGGGGGAAAA
Statistics
Matches: 116, Mismatches: 11, Indels: 21
0.78 0.07 0.14
Matches are distributed among these distances:
105 4 0.03
106 35 0.30
107 17 0.15
108 2 0.02
109 14 0.12
110 12 0.10
111 17 0.15
112 13 0.11
113 2 0.02
ACGTcount: A:0.73, C:0.01, G:0.26, T:0.00
Consensus pattern (113 bp):
GAGAAAAAGAAAAGAGAGGAAAAAAAAAGAGAGGAAGAAAAAAAGAAAAAAAAAAAAGAGAAAGG
AAAAAAAAAAAAAAAAAAAGGCAAAAAGAAAGGAGAAAGGGAAGAAAA
Found at i:50928 original size:46 final size:44
Alignment explanation
Indices: 50875--50986 Score: 111
Period size: 46 Copynumber: 2.5 Consensus size: 44
50865 GGAGGAGGGG
*
50875 AAGAAAGAAAAAAGGAAAAAGGAAGAGGAAAAAAAA-AGGGGGGGAA
1 AAGAAAGAAAAAAGGAAAAAGGAA-A--AAAAAAAAGAAGGGGGGAA
* **
50921 AAGAAAGAAGAAA-GAAGAGGGGAAAAAAAAAAAGGGAAGGGGGGAA
1 AAGAAAGAAAAAAGGAA-AAAGGAAAAAAAAAAA--GAAGGGGGGAA
*
50967 AAAAAAGAAAAAAGGAAAAA
1 AAGAAAGAAAAAAGGAAAAA
50987 AAGAGAAAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
43 8 0.15
45 4 0.08
46 38 0.72
47 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (44 bp):
AAGAAAGAAAAAAGGAAAAAGGAAAAAAAAAAAGAAGGGGGGAA
Found at i:50942 original size:24 final size:22
Alignment explanation
Indices: 50915--51032 Score: 69
Period size: 22 Copynumber: 5.6 Consensus size: 22
50905 AAAAAAAGGG
50915 GGGGAAAAGAAAGAAGAAAGAAGA
1 GGGGAAAA-AAAGAA-AAAGAAGA
* *
50939 GGGGAAAAAAA-AAAAGGGAAGG
1 GGGGAAAAAAAGAAAA-AGAAGA
*
50961 GGGGAAAAAAA-AGAAA-AA-A
1 GGGGAAAAAAAGAAAAAGAAGA
50980 --GGAAAAAAAGAGAAAAG--G-
1 GGGGAAAAAAAGA-AAAAGAAGA
50998 GGGGAAAAAAA-AAAGAA-AAGA
1 GGGGAAAAAAAGAAA-AAGAAGA
*
51019 AGGGAAAAGAAAGA
1 GGGGAAAA-AAAGA
51033 GAAGAAAAAG
Statistics
Matches: 74, Mismatches: 7, Indels: 27
0.69 0.06 0.25
Matches are distributed among these distances:
17 9 0.12
18 3 0.04
19 6 0.08
20 12 0.16
21 9 0.12
22 23 0.31
23 4 0.05
24 8 0.11
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (22 bp):
GGGGAAAAAAAGAAAAAGAAGA
Found at i:50974 original size:39 final size:37
Alignment explanation
Indices: 50931--51015 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 37
50921 AAGAAAGAAG
**
50931 AAAGAAGAGGGGAAAAAAA-AAAAGGGAAGGGGGGAAAAA
1 AAAGAAGAAAGGAAAAAAAGAAAA---AAGGGGGGAAAAA
* *
50970 AAAGAAAAAAGGAAAAAAAGAGAAAAGGGGGGAAAAA
1 AAAGAAGAAAGGAAAAAAAGAAAAAAGGGGGGAAAAA
51007 AAA-AAGAAA
1 AAAGAAGAAA
51016 AGAAGGGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
36 5 0.12
37 16 0.40
39 16 0.40
40 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (37 bp):
AAAGAAGAAAGGAAAAAAAGAAAAAAGGGGGGAAAAA
Found at i:50983 original size:25 final size:25
Alignment explanation
Indices: 50913--50983 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 25
50903 AAAAAAAAAG
* *
50913 GGGGGGAAAAGAAAGAAGAAA-GAA
1 GGGGGGAAAAAAAAGAAAAAAGGAA
* *
50937 GAGGGG--AAAAAA-AAAAAGGGAA
1 GGGGGGAAAAAAAAGAAAAAAGGAA
50959 GGGGGGAAAAAAAAGAAAAAAGGAA
1 GGGGGGAAAAAAAAGAAAAAAGGAA
50984 AAAAAGAGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
