Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 192 of 325
Found at i:60361441 original size:33 final size:34
Alignment explanation
Indices: 60361339--60361444 Score: 119
Period size: 36 Copynumber: 3.1 Consensus size: 34
60361329 GGAGGGAGGG
*
60361339 GGGAAAGGGAGGAGAGAGAGAAAGGAGGAGTAGAGA
1 GGGAAGGGGAGGAGA-AGAGAAAGGAGGAG-AGAGA
*
60361375 GGGAAGGGG-GAGAGAAGAAGAAAAGAGGAGAGAGA
1 GGGAAGGGGAG-GAGAAG-AGAAAGGAGGAGAGAGA
*
60361410 GGGAAGGGAGAGGAGAAGAG-AGGGAGG-GAGAGA
1 GGGAAGGG-GAGGAGAAGAGAAAGGAGGAGAGAGA
60361443 GG
1 GG
60361445 AGGGGGGGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
33 8 0.13
34 5 0.08
35 18 0.29
36 30 0.48
37 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.56, T:0.01
Consensus pattern (34 bp):
GGGAAGGGGAGGAGAAGAGAAAGGAGGAGAGAGA
Found at i:60361448 original size:36 final size:35
Alignment explanation
Indices: 60361323--60361448 Score: 98
Period size: 36 Copynumber: 3.5 Consensus size: 35
60361313 GAAGGGGGGG
* * *
60361323 GGGAGAGGAGGGAGGGGGGAAAGGGAGGAG-AGAGA
1 GGGAGAGGAGAGA-GAGGGAAGGGGAGGAGAAGAGA
**
60361358 GAAAGGAGGAGTAGAGAGGGAAGGGG-GAGAGAAGA-A
1 GGGA-GAGGAG-AGAGAGGGAAGGGGAG-GAGAAGAGA
**
60361394 GAAAAGAGGAGAGAGAGGGAAGGGAGAGGAGAAGAGA
1 G-GGAGAGGAGAGAGAGGGAAGGG-GAGGAGAAGAGA
60361431 GGGAG-GGAGAGAGGAGGG
1 GGGAGAGGAGAGA-GAGGG
60361449 GGGGTAGGGG
Statistics
Matches: 75, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
35 23 0.31
36 41 0.55
37 11 0.15
ACGTcount: A:0.40, C:0.00, G:0.59, T:0.01
Consensus pattern (35 bp):
GGGAGAGGAGAGAGAGGGAAGGGGAGGAGAAGAGA
Found at i:60361583 original size:24 final size:26
Alignment explanation
Indices: 60361548--60361666 Score: 72
Period size: 24 Copynumber: 4.5 Consensus size: 26
60361538 AGAAAAAGAA
60361548 AGGGGGGAGGGAGAAGG-G-GAGGAG
1 AGGGGGGAGGGAGAAGGAGAGAGGAG
60361572 AGGGGAGG-GGGAGAAGGAGAGAGGAGGG
1 AGGGG-GGAGGGAGAAGGAGAGAGGA--G
*
60361600 AGAAGAGGGGAGAGG-GAGGGAGAAGAGGAAG
1 AG--G-GGGGAG-GGAGAAGGAG-AGAGG-AG
* *
60361631 AGGGGGGGGGGAG-AGG-GAG-GAAG
1 AGGGGGGAGGGAGAAGGAGAGAGGAG
*
60361654 AGGGAGGAGGGAG
1 AGGGGGGAGGGAG
60361667 GAGAGGAGGG
Statistics
Matches: 76, Mismatches: 6, Indels: 27
0.70 0.06 0.25
Matches are distributed among these distances:
23 13 0.17
24 15 0.20
25 5 0.07
26 6 0.08
27 4 0.05
28 9 0.12
29 1 0.01
30 3 0.04
31 12 0.16
32 7 0.09
33 1 0.01
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (26 bp):
AGGGGGGAGGGAGAAGGAGAGAGGAG
Found at i:60361591 original size:19 final size:19
Alignment explanation
Indices: 60361551--60361692 Score: 87
Period size: 19 Copynumber: 7.2 Consensus size: 19
60361541 AAAAGAAAGG
60361551 GGGGAGGGAGAAGGGGAGGAGA
1 GGGGAGGGAGAA---GAGGAGA
*
60361573 GGGGAGGG-GGAGAAGGAGA
1 GGGGAGGGAGAAG-AGGAGA
* *
60361592 GAGGAGGGAGAAGAGGGGA
1 GGGGAGGGAGAAGAGGAGA
60361611 GAGGGAGGGAGAAGAGGAAGA
1 G-GGGAGGGAGAAGAGG-AGA
* *
60361632 GGGG-GGGGGGAGAGG-GA
1 GGGGAGGGAGAAGAGGAGA
* *
60361649 GGAAGAGGGAGGAGGGAGGAGA
1 GG-GGAGGGA-GA-AGAGGAGA
60361671 GGAGG-GGG-GAAGAGGAGGA
1 GG-GGAGGGAGAAGAGGA-GA
60361690 GGG
1 GGG
60361693 AGAAAGGGGG
Statistics
Matches: 96, Mismatches: 14, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
17 4 0.04
18 8 0.08
19 37 0.39
20 21 0.22
21 12 0.12
22 14 0.15
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (19 bp):
GGGGAGGGAGAAGAGGAGA
Found at i:60361617 original size:61 final size:60
Alignment explanation
Indices: 60361552--60361690 Score: 169
Period size: 58 Copynumber: 2.3 Consensus size: 60
60361542 AAAGAAAGGG
* *
60361552 GGGAGGGAGAAGGGGAGGAGAGGGGAGGGGGAGAAGGAGAGAGGAGGGAGAAGAGG-GGAGA
1 GGGAGGGAGAAGAGGAGGAGAGGGGAGGGGGAGAAGGAG-GAAGAGGGAGAAG-GGAGGAGA
* * *
60361613 GGGAGGGAGAAGAGGA--AGAGGGGGGGGGGAGAGGGAGGAAGAGGGAGGAGGGAGGAGA
1 GGGAGGGAGAAGAGGAGGAGAGGGGAGGGGGAGAAGGAGGAAGAGGGAGAAGGGAGGAGA
*
60361671 -GGAGGGGGGAAGAGGAGGAG
1 GGGA-GGGAGAAGAGGAGGAG
60361691 GGAGAAAGGG
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
57 5 0.07
58 27 0.40
59 19 0.28
60 2 0.03
61 15 0.22
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (60 bp):
GGGAGGGAGAAGAGGAGGAGAGGGGAGGGGGAGAAGGAGGAAGAGGGAGAAGGGAGGAGA
Found at i:60361656 original size:42 final size:38
Alignment explanation
Indices: 60361576--60361689 Score: 112
Period size: 39 Copynumber: 3.0 Consensus size: 38
60361566 GAGGAGAGGG
60361576 GAGGG-GGAGA-AGGAGA-GAGGAGGGAGAAGAGG-GG-A
1 GAGGGAGGAGAGAGGAGAGGAGG-GGG-GAAGAGGAGGAA
* *
60361611 GAGGGAGGGAGAAGAGGAAGAGGGGGGGGGGAGAGGGAGGAA
1 GAGGGA-GGAG-AGAGG-AGAGGAGGGGGGAAGA-GGAGGAA
*
60361653 GAGGGAGGAGGGAGGAGAGGAGGGGGGAAGAGGAGGA
1 GAGGGAGGAGAGAGGAGAGGAGGGGGGAAGAGGAGGA
60361690 GGGAGAAAGG
Statistics
Matches: 65, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
35 5 0.08
37 4 0.06
38 7 0.11
39 21 0.32
40 12 0.18
41 9 0.14
42 7 0.11
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (38 bp):
GAGGGAGGAGAGAGGAGAGGAGGGGGGAAGAGGAGGAA
Found at i:60361705 original size:28 final size:29
Alignment explanation
Indices: 60361643--60361733 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 29
60361633 GGGGGGGGGA
* *
60361643 GAGGGAGGAAGAGGGAGGAGGGAGGAGAG
1 GAGGGGGGAAGAGGGAGGAGGGAGAAGAG
60361672 GAGGGGGGAAGA-GGAGGAGGGAGAA-AG
1 GAGGGGGGAAGAGGGAGGAGGGAGAAGAG
* * * *
60361699 G-GGGGGGAA-AGGAAAGAGGGGGAAAAG
1 GAGGGGGGAAGAGGGAGGAGGGAGAAGAG
60361726 GAGGGGGG
1 GAGGGGGG
60361734 GGGAGGGGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
25 1 0.02
26 18 0.33
27 6 0.11
28 18 0.33
29 11 0.20
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (29 bp):
GAGGGGGGAAGAGGGAGGAGGGAGAAGAG
Found at i:60361732 original size:93 final size:98
Alignment explanation
Indices: 60361554--60361740 Score: 221
Period size: 93 Copynumber: 1.9 Consensus size: 98
60361544 AGAAAGGGGG
*
60361554 GAGGGAGAAGGGGAGGAGAGGGGAGGGGGAGAAGGAGAGAGGAGGGAGAAGAGGGGAGAGGGAGG
1 GAGGGAGAAGGGGAGGAGA-GGGAGGGGGAGAAGGAGAGAGGAGGGAGAAGAGGGGAGAGGGAAG
* *
60361619 GAGAAGAGGAAGAGGGGGGGGGGAGAGGGAGGAA
65 GAGAAGAGGAAAAGGAGGGGGGGAGAGGGAGGAA
*
60361653 GAGGGAGGA-GGGAGGAGA-GGAGGGGG-GAA-GAG-GAGGAGGGAGAA-AGGGG-G-GGGAAAG
1 GAGGGAGAAGGGGAGGAGAGGGAGGGGGAGAAGGAGAGAGGAGGGAGAAGAGGGGAGAGGG-AAG
*
60361710 GA-AAGAGGGGGAAAAGGAGGGGGGGGGAGGG
65 GAGAAGA---GGAAAAGGAGGGGGGGAGAGGG
60361741 GAATAGAGAG
Statistics
Matches: 79, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
90 7 0.09
91 5 0.06
92 5 0.06
93 31 0.39
94 3 0.04
95 3 0.04
96 8 0.10
98 9 0.11
99 8 0.10
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (98 bp):
GAGGGAGAAGGGGAGGAGAGGGAGGGGGAGAAGGAGAGAGGAGGGAGAAGAGGGGAGAGGGAAGG
AGAAGAGGAAAAGGAGGGGGGGAGAGGGAGGAA
Found at i:60361735 original size:16 final size:16
Alignment explanation
Indices: 60361696--60361737 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
60361686 AGGAGGGAGA
60361696 AAGGGGGGGG-AAAGG
1 AAGGGGGGGGAAAAGG
* *
60361711 AAAGAGGGGGAAAAGG
1 AAGGGGGGGGAAAAGG
*
60361727 AGGGGGGGGGA
1 AAGGGGGGGGA
60361738 GGGGAATAGA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (16 bp):
AAGGGGGGGGAAAAGG
Found at i:60361791 original size:31 final size:31
Alignment explanation
Indices: 60361742--60361801 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
60361732 GGGGGAGGGG
*
60361742 AATAGAGAGGGGACGGAAGG-AGAGGAAGAT
1 AATAGAGAGAGGACGGAAGGAAGAGGAAGAT
*
60361772 AATAGGAGAGAGGAGGGAAGGAAGAGGAAG
1 AATA-GAGAGAGGACGGAAGGAAGAGGAAG
60361802 GAGAAGAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 4 0.15
31 14 0.54
32 8 0.31
ACGTcount: A:0.45, C:0.02, G:0.48, T:0.05
Consensus pattern (31 bp):
AATAGAGAGAGGACGGAAGGAAGAGGAAGAT
Found at i:60361802 original size:10 final size:9
Alignment explanation
Indices: 60361782--60361840 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
60361772 AATAGGAGAG
60361782 AGGAG-GGA
1 AGGAGAGGA
60361790 AGGAAGAGGA
1 AGG-AGAGGA
*
60361800 AGGAGAAGAA
1 AGGAG-AGGA
*
60361810 AGGGAGAGGG
1 A-GGAGAGGA
60361820 AGGAG-GGA
1 AGGAGAGGA
*
60361828 AGGAGAGGG
1 AGGAGAGGA
60361837 AGGA
1 AGGA
60361841 AAGAGGAGGG
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 10 0.24
9 14 0.34
10 13 0.32
11 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (9 bp):
AGGAGAGGA
Found at i:60361832 original size:17 final size:17
Alignment explanation
Indices: 60361781--60361840 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 17
60361771 TAATAGGAGA
60361781 GAGGAGGGAAGGAAGAGG
1 GAGGAGGGAAGG-AGAGG
* *
60361799 AAGGAGAAGAAAGGGAGAGG
1 GAGGAG--GGAA-GGAGAGG
60361819 GAGGAGGGAAGGAGAGG
1 GAGGAGGGAAGGAGAGG
60361836 GAGGA
1 GAGGA
60361841 AAGAGGAGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
17 12 0.34
18 8 0.23
20 13 0.37
21 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (17 bp):
GAGGAGGGAAGGAGAGG
Found at i:60361976 original size:29 final size:28
Alignment explanation
Indices: 60361915--60362029 Score: 78
Period size: 28 Copynumber: 4.1 Consensus size: 28
60361905 GAAGAAGGGG
* * **
60361915 GGGGAGGGGAGGAGGAGGGAAGAGAGGT
1 GGGGAGGGGAAGAGGAGAGAAGAGAGAA
*
60361943 GGGGAGGGGAAGAGGAAGAGAAGGGAGAA
1 GGGGAGGGGAAGAGG-AGAGAAGAGAGAA
* * *
60361972 GGGGA-AGGATGGAGGA-AGAAGAG-GGA
1 GGGGAGGGGA-AGAGGAGAGAAGAGAGAA
*
60361998 GGAGAGAGGGG-AGAGGAGAG-AGAGGGAA
1 GG-G-GAGGGGAAGAGGAGAGAAGAGAGAA
60362026 GGGG
1 GGGG
60362030 GGTAAGGTGG
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
26 5 0.07
27 17 0.25
28 26 0.38
29 20 0.29
ACGTcount: A:0.36, C:0.00, G:0.63, T:0.02
Consensus pattern (28 bp):
GGGGAGGGGAAGAGGAGAGAAGAGAGAA
Found at i:60362015 original size:14 final size:15
Alignment explanation
Indices: 60361996--60362024 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
60361986 GAAGAAGAGG
60361996 GAGGAGAGAG-GGGA
1 GAGGAGAGAGAGGGA
60362010 GAGGAGAGAGAGGGA
1 GAGGAGAGAGAGGGA
60362025 AGGGGGGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (15 bp):
GAGGAGAGAGAGGGA
Found at i:60362070 original size:13 final size:14
Alignment explanation
Indices: 60362040--60362077 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
60362030 GGTAAGGTGG
*
60362040 GGAGGAGGAGAGAGA
1 GGAGGAGGGGA-AGA
60362055 GGAGG-GGGGAAGA
1 GGAGGAGGGGAAGA
60362068 GGAGGAGGGG
1 GGAGGAGGGG
60362078 GGGAGAGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 8 0.38
