Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1234
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 51652
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
File 1 of 2
Found at i:163 original size:10 final size:11
Alignment explanation
Indices: 139--163 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
129 ATTACAACCC
139 AAAATAAATTA
1 AAAATAAATTA
150 AAAATAAATTA
1 AAAATAAATTA
161 AAA
1 AAA
164 GAAACCAACG
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATAAATTA
Found at i:716 original size:22 final size:24
Alignment explanation
Indices: 640--732 Score: 131
Period size: 23 Copynumber: 4.0 Consensus size: 24
630 GCTTTATCAT
*
640 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
665 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
688 ATAACTGGGGCATAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTA
710 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
733 CACTTCCTCC
Statistics
Matches: 64, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
22 19 0.30
23 24 0.38
24 13 0.20
25 8 0.12
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:806 original size:20 final size:20
Alignment explanation
Indices: 781--848 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
771 TTATGAACAC
781 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
801 ATCATGTGCATCATCATACAT
1 ATCATGTGCAT-ATCATACAT
*
822 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
842 ACCATGT
1 ATCATGT
849 TTCAAAATCC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 25 0.57
21 19 0.43
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:8425 original size:31 final size:31
Alignment explanation
Indices: 8387--8446 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
8377 TTTCATATTT
8387 ATATTTCATAACACTGGGCCGAAGCCTTTTC
1 ATATTTCATAACACTGGGCCGAAGCCTTTTC
**
8418 ATATTTCATATTACTGGGCCGAAGCCTTT
1 ATATTTCATAACACTGGGCCGAAGCCTTT
8447 ACTGTAAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (31 bp):
ATATTTCATAACACTGGGCCGAAGCCTTTTC
Found at i:8726 original size:47 final size:46
Alignment explanation
Indices: 8656--8751 Score: 165
Period size: 47 Copynumber: 2.1 Consensus size: 46
8646 CCTAGCCTCT
8656 TTTAATAACTGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
8702 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACT-GGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
8749 TTT
1 TTT
8752 TGCACTTCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 10 0.21
47 37 0.79
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (46 bp):
TTTAATAACTGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:8753 original size:24 final size:24
Alignment explanation
Indices: 8635--8752 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
8625 GCTTTATCAT
*
8635 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
8660 ATAACT-GGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
8683 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
8706 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
8730 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
8753 GCACTTCCTC
Statistics
Matches: 86, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
23 38 0.44
24 42 0.49
25 6 0.07
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:8839 original size:19 final size:20
Alignment explanation
Indices: 8802--8867 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
8792 TTATGAACAC
8802 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
8822 ATCATGTGCATA-CATACAT
1 ATCATGTGCATATCATACAT
*
8841 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
8861 ACCATGT
1 ATCATGT
8868 TTACAAAATC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
19 18 0.43
20 24 0.57
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:12422 original size:29 final size:29
Alignment explanation
Indices: 12349--12422 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 29
12339 AATAGTCTAT
*
12349 ATTTTTATAATTTTAAATGATCAAATCAA
1 ATTTTTATAATTTTGAATGATCAAATCAA
12378 ATTTTTATAATTTTTGAATGATCAAATCAA
1 ATTTTTATAA-TTTTGAATGATCAAATCAA
*
12408 ATTTTTATTATTTTG
1 ATTTTTATAATTTTG
12423 GGATGACAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
29 15 0.36
30 27 0.64
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (29 bp):
ATTTTTATAATTTTGAATGATCAAATCAA
Found at i:12442 original size:30 final size:30
Alignment explanation
Indices: 12349--12432 Score: 118
Period size: 30 Copynumber: 2.9 Consensus size: 30
12339 AATAGTCTAT
*
12349 ATTTTTATAATTTT-AAATGATCAAATCAA
1 ATTTTTATAATTTTGGAATGATCAAATCAA
*
12378 ATTTTTATAATTTTTGAATGATCAAATCAA
1 ATTTTTATAATTTTGGAATGATCAAATCAA
* *
12408 ATTTTTATTATTTTGGGATGA-CAAA
1 ATTTTTATAATTTTGGAATGATCAAA
12433 GTGCAATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 18 0.36
30 32 0.64
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.46
Consensus pattern (30 bp):
ATTTTTATAATTTTGGAATGATCAAATCAA
Found at i:14681 original size:40 final size:39
Alignment explanation
Indices: 14607--14830 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 39
14597 GCTCCTCGTT
*
14607 CAAATGCCTTCGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATT-TAGTAACTCGCA
*
14646 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
* * *
14686 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* *
14725 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
14765 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
14806 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
14831 CATCATTCAA
Statistics
Matches: 165, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 48 0.29
40 104 0.63
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:14706 original size:79 final size:78
Alignment explanation
Indices: 14607--14830 Score: 281
Period size: 79 Copynumber: 2.8 Consensus size: 78
14597 GCTCCTCGTT
* *
14607 CAAATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGACTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
14672 TTTAGTAACTCGCA
65 TTTAGTAACTCGCA
* * * *
14686 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGACTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
*
14750 ATTTAGTATCTCGCA
64 ATTTAGTAACTCGCA
* * * *
14765 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
14829 GA
63 GA
14831 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
78 4 0.03
79 79 0.64
80 29 0.23
81 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
TTAGTAACTCGCA
Found at i:14790 original size:119 final size:119
Alignment explanation
Indices: 14607--14830 Score: 303
Period size: 119 Copynumber: 1.9 Consensus size: 119
14597 GCTCCTCGTT
14607 CAAATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
14672 TTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 TATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * * **
14725 CAAATGCCTTCGGATCTTAGTCCGGATT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
14788 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
14831 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
118 17 0.18
119 54 0.59
120 21 0.23
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:20275 original size:20 final size:20
Alignment explanation
Indices: 20250--20289 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
20240 AATTTCTAGA
*
20250 ACTCAAATTTCACAATTTAT
1 ACTCAAATTTAACAATTTAT
* *
20270 ACTCAAGTTTAAGAATTTAT
1 ACTCAAATTTAACAATTTAT
20290 TAATTTAGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (20 bp):
ACTCAAATTTAACAATTTAT
Found at i:20889 original size:12 final size:12
Alignment explanation
Indices: 20872--20902 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
20862 ACCTTTCTCA
20872 ATAATTCACGAT
1 ATAATTCACGAT
20884 ATAATTCACGAT
1 ATAATTCACGAT
20896 ATAATTC
1 ATAATTC
20903 TCGAATCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.35
Consensus pattern (12 bp):
ATAATTCACGAT
Found at i:31843 original size:15 final size:15
Alignment explanation
Indices: 31823--31852 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31813 AAGCAAGTAA
31823 AGAAATCCAAGATAG
1 AGAAATCCAAGATAG
*
31838 AGAAATCCGAGATAG
1 AGAAATCCAAGATAG
31853 GATACCATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.23, T:0.13
Consensus pattern (15 bp):
AGAAATCCAAGATAG
Found at i:44832 original size:30 final size:30
Alignment explanation
Indices: 44784--44841 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
44774 TCCTTAACTC
* *
44784 AAACTTTTTCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATGTTGCCCCT
* * *
44814 AAACTTTTGCATATTTACACTGTTGCCC
1 AAACTTTTGCAAAATTACAATGTTGCCC
44842 TAGGCTCGGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATGTTGCCCCT
Found at i:45307 original size:12 final size:12
Alignment explanation
Indices: 45290--45358 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
45280 AGGAGGAAAA
45290 AAAAAAGAAAGG
1 AAAAAAGAAAGG
* *
45302 AAAAAAAAAAGAA
1 AAAAAAGAAAG-G
45315 AAAAAAGAAAGG
1 AAAAAAGAAAGG
* * *
45327 GAAAAGGGAAGG
1 AAAAAAGAAAGG
*
45339 AAAAAA-AAAAG
1 AAAAAAGAAAGG
45350 -AAAAAGAAA
1 AAAAAAGAAA
45359 AAGAAGAGGA
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
10 5 0.11
11 6 0.14
12 23 0.52
13 10 0.23
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAGG
Found at i:45341 original size:26 final size:25
Alignment explanation
Indices: 45283--45354 Score: 51
Period size: 25 Copynumber: 2.8 Consensus size: 25
45273 AAAGGGGAGG
45283 AGGAAAAAAAAAAGAAAGGAAAAA-AA
1 AGGAAAAAAAAAAGAAA--AAAAAGAA
* *
45309 A--AAGAAAAAAAAGAAAGGGAAAAGGGA
1 AGGAA-AAAAAAAAGAAA---AAAAAGAA
45336 AGGAAAAAAAAAAGAAAAA
1 AGGAAAAAAAAAAGAAAAA
45355 GAAAAAGAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
24 2 0.05
25 14 0.36
26 7 0.18
27 2 0.05
28 12 0.31
29 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (25 bp):
AGGAAAAAAAAAAGAAAAAAAAGAA
Found at i:45348 original size:6 final size:6
Alignment explanation
Indices: 45338--45399 Score: 54
Period size: 6 Copynumber: 9.7 Consensus size: 6
45328 AAAAGGGAAG
* *
45338 GAAAAA -AAAAA GAAAAA GAAAAA GAAGAGGAG GAAAAGA GAAAAG GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAA-A--AA GAAAA-A GAAAAA GAAAAA
45389 GAAAAAA GAAA
1 G-AAAAA GAAA
45400 GGAGAAGAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
5 5 0.11
6 24 0.52
7 12 0.26
8 1 0.02
9 4 0.09
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:45359 original size:12 final size:12
Alignment explanation
Indices: 45285--45399 Score: 67
Period size: 11 Copynumber: 9.3 Consensus size: 12
45275 AGGGGAGGAG
45285 GAAAAA-AAAAA
1 GAAAAAGAAAAA
*
45296 G-AAAGGAAAAA
1 GAAAAAGAAAAA
45307 -AAAAAGAAAAA
1 GAAAAAGAAAAA
* *
45318 AAAGAAAGGGAAAA
1 GAA-AAA-GAAAAA
** *
45332 GGGAAGGAAAAA
1 GAAAAAGAAAAA
45344 -AAAAAGAAAAA
1 GAAAAAGAAAAA
*
45355 GAAAAAGAAGAGGAG
1 GAAAAAGAA-A--AA
*
45370 GAAAAGAGAAAAG
1 GAAAA-AGAAAAA
45383 GAAAAAGAAAAAA
1 GAAAAAG-AAAAA
45396 GAAA
1 GAAA
45400 GGAGAAGAAC
Statistics
Matches: 80, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
10 3 0.04
11 23 0.29
12 17 0.21
13 21 0.26
14 5 0.06
15 7 0.09
16 4 0.05
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
GAAAAAGAAAAA
Found at i:45373 original size:43 final size:41
Alignment explanation
Indices: 45297--45399 Score: 115
Period size: 37 Copynumber: 2.5 Consensus size: 41
45287 AAAAAAAAAG
45297 AAAGGAAAAAAAAAAG--AAAAAAAAGAAAGGGAAAAG-G-
1 AAAGGAAAAAAAAAAGAAAAAAAAAAGAAAGGGAAAAGAGA
*
45334 GAAGGAAAAAAAAAAGAAAAAGAAAAAGAAGAGGAGGAAAAGAGA
1 AAAGGAAAAAAAAAAGAAAAA-AAAAAGAA-A-G-GGAAAAGAGA
45379 AAAGGAAAAAGAAAAAAGAAA
