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 191 of 325
Found at i:60355415 original size:15 final size:15
Alignment explanation
Indices: 60355397--60355428 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
60355387 GGAGAAGGGA
*
60355397 GAAGGGGAGGAGGAG
1 GAAGGGGAGGAAGAG
60355412 GAAGGGGAGGAAGAG
1 GAAGGGGAGGAAGAG
60355427 GA
1 GA
60355429 GGAGAAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (15 bp):
GAAGGGGAGGAAGAG
Found at i:60355469 original size:20 final size:20
Alignment explanation
Indices: 60355416--60355469 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
60355406 GAGGAGGAAG
*
60355416 GGGAGGAAGAGGAGGAGAAAA
1 GGGAGGAAGA-GAGCAGAAAA
* *
60355437 GGGAGGATA-AGAGCAGGAGA
1 GGGAGGA-AGAGAGCAGAAAA
60355457 GGGAGGAAGAGAG
1 GGGAGGAAGAGAG
60355470 GAAGGAGGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 1 0.04
20 18 0.64
21 8 0.29
22 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.54, T:0.02
Consensus pattern (20 bp):
GGGAGGAAGAGAGCAGAAAA
Found at i:60355637 original size:8 final size:8
Alignment explanation
Indices: 60355617--60355682 Score: 59
Period size: 8 Copynumber: 8.5 Consensus size: 8
60355607 TGAAGAGGGT
60355617 AGAGGGAAG
1 AGAGGG-AG
60355626 AGAGGGAG
1 AGAGGGAG
60355634 AGAGGGAG
1 AGAGGGAG
60355642 -GA-GGAGG
1 AGAGGGA-G
*
60355649 AAAGGGAG
1 AGAGGGAG
* *
60355657 GGGGGGA-
1 AGAGGGAG
60355664 AGA-GGAG
1 AGAGGGAG
60355671 AGAGGGAG
1 AGAGGGAG
60355679 AGAG
1 AGAG
60355683 TAAGAGGAGG
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
6 6 0.13
7 7 0.15
8 24 0.52
9 9 0.20
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (8 bp):
AGAGGGAG
Found at i:60355920 original size:5 final size:5
Alignment explanation
Indices: 60355889--60355947 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
60355879 GTAGGAAAGA
* *
60355889 GGGAA GGGAGG GGGAAG GGGA- -GGAG GGGAG GGGAAG GAGAG GGGAG
1 GGGAG GGGA-G GGG-AG GGGAG GGGAG GGGAG GGG-AG GGGAG GGGAG
60355935 AGGGAG GGGAG GG
1 -GGGAG GGGAG GG
60355948 AGGAAGGGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
3 3 0.07
5 25 0.56
6 16 0.36
7 1 0.02
ACGTcount: A:0.27, C:0.00, G:0.73, T:0.00
Consensus pattern (5 bp):
GGGAG
Found at i:60355944 original size:11 final size:11
Alignment explanation
Indices: 60355886--60355945 Score: 59
Period size: 11 Copynumber: 5.2 Consensus size: 11
60355876 AAGGTAGGAA
*
60355886 AGAGGGAAGGG
1 AGAGGGAGGGG
*
60355897 AGGGGGAAGGGG
1 AGAGGG-AGGGG
60355909 AGGAGGGGAGGGG
1 A-GA-GGGAGGGG
60355922 A-AGGAGAGGGG
1 AGAGG-GAGGGG
60355933 AGAGGGAGGGG
1 AGAGGGAGGGG
60355944 AG
1 AG
60355946 GGAGGAAGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
10 2 0.05
11 21 0.51
12 8 0.20
13 7 0.17
14 3 0.07
ACGTcount: A:0.30, C:0.00, G:0.70, T:0.00
Consensus pattern (11 bp):
AGAGGGAGGGG
Found at i:60355976 original size:48 final size:47
Alignment explanation
Indices: 60355838--60355985 Score: 160
Period size: 48 Copynumber: 3.2 Consensus size: 47
60355828 TGGGGAGAGA
* * *
60355838 AGGGGA-AGGG-GAGGAGGGGGAGGGGGAAGAGA-GAGAGAAAGG-T
1 AGGGGAGAGGGAGGGGAGGGGGAAGGGGAAGAGAGGAGAGAAAGGAG
** * * * * *
60355881 AGGAAAGAGGGAAGGGAGGGGGAAGGGGAGGAGGGGAGGGGAAGGAG
1 AGGGGAGAGGGAGGGGAGGGGGAAGGGGAAGAGAGGAGAGAAAGGAG
*
60355928 AGGGGAGAGGGAGGGGAGGGAGGAAGGGAAAGAGAGGAGAGAAAGGAG
1 AGGGGAGAGGGAGGGGAGGG-GGAAGGGGAAGAGAGGAGAGAAAGGAG
60355976 AGGGGAGAGG
1 AGGGGAGAGG
60355986 AATAGGGGAT
Statistics
Matches: 82, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
43 4 0.05
44 4 0.05
45 17 0.21
46 8 0.10
47 17 0.21
48 32 0.39
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.01
Consensus pattern (47 bp):
AGGGGAGAGGGAGGGGAGGGGGAAGGGGAAGAGAGGAGAGAAAGGAG
Found at i:60355982 original size:16 final size:16
Alignment explanation
Indices: 60355911--60355984 Score: 53
Period size: 16 Copynumber: 4.6 Consensus size: 16
60355901 GGAAGGGGAG
* *
60355911 GAGGGGAGGGGAAGGA
1 GAGGGGAGAGAAAGGA
** *
60355927 GAGGGGAGAGGGAGGG
1 GAGGGGAGAGAAAGGA
*
60355943 GA-GGGAG-GAAGGGAAA
1 GAGGGGAGAGAAAGG--A
*
60355959 GAGAGGAGAGAAAGGA
1 GAGGGGAGAGAAAGGA
60355975 GAGGGGAGAG
1 GAGGGGAGAG
60355985 GAATAGGGGA
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
14 3 0.07
15 5 0.11
16 27 0.61
17 4 0.09
18 5 0.11
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (16 bp):
GAGGGGAGAGAAAGGA
Found at i:60356146 original size:23 final size:26
Alignment explanation
Indices: 60356118--60356169 Score: 74
Period size: 23 Copynumber: 2.1 Consensus size: 26
60356108 GAAGGAAAGA
60356118 AGGGAGGAA-GGAAGAGG-GAG-AGG
1 AGGGAGGAAGGGAAGAGGCGAGAAGG
*
60356141 AGGGAGGAAGGGGAGAGGCGAGAAGG
1 AGGGAGGAAGGGAAGAGGCGAGAAGG
60356167 AGG
1 AGG
60356170 AGGCGAGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 9 0.36
24 7 0.28
25 3 0.12
26 6 0.24
ACGTcount: A:0.37, C:0.02, G:0.62, T:0.00
Consensus pattern (26 bp):
AGGGAGGAAGGGAAGAGGCGAGAAGG
Found at i:60356218 original size:6 final size:6
Alignment explanation
Indices: 60356130--60356235 Score: 54
Period size: 6 Copynumber: 16.7 Consensus size: 6
60356120 GGAGGAAGGA
* * *
60356130 AGAGGG AGAGGAG GGAGGA AG-GGG AGAGGCG AGAAGG AGGAGGCG AGAGGAG
1 AGAGGG AGAGG-G AGAGGG AGAGGG AGAGG-G AGAGGG A-GAGG-G AGAGG-G
* * * * *
60356182 AAGGGGG AAGAGAG AGAGAGG AGAGGG -GAGGG AGAGGG GGAGGG GGAGGA
1 -AGAGGG -AGAGGG AGAG-GG AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG
60356232 AGAG
1 AGAG
60356236 AAGAGGAGGA
Statistics
Matches: 78, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
5 9 0.12
6 34 0.44
7 29 0.37
8 6 0.08
ACGTcount: A:0.35, C:0.02, G:0.63, T:0.00
Consensus pattern (6 bp):
AGAGGG
Found at i:60356274 original size:18 final size:17
Alignment explanation
Indices: 60356240--60356274 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60356230 GAAGAGAAGA
*
60356240 GGAGGAGGGAGTGGAGG
1 GGAGGAGGGAGGGGAGG
60356257 GGAGGAAGGGAGGGGAGG
1 GGAGG-AGGGAGGGGAGG
60356275 AGAGAAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.26, C:0.00, G:0.71, T:0.03
Consensus pattern (17 bp):
GGAGGAGGGAGGGGAGG
Found at i:60356301 original size:45 final size:43
Alignment explanation
Indices: 60356190--60356334 Score: 133
Period size: 43 Copynumber: 3.4 Consensus size: 43
60356180 AGAAGGGGGA
*
60356190 AGAGAGAGAGAGG-AGAG-G-GGAGGGAGAGG-GGGAGGGGGAGG
1 AGAGAAAGAGAGGAAGAGAGAGGAGGG-GAGGAGGGA-GGGGAGG
* *
60356231 A-AGAGAAGAGGAGG-AGGGAGTGGAGGGGAGGAAGGGAGGGGAGG
1 AGAGA-AAGA-GAGGAAGAGAGAGGAGGGGAGG-AGGGAGGGGAGG
* *
60356275 AGAGAAAGAGACGGAAGAGAGAGGAGGAGAGGA-GGAGGGGGGG
1 AGAGAAAGAGA-GGAAGAGAGAGGAGGGGAGGAGGGAGGGGAGG
*
60356318 AGAGAGAGAGAGGAAGA
1 AGAGAAAGAGAGGAAGA
60356335 AAGGGGGAAG
Statistics
Matches: 88, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
40 3 0.03
41 4 0.05
42 13 0.15
43 26 0.30
44 21 0.24
45 21 0.24
ACGTcount: A:0.37, C:0.01, G:0.61, T:0.01
Consensus pattern (43 bp):
AGAGAAAGAGAGGAAGAGAGAGGAGGGGAGGAGGGAGGGGAGG
Found at i:60356358 original size:22 final size:24
Alignment explanation
Indices: 60356313--60356362 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
60356303 GAGGAGGAGG
60356313 GGGGGAGAGAGAGAGAGGAAGAAA
1 GGGGGAGAGAGAGAGAGGAAGAAA
**
60356337 GGGGGA-AGAGAG-GAGGGGGAAA
1 GGGGGAGAGAGAGAGAGGAAGAAA
60356359 GGGG
1 GGGG
60356363 AGGGAAGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 12 0.50
23 6 0.25
24 6 0.25
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (24 bp):
GGGGGAGAGAGAGAGAGGAAGAAA
Found at i:60356375 original size:42 final size:42
Alignment explanation
Indices: 60356329--60356459 Score: 119
Period size: 42 Copynumber: 3.1 Consensus size: 42
60356319 GAGAGAGAGA
* *
60356329 GGAAGAAAGGGGGAAGAGAGGAGGGGGAAAGGGGAGGGAAGG
1 GGAAGAAAGGGGAAAGAGAGGAGGGGGAAAGAGGAGGGAAGG
** *
60356371 GGAAGGGAGGGAGAAAGGGAAGGA-GGGGAAAGAGG-GGG-AGG
1 GGAAGAAAGGG-GAAAGAG-AGGAGGGGGAAAGAGGAGGGAAGG
* * *
60356412 GGAAAGAAAGGAGGAAAGAGAAGAGGAGG--AGAGGAAGGAAGG
1 GG-AAGAAAGG-GGAAAGAGAGGAGGGGGAAAGAGGAGGGAAGG
60356454 GGAAGA
1 GGAAGA
60356460 GGGAGGGGAG
Statistics
Matches: 71, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
40 5 0.07
41 14 0.20
42 32 0.45
43 16 0.23
44 4 0.06
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (42 bp):
GGAAGAAAGGGGAAAGAGAGGAGGGGGAAAGAGGAGGGAAGG
Found at i:60356401 original size:15 final size:15
Alignment explanation
Indices: 60356364--60356463 Score: 59
Period size: 15 Copynumber: 6.7 Consensus size: 15
60356354 GGAAAGGGGA
*
60356364 GGGAAGGGGAAGGGAG
1 GGGAAAGGGAA-GGAG
60356380 GGAGAAAGGGAAGGAG
1 GG-GAAAGGGAAGGAG
*
60356396 GGGAAAGAGG-GGGAG
1 GGGAAAG-GGAAGGAG
*
60356411 GGGAAA-GAAAGGA-
1 GGGAAAGGGAAGGAG
*
60356424 -GGAAAGAGAA-GAG
1 GGGAAAGGGAAGGAG
*
60356437 GAGGAGA-GGAAGGAAG
1 G-GGAAAGGGAAGG-AG
60356453 GGGAAGAGGGA
1 GGGAA-AGGGA
60356464 GGGGAGAGAA
Statistics
Matches: 64, Mismatches: 9, Indels: 21
0.68 0.10 0.22
Matches are distributed among these distances:
12 7 0.11
13 3 0.05
14 6 0.09
15 23 0.36
16 14 0.22
17 11 0.17
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (15 bp):
GGGAAAGGGAAGGAG
Found at i:60356409 original size:27 final size:30
Alignment explanation
Indices: 60356329--60356466 Score: 89
Period size: 27 Copynumber: 4.8 Consensus size: 30
60356319 GAGAGAGAGA
* *
60356329 GGAAGAAAGGGGGAAGAGAGGAGGGGGAAAGG
1 GGAAGGAA-GGGGAA-AGAGGAGGGAGAAAGG
*
60356361 GGAGGGAAGGGG-AAG-GGAGGGAGAAA-G
1 GGAAGGAAGGGGAAAGAGGAGGGAGAAAGG
60356388 GGAAGG-AGGGGAAAGAGG-GGGAG---GG
1 GGAAGGAAGGGGAAAGAGGAGGGAGAAAGG
* * * * *
60356413 GAAAGAAAGGAGGAAAGAGAAGAGGAG-GAGA
1 GGAAGGAAGG-GGAAAGAGGAG-GGAGAAAGG
60356444 GGAAGGAAGGGG-AAGAGGGAGGG
1 GGAAGGAAGGGGAAAGA-GGAGGG
60356467 GAGAGAACGG
Statistics
Matches: 85, Mismatches: 11, Indels: 23
0.71 0.09 0.19
Matches are distributed among these distances:
25 5 0.06
26 8 0.09
27 22 0.26
28 13 0.15
29 12 0.14
30 6 0.07
31 13 0.15
32 6 0.07
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (30 bp):
GGAAGGAAGGGGAAAGAGGAGGGAGAAAGG
Found at i:60356595 original size:18 final size:18
Alignment explanation
Indices: 60356568--60356637 Score: 56
Period size: 18 Copynumber: 3.8 Consensus size: 18
60356558 GGAAAAGGGA
*
60356568 GGAGGAGGGAGGGAAGAG
1 GGAGGTGGGAGGGAAGAG
60356586 GGAGGTGGGA-GGAGAGAGG
1 GGAGGTGGGAGGGA-AGA-G
*
60356605 GGAAGGTGGGGGGAGCAAGAG
1 GG-AGGTGGGAGG-G-AAGAG
60356626 GGA--TGGGAGGGA
1 GGAGGTGGGAGGGA
60356638 GGGGGAGAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
16 1 0.02
17 4 0.09
18 18 0.42
19 3 0.07
20 8 0.19
21 4 0.09
22 4 0.09