21 4 0.11
22 13 0.35
24 11 0.30
25 9 0.24
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (25 bp):
GGGGGGAAAAAAAAGAAAAAAGGAA
Found at i:50985 original size:16 final size:16
Alignment explanation
Indices: 50966--50997 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50956 GAAGGGGGGA
50966 AAAAAAAGAAAAAAGG
1 AAAAAAAGAAAAAAGG
*
50982 AAAAAAAGAGAAAAGG
1 AAAAAAAGAAAAAAGG
50998 GGGGAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAAAGG
Found at i:50998 original size:37 final size:41
Alignment explanation
Indices: 50957--51035 Score: 121
Period size: 39 Copynumber: 2.0 Consensus size: 41
50947 AAAAAAAGGG
50957 AAGGGGGG-AAAAAAAAGAAAA-AA-GGAAAA-AAAGAGAA
1 AAGGGGGGAAAAAAAAAGAAAAGAAGGGAAAAGAAAGAGAA
50994 AAGGGGGGAAAAAAAAAAGAAAAGAAGGGAAAAGAAAGAGAA
1 AAGGGGGG-AAAAAAAAAGAAAAGAAGGGAAAAGAAAGAGAA
51036 GAAAAAGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
37 8 0.22
39 13 0.35
40 2 0.05
41 6 0.16
42 8 0.22
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (41 bp):
AAGGGGGGAAAAAAAAAGAAAAGAAGGGAAAAGAAAGAGAA
Found at i:51009 original size:58 final size:62
Alignment explanation
Indices: 50919--51078 Score: 170
Period size: 58 Copynumber: 2.7 Consensus size: 62
50909 AAAGGGGGGG
* ** **
50919 AAAAG-AAAGAAGAAAGAAGA-GGGGAAAAAAAAAAAGGGAAGGGGGGAAAA-AAA-AGAA-A
1 AAAAGAAAAGAA-AAAGAAAAGGGGGAAAAAAAAAAAGAAAAGAAGGGAAAAGAAAGAGAAGA
* * *
50977 AAAGGAAAA-AAAGAGAAAAGGGGGGAAAAAAAAAAGAAAAGAAGGGAAAAGAAAGAGAAGA
1 AAAAGAAAAGAAAAAGAAAAGGGGGAAAAAAAAAAAGAAAAGAAGGGAAAAGAAAGAGAAGA
** *
51038 AAAAGAAAAGAAAAAGAGCAGGGGGAAAAAAAAAAAAAAAA
1 AAAAGAAAAGAAAAAGAAAAGGGGGAAAAAAAAAAAGAAAA
51079 AAGAAAGGAA
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
57 6 0.07
58 31 0.38
59 6 0.07
60 4 0.05
61 9 0.11
62 26 0.32
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (62 bp):
AAAAGAAAAGAAAAAGAAAAGGGGGAAAAAAAAAAAGAAAAGAAGGGAAAAGAAAGAGAAGA
Found at i:51026 original size:16 final size:14
Alignment explanation
Indices: 51007--51049 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
50997 GGGGGAAAAA
51007 AAAAAGAAAAGAAGG
1 AAAAAGAAAAGAA-G
*
51022 GAAAAGAAAGAGAAG
1 AAAAAGAAA-AGAAG
51037 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
51050 AAAGAGCAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAGAAG
Found at i:51053 original size:11 final size:11
Alignment explanation
Indices: 51001--51054 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
50991 GAAAAGGGGG
*
51001 GAAAAAAAAAA
1 GAAAAGAAAAA
**
51012 GAAAAG-AAGG
1 GAAAAGAAAAA
51022 GAAAAG--AAA
1 GAAAAGAAAAA
*
51031 GAGAAGAAAAA
1 GAAAAGAAAAA
51042 GAAAAGAAAAA
1 GAAAAGAAAAA
51053 GA
1 GA
51055 GCAGGGGGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
9 6 0.18
10 8 0.24
11 20 0.59
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
GAAAAGAAAAA
Found at i:51079 original size:28 final size:28
Alignment explanation
Indices: 51071--51133 Score: 51