1 AAAGG-AAAA-AAAAAAGAAA
45400 GGAGAAGAAC
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
37 15 0.28
39 3 0.06
40 8 0.15
41 1 0.02
42 1 0.02
43 7 0.13
44 1 0.02
45 4 0.07
46 4 0.07
47 10 0.19
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (41 bp):
AAAGGAAAAAAAAAAGAAAAAAAAAAGAAAGGGAAAAGAGA
Found at i:45393 original size:34 final size:32
Alignment explanation
Indices: 45285--45403 Score: 107
Period size: 37 Copynumber: 3.5 Consensus size: 32
45275 AGGGGAGGAG
* *
45285 GAAAAAAAAAAGAAAGGAAAAAAAAAAGAAAAA
1 GAAAAAAGAAAG-GAGGAAAAAAAAAAGAAAAA
45318 -AAAGAAAGGGAAAAGGGAAGGAAAAAAAAAAGAAAAA
1 GAAA-AAA--G-AAA-GG-AGGAAAAAAAAAAGAAAAA
*
45355 G-AAAAAGAAGAGGAGGAAAAGAGAAAAGGAAAAA
1 GAAAAAAGAA-AGGAGGAAAA-A-AAAAAGAAAAA
45389 GAAAAAAGAAAGGAG
1 GAAAAAAGAAAGGAG
45404 AAGAACAGAA
Statistics
Matches: 72, Mismatches: 3, Indels: 21
0.75 0.03 0.22
Matches are distributed among these distances:
32 10 0.14
33 8 0.11
34 18 0.25
35 8 0.11
36 6 0.08
37 22 0.31
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (32 bp):
GAAAAAAGAAAGGAGGAAAAAAAAAAGAAAAA
Found at i:45408 original size:45 final size:43
Alignment explanation
Indices: 45291--45441 Score: 136
Period size: 45 Copynumber: 3.6 Consensus size: 43
45281 GGAGGAAAAA
45291 AAAAAGAAAGG-AAAA-AAAAAAGAAA-AAAAAGAA-AG--GG
1 AAAAAGAAAGGAAAAAGAAAAAAGAAAGAAAAAGAACAGAAGG
* * * * *
45328 AAAAGGGAAGGAAAAA-AAAAAGAAAAAGAAAAAGAAGAGGAGG
1 AAAAAGAAAGGAAAAAGAAAAA-AGAAAGAAAAAGAACAGAAGG
* *
45371 AAAAGAGAAAAGGAAAAAGAAAAAAGAAAGGAGAAGAACAGAAGG
1 AAAA-AG-AAAGGAAAAAGAAAAAAGAAAGAAAAAGAACAGAAGG
*
45416 AAAAAGAGAGGAAAGAAGGAAAAAAG
1 AAAAAGAAAGGAAA-AA-GAAAAAAG
45442 GGGGGAAAGG
Statistics
Matches: 92, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
37 9 0.10
38 9 0.10
39 4 0.04
40 8 0.09
41 2 0.02
43 13 0.14
44 5 0.05
45 37 0.40
46 5 0.05
ACGTcount: A:0.72, C:0.01, G:0.28, T:0.00
Consensus pattern (43 bp):
AAAAAGAAAGGAAAAAGAAAAAAGAAAGAAAAAGAACAGAAGG
Found at i:45418 original size:19 final size:18
Alignment explanation
Indices: 45387--45438 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
45377 GAAAAGGAAA
* *
45387 AAGAAA-AAAGAAAGGAG
1 AAGAAAGAAGGAAAAGAG
45404 AAGAACAGAAGGAAAAAGAG
1 AAGAA-AGAAGG-AAAAGAG
*
45424 AGGAAAGAAGGAAAA
1 AAGAAAGAAGGAAAA
45439 AAGGGGGGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 5 0.17
18 5 0.17
19 9 0.31
20 10 0.34
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (18 bp):
AAGAAAGAAGGAAAAGAG
Found at i:45439 original size:20 final size:20
Alignment explanation
Indices: 45410--45494 Score: 70
Period size: 20 Copynumber: 4.2 Consensus size: 20
45400 GGAGAAGAAC
45410 AGAAGG-AAAAAGAGAGGAA
1 AGAAGGAAAAAAGAGAGGAA
* *
45429 AGAAGGAAAAAAGGGGGGAA
1 AGAAGGAAAAAAGAGAGGAA
* *
45449 AGGAA-GAAAAAAAATAAGG-A
1 A-GAAGGAAAAAAGA-GAGGAA
45469 AGAAAGGGAAAAAA-AGAGGAA
1 AG-AA-GGAAAAAAGAGAGGAA
45490 AGAAG
1 AGAAG
45495 AGGAAAAGAG
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
19 8 0.15
20 28 0.54
21 9 0.17
22 7 0.13
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.01
Consensus pattern (20 bp):
AGAAGGAAAAAAGAGAGGAA
Found at i:45499 original size:21 final size:21
Alignment explanation
Indices: 45350--45501 Score: 66
Period size: 21 Copynumber: 7.1 Consensus size: 21
45340 AAAAAAAAAG
* *
45350 AAAAAGA-AAAAGAAGAGGAG
1 AAAAAGAGGAAAGAAGAGGAA
* * * *
45370 GAAAAGAGAAAAGGAAAAAGAA
1 AAAAAGAGGAAA-GAAGAGGAA
*
45392 AAAAGAAAGGAGAAGAACAGAAGGAA
1 AAAA-AGAGGA-AAG-A-AG-AGGAA
*
45418 AAAGAGAGGAAAG-A-AGGAA
1 AAAAAGAGGAAAGAAGAGGAA
* *
45437 AAAAGGGGGGAAAGGAAGA--AA
1 AAAA-AGAGGAAA-GAAGAGGAA
*
45458 AAAAATAAGG-AAGAA-AGGGAA
1 AAAAA-GAGGAAAGAAGA-GGAA
45479 AAAAAGAGGAAAGAAGAGGAA
1 AAAAAGAGGAAAGAAGAGGAA
45500 AA
1 AA
45502 GAGAAAAAAA
Statistics
Matches: 97, Mismatches: 18, Indels: 33
0.66 0.12 0.22
Matches are distributed among these distances:
18 1 0.01
19 11 0.11
20 17 0.18
21 32 0.33
22 11 0.11
23 6 0.06
24 6 0.06
25 6 0.06
26 7 0.07
ACGTcount: A:0.66, C:0.01, G:0.32, T:0.01
Consensus pattern (21 bp):
AAAAAGAGGAAAGAAGAGGAA
Found at i:45543 original size:25 final size:26
Alignment explanation
Indices: 45509--45577 Score: 97
Period size: 25 Copynumber: 2.7 Consensus size: 26
45499 AAAGAGAAAA
45509 AAAAGAAAAAAAAAAAGAAGA-GGAG
1 AAAAGAAAAAAAAAAAGAAGAGGGAG
*
45534 AAAAGAAAAAAAAAAAGCAGAGGGAG
1 AAAAGAAAAAAAAAAAGAAGAGGGAG
**
45560 AAAA-AAAAAGGAAAAGAA
1 AAAAGAAAAAAAAAAAGAA
45578 AAAAAAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 31 0.79
26 8 0.21
ACGTcount: A:0.75, C:0.01, G:0.23, T:0.00
Consensus pattern (26 bp):
AAAAGAAAAAAAAAAAGAAGAGGGAG
Found at i:45570 original size:95 final size:90
Alignment explanation
Indices: 45471--45680 Score: 210
Period size: 95 Copynumber: 2.2 Consensus size: 90
45461 AATAAGGAAG
*
45471 AAAGGGAAAAAAAGAGGAAAGAAGAGGAAAAGAGAAAAAAAAGAAAAAA-AAAAA-GAAGAGGAG
1 AAAGGGAAAAAAA-AAGAAAGAA-AGGAAAAG-G--AAAAAAGAAAAAAGAAAAAGGAAGAGGAG
45534 AAAAGAAAAAAAAAAAGCAGAGGGAGAAAAA-A
61 AAAA-AAAAAAAAAAAG-AGAGGGA-AAAAAGA
* *
45566 AAAGGAAAAGAAAAAAAAAGAAAGAAAGGAATAGGAAAACAGAAAAAAGAAAAAGGGAAGAGGAG
1 AAAGG----GAAAAAAAAAGAAAGAAAGGAAAAGGAAAAAAGAAAAAAGAAAAA-GGAAGAGGAG
* ** *
45631 AAAAAAAAAAGAAGTGAGGGGGAAAAAAGA
61 AAAAAAAAAAAAAAAGAGAGGGAAAAAAGA
45661 AAAGGGAAAACAAAAAGAAA
1 AAAGGGAAAA-AAAAAGAAA
45681 AAGAAAAGAG
Statistics
Matches: 99, Mismatches: 7, Indels: 21
0.78 0.06 0.17
Matches are distributed among these distances:
91 5 0.05
92 9 0.09
94 17 0.17
95 22 0.22
96 10 0.10
97 20 0.20
98 8 0.08
99 8 0.08
ACGTcount: A:0.71, C:0.01, G:0.27, T:0.01
Consensus pattern (90 bp):
AAAGGGAAAAAAAAAGAAAGAAAGGAAAAGGAAAAAAGAAAAAAGAAAAAGGAAGAGGAGAAAAA
AAAAAAAAAAGAGAGGGAAAAAAGA
Found at i:45612 original size:30 final size:27
Alignment explanation
Indices: 45576--45643 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
45566 AAAGGAAAAG
*
45576 AAAAAAAAAGAAAGAAAGGAATAGGAAA
1 AAAAAAAAAGAAA-AAAGGAAGAGGAAA
* * *
45604 ACAGAAAAAAGAAAAAGGGAAGAGGAGA
1 A-AAAAAAAAGAAAAAAGGAAGAGGAAA
45632 AAAAAAAAAGAA
1 AAAAAAAAAGAA
45644 GTGAGGGGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 10 0.29
28 13 0.38
29 11 0.32
ACGTcount: A:0.74, C:0.01, G:0.24, T:0.01
Consensus pattern (27 bp):
AAAAAAAAAGAAAAAAGGAAGAGGAAA
Found at i:45624 original size:28 final size:28
Alignment explanation
Indices: 45576--45643 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
45566 AAAGGAAAAG
*
45576 AAAAAAAAAGAAAGAAAGGAATAGGA-A
1 AAAAAAAAAGAAAGAAAGGAAGAGGAGA
*
45603 AACAGAAAAAAGAAA-AAGGGAAGAGGAGA
1 AA-A-AAAAAAGAAAGAAAGGAAGAGGAGA
45632 AAAAAAAAAGAA
1 AAAAAAAAAGAA
45644 GTGAGGGGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
27 11 0.31
28 12 0.33
29 13 0.36
ACGTcount: A:0.74, C:0.01, G:0.24, T:0.01
Consensus pattern (28 bp):
AAAAAAAAAGAAAGAAAGGAAGAGGAGA
Found at i:45636 original size:23 final size:22
Alignment explanation
Indices: 45606--45668 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 22
45596 ATAGGAAAAC
45606 AGAAAAAAGAAAAAGGGAAGAGG
1 AGAAAAAAGAAAAAGGGAAG-GG
* *
45629 AGAAAAAAAAAAGAAGTG-AGGG
1 AGAAAAAAGAAA-AAGGGAAGGG
*
45651 GGAAAAAAG-AAAAGGGAA
1 AGAAAAAAGAAAAAGGGAA
45669 AACAAAAAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
20 4 0.12
21 3 0.09
22 9 0.27
23 13 0.39
24 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (22 bp):
AGAAAAAAGAAAAAGGGAAGGG
Found at i:45640 original size:72 final size:67
Alignment explanation
Indices: 45498--45643 Score: 167
Period size: 71 Copynumber: 2.1 Consensus size: 67
45488 AAAGAAGAGG
*
45498 AAAAGAGAAAAAAAAGAAAAAAAAAAAGAAGAGGAGAAAAGAAAAAAAAAAAGCAGAGGGAGAAA
1 AAAAGAGAAAAAAAAGAAAAAAAAAAAGAAGAGGAGAAAAGAAAAAAAAAAAGAAGAGGGAGAAA
45563 AA
66 AA
*
45565 AAAAG-GAAAAGAAAA-AAAAAGAAAGAAAGGAATAGGA-AAACAGAAAAAAGAAAAAGGGAAGA
1 AAAAGAGAAAA-AAAAGAAAAA-AAA-AAA-GAAGAGGAGAAA-AGAAAAAA-AAAAA--GAAGA
45627 -GGAGAAAAA
58 GGGAGAAAAA
45636 AAAA-AGAA
1 AAAAGAGAA
45644 GTGAGGGGGA
Statistics
Matches: 68, Mismatches: 2, Indels: 14
0.81 0.02 0.17
Matches are distributed among these distances:
66 10 0.15
67 12 0.18
68 6 0.09
69 15 0.22
70 5 0.07
71 16 0.24
72 4 0.06
ACGTcount: A:0.75, C:0.01, G:0.23, T:0.01
Consensus pattern (67 bp):
AAAAGAGAAAAAAAAGAAAAAAAAAAAGAAGAGGAGAAAAGAAAAAAAAAAAGAAGAGGGAGAAA
AA
Found at i:45640 original size:94 final size:97
Alignment explanation
Indices: 45507--45686 Score: 221
Period size: 94 Copynumber: 1.9 Consensus size: 97
45497 GAAAAGAGAA
45507 AAAAAAGAAAAAAAAAAAGAAGAGGAGAAAAGAAAAAAAAAAAGCAGAGGGAG-AAAAA-AAAA-
1 AAAAAAGAAAAAAAAAAAGAAGAGGAG-AAAGAAAAAAAAAAAG-AGAGGGAGAAAAAAGAAAAG
*
45569 GGAAAA-GAAAA-AAAAAGAAAGAAAGGAATAGG
64 GGAAAACAAAAAGAAAAAGAAAGAAAGGAATAGG
* * * *
45601 AAAACAGAAAAAAGAAAAAGGGAAGAGGAG-AA-AAAAAAAAGAAGTGAGGGGGAAAAAAGAAAA
1 AAAAAAGAAAAAA-AAAAA--GAAGAGGAGAAAGAAAAAAAAAAAGAGAGGGAGAAAAAAGAAAA
45664 GGGAAAACAAAAAGAAAAAGAAA
63 GGGAAAACAAAAAGAAAAAGAAA
45687 AGAGGGAAGG
Statistics
Matches: 73, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
93 6 0.08
94 28 0.38
95 11 0.15
96 6 0.08
97 13 0.18
98 9 0.12
ACGTcount: A:0.72, C:0.02, G:0.25, T:0.01
Consensus pattern (97 bp):
AAAAAAGAAAAAAAAAAAGAAGAGGAGAAAGAAAAAAAAAAAGAGAGGGAGAAAAAAGAAAAGGG
AAAACAAAAAGAAAAAGAAAGAAAGGAATAGG
Found at i:45716 original size:22 final size:21
Alignment explanation
Indices: 45684--45733 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
45674 AAAGAAAAAG
45684 AAAAGAG-GGAAGGAAGAAGGA
1 AAAAGAGAGGAAGGAAG-AGGA
*
45705 AAAAGAGAGGAAGGAAGGGGA
1 AAAAGAGAGGAAGGAAGAGGA
45726 AAAAGAGA
1 AAAAGAGA
45734 AAAAAGGGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (21 bp):
AAAAGAGAGGAAGGAAGAGGA
Found at i:45732 original size:19 final size:19
Alignment explanation
Indices: 45684--45747 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 19
45674 AAAGAAAAAG
*
45684 AAAAGAGGGAAGGAAGAAGGAA
1 AAAAGA-GGAAGGAAG--GGGA
45706 AAAGAGAGGAAGGAAGGGGA
1 AAA-AGAGGAAGGAAGGGGA
**
45726 AAAAGA-GAAAAAAGGGGA
1 AAAAGAGGAAGGAAGGGGA
45744 AAAA
1 AAAA
45748 AAGAGGAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 14 0.37
19 3 0.08
20 6 0.16
22 12 0.32
23 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (19 bp):
AAAAGAGGAAGGAAGGGGA
Found at i:45760 original size:12 final size:11
Alignment explanation
Indices: 45725--45766 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
45715 AAGGAAGGGG
45725 AAAAAGA-G-A
1 AAAAAGAGGAA
*
45734 AAAAAGGGGAA
1 AAAAAGAGGAA
45745 AAAAAGAGGAA
1 AAAAAGAGGAA
45756 GAAAAAGAGGA
1 -AAAAAGAGGA
45767 GAGGAGAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 6 0.21
10 1 0.04
11 11 0.39
12 10 0.36
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (11 bp):
AAAAAGAGGAA
Found at i:45771 original size:17 final size:18
Alignment explanation
Indices: 45748--45815 Score: 53
Period size: 17 Copynumber: 4.1 Consensus size: 18
45738 AGGGGAAAAA
45748 AAGAGGAAGAAAAAGAGG
1 AAGAGGAAGAAAAAGAGG
45766 -AGAGG-AGAAAGAAG-GG
1 AAGAGGAAGAAA-AAGAGG
*
45782 AAGAGTAA-AAAAAGA--
1 AAGAGGAAGAAAAAGAGG
45797 AAGAAGG-AG-AAAAGAGG
1 AAG-AGGAAGAAAAAGAGG
45814 AA
1 AA
45816 AAAGAGAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 17
0.68 0.03 0.29
Matches are distributed among these distances:
15 10 0.25
16 12 0.30
17 17 0.43
18 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.37, T:0.01
Consensus pattern (18 bp):
AAGAGGAAGAAAAAGAGG
Found at i:45827 original size:14 final size:14
Alignment explanation
Indices: 45741--45831 Score: 51
Period size: 14 Copynumber: 6.4 Consensus size: 14
45731 AGAAAAAAGG
* *
45741 GGAAAAAAAGAGGA
1 GGAAAAAGAGAAGA
* *
45755 AGAAAAAGAGGAGA