23 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.66, T:0.04
Consensus pattern (18 bp):
GGAGGTGGGAGGGAAGAG
Found at i:60356599 original size:21 final size:22
Alignment explanation
Indices: 60356558--60356640 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 22
60356548 CTTAAGGTAT
* *
60356558 GGAAAAGGGAGG-AGGAGGGAG
1 GGAAGAGGGAGGTGGGAGGGAG
60356579 GGAAGAGGGAGGTGGGA-GGAG
1 GGAAGAGGGAGGTGGGAGGGAG
*
60356600 AG-AG-GGGAAGGTGGG-GGGA-
1 GGAAGAGGG-AGGTGGGAGGGAG
*
60356619 GCAAGAGGGA--TGGGAGGGAG
1 GGAAGAGGGAGGTGGGAGGGAG
60356639 GG
1 GG
60356641 GGAGAGAGGA
Statistics
Matches: 49, Mismatches: 6, Indels: 15
0.70 0.09 0.21
Matches are distributed among these distances:
18 4 0.08
19 7 0.14
20 16 0.33
21 19 0.39
22 3 0.06
ACGTcount: A:0.30, C:0.01, G:0.65, T:0.04
Consensus pattern (22 bp):
GGAAGAGGGAGGTGGGAGGGAG
Found at i:60356702 original size:10 final size:9
Alignment explanation
Indices: 60356681--60356713 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
60356671 AGGAGAGAGA
*
60356681 GGGGAAGGG
1 GGGGAGGGG
60356690 GGGGAGGGG
1 GGGGAGGGG
60356699 GGGGAGGGG
1 GGGGAGGGG
60356708 GGGGAG
1 GGGGAG
60356714 AGAGGGAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.15, C:0.00, G:0.85, T:0.00
Consensus pattern (9 bp):
GGGGAGGGG
Found at i:60356834 original size:13 final size:13
Alignment explanation
Indices: 60356812--60356846 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
60356802 AGAGGGGGGG
60356812 GGAGGA-GGGAAA
1 GGAGGAGGGGAAA
60356824 GGAGGAGGGGAAA
1 GGAGGAGGGGAAA
*
60356837 GGAGTAGGGG
1 GGAGGAGGGG
60356847 GAGAGAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.34, C:0.00, G:0.63, T:0.03
Consensus pattern (13 bp):
GGAGGAGGGGAAA
Found at i:60356855 original size:38 final size:37
Alignment explanation
Indices: 60356800--60356876 Score: 93
Period size: 38 Copynumber: 2.1 Consensus size: 37
60356790 AGGAGGCGGG
* * *
60356800 GGAGAGGGGGGGGGAGGAGGGAAAGGAG-GAGGGGAAA
1 GGAGAGGGGGAGAGAGGAAGGAAAGGAGAG-GGGGAAA
*
60356837 GGAGTAGGGGGAGAGAGGAAGGAAGGGAGAGGGGGAAA
1 GGAG-AGGGGGAGAGAGGAAGGAAAGGAGAGGGGGAAA
60356875 GG
1 GG
60356877 GGAGAAGGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 4 0.12
38 29 0.85
39 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.65, T:0.01
Consensus pattern (37 bp):
GGAGAGGGGGAGAGAGGAAGGAAAGGAGAGGGGGAAA
Found at i:60356947 original size:38 final size:38
Alignment explanation
Indices: 60356879--60356953 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
60356869 GGGAAAGGGG
*
60356879 AGAAGGGAGGGGGGAAAGGAGAGGAGGAGGAGAGAGGA
1 AGAAGGGAGGGGGGAAAGGAGAGAAGGAGGAGAGAGGA
* * *
60356917 AGAAGGGAGGGGGG-GAGGGGAAGAATGAGGAGAGAGG
1 AGAAGGGAGGGGGGAAAGGAG-AGAAGGAGGAGAGAGG
60356954 GGGGGAAGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 4 0.12
38 28 0.88
ACGTcount: A:0.37, C:0.00, G:0.61, T:0.01
Consensus pattern (38 bp):
AGAAGGGAGGGGGGAAAGGAGAGAAGGAGGAGAGAGGA
Found at i:60356993 original size:24 final size:22
Alignment explanation
Indices: 60356966--60357038 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 22
60356956 GGGAAGAGAA
60356966 GGGAAGGAATAGGGGAGGAGGGAG
1 GGGAA-GAA-AGGGGAGGAGGGAG
* *
60356990 GGG-AG-AAGGGGGGGGGGGAGG
1 GGGAAGAAAGGGGAGGAGGGA-G
60357011 GAGGAAGAAAAGGGGAGGAGAGGAG
1 G-GGAAG-AAAGGGGAGGAG-GGAG
60357036 GGG
1 GGG
60357039 GGGGGAGGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
20 11 0.28
21 3 0.08
22 3 0.08
23 3 0.08
24 5 0.13
25 11 0.28
26 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.67, T:0.01
Consensus pattern (22 bp):
GGGAAGAAAGGGGAGGAGGGAG
Found at i:60357037 original size:13 final size:13
Alignment explanation
Indices: 60356976--60357052 Score: 53
Period size: 13 Copynumber: 6.5 Consensus size: 13
60356966 GGGAAGGAAT
60356976 AGGGGAGGAG-GG
1 AGGGGAGGAGAGG
60356988 AGGGGA-GA-AGG
1 AGGGGAGGAGAGG
60356999 -GGGG-GG-G-GG
1 AGGGGAGGAGAGG
**
60357008 A-GGGAGGAAGAAA
1 AGGGGAGG-AGAGG
60357021 AGGGGAGGAGAGG
1 AGGGGAGGAGAGG
* *
60357034 AGGGGGGGGGAGG
1 AGGGGAGGAGAGG
60357047 AGGGGA
1 AGGGGA
60357053 AGAAGGAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 17
0.67 0.10 0.23
Matches are distributed among these distances:
9 5 0.10
10 7 0.14
11 4 0.08
12 7 0.14
13 20 0.41
14 6 0.12
ACGTcount: A:0.29, C:0.00, G:0.71, T:0.00
Consensus pattern (13 bp):
AGGGGAGGAGAGG
Found at i:60357039 original size:36 final size:34
Alignment explanation
Indices: 60356988--60357056 Score: 95
Period size: 36 Copynumber: 2.0 Consensus size: 34
60356978 GGGAGGAGGG
60356988 AGGGGAGAAGGGGGGGGGGGAGG-GAGGAAGAAA
1 AGGGGAGAAGGGGGGGGGGGAGGAGAGGAAGAAA
*
60357021 AGGGGAGGAGAGGAGGGGGGGGGAGGAGGGGAAGAA
1 AGGGGA-GA-AGG-GGGGGGGGGAGGAGAGGAAGAA
60357057 GGAAAAGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 6 0.19
34 2 0.06
35 3 0.10
36 12 0.39
37 8 0.26
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (34 bp):
AGGGGAGAAGGGGGGGGGGGAGGAGAGGAAGAAA
Found at i:60357062 original size:41 final size:38
Alignment explanation
Indices: 60356985--60357063 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 38
60356975 TAGGGGAGGA
* *
60356985 GGGAGGGGAGAAGGGGGGGGGGGAGGGAGGAAGAAAAG
1 GGGAGGAGAGAAGGGGGGGGGGGAGGGAAGAAGAAAAG
*
60357023 GGGAGGAGAGGAGGGGGGGGGAGGAGGGGAAGAAGGAAAAG
1 GGGAGGAGAGAAGGGGGGGGG-GGA-GGGAAGAA-GAAAAG
60357064 AAGGGAGAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
38 19 0.54
39 3 0.09
40 7 0.20
41 6 0.17
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (38 bp):
GGGAGGAGAGAAGGGGGGGGGGGAGGGAAGAAGAAAAG
Found at i:60357071 original size:40 final size:37
Alignment explanation
Indices: 60356988--60357077 Score: 94
Period size: 38 Copynumber: 2.4 Consensus size: 37
60356978 GGGAGGAGGG
* * *
60356988 AGGG-GAGAAGGGGGGGGGGGAGGGAGGAAGAAAAGG
1 AGGGAGAGGAGGGGGGGGGGGAGGGAAGAAGAAAAGA
*
60357024 GGAGGAGAGGAGGGGGGGGGAGGAGGGGAAGAAGGAAAAGA
1 AG-GGAGAGGAGGGGGGGGG-GGA-GGGAAGAA-GAAAAGA
60357065 AGGGAGA-GAGGGG
1 AGGGAGAGGAGGGG
60357078 AAGAAGGGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
36 1 0.02
37 2 0.05
38 13 0.30
39 9 0.20
40 12 0.27
41 7 0.16
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (37 bp):
AGGGAGAGGAGGGGGGGGGGGAGGGAAGAAGAAAAGA
Found at i:60357146 original size:39 final size:38
Alignment explanation
Indices: 60357053--60357146 Score: 93
Period size: 39 Copynumber: 2.5 Consensus size: 38
60357043 GAGGAGGGGA
* * * *
60357053 AGAAG-GAAAAGAAGG-GAGAGAGGGGAAGAAGGGAGG
1 AGAAGAGAAAAGGAGGAGAGAGAGGGAAAAAAGAGAGG
* **
60357089 AGAAGAGGAGGGGAAGGAGAGAGAGGGAAAAAAGAGAGG
1 AGAAGAGAAAAGG-AGGAGAGAGAGGGAAAAAAGAGAGG
60357128 AGAAAGAGAAAAGGAGGAG
1 AG-AAGAGAAAAGGAGGAG
60357147 GGAAGAGGAG
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
36 5 0.11
37 3 0.07
38 3 0.07
39 25 0.57
40 8 0.18
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (38 bp):
AGAAGAGAAAAGGAGGAGAGAGAGGGAAAAAAGAGAGG
Found at i:60357180 original size:27 final size:28
Alignment explanation
Indices: 60357121--60357206 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 28
60357111 GAGGGAAAAA
*
60357121 AGAGAGGAGAAAGAGAAAAGGAGGAGGG
1 AGAGAGGAGAAAGAGAAAAGGAGGAAGG
*
60357149 A-AGAGGAGAAAG-G-AGAGGTAGGAAGG
1 AGAGAGGAGAAAGAGAAAAGG-AGGAAGG
*
60357175 AGAGA-GAG---GAGAGAAGGAGGAAGG
1 AGAGAGGAGAAAGAGAAAAGGAGGAAGG
60357199 AGAAGAGG
1 AG-AGAGG
60357207 GTGAAGAGGG
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
23 1 0.02
24 10 0.21
25 10 0.21
26 12 0.25
27 14 0.29
28 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.51, T:0.01
Consensus pattern (28 bp):
AGAGAGGAGAAAGAGAAAAGGAGGAAGG
Found at i:60357181 original size:17 final size:17
Alignment explanation
Indices: 60357161--60357201 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
60357151 GAGGAGAAAG
60357161 GAGAGGTAG-GAAGGAGA
1 GAGAGG-AGAGAAGGAGA
60357178 GAGAGGAGAGAAGGAG-
1 GAGAGGAGAGAAGGAGA
60357194 GA-AGGAGA
1 GAGAGGAGA
60357202 AGAGGGTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.26
16 4 0.17
17 13 0.57
ACGTcount: A:0.44, C:0.00, G:0.54, T:0.02
Consensus pattern (17 bp):
GAGAGGAGAGAAGGAGA
Found at i:60357188 original size:24 final size:23
Alignment explanation
Indices: 60357077--60357206 Score: 71
Period size: 24 Copynumber: 5.9 Consensus size: 23
60357067 GGAGAGAGGG
* * *
60357077 GAAGAAGGGAGGAGAAGAGGAGGG
1 GAAGGAGGAAGGAGAAGAGGA-GA
**
60357101 GAAGGAGAGAGAGG-GAA-AAAAGA
1 GAAGGAG-GA-AGGAGAAGAGGAGA
* *
60357124 G-AGGA-GAAAGAGAAAAGGAG-
1 GAAGGAGGAAGGAGAAGAGGAGA
* *
60357144 GAGGGAAG-AGGAGAA-AGGAGA
1 GAAGGAGGAAGGAGAAGAGGAGA
*
60357165 G--GTAGGAAGGAGAGAGAGGAGA
1 GAAGGAGGAAGGAGA-AGAGGAGA
60357187 GAAGGAGGAAGGAGAAGAGG
1 GAAGGAGGAAGGAGAAGAGG
60357207 GTGAAGAGGG
Statistics
Matches: 81, Mismatches: 13, Indels: 25
0.68 0.11 0.21
Matches are distributed among these distances:
19 5 0.06
20 17 0.21
21 14 0.17
22 12 0.15
23 7 0.09
24 19 0.23
25 4 0.05
26 3 0.04
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.01
Consensus pattern (23 bp):
GAAGGAGGAAGGAGAAGAGGAGA
Found at i:60357322 original size:21 final size:22
Alignment explanation
Indices: 60357298--60357339 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
60357288 GAGCGGAGAA
60357298 GAGGAAGGAGGAG-GGGGAGGG
1 GAGGAAGGAGGAGAGGGGAGGG
*
60357319 GAGGAGGGAGGAGAGGGGAGG
1 GAGGAAGGAGGAGAGGGGAGG
60357340 AGGGAGAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.71, T:0.00
Consensus pattern (22 bp):
GAGGAAGGAGGAGAGGGGAGGG
Found at i:60357323 original size:14 final size:14
Alignment explanation
Indices: 60357304--60357351 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 14
60357294 AGAAGAGGAA
60357304 GGAGGAGGGGGAGG
1 GGAGGAGGGGGAGG
60357318 GGAGGAGGGAGGAGAGG
1 GGAGGA-GG-GG-GAGG
*
60357335 GGAGGAGGGAGAGG
1 GGAGGAGGGGGAGG
60357349 GGA
1 GGA
60357352 AGAAGGAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 13 0.43
15 3 0.10
16 4 0.13
17 10 0.33
ACGTcount: A:0.27, C:0.00, G:0.73, T:0.00
Consensus pattern (14 bp):
GGAGGAGGGGGAGG
Found at i:60357378 original size:35 final size:32
Alignment explanation
Indices: 60357295--60357400 Score: 99
Period size: 31 Copynumber: 3.2 Consensus size: 32
60357285 AAAGAGCGGA
** * *
60357295 GAAGAGGAAGGAGGAGGGGGAGGGG-AGGAGG
1 GAAGAGGGGGGAGGAGGGGAAGGGGAAGAAGG
* *
60357326 GAGGAGAGGGGAGGA-GGGAGAGGGGAAGAAGG
1 GAAGAGGGGGGAGGAGGGGA-AGGGGAAGAAGG
*
60357358 AAGAAGAGGGGGGAAGGAGGGGAAGGGGGAGAAGG
1 --GAAGAGGGGGG-AGGAGGGGAAGGGGAAGAAGG
60357393 GAAGAGGG
1 GAAGAGGG
60357401 AGAGTAGAGA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