14 8 0.38
15 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (14 bp):
GGAGGAGGGGAAGA
Found at i:60362074 original size:16 final size:16
Alignment explanation
Indices: 60362048--60362103 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 16
60362038 GGGGAGGAGG
60362048 AGAGAGAGGAGGGGGGA
1 AGAG-GAGGAGGGGGGA
*
60362065 AGAGGAGGAGGGGGGG
1 AGAGGAGGAGGGGGGA
* *
60362081 AGA-GAAGAAGGGGGA
1 AGAGGAGGAGGGGGGA
60362096 AG-GGAGGA
1 AGAGGAGGA
60362104 AAGAAAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
15 15 0.45
16 14 0.42
17 4 0.12
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (16 bp):
AGAGGAGGAGGGGGGA
Found at i:60362075 original size:31 final size:30
Alignment explanation
Indices: 60361900--60362103 Score: 117
Period size: 31 Copynumber: 6.9 Consensus size: 30
60361890 GGGAGAAAGG
*
60361900 GGAGAGAAGAAGG-GGGGGGAGGGGAGGAGGA
1 GGAGAG-AG-AGGAGGGGGGAAGGGAGGAGGA
* *
60361931 GG-GA-AGA-GAGGTGGGGAGGGGAAGAGGA
1 GGAGAGAGAGGAGG-GGGGAAGGGAGGAGGA
* *
60361959 AGAGA-AG-GGAGAAGGGGAA-GGATGGAGGA
1 GGAGAGAGAGGAG-GGGGGAAGGGA-GGAGGA
* * * *
60361988 AGA-AGAG-GGAGGAGAGAGGGGA-GAGGA
1 GGAGAGAGAGGAGGGGGGAAGGGAGGAGGA
*
60362015 -GAGAGAG-GGAAGGGGGGTAAGGTGGGGAGGA
1 GGAGAGAGAGG-AGGGGGG-AAGG-GAGGAGGA
*
60362046 GGAGAGAGAGGAGGGGGGAAGAGGAGGAGGG
1 GGAGAGAGAGGAGGGGGGAAG-GGAGGAGGA
* * *
60362077 GGGGAGAGAAGAAGGGGGAAGGGAGGA
1 GGAGAGAGAGGAGGGGGGAAGGGAGGA
60362104 AAGAAAAAAG
Statistics
Matches: 139, Mismatches: 18, Indels: 33
0.73 0.09 0.17
Matches are distributed among these distances:
26 3 0.02
27 14 0.10
28 30 0.22
29 32 0.23
30 9 0.06
31 34 0.24
32 15 0.11
33 2 0.01
ACGTcount: A:0.35, C:0.00, G:0.63, T:0.02
Consensus pattern (30 bp):
GGAGAGAGAGGAGGGGGGAAGGGAGGAGGA
Found at i:60362251 original size:16 final size:16
Alignment explanation
Indices: 60362205--60362252 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 16
60362195 AGAGGGGAGG
60362205 GAGGGGGAGAAGAGAGAAA
1 GAGGGGGAG-AG-G-GAAA
*
60362224 GAGGAGGAGAGGGAAA
1 GAGGGGGAGAGGGAAA
60362240 GAGGGGGAGAGGG
1 GAGGGGGAGAGGG
60362253 GGAGAAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 16 0.59
17 1 0.04
18 2 0.07
19 8 0.30
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (16 bp):
GAGGGGGAGAGGGAAA
Found at i:60362290 original size:28 final size:27
Alignment explanation
Indices: 60362259--60362348 Score: 72
Period size: 24 Copynumber: 3.5 Consensus size: 27
60362249 AGGGGGAGAA
60362259 GAAGAGAGGAGAGGGCAG-GGGGGAGGG-G
1 GAAGAGAGGAGA--G-AGTGGGGGAGGGAG
60362287 GAAGAG-GGA-AGAGTGGGGGAGGGAG
1 GAAGAGAGGAGAGAGTGGGGGAGGGAG
*
60362312 GAAGAGA--AG-GAG-GGGAGGAGAGAG
1 GAAGAGAGGAGAGAGTGGG-GGAGGGAG
60362336 GAAGAG-GGAGAGA
1 GAAGAGAGGAGAGA
60362349 ATAGAAGGAG
Statistics
Matches: 53, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
23 5 0.09
24 27 0.51
25 9 0.17
26 3 0.06
27 3 0.06
28 6 0.11
ACGTcount: A:0.36, C:0.01, G:0.62, T:0.01
Consensus pattern (27 bp):
GAAGAGAGGAGAGAGTGGGGGAGGGAG
Found at i:60362298 original size:35 final size:35
Alignment explanation
Indices: 60362180--60362299 Score: 111
Period size: 35 Copynumber: 3.4 Consensus size: 35
60362170 AAGGGGAAGA
* * * *
60362180 GAAGAGAGTAGAG-GGAGAGGGGAGGGAGG-GGGA
1 GAAGAGAGAAGAGAGGAGAGGGAAGGGGGGAGGGG
60362213 GAAGAGAGAAAGAGGAGGAGAGGGAAAGAGGGGGAGAGGG
1 GAAGAGAG-AAGA-GAGGAGAGGG-AAG-GGGGGAG-GGG
* *
60362253 GGAGA-AGAAGAGAGGAGAGGGCAGGGGGGAGGGG
1 GAAGAGAGAAGAGAGGAGAGGGAAGGGGGGAGGGG
*
60362287 GAAGAGGGAAGAG
1 GAAGAGAGAAGAG
60362300 TGGGGGAGGG
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
33 8 0.11
34 10 0.14
35 14 0.20
36 10 0.14
37 12 0.17
38 8 0.11
39 3 0.04
40 6 0.08
ACGTcount: A:0.38, C:0.01, G:0.61, T:0.01
Consensus pattern (35 bp):
GAAGAGAGAAGAGAGGAGAGGGAAGGGGGGAGGGG
Found at i:60362325 original size:16 final size:16
Alignment explanation
Indices: 60362304--60362360 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
60362294 GAAGAGTGGG
60362304 GGAGGGAGGAAGAGAA
1 GGAGGGAGGAAGAGAA
60362320 GGAGGGGAGGAGAGAGGAA
1 GGA-GGGAGGA-AGA-GAA
*
60362339 -GAGGGAGAGAATAGAA
1 GGAGGGAG-GAAGAGAA
60362355 GGAGGG
1 GGAGGG
60362361 GGAGGGAGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 6 0.17
17 19 0.54
18 7 0.20
19 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.58, T:0.02
Consensus pattern (16 bp):
GGAGGGAGGAAGAGAA
Found at i:60362331 original size:24 final size:22
Alignment explanation
Indices: 60362275--60362341 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 22
60362265 AGGAGAGGGC
60362275 AGGGGGGAGGG-GGAAGAGGGAAG
1 AGGGGGGAGGGAGGAAGA--GAAG
60362298 AGTGGGGGAGGGAGGAAGAGAAGG
1 AG-GGGGGAGGGAGGAAGAGAA-G
*
60362322 AGGGGAGGAGAGAGGAAGAG
1 AGGGG-GGAGGGAGGAAGAG
60362342 GGAGAGAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 8 0.21
24 25 0.64
25 6 0.15
ACGTcount: A:0.34, C:0.00, G:0.64, T:0.01
Consensus pattern (22 bp):
AGGGGGGAGGGAGGAAGAGAAG
Found at i:60362357 original size:35 final size:32
Alignment explanation
Indices: 60362305--60362386 Score: 101
Period size: 33 Copynumber: 2.4 Consensus size: 32
60362295 AAGAGTGGGG
60362305 GAGGGAGGAAGAGAAGGAGGGGAGGAGAGAGGAA
1 GAGGGAGGAAGAGAAGGA-GGG-GGAGAGAGGAA
* *
60362339 GAGGGAGAGAATAGAAGGAGGGGGAGGGAGGAA
1 GAGGGAG-GAAGAGAAGGAGGGGGAGAGAGGAA
*
60362372 GAGAGGAGGGAGAGA
1 GAG-GGAGGAAGAGA
60362387 GGGGAGGAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 18 0.43
34 14 0.33
35 10 0.24
ACGTcount: A:0.40, C:0.00, G:0.59, T:0.01
Consensus pattern (32 bp):
GAGGGAGGAAGAGAAGGAGGGGGAGAGAGGAA
Found at i:60362381 original size:38 final size:35
Alignment explanation
Indices: 60362304--60362386 Score: 98
Period size: 35 Copynumber: 2.3 Consensus size: 35
60362294 GAAGAGTGGG
60362304 GGAGGGAG-GAAGAGAAGGAGGGGAGGAGAGAGGA
1 GGAGGGAGAGAAGAGAAGGAGGGGAGGAGAGAGGA
* *
60362338 AGAGGGAGAGAATAGAAGGAGGGGGAGG-GAGGAAGAGA
1 GGAGGGAGAGAAGAGAAGGA-GGGGAGGAGA-G-AG-GA
60362376 GGAGGGAGAGA
1 GGAGGGAGAGA
60362387 GGGGAGGAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 7 0.17
35 12 0.29
36 8 0.20
37 2 0.05
38 12 0.29
ACGTcount: A:0.40, C:0.00, G:0.59, T:0.01
Consensus pattern (35 bp):
GGAGGGAGAGAAGAGAAGGAGGGGAGGAGAGAGGA
Found at i:60362452 original size:18 final size:18
Alignment explanation
Indices: 60362416--60362454 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
60362406 GGAGGGAAAA
*
60362416 GGAGGGAGGGGGAGGGGG
1 GGAGGGAGGGGGAGAGGG
60362434 GGAGGGAGGGGG-GAAGGG
1 GGAGGGAGGGGGAG-AGGG
60362452 GGA
1 GGA
60362455 AGAGGAGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.21, C:0.00, G:0.79, T:0.00
Consensus pattern (18 bp):
GGAGGGAGGGGGAGAGGG
Found at i:60362461 original size:20 final size:19
Alignment explanation
Indices: 60362418--60362463 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
60362408 AGGGAAAAGG
* *
60362418 AGGGA-GGGGGAGGGGGGG
1 AGGGAGGGGGGAAGGGGGA
60362436 AGGGAGGGGGGAAGGGGGA
1 AGGGAGGGGGGAAGGGGGA
60362455 AGAGGAGGG
1 AG-GGAGGG
60362464 AAAAGCGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.21
19 13 0.54
20 6 0.25
ACGTcount: A:0.24, C:0.00, G:0.76, T:0.00
Consensus pattern (19 bp):
AGGGAGGGGGGAAGGGGGA
Found at i:60362576 original size:40 final size:38
Alignment explanation
Indices: 60362501--60362577 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 38
60362491 AGAGGGGAAG
* *
60362501 GAGAAGGGGAAGGGGGAGAGGGGGGAGGAGAAGGAGGA
1 GAGAAGGGGAAGGGGGAGAGGGGAGAAGAGAAGGAGGA
* * *
60362539 GAGAAGAGGGAGGGGGGGGAGGGGTAGAAGAGGAGGAGG
1 GAGAAG-GGGAAGGGGGAGAGGGG-AGAAGAGAAGGAGG
60362578 TGAAGGTGCG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 6 0.19
39 15 0.47
40 11 0.34
ACGTcount: A:0.32, C:0.00, G:0.66, T:0.01
Consensus pattern (38 bp):
GAGAAGGGGAAGGGGGAGAGGGGAGAAGAGAAGGAGGA
Found at i:60362774 original size:16 final size:16
Alignment explanation
Indices: 60362755--60362893 Score: 51
Period size: 16 Copynumber: 8.6 Consensus size: 16
60362745 GGAAGGATAA
60362755 AAGGGAGGAGGAGAGG
1 AAGGGAGGAGGAGAGG
*
60362771 AAGGG-GAGAGGAG-GA
1 AAGGGAG-GAGGAGAGG
** *
60362786 AAGGGAAAAGAAG-GG
1 AAGGGAGGAGGAGAGG
*
60362801 AAGCGGAGG-GGAAAGGGG
1 AAG-GGAGGAGG--AGAGG
60362819 AAGGGAGGA-GAGAGG
1 AAGGGAGGAGGAGAGG
* *
60362834 -AGAAGAGGGAGGAAAGG
1 AAG-GGA-GGAGGAGAGG
* *
60362851 AGAGAGAGGGAGTAG-GG
1 A-AGGGA-GGAGGAGAGG
60362868 AAGGGAGGGAGG-GAGG
1 AAGGGA-GGAGGAGAGG
60362884 AAGAGGAGGA
1 AAG-GGAGGA
60362894 AGAGGAAATG
Statistics
Matches: 94, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
14 2 0.02
15 23 0.24
16 34 0.36
17 19 0.20
18 14 0.15
19 2 0.02
ACGTcount: A:0.40, C:0.01, G:0.58, T:0.01
Consensus pattern (16 bp):
AAGGGAGGAGGAGAGG
Found at i:60362843 original size:24 final size:25
Alignment explanation
Indices: 60362816--60362889 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 25
60362806 GAGGGGAAAG
60362816 GGGAAGGGAGGAGAGAGGA-GAAGA
1 GGGAAGGGAGGAGAGAGGAGGAAGA
* *
60362840 GGG-AGGAAAGGAGAGA-GAGGGAGTA
1 GGGAAGG-GAGGAGAGAGGAGGAAG-A
60362865 GGGAAGGGAGG-GAG-GGAGGAAGA
1 GGGAAGGGAGGAGAGAGGAGGAAGA
60362888 GG
1 GG
60362890 AGGAAGAGGA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
23 8 0.20
24 23 0.56
25 7 0.17
26 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.61, T:0.01
Consensus pattern (25 bp):
GGGAAGGGAGGAGAGAGGAGGAAGA
Found at i:60362891 original size:9 final size:9
Alignment explanation
Indices: 60362806--60362899 Score: 52
Period size: 8 Copynumber: 11.6 Consensus size: 9
60362796 AAGGGAAGCG
60362806 GAGG-GGAA
1 GAGGAGGAA
60362814 -AGG-GGAA
1 GAGGAGGAA
60362821 G-GGAGGAGA
1 GAGGAGGA-A
60362830 GAGGA-GAA
1 GAGGAGGAA
60362838 GAGGGAGGAA
1 GA-GGAGGAA
60362848 -AGGA-G-A
1 GAGGAGGAA
60362854 GA-GAGG--
1 GAGGAGGAA
*
60362860 GAGTAGGGAA
1 GAGGA-GGAA
*
60362870 G-GGAGGGA
1 GAGGAGGAA
60362878 G-GGAGGAA
1 GAGGAGGAA
60362886 GAGGAGGAA
1 GAGGAGGAA
60362895 GAGGA
1 GAGGA
60362900 AATGGAAGGG
Statistics
Matches: 69, Mismatches: 4, Indels: 25
0.70 0.04 0.26
Matches are distributed among these distances:
6 5 0.07
7 13 0.19
8 22 0.32
9 22 0.32
10 7 0.10
ACGTcount: A:0.39, C:0.00, G:0.60, T:0.01
Consensus pattern (9 bp):
GAGGAGGAA