1 GGAAAAAGAGAAGA
*
45769 GGAGAAAGAAGGGAAGA
1 -G-GAAA-AAGAGAAGA
* *
45786 GTAAAAAAAGAA-A
1 GGAAAAAGAGAAGA
** *
45799 -GAAGGAGAAAAGA
1 GGAAAAAGAGAAGA
45812 GGAAAAAGAGAAGA
1 GGAAAAAGAGAAGA
45826 GGAAAA
1 GGAAAA
45832 GAAAAAAAAA
Statistics
Matches: 54, Mismatches: 18, Indels: 10
0.66 0.22 0.12
Matches are distributed among these distances:
12 6 0.11
13 2 0.04
14 31 0.57
15 3 0.06
16 5 0.09
17 7 0.13
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.01
Consensus pattern (14 bp):
GGAAAAAGAGAAGA
Found at i:45851 original size:43 final size:46
Alignment explanation
Indices: 45743--45906 Score: 135
Period size: 46 Copynumber: 3.6 Consensus size: 46
45733 AAAAAAGGGG
* * * *
45743 AAAAAAAGAGGAAGAAAAAGAGGAGAGGAGAA-AGAAG-GGAAGAGTAAA
1 AAAAAAAGAAGAAGAAAAGGAGG-GA--AAAAGAGAAGAGGAAAAG-AAA
*
45791 AAAAGAAAGAAGGAGAAAA-GA-GGAAAAAGAGAAGAGGAAAAGAAA
1 AAAA-AAAGAAGAAGAAAAGGAGGGAAAAAGAGAAGAGGAAAAGAAA
* * * *
45836 AAAAAAA-AAGAAGAAAAGGAGGGGAAAAAGAAAAAAGGAGAAGGAA
1 AAAAAAAGAAGAAGAAAAGGA-GGGAAAAAGAGAAGAGGAAAAGAAA
*
45882 AAAAAAAGAA-AA-AAAGGGAGGGAAA
1 AAAAAAAGAAGAAGAAAAGGAGGGAAA
45907 GGAAAAAAGA
Statistics
Matches: 99, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
43 9 0.09
44 14 0.14
45 18 0.18
46 37 0.37
47 3 0.03
48 6 0.06
49 12 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.01
Consensus pattern (46 bp):
AAAAAAAGAAGAAGAAAAGGAGGGAAAAAGAGAAGAGGAAAAGAAA
Found at i:45862 original size:46 final size:44
Alignment explanation
Indices: 45743--45973 Score: 132
Period size: 43 Copynumber: 5.1 Consensus size: 44
45733 AAAAAAGGGG
* *
45743 AAAAAAAGAGGAAGAAAAAGAGGAGAGGAGAA-AGAAG-GGAAGAGTAAA
1 AAAAAAAGAAGAAG-AAAAGAGGA-A--A-AAGAGAAGAGGAAAAG-AAA
*
45791 AAAAGAAAGAAGGAGAAAAGAGGAAAAAGAGAAGAGGAAAAGAAA
1 AAAA-AAAGAAGAAGAAAAGAGGAAAAAGAGAAGAGGAAAAGAAA
* * * *
45836 AAAAAAA-AAGAAGAAAAGGAGGGGAAAAAGAAAAAAGGAGAAGGAA
1 AAAAAAAGAAGAAGAAAA-GA--GGAAAAAGAGAAGAGGAAAAGAAA
* * * * * * **
45882 AAAAAAAGAA-AA-AAAGGGAGGGAAAGGAAAAAAGAAAAAGAGG
1 AAAAAAAGAAGAAGAAA-AGAGGAAAAAGAGAAGAGGAAAAGAAA
* ** * * *
45925 AAAAAAGGGGGAAAAAAAGAGAAAAAAGAGAAAAGG-AAAGAAA
1 AAAAAAAGAAGAAGAAAAGAGGAAAAAGAGAAGAGGAAAAGAAA
45968 AAAAAA
1 AAAAAA
45974 GGGGAAGGGA
Statistics
Matches: 146, Mismatches: 27, Indels: 25
0.74 0.14 0.13
Matches are distributed among these distances:
43 44 0.30
44 22 0.15
45 21 0.14
46 35 0.24
47 3 0.02
48 13 0.09
49 8 0.05
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.00
Consensus pattern (44 bp):
AAAAAAAGAAGAAGAAAAGAGGAAAAAGAGAAGAGGAAAAGAAA
Found at i:45863 original size:24 final size:24
Alignment explanation
Indices: 45836--45925 Score: 84
Period size: 24 Copynumber: 3.8 Consensus size: 24
45826 GGAAAAGAAA
45836 AAAAAAAAAGAAGAAAAGGAG-GGG
1 AAAAAAAAAGAA-AAAAGGAGAGGG
*
45860 ----AAAAAGAAAAAAGGAGAAGG
1 AAAAAAAAAGAAAAAAGGAGAGGG
45880 AAAAAAAAAGAAAAAAAGG-GAGGG
1 AAAAAAAAAG-AAAAAAGGAGAGGG
45904 AAAGGAAAAAAGAAAAAGAGGA
1 AAA--AAAAAAGAAAAA-AGGA
45926 AAAAAGGGGG
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
19 8 0.15
20 10 0.19
24 13 0.24
25 13 0.24
26 10 0.19
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAGAAAAAAGGAGAGGG
Found at i:45871 original size:19 final size:20
Alignment explanation
Indices: 45840--45888 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
45830 AAGAAAAAAA
*
45840 AAAAAGAAGAAAAGGAG-GGG
1 AAAAAGAA-AAAAGGAGAAGG
45860 AAAAAGAAAAAAGGAGAAGG
1 AAAAAGAAAAAAGGAGAAGG
45880 AAAAA-AAAA
1 AAAAAGAAAA
45889 GAAAAAAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAGGAGAAGG
Found at i:45929 original size:44 final size:44
Alignment explanation
Indices: 45836--45930 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 44
45826 GGAAAAGAAA
* * *
45836 AAAAAAAAAGAAGAAAAGGAGGGGAAAAAGAAAAAAGGAGAAGG
1 AAAAAAAAAGAAAAAAAGGAGGGGAAAAAGAAAAAAGAAAAAGG
*
45880 AAAAAAAAAGAAAAAAAGG-GAGGG-AAAGGAAAAAAGAAAAAGAG
1 AAAAAAAAAGAAAAAAAGGAG-GGGAAAAAGAAAAAAGAAAAAG-G
*
45924 GAAAAAA
1 AAAAAAA
45931 GGGGGAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
43 16 0.36
44 28 0.64
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (44 bp):
AAAAAAAAAGAAAAAAAGGAGGGGAAAAAGAAAAAAGAAAAAGG
Found at i:45931 original size:24 final size:24
Alignment explanation
Indices: 45789--45932 Score: 63
Period size: 26 Copynumber: 6.0 Consensus size: 24
45779 GGGAAGAGTA
*
45789 AAAAAAGAAAGAAG-GAGAAAAGAGG
1 AAAAAAGAAA-AAGAG-GAAAAAAGG
*
45814 -AAAAAG-AGAAGAGG--AAAA-G
1 AAAAAAGAAAAAGAGGAAAAAAGG
* * *
45833 AAAAAAAAAAAAGAAGAAAAGGAGGG
1 AAAAAAGAAAAAGAGGAAAA--AAGG
*
45859 GAAAAAGAAAAA-AGGAGAAGGAAA--
1 AAAAAAGAAAAAGAGGA-AA--AAAGG
* **
45883 AAAAAAGAAAAAAAGGGAGGGAAAGG
1 AAAAAAGAAAAAGA-GGA-AAAAAGG
45909 AAAAAAGAAAAAGAGGAAAAAAGG
1 AAAAAAGAAAAAGAGGAAAAAAGG
45933 GGGAAAAAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 31
0.65 0.12 0.23
Matches are distributed among these distances:
19 1 0.01
20 8 0.09
21 6 0.07
22 4 0.05
23 4 0.05
24 25 0.28
25 8 0.09
26 31 0.35
28 1 0.01
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (24 bp):
AAAAAAGAAAAAGAGGAAAAAAGG
Found at i:46009 original size:22 final size:21
Alignment explanation
Indices: 45984--46030 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
45974 GGGGAAGGGA
*
45984 AAAAAAGGGAAAGGAAAAAAAG
1 AAAAAAGAGAAA-GAAAAAAAG
*
46006 AAAAAAGAGAGAGAAAAAAAG
1 AAAAAAGAGAAAGAAAAAAAG
46027 AAAA
1 AAAA
46031 GGAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (21 bp):
AAAAAAGAGAAAGAAAAAAAG
Found at i:46035 original size:14 final size:14
Alignment explanation
Indices: 45936--46061 Score: 67
Period size: 17 Copynumber: 8.5 Consensus size: 14
45926 AAAAAGGGGG
45936 AAAAAAAGAGAAAAA
1 AAAAAAAG-GAAAAA
*
45951 AGAGAAAAGGAAAGAA
1 A-AAAAAAGGAAA-AA
**
45967 AAAAAAAGGGGAAGGGA
1 AAAAAAA--GGAA-AAA
* **
45984 AAAAAAGGGAAAGG
1 AAAAAAAGGAAAAA
45998 AAAAAAA-GAAAAA
1 AAAAAAAGGAAAAA
* * *
46011 AGAGAGA-GAAAAA
1 AAAAAAAGGAAAAA
*
46024 AAGAAAAGGAAAAA
1 AAAAAAAGGAAAAA
46038 AAAAAAAGGGGAGAAAA
1 AAAAAAA--GGA-AAAA
46055 AAAAAAA
1 AAAAAAA
46062 AGAGAAAGAA
Statistics
Matches: 84, Mismatches: 18, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
13 17 0.20
14 19 0.23
15 14 0.17
16 12 0.14
17 22 0.26
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (14 bp):
AAAAAAAGGAAAAA
Found at i:46066 original size:15 final size:15
Alignment explanation
Indices: 45936--46068 Score: 72
Period size: 15 Copynumber: 7.9 Consensus size: 15
45926 AAAAAGGGGG
45936 AAAAAAAGAGAAAAA
1 AAAAAAAGAGAAAAA
*
45951 AGAGAAAAG-GAAAGAA
1 A-AAAAAAGAGAAA-AA
*
45967 AAAAAAAGGGGAAGGGAAA
1 AAAAAAA-GAGAA---AAA
*
45986 AAAAGGGAAAGGAAAAAAA
1 AAAA---AAA-GAGAAAAA
46005 GAAAAAAGAGAGAGAAAA
1 -AAAAAA-AGAGA-AAAA
46023 AAAGAAAAG-GAAAAA
1 AAA-AAAAGAGAAAAA
46038 AAAAAAAGGGGAGAAAAA
1 AAAAAAA---GAGAAAAA
46056 AAAAAAAGAGAAA
1 AAAAAAAGAGAAA
46069 GAAAGGGAGA
Statistics
Matches: 95, Mismatches: 5, Indels: 36
0.70 0.04 0.26
Matches are distributed among these distances:
14 4 0.04
15 23 0.24
16 12 0.13
17 14 0.15
18 21 0.22
19 9 0.09
20 5 0.05
22 7 0.07
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAGAAAAA
Found at i:46094 original size:9 final size:9
Alignment explanation
Indices: 46080--46106 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
46070 AAAGGGAGAG
46080 GAAGGAAAA
1 GAAGGAAAA
46089 GAAGGAAAA
1 GAAGGAAAA
46098 GAAGGAAAA
1 GAAGGAAAA
46107 AATAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (9 bp):
GAAGGAAAA
Found at i:46216 original size:17 final size:17
Alignment explanation
Indices: 46143--46357 Score: 86
Period size: 17 Copynumber: 12.1 Consensus size: 17
46133 GAGGGGGAAG
*
46143 AGAGGAAAA-AAAAAAA
1 AGAGAAAAAGAAAAAAA
46159 A-A-AAAAAG-AAAAAA
1 AGAGAAAAAGAAAAAAA
46173 AGAGGAAGAAAGAAAGAAGAA
1 AGA-GAA-AAAGAAA-AA-AA
**
46194 AGAGAGGGGAAGAAAAAAA
1 AGAGA--AAAAGAAAAAAA
46213 AGAGAAAAAGAAAAAAA
1 AGAGAAAAAGAAAAAAA
46230 AGAAGGAGGGAAAAGGAAAAAGAA
1 AG-A-GA---AAAA-GAAAAA-AA
*
46254 AGGGAAAAAGGAAAAAAA
1 AGAGAAAAA-GAAAAAAA
*
46272 A-A-AAAAA-AAAGAAA
1 AGAGAAAAAGAAAAAAA
* *
46286 GGGGAAAAAGAAAAAGAAGA
1 AGAGAAAAAG-AAAA-AA-A
** * **
46306 AGAGAAGGGAGGAGGAAA
1 AGAGAA-AAAGAAAAAAA
*
46324 AGAGAAAAAGGAAAAAA
1 AGAGAAAAAGAAAAAAA
*
46341 AGGGAAAAA-AAAAAAA
1 AGAGAAAAAGAAAAAAA
46357 A
1 A
46358 AAAGGAGGAA
Statistics
Matches: 151, Mismatches: 24, Indels: 48
0.68 0.11 0.22
Matches are distributed among these distances:
14 17 0.11
15 2 0.01
16 18 0.12
17 29 0.19
18 18 0.12
19 26 0.17
20 12 0.08
21 13 0.09
22 6 0.04
23 6 0.04
24 4 0.03
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (17 bp):
AGAGAAAAAGAAAAAAA
Found at i:46218 original size:25 final size:25
Alignment explanation
Indices: 46156--46221 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
46146 GGAAAAAAAA
*
46156 AAAAAAAAAAGAAAAAAAGAGGAAG
1 AAAAAAAAGAGAAAAAAAGAGGAAG
* * * *
46181 -AAAGAAAGAAGAAAGAGAGGGGAAG
1 AAAAAAAAG-AGAAAAAAAGAGGAAG
46206 AAAAAAAAGAGAAAAA
1 AAAAAAAAGAGAAAAA
46222 GAAAAAAAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
24 6 0.19
25 19 0.59
26 7 0.22
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (25 bp):
AAAAAAAAGAGAAAAAAAGAGGAAG
Found at i:46220 original size:9 final size:9
Alignment explanation
Indices: 46203--46473 Score: 52
Period size: 9 Copynumber: 28.2 Consensus size: 9
46193 AAGAGAGGGG
46203 AAGAAAAAA
1 AAGAAAAAA
*
46212 AAG-AGAAA
1 AAGAAAAAA
46220 AAGAAAAAA
1 AAGAAAAAA
46229 AAGAAGGAGGGAAA
1 AAGAA--A---AAA
*
46243 AGGAAAAAGA
1 AAGAAAAA-A
**
46253 AAGGGAAAA
1 AAGAAAAAA
*
46262 AGGAAAAAA
1 AAGAAAAAA
*
46271 AAAAAAAAA
1 AAGAAAAAA
46280 AAGAAAGGGGAAA
1 AAGAAA----AAA
*
46293 AAGAAAAAG
1 AAGAAAAAA
*
46302 AAGAAGAGAAGG
1 AAGAA-A-AA-A
* * **
46314 GAGGAGGAA
1 AAGAAAAAA
*
46323 AAGAGAAAA
1 AAGAAAAAA
*
46332 AGGAAAAAA
1 AAGAAAAAA
*
46341 AGGGAAAAAA
1 A-AGAAAAAA
46351 AA-AAAAAA
1 AAGAAAAAA
**
46359 AAGGAGGAAA
1 AA-GAAAAAA
*
46369 AA-AAAAGA
1 AAGAAAAAA
** **
46377 GGGGGAAAA
1 AAGAAAAAA
46386 AAGAAAAAA
1 AAGAAAAAA
46395 AA-AAAGAAA
1 AAGAAA-AAA
*
46404 AGGGGTAAAAAA
1 A--AG-AAAAAA
46416 AAGAAAAAA
1 AAGAAAAAA
* *
46425 AA-AAGGGAGA
1 AAGAA--AAAA
46435 AAGAAAGAAA
1 AAGAAA-AAA
46445 AA-AAAAAA
1 AAGAAAAAA
46453 GAA-AAAAAA
1 -AAGAAAAAA
46462 AAGAGAAAAA
1 AAGA-AAAAA
46472 AA
1 AA
46474 AAAGAGGGGA
Statistics
Matches: 186, Mismatches: 46, Indels: 59
0.64 0.16 0.20
Matches are distributed among these distances:
8 28 0.15
9 86 0.46
10 39 0.21
11 5 0.03
12 9 0.05
13 12 0.06
14 7 0.04
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:46249 original size:20 final size:19
Alignment explanation
Indices: 46226--46303 Score: 66
Period size: 19 Copynumber: 4.4 Consensus size: 19
46216 GAAAAAGAAA
46226 AAAAAGAAGGAGGG-AAAAGG
1 AAAAAGAA--AGGGAAAAAGG
46246 AAAAAGAAAGGGAAAAAGG
1 AAAAAGAAAGGGAAAAAGG
46265 -AAAA-AAA---AAAAA--
1 AAAAAGAAAGGGAAAAAGG
46277 AAAAAGAAAGGGGAAAAA-G
1 AAAAAGAAA-GGGAAAAAGG
46296 AAAAAGAA
1 AAAAAGAA
46304 GAAGAGAAGG
Statistics
Matches: 50, Mismatches: 0, Indels: 17
0.75 0.00 0.25
Matches are distributed among these distances:
13 4 0.08
14 8 0.16
17 3 0.06
18 13 0.26
19 14 0.28
20 8 0.16
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAGGGAAAAAGG
Found at i:46262 original size:50 final size:50
Alignment explanation
Indices: 46146--46303 Score: 140
Period size: 50 Copynumber: 3.0 Consensus size: 50
46136 GGGGAAGAGA
* *
46146 GGAAAAAA-AAAAAAAAAAAAGAAAAA-AAGAGGAAGAAAGAAAGAAGAAAGAGAGG
1 GGAAAAAAGAAAAAAAAAAAA-AAAAAGAA-AGG--GGAA-AAAGAA-AAAGA-AAG
* * *
46201 GGAAGAAAAAAAAGAGAAAAAGAAAAAAAAGAAGGAGGGAAAAGGAAAAAGAAAG
1 GGAA-AAAAGAAA-A-AAAAA-AAAAAAAAGAAAG-GGGAAAAAGAAAAAGAAAG