30 3 0.05
31 16 0.27
32 5 0.08
33 8 0.13
34 9 0.15
35 15 0.25
36 4 0.07
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (32 bp):
GAAGAGGGGGGAGGAGGGGAAGGGGAAGAAGG
Found at i:60357421 original size:43 final size:41
Alignment explanation
Indices: 60357326--60357422 Score: 97
Period size: 43 Copynumber: 2.3 Consensus size: 41
60357316 GGGGAGGAGG
* *
60357326 GAGGAGAGGGGAGGAGGGAGAGGGGAAGAAGGAAGAAGAGG
1 GAGGAGAGGGGAGGAGGGAGAAGGGAAGAAGGAAGAAGAGA
* * *
60357367 GGGGAAGGAGGGGAAGG-GGGAGAAGGGAAGAGGGAGAGTAGAGA
1 GAGG-A-GAGGGG-AGGAGGGAGAAGGGAAGAAGGA-AGAAGAGA
60357411 GAGGTAGAGGGG
1 GAGG-AGAGGGG
60357423 GGGGATTTGG
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
41 3 0.07
42 1 0.02
43 28 0.62
44 13 0.29
ACGTcount: A:0.36, C:0.00, G:0.62, T:0.02
Consensus pattern (41 bp):
GAGGAGAGGGGAGGAGGGAGAAGGGAAGAAGGAAGAAGAGA
Found at i:60357460 original size:21 final size:21
Alignment explanation
Indices: 60357436--60357530 Score: 60
Period size: 21 Copynumber: 4.8 Consensus size: 21
60357426 GATTTGGAAG
60357436 GGGAGGGAGGGAGGGAAGAGA
1 GGGAGGGAGGGAGGGAAGAGA
* * *
60357457 GGGA-GAAAGTAGGAGAAGAGA
1 GGGAGGGAGGGAGG-GAAGAGA
*
60357478 AGGAGGGAGGGA--GAA-A-A
1 GGGAGGGAGGGAGGGAAGAGA
* *
60357495 GGGA-GGAGAGAAGGAAGAGA
1 GGGAGGGAGGGAGGGAAGAGA
*
60357515 GGG-GGAAGGAGAGGGA
1 GGGAGGGAGG-GAGGGA
60357531 TGGGCAAGAA
Statistics
Matches: 54, Mismatches: 12, Indels: 16
0.66 0.15 0.20
Matches are distributed among these distances:
16 6 0.11
17 4 0.07
18 4 0.07
19 4 0.07
20 13 0.24
21 19 0.35
22 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.58, T:0.01
Consensus pattern (21 bp):
GGGAGGGAGGGAGGGAAGAGA
Found at i:60357504 original size:28 final size:28
Alignment explanation
Indices: 60357455--60357509 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
60357445 GGAGGGAAGA
60357455 GAGGGAGAAAGTAGGAGAAGAGAAGGAGG
1 GAGGGAGAAAG-AGGAGAAGAGAAGGAGG
*
60357484 GAGGGAGAAA-AGGGAGGAGAGAAGGA
1 GAGGGAGAAAGA-GGAGAAGAGAAGGA
60357510 AGAGAGGGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 1 0.04
28 13 0.54
29 10 0.42
ACGTcount: A:0.45, C:0.00, G:0.53, T:0.02
Consensus pattern (28 bp):
GAGGGAGAAAGAGGAGAAGAGAAGGAGG
Found at i:60357580 original size:23 final size:24
Alignment explanation
Indices: 60357549--60357687 Score: 97
Period size: 24 Copynumber: 5.6 Consensus size: 24
60357539 AAGGAGGGAA
*
60357549 GAGGAGAGGGGA-AG-GGGGAGAGG
1 GAGGGGAGGGGAGAGAGGGGAG-GG
60357572 GAGGGGAGGGGAGAGAGGGGAGGG
1 GAGGGGAGGGGAGAGAGGGGAGGG
* * * * *
60357596 GGGGGGAGGAGTGGGGGGGGTAGGG
1 GAGGGGAGGGGAGAGAGGGG-AGGG
* * *
60357621 GA-GAGAGGAGAGAGAGGTGGAGGA
1 GAGGGGAGGGGAGAGAGG-GGAGGG
60357645 GA-GGGAGGGGAGGAGAAGGGAGAGGG
1 GAGGGGAGGGGA-GAG-AGGG-GAGGG
60357671 GAGGAGGAGGAGGAGAG
1 GAGG-GGAGG-GGAGAG
60357688 GGAGGAAAAG
Statistics
Matches: 91, Mismatches: 15, Indels: 15
0.75 0.12 0.12
Matches are distributed among these distances:
23 11 0.12
24 42 0.46
25 17 0.19
26 9 0.10
27 1 0.01
28 8 0.09
29 3 0.03
ACGTcount: A:0.28, C:0.00, G:0.70, T:0.02
Consensus pattern (24 bp):
GAGGGGAGGGGAGAGAGGGGAGGG
Found at i:60357589 original size:9 final size:9
Alignment explanation
Indices: 60357552--60357649 Score: 53
Period size: 10 Copynumber: 10.8 Consensus size: 9
60357542 GAGGGAAGAG
60357552 GAGAGGGGA
1 GAGAGGGGA
60357561 -AG-GGGGA
1 GAGAGGGGA
60357568 GAG-GGAGG-
1 GAGAGG-GGA
60357576 G-GAGGGGA
1 GAGAGGGGA
60357584 GAGAGGGGA
1 GAGAGGGGA
* *
60357593 GGGGGGGGGA
1 -GAGAGGGGA
* *
60357603 GGAGTGGGGG
1 -GAGAGGGGA
*
60357613 GGGTAGGGGA
1 GAG-AGGGGA
*
60357623 GAGAGGAGA
1 GAGAGGGGA
60357632 GAGAGGTGGA
1 GAGAGG-GGA
60357642 GGAGAGGG
1 -GAGAGGG
60357650 AGGGGAGGAG
Statistics
Matches: 69, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
7 8 0.12
8 10 0.14
9 22 0.32
10 23 0.33
11 6 0.09
ACGTcount: A:0.26, C:0.00, G:0.71, T:0.03
Consensus pattern (9 bp):
GAGAGGGGA
Found at i:60357589 original size:14 final size:14
Alignment explanation
Indices: 60357552--60357596 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 14
60357542 GAGGGAAGAG
60357552 GAGAGGGGAAGGGGGA
1 GAGAGGGG-A-GGGGA
60357568 GAGGGAGGGGAGGGGA
1 GA--GAGGGGAGGGGA
60357584 GAGAGGGGAGGGG
1 GAGAGGGGAGGGG
60357597 GGGGGAGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 11 0.41
16 9 0.33
17 1 0.04
18 6 0.22
ACGTcount: A:0.27, C:0.00, G:0.73, T:0.00
Consensus pattern (14 bp):
GAGAGGGGAGGGGA
Found at i:60357599 original size:17 final size:17
Alignment explanation
Indices: 60357552--60357685 Score: 55
Period size: 17 Copynumber: 7.6 Consensus size: 17
60357542 GAGGGAAGAG
*
60357552 GAGAGGGGA-AGGGGGA
1 GAGAGGGGAGGGGGGGA
*
60357568 GAG-GGAGG-GGAGGGGA
1 GAGAGG-GGAGGGGGGGA
60357584 GAGAGGGGAGGGGGGGGGA
1 GAGAGGGGA--GGGGGGGA
* *
60357603 GGAGTGGGGGGGGTAGGGGA
1 -GAGAGGGGAGGG--GGGGA
* *
60357623 GAGAGGAGAGAGAGGTGGA
1 GAGAGG-G-GAGGGGGGGA
*
60357642 G-GAGAGGGAGGGGAGGA
1 GAGAG-GGGAGGGGGGGA
*
60357659 GA-AGGGAGAGGGGAGGA
1 GAGAGGG-GAGGGGGGGA
60357676 G-GAGGAGGAG
1 GAGAGG-GGAG
60357686 AGGGAGGAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 31
0.68 0.08 0.23
Matches are distributed among these distances:
15 2 0.02
16 17 0.19
17 30 0.33
18 8 0.09
19 18 0.20
20 13 0.14
21 3 0.03
ACGTcount: A:0.28, C:0.00, G:0.70, T:0.02
Consensus pattern (17 bp):
GAGAGGGGAGGGGGGGA
Found at i:60357611 original size:10 final size:10
Alignment explanation
Indices: 60357549--60357693 Score: 88
Period size: 9 Copynumber: 14.5 Consensus size: 10
60357539 AAGGAGGGAA
60357549 GAGGAGAGGG
1 GAGGAGAGGG
*
60357559 GAAGGGGGAGAGG
1 G-A-GGAGAG-GG
*
60357572 GAGGGGAGGG
1 GAGGAGAGGG
60357582 GA-GAGAGGG
1 GAGGAGAGGG
* *
60357591 GAGGGGGGGG
1 GAGGAGAGGG
*
60357601 GAGGAGTGGG
1 GAGGAGAGGG
*
60357611 G-GGGGTAGGG
1 GAGGAG-AGGG
*
60357621 GA-GAGAGGA
1 GAGGAGAGGG
60357630 GA-GAGAGGTG
1 GAGGAGAGG-G
60357640 GAGGAGA-GG
1 GAGGAGAGGG
*
60357649 GAGGGGAGGAG
1 GAGGAGAGG-G
*
60357660 AAGGGAGAGGG
1 GA-GGAGAGGG
*
60357671 GAGGAG-GAG
1 GAGGAGAGGG
60357680 GAGGAGA-GG
1 GAGGAGAGGG
60357689 GAGGA
1 GAGGA
60357694 AAAGGAGAAA
Statistics
Matches: 106, Mismatches: 17, Indels: 25
0.72 0.11 0.17
Matches are distributed among these distances:
9 43 0.41
10 33 0.31
11 15 0.14
12 12 0.11
13 3 0.03
ACGTcount: A:0.28, C:0.00, G:0.70, T:0.02
Consensus pattern (10 bp):
GAGGAGAGGG
Found at i:60357627 original size:39 final size:37
Alignment explanation
Indices: 60357544--60357689 Score: 122
Period size: 39 Copynumber: 3.9 Consensus size: 37
60357534 GCAAGAAGGA
60357544 GGGA-AGAGGAGAGGGGAAGGGGGAGAGGGAGGGGAG
1 GGGAGAGAGGAGAGGGGAAGGGGGAGAGGGAGGGGAG
* ** * *
60357580 GGGAGAGAGGGGAGGGGGGGGGAGGAGTGGGGGGGGTAG
1 GGGAGAGAGGAGAGGGGAAGGG-GGAGAGGGAGGGG-AG
* *
60357619 GGGAGAGAGGAGAGAGAGG-TGGAGGAGAGGGAGGGGAG
1 GGGAGAGAGGAGAG-G-GGAAGGGGGAGAGGGAGGGGAG
* *
60357657 GAGA-AG-GGAGAGGGG-AGGAGGAGGAGGAGAGGG
1 GGGAGAGAGGAGAGGGGAAGGGGGA-GAGG-GAGGG
60357690 AGGAAAAGGA
Statistics
Matches: 91, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
34 8 0.09
35 5 0.05
36 15 0.16
37 16 0.18
38 16 0.18
39 26 0.29
40 3 0.03
41 2 0.02
ACGTcount: A:0.28, C:0.00, G:0.70, T:0.02
Consensus pattern (37 bp):
GGGAGAGAGGAGAGGGGAAGGGGGAGAGGGAGGGGAG
Found at i:60357645 original size:15 final size:14
Alignment explanation
Indices: 60357625--60357692 Score: 61
Period size: 15 Copynumber: 4.9 Consensus size: 14
60357615 GTAGGGGAGA
60357625 GAGGAGAGAGAGGTG
1 GAGGAGAGAGAGG-G
*
60357640 GAGGAGAGGGAGGG
1 GAGGAGAGAGAGGG
*
60357654 GAGGAGA-AG-GGA
1 GAGGAGAGAGAGGG
*
60357666 GAGGGGAG-GAGGAG
1 GAGGAGAGAGAGG-G
*
60357680 GAGGAGAGGGAGG
1 GAGGAGAGAGAGG
60357693 AAAAGGAGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
12 9 0.21
13 3 0.07
14 15 0.35
15 16 0.37
ACGTcount: A:0.32, C:0.00, G:0.66, T:0.01
Consensus pattern (14 bp):
GAGGAGAGAGAGGG
Found at i:60357734 original size:17 final size:18
Alignment explanation
Indices: 60357712--60357746 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
60357702 AAGGGGGGTT
*
60357712 GGGAGGAG-GGGAAAGGG
1 GGGAGGAGAGAGAAAGGG
60357729 GGGAGGAGAGAGAAAGGG
1 GGGAGGAGAGAGAAAGGG
60357747 AGAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (18 bp):
GGGAGGAGAGAGAAAGGG
Found at i:60357756 original size:26 final size:26
Alignment explanation
Indices: 60357718--60357767 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
60357708 GGTTGGGAGG
*
60357718 AGGGGAAAGGGGGGAGGA-GAGAGAA
1 AGGGGAAAGGGGGGAAGAGGAGAGAA
60357743 AGGGAGAAAGGGGGGAAGAGGAGAG
1 AGGG-GAAAGGGGGGAAGAGGAGAG
60357768 GAGAGAGGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 13 0.59
27 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (26 bp):
AGGGGAAAGGGGGGAAGAGGAGAGAA
Found at i:60357856 original size:71 final size:67
Alignment explanation
Indices: 60357727--60357857 Score: 169
Period size: 71 Copynumber: 1.9 Consensus size: 67
60357717 GAGGGGAAAG
*
60357727 GGGGGAGGAGAGAGAAAGGGAGAAAGGGGGGAAGAGGAGAGGAGAGAGGGAGGGGGGAGGAAGGG
1 GGGGGAGGAGAGAGAAAGGGAGAAAGGGGGGAAGAGGAGAGGAGAGAGAGAGGGGGGAGGAAGGG
60357792 GA
66 GA
60357794 GGGGGA-GAGAGAGAAAAGAGGAGGAAGAAGGGGGGAAGGAGGAG-GGTA-AGAGAGAGGGGGGA
1 GGGGGAGGAGAGAG-AAAG-GGA-G-A-AAGGGGGGAA-GAGGAGAGG-AGAGAGAGAGGGGGGA
60357856 GG
59 GG
60357858 GGGAGAAAGT
Statistics
Matches: 56, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
66 7 0.12
67 10 0.18
68 3 0.05
69 1 0.02
70 1 0.02
71 27 0.48
72 7 0.12
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.01
Consensus pattern (67 bp):
GGGGGAGGAGAGAGAAAGGGAGAAAGGGGGGAAGAGGAGAGGAGAGAGAGAGGGGGGAGGAAGGG
GA
Found at i:60357926 original size:79 final size:82
Alignment explanation
Indices: 60357751--60357933 Score: 188
Period size: 79 Copynumber: 2.3 Consensus size: 82
60357741 AAAGGGAGAA
*
60357751 AGGGGGGAAGAGGAGAGGAGAGAGGGAGGGGGGAGGAAGGGGAGGGGGAGAGAGAGAAAAGAGGA
1 AGGGGGG-AGAGGAGA-GAGAGAGGGAGGGGGGAGAAAGGGGAGGGGGAGAGAGAGAAAAGAGGA
60357816 GGAAGAAGGGGGGAAGGAG
64 GGAAGAAGGGGGGAAGGAG
* * * **
60357835 -GAGGGTA-A-GAGAGAG-GGGGGA-GGGGGAGAAAGTGAGGAGGGGGA-AGAG-GGGAAG-GGA
1 AGGGGGGAGAGGAGAGAGAGAGGGAGGGGGGAGAAAG-G-GGAGGGGGAGAGAGAGAAAAGAGGA
*
60357892 -GAAGGAAGGGGGGATGGAG
64 GGAA-GAAGGGGGGAAGGAG
60357911 AGGGGGGAGAGGAGAGA-AGAGGG
1 AGGGGGGAGAGGAGAGAGAGAGGG
60357934 GAAAGGGAGG
Statistics
Matches: 82, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
75 3 0.04
76 17 0.21
77 19 0.23
78 11 0.13
79 22 0.27
80 4 0.05
81 1 0.01
82 1 0.01
83 4 0.05
ACGTcount: A:0.35, C:0.00, G:0.63, T:0.02
Consensus pattern (82 bp):