Period size: 28 Copynumber: 2.3 Consensus size: 28
51061 GGAAAAAAAA
51071 AAAAAAAAAAGAAAGGAAGGG---AAAAAA
1 AAAAAAAA-AGAAAGG-AGGGAAAAAAAAA
** * *
51098 AAAAAAAGGGAAGGGAGGGAAAAAAAAG
1 AAAAAAAAAGAAAGGAGGGAAAAAAAAA
51126 AAAAAAAA
1 AAAAAAAA
51134 CGGAAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
25 4 0.14
26 5 0.18
27 7 0.25
28 12 0.43
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (28 bp):
AAAAAAAAAGAAAGGAGGGAAAAAAAAA
Found at i:51095 original size:25 final size:25
Alignment explanation
Indices: 51067--51131 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
51057 AGGGGGAAAA
51067 AAAAAAAAAAAAAAGAAAGGAAGGG
1 AAAAAAAAAAAAAAGAAAGGAAGGG
* * *
51092 AAAAAAAAAAAAAGGGAAGGGAGGG
1 AAAAAAAAAAAAAAGAAAGGAAGGG
51117 AAAAAAAAGAAAAAA
1 AAAAAAAA-AAAAAA
51132 AACGGAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
25 30 0.86
26 5 0.14
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAAAAAAGAAAGGAAGGG
Found at i:51097 original size:21 final size:22
Alignment explanation
Indices: 51071--51128 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 22
51061 GGAAAAAAAA
51071 AAAAAAAAAAGAAA-GGAAGGG
1 AAAAAAAAAAGAAAGGGAAGGG
51092 AAAAAAAAAA-AAAGGGAAGGG
1 AAAAAAAAAAGAAAGGGAAGGG
*
51113 AGGGAAAAAAAAGAAA
1 A--AAAAAAAAAGAAA
51129 AAAAACGGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
23 8 0.25
24 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAGAAAGGGAAGGG
Found at i:51138 original size:29 final size:28
Alignment explanation
Indices: 51064--51138 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 28
51054 AGCAGGGGGA
*
51064 AAAAAAAAAAAAAAAAAGAAAGGAAGGG
1 AAAAAAAAAAAAAAAAAGGAAGGAAGGG
* *
51092 ---AAAAAAAAAAAAAGGGAAGGGAGGG
1 AAAAAAAAAAAAAAAAAGGAAGGAAGGG
*
51117 AAAAAAAAGAAAAAAAACGGAA
1 AAAAAAAA-AAAAAAAAAGGAA
51139 AAAGGAGCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 22 0.56
28 5 0.13
29 12 0.31
ACGTcount: A:0.75, C:0.01, G:0.24, T:0.00
Consensus pattern (28 bp):
AAAAAAAAAAAAAAAAAGGAAGGAAGGG
Found at i:51147 original size:90 final size:90
Alignment explanation
Indices: 50982--51147 Score: 196
Period size: 90 Copynumber: 1.8 Consensus size: 90
50972 AGAAAAAAGG
* * * *
50982 AAAAAAAGAGAAAAGGGGGGAAAAAAAAAAGAAAAGAAGGGAAAAGAAAGAGAAGAAAAAGAAAA
1 AAAAAAAAAGAAAAGGAGGGAAAAAAAAAAGAAAAGAAGGGAAAAGAAAAAAAAGAAAAAGAAAA
51047 GAAAAAGAGCAGGGGGAAAAAAAAA
66 GAAAAAGAGCAGGGGGAAAAAAAAA
* **
51072 AAAAAAAAAG-AAAGGAAGGGAAAAAAAAAA-AAAGGGAAGGG-AGGGAAAAAAAAGAAAAA-AA
1 AAAAAAAAAGAAAAGG-AGGGAAAAAAAAAAGAAA-AGAAGGGAAAAGAAAAAAAAGAAAAAGAA
*
51133 ACGGAAAAAGGAGCA
64 A-AGAAAAA-GAGCA
51148 AAGAAAGAGA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
88 3 0.05
89 28 0.44
90 33 0.52
ACGTcount: A:0.70, C:0.02, G:0.28, T:0.00
Consensus pattern (90 bp):
AAAAAAAAAGAAAAGGAGGGAAAAAAAAAAGAAAAGAAGGGAAAAGAAAAAAAAGAAAAAGAAAA
GAAAAAGAGCAGGGGGAAAAAAAAA
Found at i:51271 original size:50 final size:49
Alignment explanation