*
46256 GGAAAAAGGAAAAAAAAAAAAAAAAAGAAAGGGGAAAAAGAAAAAGAA
1 GGAAAAAAGAAAAAAAAAAAAAAAAAGAAAGGGGAAAAAGAAAAAGAA
46304 GAAGAGAAGG
Statistics
Matches: 88, Mismatches: 8, Indels: 19
0.77 0.07 0.17
Matches are distributed among these distances:
50 16 0.18
51 12 0.14
52 5 0.06
53 1 0.01
54 6 0.07
55 10 0.11
56 9 0.10
57 8 0.09
58 4 0.05
59 11 0.12
60 6 0.07
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (50 bp):
GGAAAAAAGAAAAAAAAAAAAAAAAAGAAAGGGGAAAAAGAAAAAGAAAG
Found at i:46317 original size:79 final size:80
Alignment explanation
Indices: 46210--46361 Score: 197
Period size: 79 Copynumber: 1.9 Consensus size: 80
46200 GGGAAGAAAA
46210 AAAAGAGAAAAAGAAAAAAAAGAAGGA-G-GGAAAAG-GAAAAAGAAAGGGAAAAAGGAAAAAAA
1 AAAAGAGAAAAAGAAAAAAAAGAAGGAGGAGGAAAAGAGAAAAAGAAA---AAAAAGGAAAAAAA
46272 AAAAAAAAAAGAAAGGGG
63 AAAAAAAAAAGAAAGGGG
* * * *
46290 AAAA-AGAAAAAG-AAGAAGAGAAGGGAGGAGGAAAAGAGAAAAAGGAAAAAAAGGGAAAAAAAA
1 AAAAGAGAAAAAGAAAAAAAAGAA-GGAGGAGGAAAAGAGAAAAAGAAAAAAAAGGAAAAAAAAA
46353 AAAAAAAAG
65 AAAAAAAAG
46362 GAGGAAAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
78 8 0.12
79 35 0.55
80 5 0.08
81 7 0.11
82 9 0.14
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (80 bp):
AAAAGAGAAAAAGAAAAAAAAGAAGGAGGAGGAAAAGAGAAAAAGAAAAAAAAGGAAAAAAAAAA
AAAAAAAGAAAGGGG
Found at i:46344 original size:30 final size:27
Alignment explanation
Indices: 46263--46345 Score: 80
Period size: 30 Copynumber: 2.9 Consensus size: 27
46253 AAGGGAAAAA
**
46263 GGAAAAA-AAAAA-AAAAAAAGAAAGG
1 GGAAAAAGAAAAAGAAAAAAAGGGAGG
46288 GGAAAAAGAAAAAGAAGAAGAGAAGGGAGG
1 GGAAAAAGAAAAAGAA-AA-A-AAGGGAGG
46318 AGGAAAAGAGAAAAAGGAAAAAAAGGGA
1 -GGAAAA-AGAAAAA-GAAAAAAAGGGA
46346 AAAAAAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
25 7 0.15
26 5 0.10
27 2 0.04
28 2 0.04
29 1 0.02
30 12 0.25
31 7 0.15
32 9 0.19
33 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (27 bp):
GGAAAAAGAAAAAGAAAAAAAGGGAGG
Found at i:46364 original size:45 final size:43
Alignment explanation
Indices: 46315--46732 Score: 153
Period size: 44 Copynumber: 9.6 Consensus size: 43
46305 AAGAGAAGGG
46315 AGGAGGAAAAGAGAAAAAGGAAAAAAAGGGAAAAAAAAAAAAAAA
1 AGGAGGAAAA-A-AAAAAGGAAAAAAAGGGAAAAAAAAAAAAAAA
* *
46360 AGGAGGAAAAAAAAAGAGGGGGAAAAAA--GAAAAAAAAAAAGAAA
1 AGGAGGAAAAAAAAA-A--GGAAAAAAAGGGAAAAAAAAAAAAAAA
*
46404 AGG-GGTAAAAAAAAGAA-AAAAAAAAGGGAGAAAGAAAGAAAAAAAA
1 AGGAGG-AAAAAAAA-AAGGAAAAAAAGGGA-AAA-AAA-AAAAAAAA
* ** ** * *
46450 A--AAGAAAAAAAAAAGAGAAAAAAAAAAGAGG-GGAAAGGAAAGAGA
1 AGGAGGAAAAAAAAAAG-G---AAAAAAAG-GGAAAAAAAAAAAAAAA
* ** * ** *
46495 GGGAGGAAAAAAGGGGAAGGAAAAAAGAAAGGGAAAAGAAAAGAAGGAG
1 AGGAGGAAAAAA--AAAAGG--AAAA-AAAGGGAAAA-AAAAAAAAAAA
* *
46544 GGGAAGGGGAAAAAAAAAGGAAAAAAAAGAAGGAAAAAAAAAAAAAAA
1 AGG-A-GGAAAAAAAAAAGG-AAAAAAAG--GGAAAAAAAAAAAAAAA
* * * * * **
46592 AGG-GGAAAAAGAAAGGGAGAAAAAGGGGGAAAAGAGGAAAAAA
1 AGGAGGAAAAAAAAAAGGA-AAAAAAGGGAAAAAAAAAAAAAAA
46635 A--A--AAAAAAAAAA-G-AAAAAA---AAAAAAAAAAAAAAA
1 AGGAGGAAAAAAAAAAGGAAAAAAAGGGAAAAAAAAAAAAAAA
*
46669 A--AGG-AAAAAAAAA--AAAAAAGGGAAGAAAAAAAAAAAAAGAA
1 AGGAGGAAAAAAAAAAGGAAAAAAAGG--GAAAAAAAAAAAAA-AA
*
46710 AAGAGGAAAAAAAAAA-GAAAAAA
1 AGGAGGAAAAAAAAAAGGAAAAAA
46733 GAAAAGAAAG
Statistics
Matches: 281, Mismatches: 49, Indels: 86
0.68 0.12 0.21
Matches are distributed among these distances:
34 13 0.05
35 14 0.05
37 5 0.02
39 1 0.00
40 21 0.07
41 9 0.03
43 27 0.10
44 50 0.18
45 43 0.15
46 18 0.06
47 21 0.07
48 28 0.10
49 23 0.08
50 1 0.00
51 7 0.02
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (43 bp):
AGGAGGAAAAAAAAAAGGAAAAAAAGGGAAAAAAAAAAAAAAA
Found at i:46369 original size:16 final size:16
Alignment explanation
Indices: 46350--46393 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
46340 AAGGGAAAAA
46350 AAAAAAAAAAAGGAGG
1 AAAAAAAAAAAGGAGG
* *
46366 AAAAAAAAAGAGGGGG
1 AAAAAAAAAAAGGAGG
46382 AAAAAAGAAAAA
1 AAAAAA-AAAAA
46394 AAAAAAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAGGAGG
Found at i:46393 original size:120 final size:118
Alignment explanation
Indices: 46207--46606 Score: 317
Period size: 119 Copynumber: 3.4 Consensus size: 118
46197 GAGGGGAAGA
* ** *
46207 AAAAAAAGAGAAAAAGAAAAAAAAGAAGGAGGGAAAAGGAAAAAGAAAGGGAAAAAGGAAAAAAA
1 AAAAAAAGAGAAAAAGAAAAAAAAAAAGGA-GGAAAA--AAAAAG--AGGGGGAAA--AAAGAAA
46272 AAAAAAAAAAGAAAGGGGAAAAAGAAAAAGAAGAAGAGAAGGGAGGAGGAAAAGAGAAAAAGG
59 AAAAAAAAAAGAAAGGGG-AAAAGAAAAAGAAGAAGAGAAGGGAGGAGG-AAAGA-AAAAAGG
*
46335 AAAAAAAGGGAAAAA-AAAAAAAAAAAGGAGGAAAAAAAAAGAGGGGGAAAAAAGAAAAAAAAAA
1 AAAAAAAGAGAAAAAGAAAAAAAAAAAGGAGGAAAAAAAAAGAGGGGGAAAAAAGAAAAAAAAAA
* * * * * * *
46399 AGA-AAAGGGGTAAA-AAAAAGAAAAAAAAAAGGGAGAAAGAAAGAAAAAA--
66 AAAGAAAGGGGAAAAGAAAAAGAAGAAGAGAAGGGAGGAGGAAAGAAAAAAGG
* * * * * ***
46448 AAAAAGAAAAAAAAAAGAGAAAAAAAAAAGAGGGGAAAGGAAAGAGAGGGAGGAAAAAAGGGGAA
1 AAAAA-AAGAGAAAAAGA-AAAAAAAAAAG-GAGGAAA-AAAAAAGAGGG-GGAAAAAAGAAAAA
**
46513 GGAAAAAAGAAA-GGGAAAAG-AAAAGAAG--GAG--GGGAAGG-GGAAA-AAAAAAGG
61 AAAAAAAAGAAAGGGGAAAAGAAAAAGAAGAAGAGAAGGG-AGGAGGAAAGAAAAAAGG
*
46564 AAAAAAAAGAAGGAAAAA-AAAAAAAAAAAGG-GGAAAAAGAAAG
1 -AAAAAAAG-A-GAAAAAGAAAAAAAAAAAGGAGGAAAAAAAAAG
46607 GGAGAAAAAG
Statistics
Matches: 223, Mismatches: 35, Indels: 43
0.74 0.12 0.14
Matches are distributed among these distances:
113 9 0.04
114 18 0.08
115 14 0.06
116 31 0.14
117 34 0.15
118 17 0.08
119 36 0.16
120 18 0.08
122 7 0.03
124 6 0.03
126 6 0.03
127 13 0.06
128 14 0.06
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.00
Consensus pattern (118 bp):
AAAAAAAGAGAAAAAGAAAAAAAAAAAGGAGGAAAAAAAAAGAGGGGGAAAAAAGAAAAAAAAAA
AAAGAAAGGGGAAAAGAAAAAGAAGAAGAGAAGGGAGGAGGAAAGAAAAAAGG
Found at i:46415 original size:16 final size:15
Alignment explanation
Indices: 46350--46415 Score: 50
Period size: 16 Copynumber: 4.4 Consensus size: 15
46340 AAGGGAAAAA
*
46350 AAAAAAAAAAAGGAGG
1 AAAAAAGAAAAGG-GG
46366 AAAAAA-AAAGAGGGGG
1 AAAAAAGAAA-A-GGGG
*
46382 AAAAAAGAAAA---A
1 AAAAAAGAAAAGGGG
46394 AAAAAAGAAAAGGGG
1 AAAAAAGAAAAGGGG
46409 TAAAAAA
1 -AAAAAA
46416 AAGAAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
12 11 0.27
15 3 0.07
16 22 0.54
17 5 0.12
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (15 bp):
AAAAAAGAAAAGGGG
Found at i:46442 original size:66 final size:66
Alignment explanation
Indices: 46345--46855 Score: 183
Period size: 65 Copynumber: 7.5 Consensus size: 66
46335 AAAAAAAGGG
* ****
46345 AAAAAAAAAAAAAAAAGGAGGAAAAAAAAAGAGGGGGAAAAAAGAAAAAAAAAA-AGAAAAGGGG
1 AAAAAAAAAAAAAAAAAGAGGAAAAAAAAAGA-AAAAAAAAAAGAAAAAAAAAAGAGAAAAGGGG
46409 TA
65 TA
* *
46411 AAAAAAAGAAAAAAAAAAG-GGAGAAAGAAAGAAAAAAAAAAAGAAAAAAAAAAGAGAAAA----
1 AAAAAAA-AAAAAAAAAAGAGGAAAAAAAAAGAAAAAAAAAAAGAAAAAAAAAAGAGAAAAGGGG
46471 -A
65 TA
* ** * **
46472 AAAAAGAGGGGAAAGGAAAGAGAGGGAGGAAAAAAGGGGAAGGAAAAAAGAAAGGGAAAAGAAAA
1 AAAAA-A----AAA--AAA-AAAAAGAGGAAAAAA----AAAGAAAAAA-AAAAAGAAAA-AAAA
**
46537 GAAGGAGGGGAAGGGG-A
52 -AA-GA-GAAAAGGGGTA
* * *
46554 AAAAAAAAGGAAAAAAAAGAAGGAAAAAAAAAAAAAAAAGGGGAAAAAGAAAGGGAGAAAAAGGG
1 AAAAAAAA-AAAAAAAAAG-AGGAAAAAAAAAGAAAAAA----AAAAAGAAA---A-AAAAA-AG
* *
46619 GGAAAAGAGG-A
55 AGAAAAGGGGTA
* *
46630 AAAAAAAAAAAAAAAAAGA-AAAAAAAAAAAAAAAAAAAAAAGGAAAAAAAAAA-A-AAAAGGGA
1 AAAAAAAAAAAAAAAAAGAGGAAAAAAAAAGAAAAAAAAAAA-GAAAAAAAAAAGAGAAAAGGG-
46692 AG-A
64 -GTA
* * * *
46695 AAAAAAAAAAAAGAAAAGAGG---AAAAAA-AAAAGAAAAAAG--AAAAGAAAG-G-AAAGGGGA
1 AAAAAAAAAAAAAAAAAGAGGAAAAAAAAAGAAAAAAAAAAAGAAAAAAAAAAGAGAAAAGGGGT
46752 A
66 A
* * * * *
46753 AGAAAAAAGGAAAAAAAAA-A-TAAAGAGAAAGAAAAAAAAAAA-AAAAAGAAAAAGGGAAAAGG
1 A-AAAAAA-AAAAAAAAAAGAGGAAAAAAAAAGAAAAAAAAAAAGAAAAA-AAAAAGAGAAAAGG
46815 GAG-A
63 G-GTA
**
46819 AAAGAAAAAAAAAGGGAAA-AGGAAAAAGAAAAGAAAA
1 AAA-AAAAAAAAA-AAAAAGAGGAAAAA-AAAAGAAAA
46856 GGAAAAGGGG
Statistics
Matches: 337, Mismatches: 52, Indels: 110
0.68 0.10 0.22
Matches are distributed among these distances:
57 1 0.00
58 2 0.01
59 20 0.06
60 8 0.02
61 11 0.03
62 21 0.06
63 15 0.04
64 5 0.01
65 46 0.14
66 46 0.14
67 19 0.06
68 11 0.03
69 11 0.03
70 4 0.01
72 8 0.02
73 25 0.07
74 9 0.03
75 24 0.07
76 29 0.09
77 6 0.02
78 9 0.03
81 1 0.00
82 6 0.02
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (66 bp):
AAAAAAAAAAAAAAAAAGAGGAAAAAAAAAGAAAAAAAAAAAGAAAAAAAAAAGAGAAAAGGGGT
A
Found at i:46478 original size:13 final size:13
Alignment explanation
Indices: 46351--46479 Score: 83
Period size: 12 Copynumber: 10.0 Consensus size: 13
46341 AGGGAAAAAA
46351 AAAAAAAAAAGGAG
1 AAAAAAAAAA-GAG
*
46365 GAAAAAAAAAGAG
1 AAAAAAAAAAGAG
****
46378 GGGGAAAAAAGA-
1 AAAAAAAAAAGAG
46390 AAAAAAAAAAGA-
1 AAAAAAAAAAGAG
46402 AAAGGGGTAAAAAAA-AG
1 AAA-----AAAAAAAGAG
46419 AAAAAAAAAAG-G
1 AAAAAAAAAAGAG
* * *
46431 -GAGAAAGAA-AG
1 AAAAAAAAAAGAG
46442 AAAAAAAAAA-AG
1 AAAAAAAAAAGAG
46454 AAAAAAAAAAGAG
1 AAAAAAAAAAGAG
46467 AAAAAAAAAAGAG
1 AAAAAAAAAAGAG
46480 GGGAAAGGAA
Statistics
Matches: 91, Mismatches: 14, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
11 7 0.08
12 37 0.41
13 27 0.30
14 9 0.10
16 1 0.01
17 10 0.11
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.01
Consensus pattern (13 bp):
AAAAAAAAAAGAG
Found at i:46511 original size:13 final size:14
Alignment explanation
Indices: 46472--46521 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
46462 AAGAGAAAAA
46472 AAAAAGAGGGGAAAGG
1 AAAAA-AGGGG-AAGG
*
46488 -AAAGAGAGGG-AGG
1 AAAAAAG-GGGAAGG
46501 AAAAAAGGGGAAGG
1 AAAAAAGGGGAAGG
46515 AAAAAAG
1 AAAAAAG
46522 AAAGGGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 6 0.21
14 17 0.59
15 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (14 bp):
AAAAAAGGGGAAGG
Found at i:46549 original size:36 final size:34
Alignment explanation
Indices: 46506--46577 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 34
46496 GGAGGAAAAA
46506 AGGGGAA-GGAAAAAAGAAAGGGAAAAGAAAAGAAGG
1 AGGGGAAGGGAAAAAA-AAA-GGAAAA-AAAAGAAGG
46542 AGGGGAAGGGGAAAAAAAAAGGAAAAAAAAGAAGG
1 AGGGGAA-GGGAAAAAAAAAGGAAAAAAAAGAAGG
46577 A
1 A
46578 AAAAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
35 10 0.29
36 13 0.38
37 3 0.09
38 8 0.24
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (34 bp):
AGGGGAAGGGAAAAAAAAAGGAAAAAAAAGAAGG
Found at i:46575 original size:26 final size:22
Alignment explanation
Indices: 46551--46799 Score: 114
Period size: 22 Copynumber: 10.8 Consensus size: 22
46541 GAGGGGAAGG
46551 GGAAAAAAAAAGGAAAAAAAAGAA
1 GGAAAAAAAAA--AAAAAAAAGAA
*
46575 GG-AAAAAAAAAAAAAAAAG-G
1 GGAAAAAAAAAAAAAAAAAGAA
** * **
46595 GGAAAAAGAAAGGGAGAAAAAGGG
1 GGAAAAA-AAA-AAAAAAAAAGAA
*
46619 GGAAAAGAGGAAAAAAAAAAAAAAAAAA
1 GG--AA-A--A-AAAAAAAAAAAAAGAA
* *
46647 GAAAAAAAAAAAAAAAAAAAAAAA
1 G--GAAAAAAAAAAAAAAAAAGAA
* *
46671 GG-AAAAAAAAAAAAAAAGGGA
1 GGAAAAAAAAAAAAAAAAAGAA
*
46692 AGAAAAAAAAAAAAAGAAAAG-A
1 GGAAAAAAAAAAAAA-AAAAGAA
*
46714 GGAAAAAAAAAAGAAAAAAGAAA
1 GGAAAAAAAAAAAAAAAAAG-AA
* *** *
46737 AGAAAGGAAAGGGGAAAGAAAA-AA
1 GGAAA--AAA-AAAAAAAAAAAGAA
* *
46761 GG-AAAAAAAAAATAAAGAGAA
1 GGAAAAAAAAAAAAAAAAAGAA
*
46782 AGAAAAAAAAAAAAAAAA
1 GGAAAAAAAAAAAAAAAA
46800 GAAAAAGGGA
Statistics
Matches: 169, Mismatches: 35, Indels: 44
0.68 0.14 0.18
Matches are distributed among these distances:
20 7 0.04
21 41 0.24
22 42 0.25
23 26 0.15
24 25 0.15
25 4 0.02
26 8 0.05
27 2 0.01
28 9 0.05
29 4 0.02
30 1 0.01
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (22 bp):
GGAAAAAAAAAAAAAAAAAGAA
Found at i:46633 original size:1 final size:1
Alignment explanation
Indices: 46629--46805 Score: 102
Period size: 1 Copynumber: 177.0 Consensus size: 1
46619 GGAAAAGAGG
* ** *** *