AGGGGGGAGAGGAGAGAGAGAGGGAGGGGGGAGAAAGGGGAGGGGGAGAGAGAGAAAAGAGGAGG
AAGAAGGGGGGAAGGAG
Found at i:60357976 original size:17 final size:16
Alignment explanation
Indices: 60357851--60357976 Score: 59
Period size: 17 Copynumber: 7.8 Consensus size: 16
60357841 AAGAGAGAGG
*
60357851 GGGGAGGGGGAGA-AA
1 GGGGAGAGGGAGAGAA
*
60357866 GTGAGGAGGGGGA-AG-A
1 G-G-GGAGAGGGAGAGAA
60357882 GGGGA-AGGGAGAAGGAA
1 GGGGAGAGGGAG-A-GAA
* * *
60357899 GGGGGGATGGAGAG-G
1 GGGGAGAGGGAGAGAA
60357914 GGGGAGA-GGAGAGAAGA
1 GGGGAGAGGGAGAG-A-A
* *
60357931 GGGGAAAGGGAG-GAG
1 GGGGAGAGGGAGAGAA
*
60357946 GGGGATGGGGGAGAGATA
1 GGGGA-GAGGGAGAGA-A
60357964 GGGGAGAGGGAGA
1 GGGGAGAGGGAGA
60357977 AGAGAGGAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 28
0.68 0.10 0.23
Matches are distributed among these distances:
13 4 0.05
14 9 0.11
15 14 0.17
16 12 0.14
17 31 0.37
18 14 0.17
ACGTcount: A:0.33, C:0.00, G:0.64, T:0.03
Consensus pattern (16 bp):
GGGGAGAGGGAGAGAA
Found at i:60358018 original size:51 final size:50
Alignment explanation
Indices: 60357843--60358020 Score: 120
Period size: 50 Copynumber: 3.6 Consensus size: 50
60357833 AGGAGGGTAA
* * * * *
60357843 GAGAGAGGGGGGAGGGGGAGAAAGTGAGGAG-GG-G-GAAGAGGG-GAAGG
1 GAGA-AGGGGGAAGGGGGAGAGAGAGGGGAGAGGAGAGAAGAGGGAAAAGG
* *
60357890 GAGAA---GGAAGGGGGGATGGAGAGGGGGGAGAGGAGAGAAGAGGGGAAAGG
1 GAGAAGGGGGAA-GGGGGA--GAGAGAGGGGAGAGGAGAGAAGAGGGAAAAGG
* * *
60357940 GAGGAGGGGGATGGGGGAGAGATAGGGGAGAGG-GAGAAGAGAGGAAACAAGG
1 GAGAAGGGGGAAGGGGGAGAGAGAGGGGAGAGGAGAGAAGAG-GG-AA-AAGG
* *
60357992 GAGAAAGGGGGAAGGGGGAGGGAGGGGGG
1 GAG-AAGGGGGAAGGGGGAGAGAGAGGGG
60358021 GAAGGGGGAA
Statistics
Matches: 102, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
43 3 0.03
44 6 0.06
46 10 0.10
47 6 0.06
48 1 0.01
49 16 0.16
50 23 0.23
51 1 0.01
52 13 0.13
53 23 0.23
ACGTcount: A:0.34, C:0.01, G:0.63, T:0.02
Consensus pattern (50 bp):
GAGAAGGGGGAAGGGGGAGAGAGAGGGGAGAGGAGAGAAGAGGGAAAAGG
Found at i:60358020 original size:19 final size:19
Alignment explanation
Indices: 60357998--60358101 Score: 81
Period size: 19 Copynumber: 5.3 Consensus size: 19
60357988 AAGGGAGAAA
60357998 GGGGGAAGGGGGAGGGAGG
1 GGGGGAAGGGGGAGGGAGG
**
60358017 GGGGGAAGGGGGAAAGAGG
1 GGGGGAAGGGGGAGGGAGG
*
60358036 AGGGGG-AGGAGGGA-GAAGG
1 -GGGGGAAGG-GGGAGGGAGG
60358055 GGGAGGAAGGGGGAGGG-GG
1 GGG-GGAAGGGGGAGGGAGG
*
60358074 AGGGGAGAGTAGGAGG-GGGAGG
1 -GGGG-GA--AGGGGGAGGGAGG
60358096 GGGGGA
1 GGGGGA
60358102 GAGGAGAGGG
Statistics
Matches: 69, Mismatches: 6, Indels: 19
0.73 0.06 0.20
Matches are distributed among these distances:
18 3 0.04
19 32 0.46
20 20 0.29
21 7 0.10
22 7 0.10
ACGTcount: A:0.26, C:0.00, G:0.73, T:0.01
Consensus pattern (19 bp):
GGGGGAAGGGGGAGGGAGG
Found at i:60358048 original size:22 final size:22
Alignment explanation
Indices: 60358012--60358122 Score: 66
Period size: 22 Copynumber: 4.8 Consensus size: 22
60358002 GAAGGGGGAG
60358012 GGAGGGGG-GGAAGGGGGAAAGA
1 GGAGGGGGAGG-AGGGGGAAAGA
* *
60358034 GGAGGGGGAGGAGGGAGAAGGGGGA
1 GGAGGGGGAGGAGGGGGAA---AGA
* *
60358059 GGAAGGGGGAGGGGGAGGGGAGAGTA
1 GG-AGGGGGA-GGAG-GGGGAAAG-A
*
60358085 GGAGGGGGAGG-GGGGGAGAG-
1 GGAGGGGGAGGAGGGGGAAAGA
*
60358105 GAGAGGGGGAGTAGGGGG
1 G-GAGGGGGAGGAGGGGG
60358123 GGAGGGAATA
Statistics
Matches: 72, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
20 1 0.01
21 9 0.12
22 28 0.39
23 3 0.04
24 2 0.03
25 12 0.17
26 10 0.14
27 3 0.04
28 4 0.06
ACGTcount: A:0.26, C:0.00, G:0.72, T:0.02
Consensus pattern (22 bp):
GGAGGGGGAGGAGGGGGAAAGA
Found at i:60358056 original size:48 final size:51
Alignment explanation
Indices: 60357997--60358095 Score: 132
Period size: 48 Copynumber: 2.0 Consensus size: 51
60357987 CAAGGGAGAA
* *
60357997 AGGGGGAAGGGGGAGGGAGGGGG-GGAAG-GGGGAAAG-AGGAGGGGGAGG
1 AGGGAGAAGGGGGAGGAAGGGGGAGGAAGAGGGGAAAGTAGGAGGGGGAGG
** *
60358045 AGGGAGAAGGGGGAGGAAGGGGGAGGGGGAGGGGAGAGTAGGAGGGGGAGG
1 AGGGAGAAGGGGGAGGAAGGGGGAGGAAGAGGGGAAAGTAGGAGGGGGAGG
60358096 GGGGGAGAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
48 21 0.49
49 3 0.07
50 7 0.16
51 12 0.28
ACGTcount: A:0.27, C:0.00, G:0.72, T:0.01
Consensus pattern (51 bp):
AGGGAGAAGGGGGAGGAAGGGGGAGGAAGAGGGGAAAGTAGGAGGGGGAGG
Found at i:60358057 original size:16 final size:16
Alignment explanation
Indices: 60357999--60358076 Score: 65
Period size: 16 Copynumber: 4.9 Consensus size: 16
60357989 AGGGAGAAAG
*
60357999 GGGGAAGGGGGAGGGAGGG
1 GGGGAAGGGGGA-GGA--A
60358018 GGGGAAGGGGGA--AA
1 GGGGAAGGGGGAGGAA
*
60358032 GAGG-AGGGGGAGG-A
1 GGGGAAGGGGGAGGAA
60358046 GGGAGAAGGGGGAGGAA
1 GGG-GAAGGGGGAGGAA
*
60358063 GGGGGAGGGGGAGG
1 GGGGAAGGGGGAGG
60358077 GGAGAGTAGG
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
13 7 0.14
14 6 0.12
15 1 0.02
16 20 0.40
17 4 0.08
19 12 0.24
ACGTcount: A:0.27, C:0.00, G:0.73, T:0.00
Consensus pattern (16 bp):
GGGGAAGGGGGAGGAA
Found at i:60358106 original size:19 final size:18
Alignment explanation
Indices: 60357997--60358112 Score: 80
Period size: 19 Copynumber: 6.3 Consensus size: 18
60357987 CAAGGGAGAA
*
60357997 AGGGGGAAGGGGGAG-GG
1 AGGGGGAGGGGGGAGAGG
*
60358014 AGGGGGGGAAGGGGGAAAGAGG
1 A--GGGGG-AGGGGG-GAGAGG
*
60358036 AGGGGGAGGAGGGAGA--
1 AGGGGGAGGGGGGAGAGG
**
60358052 AGGGGGAGGAAGG-G-GG
1 AGGGGGAGGGGGGAGAGG
*
60358068 AGGGGGAGGGGAGAGTAGG
1 AGGGGGAGGGGGGAG-AGG
60358087 AGGGGGAGGGGGGGAGAGG
1 AGGGGGA-GGGGGGAGAGG
60358106 AGAGGGG
1 AG-GGGG
60358113 GAGTAGGGGG
Statistics
Matches: 78, Mismatches: 9, Indels: 21
0.72 0.08 0.19
Matches are distributed among these distances:
15 1 0.01
16 22 0.28
17 2 0.03
18 3 0.04
19 24 0.31
20 21 0.27
21 2 0.03
22 3 0.04
ACGTcount: A:0.27, C:0.00, G:0.72, T:0.01
Consensus pattern (18 bp):
AGGGGGAGGGGGGAGAGG
Found at i:60358122 original size:9 final size:8
Alignment explanation
Indices: 60357997--60358128 Score: 56
Period size: 9 Copynumber: 15.5 Consensus size: 8
60357987 CAAGGGAGAA
60357997 AGGGGGA-
1 AGGGGGAG
60358004 AGGGGGAGGG
1 AGGGGGA--G
*
60358014 AGGGGGGG
1 AGGGGGAG
60358022 AAGGGGGAAAG
1 -AGGGGG--AG
*
60358033 AGGAGGGGG
1 AGG-GGGAG
60358042 AGGAGGGAG
1 AGG-GGGAG
60358051 AAGGGGGAGG
1 -AGGGGGA-G
*
60358061 AAGGGG-G
1 AGGGGGAG
60358068 AGGGGGAG
1 AGGGGGAG
*
60358076 -GGGAGAG
1 AGGGGGAG
*
60358083 TAGGAGGGGG
1 -AGG-GGGAG
*
60358093 AGGGGGGG
1 AGGGGGAG
*
60358101 A-GAGGAG
1 AGGGGGAG
60358108 AGGGGGAG
1 AGGGGGAG
*
60358116 TAGGGGGGG
1 -AGGGGGAG
60358125 AGGG
1 AGGG
60358129 AATAGAGAGG
Statistics
Matches: 97, Mismatches: 13, Indels: 29
0.70 0.09 0.21
Matches are distributed among these distances:
7 24 0.25
8 17 0.18
9 36 0.37
10 16 0.16
11 4 0.04
ACGTcount: A:0.26, C:0.00, G:0.73, T:0.02
Consensus pattern (8 bp):
AGGGGGAG
Found at i:60358127 original size:22 final size:20
Alignment explanation
Indices: 60358053--60358127 Score: 71
Period size: 21 Copynumber: 3.4 Consensus size: 20
60358043 GGAGGGAGAA
60358053 GGGGGAGGA-AGGGGGAGGGG
1 GGGGGAGGAGAGGGGGA-GGG
60358073 GAGGGGAGAGTAGGAGGGGGAGGG
1 G-GGGGAG-G-A-GAGGGGGAGGG
60358097 GGGGAGAGGAGAGGGGGAGTAGG
1 GGGG-GAGGAGAGGGGGAG--GG
60358120 GGGGGAGG
1 GGGGGAGG
60358128 GAATAGAGAG
Statistics
Matches: 47, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
20 1 0.02
21 15 0.32
22 6 0.13
23 11 0.23
24 7 0.15
25 7 0.15
ACGTcount: A:0.23, C:0.00, G:0.75, T:0.03
Consensus pattern (20 bp):
GGGGGAGGAGAGGGGGAGGG
Found at i:60358137 original size:33 final size:34
Alignment explanation
Indices: 60358073--60358139 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
60358063 GGGGGAGGGG
* *
60358073 GAGGGGAGAGTAGGAGGGGGAGGGGGGGAGAGGA
1 GAGGGGAGAGTAGGAGGGGGAGGGAGAGAGAGGA
*
60358107 GAGGGG-GAGTAGG-GGGGGAGGGAATAGAGAGGA
1 GAGGGGAGAGTAGGAGGGGGAGGG-AGAGAGAGGA
60358140 AAAAGGAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 9 0.31
33 14 0.48
34 6 0.21
ACGTcount: A:0.28, C:0.00, G:0.67, T:0.04
Consensus pattern (34 bp):
GAGGGGAGAGTAGGAGGGGGAGGGAGAGAGAGGA
Found at i:60358168 original size:9 final size:9
Alignment explanation
Indices: 60358154--60358213 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
60358144 GGAGGAGGAA
60358154 GGGGGAAAG
1 GGGGGAAAG
60358163 GGGGGAAGAG
1 GGGGGAA-AG
*
60358173 AGGGGAAAG
1 GGGGGAAAG
* *
60358182 AGGAGAAGAG
1 GGGGGAA-AG
* *
60358192 GAGGAAAAG
1 GGGGGAAAG
60358201 GGGGG-AAG
1 GGGGGAAAG
60358209 GGGGG
1 GGGGG
60358214 GCAGGGAAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
8 8 0.20
9 20 0.49
10 13 0.32
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (9 bp):
GGGGGAAAG
Found at i:60358174 original size:37 final size:38
Alignment explanation
Indices: 60358132--60358208 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
60358122 GGGAGGGAAT
60358132 AGAGAGGAAAAAGGAGGAGGAAG-GG-GG-AAAGGGGGGA
1 AGAGAGGAAAAA-GAGGA-GAAGAGGAGGAAAAGGGGGGA
**
60358169 AGAGAGGGGAAAGAGGAGAAGAGGAGGAAAAGGGGGGA
1 AGAGAGGAAAAAGAGGAGAAGAGGAGGAAAAGGGGGGA
60358207 AG
1 AG
60358209 GGGGGGCAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
35 4 0.11
36 7 0.20
37 12 0.34
38 12 0.34
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (38 bp):
AGAGAGGAAAAAGAGGAGAAGAGGAGGAAAAGGGGGGA
Found at i:60358179 original size:19 final size:18
Alignment explanation
Indices: 60358153--60358213 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 18
60358143 AGGAGGAGGA
60358153 AGGGGGAAAGGGGGGAAG
1 AGGGGGAAAGGGGGGAAG
* *
60358171 AGAGGGGAAAGAGGAGAAG
1 AG-GGGGAAAGGGGGGAAG
*
60358190 AGGAGGAAAAGGGGGGAAG
1 AGG-GGGAAAGGGGGGAAG
60358209 -GGGGG
1 AGGGGG
60358214 GCAGGGAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
17 2 0.06
18 5 0.14
19 28 0.80
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (18 bp):
AGGGGGAAAGGGGGGAAG
Found at i:60358180 original size:39 final size:38
Alignment explanation
Indices: 60358126--60358208 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 38
60358116 TAGGGGGGGA
* * *
60358126 GGGAATAGAGAGGAAAAAGGAGGAGGAAGG-GGGAAAGGG
1 GGGAAGAGAGAGGAAAAAGGA-GAAG-AGGAGGAAAAGGG
* *
60358165 GGGAAGAGAGGGGAAAGAGGAGAAGAGGAGGAAAAGGG
1 GGGAAGAGAGAGGAAAAAGGAGAAGAGGAGGAAAAGGG
60358203 GGGAAG
1 GGGAAG
60358209 GGGGGGCAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
37 3 0.08
38 17 0.45
39 18 0.47
ACGTcount: A:0.43, C:0.00, G:0.55, T:0.01
Consensus pattern (38 bp):
GGGAAGAGAGAGGAAAAAGGAGAAGAGGAGGAAAAGGG
Found at i:60358248 original size:8 final size:8
Alignment explanation
Indices: 60358235--60358282 Score: 55
Period size: 8 Copynumber: 5.9 Consensus size: 8
60358225 GGAGGGGTGA