Found at i:60362917 original size:48 final size:49
Alignment explanation
Indices: 60362816--60362917 Score: 124
Period size: 48 Copynumber: 2.1 Consensus size: 49
60362806 GAGGGGAAAG
*
60362816 GGGAAGGGAGGAGAGAGGAGAAGAGGGAGGAAAGGAGAGAGAGGGAGTA
1 GGGAAGGGAGGAGAGAGGAGAAGAGGGAGGAAAGGAAAGAGAGGGAGTA
60362865 GGGAAGGGAGG-GAG-GGAGGAAGA-GGAGGAAGAGGAAATG-GAAGGGA-TA
1 GGGAAGGGAGGAGAGAGGA-GAAGAGGGAGGAA-AGGAAA-GAG-AGGGAGTA
60362913 GGGAA
1 GGGAA
60362918 TTGGGGTAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
47 10 0.21
48 21 0.44
49 17 0.35
ACGTcount: A:0.40, C:0.00, G:0.57, T:0.03
Consensus pattern (49 bp):
GGGAAGGGAGGAGAGAGGAGAAGAGGGAGGAAAGGAAAGAGAGGGAGTA
Found at i:60363007 original size:13 final size:13
Alignment explanation
Indices: 60362956--60363066 Score: 54
Period size: 12 Copynumber: 8.3 Consensus size: 13
60362946 GATGAAAAGA
60362956 GGAGGGGGA-AGGG
1 GGAGGGGGAGA-GG
*
60362969 GGAAGAGGAGAGAGG
1 GG-AG-GGGGAGAGG
60362984 AGGAGGAGGGAGAGG
1 -GGAGG-GGGAGAGG
*
60362999 GGAGGGGGA-AAG
1 GGAGGGGGAGAGG
60363011 GGA-GGGGAGCAAGG
1 GGAGGGGGAG--AGG
*
60363025 GAAGAGGGGA-A-G
1 GGAG-GGGGAGAGG
*
60363037 GGAGGGGAAGAGG
1 GGAGGGGGAGAGG
*
60363050 GG-GGGGAAGAGAG
1 GGAGGGGGAGAG-G
60363063 GGAG
1 GGAG
60363067 AGAGGGGGGA
Statistics
Matches: 77, Mismatches: 7, Indels: 27
0.69 0.06 0.24
Matches are distributed among these distances:
11 9 0.12
12 19 0.25
13 13 0.17
14 13 0.17
15 15 0.19
16 8 0.10
ACGTcount: A:0.32, C:0.01, G:0.67, T:0.00
Consensus pattern (13 bp):
GGAGGGGGAGAGG
Found at i:60363043 original size:38 final size:40
Alignment explanation
Indices: 60362985--60363073 Score: 98
Period size: 38 Copynumber: 2.3 Consensus size: 40
60362975 GGAGAGAGGA
*
60362985 GGAG-GAGGGAGAGGGGAGGGGGAA-AGGGAGGGG-AGCA-AG
1 GGAGAGAGGG-GAAGGGA-GGGGAAGAGGGAGGGGAAG-AGAG
*
60363024 GGA-AGAGGGGAAGGGAGGGGAAGAGGGGGGGGAAGAGAG
1 GGAGAGAGGGGAAGGGAGGGGAAGAGGGAGGGGAAGAGAG
60363063 GGAGAGAGGGG
1 GGAGAGAGGGG
60363074 GGAGAGAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
37 6 0.14
38 15 0.35
39 15 0.35
40 7 0.16
ACGTcount: A:0.31, C:0.01, G:0.67, T:0.00
Consensus pattern (40 bp):
GGAGAGAGGGGAAGGGAGGGGAAGAGGGAGGGGAAGAGAG
Found at i:60363055 original size:22 final size:22
Alignment explanation
Indices: 60363030--60363075 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
60363020 CAAGGGAAGA
*
60363030 GGGGAAGGGAGGG-GAAGAGGGG
1 GGGGAAGAGAGGGAG-AGAGGGG
60363052 GGGGAAGAGAGGGAGAGAGGGG
1 GGGGAAGAGAGGGAGAGAGGGG
60363074 GG
1 GG
60363076 AGAGAGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.28, C:0.00, G:0.72, T:0.00
Consensus pattern (22 bp):
GGGGAAGAGAGGGAGAGAGGGG
Found at i:60363068 original size:20 final size:21
Alignment explanation
Indices: 60363030--60363082 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
60363020 CAAGGGAAGA
* *
60363030 GGGGAAGGGAGGGGAAGAGGGG
1 GGGGAAGAGA-GGGAAGAGAGG
60363052 GGGGAAGAGAGGG-AGAGAGG
1 GGGGAAGAGAGGGAAGAGAGG
60363072 GGGGAGAGAGA
1 GGGGA-AGAGA
60363083 ATAGTAAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 11 0.39
21 8 0.29
22 9 0.32
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (21 bp):
GGGGAAGAGAGGGAAGAGAGG
Found at i:60363154 original size:23 final size:24
Alignment explanation
Indices: 60363112--60363477 Score: 89
Period size: 24 Copynumber: 15.2 Consensus size: 24
60363102 GGGAGAAGGT
* *
60363112 AGGGAGGAAAGGAGGGAGAGGGAAG
1 AGGGAGGAGAGG-GGAAGAGGGAAG
60363137 -GGGAGGAGAGGGGAAGA-GGAAG
1 AGGGAGGAGAGGGGAAGAGGGAAG
* * *
60363159 AGGTAGAAAAGGGGAAG-GAGGAAG
1 AGGGAGGAGAGGGGAAGAG-GGAAG
*
60363183 AAGGGAGGAGA-GGGAA-A-GAAAG
1 -AGGGAGGAGAGGGGAAGAGGGAAG
*
60363205 AGGGA--A-AGGAGAGAGAGAGGAAG
1 AGGGAGGAGAGGGGA-AGAG-GGAAG
**
60363228 AGGGGAGGAGAAAGGAAGAAGGG-AG
1 A-GGGAGGAGAGGGGAAG-AGGGAAG
*
60363253 A-GG-GGAGTA--GGAAGAGGGAGGG
1 AGGGAGGAG-AGGGGAAGAGGGA-AG
* * *
60363275 AGAGAGAATATGGAGG-A-AGGGAAG
1 AGGGAGGAGA-GG-GGAAGAGGGAAG
*
60363299 AGGGGAGAGGGAGGGGAA-AGGGGAAGG
1 A-GGGAG-GAGAGGGGAAGA-GGGAA-G
* *
60363326 AGGGAGGAAGAGAGGAGGAGGGGAAG
1 AGGGAGG-AGAGGGGAAGA-GGGAAG
* * *
60363352 AGGGGGGAGGGGGGGA-AGGG-AG
1 AGGGAGGAGAGGGGAAGAGGGAAG
* *
60363374 AGGGAAGGGAGGGGGGGAGAGGGATA-
1 AGGG-A-GGAGAGGGGAAGAGGGA-AG
* *
60363400 AGGGGAGGA-AGGAGGGAGAAGG-A-
1 A-GGGAGGAGAGG-GGAAGAGGGAAG
* *
60363423 AGGGAGGAGA-GGG-AGGGGGAGG
1 AGGGAGGAGAGGGGAAGAGGGAAG
* *
60363445 AGGAAGGAAAGGGGGAAGGAGGGAGAG
1 AGGGAGGAGA-GGGGAA-GAGGGA-AG
60363472 AGGGAG
1 AGGGAG
60363478 AAAATTTTGG
Statistics
Matches: 253, Mismatches: 42, Indels: 90
0.66 0.11 0.23
Matches are distributed among these distances:
18 1 0.00
19 4 0.02
20 9 0.04
21 13 0.05
22 37 0.15
23 34 0.13
24 47 0.19
25 45 0.18
26 37 0.15
27 26 0.10
ACGTcount: A:0.38, C:0.00, G:0.60, T:0.01
Consensus pattern (24 bp):
AGGGAGGAGAGGGGAAGAGGGAAG
Found at i:60363196 original size:48 final size:45
Alignment explanation
Indices: 60363117--60363238 Score: 128
Period size: 45 Copynumber: 2.7 Consensus size: 45
60363107 AAGGTAGGGA
* *
60363117 GGAAAGGAGGGAGAG-GGAAG--GGGAGGAGAGGGGAAGAGGAAGAG
1 GGAAAGGAGAGAGAGAGGAAGAAGGGAGGAGA-GGGAA-AGAAAGAG
*
60363161 GTAGAAAAGGGGA-AG-GAGGAAGAAGGGAGGAGAGGGAAAGAAAGAG
1 G--G-AAAGGAGAGAGAGAGGAAGAAGGGAGGAGAGGGAAAGAAAGAG
*
60363207 GGAAAGGAGAGAGAGAGGAAGAGGGGAGGAGA
1 GGAAAGGAGAGAGAGAGGAAGAAGGGAGGAGA
60363239 AAGGAAGAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
43 7 0.11
44 4 0.06
45 18 0.28
46 16 0.25
47 11 0.17
48 9 0.14
ACGTcount: A:0.43, C:0.00, G:0.56, T:0.01
Consensus pattern (45 bp):
GGAAAGGAGAGAGAGAGGAAGAAGGGAGGAGAGGGAAAGAAAGAG
Found at i:60363243 original size:18 final size:19
Alignment explanation
Indices: 60363212--60363254 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
60363202 AAGAGGGAAA
* *
60363212 GGAGAGAGAGAGGAAGAGG
1 GGAGAGAGAAAGGAAGAAG
60363231 GGAG-GAGAAAGGAAGAAG
1 GGAGAGAGAAAGGAAGAAG
60363249 GGAGAG
1 GGAGAG
60363255 GGGAGTAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (19 bp):
GGAGAGAGAAAGGAAGAAG
Found at i:60363256 original size:25 final size:28
Alignment explanation
Indices: 60363204--60363259 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 28
60363194 GGGAAAGAAA
60363204 GAGGGAAAGGAGAGAGAGAGGAAGAGGG
1 GAGGGAAAGGAGAGAGAGAGGAAGAGGG
60363232 GAGGAGAAAGGA-AGA-AG-GG-AGAGGG
1 GAGG-GAAAGGAGAGAGAGAGGAAGAGGG
60363257 GAG
1 GAG
60363260 TAGGAAGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 9 0.33
26 2 0.07
27 2 0.07
28 7 0.26
29 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (28 bp):
GAGGGAAAGGAGAGAGAGAGGAAGAGGG
Found at i:60363269 original size:45 final size:44
Alignment explanation
Indices: 60363187--60363354 Score: 111
Period size: 45 Copynumber: 3.8 Consensus size: 44
60363177 AGGAAGAAGG
* * * *
60363187 GAGGAGAGG-GAAAGAAAG-AGGGAAAGGAGAGA-G-AGAGGAA
1 GAGGGGAGGAGAAAGGAAGAAGGGAGAGGGGAGAGGAAGAGGAA
60363227 GAGGGGAGGAGAAAGGAAGAAGGGAGAGGGGAGTAGGAAGAGG--
1 GAGGGGAGGAGAAAGGAAGAAGGGAGAGGGGAG-AGGAAGAGGAA
* * *
60363270 GA-GGGAGAGAGAATATGGAGGAAGGGAAGAGGGGAGAGGGAGGGGAA
1 GAGGGGAG-GAGAA-A-GGAAGAAGGG-AGAGGGGAGAGGAAGAGGAA
**
60363317 -AGGGGAAGGAGGGAGGAAG-AGAGGAGGAGGGGAAGAGG
1 GAGGGG-AGGAGAAAGGAAGAAG-GGA-GAGGGG-AGAGG
60363355 GGGGAGGGGG
Statistics
Matches: 102, Mismatches: 10, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
40 8 0.08
41 8 0.08
42 16 0.16
43 8 0.08
44 5 0.05
45 33 0.32
46 16 0.16
47 6 0.06
48 2 0.02
ACGTcount: A:0.41, C:0.00, G:0.57, T:0.02
Consensus pattern (44 bp):
GAGGGGAGGAGAAAGGAAGAAGGGAGAGGGGAGAGGAAGAGGAA
Found at i:60363330 original size:20 final size:19
Alignment explanation
Indices: 60363293--60363397 Score: 77
Period size: 18 Copynumber: 5.9 Consensus size: 19
60363283 TATGGAGGAA
60363293 GGGAAGAGGGGAGAGGGAG
1 GGGAAGAGGGGAGAGGGAG
60363312 GGGAA-AGGGGA-A-GGAGG
1 GGGAAGAGGGGAGAGGGA-G
*
60363329 GAGGAAGA-GAG-GA-GGAG
1 G-GGAAGAGGGGAGAGGGAG
*
60363346 GGGAAGAGGGGGGAGGG-G
1 GGGAAGAGGGGAGAGGGAG
*
60363364 GGG-A-A-GGGAGAGGGAA
1 GGGAAGAGGGGAGAGGGAG
* *
60363380 GGGAGGGGGGGAGAGGGA
1 GGGAAGAGGGGAGAGGGA
60363398 TAAGGGGAGG
Statistics
Matches: 69, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
15 8 0.12
16 13 0.19
17 8 0.12
18 22 0.32
19 18 0.26
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (19 bp):
GGGAAGAGGGGAGAGGGAG
Found at i:60363391 original size:19 final size:21
Alignment explanation
Indices: 60363368--60363442 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 21
60363358 GAGGGGGGGA
60363368 AGGGAGAGGGAAGGGAGG-GG
1 AGGGAGAGGGAAGGGAGGAGG
60363388 -GGGAGAGGGATAAGGGGAGGAAGG
1 AGGGAGAGGG--AA-GGGAGG-AGG
*
60363412 AGGGAGAAGGAAGGGAGGA-G
1 AGGGAGAGGGAAGGGAGGAGG
*
60363432 AGGGAGGGGGA
1 AGGGAGAGGGA
60363443 GGAGGAAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
19 9 0.20
20 10 0.22
21 3 0.07
22 12 0.26
23 2 0.04
24 2 0.04
25 8 0.17
ACGTcount: A:0.33, C:0.00, G:0.65, T:0.01
Consensus pattern (21 bp):
AGGGAGAGGGAAGGGAGGAGG
Found at i:60363422 original size:14 final size:12
Alignment explanation
Indices: 60363404--60363451 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 12
60363394 GGGATAAGGG
60363404 GAGGAAGGAGGGA
1 GAGGAAGG-GGGA
60363417 GAAGGAAGGGAGGA
1 G-AGGAAGGG-GGA
*
60363431 GAGGGAGGGGGA
1 GAGGAAGGGGGA
60363443 GGAGGAAGG
1 -GAGGAAGG
60363452 AAAGGGGGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 3 0.10
13 16 0.53
14 11 0.37
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (12 bp):
GAGGAAGGGGGA
Found at i:60363435 original size:49 final size:46
Alignment explanation
Indices: 60363317--60363444 Score: 113
Period size: 49 Copynumber: 2.7 Consensus size: 46
60363307 GGGAGGGGAA
* *
60363317 AGGGGAAGG-AGGGAGGAAGAGAGGAGGAG-GGGAAGAGGGGGGAGG
1 AGGGGAAGGAAGGGAGG-AGAGGGGGGGAGAGGGAAGAGGGGGGAGG
*
60363362 GGGGGAAGGGAGAGGGAAGG-GAGGGGGGGAGAGGGATA-AGGGGAGGAAGG
1 AGGGGAA-GGA-AGGG-AGGAGAGGGGGGGAGAGGGA-AGAGGGG-GG-AGG
60363412 AGGGAGAAGGAAGGGAGGAGAGGGAGGGG-GAGG
1 AGGG-GAAGGAAGGGAGGAGAGGG-GGGGAGAGG
60363445 AGGAAGGAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
45 6 0.09
46 2 0.03
47 9 0.13
48 16 0.24
49 19 0.28
50 13 0.19
51 3 0.04
ACGTcount: A:0.32, C:0.00, G:0.67, T:0.01
Consensus pattern (46 bp):