46629 AAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAGGAAAAAAAAAAAAAAAGGGAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * ** * * * ** **** *
46694 AAAAAAAAAAAAAGAAAAGAGGAAAAAAAAAAGAAAAAAGAAAAGAAAGGAAAGGGGAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * * * * *
46759 AAGGAAAAAAAAAATAAAGAGAAAGAAAAAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
46806 GGGAAAAGGG
Statistics
Matches: 138, Mismatches: 38, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 138 1.00
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (1 bp):
A
Found at i:46653 original size:96 final size:86
Alignment explanation
Indices: 46553--48520 Score: 247
Period size: 90 Copynumber: 21.7 Consensus size: 86
46543 GGGGAAGGGG
46553 AAAAAAAAAGGAAAAAAAAGAAGGAAAAAAAAAAAAAAAAGGGGAA-AAAGAAAGGGAGAAAAAG
1 AAAAAAAAAGGAAAAAAAA-AAGGAAAAAAAAAAAAAAAA-GGGAAGAAA-AAA---A-AAAAA-
*
46617 GGGGAAAAGAGGAAAAAAAAAAAAAAAAAAGAA
58 --AGAAAAGAGG-AAAAAAAAAAAAAAAAAG-A
**
46650 AAAAAAAAAAAAAAAAAAAAAGG-AAAAAAAAAAAAAAAGGGAAGAAAAAAAAAAAAAGAAAAGA
1 AAAAAAAAAGGAAAAAAAAAAGGAAAAAAAAAAAAAAAAGGGAAGAAAAAAAAAAAAAGAAAAGA
*
46714 GGAAAAAAAAAAGAAAAAAGA
66 GGAAAAAAAAAAAAAAAAAGA
* * *
46735 AAAGAAAGGAAAGGGGAAAGAAAAAAGGAAAAAAAAAATAAAGAGAA-AGAAAAAAAAAAAAAAA
1 AAA-AAA--AAA--GGAAAAAAAAAAGGAAAAAAAAAA-AAA-A-AAGGGAAGAAAAAAAAAAAA
* *** *
46799 AGAAAA-AGG---GAAAAGGGAGAAAAGA
58 AGAAAAGAGGAAAAAAAAAAAAAAAAAGA
* * * ** * *
46824 AAAAAAAAGGGAAAAGGAAAAA-G-AAAAGAAAAGGAAAAGGGGAGAAAAGAAGAAAAAAGAAAA
1 AAAAAAAAAGGAAAA-AAAAAAGGAAAAAAAAAAAAAAAAGGGAAGAAAA-AAAAAAAAAGAAAA
* * *
46887 -A--AAAAAAAGGGGAAAAAGAAGGA
64 GAGGAAAAAAA---AAAAAAAAAAGA
* *
46910 AAAGAAAAAGGAAAAAAAAGGAAGAAAGAAGAAAAAAAAAGGAAAGGGGGAA-AAAGAGGGAGAG
1 AAAAAAAAAGGAAAAAAAA--AAGGAA-AA-AAAAAAAAA--AAA--GGGAAGAAA-A---A-A-
* * *
46974 AAAAAAAGAGAAAGAAGAAGAGAAAAAAAAAAAAGGAA
52 AAAAAAAGA-AAAGAGGAA-AAAAAAAAAAAAAAAG-A
* ** * *
47012 AAGAAGGGCAGAAAAGGAAAGGAAAAAAGGGGGAAAGAAAAAGGATAAAA--GAAAAAAAAAAAA
1 AA-AA----A-AAAAGGAAA--AAAAAA--AGGAAA-AAAAAAAAAAAAAGGGAAGAAAAAAAAA
* *
47075 AAAAG-AAAGGGGAAAGAAAAAAAGAAAAAAAAAA
55 AAAAGAAAAGAGG-AA-AAAAAAA-AAAAAAAAGA
* * * ** ** *
47109 AAAAGGAAAAAAGAGAAAAAAAAGAAAAAAAAAAGAAAAAAAAGGG-AG-GGAAAAGGAAAAGGA
1 AAAA--AAAAAGGAAAAAAAAAAG-GAAAAAAAA-AAAAAAAAGGGAAGAAAAAAAAAAAAAGAA
**
47172 AAGAGGCAAAAAAAAAAAGAAAAGGGA
62 AAGAGG-AAAAAAAAAAA-AAAAAAGA
** ** * *** * * *
47199 AAGGAAAGGGGGAAAGGGAAGGGAGAAAAAAAAAAAAAAA-AGAAAATAAAAAGCAAAAAAAGGA
1 AAAAAAAAAGGAAAAAAAAAAGGA-AAAAAAAAAAAAAAAGGGAAGA-AAAAA--AAAAAAA-GA
** *
47263 AGAAGAAAAAAAGAGAGAAAAAAAAAAAAA
61 A-AAGAGGAAAA-A-A-AAAAAAAAAAAGA
** *
47293 AAGAAAAAGAAGGAAGGAAAAAGAACGGAAAAAAAAGAAAAAAAA-GG-A-AAAAAAAAGAAAAG
1 AA-AAAAA-AAGGAAAAAAA-A-AA-GGAAAAAAAA-AAAAAAAAGGGAAGAAAAAAAAAAAAAG
*
47355 AAAAG-GGAAAAGAGGGAAAGAAAAAAAAG-
60 AAAAGAGGAAAA-A---AAAAAAAAAAAAGA
** * ** * * *
47384 GGAAAAAAA--AAAAAAAAGA-GAAAAAAAGGAAAG-AAGGGAAG--AGAAAAA-CAA-AAAAG-
1 AAAAAAAAAGGAAAAAAAAAAGGAAAAAAAAAAAAAAAAGGGAAGAAAAAAAAAAAAAGAAAAGA
*
47440 GGAAAAAAAAAGGGAGAAAGGAAAGGA
66 GGAAAAAAAAA---A-AAA--AAAAGA
* * * * * * *
47467 AAAAAGAAAA-GAAAGAAAAAAGGGAAGAAAGAAAAAAGAAGGGAA-AAGAAAAAAAAGAG-GAA
1 AAAAA-AAAAGGAAA-AAAAAAAGGAAAAAAAAAAAAAAAAGGGAAGAAAAAAAAAAAAAGAAAA
* * *
47529 GA--AAAAAAAGAGAAAAGAGAGA
64 GAGGAAAAAAA-AAAAAAAAAAGA
* * * * *
47551 AAAAAGGAAA-GAAAAGGGAAAGGGAAGGAAAAAAAAAAGAAAGCAGGGGAGGAAAAAGGGGAGA
1 AAAAA-AAAAGGAAAA---AAA--AAAGGAAAAAAAAAA-AAA-AAAGGGAAGAAAAA----A-A
* ** * **
47615 GAAAAAA-AAAAAAGGGAAGGAGAGGAAAAAAAA-A
53 -AAAAAAGAAAAGA-GGAAAAAAAAAAAAAAAAAGA
* *** * * * ** *
47649 AAAAAAAAAGGAGAAGGAAAAAAA--AAGAAGGGAAAAAAGAGGGAAAGGAAAAAGAAAGGAGAG
1 AAAAAAAAAGGA-AA--AAAAAAAGGAAAAAAAAAAAAAAAAGGG-AAGAAAAAAAAAAAAAGAA
* *
47712 AAGAGAAAAGAAAAAAGAAAAAACAAGGG
62 AAGAGGAAA-AAAAAA-AAAAAA-AA-GA
**** ** *
47741 AAAGCGGAAGGAAAAAAAAAGAAAGGGGAAGAGGAAAAAAAAAAAAAAGAAAAGAGGAAAAAAAA
1 AAAAAAAAAGG--AAAAAAA-AAA--GG-A-A--AAAAAAAAAAAAAAGGGAAGA-AAAAAAAAA
* ** ** *
47806 AAAG--AA-AGGAAAAGAAAAGTAGGAGAGA
56 AAAGAAAAGAGGAAAAAAAAAAAAAAAAAGA
* * *
47834 AGAAAAAGAAA--AAAAAAAAAA-G-AAAAAAAAAAAAAAA--GAAG--AGAAAAAAAGAGGAAA
1 A-AAAAA-AAAGGAAAAAAAAAAGGAAAAAAAAAAAAAAAAGGGAAGAAAAAAAAAAAAAGAAAA
** *
47891 G-GGAAAAGGAGAAAAAAAAAGA
64 GAGGAAAAAAAAAAAAAAAAAGA
* * *
47913 AAAAAAAAA--AAAAAAAAAAGGGGGGGGAAAAAAAGAAAGGAAGAAGAGAAGAAAGAAAGGAAA
1 AAAAAAAAAGGAAAAAAAAAA------GGAAAAAAA-AAA-AAAAAAGGGAAG-AA-AAA--AAA
** *
47976 AGAAAAGGAAAA-AGG-GGAAAATAAAAAAAAA-A
54 A-AAAA-GAAAAGAGGAAAAAAAAAAAAAAAAAGA
* * * *
48008 AAAAAAAAAGGAAAAAAGAAGGGAAAAAGAGAAAAAAGAAGGGAGGGAGAGAAAAAAAAAAAA-A
1 AAAAAAAAAGGAAAAAAAAAAGGAAAAA-AAAAAAAAAAAGGGA---AGA-AAAAAAAAAAAAGA
48072 AAAGAGGGAAGAGGGAGAAAAAAAAAAAAAG-
61 AAAGA-GGAA-A---A-AAAAAAAAAAAAAGA
* * * ** ***
48103 AAAAGAAAA-GAAAAAAAAAA--AAAAAAAAAAAGAAAAAAGAAAGAGGAAACGAAAAGGGGAAA
1 AAAAAAAAAGGAAAAAAAAAAGGAAAAAAAAAAA-AAAAAGGGAAGA--AAAAAAAAAAAAG-AA
* *
48165 AAGAGGAGGAGAAAAAAAAAAAAAGA
62 AAGAGGA-AAAAAAAAAAAAAAAAGA
* * *
48191 AAAAAAGAA-GAAAAAAAGGAAAGAAAAAAAAAAAAAAAAAAAGGG-AGAAAAAAAAAAAAAAAA
1 AAAAAAAAAGGAAAAAAA--AAAG--GAAAAAAAAAAAAAAAAGGGAAG-AAAAAAAAAAAAAGA
***
48254 AAAGAGGAAAAAAAAAAAAAGGCA-A
61 AAAGAGGAAAAAAAAAAAAAAAAAGA
* * * * * ** *** *
48279 AAAAAAGAA-GAAAAGAAAAAAAGAGAAAAAAAAAGAAAGAGAGAAGGGAAAAGGGAAGAGAAAA
1 AAAAAAAAAGGAAAA-AAAAAAGGA-AAAAAAAAAAAAAAAGGGAAGAAAAAAAAAAAAAGAAAA
***
48343 G-GGAAAAAAAAAGAGGGAAAA-A
64 GAGGAAAAAAAAA-AAAAAAAAGA
* ** ** * * * *
48365 AAAAAAAAA-GAAGAGGATGAGG--AAAAGAAAAAATAAGGAGAAAAAAATAAAAAAGAAAAAAG
1 AAAAAAAAAGGAAAAAAAAAAGGAAAAAAAAAAAAAAAAGG-GAAGAAAA-AAAAAA-AAAGAA-
* *
48427 AAGGGGAAAAAAGGAAAGAAAAAAAGA
62 AAGAGGAAAAAA--AAAAAAAAAAAGA
*
48454 AAAGAAAAAAGCAAAAGAAAAAA--AAGAAAAAGAAAAAAAAAGAGG-AGAAAAAAAGAAAAAAG
1 AAA-AAAAAAGGAAAA-AAAAAAGGAA-AAAAA-AAAAAAAAAG-GGAAGAAAAAAA-AAAAAAG
48516 AAAAG
60 AAAAG
48521 CATAAGGAAG
Statistics
Matches: 1332, Mismatches: 322, Indels: 440
0.64 0.15 0.21
Matches are distributed among these distances:
76 3 0.00
77 23 0.02
78 5 0.00
79 19 0.01
80 19 0.01
81 11 0.01
82 54 0.04
83 29 0.02
84 31 0.02
85 41 0.03
86 101 0.08
87 79 0.06
88 81 0.06
89 85 0.06
90 107 0.08
91 89 0.07
92 73 0.05
93 79 0.06
94 70 0.05
95 71 0.05
96 41 0.03
97 64 0.05
98 39 0.03
99 33 0.02
100 27 0.02
101 11 0.01
102 3 0.00
103 7 0.01
104 7 0.01
107 4 0.00
108 10 0.01
109 7 0.01
110 9 0.01
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.00
Consensus pattern (86 bp):
AAAAAAAAAGGAAAAAAAAAAGGAAAAAAAAAAAAAAAAGGGAAGAAAAAAAAAAAAAGAAAAGA
GGAAAAAAAAAAAAAAAAAGA
Found at i:46676 original size:307 final size:309
Alignment explanation
Indices: 46148--46790 Score: 682
Period size: 307 Copynumber: 2.1 Consensus size: 309
46138 GGAAGAGAGG
* * *
46148 AAAAAAAAAAAAAA-A-AAAGAAAAAAAGAGGAAGAAA-GAAAGA-A--GA--AAGAGAGGGGAA
1 AAAAAAAAAAAAAAGAGAAAGAAAAAAAGAGG-GGAAAGGAAAGAGAGGGAGGAAAAAAGGGGAA
* ** * * *
46205 GAAAAAAAAGAGAAAAAGAAAAAAAAGAAGGAGGGAAAAGGAAAAAGAAAGGGAAAAAGGAAAAA
65 G--GAAAAA-AGAAAGGGAAAAAAAAGAAGGAGGGAAAAGGAAAAAAAAAGGAAAAAAAGAAAAA
* *
46270 AAAAAAAAAAAAGAAAGGGGAAAAAGAAAAAGAAGAAGAGAAGGGAGGAGGAAAAGAGAAAAAGG
127 AAAAAAAAAAAAGAAAGGGGAAAAAGAAAAAGAAGAAGAGAAGGGAAGAGGAAAAGAGAAAAAGA
** ** * **
46335 AAAAAAAGGGAAAAAAAAAAAAAAAAGGAGG-AAAAAAAAAGAGGGGGAAAAAAGAAAAAAAAAA
192 AAAAAAAGAAAAAAAAAAAAAAAAAAAAAGGAAAAAAAAAAAAAAGGG-AAAAA-AAAAAAAAAA
** **
46399 AGAAAAG-GGGTAAAAAAAAGAAAAAA-AAAAGGGA-GAAA-GAAAGAAAAAA-A
255 AGAAAAGAGGAAAAAAAAAAGAAAAAAGAAAAGAAAGGAAAGGAAAGAAAAAAGA
46449 AAAAGAAAAAAAAAAGAGAAA-AAAAAAAGAGGGGAAAGGAAAGAGAGGGAGGAAAAAAGGGGAA
1 AAAA-AAAAAAAAAAGAGAAAGAAAAAAAGAGGGGAAAGGAAAGAGAGGGAGGAAAAAAGGGGAA
** **
46513 GGAAAAAAGAAAGGGAAAAGAAAAGAAGGAGGGGAAGGGGAAAAAAAAAGGAAAAAAAAGAAGGA
65 GGAAAAAAGAAAGGGAAAA-AAAAGAAGGA-GGGAAAAGGAAAAAAAAAGG-AAAAAAAGAAAAA
* *
46578 AAAAAAAAAAAA-AAAGGGGAAAAAGAAAGGGAGAA-AA-AG-GGGGAAAAGAGGAAAA-A-AAA
127 AAAAAAAAAAAAGAAAGGGGAAAAAGAAA--AAGAAGAAGAGAAGGG--AAGAGGAAAAGAGAAA
*
46637 AA-AAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAGGAAAAAAAAAAAAAAAGGGAAGAAAAAAA
188 AAGAAAAAAAAG--AAAAAAAAAAAAAAAAAAAAAGG-AAAAAAAAAAAAAAGGGAAAAAAAAAA
*
46701 AAAAAAGAAAAGAGGAAAAAAAAAAGAAAAAAGAAAAGAAAGGAAAGGGGAAAGAAAAAAGG
250 AAAAAAGAAAAGAGGAAAAAAAAAAGAAAAAAGAAAAGAAAGGAAA--GGAAAGAAAAAAGA
*
46763 AAAAAAAAAATAAAGAGAAAGAAAAAAA
1 AAAAAAAAAAAAAAGAGAAAGAAAAAAA
46791 AAAAAAAAAG
Statistics
Matches: 283, Mismatches: 31, Indels: 43
0.79 0.09 0.12
Matches are distributed among these distances:
301 4 0.01
302 14 0.05
303 18 0.06
304 4 0.01
305 18 0.06
306 25 0.09
307 72 0.25
308 64 0.23
309 23 0.08
310 4 0.01
313 26 0.09
314 11 0.04
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (309 bp):
AAAAAAAAAAAAAAGAGAAAGAAAAAAAGAGGGGAAAGGAAAGAGAGGGAGGAAAAAAGGGGAAG
GAAAAAAGAAAGGGAAAAAAAAGAAGGAGGGAAAAGGAAAAAAAAAGGAAAAAAAGAAAAAAAAA
AAAAAAAAGAAAGGGGAAAAAGAAAAAGAAGAAGAGAAGGGAAGAGGAAAAGAGAAAAAGAAAAA
AAAGAAAAAAAAAAAAAAAAAAAAAGGAAAAAAAAAAAAAAGGGAAAAAAAAAAAAAAAAGAAAA
GAGGAAAAAAAAAAGAAAAAAGAAAAGAAAGGAAAGGAAAGAAAAAAGA
Found at i:46812 original size:7 final size:6
Alignment explanation
Indices: 46796--46863 Score: 50
Period size: 6 Copynumber: 11.0 Consensus size: 6
46786 AAAAAAAAAA
* * * *
46796 AAAAGA AAAAGGG AAAAGGG AGAAAAG AAAA-A AAAAGGG AAAAGG AAAAAG
1 AAAAGG AAAA-GG AAAA-GG A-AAAGG AAAAGG AAAA-GG AAAAGG AAAAGG
46847 AAAA-G AAAAGG AAAAGG
1 AAAAGG AAAAGG AAAAGG
46864 GGAGAAAAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
5 9 0.17
6 25 0.48
7 15 0.29
8 3 0.06
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:46812 original size:17 final size:17
Alignment explanation
Indices: 46751--46913 Score: 56
Period size: 17 Copynumber: 9.6 Consensus size: 17
46741 AGGAAAGGGG
*
46751 AAAGAAAAAAGGAAAAA
1 AAAGAAAAAGGGAAAAA
*
46768 AAA-AATAAAGAGAAAGAA
1 AAAGAA-AAAGGGAAA-AA
***
46786 AAA-AAAAAAAAAAAGAA
1 AAAGAAAAAGGGAAA-AA
*
46803 AAAGGGAAAAGGGAGAAAA
1 AAA-GAAAAAGGGA-AAAA
*
46822 GAAAAAAAAAGGG---AA
1 -AAAGAAAAAGGGAAAAA
*
46837 AAGGAAAAA--GAAAAGA
1 AAAGAAAAAGGGAAAA-A
*
46853 AAAGGAAAAGGGGAGAAAA
1 AAA-GAAAAAGGGA-AAAA
* *
46872 GAAGAAAAA-AGAAAAA
1 AAAGAAAAAGGGAAAAA
*
46888 AAA-AAAAGGGGAAAAA
1 AAAGAAAAAGGGAAAAA
* *
46904 GAAGGAAAAG
1 AAAGAAAAAG
46914 AAAAAGGAAA
Statistics
Matches: 107, Mismatches: 23, Indels: 32
0.66 0.14 0.20
Matches are distributed among these distances:
12 1 0.01
14 7 0.07
15 7 0.07
16 19 0.18
17 34 0.32
18 12 0.11
19 19 0.18
20 8 0.07
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.01
Consensus pattern (17 bp):
AAAGAAAAAGGGAAAAA
Found at i:46827 original size:32 final size:31
Alignment explanation
Indices: 46553--47143 Score: 186
Period size: 30 Copynumber: 19.3 Consensus size: 31
46543 GGGGAAGGGG
*
46553 AAAAAAAAA-GGAAAAAAAAGAAGGAA-AAAAA
1 AAAAAAAAAGGGAAAAAGAAGAA--AAGAAAAA
**
46584 AAAAAAAAAGGGGAAAAAGAA-AGGGAGAAAAA
1 AAAAAAAAA-GGGAAAAAGAAGA-AAAGAAAAA
*****
46616 GGGGGAAAAGAGGAAAAA-AA-AAAA-AAAAA
1 AAAAAAAAAG-GGAAAAAGAAGAAAAGAAAAA
*** * *
46645 AAGAAAAAAAAAAAAAAAAAAAAAAAGGAAAAAA
1 AA-AAAAAAAGGGAAAAAGAAGAAAA-G-AAAAA
46679 AAAAAAAAAGGG---AAGAA-AAAA-AAAAA
1 AAAAAAAAAGGGAAAAAGAAGAAAAGAAAAA
* * * *
46705 AAGAAAAGAGGAAAAAAAAAAGAAAA-AAGAAA
1 AAAAAAAAAGG-GAAAAAGAAGAAAAGAA-AAA
** *
46737 AGAAAGGAAAGGG-GAAAGAA-AAAAGGAAAAA
1 A-AAAAAAAAGGGAAAAAGAAGAAAA-GAAAAA
* *
46768 AAAAATAAAGAGAAAGAA-AA-AAAA-AAAAA
1 AAAAAAAAAGGGAAA-AAGAAGAAAAGAAAAA
* * *
46797 AAAGAAAAAGGG-AAAAG--G--GAGAAAAG
1 AAAAAAAAAGGGAAAAAGAAGAAAAGAAAAA
*
46823 AAAAAAAAAGGG-AAAAGGA-AAAAGAAAAGA
1 AAAAAAAAAGGGAAAAAGAAGAAAAGAAAA-A
* *
46853 AAAGGAAAAGGGGAGAAAAGAAGAAAA-AAGAAA
1 AAA-AAAAAAGGGA-AAAAGAAGAAAAGAA-AAA
46886 AAAAAAAAAGGGGAAAAAGAAGGAAAAGAAAAA