60358235 AGGAGAGG
1 AGGAGAGG
60358243 AGGAGAGG
1 AGGAGAGG
60358251 AGG-GAGG
1 AGGAGAGG
60358258 A-GAGAAGG
1 AGGAG-AGG
60358266 AGAGAGAGGG
1 AG-GAGA-GG
60358276 AGGAGAG
1 AGGAGAG
60358283 AAAGAGAAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
6 1 0.03
7 6 0.17
8 16 0.46
9 5 0.14
10 7 0.20
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (8 bp):
AGGAGAGG
Found at i:60358303 original size:63 final size:65
Alignment explanation
Indices: 60358219--60358350 Score: 141
Period size: 63 Copynumber: 2.1 Consensus size: 65
60358209 GGGGGGCAGG
* **
60358219 GAAAGAGGAGGGGTGAAGGAGAGGAGGAGAGGAGG-GAGGA-GAGAAG-GA-GAGAGAGGGAGGA
1 GAAAGAGAAGGGGTGAAGGAGAAAAGGAGAGG-GGAGAGGATGA-AAGAGAGGAGAGAGGGAGGA
60358280 GA
64 GA
* * *
60358282 GAAAGAGAAGGCGG-GAGGGAGAAAAGGGGAGGGGAGAGGATGAAAGAGAGGGGAGAGGGAGGAG
1 GAAAGAGAAGG-GGTGAAGGAGAAAAGGAGAGGGGAGAGGATGAAAGAGAGGAGAGAGGGAGGAG
60358346 A
65 A
60358347 -AAAG
1 GAAAG
60358351 GGGAAGGGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
62 2 0.03
63 32 0.55
64 10 0.17
65 14 0.24
ACGTcount: A:0.41, C:0.01, G:0.57, T:0.02
Consensus pattern (65 bp):
GAAAGAGAAGGGGTGAAGGAGAAAAGGAGAGGGGAGAGGATGAAAGAGAGGAGAGAGGGAGGAGA
Found at i:60358353 original size:43 final size:44
Alignment explanation
Indices: 60358294--60358437 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 44
60358284 AAGAGAAGGC
60358294 GGGAGGGAGAAAAGGGGAGGGGAGAGGATGAAAGAGAGGGGAGA
1 GGGAGGGAGAAAAGGGGAGGGGAGAGGATGAAAGAGAGGGGAGA
* * * *
60358338 GGGA-GGAGAAAAGGGGAAGGGAAGGGGAAGAAGGAG-GGGGAGA
1 GGGAGGGAGAAAAGGGG-AGGGGAGAGGATGAAAGAGAGGGGAGA
* * *
60358381 GAGAAGAGGGAGAGAAGAGAGGA-GGGAGAGGGTGAGAGAGAGGAGG-GA
1 G-G--GAGGGAGA-AA-AGGGGAGGGGAGAGGATGAAAGAGAGG-GGAGA
60358429 GGGAGGGAG
1 GGGAGGGAG
60358438 GAGAAGAGAG
Statistics
Matches: 80, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
43 20 0.25
44 20 0.25
45 7 0.09
46 2 0.03
47 17 0.21
48 8 0.10
49 6 0.08
ACGTcount: A:0.38, C:0.00, G:0.60, T:0.01
Consensus pattern (44 bp):
GGGAGGGAGAAAAGGGGAGGGGAGAGGATGAAAGAGAGGGGAGA
Found at i:60358399 original size:16 final size:15
Alignment explanation
Indices: 60358366--60358410 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
60358356 GGGAAGGGGA
*
60358366 AGAAGGAGGGGGAGAG
1 AGAA-GAGGGAGAGAG
60358382 AGAAGAGGGAGAGAAG
1 AGAAGAGGGAGAG-AG
*
60358398 AGAGGAGGGAGAG
1 AGAAGAGGGAGAG
60358411 GGTGAGAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (15 bp):
AGAAGAGGGAGAGAG
Found at i:60358417 original size:22 final size:22
Alignment explanation
Indices: 60358237--60358458 Score: 99
Period size: 21 Copynumber: 9.7 Consensus size: 22
60358227 AGGGGTGAAG
60358237 GAGAGGAGGAGAGGAGGGAG-GAGA
1 GAGAGGAGG-GA-GAGGGAGAGA-A
*
60358261 GA-AGGAGAGAGAGGGAGGAGAGA
1 GAGAGGAGGGAGAGGGA-GAGA-A
* * *
60358284 AAGAGAAGGCGGGAGGGAGA-AA
1 GAGAGGAGG-GAGAGGGAGAGAA
*
60358306 -AGGGGAGGG-GAGAGGATGA-AA
1 GAGAGGAGGGAGAG-GGA-GAGAA
60358327 GAGA-G-GGGAGAGGGAGGAGAA
1 GAGAGGAGGGAGAGGGA-GAGAA
* *
60358348 AAGGGGAAGGGA-AGGG-GAAGAA
1 GAGAGG-AGGGAGAGGGAG-AGAA
*
60358370 GGAGGGGGAGAGAGAAGAGGGAGAGAA
1 -GA-GAGGAG-G-G-AGAGGGAGAGAA
*
60358397 GAGAGGAGGGAGAGGGTGAG-A
1 GAGAGGAGGGAGAGGGAGAGAA
60358418 GAGAGGAGGGAGGGAGGGAGGAGAA
1 GAGAGGAGGGA--GAGGGA-GAGAA
60358443 GAGAGGAAGGGA-AGGG
1 GAGAGG-AGGGAGAGGG
60358459 GGAAAGGAGG
Statistics
Matches: 158, Mismatches: 15, Indels: 51
0.71 0.07 0.23
Matches are distributed among these distances:
19 3 0.02
20 12 0.08
21 37 0.23
22 20 0.13
23 28 0.18
24 21 0.13
25 20 0.13
26 8 0.05
27 8 0.05
28 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.59, T:0.01
Consensus pattern (22 bp):
GAGAGGAGGGAGAGGGAGAGAA
Found at i:60358447 original size:37 final size:38
Alignment explanation
Indices: 60358366--60358448 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 38
60358356 GGGAAGGGGA
60358366 AGAAG-GAGGGGGAGAGAGAAGAGGGAGAGAAGAGAGG
1 AGAAGAGAGGGGGAGAGAGAAGAGGGAGAGAAGAGAGG
* * * * *
60358403 AG-GGAGAGGGTGAGAGAGAGGAGGGAG-GGAGGGAGG
1 AGAAGAGAGGGGGAGAGAGAAGAGGGAGAGAAGAGAGG
60358439 AGAAGAGAGG
1 AGAAGAGAGG
60358449 AAGGGAAGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
36 10 0.26
37 28 0.74
ACGTcount: A:0.39, C:0.00, G:0.60, T:0.01
Consensus pattern (38 bp):
AGAAGAGAGGGGGAGAGAGAAGAGGGAGAGAAGAGAGG
Found at i:60358461 original size:25 final size:25
Alignment explanation
Indices: 60358305--60358461 Score: 82
Period size: 25 Copynumber: 6.5 Consensus size: 25
60358295 GGAGGGAGAA
*
60358305 AAGGGGAGGGGAGAGGATGAA-AGA-G
1 AAGGGAAGGGG-GAGGA-GAAGAGAGG
* * * *
60358330 -AGGGGAGAGGGAGGAGAAAAGGGG
1 AAGGGAAGGGGGAGGAGAAGAGAGG
* * * *
60358354 AAGGGAAGGGGAAGAAGGAG-GGGG
1 AAGGGAAGGGGGAGGAGAAGAGAGG
* *
60358378 AGAGAGAAGAGGGA-GAGAAGAGAGG
1 A-AGGGAAGGGGGAGGAGAAGAGAGG
* *
60358403 -AGGG-AGAGGG-TGAG-AGAGAGG
1 AAGGGAAGGGGGAGGAGAAGAGAGG
*
60358424 -AGGGAGGGAGGGAGGAGAAGAGAGG
1 AAGGGAAGG-GGGAGGAGAAGAGAGG
60358449 AAGGGAAGGGGGA
1 AAGGGAAGGGGGA
60358462 AAGGAGGAAA
Statistics
Matches: 102, Mismatches: 19, Indels: 22
0.71 0.13 0.15
Matches are distributed among these distances:
21 11 0.11
22 13 0.13
23 13 0.13
24 22 0.22
25 36 0.35
26 7 0.07
ACGTcount: A:0.39, C:0.00, G:0.60, T:0.01
Consensus pattern (25 bp):
AAGGGAAGGGGGAGGAGAAGAGAGG
Found at i:60358507 original size:17 final size:17
Alignment explanation
Indices: 60358473--60358507 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
60358463 AGGAGGAAAA
*
60358473 GGAGGGGGGGGAGATAG
1 GGAGGGGGGGAAGATAG
*
60358490 GGAGGGGGGGAAGGTAG
1 GGAGGGGGGGAAGATAG
60358507 G
1 G
60358508 AAGAGGAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.71, T:0.06
Consensus pattern (17 bp):
GGAGGGGGGGAAGATAG
Found at i:60358552 original size:17 final size:18
Alignment explanation
Indices: 60358530--60358621 Score: 84
Period size: 17 Copynumber: 5.1 Consensus size: 18
60358520 AAGAGAGGGG
60358530 GAAAAGGGGAGGAGA-GA
1 GAAAAGGGGAGGAGAGGA
* * *
60358547 GAAAAGAGAAGGAGAGGGG
1 GAAAAGGGGAGGAGA-GGA
60358566 GAAGAAGGGGAGG-GAGGA
1 GAA-AAGGGGAGGAGAGGA
60358584 GAAAAGGGGAAGGA-AGGA
1 GAAAAGGGG-AGGAGAGGA
*
60358602 -AAGAAGGGGAAGAGAGGA
1 GAA-AAGGGGAGGAGAGGA
60358620 GA
1 GA
60358622 GGGGAGGGAA
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
17 24 0.40
18 22 0.37
19 7 0.12
20 7 0.12
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (18 bp):
GAAAAGGGGAGGAGAGGA
Found at i:60358619 original size:18 final size:18
Alignment explanation
Indices: 60358566--60358621 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
60358556 AGGAGAGGGG
*
60358566 GAAGAAGGGGAGGGAGGA
1 GAAGAAGGGGAAGGAGGA
60358584 GAA-AAGGGGAAGGAAGGA
1 GAAGAAGGGGAAGG-AGGA
60358602 -AAGAAGGGGAAGAGAGGA
1 GAAGAAGGGGAAG-GAGGA
60358620 GA
1 GA
60358622 GGGGAGGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 11 0.33
18 20 0.61
19 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (18 bp):
GAAGAAGGGGAAGGAGGA
Found at i:60358682 original size:16 final size:13
Alignment explanation
Indices: 60358647--60358689 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
60358637 AGAAGGGAAT
60358647 GGGAGGGGGGAGG
1 GGGAGGGGGGAGG
60358660 GGGAGGGGGGAGTAG
1 GGGAGGGGGGAG--G
*
60358675 GGGA-AGGGGAGG
1 GGGAGGGGGGAGG
60358687 GGG
1 GGG
60358690 GCAAGAGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 4 0.15
13 12 0.44
14 6 0.22
15 5 0.19
ACGTcount: A:0.19, C:0.00, G:0.79, T:0.02
Consensus pattern (13 bp):
GGGAGGGGGGAGG
Found at i:60358738 original size:11 final size:12
Alignment explanation
Indices: 60358701--60358762 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 12
60358691 CAAGAGAAGG
*
60358701 GAGGAGAAGGAA
1 GAGGAGAAGGGA
60358713 GAGGA-AAGAGG-
1 GAGGAGAAG-GGA
60358724 GAGGA-AAGGGA
1 GAGGAGAAGGGA
60358735 GAGGAGGAAGGGA
1 GAGGA-GAAGGGA
60358748 GA-GAG-AGGCGA
1 GAGGAGAAGG-GA
60358759 GAGG
1 GAGG
60358763 GGCCAAAATG
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
10 5 0.12
11 21 0.49
12 9 0.21
13 8 0.19
ACGTcount: A:0.42, C:0.02, G:0.56, T:0.00
Consensus pattern (12 bp):
GAGGAGAAGGGA
Found at i:60358746 original size:22 final size:21
Alignment explanation
Indices: 60358694--60358762 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 21
60358684 AGGGGGGCAA
*
60358694 GAGAAGGGAGGAGAAGGAAGAG
1 GAGAAGGGAGGA-AAGGGAGAG
*
60358716 GAAAGAGGGAGGAAAGGGAGAG
1 GAGA-AGGGAGGAAAGGGAGAG
*
60358738 GAGGAAGGGAGAGAGAGGCGAGAG
1 GA-GAAGGGAG-GAAAGG-GAGAG
60358762 G
1 G
60358763 GGCCAAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 19 0.49
23 14 0.36
24 6 0.15
ACGTcount: A:0.42, C:0.01, G:0.57, T:0.00
Consensus pattern (21 bp):
GAGAAGGGAGGAAAGGGAGAG
Found at i:60358747 original size:13 final size:14
Alignment explanation
Indices: 60358723--60358755 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
60358713 GAGGAAAGAG
60358723 GGAGGAAAGGGAGA
1 GGAGGAAAGGGAGA
60358737 GGAGG-AAGGGAGA
1 GGAGGAAAGGGAGA
60358750 GAGAGG
1 G-GAGG
60358756 CGAGAGGGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (14 bp):
GGAGGAAAGGGAGA
Found at i:60358755 original size:14 final size:14
Alignment explanation
Indices: 60358696--60358755 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
60358686 GGGGGCAAGA
60358696 GAAGGGAG-GAGAAG
1 GAAGGGAGAGAG-AG
*
60358710 GAAGAGGAAAGAGGGAG
1 GAAG-GG--AGAGAGAG
60358727 GAAAGGGAGAG-GAG
1 G-AAGGGAGAGAGAG
60358741 GAAGGGAGAGAGAG
1 GAAGGGAGAGAGAG
60358755 G
1 G
60358756 CGAGAGGGGC
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 9 0.23
14 12 0.31
15 6 0.15
17 7 0.18
18 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (14 bp):
GAAGGGAGAGAGAG
Found at i:60358789 original size:12 final size:13
Alignment explanation
Indices: 60358772--60358838 Score: 50
Period size: 13 Copynumber: 5.2 Consensus size: 13
60358762 GGGCCAAAAT
60358772 GGAGAG-AGGGGG
1 GGAGAGAAGGGGG
*
60358784 GGAGAGAAGGGGA
1 GGAGAGAAGGGGG
**
60358797 TAAGAGAAGGGGG
1 GGAGAGAAGGGGG
*
60358810 AGGAGAGGCAAGGAGG
1 -GGAGA-G-AAGGGGG
60358826 GG-GA-AAGGGGG
1 GGAGAGAAGGGGG
60358837 GG
1 GG
60358839 GGACGAAGGT
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
11 8 0.19
12 6 0.14
13 15 0.35
14 5 0.12
15 3 0.07
16 6 0.14
ACGTcount: A:0.33, C:0.01, G:0.64, T:0.01
Consensus pattern (13 bp):
GGAGAGAAGGGGG
Found at i:60359008 original size:16 final size:15
Alignment explanation
Indices: 60358976--60359067 Score: 55
Period size: 16 Copynumber: 5.9 Consensus size: 15
60358966 GAAGAAAGAT
* *
60358976 AGGAGAGAGGGAGGGA
1 AGGAGGGAGGG-GAGA
60358992 AGGAGGGAGGGGAGGA
1 AGGAGGGAGGGGA-GA
* **