Indices: 51183--51362 Score: 125
Period size: 51 Copynumber: 3.4 Consensus size: 49
51173 GAGGGGAAAT
* * *
51183 AAAAAAAAAGAAAAGGGAAGGAAGGGGAAGAGGG-GGAGAAGAGAAAAAAGA
1 AAAAAAAAAAAAAAGGGAA-GAA--AGAAAAGGGAGGAGAAGAGAAAAAAGA
*
51234 AAAAAAAAAGAAAAAGGGAAGAATA-AAAAGGGAGGAGAA-AG-GAAAAGA
1 AAAAAAAAA-AAAAAGGGAAGAA-AGAAAAGGGAGGAGAAGAGAAAAAAGA
* *
51282 AAAGGGAGAAAAAAAAAGGGAAAGAAAGAAAAGGGAAGGGGAAGAAGAAGGAAGAAAGGA
1 AAA---AAAAAAAAAAAGGG-AAGAAAGAAAAGGG-A--GG-AGAAG-A-GAA-AAAAGA
51342 AAAAAAAACAAAAAAGGGAAG
1 AAAAAAAA-AAAAAAGGGAAG
51363 GAGGGAAAAA
Statistics
Matches: 103, Mismatches: 9, Indels: 28
0.74 0.06 0.20
Matches are distributed among these distances:
48 9 0.09
49 8 0.08
50 15 0.15
51 29 0.28
52 10 0.10
54 2 0.02
55 4 0.04
57 8 0.08
58 10 0.10
60 8 0.08
ACGTcount: A:0.65, C:0.01, G:0.34, T:0.01
Consensus pattern (49 bp):
AAAAAAAAAAAAAAGGGAAGAAAGAAAAGGGAGGAGAAGAGAAAAAAGA
Found at i:51298 original size:14 final size:14
Alignment explanation
Indices: 51275--51317 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
51265 GAGGAGAAAG
*
51275 GAAAAGAAAAGGGA
1 GAAAAAAAAAGGGA
51289 GAAAAAAAAAGGGA
1 GAAAAAAAAAGGGA
51303 -AAGAAAGAAAAGGGA
1 GAA-AAA-AAAAGGGA
51318 AGGGGAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 2 0.08
14 16 0.62
15 8 0.31
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
GAAAAAAAAAGGGA
Found at i:51313 original size:15 final size:14
Alignment explanation
Indices: 51276--51318 Score: 61
Period size: 15 Copynumber: 3.0 Consensus size: 14
51266 AGGAGAAAGG
51276 AAAAGAAAAGGGAGA
1 AAAAGAAAAGGGA-A
51291 AAAA-AAAAGGGAA
1 AAAAGAAAAGGGAA
51304 AGAAAGAAAAGGGAA
1 A-AAAGAAAAGGGAA
51319 GGGGAAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.08
14 11 0.42
15 13 0.50
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAGGGAA
Found at i:51382 original size:9 final size:9
Alignment explanation
Indices: 51368--51480 Score: 65
Period size: 9 Copynumber: 12.6 Consensus size: 9
51358 GGAAGGAGGG
51368 AAAAAGGAA
1 AAAAAGGAA
*
51377 AAAAAGAAAA
1 AAAAAG-GAA
**
51387 AAAAAAAAA
1 AAAAAGGAA
*
51396 AAAGAAGGGA
1 AAA-AAGGAA
51406 AAAAAGGAA
1 AAAAAGGAA
*
51415 AGGAAA-G--
1 A-AAAAGGAA
51422 AAAAAGGAA
1 AAAAAGGAA
*
51431 AAAAGGGGAA
1 AAAA-AGGAA
51441 AAAAA--AA
1 AAAAAGGAA
* *
51448 GAAAAGAAA
1 AAAAAGGAA
*
51457 AAAAAGAAAA
1 AAAAAG-GAA
51467 AAAAAGGAA
1 AAAAAGGAA
51476 AAAAA
1 AAAAA
51481 AAAAAAAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
6 3 0.04
7 8 0.10
9 37 0.46
10 33 0.41
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAAGGAA
Found at i:51386 original size:42 final size:42
Alignment explanation
Indices: 51310--51426 Score: 127
Period size: 42 Copynumber: 2.8 Consensus size: 42
51300 GGAAAGAAAG
* * * *
51310 AAAAGGGAAGGGGAAGAAGAAGGAAGAAAGGAAAAAAAAACAA
1 AAAAGGGAAGGGG-AGAAAAAGGAAAAAAAGAAAAAAAAAAAA
51353 AAAAGGGAAGGAGG-GAAAAAGGAAAAAAAGAAAAAAAAAAAA
1 AAAAGGGAAGG-GGAGAAAAAGGAAAAAAAGAAAAAAAAAAAA