1 AAAAAAAAA-GGGAAAAAGAA-GAAAAGAAAAA
*
46919 GGAAAAAAAA-GGAAGAAAGAAG--AA-AAAAA
1 -AAAAAAAAAGGGAA-AAAGAAGAAAAGAAAAA
** ** * * *
46948 AAGGAAAGGGGGAAAAAGAGGGAGAG-AAAA
1 AAAAAAAAAGGGAAAAAGAAGAAAAGAAAAA
* * *
46978 AAAGAGAAA--GAAGAAG-AGAAAA-AAAAA
1 AAAAAAAAAGGGAAAAAGAAGAAAAGAAAAA
*
47005 AAAGGAAAAGAAGGGCAGAAAAG--GAAAGGAAAAA
1 AAA--AAAA-AAGGG-A-AAAAGAAGAAAAGAAAAA
47039 AGGGGGAAAGAAAAA-GGATAAAAGAA-AAAA-AAAAA
1 A-----AAA-AAAAAGGGA-AAAAGAAGAAAAGAAAAA
* * *
47074 AAAAAGAAAGGG-GAAAGAAAAAAAGAAAAA
1 AAAAAAAAAGGGAAAAAGAAGAAAAGAAAAA
*
47104 AAAAAAAAAGGAAAAAAG-AGAAAA-AAAAGA
1 AAAAAAAAAGGGAAAAAGAAGAAAAGAAAA-A
47134 AAAAAAAAAG
1 AAAAAAAAAG
47144 AAAAAAAAGG
Statistics
Matches: 416, Mismatches: 78, Indels: 133
0.66 0.12 0.21
Matches are distributed among these distances:
25 1 0.00
26 34 0.08
27 12 0.03
28 24 0.06
29 57 0.14
30 80 0.19
31 51 0.12
32 42 0.10
33 57 0.14
34 33 0.08
35 12 0.03
36 5 0.01
37 3 0.01
38 3 0.01
39 2 0.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (31 bp):
AAAAAAAAAGGGAAAAAGAAGAAAAGAAAAA
Found at i:46828 original size:125 final size:125
Alignment explanation
Indices: 46630--46954 Score: 101
Period size: 126 Copynumber: 2.5 Consensus size: 125
46620 GAAAAGAGGA
* *
46630 AAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAGGAA-AAAAAAAAAAAAAGGGAAG
1 AAAAAAAAAAAAAAAAA-AAAAAAGAAAAAAAAAAAAAAAGGGAAGAAAAAAAAAAAAA-GGAA-
* *** * ****
46694 AAA--AAAAAAAAAAGAAAAGAGGAAAA-AAA--AAAGAAAAAAGAAAAGAAAGGAAAGGGGAAA
63 AAAGGAAAAAAAAAAGAAAA-AAGAAAAGAAAGGAAAGGGGAAAGAAAA-AAA-AAAAAAAAAAA
46754 G
125 G
* * * ** *** *
46755 AAAAAAGGAAAAAAAAAATAAAGAGAAAGAAAAAAAAAAAA-AAAAGAAAAAGGGAAAAGGGAGA
1 AAAAAA-AAAAAAAAAAAAAAAAAGAAA-AAAAAAAAAAAAGGGAAGAAAAAAAAAAAAAGGA-A
* * * * * * ** * * *
46819 AAA-GAAAAAAAAAGGGAAAAGGAAAAAGAAAAGAAAAGGAAAAGGGGAGAAAAGAAGAAAAAAG
63 AAAGGAAAAAAAAAAGAAAAAAG-AAAAGAAAGGAAAGGGGAAA-GAAAAAAAAAAAAAAAAAAG
**
46883 AAAAAAAAAAAAGGGGAAAAAGAAGGAAAAGAAAAAGGAAAAAAAA-GGAAGAAAGAAGAAAAAA
1 AAAAAAAAAAAA----AAAAA-AA--AAAAGAAAAAAAAAAAAAAAGGGAAG-AA-AA-AAAAAA
46947 AAAGGAAA
56 AAAGGAAA
46955 GGGGGAAAAA
Statistics
Matches: 146, Mismatches: 34, Indels: 30
0.70 0.16 0.14
Matches are distributed among these distances:
125 24 0.16
126 49 0.34
127 8 0.05
128 13 0.09
129 10 0.07
130 2 0.01
131 5 0.03
132 1 0.01
133 13 0.09
134 9 0.06
135 4 0.03
136 8 0.05
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.00
Consensus pattern (125 bp):
AAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAGGGAAGAAAAAAAAAAAAAGGAAAAA
GGAAAAAAAAAAGAAAAAAGAAAAGAAAGGAAAGGGGAAAGAAAAAAAAAAAAAAAAAAG
Found at i:46949 original size:61 final size:60
Alignment explanation
Indices: 46554--47141 Score: 225
Period size: 59 Copynumber: 9.6 Consensus size: 60
46544 GGGAAGGGGA
* *
46554 AAAAAAAAGGAAAAAAAAGAAGGAAAAAAAAAAAAAAAAGGGGAAAAAGAAAGG--GAGAAAAAG
1 AAAAAAAAGG--AAGAAAGAA--AAAAAAAAAAAAAAAAGGGGAAAAAG-AAGGAAAAGAAAAA-
46617 GG
60 -G
** * **** * **
46619 GGAAAAGAGGAA-AAA-AAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAGGAAAAA-
1 AAAAAAAAGGAAGAAAGAAAAAAAAAAAAA-AAAAAGGGGAAAAAGAAGGAAAA-GAAAAAG
* * * * * *
46678 AAAAAAAA--AAGGGAAGAAAAAAAAAAAAAGAAAAGAGGAAAAAAAAAAGAAAAAAGAAAAG
1 AAAAAAAAGGAA-GAAAGAAAAAAAAAAAAAAAAAAG-GGGAAAAAGAAGGAAAAGA-AAAAG
** * * *
46739 AAAGGAAAGG-GGAAAGAAAAAAGGAAAAAAAAAATAAAGAGAAAGAA-AA--AAAA-AAAAA-
1 AAAAAAAAGGAAGAAAGAAAAAA--AAAAAAAAAA-AAGGGGAAA-AAGAAGGAAAAGAAAAAG
* ** * * * *
46797 AAAGAAAAAGGGA-AAAGGGAGAAAAGAAAAAAAAA-GGGAAAAGGAAAAAGAAAAG-AAAAG
1 AAA-AAAAAGGAAGAAAGAAAAAAAAAAAAAAAAAAGGGGAAAA--AGAAGGAAAAGAAAAAG
* *** *
46857 GAAAAGGGGAGAAAAGAAGAAAAAAGAAAAAAAAAAAAGGGGAAAAAGAAGGAAAAGAAAAAGG
1 AAAAAAAAG-GAAGA-AAGAAAAAA-AAAAAAAAAAAAGGGGAAAAAGAAGGAAAAGAAAAA-G
* ** * * *
46921 AAAAAAAAGGAAGAAAGAAGAAAAAAAAAGGAAAGGGGGAAAAAG-AGGGAGAGAAAAA-
1 AAAAAAAAGGAAGAAAGAAAAAAAAAAAAAAAAAAGGGGAAAAAGAAGGAAAAGAAAAAG
* * * *
46979 AAGAGAAA-GAAGAAGAGAAAAAAAAAAAAGGAAAAGAAGGGCAGAAAAGGAAAGGAAAA-AAGG
1 AAAAAAAAGGAAGAA-AGAAAAAAAAAAAA--AAAA-AAGGG--GAAAAAG-AAGGAAAAGAA-A
**
47042 GGG
58 AAG
* *
47045 AAAGAAAAAGGATA-AAAGAAAAAAAAAAAAAAAAGAAAGGGG--AAAGAA-AAAAAGAAAAAA
1 AAA-AAAAAGGA-AGAAAG-AAAAAAAAAAAAAAA-AAAGGGGAAAAAGAAGGAAAAGAAAAAG
*
47105 AAAAAAAAGGAAAAAAGAGAAAAAAAAGAAAAAAAAA
1 AAAAAAAAGGAAGAAAGA-AAAAAAAA-AAAAAAAAA
47142 AGAAAAAAAA
Statistics
Matches: 393, Mismatches: 79, Indels: 108
0.68 0.14 0.19
Matches are distributed among these distances:
54 1 0.00
55 5 0.01
56 3 0.01
57 19 0.05
58 24 0.06
59 75 0.19
60 72 0.18
61 51 0.13
62 35 0.09
63 42 0.11
64 20 0.05
65 12 0.03
66 10 0.03
67 7 0.02
68 16 0.04
69 1 0.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (60 bp):
AAAAAAAAGGAAGAAAGAAAAAAAAAAAAAAAAAAGGGGAAAAAGAAGGAAAAGAAAAAG
Found at i:47054 original size:22 final size:22
Alignment explanation
Indices: 47000--47062 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
46990 GAAGAGAAAA
47000 AAAAAAAAGGAAAAGAAGGGCAG
1 AAAAAAAAGGAAAA-AAGGGCAG
* *
47023 AAAAGGAAAGGAAAAAAGGG-GG
1 AAAA-AAAAGGAAAAAAGGGCAG
*
47045 AAAGAAAAAGGATAAAAG
1 AAA-AAAAAGGAAAAAAG
47063 AAAAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
22 15 0.44
23 10 0.29
24 9 0.26
ACGTcount: A:0.65, C:0.02, G:0.32, T:0.02
Consensus pattern (22 bp):
AAAAAAAAGGAAAAAAGGGCAG
Found at i:47067 original size:1 final size:1
Alignment explanation
Indices: 47058--47151 Score: 62
Period size: 1 Copynumber: 94.0 Consensus size: 1
47048 GAAAAAGGAT
* * **** * * ** *
47058 AAAAGAAAAAAAAAAAAAAAAGAAAGGGGAAAGAAAAAAAGAAAAAAAAAAAAAAGGAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
47123 GAAAAAAAAGAAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
47152 GGGAGGGAAA
Statistics
Matches: 73, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (1 bp):
A
Found at i:47083 original size:35 final size:33
Alignment explanation
Indices: 47044--47149 Score: 106
Period size: 36 Copynumber: 3.0 Consensus size: 33
47034 AAAAAAGGGG
*
47044 GAAAGAAAAAGGATAAAAGAAAAAAAAAAAAAAAA
1 GAAAGAGAAA-GA-AAAAGAAAAAAAAAAAAAAAA
*
47079 GAAAGGGGAAAGAAAAAAAGAAAAAAAAAAAAAAGGAA
1 GAAA-GAGAAAG--AAAAAGAAAAAAAAAAAAAA--AA
*
47117 AAAAGAGAAA-AAAAAGAAAAAAAAAAGAAAAAA
1 GAAAGAGAAAGAAAAAGAAAAAAAAAA-AAAAAA
47150 AAGGGAGGGA
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
33 2 0.03
34 16 0.26
35 9 0.15
36 23 0.38
37 6 0.10
38 5 0.08
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (33 bp):
GAAAGAGAAAGAAAAAGAAAAAAAAAAAAAAAA
Found at i:47094 original size:42 final size:42
Alignment explanation
Indices: 47041--47151 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
47031 AGGAAAAAAG
*
47041 GGGGAAAG-AAAAAGGATAAAAGAAAAAAAAA-AAAAAAAGAAA
1 GGGGAAAGAAAAAAAGA-AAAA-AAAAAAAAAGAAAAAAAGAAA
47083 GGGGAAAGAAAAAAAGAAAAAAAAAAAAAAGGAAAAAAGAGAAA
1 GGGGAAAGAAAAAAAGAAAAAAAAAAAAAA-GAAAAAA-AGAAA
** *
47127 --AAAAAGAAAAAAA-AAAGAAAAAAAA
1 GGGGAAAGAAAAAAAGAAAAAAAAAAAA
47152 GGGAGGGAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
41 20 0.33
42 23 0.38
43 13 0.21
44 5 0.08
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (42 bp):
GGGGAAAGAAAAAAAGAAAAAAAAAAAAAAGAAAAAAAGAAA
Found at i:47097 original size:30 final size:32
Alignment explanation
Indices: 47063--47146 Score: 109
Period size: 31 Copynumber: 2.6 Consensus size: 32
47053 AGGATAAAAG
**
47063 AAAAAAAAAAAAAAAAGAAAGGGGAAAGA-AA
1 AAAAAAAAAAAAAAAAGAAAGGAAAAAGAGAA
*
47094 AAAAGAAAAAAAAAAA-AAAGGAAAAAAGAGAA
1 AAAAAAAAAAAAAAAAGAAAGG-AAAAAGAGAA
47126 AAAAAAGAAAAAAAAAAGAAA
1 AAAAAA-AAAAAAAAAAGAAA
47147 AAAAAGGGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
30 5 0.11
31 20 0.44
32 7 0.16
33 10 0.22
34 3 0.07
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (32 bp):
AAAAAAAAAAAAAAAAGAAAGGAAAAAGAGAA
Found at i:47103 original size:34 final size:33
Alignment explanation
Indices: 47065--47154 Score: 108
Period size: 34 Copynumber: 2.6 Consensus size: 33
47055 GATAAAAGAA
47065 AAAAAAAAAAAAAAGAAAGGGGAAAGAAAAAAAG
1 AAAAAAAAAAAAAAGAAAGGGGAAA-AAAAAAAG
*** *
47099 AAAAAAAAAAAAAAGGAAAAAAGAGAAAAAAAAG
1 AAAAAAAAAAAAAA-GAAAGGGGAAAAAAAAAAG
*
47133 AAAAAAAAAAGAAAAAAAAGGG
1 AAAAAAAAAA-AAAAGAAAGGG
47155 AGGGAAAAGG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
34 35 0.76
35 11 0.24
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (33 bp):
AAAAAAAAAAAAAAGAAAGGGGAAAAAAAAAAG
Found at i:47162 original size:35 final size:34
Alignment explanation
Indices: 47058--47162 Score: 108
Period size: 35 Copynumber: 3.0 Consensus size: 34
47048 GAAAAAGGAT
*
47058 AAAAGAAAAAAAAAAAAAAAAGAAAGGG-GAAAGAAA
1 AAAAG-AAAAAAAAAAAAAAA-AAAGGGAGAGA-AAA
*
47094 AAAAGAAAAAAAAAAAAAAGGAAAA--AAGAGAAAA
1 AAAAGAAAAAAAAAAAAAA--AAAAGGGAGAGAAAA
*
47128 AAAAGAAAAAAAAAAGAAAAAAAAGGGAGGGAAAA
1 AAAAGAAAAAAAAAA-AAAAAAAAGGGAGAGAAAA
47163 GGAAAAGGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
33 4 0.07
34 18 0.31
35 28 0.47
36 8 0.14
37 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (34 bp):
AAAAGAAAAAAAAAAAAAAAAAAGGGAGAGAAAA
Found at i:47169 original size:56 final size:56
Alignment explanation
Indices: 47109--47300 Score: 143
Period size: 54 Copynumber: 3.5 Consensus size: 56
47099 AAAAAAAAAA
47109 AAAAGGAAAAAAGAGAAAAAAAAGAAAAAAAAAAGAAAAAAAAGGGAGGGAAAAGG
1 AAAAGGAAAAAAGAGAAAAAAAAGAAAAAAAAAAGAAAAAAAAGGGAGGGAAAAGG
* * ** **
47165 AAAAGG-AAAGAG-GCAAAAAAAA-AAAGAAAAGGGAAAGGAAA-GG-GGG-AAAGG
1 AAAAGGAAAAAAGAG-AAAAAAAAGAAAAAAAAAAGAAAAAAAAGGGAGGGAAAAGG
* * * * * * * *
47216 GAAGGGAGAAAAAAAAAAAAAAAAGAAAATAAAAAGCAAAAAAAGGAAGAAGAAAA--
1 AAAAGGA-AAAAAGAGAAAAAAAAGAAAAAAAAAAGAAAAAAAAGGGAG-GGAAAAGG
47272 AAAGAGAGAAAAAA-A-AAAAAAAAGAAAAA
1 AAA-AG-GAAAAAAGAGAAAAAAAAGAAAAA
47301 GAAGGAAGGA
Statistics
Matches: 102, Mismatches: 23, Indels: 23
0.69 0.16 0.16
Matches are distributed among these distances:
51 9 0.09
52 3 0.03
53 14 0.14
54 27 0.26
55 27 0.26
56 10 0.10
57 7 0.07
58 5 0.05
ACGTcount: A:0.74, C:0.01, G:0.24, T:0.01
Consensus pattern (56 bp):
AAAAGGAAAAAAGAGAAAAAAAAGAAAAAAAAAAGAAAAAAAAGGGAGGGAAAAGG
Found at i:47175 original size:42 final size:43
Alignment explanation
Indices: 47071--47198 Score: 111
Period size: 42 Copynumber: 3.0 Consensus size: 43
47061 AGAAAAAAAA
* * **
47071 AAAAAAAAGAAAGGGGAAAGAAAAAAAGAAAAAAAAAAA-AAAGG
1 AAAAAAGAGAAA-AGGAAAGAAAAAAA-AAAAAAAAAAAGGGAGG
*
47115 AAAAAAGAGAAAA-AAAAGAAAAAAAAAAGAAAAAAAAGGGAGG
1 AAAAAAGAGAAAAGGAAAGAAAAAAAAAA-AAAAAAAAGGGAGG
* * *
47158 -GAAAAG-GAAAAGGAAAGAGGCAAAAAAAAAAAGAAAAGGGA
1 AAAAAAGAGAAAAGGAAAGA--AAAAAAAAAAAAAAAAAGGGA
47199 AAGGAAAGGG
Statistics
Matches: 70, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
41 8 0.11
42 29 0.41
43 14 0.20
44 19 0.27
ACGTcount: A:0.76, C:0.01, G:0.23, T:0.00
Consensus pattern (43 bp):
AAAAAAGAGAAAAGGAAAGAAAAAAAAAAAAAAAAAAGGGAGG
Found at i:47215 original size:45 final size:43
Alignment explanation
Indices: 47099--47240 Score: 118
Period size: 45 Copynumber: 3.3 Consensus size: 43
47089 AGAAAAAAAG
* *
47099 AAAAAAAAAAAAAA-GGAA--AAAAGAGAAAA--AAA-AGAAAA
1 AAAAAAAAAAAAAAGGGAAGGAAAAG-GAAAAGGAAAGGGACAA
*
47137 AAAAAAGAAAAAAAAGGGAGGGAAAAGGAAAAGGAAAGAGG-CAA
1 AAAAAA-AAAAAAAAGGGAAGGAAAAGGAAAAGGAAAG-GGACAA
* * * * *
47181 AAAAAAAAAGAAAAGGGAAAGGAAAGGGGGAAAGGGAAGGGAGAA
1 AAAAAAAAAAAAAAGGG-AAGGAAA-AGGAAAAGGAAAGGGACAA
47226 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
47241 AAAATAAAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
38 6 0.07
39 8 0.10
40 3 0.04
41 5 0.06
42 5 0.06
43 13 0.16
44 16 0.19
45 27 0.33
ACGTcount: A:0.73, C:0.01, G:0.27, T:0.00
Consensus pattern (43 bp):
AAAAAAAAAAAAAAGGGAAGGAAAAGGAAAAGGAAAGGGACAA