60359008 AGAAGGGA-CAGAGA
1 AGGAGGGAGGGGAGA
*
60359022 AGGGAGGG-GAGGGAGC
1 A-GGAGGGAG-GGGAGA
60359038 AGGAGGG-GGGGAGA
1 AGGAGGGAGGGGAGA
60359052 AGGAAGGGAGGCGGAG
1 AGG-AGGGAGG-GGAG
60359068 GGAGAGGAAG
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
14 11 0.19
15 19 0.32
16 25 0.42
17 4 0.07
ACGTcount: A:0.34, C:0.03, G:0.63, T:0.00
Consensus pattern (15 bp):
AGGAGGGAGGGGAGA
Found at i:60359042 original size:15 final size:15
Alignment explanation
Indices: 60359018--60359062 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
60359008 AGAAGGGACA
60359018 GAGAAGGGAGGGGAGG
1 GAGAA-GGAGGGGAGG
*
60359034 GAGCAGGAGGGG-GG
1 GAGAAGGAGGGGAGG
*
60359048 GAGAAGGAAGGGAGG
1 GAGAAGGAGGGGAGG
60359063 CGGAGGGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 12 0.48
15 9 0.36
16 4 0.16
ACGTcount: A:0.31, C:0.02, G:0.67, T:0.00
Consensus pattern (15 bp):
GAGAAGGAGGGGAGG
Found at i:60359238 original size:25 final size:24
Alignment explanation
Indices: 60359145--60359236 Score: 73
Period size: 25 Copynumber: 3.8 Consensus size: 24
60359135 GGGGAGGTAG
* *
60359145 GGGGAAGGGAGGGGAAAGGGGGAA
1 GGGGAAGGGAGGAGAAGGGGGGAA
60359169 GAGGGAAAGGGAGG-G-AGGGGGGAGA
1 G-GGG-AAGGGAGGAGAAGGGGGGA-A
* * *
60359194 GAGGAA-CGAGATAGAAGGAGGGGAA
1 GGGGAAGGGAG-GAGAAGG-GGGGAA
60359219 GGGGAAGGGAGGAGAAGG
1 GGGGAAGGGAGGAGAAGG
60359237 AGAGGAGGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
22 3 0.06
23 2 0.04
24 11 0.21
25 21 0.40
26 16 0.30
ACGTcount: A:0.36, C:0.01, G:0.62, T:0.01
Consensus pattern (24 bp):
GGGGAAGGGAGGAGAAGGGGGGAA
Found at i:60359401 original size:33 final size:34
Alignment explanation
Indices: 60359325--60359401 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 34
60359315 GAGGGAAGAA
60359325 GGAGGGAGGGGGGAGAAAAGAGAGGGAAAGAGGG
1 GGAGGGAGGGGGGAGAAAAGAGAGGGAAAGAGGG
** * *
60359359 GGA-TAAGGGGGGAGAAGAGAGAGGG-GAGAGGG
1 GGAGGGAGGGGGGAGAAAAGAGAGGGAAAGAGGG
60359391 GGAGGGAGGGG
1 GGAGGGAGGGG
60359402 AGGGAGGGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 9 0.25
33 24 0.67
34 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.65, T:0.01
Consensus pattern (34 bp):
GGAGGGAGGGGGGAGAAAAGAGAGGGAAAGAGGG
Found at i:60359403 original size:31 final size:29
Alignment explanation
Indices: 60359313--60359396 Score: 96
Period size: 33 Copynumber: 2.7 Consensus size: 29
60359303 GAAGGAAGGG
60359313 GAGAGGGAAGAAGGAGGGAGGGGGGAGAAAA
1 GAGAGGGAAG-AGG-GGGAGGGGGGAGAAAA
*
60359344 GAGAGGGAAAGAGGGGGATAAGGGGGGAGAAGA
1 GAGAGGG-AAGAGGGGG---AGGGGGGAGAAAA
*
60359377 GAGAGGGGAGAGGGGGAGGG
1 GAGAGGGAAGAGGGGGAGGG
60359397 AGGGGAGGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
29 4 0.09
30 3 0.06
31 10 0.21
32 11 0.23
33 19 0.40
ACGTcount: A:0.37, C:0.00, G:0.62, T:0.01
Consensus pattern (29 bp):
GAGAGGGAAGAGGGGGAGGGGGGAGAAAA
Found at i:60359442 original size:38 final size:39
Alignment explanation
Indices: 60359364--60359447 Score: 95
Period size: 38 Copynumber: 2.2 Consensus size: 39
60359354 GAGGGGGATA
* *
60359364 AGGG-GGGAGAAGAGAGAGGGGAGAGGGGGAGGGAGGGG
1 AGGGAGGGAAAAGAGAGAGGGGAGAGAGGGAGGGAGGGG
60359402 AGGGAGGGAAAAGAG-GAGGGG-GAGAAGGGA-GGAGGAGG
1 AGGGAGGGAAAAGAGAGAGGGGAGAG-AGGGAGGGAGG-GG
*
60359440 AGGTAGGG
1 AGGGAGGG
60359448 GAGGGGAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
37 8 0.20
38 23 0.57
39 9 0.22
ACGTcount: A:0.32, C:0.00, G:0.67, T:0.01
Consensus pattern (39 bp):
AGGGAGGGAAAAGAGAGAGGGGAGAGAGGGAGGGAGGGG
Found at i:60359492 original size:14 final size:14
Alignment explanation
Indices: 60359473--60359607 Score: 70
Period size: 14 Copynumber: 9.5 Consensus size: 14
60359463 AAAGGGAAGG
60359473 GAGGGAGAGGAGAA
1 GAGGGAGAGGAGAA
60359487 GAGGGAGAGG-GAA
1 GAGGGAGAGGAGAA
* *
60359500 GGAGCGGGGAGGAGGA
1 -GAG-GGAGAGGAGAA
60359516 GA-GGAGGAGG-G-A
1 GAGGGA-GAGGAGAA
60359528 GAGGGAGGAAGG-GAAA
1 GAGGGA-G-AGGAG-AA
* *
60359544 GAGGGA-AAGAGGA
1 GAGGGAGAGGAGAA
60359557 GAGGGAGGAGGAG-A
1 GAGGGA-GAGGAGAA
*
60359571 GAGGAGAGAGGTAGGA
1 GAGG-GAGAGG-AGAA
*
60359587 GAGGG-GAAGGAGAG
1 GAGGGAG-AGGAGAA
60359601 GAGGGAG
1 GAGGGAG
60359608 GAGAGAAGGG
Statistics
Matches: 97, Mismatches: 8, Indels: 31
0.71 0.06 0.23
Matches are distributed among these distances:
12 3 0.03
13 20 0.21
14 39 0.40
15 21 0.22
16 14 0.14
ACGTcount: A:0.37, C:0.01, G:0.61, T:0.01
Consensus pattern (14 bp):
GAGGGAGAGGAGAA
Found at i:60359492 original size:29 final size:30
Alignment explanation
Indices: 60359460--60359564 Score: 96
Period size: 29 Copynumber: 3.6 Consensus size: 30
60359450 GGGGAAAATG
60359460 GGGAAAGGGA-AGGGAGGGAGAGGAGAAGA
1 GGGAAAGGGAGAGGGAGGGAGAGGAGAAGA
* * *
60359489 GGGAGAGGGA-A-GGAGCGGGGAGGAGGAGA
1 GGGAAAGGGAGAGGGAG-GGAGAGGAGAAGA
* *
60359518 -GGAGGAGGGAGAGGGAGGAAG-GGA-AAGA
1 GGGA-AAGGGAGAGGGAGGGAGAGGAGAAGA
60359546 GGGAAAGAGGAGAGGGAGG
1 GGGAAAG-GGAGAGGGAGG
60359565 AGGAGAGAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
28 12 0.19
29 44 0.70
30 3 0.05
31 4 0.06
ACGTcount: A:0.37, C:0.01, G:0.62, T:0.00
Consensus pattern (30 bp):
GGGAAAGGGAGAGGGAGGGAGAGGAGAAGA
Found at i:60359563 original size:53 final size:53
Alignment explanation
Indices: 60359506--60359691 Score: 137
Period size: 53 Copynumber: 3.6 Consensus size: 53
60359496 GGAAGGAGCG
60359506 GGGAGGAGGAGAGGAGGAGGGAGAGGGAGGAAGGGAAAGAGGGAAAGAGGAGA
1 GGGAGGAGGAGAGGAGGAGGGAGAGGGAGGAAGGGAAAGAGGGAAAGAGGAGA
* * **
60359559 GGGAGGAGGAGA-GAGGA--GAGAGGTAGGAGAGGGGAAGGAGAGGAGGGAGGAGA
1 GGGAGGAGGAGAGGAGGAGGGAGAGGGAGGA-A-GGGAAAGAG-GGAAAGAGGAGA
* * *
60359612 GAAGGGGGGGGAGAGG-GG-GGGAGA-GGA-GTAGGGAAAGGATTGGG-AAGAGGAGA
1 G--GGAGGAGGAGAGGAGGAGGGAGAGGGAGGAAGGGAAA-GA--GGGAAAGAGGAGA
60359665 ---AGGAGGA-AGGAGGAGGGAG-GAGGAGGA
1 GGGAGGAGGAGAGGAGGAGGGAGAG-GGAGGA
60359692 GAAGAGAAGG
Statistics
Matches: 103, Mismatches: 14, Indels: 34
0.68 0.09 0.23
Matches are distributed among these distances:
47 3 0.03
48 7 0.07
49 5 0.05
50 13 0.13
51 2 0.02
52 18 0.17
53 33 0.32
54 3 0.03
55 14 0.14
56 5 0.05
ACGTcount: A:0.36, C:0.00, G:0.62, T:0.02
Consensus pattern (53 bp):
GGGAGGAGGAGAGGAGGAGGGAGAGGGAGGAAGGGAAAGAGGGAAAGAGGAGA
Found at i:60359729 original size:16 final size:16
Alignment explanation
Indices: 60359708--60359752 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
60359698 AAGGGAGAAA
60359708 TAGGAGGGAGAGAGGG
1 TAGGAGGGAGAGAGGG
60359724 TAGGAGAGG-GAGAGGG
1 TAGGAG-GGAGAGAGGG
*
60359740 -GGGAGGGAG-GAGG
1 TAGGAGGGAGAGAGG
60359753 CGAAGGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.23
15 5 0.19
16 13 0.50
17 2 0.08
ACGTcount: A:0.29, C:0.00, G:0.67, T:0.04
Consensus pattern (16 bp):
TAGGAGGGAGAGAGGG
Found at i:60359799 original size:23 final size:24
Alignment explanation
Indices: 60359756--60359818 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 24
60359746 GAGGAGGCGA
60359756 AGGGAAGAGAGAGAAGAAGAACGG
1 AGGGAAGAGAGAGAAGAAGAACGG
* *
60359780 AGGGAA-AGAGTAGGAG-AGAAGGG
1 AGGGAAGAGAG-AGAAGAAGAACGG
*
60359803 A-GGATG-GAGAGAAGAA
1 AGGGAAGAGAGAGAAGAA
60359819 AAGGGAAGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
21 4 0.12
22 7 0.22
23 11 0.34
24 10 0.31
ACGTcount: A:0.48, C:0.02, G:0.48, T:0.03
Consensus pattern (24 bp):
AGGGAAGAGAGAGAAGAAGAACGG
Found at i:60359902 original size:12 final size:12
Alignment explanation
Indices: 60359859--60359912 Score: 63
Period size: 12 Copynumber: 4.2 Consensus size: 12
60359849 AGAGGGAAAG
60359859 GGGGGGAGGAGA
1 GGGGGGAGGAGA
60359871 GGGGGAGTAGGAGTA
1 GGGGG-G-AGGAG-A
*
60359886 GGGGGGAGAAGA
1 GGGGGGAGGAGA
*
60359898 GGGGGGAGGGGA
1 GGGGGGAGGAGA
60359910 GGG
1 GGG
60359913 AAAGAAGAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
12 19 0.53
13 5 0.14
14 6 0.17
15 6 0.17
ACGTcount: A:0.24, C:0.00, G:0.72, T:0.04
Consensus pattern (12 bp):
GGGGGGAGGAGA
Found at i:60359975 original size:4 final size:4
Alignment explanation
Indices: 60359966--60360050 Score: 61
Period size: 4 Copynumber: 20.8 Consensus size: 4
60359956 GAGGACGAGA
*
60359966 GAGG GAGG GAAG GA-G G-GG GAGG AGAGG G-GG AGAAGGG GAGG AGAGG
1 GAGG GAGG GAGG GAGG GAGG GAGG -GAGG GAGG -G-A-GG GAGG -GAGG
* *
60360012 GA-G GAGG GAGG GAGG GAGG AAGGG GAGA GAGG GAGG GAG
1 GAGG GAGG GAGG GAGG GAGG GA-GG GAGG GAGG GAGG GAG
60360051 AGGGAGAGAA
Statistics
Matches: 66, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
3 9 0.14
4 42 0.64
5 12 0.18
6 1 0.02
7 2 0.03
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (4 bp):
GAGG
Found at i:60359987 original size:28 final size:25
Alignment explanation
Indices: 60359956--60360050 Score: 86
Period size: 28 Copynumber: 3.6 Consensus size: 25
60359946 GAGAGAGAAA
60359956 GAGGACGAGAGAGGGAGGGAAGGAGGGG
1 GAGGA-GAG-GAGGGAGGG-AGGAGGGG
* *
60359984 GAGGAGAGGGGGAGAAGGGGAGGAGAGG
1 GAGGAGAGGAGG-G-A-GGGAGGAGGGG
*
60360012 GAGGAG-GGAGGGAGGGAGGAAGGG
1 GAGGAGAGGAGGGAGGGAGGAGGGG
60360036 GA-GAGAGGGAGGGAG
1 GAGGAGA-GGAGGGAG
60360051 AGGGAGAGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
23 3 0.05
24 11 0.19
25 9 0.16
26 4 0.07
27 8 0.14
28 19 0.33
29 3 0.05
ACGTcount: A:0.32, C:0.01, G:0.67, T:0.00
Consensus pattern (25 bp):
GAGGAGAGGAGGGAGGGAGGAGGGG
Found at i:60360002 original size:9 final size:11
Alignment explanation
Indices: 60359978--60360054 Score: 62
Period size: 10 Copynumber: 7.5 Consensus size: 11
60359968 GGGAGGGAAG
60359978 GAGGGGGAGGA
1 GAGGGGGAGGA
60359989 GAGGGGGA-GA
1 GAGGGGGAGGA
60359999 -A-GGGGAGGA
1 GAGGGGGAGGA
60360008 GAGGGAGGAGG-
1 GAGGG-GGAGGA
60360019 GAGGGAGGGAGGA
1 GA-GG-GGGAGGA
60360032 -A-GGGGA-GA
1 GAGGGGGAGGA
*
60360040 GAGGGAG-GGA
1 GAGGGGGAGGA
60360050 GAGGG
1 GAGGG
60360055 AGAGAAGAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 21
0.71 0.01 0.27
Matches are distributed among these distances:
8 7 0.13
9 8 0.15
10 14 0.25
11 12 0.22
12 13 0.24
13 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.70, T:0.00
Consensus pattern (11 bp):
GAGGGGGAGGA
Found at i:60360015 original size:42 final size:43
Alignment explanation
Indices: 60359964--60360061 Score: 116
Period size: 42 Copynumber: 2.3 Consensus size: 43
60359954 AAGAGGACGA
60359964 GAGAGGGAGGGAAGGA-GG-GGGAGGAGAGGGG-GAGAAGGG-GAG
1 GAGAGGGAGGGAAGGAGGGAGGGAGGA-AGGGGAGAG-AGGGAG-G
*
60360006 GAGAGGGA-GGAGGGAGGGAGGGAGGAAGGGGAGAGAGGGAGG
1 GAGAGGGAGGGAAGGAGGGAGGGAGGAAGGGGAGAGAGGGAGG
*
60360048 GAGAGGGAGAGAAG
1 GAGAGGGAGGGAAG
60360062 AAAAGAGGAG
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
41 6 0.12
42 28 0.58
43 14 0.29