AGGGGAAGGAAGGGAGGAGAGGGGGGGAGAGGGAAGAGGGGGGAGG
Found at i:60364614 original size:22 final size:23
Alignment explanation
Indices: 60364586--60364633 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
60364576 ACTTCGTTTC
60364586 TTTTGT-CACAGTTAC-TTCTCTT
1 TTTTGTCCA-AGTTACTTTCTCTT
*
60364608 TTTTGTCCAAGTTGCTTTCTCTT
1 TTTTGTCCAAGTTACTTTCTCTT
60364631 TTT
1 TTT
60364634 GTTCTAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.10, C:0.21, G:0.10, T:0.58
Consensus pattern (23 bp):
TTTTGTCCAAGTTACTTTCTCTT
Found at i:60369148 original size:21 final size:21
Alignment explanation
Indices: 60369122--60369172 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
60369112 TCACTTCGTT
60369122 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
60369143 TCTTTTTGT-CAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
60369163 TCTTTTTGTC
1 TCTTTTTGTC
60369173 TAACTCACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.10, C:0.22, G:0.12, T:0.57
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:60371570 original size:18 final size:18
Alignment explanation
Indices: 60371537--60371630 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
60371527 AAGGTTTTCT
60371537 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
60371552 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
60371570 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
60371588 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
60371606 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
60371624 TATTGAT
1 TATTGAT
60371631 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:60377944 original size:14 final size:14
Alignment explanation
Indices: 60377925--60377952 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
60377915 TATATTAGTA
60377925 TTTTCTATTCTATT
1 TTTTCTATTCTATT
60377939 TTTTCTATTCTATT
1 TTTTCTATTCTATT
60377953 AGTATTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:60377960 original size:6 final size:6
Alignment explanation
Indices: 60377949--60378022 Score: 72
Period size: 6 Copynumber: 13.2 Consensus size: 6
60377939 TTTTCTATTC
*
60377949 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATTAG TATTAG -ATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
60377996 TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG T
60378023 TAGTGATCCC
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
4 4 0.07
5 23 0.39
6 26 0.44
8 6 0.10
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (6 bp):
TATTAG
Found at i:60377975 original size:11 final size:11
Alignment explanation
Indices: 60377950--60378026 Score: 94
Period size: 11 Copynumber: 7.5 Consensus size: 11
60377940 TTTCTATTCT
60377950 ATTAGTATTAG
1 ATTAGTATTAG
60377961 ---AGTATTAG
1 ATTAGTATTAG
**
60377969 ATTAGTATTCT
1 ATTAGTATTAG
60377980 ATTAGTATTAG
1 ATTAGTATTAG
60377991 ATTAGTATTAG
1 ATTAGTATTAG
60378002 -TTAG-ATTAG
1 ATTAGTATTAG
60378011 ATTAGTATTAG
1 ATTAGTATTAG
60378022 -TTAGT
1 ATTAGT
60378027 GATCCCGGCT
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
8 8 0.14
9 5 0.09
10 13 0.23
11 31 0.54
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:60377980 original size:30 final size:30
Alignment explanation
Indices: 60377944--60378022 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 30
60377934 CTATTTTTTC
60377944 TATTCTATTAGTATTAG-AGTATTAGATTAG
1 TATTCTATTAGTATTAGTAGTATTAG-TTAG
60377974 TATTCTATTAGTATTAGATTAGTATTAGTTAG
1 TATTCTATTAGTATTAG--TAGTATTAGTTAG
**
60378006 -ATTAGATTAGTATTAGT
1 TATTCTATTAGTATTAGT
60378023 TAGTGATCCC
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
29 1 0.02
30 17 0.39
31 14 0.32
32 4 0.09
33 8 0.18
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (30 bp):
TATTCTATTAGTATTAGTAGTATTAGTTAG
Found at i:60377994 original size:5 final size:5
Alignment explanation
Indices: 60377964--60378025 Score: 56
Period size: 5 Copynumber: 12.0 Consensus size: 5
60377954 GTATTAGAGT
**
60377964 ATTAG ATTAG TATTCT ATTAG TATTAG ATTAG TATTAG -TTAG ATTAG
1 ATTAG ATTAG -ATTAG ATTAG -ATTAG ATTAG -ATTAG ATTAG ATTAG
60378011 ATTAG TATTAG -TTAG
1 ATTAG -ATTAG ATTAG
60378026 TGATCCCGGC
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
4 8 0.17
5 22 0.46
6 18 0.38
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.47
Consensus pattern (5 bp):
ATTAG
Found at i:60378011 original size:20 final size:21
Alignment explanation
Indices: 60377950--60378026 Score: 108
Period size: 20 Copynumber: 3.8 Consensus size: 21
60377940 TTTCTATTCT
60377950 ATTAGTATTAG--AGTATTAG
1 ATTAGTATTAGTTAGTATTAG
60377969 ATTAGTATTCTA-TTAGTATTAG
1 ATTAGTA-T-TAGTTAGTATTAG
60377991 ATTAGTATTAGTTAG-ATTAG
1 ATTAGTATTAGTTAGTATTAG
60378011 ATTAGTATTAGTTAGT
1 ATTAGTATTAGTTAGT
60378027 GATCCCGGCT
Statistics
Matches: 52, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
19 7 0.13
20 23 0.44
21 7 0.13
22 15 0.29
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (21 bp):
ATTAGTATTAGTTAGTATTAG
Found at i:60386874 original size:43 final size:43
Alignment explanation
Indices: 60386819--60387056 Score: 354
Period size: 43 Copynumber: 5.5 Consensus size: 43
60386809 AAGTTCGGTT
* *
60386819 TAATGTAA-TGGCACTAAATGTGCGATATAATTATAGCTTCGGC
1 TAAT-TAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
* *
60386862 TAATTAATTGGCACTAAGTGTGCGATATAATTATAGCTTTGGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
*
60386905 TAATTAATTGGTACTAAGTGTGCGATACAATTATAGCTTCGGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
*
60386948 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGT
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
* * * *
60386991 TAATTAATTGGCACTAAGTGTGCGAAACCATTATAACTTCGGT
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
60387034 TAATTAA-TGAGCACTAAGTGTGC
1 TAATTAATTG-GCACTAAGTGTGC
60387057 AAGTTTGTTG
Statistics
Matches: 183, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
42 5 0.03
43 178 0.97
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (43 bp):
TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
Found at i:60387288 original size:45 final size:45
Alignment explanation
Indices: 60387224--60387337 Score: 137
Period size: 45 Copynumber: 2.6 Consensus size: 45
60387214 GGGGAAATAT
* * *
60387224 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGTCGGTGAGAT-A
1 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGATGAAATGA
*
60387268 CTATTCGGGCTTTCGAGCCTAGGAGGCTATAATGCCGATGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGATGAAATGA
*
60387314 TA-TCGGGC-CTCGAGCCTAGCAGGC
1 TATTCGGGCTTTCGAGCCTAGCAGGC
60387338 GAAATGCTGG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 14 0.23
44 10 0.16
45 36 0.59
46 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGATGAAATGA
Found at i:60390153 original size:32 final size:32
Alignment explanation
Indices: 60390092--60390152 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
60390082 CATCTATTTT
60390092 CATTGTTCAACTCTTTGACAACATGAAAAATC
1 CATTGTTCAACTCTTTGACAACATGAAAAATC
*
60390124 CATTGTTCAACTCTTTG-TAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACATGAAAAA
60390153 ACCAAAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 11 0.39
32 17 0.61
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACATGAAAAATC
Found at i:60404646 original size:13 final size:13
Alignment explanation
Indices: 60404628--60404655 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
60404618 TGAAAATTCG
60404628 TTAATGGTACATT
1 TTAATGGTACATT
60404641 TTAATGGTACATT
1 TTAATGGTACATT
60404654 TT
1 TT
60404656 CCCCTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (13 bp):
TTAATGGTACATT
Found at i:60414422 original size:21 final size:21
Alignment explanation
Indices: 60414398--60414441 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
60414388 GAATCTTTAG
*
60414398 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
60414419 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
60414440 TA
1 TA
60414442 ATTAGGTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:60417548 original size:15 final size:15
Alignment explanation
Indices: 60417528--60417564 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
60417518 GAAGATGGAT
60417528 AAATAAATAAAAAAG
1 AAATAAATAAAAAAG
*
60417543 AAATAAATAAAATAG
1 AAATAAATAAAAAAG
60417558 AATATAA
1 AA-ATAA
60417565 CTAAGATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (15 bp):
AAATAAATAAAAAAG
Found at i:60418260 original size:11 final size:11
Alignment explanation
Indices: 60418244--60418268 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60418234 GCGATTATTG
60418244 TATTTATTGTA
1 TATTTATTGTA
60418255 TATTTATTGTA
1 TATTTATTGTA
60418266 TAT
1 TAT
60418269 AAAGGGACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TATTTATTGTA
Found at i:60419065 original size:28 final size:28
Alignment explanation
Indices: 60419025--60419095 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
60419015 TATAGTAAGT
*
60419025 TCGCACACTTAGTGCT-TAATAATCAAAC
1 TCGCACACTTAGTGCTAT-ACAATCAAAC
*
60419053 TCGCACACTTAGTGCTATACAATTAAAC
1 TCGCACACTTAGTGCTATACAATCAAAC
60419081 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
60419096 CAATCTCATA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATACAATCAAAC
Found at i:60419876 original size:23 final size:23
Alignment explanation
Indices: 60419850--60419895 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
60419840 TGAATTTTGA
60419850 CTCAACAATGGCCGAATATGCTT
1 CTCAACAATGGCCGAATATGCTT
60419873 CTCAACAATGGCCGAATATGCTT
1 CTCAACAATGGCCGAATATGCTT
60419896 GGTCTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (23 bp):
CTCAACAATGGCCGAATATGCTT
Found at i:60423820 original size:68 final size:68
Alignment explanation
Indices: 60423697--60423837 Score: 158
Period size: 68 Copynumber: 2.1 Consensus size: 68
60423687 GCGATGCCAC
* * * * *
60423697 ATCTAACCACCCATTTATTACAACTTCACCCTAAATTGTCGAGCTACCAAGCTTAAAAGATAATG
1 ATCTAACCACCCATTTATTACAACTTCAACCTAAATGGTCAAACTACCAAGCTTAAAAGACAATG
60423762 CCT
66 CCT
* * * * * *
60423765 ATCTAGCCACCCATTTATTACAACTTCAATCTAAATGGTTAAACTTCC-TGCCTTAAAAGGCAAT