*
51395 AAAA--GAA-GGGA-AAAAAGGAAAGGAAAGAAAAA
1 AAAAGGGAAGGGGAGAAAAAGGAAA-AAAAGAAAAA
51427 GGAAAAAAGG
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
38 12 0.18
39 10 0.15
40 3 0.05
42 28 0.42
43 11 0.17
44 2 0.03
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (42 bp):
AAAAGGGAAGGGGAGAAAAAGGAAAAAAAGAAAAAAAAAAAA
Found at i:51388 original size:10 final size:10
Alignment explanation
Indices: 51375--51491 Score: 78
Period size: 10 Copynumber: 10.7 Consensus size: 10
51365 GGGAAAAAGG
51375 AAAAAAAGAA
1 AAAAAAAGAA
51385 AAAAAAA-AA
1 AAAAAAAGAA
51394 AAAAAGAAGGGAA
1 AAAAA-AA--GAA
51407 AAAAGGAAAGGAA
1 AAAA--AAA-GAA
*
51420 AGAAAAAGGAA
1 A-AAAAAAGAA
*
51431 AAAAGGGGAAAAAA
1 AAAA----AAAGAA
51445 AAAGAAAAG-A
1 AAA-AAAAGAA
51455 AAAAAAAGAA
1 AAAAAAAGAA
51465 AAAAAAAGGAA
1 AAAAAAA-GAA
51476 AAAAAAA-AA
1 AAAAAAAGAA
51485 AAAAAAA
1 AAAAAAA
51492 ACAGAAAGGA
Statistics
Matches: 89, Mismatches: 4, Indels: 29
0.73 0.03 0.24
Matches are distributed among these distances:
9 21 0.24
10 24 0.27
11 17 0.19
12 2 0.02
13 11 0.12
14 12 0.13
15 2 0.02
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:51415 original size:45 final size:45
Alignment explanation
Indices: 51341--51489 Score: 114
Period size: 45 Copynumber: 3.3 Consensus size: 45
51331 GGAAGAAAGG
* ** *
51341 AAAAAAAAACAAAA-AAGGGAAGGAGGGAAAAAGGAAAAAAAGAA
1 AAAAAAAAAAAAAAGAAGGGAAAAAAGGAAAAAGGAAAAAAAGAA
51385 AAAAAAAAAAAAAAGAAGGGAAAAAAGG--AAAGGAAAGAAAAAGGAA
1 AAAAAAAAAAAAAAGAAGGGAAAAAAGGAAAAAGG-AA-AAAAA-GAA
* ** *
51431 AAAAGGGGAAAAAAAAAGAAAAGAAAAAA--AAGAAA--AAAAAAGGAA
1 AAAA---AAAAAAAAAAGAAGGGAAAAAAGGAA-AAAGGAAAAAAAGAA
51476 AAAAAAAAAAAAAA
1 AAAAAAAAAAAAAA
51490 AAACAGAAAG
Statistics
Matches: 86, Mismatches: 9, Indels: 22
0.74 0.08 0.19
Matches are distributed among these distances:
42 9 0.10
43 5 0.06
44 15 0.17
45 22 0.26
46 11 0.13
47 2 0.02
49 19 0.22
50 3 0.03
ACGTcount: A:0.79, C:0.01, G:0.21, T:0.00
Consensus pattern (45 bp):
AAAAAAAAAAAAAAGAAGGGAAAAAAGGAAAAAGGAAAAAAAGAA
Found at i:51418 original size:54 final size:49
Alignment explanation
Indices: 51341--51492 Score: 145
Period size: 54 Copynumber: 3.1 Consensus size: 49
51331 GGAAGAAAGG
* *
51341 AAAAAAAA-ACAAAAAAGGGAAGGAGGGAAAAAGGAAAAAAAGAAAAAAAA
1 AAAAAAAAGAAAAAAAAGGAAAGGA--GAAAAAGGAAAAAAAGAAAAAAAA
* **
51391 AAAAAAAAGAAGGGAAAAAAGGAAAGGAAAGAAAAAGGAAAAAAGGGGAAAAAA
1 AAAAAAAAGAA---AAAAAAGGAAAGG--AGAAAAAGGAAAAAAAGAAAAAAAA
*
51445 AAAGAAAAGAAAAAAAA-GAAA--A-AAAAAGGAAAAAAA-AAAAAAAA
1 AAAAAAAAGAAAAAAAAGGAAAGGAGAAAAAGGAAAAAAAGAAAAAAAA
51489 AAAA
1 AAAA
51493 CAGAAAGGAG
Statistics
Matches: 86, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
44 9 0.10
45 13 0.15
46 1 0.01
50 12 0.14
51 7 0.08
54 43 0.50
56 1 0.01
ACGTcount: A:0.79, C:0.01, G:0.20, T:0.00
Consensus pattern (49 bp):
AAAAAAAAGAAAAAAAAGGAAAGGAGAAAAAGGAAAAAAAGAAAAAAAA
Found at i:51443 original size:1 final size:1