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (43 bp):
GAGAGGGAGGGAAGGAGGGAGGGAGGAAGGGGAGAGAGGGAGG
Found at i:60360045 original size:25 final size:24
Alignment explanation
Indices: 60359962--60360050 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 24
60359952 GAAAGAGGAC
* *
60359962 GAGAGAGGGAGGGAAGGAGGGGGAG
1 GAGAGAGGGAGGGAGGGAGGAGG-G
* *
60359987 GAGAGGGGGA-GAAGGGGAGGAGAGG
1 GAGAGAGGGAGGGA-GGGAGGAG-GG
60360012 GAG-GAGGGAGGGAGGGAGGAAGGG
1 GAGAGAGGGAGGGAGGGAGG-AGGG
60360036 GAGAGAGGGAGGGAG
1 GAGAGAGGGAGGGAG
60360051 AGGGAGAGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
24 18 0.34
25 34 0.64
26 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (24 bp):
GAGAGAGGGAGGGAGGGAGGAGGG
Found at i:60360059 original size:8 final size:8
Alignment explanation
Indices: 60359943--60360059 Score: 62
Period size: 8 Copynumber: 13.9 Consensus size: 8
60359933 GGAGAAGAAA
60359943 GGAGAGAG
1 GGAGAGAG
* *
60359951 AGAAAGAG
1 GGAGAGAG
60359959 GACGAGAGAG
1 G--GAGAGAG
* *
60359969 GGAGGGAA
1 GGAGAGAG
60359977 GGAG-G-G
1 GGAGAGAG
60359983 GGAGGAGAG
1 GGA-GAGAG
*
60359992 GGGGAGAAGG
1 GGAGAG-A-G
60360002 GGAGGAGAG
1 GGA-GAGAG
60360011 GGAG-GAG
1 GGAGAGAG
*
60360018 GGAGGGAG
1 GGAGAGAG
60360026 GGAG-GAAGG
1 GGAGAG-A-G
60360035 GGAGAGAG
1 GGAGAGAG
60360043 GGAGGGAGAG
1 GGA--GAGAG
60360053 GGAGAGA
1 GGAGAGA
60360060 AGAAAAGAGG
Statistics
Matches: 86, Mismatches: 9, Indels: 28
0.70 0.07 0.23
Matches are distributed among these distances:
6 3 0.03
7 10 0.12
8 36 0.42
9 14 0.16
10 20 0.23
11 3 0.03
ACGTcount: A:0.35, C:0.01, G:0.64, T:0.00
Consensus pattern (8 bp):
GGAGAGAG
Found at i:60360172 original size:24 final size:23
Alignment explanation
Indices: 60360091--60360175 Score: 65
Period size: 24 Copynumber: 3.7 Consensus size: 23
60360081 AGGGGGAGGG
60360091 GGAAAGAGGAAGAGGA-AGGAAGA
1 GGAAAG-GGAAGAGGAGAGGAAGA
*
60360114 GGAGAGGAGGG-AG-GGGGAGG-AGA
1 GGA-A--AGGGAAGAGGAGAGGAAGA
60360137 GG--AGGGAAAGAGGAGAGGAAGA
1 GGAAAGGG-AAGAGGAGAGGAAGA
60360159 GGAAAGGGATAGAGGAG
1 GGAAAGGGA-AGAGGAG
60360176 GAAAGAGAGG
Statistics
Matches: 49, Mismatches: 2, Indels: 21
0.68 0.03 0.29
Matches are distributed among these distances:
18 4 0.08
20 2 0.04
21 6 0.12
22 5 0.10
23 11 0.22
24 17 0.35
25 2 0.04
26 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.56, T:0.01
Consensus pattern (23 bp):
GGAAAGGGAAGAGGAGAGGAAGA
Found at i:60360189 original size:24 final size:25
Alignment explanation
Indices: 60360133--60360189 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
60360123 GGAGGGGGAG
*
60360133 GAGAGG-AGGGAAAGAGGAGAGGAA
1 GAGAGGAAGGGAAAGAGGAGAGAAA
* *
60360157 GAG-GAAAGGGATAGAGGAG-GAAA
1 GAGAGGAAGGGAAAGAGGAGAGAAA
60360180 GAGAGGAAGG
1 GAGAGGAAGG
60360190 AGGGGAGGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.46, C:0.00, G:0.53, T:0.02
Consensus pattern (25 bp):
GAGAGGAAGGGAAAGAGGAGAGAAA
Found at i:60360482 original size:12 final size:12
Alignment explanation
Indices: 60360434--60360614 Score: 77
Period size: 12 Copynumber: 14.7 Consensus size: 12
60360424 GGAGAGGAAA
*
60360434 GAGGAGAGGGGG
1 GAGGAGAGAGGG
* *
60360446 GAGAAGAGAGCG
1 GAGGAGAGAGGG
*
60360458 GAGGGGAGAAGGG
1 GAGGAGAG-AGGG
* *
60360471 GTGTAGAGAGGG
1 GAGGAGAGAGGG
*
60360483 GAGGAGAGAGGA
1 GAGGAGAGAGGG
* *
60360495 GAGGGAGGGGGGG
1 GA-GGAGAGAGGG
60360508 AGAGGAGAGAGGG
1 -GAGGAGAGAGGG
* * *
60360521 AAGGGGAGA-GA
1 GAGGAGAGAGGG
*
60360532 GA-GAGAGAGGAA
1 GAGGAGAGAGG-G
*
60360544 GAGG-GGGAGGG
1 GAGGAGAGAGGG
60360555 GAAGAGAGAAGAGAGG
1 G-AG-GAG-AGAG-GG
60360571 G-GGAGAG-GGG
1 GAGGAGAGAGGG
*
60360581 AGAGGGAGAGAGTG
1 -GA-GGAGAGAGGG
*
60360595 G-GGAGAGAAGAG
1 GAGGAGAG-AGGG
60360607 GAGGAGAG
1 GAGGAGAG
60360615 GGAGAGGAAG
Statistics
Matches: 125, Mismatches: 27, Indels: 33
0.68 0.15 0.18
Matches are distributed among these distances:
10 7 0.06
11 12 0.10
12 53 0.42
13 41 0.33
14 6 0.05
15 3 0.02
16 3 0.02
ACGTcount: A:0.35, C:0.01, G:0.63, T:0.02
Consensus pattern (12 bp):
GAGGAGAGAGGG
Found at i:60360515 original size:24 final size:24
Alignment explanation
Indices: 60360480--60360618 Score: 93
Period size: 24 Copynumber: 6.0 Consensus size: 24
60360470 GGTGTAGAGA
60360480 GGGGAG-GA-GAGAGGAGAGGGAG
1 GGGGAGAGAGGAGAGGAGAGGGAG
* *
60360502 GGGGGGAGA-G-GA-GAGAGGGAA
1 GGGGAGAGAGGAGAGGAGAGGGAG
60360523 GGGGAGAGA-GAGA-GAGAGGAAGAG
1 GGGGAGAGAGGAGAGGAGAGG--GAG
*
60360547 GGGGAG-G-GGA-AGAGAGAAGAGAG
1 GGGGAGAGAGGAGAG-GAG-AGGGAG
* *
60360570 GGGGAGAGGGGAGAGG-GAGAGAG
1 GGGGAGAGAGGAGAGGAGAGGGAG
*
60360593 TGGGGAGAGAAGAGGAGGAGAGGGAG
1 -GGGGAGAGAGGA-GAGGAGAGGGAG
60360619 AGGAAGGATT
Statistics
Matches: 95, Mismatches: 8, Indels: 24
0.75 0.06 0.19
Matches are distributed among these distances:
21 17 0.18
22 16 0.17
23 21 0.22
24 23 0.24
25 10 0.11
26 8 0.08
ACGTcount: A:0.35, C:0.00, G:0.64, T:0.01
Consensus pattern (24 bp):
GGGGAGAGAGGAGAGGAGAGGGAG
Found at i:60360535 original size:56 final size:56
Alignment explanation
Indices: 60360417--60360607 Score: 159
Period size: 54 Copynumber: 3.5 Consensus size: 56
60360407 GGAGGGAAAA
* * *
60360417 AGAGAGAGGAGAGGAAAGAGGAGAGGG-GGGAGAAGAGAGCG-GAGGGGAGAAGGGGTG
1 AGAGAGAGGAGAGGAGAGAGGAGAGGGAGGG-GGAGAGAG-GAGAGGGG-GAAGGGGAG
* *
60360474 TAGAGAG-GG-GAGGAGAGAGGAGAGGGAGGGGGGGAGAGGAGAGAGGGAAGGGGAG
1 -AGAGAGAGGAGAGGAGAGAGGAGAGGGAGGGGGAGAGAGGAGAGGGGGAAGGGGAG
*
60360529 AGAGAGA-GAGAGGA-AGA-G-G-GGGAGGGGAAGAGAGAAGAGAGGGGGAGAGGGGAG
1 AGAGAGAGGAGAGGAGAGAGGAGAGGGAGGGG--GAGAGAGGAGAGGGGGA-AGGGGAG
* * * *
60360583 AGGGAGA-GAGTGGGGAGAGAAGAGG
1 AGAGAGAGGAGAGGAGAGAGGAGAGG
60360608 AGGAGAGGGA
Statistics
Matches: 110, Mismatches: 12, Indels: 22
0.76 0.08 0.15
Matches are distributed among these distances:
51 8 0.07
52 1 0.01
53 15 0.14
54 28 0.25
55 17 0.15
56 27 0.25
57 6 0.05
58 8 0.07
ACGTcount: A:0.36, C:0.01, G:0.62, T:0.02
Consensus pattern (56 bp):
AGAGAGAGGAGAGGAGAGAGGAGAGGGAGGGGGAGAGAGGAGAGGGGGAAGGGGAG
Found at i:60360546 original size:6 final size:7
Alignment explanation
Indices: 60360425--60360620 Score: 80
Period size: 7 Copynumber: 29.4 Consensus size: 7
60360415 AAAGAGAGAG
60360425 GAGAGGA
1 GAGAGGA
*
60360432 AAGAGGA
1 GAGAGGA
* *
60360439 GAGGGGG
1 GAGAGGA
*
60360446 GAGAAGA
1 GAGAGGA
*
60360453 GAGCGGA
1 GAGAGGA
60360460 G-G-GGA
1 GAGAGGA
60360465 GA-AGG-
1 GAGAGGA
* *
60360470 G-GTGTA
1 GAGAGGA
60360476 GAGAGG-
1 GAGAGGA
60360482 G-GAGGA
1 GAGAGGA
60360488 GAGAGGA
1 GAGAGGA
60360495 GAG-GGA
1 GAGAGGA
* *
60360501 G-GGGGG
1 GAGAGGA
60360507 GAGAGGA
1 GAGAGGA
60360514 GAGAGG-
1 GAGAGGA
*
60360520 GAAGGGGA
1 G-AGAGGA
60360528 GAGAGAGA
1 GAGAG-GA
60360536 GAGAGGA
1 GAGAGGA
*
60360543 -AGAGGGG
1 GAGA-GGA
*
60360550 GAGGGGAA
1 GAGAGG-A
*
60360558 GAGAGAA
1 GAGAGGA
*
60360565 GAGAGGGG
1 GAGA-GGA
*
60360573 GAGAGGG
1 GAGAGGA
60360580 GAGAGG-
1 GAGAGGA
60360586 GAGA-GA
1 GAGAGGA
* *
60360592 GTGGGGA
1 GAGAGGA
*
60360599 GAGAAGA
1 GAGAGGA
60360606 G-GAGGA
1 GAGAGGA
60360612 GAG-GGA
1 GAGAGGA
60360618 GAG
1 GAG
60360621 GAAGGATTAG
Statistics
Matches: 139, Mismatches: 31, Indels: 39
0.67 0.15 0.19
Matches are distributed among these distances:
5 12 0.09
6 34 0.24
7 74 0.53
8 19 0.14
ACGTcount: A:0.36, C:0.01, G:0.62, T:0.02
Consensus pattern (7 bp):
GAGAGGA
Found at i:60360624 original size:66 final size:68
Alignment explanation
Indices: 60360420--60360624 Score: 168
Period size: 66 Copynumber: 3.1 Consensus size: 68
60360410 GGGAAAAAGA
* * * *
60360420 GAGAGG-AGAGGAAAGAGGAGAGGGGG-GAGAAGAGAGCGG-AGGGGAGA-AG-G-G-G-TGTAG
1 GAGAGGAAGAGGAGAGA-GAGAGGGGGAGAGGAGAGAG-GGAAGGGGAGAGAGAGAGAGAGGAAG
60360477 AGAGG
64 AGAGG
* *
60360482 G-GAGGAGAGAGGAGAGGGAGGGGGGGAGAGGAGAGAGGGAAGGGGAGAGAGAGAGAGAGGAAGA
1 GAGAGGA-AGAGGAGAGAGAGAGGGGGAGAGGAGAGAGGGAAGGGGAGAGAGAGAGAGAGGAAGA
*
60360546 GGGG
65 GAGG
* * *
60360550 GAGGGGAAGA-GAGA-AGAGAGGGGGAGAGGGGAGAGGGAGAGAGTGG-G-GAGAGA-AGAGGAG
1 GAGAGGAAGAGGAGAGAGAGAGGGGGAGAGGAGAGAGGGA-AG-G-GGAGAGAGAGAGAGAGGAA
60360610 GAGAGG
63 GAGAGG
60360616 GAGAGGAAG
1 GAGAGGAAG
60360625 GATTAGAAAA
Statistics
Matches: 116, Mismatches: 14, Indels: 22
0.76 0.09 0.14
Matches are distributed among these distances:
61 4 0.03
62 11 0.09
63 25 0.22
64 2 0.02
65 1 0.01
66 41 0.35
67 13 0.11
68 13 0.11
69 6 0.05
ACGTcount: A:0.36, C:0.00, G:0.62, T:0.01
Consensus pattern (68 bp):
GAGAGGAAGAGGAGAGAGAGAGGGGGAGAGGAGAGAGGGAAGGGGAGAGAGAGAGAGAGGAAGAG
AGG
Found at i:60360682 original size:18 final size:19
Alignment explanation
Indices: 60360657--60360697 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
60360647 GAGAGGGGAG
60360657 GGGA-GGAAGAAGAAAG-A
1 GGGAGGGAAGAAGAAAGAA
* *
60360674 GGGAGGGAAGGAGAGAGAA
1 GGGAGGGAAGAAGAAAGAA
60360693 GGGAG
1 GGGAG
60360698 AGTAGGAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 4 0.20
18 10 0.50
19 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (19 bp):
GGGAGGGAAGAAGAAAGAA
Found at i:60360821 original size:33 final size:30
Alignment explanation
Indices: 60360784--60360860 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
60360774 AGGGATGGGT
*
60360784 AAGGAGAGAGGAGGAGAGGGGGAAGAAGGAGGA
1 AAGGAGAGAGGAAG-GA-GGGG-AGAAGGAGGA
* *
60360817 AAGGAAAAAGGAAGGAGGGGAGAAGGAGGA
1 AAGGAGAGAGGAAGGAGGGGAGAAGGAGGA
*
60360847 GAGGAGAG-GGAAGG
1 AAGGAGAGAGGAAGG
60360861 GAAAGAAAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
29 6 0.16
30 15 0.39
31 4 0.11
32 2 0.05
33 11 0.29
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (30 bp):
AAGGAGAGAGGAAGGAGGGGAGAAGGAGGA
Found at i:60360887 original size:15 final size:15
Alignment explanation
Indices: 60360792--60360887 Score: 53
Period size: 15 Copynumber: 6.6 Consensus size: 15
60360782 GTAAGGAGAG
60360792 AGGAGGAGAGGGGGAAGA
1 AGGAGGAGA--GGGAA-A
* *
60360810 AGGAGGAAAGGAAAA
1 AGGAGGAGAGGGAAA
*
60360825 AGGAAGGAG-GGGAGA
1 AGG-AGGAGAGGGAAA
*
60360840 AGGAGGAGA-GG-AG
1 AGGAGGAGAGGGAAA
60360853 A-G-GGA-AGGG-AA
1 AGGAGGAGAGGGAAA
* *
60360864 AGAAAGAGAGGGAAA
1 AGGAGGAGAGGGAAA
60360879 AGGAGGAGA
1 AGGAGGAGA
60360888 AGGAGGGGGA
Statistics
Matches: 59, Mismatches: 12, Indels: 17
0.67 0.14 0.19
Matches are distributed among these distances:
10 1 0.02
11 7 0.12
12 1 0.02
13 3 0.05
14 11 0.19
15 20 0.34
16 8 0.14
18 8 0.14
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (15 bp):
AGGAGGAGAGGGAAA
Found at i:60360893 original size:19 final size:19
Alignment explanation
Indices: 60360827--60360894 Score: 50