1 ATCTAACCACCCATTTATTACAACTTCAACCTAAATGGTCAAACTACCAAG-CTTAAAAGACAAT
60423829 GCCT
65 GCCT
*
60423833 GTCTA
1 ATCTA
60423838 CGATACAAGG
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
67 1 0.02
68 59 0.98
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (68 bp):
ATCTAACCACCCATTTATTACAACTTCAACCTAAATGGTCAAACTACCAAGCTTAAAAGACAATG
CCT
Found at i:60426655 original size:15 final size:14
Alignment explanation
Indices: 60426635--60426665 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
60426625 AATCGAAATT
60426635 TATTTTATAATATAA
1 TATTTTATAATA-AA
60426650 TATTTTATAATAAA
1 TATTTTATAATAAA
60426664 TA
1 TA
60426666 ATATCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTTTATAATAAA
Found at i:60435803 original size:18 final size:19
Alignment explanation
Indices: 60435776--60435811 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
60435766 AAATTGAATA
*
60435776 AAATACAAAATA-TATTTG
1 AAATAAAAAATATTATTTG
60435794 AAATAAAAAATATTATTT
1 AAATAAAAAATATTATTT
60435812 AGTATCATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (19 bp):
AAATAAAAAATATTATTTG
Found at i:60436257 original size:31 final size:31
Alignment explanation
Indices: 60436222--60436323 Score: 143
Period size: 31 Copynumber: 3.3 Consensus size: 31
60436212 AAAATTTATA
*
60436222 TGAATGATTACAGGGTATGAAAATGCAAATG
1 TGAATGATTACAGGGTATGAATATGCAAATG
*
60436253 TGAATGATTACAGAGG-GTGAATATGCAAATG
1 TGAATGATTACAG-GGTATGAATATGCAAATG
* **
60436284 TGAATGATTATAACGTATGAATATGCAAATG
1 TGAATGATTACAGGGTATGAATATGCAAATG
60436315 TGAATGATT
1 TGAATGATT
60436324 GATGCCCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
30 1 0.02
31 60 0.95
32 2 0.03
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.29
Consensus pattern (31 bp):
TGAATGATTACAGGGTATGAATATGCAAATG
Found at i:60443672 original size:46 final size:46
Alignment explanation
Indices: 60443619--60443794 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
60443609 TATTTGGGCA
60443619 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
60443665 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
** * *
60443710 CATCCGAACTTATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
60443758 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60443795 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.06
46 57 0.53
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:60443774 original size:93 final size:93
Alignment explanation
Indices: 60443615--60443786 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
60443605 AGGATATTTG
* * * *
60443615 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGTCCCAACTCGTTGAG
60443680 TTGAGTCCGAGTTCATGAGATGTAACTA
66 TTGAGTCCGAGTTCATGAGATGTAACTA
*
60443708 GGCATCCGAACTTATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG-CCCAAGCTCGTTGA
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGTCCCAA-CTCGTTGA
60443772 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
60443787 GCTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGTCCCAACTCGTTGAG
TTGAGTCCGAGTTCATGAGATGTAACTA
Found at i:60445914 original size:43 final size:42
Alignment explanation
Indices: 60445852--60446024 Score: 181
Period size: 43 Copynumber: 4.1 Consensus size: 42
60445842 ACATATAGCT
* * * *
60445852 CATACAATGCC-ATATCCCAGATAT-AGTCTTACATGTTATCA
1 CATACGATGCCAATGTCCCAGACATGA-TCTTACATGTAATCA
* * *
60445893 CATATCGATGCAAATGTCCCAGACATGATCTTACACGAAATCA
1 CATA-CGATGCCAATGTCCCAGACATGATCTTACATGTAATCA
* * *
60445936 TATAACGATGCCAATGTCCCAGATATCG-TCTTATATGTAATCA
1 CAT-ACGATGCCAATGTCCCAGACAT-GATCTTACATGTAATCA
*
60445979 CCATACAATGCCAATGTCCCAGACATGATCTTACATGTAATCA
1 -CATACGATGCCAATGTCCCAGACATGATCTTACATGTAATCA
60446022 CAT
1 CAT
60446025 CTCGGTAATC
Statistics
Matches: 108, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
41 4 0.04
42 9 0.08
43 90 0.83
44 5 0.05
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (42 bp):
CATACGATGCCAATGTCCCAGACATGATCTTACATGTAATCA
Found at i:60449517 original size:69 final size:68
Alignment explanation
Indices: 60449424--60449554 Score: 156
Period size: 69 Copynumber: 1.9 Consensus size: 68
60449414 AGCTCATACA
* * * * * *
60449424 ATGCCATATCCCAGATATGGTCTTACATGTTATCA-CATATCGATGCCGATGTCCCAGACATGGT
1 ATGCCATATCCCAGACATGGTCTTACACGTAATCACCATA-CAATGCCAATATCCCAGACATGGT
60449488 AACG
65 AACG
* * *
60449492 ATGCCAATGTCCCAGACATTGTCTTATACGTAATCACCATACAATGCCAATATCCCAGACATG
1 ATGCC-ATATCCCAGACATGGTCTTACACGTAATCACCATACAATGCCAATATCCCAGACATG
60449555 ATCTTACATG
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
68 5 0.10
69 43 0.83
70 4 0.08
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (68 bp):
ATGCCATATCCCAGACATGGTCTTACACGTAATCACCATACAATGCCAATATCCCAGACATGGTA
ACG
Found at i:60457418 original size:14 final size:14
Alignment explanation
Indices: 60457399--60457448 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
60457389 TATTTGACTT
60457399 GTTCTTAATTATGA
1 GTTCTTAATTATGA
* *
60457413 GTTCTTAATTCT-T
1 GTTCTTAATTATGA
*
60457426 GCT-TTAATTATGA
1 GTTCTTAATTATGA
60457439 GTTCTTAATT
1 GTTCTTAATT
60457449 CTTGCTTTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
12 7 0.25
13 4 0.14
14 17 0.61
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.54
Consensus pattern (14 bp):
GTTCTTAATTATGA
Found at i:60457433 original size:26 final size:26
Alignment explanation
Indices: 60457403--60457458 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
60457393 TGACTTGTTC
60457403 TTAATTATGAGTTCTTAATTCTTGCT
1 TTAATTATGAGTTCTTAATTCTTGCT
60457429 TTAATTATGAGTTCTTAATTCTTGCT
1 TTAATTATGAGTTCTTAATTCTTGCT
60457455 TTAA
1 TTAA
60457459 CATTTCAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.54
Consensus pattern (26 bp):
TTAATTATGAGTTCTTAATTCTTGCT
Found at i:60468355 original size:16 final size:16
Alignment explanation
Indices: 60468334--60468366 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
60468324 TTGGCCAAGT
60468334 TAACCTATACATGCCA
1 TAACCTATACATGCCA
60468350 TAACCTATACATGCCA
1 TAACCTATACATGCCA
60468366 T
1 T
60468367 TATACCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.30, G:0.06, T:0.27
Consensus pattern (16 bp):
TAACCTATACATGCCA
Found at i:60475115 original size:13 final size:13
Alignment explanation
Indices: 60475097--60475126 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
60475087 ATTAGGATAC
*
60475097 TGATCTGATTTTT
1 TGATCTAATTTTT
60475110 TGATCTAATTTTT
1 TGATCTAATTTTT
60475123 TGAT
1 TGAT
60475127 ATACTAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
TGATCTAATTTTT
Found at i:60481664 original size:41 final size:40
Alignment explanation
Indices: 60481593--60481815 Score: 180
Period size: 39 Copynumber: 5.7 Consensus size: 40
60481583 GCTCCTCGTT
60481593 CAAATG-CTTCGGGAC--AAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAA-CCCGGATT-TAGTAACTCGCA
60481631 CAAATGCCTTCGGGAACTTAACCCGGATTTAGTAACTCGC-
1 CAAATGCCTTCGGG-ACTTAACCCGGATTTAGTAACTCGCA
*
60481671 C-AATGCCATCGGGACTTAA-CCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
60481709 CCAATGCCTTCGGG-CGTTTAGCCCAGAATTAGTACTCTCGCA
1 CAAATGCCTTCGGGAC--TTAACCCGGATTTAGTA-ACTCGCA
** * * * *
60481751 CAAATGCCTTC-GGA-TCTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGACT-TAACCCGGATTTAGTAAC-TCGCA
*
60481791 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
60481816 CATCATTCAA
Statistics
Matches: 153, Mismatches: 16, Indels: 30
0.77 0.08 0.15
Matches are distributed among these distances:
37 18 0.12
38 14 0.09
39 37 0.24
40 35 0.23
41 29 0.19
42 20 0.13
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:60507894 original size:40 final size:40
Alignment explanation
Indices: 60507837--60508060 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
60507827 CTAACGGGGT
* * * *
60507837 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
60507877 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGG-
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
* *
60507916 TAAGTCCCGAAGGCATTTGTACGAGTTACTAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
60507956 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * * *
60507996 TAAGTCCCGAAGGCATTTGCGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * *
60508036 TAAGACCCGACGGC-CTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGT
60508061 GGTTATATCC
Statistics
Matches: 165, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 47 0.28
40 118 0.72
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:60507968 original size:79 final size:80
Alignment explanation
Indices: 60507837--60508060 Score: 285
Period size: 79 Copynumber: 2.8 Consensus size: 80
60507827 CTAACGGGGT
* * * *
60507837 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTACGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
60507902 TTACTA-ATTCCGGG-
66 TTACTATA-TCCGGGC
* *
60507916 TAAGTCCCGAAGGCATTTGTACGAGTTACTAATTTCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTACGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
60507981 TTACTATATCCGGGC
66 TTACTATATCCGGGC
** * * * * *
60507996 TAAGTCCCGAAGGCATTTGCGCTAGTGAC-CATATCCGGGCTAAGACCCGACGGC-CTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTACGAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
60508059 GT
65 GT
60508061 GGTTATATCC
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 83 0.65
80 44 0.35
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGTACGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTATATCCGGGC
Found at i:60508060 original size:119 final size:119
Alignment explanation
Indices: 60507837--60508060 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 119
60507827 CTAACGGGGT
* * *
60507837 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGACATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGCGCGAG
* * * *
60507902 TTACTAATTCCGGGTAAGTCCCGAAGGCATTTGTACGAGTTACTAATTTCGGGC
66 TGACCAATTCCGGGTAAGACCCGAAGGCACTTGTACGAGTTACTAATTTCGGGC
* * *
60507956 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCTA
1 TAAGTCCCGAAGACATTTGTGCGAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGCGCGA
* *
60508020 GTGACC-ATATCCGGGCTAAGACCCGACGGC-CTTGTGCGAGT
65 GTGACCAAT-TCCGGG-TAAGACCCGAAGGCACTTGTACGAGT
60508061 GGTTATATCC
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
118 4 0.04
119 74 0.82
120 12 0.13
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (119 bp):
TAAGTCCCGAAGACATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGCGCGAG
TGACCAATTCCGGGTAAGACCCGAAGGCACTTGTACGAGTTACTAATTTCGGGC
Found at i:60509168 original size:37 final size:37
Alignment explanation
Indices: 60509114--60509252 Score: 224
Period size: 37 Copynumber: 3.8 Consensus size: 37
60509104 AGCTCAGACG
* *
60509114 AAATCTCCACACAAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
*
60509151 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
*
60509188 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
* *
60509225 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGAAGTCATCGGGTCTT
60509253 TAAAGCTCGG
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:60509442 original size:47 final size:47
Alignment explanation
Indices: 60509371--60509814 Score: 744
Period size: 47 Copynumber: 9.4 Consensus size: 47
60509361 CCCTTCGGGA
* * * * * *
60509371 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
60509418 CCTATCACATATATACACTTTCACATTCATCACATTGGACATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60509465 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * **
60509512 CTTATCACATATATACACCTCCACATTCATCACATTAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60509559 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60509606 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60509653 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60509702 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60509749 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60509796 CTTATCACATATATACACT
1 CTTATCACATATATACACT
60509815 ATCTTGGCTG
Statistics
Matches: 375, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 328 0.87
49 47 0.13
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60509449 original size:25 final size:25
Alignment explanation
Indices: 60509421--60509499 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 25
60509411 ACTCGGCCCT
60509421 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** *** *
60509446 ATCACAT-TGGACA-TTAGGCCTT-
1 ATCACATATATACACTTTCACATTC
60509468 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
60509493 ATCACAT
1 ATCACAT
60509500 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
22 7 0.18
23 9 0.23
24 9 0.23
25 14 0.36
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:60509731 original size:143 final size:142
Alignment explanation
Indices: 60509371--60509810 Score: 735
Period size: 143 Copynumber: 3.1 Consensus size: 142
60509361 CCCTTCGGGA
* * * * *
60509371 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
*
60509434 ACTTTCACATTCATCACATTGGACATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
60509499 TCGGCCATTAGGC
130 TCGGCCATTAGGC
* * *
60509512 CTTATCAC--ATATATACACCTCCACATTCATCACATTAGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
60509575 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGC-ATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
60509640 TCGGCCATTAGGC
130 TCGGCCATTAGGC
*
60509653 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
60509718 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
60509783 TCGGCCATTAGGC
130 TCGGCCATTAGGC
60509796 CTTATCACATATATA
1 CTTATCACATATATA
60509811 CACTATCTTG
Statistics
Matches: 280, Mismatches: 13, Indels: 10
0.92 0.04 0.03
Matches are distributed among these distances:
140 2 0.01
141 135 0.48
143 142 0.51
144 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (142 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGC
Found at i:60509748 original size:190 final size:188
Alignment explanation
Indices: 60509371--60509814 Score: 744
Period size: 190 Copynumber: 2.4 Consensus size: 188
60509361 CCCTTCGGGA
* * * * * * *
60509371 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
60509436 TTTCACATTCATCACATTGGACATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGACATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
60509501 GGCCATTAGGCCTTATCACATATATACACCTCCACATTCATCACATTAGCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATACACCTCCACATTCATCACATCAGCCATTAGGC
*
60509559 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
60509624 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGACATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
* * *
60509689 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 TCGGCCATTAGGCCTTATCACATATATACACCTCCACATTCATCACATCAGCCATTAGGC
60509749 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
60509814 T
66 T
60509815 ATCTTGGCTG
Statistics
Matches: 239, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
188 92 0.38
190 147 0.62
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (188 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGACATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACCTCCACATTCATCACATCAGCCATTAGGC
Found at i:60520153 original size:40 final size:40
Alignment explanation
Indices: 60519990--60520138 Score: 219
Period size: 40 Copynumber: 3.7 Consensus size: 40
60519980 CTAACGGGGT
* * *
60519990 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
*
60520030 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
*
60520070 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC
* *
60520110 TAAGTCCCGAAGGCATTTGCGCTAGTGAC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGAC
60520139 CATATCTGGG
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.02
40 99 0.98
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
Found at i:60524756 original size:22 final size:22
Alignment explanation
Indices: 60524728--60524849 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
60524718 TTCCACATCC
60524728 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
60524750 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
60524774 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
60524797 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
60524821 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
60524844 ATCACA
1 ATCACA
60524850 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:60524763 original size:47 final size:47
Alignment explanation
Indices: 60524700--60525044 Score: 491
Period size: 47 Copynumber: 7.3 Consensus size: 47
60524690 CCCTTCGGGA
* * *
60524700 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
60524747 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
60524794 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
60524841 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
60524888 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
60524935 CTTATCACACATACACATGTTCAC-TTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
60524981 CTTATCACGCATATATATACT-TTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
60525030 CCTATCACATATATA
1 CTTATCACATATATA
60525045 TACTTGTACA
Statistics
Matches: 279, Mismatches: 14, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
46 30 0.11
47 209 0.75
48 12 0.04
49 28 0.10
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:60527653 original size:7 final size:7
Alignment explanation
Indices: 60527643--60527684 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
60527633 GGAGGTAGGA
60527643 TTCTGAT
1 TTCTGAT
60527650 TTCTGAT
1 TTCTGAT
*
60527657 TTTTGAT
1 TTCTGAT
60527664 TTCTGA-
1 TTCTGAT
*
60527670 TTCT-AA
1 TTCTGAT
60527676 TTCTGAT
1 TTCTGAT
60527683 TT
1 TT
60527685 GCACATCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
5 1 0.03
6 8 0.27
7 21 0.70
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.60
Consensus pattern (7 bp):
TTCTGAT
Found at i:60528901 original size:3 final size:3
Alignment explanation
Indices: 60528893--60528917 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
60528883 ATAAAAAGAC
60528893 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
60528918 ATAAAAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:60529453 original size:60 final size:60
Alignment explanation
Indices: 60529358--60529478 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
60529348 GACAACTCCC
*
60529358 TTAAAAATAAACCCGCATGACAAAACTTGAATATAAAACCTCAAGTATAGAGAAGGTATA
1 TTAAAAATAAACCCGCATAACAAAACTTGAATATAAAACCTCAAGTATAGAGAAGGTATA
* *
60529418 TTAAAAATAAACCTGCATAACAAAACTTGAGTATAAAACCTCAAGTATAGAGAAGGTATA
1 TTAAAAATAAACCCGCATAACAAAACTTGAATATAAAACCTCAAGTATAGAGAAGGTATA
60529478 T
1 T
60529479 GACAAGTTCG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.50, C:0.14, G:0.13, T:0.23
Consensus pattern (60 bp):
TTAAAAATAAACCCGCATAACAAAACTTGAATATAAAACCTCAAGTATAGAGAAGGTATA
Found at i:60539414 original size:20 final size:20
Alignment explanation
Indices: 60539389--60539435 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
60539379 CGTACCCCTA
*
60539389 ATAGCATTACGGTGCTTCTG
1 ATAGCACTACGGTGCTTCTG
*
60539409 ATAGCACTACGGTGCTTTTG
1 ATAGCACTACGGTGCTTCTG
60539429 ATAGCAC
1 ATAGCAC
60539436 ATTTGCGCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (20 bp):
ATAGCACTACGGTGCTTCTG
Found at i:60540479 original size:37 final size:37
Alignment explanation
Indices: 60540436--60540509 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
60540426 CTTTCCTATA
60540436 AAAATAGACTCAATAAGATTTAATTCTATATCTCATT
1 AAAATAGACTCAATAAGATTTAATTCTATATCTCATT
*
60540473 AAAATAGACTGAATAAGATTTAATTCTATATCTCATT
1 AAAATAGACTCAATAAGATTTAATTCTATATCTCATT
60540510 CACCATTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (37 bp):
AAAATAGACTCAATAAGATTTAATTCTATATCTCATT
Found at i:60541132 original size:53 final size:53
Alignment explanation
Indices: 60541067--60541275 Score: 199
Period size: 53 Copynumber: 3.9 Consensus size: 53
60541057 CTTTCCTTTT
* * *
60541067 TAAACTTACCATTGCCCTGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