Found at i:47265 original size:24 final size:24
Alignment explanation
Indices: 47229--47289 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
47219 GGGAGAAAAA
47229 AAAAAAAAAAAGAA-AATAAAAAGC
1 AAAAAAAAAAAGAAGAA-AAAAAGC
** *
47253 AAAAAAAGGAAGAAGAAAAAAAGAG
1 AAAAAAAAAAAGAAGAAAAAAAG-C
47278 AGAAAAAAAAAA
1 A-AAAAAAAAAA
47290 AAAAAGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
24 18 0.62
25 3 0.10
26 8 0.28
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.02
Consensus pattern (24 bp):
AAAAAAAAAAAGAAGAAAAAAAGC
Found at i:47270 original size:44 final size:43
Alignment explanation
Indices: 47222--47346 Score: 141
Period size: 44 Copynumber: 2.9 Consensus size: 43
47212 AAGGGAAGGG
47222 AGAAAAAAA-AAAAAAAAAGAAAATAAAAAGCAAAAAAAGGAAGA
1 AGAAAAAAAGAAAAAAAAAGAAAA-AAAAAG-AAAAAAAGGAAGA
*
47266 AGAAAAAAAGAGAGAAAAAA-AAAAAAAAAGAAAAAGAAGGAAG-
1 AGAAAAAAAGA-AAAAAAAAGAAAAAAAAAGAAAAA-AAGGAAGA
* *
47309 -GAAAAAGAACGGAAAAAAAAGAAAAAAAAGGAAAAAAA
1 AGAAAAA-AA-GAAAAAAAAAGAAAAAAAAAGAAAAAAA
47347 AAGAAAAGAA
Statistics
Matches: 71, Mismatches: 4, Indels: 13
0.81 0.05 0.15
Matches are distributed among these distances:
42 6 0.08
43 16 0.23
44 37 0.52
45 5 0.07
46 7 0.10
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.01
Consensus pattern (43 bp):
AGAAAAAAAGAAAAAAAAAGAAAAAAAAAGAAAAAAAGGAAGA
Found at i:47271 original size:15 final size:14
Alignment explanation
Indices: 47222--47300 Score: 56
Period size: 14 Copynumber: 5.7 Consensus size: 14
47212 AAGGGAAGGG
* *
47222 AGAAAAAAAAAAAA
1 AGAAGAAAAAAAGA
*
47236 AAAAGAAAATAAA-A
1 AGAAGAAAA-AAAGA
* *
47250 AGCA-AAAAAAGGA
1 AGAAGAAAAAAAGA
47263 AGAAGAAAAAAAGA
1 AGAAGAAAAAAAGA
*
47277 GAGAA-AAAAAAAAA
1 -AGAAGAAAAAAAGA
*
47291 AAAAGAAAAA
1 AGAAGAAAAA
47301 GAAGGAAGGA
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
12 2 0.04
13 11 0.22
14 31 0.61
15 7 0.14
ACGTcount: A:0.84, C:0.01, G:0.14, T:0.01
Consensus pattern (14 bp):
AGAAGAAAAAAAGA
Found at i:47325 original size:34 final size:31
Alignment explanation
Indices: 47216--47565 Score: 143
Period size: 29 Copynumber: 11.4 Consensus size: 31
47206 GGGGGAAAGG
* *
47216 GAAGGGAGAAAAAAA-AAAAAAAAAGAAAATA
1 GAAGGAAGAAAAAAAGGAAAAAAAAGAAAA-A
* *
47247 -AA--AAGCAAAAAAAGGAAGAAGAA-AAAAA
1 GAAGGAAG-AAAAAAAGGAAAAAAAAGAAAAA
47275 G-A-G-AGAAAAAAA--AAAAAAAAGAAAAA
1 GAAGGAAGAAAAAAAGGAAAAAAAAGAAAAA
47301 GAAGGAAGGAAAAAGAACGGAAAAAAAAGAAAAA
1 GAAGGAA-GAAAAA-AA-GGAAAAAAAAGAAAAA
* *
47335 AAAGGAA-AAAAAAA-GAAAAGAAAAGGGAAAA
1 GAAGGAAGAAAAAAAGGAAAA-AAAA-GAAAAA
*
47366 GAGGGAAAGAAAAAAAAGGGAAAAAAAA-AAAAA
1 GAAGG-AAG-AAAAAAA-GGAAAAAAAAGAAAAA
* * * *
47399 -AA-G-AGAAAAAAAGG-AAAGAAGGGAAGA
1 GAAGGAAGAAAAAAAGGAAAAAAAAGAAAAA
* * * ***
47426 GAA-AAACAAAAAAGGGAAAAAAAA-AGGGA
1 GAAGGAAGAAAAAAAGGAAAAAAAAGAAAAA
* *
47455 GAAAGGAAAGGAAAAAA-GAAAAGAAAGAAAAAA
1 G-AAGG-AAGAAAAAAAGGAAAAAAAAG-AAAAA
* *
47488 GGGAAGAAAGAAAAAAGAAGGGAAAAGAAA-AAAAA
1 --GAAGGAAG-AAAAA-AA-GGAAAAAAAAGAAAAA
* * *
47523 G-AGGAAGAAAAAAAAGAGAAAAGAGAGAAAA
1 GAAGGAAGAAAAAAAGGAAAAAAAAGA-AAAA
47554 -AAGGAAAGAAAA
1 GAAGG-AAGAAAA
47566 GGGAAAGGGA
Statistics
Matches: 241, Mismatches: 39, Indels: 77
0.68 0.11 0.22
Matches are distributed among these distances:
25 6 0.02
26 11 0.05
27 13 0.05
28 16 0.07
29 37 0.15
30 28 0.12
31 33 0.14
32 27 0.11
33 10 0.04
34 34 0.14
35 12 0.05
36 5 0.02
37 9 0.04
ACGTcount: A:0.75, C:0.01, G:0.24, T:0.00
Consensus pattern (31 bp):
GAAGGAAGAAAAAAAGGAAAAAAAAGAAAAA
Found at i:47364 original size:12 final size:10
Alignment explanation
Indices: 46554--47415 Score: 165
Period size: 10 Copynumber: 84.3 Consensus size: 10
46544 GGGAAGGGGA
46554 AAAAAAAAGG
1 AAAAAAAAGG
46564 AAAAAAAAGAAGG
1 --AAAAAA-AAGG
46577 AAAAAAAA--
1 AAAAAAAAGG
46585 AAAAAAAAGGGG
1 AAAAAAAA--GG
46597 AAAAAGAAAGGG
1 AAAAA-AAA-GG
* *
46609 AGAAAAAGGG
1 AAAAAAAAGG
** *
46619 GGAAAAGAGG
1 AAAAAAAAGG
*
46629 AAAAAAAA-A
1 AAAAAAAAGG
*
46638 AAAAAAAAAG
1 AAAAAAAAGG
46648 -AAAAAAA--
1 AAAAAAAAGG
46655 AAAAAAAA--
1 AAAAAAAAGG
46663 AAAAAAAAGG
1 AAAAAAAAGG
46673 AAAAAAAA--
1 AAAAAAAAGG
*
46681 AAAAAAAGGG
1 AAAAAAAAGG
*
46691 AAGAAAAA--
1 AAAAAAAAGG
46699 AAAAAAAA-G
1 AAAAAAAAGG
*
46708 --AAAAGAGG
1 AAAAAAAAGG
46716 AAAAAAAA--
1 AAAAAAAAGG
46724 AAGAAAAAA-G
1 AA-AAAAAAGG
*
46734 AAAAGAAAGG
1 AAAAAAAAGG
**
46744 ---AAAGGGG
1 AAAAAAAAGG
46751 AAAGAAAAAAGG
1 -AA-AAAAAAGG
46763 AAAAAAAA--
1 AAAAAAAAGG
*
46771 AATAAAGAGAAAG
1 AA-AAA-A-AAGG
46784 AAAAAAAA--
1 AAAAAAAAGG
*
46792 AAAAAAAAGA
1 AAAAAAAAGG
46802 AAAAGGGAAAAGG
1 AAAA---AAAAGG
* * *
46815 -GAGAAAAGA
1 AAAAAAAAGG
46824 AAAAAAAAGGG
1 AAAAAAAA-GG
*
46835 AAAAGGAAAAAG
1 AAAA--AAAAGG
46847 AAAAGAAAAGG
1 AAAA-AAAAGG
**
46858 --AAAAGGGG
1 AAAAAAAAGG
*
46866 AGAAAAGAA-G
1 A-AAAAAAAGG
**
46876 AAAAAAGAAAA
1 AAAAAA-AAGG
46887 AAAAAAAAGGGG
1 AAAAAAAA--GG
*
46899 AAAAAGAAGG
1 AAAAAAAAGG
46909 AAAAGAAAAAGG
1 -AAA-AAAAAGG
46921 AAAAAAAAGG
1 AAAAAAAAGG
* *
46931 AAGAAAGAAGA
1 AA-AAAAAAGG
46942 AAAAAAAAGG
1 AAAAAAAAGG
***
46952 --AAAGGGGG
1 AAAAAAAAGG
* *
46960 AAAAAGAGGG
1 AAAAAAAAGG
*
46970 AGAGAAAAAAAG
1 A-A-AAAAAAGG
* *
46982 AGAAAGAA-G
1 AAAAAAAAGG
*
46991 AAGAGAAAA--
1 AA-AAAAAAGG
47000 AAAAAAAAGG
1 AAAAAAAAGG
* *
47010 AAAAGAAGGG
1 AAAAAAAAGG
47020 CAGAAAAGGAAAGG
1 -A-AAAA--AAAGG
**
47034 AAAAAAGGGGG
1 AAAAAA-AAGG
47045 AAAGAAAAAGG
1 AAA-AAAAAGG
47056 ATAAAAGAAA--
1 A-AAAA-AAAGG
47066 AAAAAAAA--
1 AAAAAAAAGG
47074 AAAAAGAAAGGGG
1 AAAAA-AAA--GG
47087 AAAGAAAAA--
1 AAA-AAAAAGG
47096 AAGAAAAAA--
1 AA-AAAAAAGG
47105 AAAAAAAAGG
1 AAAAAAAAGG
*
47115 AAAAAAGA-G
1 AAAAAAAAGG
*
47124 AAAAAAAAGA
1 AAAAAAAAGG
*
47134 AAAAAAAAAG
1 AAAAAAAAGG
47144 AAAAAAAAGGG
1 AAAAAAAA-GG
***
47155 AGGGAAAAGG
1 AAAAAAAAGG
47165 AAAAGGAAAGAGG
1 AAAA--AAA-AGG
47178 CAAAAAAAA--
1 -AAAAAAAAGG
*
47187 AAAGAAAAGGG
1 AAA-AAAAAGG
**
47198 AAAGGAAAGGGGG
1 AAA--AAA-AAGG
** *
47211 AAAGGGAAGGG
1 AAA-AAAAAGG
*
47222 AGAAAAAAA-A
1 A-AAAAAAAGG
*
47232 AAAAAAAAGA
1 AAAAAAAAGG
*
47242 AAATAAAAAGCA
1 AAA-AAAAAG-G
*
47254 AAAAAAGGAAGA
1 AAAAAA--AAGG
47266 AGAAAAAAAGAG
1 A-AAAAAAAG-G
47278 AGAAAAAAA--
1 A-AAAAAAAGG
*
47287 AAAAAAAAGA
1 AAAAAAAAGG
47297 AAAAGAAGGAAGG
1 AAAA-AA--AAGG
*
47310 AAAAAGAACGG
1 AAAAA-AAAGG
47321 AAAAAAAA-G
1 AAAAAAAAGG
47330 AAAAAAAAGG
1 AAAAAAAAGG
*
47340 AAAAAAAAAG
1 AAAAAAAAGG
47350 AAAAGAAAAGGG
1 AAAA-AAAA-GG
47362 AAAAGAGGGAAA-G
1 AAAA-A---AAAGG
47375 AAAAAAAAGG
1 AAAAAAAAGG
*
47385 GAAAAAAA--
1 AAAAAAAAGG
47393 AAAAAAAA-G
1 AAAAAAAAGG
47402 AGAAAAAAAGG
1 A-AAAAAAAGG
47413 AAA
1 AAA
47416 GAAGGGAAGA
Statistics
Matches: 647, Mismatches: 96, Indels: 216
0.67 0.10 0.23
Matches are distributed among these distances:
7 9 0.01
8 95 0.15
9 93 0.14
10 175 0.27
11 103 0.16
12 104 0.16
13 55 0.09
14 10 0.02
15 3 0.00
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGG
Found at i:47379 original size:65 final size:62
Alignment explanation
Indices: 47220--48671 Score: 218
Period size: 64 Copynumber: 22.8 Consensus size: 62
47210 GAAAGGGAAG
* * * * * *
47220 GGAGAAAAAAA-AAAAAAAAAG-AAAATAA--AAAGCAAAAAAAGG-AAGAAGAAAAAAAGA
1 GGAGAAAAAAAGAAAAGAAAAGAAAAAGAAGGAAAGAAAAAAAAGGAAAAAAAAAAAAAAAA
* *
47277 -GAGAAAAAAA-AAAA-AAAAGAAAAAGAAGGAAGGAAAAAGAACGGAAAAAAAAGAAAAAAAA
1 GGAGAAAAAAAGAAAAGAAAAGAAAAAGAAGGAAAGAAAAA-AAAGGAAAAAAAA-AAAAAAAA
* * * *
47338 GGAAAAAAAAAGAAAAGAAAAGGGAAAAGAGGGAAAGAAAAAAAAGGGAAAAAAAAAAAAAAA
1 GGAGAAAAAAAGAAAAGAAAA-GAAAAAGAAGGAAAGAAAAAAAAGGAAAAAAAAAAAAAAAA
* * * * * * ** *
47401 -GAGAAAAAAAGGAAAG-AAGGGAAGAGAA--AAA-CAAAAAAGGGAAAAAAAAAGGGAGAAA
1 GGAGAAAAAAAGAAAAGAAAAGAAAAAGAAGGAAAGAAAAAAAAGGAAAAAAAAA-AAAAAAA
* * *
47459 GGAAAGGAAAAAAGAAAAG-AAAGAAAAAAGGGAA-GAAAGAAAAAAGAAGGGAAAAGAAAAAAA
1 GG--AGAAAAAAAGAAAAGAAAAG-AAAAA--GAAGGAAAGAAAAAA-AAGGAAAAAAAAAAAAA
*
47522 AGA
60 AAA
* * *
47525 GGA-AGAAAAAA-AAGAGAAAAGAGAGAAAAAAGGAAAGAAAAGGGAAAGGGAAGGAAAAAAAAA
1 GGAGA-AAAAAAGAAAAGAAAAGA-A-AAAGAAGGAAAGAAAA---AAAAGGAA--AAAAAAAAA
47588 AGAAAGCA
58 A-AAA--A
** * * * * * * **
47596 GGGGAGGAAAAAGGGGAGAGAAAA-AAAAAAAAGGGAAGGAGAGGAA--AAAAAAAAAAAAAAAA
1 --GGA-GAAAAAAAGAAAAGAAAAGAAAAAGAAGGAAAGAAAAAAAAGGAAAAAAAAAAAAAAAA
** * *
47658 GGAGAAGGAAAAA-AAAAGAAGGGAAAAAAGAGGGAAAGGAAAAAGAAAGGAGAGAAGAGAAAAG
1 GGAGAA--AAAAAGAAAAGAAAAG-AAAAAGAAGGAAA-GAAAAA-AAAGGA-A-AA-A-AAAAA
47722 AAAAAA
57 AAAAAA
* **
47728 -GA-AAAAACAAGGGAAAGCGGAAGGAAAA-AAAAAGAAAGGGGAAGAGGAAAAA--AAAAAAAA
1 GGAGAAAAA-AA--G-AA----AA-GAAAAGAAAAAG-AA-GGAAAGAAAAAAAAGGAAAAAAAA
* *
47788 AGAAAAGA
55 AAAAAAAA
* * * * *
47796 GGAAAAAAAAAAAGAAAGGAAAAG-AAAAGTAGGAGAGAAGAAAAA-GAAAAAAAAAAAAAGAAA
1 GG--AGAAAAAAAGAAAAGAAAAGAAAAAGAAGGAAAGAAAAAAAAGGAAAAAAAAAAAAA-AAA
* * * ** *
47859 --A-AAAAAAA-AAAAGAAGAGAAAAAAAGAGGAAAGGGAAAAGGAGAAAAAAAAAGAAAAAAAA
1 GGAGAAAAAAAGAAAAGAAAAGAAAAAGA-AGGAAA-GAAAAAAAAG-GAAAAAAA-AAAAAAAA
47920 A
62 A
** * **** * * **
47921 AAAAAAAAAAAGGGGGGGGAAAAAAAGAAAGGAA-GAAGAGAAGAAAGAAAGGAAAAGAAAAGGA
1 GGAGAAAAAAA--GAAAAGAAAAGAA-AAA-GAAGGAA-AGAA-AAA-AAAGGAAAAAAAAAAAA
47985 AAAA
59 AAAA
* * * *
47989 GGGGAAAATAAA-AAAA-AAAA-AAAAAAAAGG-AA-AAAAGAAGGGAAAAAGAGAAAAAAGAAG
1 GGAGAAAA-AAAGAAAAGAAAAGAAAAAGAAGGAAAGAAAAAAAAGGAAAAA-A-AAAAAA-AA-
*
48049 GGAG
61 --AA
* * ** * * *
48053 GGAGAGAAAAAAAAAAAAAAAAGAGGGAAGAGGGAGAAAAAAAAAAAAAGAAAAGAAAAGAAAAA
1 GGAGA-AAAAAAGAAAAGAAAAGA-AAAAGA-AG-GAAAGAAAAAAAAGGAAAA-AAAA-AAAAA
48118 AAA
60 AAA
* ** ** *
48121 --A-AAAAAAAAAAAAGAAAA-AAGAAAG-AGGAAACG--AAAAGGGGAAAAAGAGGAGGAGAAA
1 GGAGAAAAAAAGAAAAGAAAAGAA-AAAGAAGGAAA-GAAAAAAAAGGAAAAA-A--AAAAAAAA
48179 AA
61 AA
* *
48181 --A-AAAAAAAGAAAAAAAGAAGAAAAA-AAGGAAAG--AAAA----AAAAAAAAAAAAAAAG
1 GGAGAAAAAAAGAAAAGAA-AAGAAAAAGAAGGAAAGAAAAAAAAGGAAAAAAAAAAAAAAAA
* * *
48234 GGAG-AAAAAA-AAAA-AAAA-AAAAAG-AGGAAAAAAAAAAAAAGGCAAAAAAAAGAAGAAAA
1 GGAGAAAAAAAGAAAAGAAAAGAAAAAGAAGG-AAAGAAAAAAAAGG-AAAAAAAAAAAAAAAA
* ** *
48293 -GA-AAAAAAGAGAAAAAAAAAGAAAGAGAGAAGG---GAAAAGGGAAGAGAAAAGGGAAAAAAA
1 GGAGAAAAAA-AGAAAAGAAAAGAAA-A-AGAAGGAAAGAAAA-AAAAG-GAAAA--AAAAAAAA
*
48353 AAGA
59 AAAA
* * * *
48357 GG-GAAAAAAA-AAAA-A-AAGAAGAGGATGAGGAAAAGAAAAAATAAGGAGAAAAAAATAAAAA
1 GGAGAAAAAAAGAAAAGAAAAGAAAAAGA--AGG-AAAGAAAAAA-AAGGAAAAAAAAAAAAAAA
48418 A
62 A
* * *
48419 -GA-AAAAAGAAGGGGAAAAAAGGAAAGAAAAA-AA-GAAA-AGAAAAAAGCAAAAGAAAAAAAA
1 GGAGAAAAA-AA---G--AAAAGAAAAGAAAAAGAAGGAAAGAAAAAAAAGGAAAA-AAAAAAAA
48479 GAAAA
59 -AAAA
* * ** * * * ***
48484 AGAAAAAAAAAGAGGAGAAAAAAAGAAAAAAGAAAAGCATAAGGAAGGGGGGAAAAAAAAAAAAG
1 GGAGAAAAAAAGAAAAGAAAAGAA-AAAGAAGGAAAG-A-AA--AA-AAAGGAAAAAAAAAAAA-
48549 GAAAA
59 -AAAA
* * * * *
48554 GAAGGGGAGAAAAGAAAA-AGAAAGAAAAAGAAAGAAAAAAGAAAAAAGGAAGAACAAAAAAAAA
1 G--GAGAAAAAAAGAAAAGA-AAAGAAAAAGAAGGAAAGAA-AAAAAAGGAA-AA-AAAAAAAAA
48618 GAAA
60 -AAA
*
48622 --AAAAAAAAAGGGAAAAGAAAA-AAGAAAGAGAGGAAA-AAAAAAAAGGAAAA
1 GGAGAAAAAAA--GAAAAGAAAAGAA-AAAGA-AGGAAAGAAAAAAAAGGAAAA
48672 GAAGGGGAAG
Statistics
Matches: 1011, Mismatches: 202, Indels: 357
0.64 0.13 0.23
Matches are distributed among these distances:
51 8 0.01
52 5 0.00
53 8 0.01
54 8 0.01
55 13 0.01
56 25 0.02
57 24 0.02
58 41 0.04
59 43 0.04
60 65 0.06
61 85 0.08
62 90 0.09
63 63 0.06
64 108 0.11
65 89 0.09
66 44 0.04
67 36 0.04
68 62 0.06
69 47 0.05
70 34 0.03
71 22 0.02
72 49 0.05
73 5 0.00
74 14 0.01
75 16 0.02
76 7 0.01
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.00
Consensus pattern (62 bp):
GGAGAAAAAAAGAAAAGAAAAGAAAAAGAAGGAAAGAAAAAAAAGGAAAAAAAAAAAAAAAA
Found at i:47411 original size:45 final size:43
Alignment explanation
Indices: 47326--47533 Score: 126
Period size: 42 Copynumber: 4.9 Consensus size: 43