Alignment explanation
Indices: 51439--51492 Score: 63
Period size: 1 Copynumber: 54.0 Consensus size: 1
51429 AAAAAAGGGG
* * * **
51439 AAAAAAAAAGAAAAGAAAAAAAAGAAAAAAAAAGGAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
51493 CAGAAAGGAG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:51499 original size:27 final size:25
Alignment explanation
Indices: 51439--51501 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
51429 AAAAAAGGGG
* *
51439 AAAAAAAAA-GAAAAGAAAAAAAAG
1 AAAAAAAAAGGAAAAAAAAAAAAAA
51463 AAAAAAAAAGGAAAAAAAAAAAAAA
1 AAAAAAAAAGGAAAAAAAAAAAAAA
51488 AAAAACAGAAAGGA
1 AAAAA-A-AAAGGA
51502 GAAGAAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 9 0.26
25 18 0.53
26 1 0.03
27 6 0.18
ACGTcount: A:0.86, C:0.02, G:0.13, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAGGAAAAAAAAAAAAAA
Found at i:51543 original size:14 final size:15
Alignment explanation
Indices: 51526--51570 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
51516 AAAAGGGAGG
*
51526 AGAAAAA-AAAGAGA
1 AGAAAAAGAAAGAAA
51540 AGAAAAAGAAA-AAA
1 AGAAAAAGAAAGAAA
51554 AGAAAAAGAAAGGAAA
1 AGAAAAAGAAA-GAAA
51570 A
1 A
51571 AGGGGGAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 20 0.74
15 3 0.11
16 4 0.15
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AGAAAAAGAAAGAAA
Found at i:51580 original size:67 final size:64
Alignment explanation
Indices: 51464--51609 Score: 170
Period size: 67 Copynumber: 2.2 Consensus size: 64
51454 AAAAAAAAGA
* *
51464 AAAAAAAAGGAAAAAAAAAAAAAAAAAAACAGAAAGGAGAAGAAAGAAGGGG-AAAAGGGAGGAG
1 AAAAAAAAGGAAAAAAAAAAAAAAAAAAACAGAAAGGAAAAGAAAGAAGGGGAAAAAGGAAGG-G
* ***
51528 AAAAAAAAGAGAAGAAAAAGAAAAAAAGAAAA-AGAAAGGAAAAAGGGGGAAGGGGAAAAAGGAA
1 AAAAAAAAG-GAA-AAAAA-AAAAAAAAAAAACAGAAAGG-AAAAGAAAGAAGGGGAAAAAGGAA
51592 GGG
62 GGG
51595 AAAGAAAAAGGAAAA
1 AAA-AAAAAGGAAAA
51610 GGGAGAGGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
64 9 0.13
65 3 0.04
66 14 0.20
67 29 0.41
68 15 0.21
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (64 bp):
AAAAAAAAGGAAAAAAAAAAAAAAAAAAACAGAAAGGAAAAGAAAGAAGGGGAAAAAGGAAGGG
Found at i:51607 original size:23 final size:24
Alignment explanation
Indices: 51581--51632 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
51571 AGGGGGAAGG
* *
51581 GGAAAAAGGA-AGGGAAAGAAAAA
1 GGAAAAAGGAGAGGAAAAAAAAAA
*
51604 GGAAAAGGGAGAGGAAAAAAAAAA
1 GGAAAAAGGAGAGGAAAAAAAAAA
*
51628 AGAAA
1 GGAAA
51633 GACGAGAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (24 bp):
GGAAAAAGGAGAGGAAAAAAAAAA
Found at i:51624 original size:22 final size:22
Alignment explanation
Indices: 51584--51626 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
51574 GGGAAGGGGA
51584 AAAAGGAAGGGAAAGAAAAAGG
1 AAAAGGAAGGGAAAGAAAAAGG
* *
51606 AAAAGGGAGAGGAAAAAAAAA
1 AAAAGGAAG-GGAAAGAAAAA
51627 AAGAAAGACG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (22 bp):
AAAAGGAAGGGAAAGAAAAAGG
Done.