1 TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * *
60541120 TGAACTCACCATTGCCATGCCTT-AGCATGGTCTTAGATAGG-ATCTTTGCCTTA
1 TAAACTTACCAATGCCATGCCTTGA-CATGGTCTTACAT-GGTATCCTTGCCTTA
* * * * * * *
60541173 TAATAGTTTATCAATGCCATGTCTTGACATGGTCATACATGATTTCCTTGCCTTG
1 TAA-A-CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
*
60541228 TAAAACTTACCAATGCCATGCCTTCG-CATGGTCTTACTTGGTATCCTT
1 T-AAACTTACCAATGCCATGCCTT-GACATGGTCTTACATGGTATCCTT
60541276 AAACCCTAGT
Statistics
Matches: 123, Mismatches: 25, Indels: 15
0.75 0.15 0.09
Matches are distributed among these distances:
52 1 0.01
53 44 0.36
54 38 0.31
55 37 0.30
56 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.37
Consensus pattern (53 bp):
TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:60549663 original size:47 final size:47
Alignment explanation
Indices: 60549465--60549815 Score: 218
Period size: 47 Copynumber: 7.4 Consensus size: 47
60549455 TTGCCGCTGC
* * *
60549465 CATGTCCCAGATATGGTCTTACGCTGGCTATC-TCCATCGAGGCCGATG
1 CATGTCCCAGACA-GGTCTTACACTAGCTATCAT-CATCGAGGCCGATG
* * * * * *
60549513 CCATGTCCTAGACATGGTCTTACACTAGCTCTCGTGTATACG-TGCTGATG
1 -CATGTCCCAGACA-GGTCTTACACTAGCTATCAT-CAT-CGAGGCCGATG
* * * * * *
60549563 CATGTCCCAAACATGTCTTACACTAGC-ATGA--AACTTA-GCCGATA
1 CATGTCCCAGACAGGTCTTACACTAGCTATCATCATC-GAGGCCGATG
* * *
60549607 CATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCTGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTATCATCATCGAGGCCGATG
* * * **
60549654 CATGTCCCAGACATGTCTTACACTATC-ACTCATC-TCTACACCGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTA-TCATCATCGAGGCCGATG
* * * * *
60549700 CCATGTCCCAGATATGGTCTTACACTGGCTATCATAAT-GTGGCTGATG
1 -CATGTCCCAGACA-GGTCTTACACTAGCTATCATCATCGAGGCCGATG
* ** * * *
60549748 CATGTCCCAGACATGTCTTACACTAGCCCTCGTC-TCAATGCCGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTATCATCATCGAGGCCGATG
60549794 CCATGTCCCAGACACGGTCTTA
1 -CATGTCCCAGACA-GGTCTTA
60549816 TACTGGCTCT
Statistics
Matches: 230, Mismatches: 56, Indels: 33
0.72 0.18 0.10
Matches are distributed among these distances:
43 1 0.00
44 30 0.13
45 4 0.02
46 31 0.13
47 74 0.32
48 39 0.17
49 40 0.17
50 9 0.04
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACAGGTCTTACACTAGCTATCATCATCGAGGCCGATG
Found at i:60549752 original size:141 final size:140
Alignment explanation
Indices: 60549465--60549815 Score: 338
Period size: 141 Copynumber: 2.5 Consensus size: 140
60549455 TTGCCGCTGC
* * * *
60549465 CATGTCCCAGATATGGTCTTACGCTGGCTATCTCCATCGAGGCCGATGCCATGTCCTAGACATGG
1 CATGTCCCAGACA-CGTCTTACACTGGCTATCTCCATCGAGGCCGATGCCATGTCCCAGACATGG
* * * * * *
60549530 TCTTACACTAGCTCTCGTGTATACGTGCTGATGCATGTCCCAAACATGTCTTACACTAGCATGAA
65 TCTTACACTAGCACTCATCTATACG-ACCGATGCATGTCCCAAACATGTCTTACACTAGCATCAA
60549595 ACTTAGCCGATA
129 ACTTAGCCGATA
*
60549607 CATGTCCCAGACACGTCTTACACTGGCTATCAT-CATCGAGGCTGATG-CATGTCCCAGACAT-G
1 CATGTCCCAGACACGTCTTACACTGGCTATC-TCCATCGAGGCCGATGCCATGTCCCAGACATGG
* * * * *
60549669 TCTTACACTATCACTCATCTCTAC-ACCGATGCCATGTCCCAGATATGGTCTTACACTGGCTATC
65 TCTTACACTAGCACTCATCTATACGACCGATG-CATGTCCCAAACAT-GTCTTACACTAGC-ATC
* * *
60549733 ATAA-TGTGGCTGATG
127 A-AACT-TAGCCGATA
* * ** * * *
60549748 CATGTCCCAGACATGTCTTACACTAGCCCTCGT-C-TCAATGCCGATGCCATGTCCCAGACACGG
1 CATGTCCCAGACACGTCTTACACTGGCTATC-TCCATCGAGGCCGATGCCATGTCCCAGACATGG
60549811 TCTTA
65 TCTTA
60549816 TACTGGCTCT
Statistics
Matches: 173, Mismatches: 28, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
137 5 0.03
138 12 0.07
139 32 0.18
140 26 0.15
141 79 0.46
142 19 0.11
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (140 bp):
CATGTCCCAGACACGTCTTACACTGGCTATCTCCATCGAGGCCGATGCCATGTCCCAGACATGGT
CTTACACTAGCACTCATCTATACGACCGATGCATGTCCCAAACATGTCTTACACTAGCATCAAAC
TTAGCCGATA
Found at i:60549753 original size:94 final size:93
Alignment explanation
Indices: 60549506--60549823 Score: 358
Period size: 94 Copynumber: 3.4 Consensus size: 93
60549496 CTCCATCGAG
* * * * *
60549506 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTGTATACGT-GCTGATGCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC--ATA-ATGTGGCTGATGCATGTCC
* * *
60549570 CAAACATGTCTTACACTAGCA-TGAAACT-TA
63 CAGACATGTCTTACACTAGCACT-CATCTCTA
* * * *
60549600 GCCGAT-ACATGTCCCAGACA-CGTCTTACACTGGCTATCATCATCGAGGCTGATGCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAAT-GTGGCTGATGCATGTCCCA
*
60549663 GACATGTCTTACACTATCACTCATCTCTA
65 GACATGTCTTACACTAGCACTCATCTCTA
* *
60549692 CACCGATGCCATGTCCCAGATATGGTCTTACACTGGCTATCATAATGTGGCTGATGCATGTCCCA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGTGGCTGATGCATGTCCCA
* * *
60549757 GACATGTCTTACACTAGCCCTCGTCTCAA
65 GACATGTCTTACACTAGCACTCATCTCTA
* *
60549786 TGCCGATGCCATGTCCCAGACACGGTCTTATACTGGCT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
60549824 CTCACATAAC
Statistics
Matches: 189, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
89 1 0.01
90 2 0.01
91 36 0.19
92 18 0.10
93 17 0.09
94 94 0.50
95 21 0.11
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGTGGCTGATGCATGTCCCAG
ACATGTCTTACACTAGCACTCATCTCTA
Found at i:60550204 original size:30 final size:30
Alignment explanation
Indices: 60550162--60550224 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
60550152 AAATTTACAT
*
60550162 CTTTAGTAAAATGACCATTTTGCCCCTAGA
1 CTTTAGTAAAATGACCATTTTACCCCTAGA
*
60550192 CTTTAGCT-AAATGACCATTTTACCCCTATA
1 CTTTAG-TAAAATGACCATTTTACCCCTAGA
60550222 CTT
1 CTT
60550225 AAAATTCGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.37
Consensus pattern (30 bp):
CTTTAGTAAAATGACCATTTTACCCCTAGA
Found at i:60552721 original size:93 final size:93
Alignment explanation
Indices: 60552613--60552782 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
60552603 CCCATAAGTG
*
60552613 AACTCGAACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
60552678 GAGCTCGGATGCTTAGTTACATCTCTCA
66 GAGCTCGGATGCTTAGTTACATCTCTCA
* * *
60552706 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAGC
1 AACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
60552771 GAGTTCGGATGC
66 GAGCTCGGATGC
60552783 CCAAACATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCTTAGTTACATCTCTCA
Found at i:60552779 original size:46 final size:46
Alignment explanation
Indices: 60552604--60552779 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
60552594 TGTAACCCGC
* *
60552604 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
60552650 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-TTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA--CATTCGCAT
* *** * *
60552696 ACATCTCTCAAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
60552743 CCATAAGTGAACTCGGACTCAACTCAGCGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
60552780 TGCCCAAACA
Statistics
Matches: 107, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 70 0.65
47 35 0.33
48 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:60567777 original size:9 final size:9
Alignment explanation
Indices: 60567763--60567839 Score: 100
Period size: 9 Copynumber: 8.6 Consensus size: 9
60567753 ATAAGTATAA
*
60567763 AATTAACTG
1 AATTAACCG
*
60567772 AATTAATCG
1 AATTAACCG
60567781 AATTAACCG
1 AATTAACCG
*
60567790 AATTACCCG
1 AATTAACCG
*
60567799 AATTACCCG
1 AATTAACCG
*
60567808 AATTACCCG
1 AATTAACCG
*
60567817 AATTAACTG
1 AATTAACCG
60567826 AATTAACCG
1 AATTAACCG
60567835 AATTA
1 AATTA
60567840 TTTGTATAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 61 1.00
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:60567914 original size:13 final size:13
Alignment explanation
Indices: 60567898--60567922 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60567888 AATTTTTATG
60567898 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
60567911 ATTGGGTTGGGT
1 ATTGGGTTGGGT
60567923 TGGATACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:60567922 original size:18 final size:18
Alignment explanation
Indices: 60567899--60567936 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
60567889 ATTTTTATGA
*
60567899 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGATAATTGGG
*
60567917 TTGGGTTGGATACTTGGG
1 TTGGGTTGGATAATTGGG
60567935 TT
1 TT
60567937 AATATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.03, G:0.45, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGATAATTGGG
Found at i:60575790 original size:27 final size:26
Alignment explanation
Indices: 60575752--60575837 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
60575742 GCATGGCTGC
*
60575752 CAGAACAGATATTGTGACAGAGTCAA
1 CAGAACAGATATTGTGACAGAGCCAA
* *
60575778 CAGATACAGATATTGTGGCAGAGCCAC
1 CAGA-ACAGATATTGTGACAGAGCCAA
* * * *
60575805 CAGAATAGATATTTGTGGCATAGCCAC
1 CAGAACAGATA-TTGTGACAGAGCCAA
60575832 CAGAAC
1 CAGAAC
60575838 GCTTCCTCCA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGAACAGATATTGTGACAGAGCCAA
Found at i:60582021 original size:27 final size:27
Alignment explanation
Indices: 60581963--60582031 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
60581953 TACAAATCTG
* *
60581963 TCATTTTACCTTATAGGGGTATTATAG
1 TCATTTTACCCTATAGGGGTATTATAA
* *
60581990 CCATTTTACCCTATGGGGGTATT-TCAA
1 TCATTTTACCCTATAGGGGTATTAT-AA
*
60582017 TCATTTTACCTTATA
1 TCATTTTACCCTATA
60582032 AGGGAAAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTATAA
Found at i:60584740 original size:20 final size:21
Alignment explanation
Indices: 60584703--60584741 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
60584693 GTGTAATCAG
60584703 TATGTTTATATGGTTAAATCT
1 TATGTTTATATGGTTAAATCT
*
60584724 TATGTTTA-ATTGTTAAAT
1 TATGTTTATATGGTTAAAT
60584742 TAGAGATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.54
Consensus pattern (21 bp):
TATGTTTATATGGTTAAATCT
Found at i:60585092 original size:37 final size:37
Alignment explanation
Indices: 60584995--60585095 Score: 139
Period size: 37 Copynumber: 2.7 Consensus size: 37
60584985 TGTGTGCATG
* **
60584995 TGTAAGACCATAGTTGCACTATGGCATCATAATAACA
1 TGTAAGACCATAGCTGGGCTATGGCATCATAATAACA
* * *
60585032 TGTAAGACCATAGCTGGGTTATGGCATCGTAATGACA
1 TGTAAGACCATAGCTGGGCTATGGCATCATAATAACA
*