Period size: 19 Copynumber: 3.5 Consensus size: 19
60360817 AAGGAAAAAG
*
60360827 GAAGGAGGGGAGAAGGAGGA
1 GAAGGA-GGGAAAAGGAGGA
* * *
60360847 G-AGGAGAGGGAAGGGA-AA
1 GAAGGAG-GGAAAAGGAGGA
60360865 GAAAGAGAGGGAAAAGGAGGA
1 G-AAG-GAGGGAAAAGGAGGA
60360886 GAAGGAGGG
1 GAAGGAGGG
60360895 GGAGGGAAGG
Statistics
Matches: 36, Mismatches: 7, Indels: 11
0.67 0.13 0.20
Matches are distributed among these distances:
18 3 0.08
19 15 0.42
20 13 0.36
21 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (19 bp):
GAAGGAGGGAAAAGGAGGA
Found at i:60361054 original size:31 final size:31
Alignment explanation
Indices: 60360967--60361113 Score: 92
Period size: 29 Copynumber: 4.7 Consensus size: 31
60360957 AAGAGAGAGG
*
60360967 AGGAGGTAGATGAGGGAGGAGAGG-AGGGAA-A
1 AGGAGG-AGAAGAGGG-GGAGAGGAAGGGAAGA
* *
60360998 TAGGAAGGAGGA-AGGGAG-GAGGAAGGGAAGA
1 -AGG-AGGAGAAGAGGGGGAGAGGAAGGGAAGA
** *
60361029 AGGAGGAGAAGAGGGGGAGAGGAAGGGCCGG
1 AGGAGGAGAAGAGGGGGAGAGGAAGGGAAGA
* *
60361060 A-G-GGAGAGGAGGGGGGGAGGGAAAGGGAAGA
1 AGGAGGAGAAGAGGGGGAGA-GG-AAGGGAAGA
* *
60361091 GGGAGGAGGCAGA-GGGGAGAGGA
1 AGGAGGA-GAAGAGGGGGAGAGGA
60361114 GAGAAGAGAG
Statistics
Matches: 88, Mismatches: 17, Indels: 21
0.70 0.13 0.17
Matches are distributed among these distances:
29 24 0.27
30 18 0.20
31 23 0.26
32 8 0.09
33 12 0.14
34 3 0.03
ACGTcount: A:0.36, C:0.02, G:0.60, T:0.02
Consensus pattern (31 bp):
AGGAGGAGAAGAGGGGGAGAGGAAGGGAAGA
Found at i:60361106 original size:20 final size:20
Alignment explanation
Indices: 60361010--60361112 Score: 52
Period size: 20 Copynumber: 5.2 Consensus size: 20
60361000 GGAAGGAGGA
60361010 AGGGAGGAGG-A-AGGGAAG
1 AGGGAGGAGGCAGAGGGAAG
* * *
60361028 AAGGAGGA-GAAGAGGGGGAG
1 AGGGAGGAGGCAGA-GGGAAG
* * *
60361048 AGGAAGG-GCCGGAGGGAGAGG
1 AGGGAGGAGGCAGAGGGA-A-G
* * *
60361069 AGGGGGGGAGGGAAAGGGAAG
1 A-GGGAGGAGGCAGAGGGAAG
*
60361090 AGGGAGGAGGCAGAGGGGAG
1 AGGGAGGAGGCAGAGGGAAG
60361110 AGG
1 AGG
60361113 AGAGAAGAGA
Statistics
Matches: 59, Mismatches: 18, Indels: 14
0.65 0.20 0.15
Matches are distributed among these distances:
17 1 0.02
18 8 0.14
19 4 0.07
20 31 0.53
21 4 0.07
22 5 0.08
23 6 0.10
ACGTcount: A:0.34, C:0.03, G:0.63, T:0.00
Consensus pattern (20 bp):
AGGGAGGAGGCAGAGGGAAG
Found at i:60361226 original size:15 final size:15
Alignment explanation
Indices: 60361154--60361226 Score: 53
Period size: 15 Copynumber: 4.7 Consensus size: 15
60361144 GGTAGGGGAG
*
60361154 GGGAG-AGAGGGAGAA
1 GGGAGAAGA-GGAGGA
60361169 GGGA-AAGAGGACGGA
1 GGGAGAAGAGGA-GGA
*
60361184 GGGATTG-GGAGGAGGA
1 GGGA--GAAGAGGAGGA
*
60361200 GGAGAGACGAGGAGGA
1 GG-GAGAAGAGGAGGA
60361216 GGGAGAAGAGG
1 GGGAGAAGAGG
60361227 GAGGGGGGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
14 3 0.06
15 22 0.47
16 15 0.32
17 7 0.15
ACGTcount: A:0.36, C:0.03, G:0.59, T:0.03
Consensus pattern (15 bp):
GGGAGAAGAGGAGGA
Found at i:60361229 original size:16 final size:16
Alignment explanation
Indices: 60361194--60361357 Score: 54
Period size: 16 Copynumber: 10.8 Consensus size: 16
60361184 GGGATTGGGA
*
60361194 GGAGGAGGAGAGACGA-
1 GGAGGAGG-GAGAAGAG
60361210 GGAGGAGGGAGAAGAG
1 GGAGGAGGGAGAAGAG
* *
60361226 GGAGGGGGGGGAAG-G
1 GGAGGAGGGAGAAGAG
* *
60361241 GAAGGTA-GGAGGTAGGAG
1 GGAGG-AGGGA-G-AAGAG
*
60361259 GGA-GA-GGAGAAGAA
1 GGAGGAGGGAGAAGAG
*
60361273 GGAGGGAAGGG-GAGGAG
1 GGA-GG-AGGGAGAAGAG
60361290 GG-GGAGGG-G-AGAG
1 GGAGGAGGGAGAAGAG
60361303 GAGAAGG-GGG-GAAG-G
1 G-G-AGGAGGGAGAAGAG
* *
60361318 GG-GGGGGGAGAGGAG
1 GGAGGAGGGAGAAGAG
60361333 GGAGG-GGG-GAA-AG
1 GGAGGAGGGAGAAGAG
*
60361346 GGAGGAGAGAGA
1 GGAGGAGGGAGA
60361358 GAAAGGAGGA
Statistics
Matches: 113, Mismatches: 16, Indels: 39
0.67 0.10 0.23
Matches are distributed among these distances:
12 2 0.02
13 14 0.12
14 20 0.18
15 30 0.27
16 32 0.28
17 10 0.09
18 5 0.04
ACGTcount: A:0.32, C:0.01, G:0.66, T:0.01
Consensus pattern (16 bp):
GGAGGAGGGAGAAGAG
Found at i:60361289 original size:38 final size:36
Alignment explanation
Indices: 60361208--60361319 Score: 102
Period size: 38 Copynumber: 2.9 Consensus size: 36
60361198 GAGGAGAGAC
* * *
60361208 GAGGAGGAGGGAGAAGAGG-GAGGGGGGGGAAGGGAAG
1 GAGGAGGAGGG-G-AGAGGAGAAGGGAGGGAAGGGGAG
60361245 GTAGGAGGTAGGAGGGAGAGGAGAAGAAGGAGGGAAGGGGAG
1 G-AGGAGG-A-G-GGGAGAGGAGAAG--GGAGGGAAGGGGAG
*
60361287 GAGGGGGAGGGGAGAGGAGAAGGG-GGGAAGGGG
1 GAGGAGGAGGGGAGAGGAGAAGGGAGGGAAGGGG
60361320 GGGGGGAGAG
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
35 9 0.14
36 2 0.03
37 1 0.02
38 19 0.30
39 7 0.11
40 6 0.09
41 7 0.11
42 13 0.20
ACGTcount: A:0.32, C:0.00, G:0.66, T:0.02
Consensus pattern (36 bp):
GAGGAGGAGGGGAGAGGAGAAGGGAGGGAAGGGGAG
Found at i:60361295 original size:19 final size:19
Alignment explanation
Indices: 60361208--60361312 Score: 56
Period size: 19 Copynumber: 5.5 Consensus size: 19
60361198 GAGGAGAGAC
60361208 GAGGAGGAGGGA--GAAGAGG
1 GAGGAGG-GGGAGGGAAG-GG
*
60361227 GAGGGGGGGGAAGGGAA-GG
1 GAGGAGGGGG-AGGGAAGGG
* * *
60361246 TAGGAGGTAGGAGGG-AGAG
1 GAGGAGG-GGGAGGGAAGGG
* **
60361265 GAGAAGAAGGAGGGAAGGG
1 GAGGAGGGGGAGGGAAGGG
* *
60361284 GAGGAGGGGGAGGGGAGAG
1 GAGGAGGGGGAGGGAAGGG
*
60361303 GAGAAGGGGG
1 GAGGAGGGGG
60361313 GAAGGGGGGG
Statistics
Matches: 65, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
18 11 0.17
19 49 0.75
20 2 0.03
21 3 0.05
ACGTcount: A:0.32, C:0.00, G:0.66, T:0.02
Consensus pattern (19 bp):
GAGGAGGGGGAGGGAAGGG
Found at i:60361308 original size:35 final size:35
Alignment explanation
Indices: 60361238--60361319 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 35
60361228 AGGGGGGGGA
60361238 AGGGAAGGTAGGAGGTAGGAGGGAGAGGAGAAGAAGG
1 AGGGAAGG--GGAGGTAGGAGGGAGAGGAGAAGAAGG
*
60361275 AGGGAAGGGGAGG-AGG-GGGAGGGGAGAGGAGAAGG
1 AGGGAAGGGGAGGTAGGAGGGAGAGGAGA--AGAAGG
*
60361310 GGGGAAGGGG
1 AGGGAAGGGG
60361320 GGGGGGAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 10 0.24
34 3 0.07
35 20 0.49
37 8 0.20
ACGTcount: A:0.33, C:0.00, G:0.65, T:0.02
Consensus pattern (35 bp):
AGGGAAGGGGAGGTAGGAGGGAGAGGAGAAGAAGG
Found at i:60361327 original size:22 final size:20
Alignment explanation
Indices: 60361284--60361341 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
60361274 GAGGGAAGGG
*
60361284 GAGGAGGG-GGAGGGGAGAGGA
1 GAGGAGGGAGG-GGGG-GGGGA
*
60361305 GAAGGGGGGAAGGGGGGGGGGA
1 G-AGGAGGG-AGGGGGGGGGGA
60361327 GAGGAGGGAGGGGGG
1 GAGGAGGGAGGGGGG
60361342 AAAGGGAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 7 0.23
21 7 0.23
22 11 0.35
23 4 0.13
24 2 0.06
ACGTcount: A:0.24, C:0.00, G:0.76, T:0.00
Consensus pattern (20 bp):
GAGGAGGGAGGGGGGGGGGA
Found at i:60361346 original size:29 final size:28
Alignment explanation
Indices: 60361272--60361356 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 28
60361262 GAGGAGAAGA
60361272 AGGAGGGAAGGGGAGG-AGGGGGAGGGGAG
1 AGGAGGG-AGGGG-GGAAGGGGGAGGGGAG
* *
60361301 AGGA-GAAGGGGGGAAGGGGGGGGGGAG
1 AGGAGGGAGGGGGGAAGGGGGAGGGGAG
* *
60361328 AGGAGGGAGGGGGGAA-AGGGAGGAGAG
1 AGGAGGGAGGGGGGAAGGGGGAGGGGAG
60361355 AG
1 AG
60361357 AGAAAGGAGG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
26 2 0.04
27 31 0.65
28 11 0.23
29 4 0.08
ACGTcount: A:0.29, C:0.00, G:0.71, T:0.00
Consensus pattern (28 bp):
AGGAGGGAGGGGGGAAGGGGGAGGGGAG
Found at i:60361365 original size:29 final size:28
Alignment explanation
Indices: 60361307--60361366 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
60361297 GGAGAGGAGA
* * * * *
60361307 AGGGGGGAAGGGGGGGGGGAGAGGAGGG
1 AGGGGGGAAGGGAGGAGAGAGAGAAAGG
60361335 AGGGGGGAAAGGGAGGAGAGAGAGAAAGG
1 AGGGGGG-AAGGGAGGAGAGAGAGAAAGG
60361364 AGG
1 AGG
60361367 AGTAGAGAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (28 bp):
AGGGGGGAAGGGAGGAGAGAGAGAAAGG
Found at i:60361409 original size:35 final size:36
Alignment explanation
Indices: 60361343--60361428 Score: 115
Period size: 35 Copynumber: 2.4 Consensus size: 36
60361333 GGAGGGGGGA
*
60361343 AAGGGAGGAGAG-AG-AGAAAGGAGGAGTAGAGAGGG
1 AAGGG-GGAGAGAAGAAGAAAAGAGGAGTAGAGAGGG
60361378 AAGGGGGAGAGAAGAAGAAAAGAGGAG-AGAGAGGG
1 AAGGGGGAGAGAAGAAGAAAAGAGGAGTAGAGAGGG
*
60361413 AAGGGAGAGGAGAAGA
1 AAGGGGGA-GAGAAGA
60361429 GAGGGAGGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
34 6 0.13
35 22 0.48
36 18 0.39
ACGTcount: A:0.47, C:0.00, G:0.52, T:0.01
Consensus pattern (36 bp):
AAGGGGGAGAGAAGAAGAAAAGAGGAGTAGAGAGGG
Found at i:60361419 original size:33 final size:34
Alignment explanation
Indices: 60361343--60361428 Score: 104
Period size: 33 Copynumber: 2.5 Consensus size: 34
60361333 GGAGGGGGGA
*
60361343 AAGGGAG-GAGAGAGAGAAAGGAGGAGTAGAGAGGG
1 AAGGGAGAGA-AGA-AGAAAAGAGGAGTAGAGAGGG
60361378 AAGGGGGAGAGAAGAAGAAAAGAGGAG-AGAGAGGG
1 AA--GGGAGAGAAGAAGAAAAGAGGAGTAGAGAGGG
*
60361413 AAGGGAGAGGAGAAGA
1 AAGGGAGAGAAGAAGA
60361429 GAGGGAGGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
33 13 0.28
35 12 0.26
36 11 0.24
37 8 0.17
38 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.52, T:0.01
Consensus pattern (34 bp):
AAGGGAGAGAAGAAGAAAAGAGGAGTAGAGAGGG
Found at i:60361421 original size:20 final size:20
Alignment explanation
Indices: 60361398--60361441 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
60361388 GAAGAAGAAA
60361398 AGAGGAG-AGAGAGGGAAGGG
1 AGAGGAGAAGAGAGGG-AGGG
60361418 AGAGGAGAAGAGAGGGAGGG
1 AGAGGAGAAGAGAGGGAGGG
60361438 AGAG
1 AGAG
60361442 AGGAGGGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (20 bp):
AGAGGAGAAGAGAGGGAGGG
Found at i:60361440 original size:35 final size:34
Alignment explanation
Indices: 60361256--60361448 Score: 93
Period size: 35 Copynumber: 5.6 Consensus size: 34
60361246 TAGGAGGTAG
* *
60361256 GAGGGAGAGGAGAAGAAGGAGGGAAGGGGAGGAG-GGG
1 GAGGGAG-GGAG-AG-A-GAGGGAAGGGGAGGAGAAGA
* **
60361293 GAGGGGAGAGGAGA-AGGGGGGAAGGGG-GG-GGGGA
1 GA-GGGAG-GGAGAGA-GAGGGAAGGGGAGGAGAAGA
*
60361327 GA-GGAGGGAG-G-G-GGGAAAGGGAGGAGAGAGA
1 GAGGGAGGGAGAGAGAGGGAAGGGGAGGAGA-AGA
*
60361358 GAAAGGA-GGAGTAGAGAGGGAAGGGG-GAGAGAAGA
1 G-AGGGAGGGAG-AGAGAGGGAAGGGGAG-GAGAAGA
**
60361393 -AGAAAAGAGGAGAGAGAGGGAAGGGAGAGGAGAAGA
1 GAG-GGAG-GGAGAGAGAGGGAAGGG-GAGGAGAAGA
60361429 GAGGGAGGGAGAGAGGAGGG
1 GAGGGAGGGAGAGA-GAGGG
60361449 GGGGTAGGGG
Statistics
Matches: 125, Mismatches: 11, Indels: 41
0.71 0.06 0.23
Matches are distributed among these distances:
28 8 0.06
29 3 0.02
30 1 0.01
31 7 0.06
32 9 0.07
33 5 0.04
34 8 0.06
35 37 0.30
36 31 0.25
37 6 0.05
38 10 0.08
ACGTcount: A:0.37, C:0.00, G:0.62, T:0.01
Consensus pattern (34 bp):
GAGGGAGGGAGAGAGAGGGAAGGGGAGGAGAAGA
Done.