60585069 TGTAAGACCATAGCAGGGCTATGGCAT
1 TGTAAGACCATAGCTGGGCTATGGCAT
60585096 TGTGATACGT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (37 bp):
TGTAAGACCATAGCTGGGCTATGGCATCATAATAACA
Found at i:60588639 original size:85 final size:85
Alignment explanation
Indices: 60588505--60588660 Score: 199
Period size: 85 Copynumber: 1.8 Consensus size: 85
60588495 TGAGATATCG
* * * * *
60588505 TGTAAGACCGTGTCTAGGACACAGGCCTCTATTGAGATTTACGTATAAGACCATGTCTGGGACAT
1 TGTAAGACCGTGTCTAGGACACAGGCATCCATTGAGATTTACATATAAGACCACGTCCGGGACAT
60588570 CAACATCGTATCTGATTTCA
66 CAACATCGTATCTGATTTCA
* * *
60588590 TGTAAGACCTTGTCTAGGACAGAGGCATCGACATTGA-A-TTACATGTAAGACCACGTCCGGGAC
1 TGTAAGACCGTGTCTAGGACACAGGCATC--CATTGAGATTTACATATAAGACCACGTCCGGGAC
*
60588653 GTCAACAT
64 ATCAACAT
60588661 TGTACCTATT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 54 0.90
86 1 0.02
87 5 0.08
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (85 bp):
TGTAAGACCGTGTCTAGGACACAGGCATCCATTGAGATTTACATATAAGACCACGTCCGGGACAT
CAACATCGTATCTGATTTCA
Found at i:60597310 original size:42 final size:40
Alignment explanation
Indices: 60597198--60597321 Score: 115
Period size: 42 Copynumber: 3.0 Consensus size: 40
60597188 CATCTATTTG
* * *
60597198 AGATATCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATT
1 AGATTTCGTGTAAGACCATGTCTGGGACAC-GGCATCGATT
*
60597239 GAGATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATCT
1 -AGATTT-CGTGTAAGACCATGTCTGGGACA-CGGCATCG-AT-T
* * *
60597284 -GATTTCGTGTAAGACCTTATCTGGGACAGAGGCATCGA
1 AGATTTCGTGTAAGACCATGTCTGGGACA-CGGCATCGA
60597322 CATTGAATTA
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 32 0.46
43 32 0.46
44 3 0.04
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
AGATTTCGTGTAAGACCATGTCTGGGACACGGCATCGATT
Found at i:60597359 original size:85 final size:85
Alignment explanation
Indices: 60597203--60597361 Score: 196
Period size: 85 Copynumber: 1.9 Consensus size: 85
60597193 ATTTGAGATA
* * * * **
60597203 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCGTATCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACGTCCAGGA
60597268 CATCGGCATCGTATCTGATT
66 CATCGGCATCGTATCTGATT
* * *
60597288 TCGTGTAAGACCTTATCTGGGACAGAGGCATCGACATTGA-A-TTACATGTAAGACCACGTCCAG
1 TCGTGTAAGACCGTATCTGGGACACAGGCATCG--ATTGAGATTTACATATAAGACCACGTCCAG
*
60597351 GACGTCGGCAT
64 GACATCGGCAT
60597362 TGTACCTGTT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 56 0.90
86 1 0.02
87 5 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (85 bp):
TCGTGTAAGACCGTATCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACGTCCAGGA
CATCGGCATCGTATCTGATT
Found at i:60600992 original size:53 final size:53
Alignment explanation
Indices: 60600912--60601018 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
60600902 CGAATATGAT
* *
60600912 TCCCGCATATAGCCTACGGACTTTAAGTCCGGATATAATTCCTGCATATAGCC
1 TCCCGCATATAGCCTACGGACCTTAAGTCCGGATATAATTCCCGCATATAGCC
60600965 TCCCGCATATAGCCTACGGACCTTAAGTCCGGATATAATTCCCGCATATAGCC
1 TCCCGCATATAGCCTACGGACCTTAAGTCCGGATATAATTCCCGCATATAGCC
60601018 T
1 T
60601019 ACGGACCTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (53 bp):
TCCCGCATATAGCCTACGGACCTTAAGTCCGGATATAATTCCCGCATATAGCC
Found at i:60601012 original size:39 final size:39
Alignment explanation
Indices: 60600965--60601042 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
60600955 GCATATAGCC
60600965 TCCCGCATATAGCCTACGGACCTTAAGTCCGGATATAAT
1 TCCCGCATATAGCCTACGGACCTTAAGTCCGGATATAAT
60601004 TCCCGCATATAGCCTACGGACCTTAAGTCCGGATATAAT
1 TCCCGCATATAGCCTACGGACCTTAAGTCCGGATATAAT
60601043 CACCATATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (39 bp):
TCCCGCATATAGCCTACGGACCTTAAGTCCGGATATAAT
Found at i:60603926 original size:42 final size:42
Alignment explanation
Indices: 60603867--60604031 Score: 190
Period size: 42 Copynumber: 3.9 Consensus size: 42
60603857 ATTAGGGTTA
*
60603867 ATGAGATTACGTGTAAGACTATATCTAGGATATGGCATCGAT
1 ATGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGAT
* *
60603909 ATGAGACTT-CGTGTAAGACCATATCTGGGATATGGCATTGAT
1 ATGAGA-TTACGTGTAAGACCATATCTAGGATATGGCATCGAT
* * *
60603951 ATGAGACTT-CGTGTAAGACTATAGCTAGGCTATTGGCATCGAT
1 ATGAGA-TTACGTGTAAGACCATATCTAGGATA-TGGCATCGAT
* * * * *
60603994 ATGAGATTCCATGTGAGACCGTATCTGGGATATGGCAT
1 ATGAGATTACGTGTAAGACCATATCTAGGATATGGCAT
60604032 TGGAACGATA
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 72 0.69
43 33 0.31
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
ATGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGAT
Found at i:60604019 original size:85 final size:84
Alignment explanation
Indices: 60603867--60604033 Score: 248
Period size: 85 Copynumber: 2.0 Consensus size: 84
60603857 ATTAGGGTTA
* *
60603867 ATGAGATTACGTGTAAGACTATATCTAGGATATGGCATCGATATGAGACTTCGTGTAAGACCATA
1 ATGAGATTACGTGTAAGACTATAGCTAGGATATGGCATCGATATGAGACTTCATGTAAGACCATA
60603932 TCTGGGATATGGCATTGAT
66 TCTGGGATATGGCATTGAT
* *
60603951 ATGAGACTT-CGTGTAAGACTATAGCTAGGCTATTGGCATCGATATGAGA-TTCCATGTGAGACC
1 ATGAGA-TTACGTGTAAGACTATAGCTAGGATA-TGGCATCGATATGAGACTT-CATGTAAGACC
*
60604014 GTATCTGGGATATGGCATTG
63 ATATCTGGGATATGGCATTG
60604034 GAACGATACT
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
84 29 0.39
85 46 0.61
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (84 bp):
ATGAGATTACGTGTAAGACTATAGCTAGGATATGGCATCGATATGAGACTTCATGTAAGACCATA
TCTGGGATATGGCATTGAT
Found at i:60606280 original size:44 final size:44
Alignment explanation
Indices: 60606232--60606318 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
60606222 TTATAAATAA
* *
60606232 AGAATTAAAAATGACTTAAACAAAAGAGACTTCGGAAAACTAAT
1 AGAATTAAAAATGACATAAACAAAAGAGACTTCAGAAAACTAAT
*
60606276 AGAATTAAAAATGACATAAACAAAAGAGACTTCAGAAATCTAA
1 AGAATTAAAAATGACATAAACAAAAGAGACTTCAGAAAACTAA
60606319 CTTATAAACT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.56, C:0.11, G:0.13, T:0.20
Consensus pattern (44 bp):
AGAATTAAAAATGACATAAACAAAAGAGACTTCAGAAAACTAAT
Found at i:60608784 original size:21 final size:21
Alignment explanation
Indices: 60608758--60608799 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
60608748 TTATTCTGTG
60608758 TTATCCAAGAGAAATACAAAT
1 TTATCCAAGAGAAATACAAAT
60608779 TTATCCAAGAGAAATACAAAT
1 TTATCCAAGAGAAATACAAAT
60608800 GGCATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.24
Consensus pattern (21 bp):
TTATCCAAGAGAAATACAAAT
Found at i:60613065 original size:9 final size:9
Alignment explanation
Indices: 60613053--60613153 Score: 55
Period size: 9 Copynumber: 11.6 Consensus size: 9
60613043 ATTATAATTA
60613053 TTATTATTC
1 TTATTATTC
*
60613062 TTATTATTG
1 TTATTATTC
*
60613071 TTGTTA---
1 TTATTATTC
* *
60613077 TTATTGTTA
1 TTATTATTC
* *
60613086 TTGTTCTTC
1 TTATTATTC
* *
60613095 TTTTTCTTC
1 TTATTATTC
* *
60613104 TTGTTATTG
1 TTATTATTC
* *
60613113 TTATTGTTG
1 TTATTATTC
60613122 TTATTATTC
1 TTATTATTC
*
60613131 TTCTTATTC
1 TTATTATTC
*
60613140 TTCTTATTC
1 TTATTATTC
60613149 TTATT
1 TTATT
60613154 GTTACTGCTT
Statistics
Matches: 72, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
6 4 0.06
9 68 0.94
ACGTcount: A:0.14, C:0.10, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTC
Found at i:60613088 original size:6 final size:6
Alignment explanation
Indices: 60613065--60613157 Score: 51
Period size: 6 Copynumber: 15.5 Consensus size: 6
60613055 ATTATTCTTA
* * * * * * *
60613065 TTATTG TTGTTA TTATTG TTATTG TTCTTC TTTTTC TTCTTG TTATTG
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG
* * * * * * * *
60613113 TTATTG TTGTTA TTATTC TTCTTA TTCTTC TTATTC TTATTG TTA
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTA
60613158 CTGCTTACAG
Statistics
Matches: 68, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.13, C:0.10, G:0.10, T:0.68
Consensus pattern (6 bp):
TTATTG
Found at i:60613137 original size:12 final size:12
Alignment explanation
Indices: 60613049--60613153 Score: 57
Period size: 12 Copynumber: 8.8 Consensus size: 12
60613039 ATATATTATA
*
60613049 ATTATTATTATT
1 ATTATTATTCTT
* *
60613061 CTTATTATTGTT
1 ATTATTATTCTT
* *
60613073 GTTATTATTGTT
1 ATTATTATTCTT
* *
60613085 ATTGTTCTTCTT
1 ATTATTATTCTT
* * * *
60613097 TTTCTTCTTGTT
1 ATTATTATTCTT
* *
60613109 ATTGTTATTGTT
1 ATTATTATTCTT
*
60613121 GTTATTATTCTT
1 ATTATTATTCTT
* *
60613133 CTTATTCTTCTT
1 ATTATTATTCTT
*
60613145 ATTCTTATT
1 ATTATTATT
60613154 GTTACTGCTT
Statistics
Matches: 72, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 72 1.00
ACGTcount: A:0.15, C:0.10, G:0.08, T:0.68
Consensus pattern (12 bp):
ATTATTATTCTT
Found at i:60614579 original size:21 final size:19
Alignment explanation
Indices: 60614546--60614585 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
60614536 CAATCTTATT
*
60614546 AAACTCCTAAAATTTTAGTC
1 AAACTCCCAAAA-TTTAGTC
60614566 AAACTTCCCAAAATTTAGTC
1 AAAC-TCCCAAAATTTAGTC
60614586 TCAAAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (19 bp):
AAACTCCCAAAATTTAGTC
Found at i:60615927 original size:14 final size:14
Alignment explanation
Indices: 60615908--60615934 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60615898 AGTTCCCATG
60615908 CAAATAATAAGCAA
1 CAAATAATAAGCAA
60615922 CAAATAATAAGCA
1 CAAATAATAAGCA
60615935 TTATAAACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (14 bp):
CAAATAATAAGCAA
Found at i:60616282 original size:43 final size:41
Alignment explanation
Indices: 60616216--60616367 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 41
60616206 GCCATATCTA
* * * * * *
60616216 AGATATGGTCTTATATAAGATCTCGTTTCGATGCCAATAGCCC
1 AGATATGGTCTTACACAAAATCTCATATCGATG-C-ATATCCC
* *
60616259 AGCTATGGTCTTACACAAAATCTCATATCGATGTTATATCCC
1 AGATATGGTCTTACACAAAATCTCATATCGATG-CATATCCC
*
60616301 AGATATGGTCTTACACGAAATCTCATAAT-GATGTCATATCCC
1 AGATATGGTCTTACACAAAATCTCAT-ATCGATG-CATATCCC
*
60616343 AGATATGGTCTTACACAAAGTCTCA
1 AGATATGGTCTTACACAAAATCTCA
60616368 GTAACCCTAA
Statistics
Matches: 94, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
42 65 0.69
43 29 0.31
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (41 bp):
AGATATGGTCTTACACAAAATCTCATATCGATGCATATCCC
Done.