47316 AACGGAAAAA
*
47326 AAAGAAAAAAAAGGAAAAAAAAAGAAAAGAAAAGGGAAAAGAGGG
1 AAAGAAAAAAAAGGAAAAAAAAAAAAAAGAAAA--GAAAAGAGGG
* * * *
47371 AAAGAAAAAAAAGGGAAAAAAAAAAAAA-AAGAGAAAAAAAGG
1 AAAGAAAAAAAAGGAAAAAAAAAAAAAAGAAAAGAAAAGAGGG
*** * **
47413 AAAG-AAGGGAAGAGAAAAACAAAAAAGGGAAAA-AAAA-AGGG
1 AAAGAAAAAAAAG-GAAAAAAAAAAAAAAGAAAAGAAAAGAGGG
** * ** *
47454 --AGAAAGGAAAGGAAAAAAGAAAAGAAAGAAAA-AAGGGA-AG
1 AAAGAAAAAAAAGGAAAAAA-AAAAAAAAGAAAAGAAAAGAGGG
* * *
47494 AAAGAAAAAAGAAGGGAAAAGAAAAAAAAGAGGAAGAAAA
1 AAAGAAAAAA-AAGGAAAAAAAAAAAAAAGA-AAAGAAAA
47534 AAAAGAGAAA
Statistics
Matches: 123, Mismatches: 30, Indels: 21
0.71 0.17 0.12
Matches are distributed among these distances:
39 8 0.07
40 20 0.16
41 9 0.07
42 42 0.34
43 13 0.11
44 5 0.04
45 26 0.21
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (43 bp):
AAAGAAAAAAAAGGAAAAAAAAAAAAAAGAAAAGAAAAGAGGG
Found at i:47430 original size:106 final size:105
Alignment explanation
Indices: 47224--47588 Score: 274
Period size: 106 Copynumber: 3.5 Consensus size: 105
47214 GGGAAGGGAG
* * * * *
47224 AAAAAAA-AAAAAAAAAGAAAATAAAAAGCAAAAAAAGGAAGAAGAAAAAAAGAGAGAAAAAAAA
1 AAAAAAAGAAAAAAAAAGAAAAGAAAAGGGAAAAGAA-GAA-AAGAAAAAAA-AGGGAAAAAAAA
* * **
47288 AAAAAAAGA-AAAAGAAGGAAGGAAAAAGAACG-GAAAAAAAAGA
63 AAAAAAAGAGAAAAAAAGGAAAG-AAGGGAA-GAGAAAAAAAAGA
* *
47331 AAAAAAAGGAAAAAAAAAGAAAAGAAAAGGGAAAAGAGGGAAAGAAAAAAAAGGGAAAAAAAAAA
1 AAAAAAA-GAAAAAAAAAGAAAAGAAAAGGGAAAAGAAGAAAAGAAAAAAAAGGGAAAAAAAAAA
*
47396 AAAAAGAGAAAAAAAGGAAAGAAGGGAAGAG---AAAAACA
65 AAAAAGAGAAAAAAAGGAAAGAAGGGAAGAGAAAAAAAAGA
** *
47434 AAAAAGGGAAAAAAAAAGGGAGAAAGGAAA-GGAAAA-AAGAAAAGAAAGAAAAAAGGGAAGAAA
1 AAAAAAAGAAAAAAAAA--GA-AAAGAAAAGGGAAAAGAAGAAAAG-AA-AAAAAAGGGAA-AAA
* * *
47497 GAAAAAAGAAGGGAAAAGAAA--AAA-AAGAGG-A-AGAAAAAAAAGA
60 AAAAAAAAAAGAGAAAA-AAAGGAAAGAAG-GGAAGAGAAAAAAAAGA
* * * * * *
47540 GAAAAGAG-AGAAAAAAGGAAAGAAAAGGGAAAGGGAAGGAAA-AAAAAAA
1 AAAAAAAGAAAAAAAAAGAAAAGAAAAGGGAAA-AGAAGAAAAGAAAAAAA
47589 GAAAGCAGGG
Statistics
Matches: 212, Mismatches: 28, Indels: 41
0.75 0.10 0.15
Matches are distributed among these distances:
102 22 0.10
103 27 0.13
104 14 0.07
105 37 0.17
106 55 0.26
107 31 0.15
108 2 0.01
109 24 0.11
ACGTcount: A:0.75, C:0.01, G:0.24, T:0.00
Consensus pattern (105 bp):
AAAAAAAGAAAAAAAAAGAAAAGAAAAGGGAAAAGAAGAAAAGAAAAAAAAGGGAAAAAAAAAAA
AAAAGAGAAAAAAAGGAAAGAAGGGAAGAGAAAAAAAAGA
Found at i:47450 original size:12 final size:12
Alignment explanation
Indices: 47433--47492 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
47423 AGAGAAAAAC
47433 AAAAAAGGGAAA
1 AAAAAAGGGAAA
47445 AAAAAAGGGAGAA
1 AAAAAAGGGA-AA
**
47458 AGGAAA-GGAAA
1 AAAAAAGGGAAA
*
47469 AAAGAAA-AGAAA
1 AAA-AAAGGGAAA
47481 GAAAAAAGGGAA
1 -AAAAAAGGGAA
47493 GAAAGAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
11 3 0.08
12 23 0.61
13 12 0.32
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
AAAAAAGGGAAA
Found at i:47469 original size:39 final size:37
Alignment explanation
Indices: 47390--47592 Score: 118
Period size: 37 Copynumber: 5.4 Consensus size: 37
47380 AAAGGGAAAA
* * *
47390 AAAAAAAAAAAGAGAAAAAAA-GGAAAGAAGGGAAGAG
1 AAAAAAAAAAAGAAAAAAAAAGGGAGA-AAGGAAAGAG
47427 AAAAACAAAAAAGGGAAAAAAAAAGGGAGAAAGGAAAG-G
1 AAAAA-AAAAAA--GAAAAAAAAAGGGAGAAAGGAAAGAG
*
47466 AAAAAAGAAAAGAAAGAAAAAAGGGAAGAAA-GAAA-A-
1 AAAAAAAAAAAGAAA-AAAAAAGGG-AGAAAGGAAAGAG
*** * **
47502 AAGAAGGGAAAAGAAAAAAAAGAGGAAGAAAAAAAAGAG
1 AA-AAAAAAAAAGAAAAAAAA-AGGGAGAAAGGAAAGAG
* * *
47541 AAAAGAGAGAAAAAAGGAAAGAAAA-GG-GAAAGGGAAG-G
1 -AAA-A-A-AAAAAAGAAAAAAAAAGGGAGAAAGGAAAGAG
47579 -AAAAAAAAAAGAAA
1 AAAAAAAAAAAGAAA
47593 GCAGGGGAGG
Statistics
Matches: 132, Mismatches: 18, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
33 9 0.07
34 1 0.01
35 1 0.01
36 18 0.14
37 35 0.27
38 18 0.14
39 14 0.11
40 20 0.15
41 5 0.04
42 11 0.08
ACGTcount: A:0.72, C:0.00, G:0.27, T:0.00
Consensus pattern (37 bp):
AAAAAAAAAAAGAAAAAAAAAGGGAGAAAGGAAAGAG
Found at i:47480 original size:17 final size:16
Alignment explanation
Indices: 47234--48744 Score: 141
Period size: 16 Copynumber: 94.4 Consensus size: 16
47224 AAAAAAAAAA
*
47234 AAAAAAGAAAATAAA-
1 AAAAAAGAAAAGAAAG
* *
47249 AAGCAAA-AAAAGGAAG
1 AA-AAAAGAAAAGAAAG
* *
47265 AAGAAA-AAAAGAGAG
1 AAAAAAGAAAAGAAAG
* *
47280 AAAAAAAAAAAAAAAG
1 AAAAAAGAAAAGAAAG
*
47296 -AAAAAG--AAGGAAG
1 AAAAAAGAAAAGAAAG
* * *
47309 GAAAAAG-AACGGAA-
1 AAAAAAGAAAAGAAAG
*
47323 AAAAAAGAAAAAAAAG
1 AAAAAAGAAAAGAAAG
*
47339 GAAAAA-AAAAGAAAAG
1 AAAAAAGAAAAG-AAAG
** **
47355 AAAAGGGAAAAGAGGG
1 AAAAAAGAAAAGAAAG
* *
47371 AAAGAAAAAAAAGGGAA-
1 AAA-AAAGAAAA-GAAAG
47388 AAAAAA-AAAA-AAAG
1 AAAAAAGAAAAGAAAG
* *
47402 AGAAAA-AAAGGAAAG
1 AAAAAAGAAAAGAAAG
** * *
47417 AAGGGAAGAGAA-AAAC
1 AA-AAAAGAAAAGAAAG
47433 AAAAAAGGGAAAA-AAA-
1 AAAAAA--GAAAAGAAAG
*** *
47449 AAGGGAGAAAGGAAAGG
1 AAAAAAGAAAAGAAA-G
47466 AAAAAAGAAAAGAAAG
1 AAAAAAGAAAAGAAAG
**
47482 AAAAAAGGGAAGAAAG
1 AAAAAAGAAAAGAAAG
**
47498 AAAAAAGAAGGGAAAAG
1 AAAAAAGAAAAG-AAAG
*
47515 AAAAAAAAGAGGAAGAAA-
1 --AAAAAAGA-AAAGAAAG
*
47533 AAAAAGAGAAAAGAGAG
1 AAAAA-AGAAAAGAAAG
*
47550 AAAAAAGGAAAGAAAAG
1 AAAAAAGAAAAG-AAAG
** * * * *
47567 GGAAAGGGAAGGAAAA
1 AAAAAAGAAAAGAAAG
* *
47583 AAAAAAGAAAGCAGGGGAGG
1 AAAAAAGAAA--A--GAAAG
* * *
47603 AAAAAGGGGAGAGAAA-
1 AAAAA-AGAAAAGAAAG
* *
47619 AAAAAA-AAAGGGAAG
1 AAAAAAGAAAAGAAAG
* * *
47634 -GAGAGGAAAA-AAA-
1 AAAAAAGAAAAGAAAG
*
47647 AAAAAAAAAAAGGAGAAG
1 AAAAAAGAAAA-GA-AAG
* *
47665 GAAAAA-AAAAGAAGGG
1 AAAAAAGAAAAGAA-AG
**
47681 AAAAAAG-AGGGAAAG
1 AAAAAAGAAAAGAAAG
*
47696 GAAAAAGAAAGGAGAGAAG
1 AAAAAAGAAA--AGA-AAG
*
47715 AGAAAAG-AAA-AAAG
1 AAAAAAGAAAAGAAAG
* **
47729 AAAAAACAAGGGAAAGCGG
1 AAAAAAGAAAAGAAA---G
*
47748 AAGGAAAAAAAAAGAAAGGG
1 AA--AAAAGAAAAGAAA--G
* * * *
47768 GAAGAGGAAAA-AAAA
1 AAAAAAGAAAAGAAAG
*
47783 AAAAAAGAAAAG-AGG
1 AAAAAAGAAAAGAAAG
*
47798 AAAAAAAAAAAGAAAG
1 AAAAAAGAAAAGAAAG
* * *
47814 -GAAAAGAAAAGTAGG
1 AAAAAAGAAAAGAAAG
* *
47829 AGAGAAGAAAAAGAAA-
1 AAAAAAG-AAAAGAAAG
*
47845 AAAAAA-AAAAGAAAA
1 AAAAAAGAAAAGAAAG
*
47860 AAAAAAAAAAAGAAGAG
1 AAAAAAGAAAAGAA-AG
* *
47877 AAAAAA-AGAGGAAAG
1 AAAAAAGAAAAGAAAG
** *
47892 GGAAAAG--GAGAAA-
1 AAAAAAGAAAAGAAAG
* *
47905 AAAAAAGAAAAAAAAA
1 AAAAAAGAAAAGAAAG
* ***
47921 AAAAAAAAAAAGGGGG
1 AAAAAAGAAAAGAAAG
***
47937 GGGAAA-AAAAGAAAG
1 AAAAAAGAAAAGAAAG
* * *
47952 GAAGAAGAGAAGAAAG
1 AAAAAAGAAAAGAAAG
*
47968 --AAAGGAAAAGAAAAGG
1 AAAAAAGAAAAG-AAA-G
* * *
47984 AAAAAGGGGAAAATAAAA
1 AAAAA--AGAAAAGAAAG
* *
48002 AAAAAAAAAAAAAAAGG
1 AAAAAAGAAAAGAAA-G
**
48019 AAAAAAGAAGGGAAA-
1 AAAAAAGAAAAGAAAG
* *
48034 AAGAGAA-AAAAGAAGG
1 AA-AAAAGAAAAGAAAG
* ***
48050 GAGGGAGAGAAA-AAA-
1 AAAAAAGA-AAAGAAAG
**
48065 AAAAAA-AAAAGAGGG
1 AAAAAAGAAAAGAAAG
**
48080 AAGAGGGAGAAAA-AAA-
1 AA-A-AAAGAAAAGAAAG
48096 AAAAAAGAAAAGAAAAG
1 AAAAAAGAAAAG-AAAG
* *
48113 AAAAAA-AAAAAAAAA
1 AAAAAAGAAAAGAAAG
48128 AAAAAAGAAAAAAGAAAG
1 AAAAAAG--AAAAGAAAG
* * **
48146 AGGAAACGAAAAG-GGG
1 A-AAAAAGAAAAGAAAG
**
48162 AAAAAGAGGAGGAGAAA-
1 AAAAA-A-GAAAAGAAAG
48179 AAAAAA-AAAAGAAA-
1 AAAAAAGAAAAGAAAG
48193 AAAAGAAGAAAA-AAAGG
1 AAAA-AAGAAAAGAAA-G
*
48210 AAAGAA-AAAA-AAA-
1 AAAAAAGAAAAGAAAG
**
48223 AAAAAA-AAAAGGGAG
1 AAAAAAGAAAAGAAAG
48238 AAAAAA-AAAA-AAA-
1 AAAAAAGAAAAGAAAG
*
48251 AAAAAAGAGGAAA-AAAA
1 AAAAAAGA--AAAGAAAG
*
48268 AAAAAAGGCAAAAAAAAG
1 AAAAAA-G-AAAAGAAAG
48286 AAGAAAAGAAAA-AAAG
1 AA-AAAAGAAAAGAAAG
48302 AGAAAAA-AAAAGAAAG
1 A-AAAAAGAAAAGAAAG
** *
48318 AGAGAAGGGAAAAGGGAAG
1 A-A-AAAAGAAAA-GAAAG
* *
48337 AGAAAAG---GGAAA-
1 AAAAAAGAAAAGAAAG
**
48349 AAAAAAG-AGGGAAA-
1 AAAAAAGAAAAGAAAG
*
48363 AAAAAAAAAAAGAAGAG
1 AAAAAAGAAAAGAA-AG
* ** *
48380 GATGAGGAAAAGAAA-
1 AAAAAAGAAAAGAAAG
*
48395 AAATAAGGAGAAAA-AAAT
1 AAA-AA--AGAAAAGAAAG
*
48413 AAAAAAGAAAAAAGAAG
1 AAAAAAGAAAAGA-AAG
*** *
48430 GGGAAA-AAAGGAAAG
1 AAAAAAGAAAAGAAAG
*
48445 AAAAAAAGAAAAGAAAA
1 -AAAAAAGAAAAGAAAG
*
48462 AAGCAAAAGAAAAAAAAG
1 AA--AAAAGAAAAGAAAG
48480 -AAAAAGAAAA-AAA-
1 AAAAAAGAAAAGAAAG
**
48493 AAGAGGAGAAAA-AAAG
1 AA-AAAAGAAAAGAAAG
48509 AAAAAAGAAAAGCATAAGG
1 AAAAAAGAAAAG-A-AA-G
****
48528 AAGGGGGGAAAA-AAA-
1 AA-AAAAGAAAAGAAAG
* *
48543 AAAAAGGAAAAGAAGGGG
1 AAAAAAGAAAAGAA--AG
*
48561 AGAAAAGAAAAAGAAAG
1 AAAAAAG-AAAAGAAAG
*
48578 -AAAAAGAAAGAAAAAAG
1 AAAAAAG-AA-AAGAAAG
*
48595 AAAAAAGGAAGAACAAA-
1 AAAAAA-GAA-AAGAAAG
48612 AAAAAAGAAAA-AAA-
1 AAAAAAGAAAAGAAAG
*
48626 AAAAAGGGAAAAGAAA-
1 AAAAA-AGAAAAGAAAG
* * *
48642 AAAGAAAGAGAGGAAAAA
1 AAA-AAAGAAAAG-AAAG
*
48660 AAAAAAGGAAAAGAAGGG
1 AAAAAA-GAAAAGAA-AG
* * **
48678 GAAGAAG-AAAGAGGG
1 AAAAAAGAAAAGAAAG
48693 AAAAAA-AAAA-AAAG
1 AAAAAAGAAAAGAAAG
* *
48707 AAAAAGGAAAAGAAGG
1 AAAAAAGAAAAGAAAG
* * *
48723 GAAAAAG-AGAGAAAA
1 AAAAAAGAAAAGAAAG
48738 AAAAAAG
1 AAAAAAG
48745 GGGAAAAAGA
Statistics
Matches: 1053, Mismatches: 293, Indels: 300
0.64 0.18 0.18
Matches are distributed among these distances:
12 6 0.01
13 33 0.03
14 122 0.12
15 254 0.24
16 262 0.25
17 192 0.18
18 99 0.09
19 51 0.05
20 22 0.02
21 12 0.01
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAGAAAG
Found at i:47550 original size:123 final size:120
Alignment explanation
Indices: 47335--47554 Score: 279
Period size: 123 Copynumber: 1.8 Consensus size: 120
47325 AAAAGAAAAA
**
47335 AAAGGAAAAAAAAAGAAAAGAAAAGGGAAAAGAGGGAAAGAAAAAAAAGGGAAAAAAAAAAAAAA
1 AAAGGAAAAAAAAAGAAAAGAAAAGAAAAAAGAGGGAAAGAAAAAAAAGGGAAAAAAAAAAAAAA
*
47400 AGAGAAAAAAAGGAAAGAAGGGAAGAGAAAAACAAAAAAGGGAAAAAAAAAGGGAG
66 AGAGAAAAAAAAGAAAGAA-GGAAGAGAAAAACAAAAAAGGGAAAAAAAAAGGGAG
47456 AAAGGAAAGGAAAAAAGAAAAG-AAAGAAAAAAG-GGAAGAAAGAAAAAAGAAGGGAAAAGAAAA
1 AAAGGAAA--AAAAAAGAAAAGAAAAGAAAAAAGAGG--GAAAGAAAAAA-AAGGGAAAA-AAAA
* *
47519 AAAAGAGGAAGAAAAAAAAGAGAA-AA-G-AGAGAAAAA
60 AAAAAAAG-AGAAAAAAAAGA-AAGAAGGAAGAGAAAAA
47555 AGGAAAGAAA
Statistics
Matches: 86, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
121 10 0.12
122 9 0.10
123 32 0.37
124 10 0.12
125 10 0.12
126 13 0.15
127 2 0.02
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.00
Consensus pattern (120 bp):
AAAGGAAAAAAAAAGAAAAGAAAAGAAAAAAGAGGGAAAGAAAAAAAAGGGAAAAAAAAAAAAAA
AGAGAAAAAAAAGAAAGAAGGAAGAGAAAAACAAAAAAGGGAAAAAAAAAGGGAG
Found at i:47552 original size:68 final size:67
Alignment explanation
Indices: 47393--47565 Score: 192
Period size: 68 Copynumber: 2.5 Consensus size: 67
47383 GGGAAAAAAA
* **
47393 AAAAAAAAGAGAAAA-AAAGGAAAGAAGGGAAGAGAAAAACAAAAAAGGGAAAAAAAAAGGGAGA
1 AAAAAAAAGAGAAAAGAAA-GAAAAAAGGGAAGA-AAAAACAAAAAAGGGAAAAAAAAAAAGAGA
47457 AAGG
64 AAGG
*
47461 AAAGGAAAAA-AGAAAAGAAAGAAAAAAGGGAAGAAAGAAA-AAAGAAGGGAAAAGAAAAAAAAG
1 AAA--AAAAAGAGAAAAGAAAGAAAAAAGGGAAGAAA-AAACAAAAAAGGG-AAA-AAAAAAAAG
*
47524 AGGAA-G
61 AGAAAGG
* *
47530 AAAAAAAAGAGAAAAGAGAGAAAAAAGGAAAGAAAA
1 AAAAAAAAGAGAAAAGAAAGAAAAAAGGGAAGAAAA
47566 GGGAAAGGGA
Statistics
Matches: 91, Mismatches: 7, Indels: 15
0.81 0.06 0.13
Matches are distributed among these distances:
67 6 0.07
68 37 0.41
69 29 0.32
70 19 0.21
ACGTcount: A:0.73, C:0.01, G:0.27, T:0.00
Consensus pattern (67 bp):
AAAAAAAAGAGAAAAGAAAGAAAAAAGGGAAGAAAAAACAAAAAAGGGAAAAAAAAAAAGAGAAA
GG
Found at i:47575 original size:189 final size:185
Alignment explanation
Indices: 47279--47632 Score: 412
Period size: 189 Copynumber: 1.9 Consensus size: 185
47269 AAAAAAGAGA
* *
47279 GAAAAAAAAAAAAAAAGAAAAAGAAGGAAGGAAAAAGAACGGAAAAAAAAGAAAAAAAAGGAAAA
1 GAAAAAAAAAAAAAAAGAAAAAGAAGAAAGAAAAAAGAACGGAAAAAAAAGAAAAAAAAGGAAAA
*
47344 AAAAAGAAAAGAAAAGGGAAAAGAGGGAAAGAAAAAAAAGGGAA-AAAAAAAAAAAAAGAGAAAA
66 AAAAAGAAAAGAAAAGGGAAAAGAAGGAAAGAAAAAAAAGGGAAGAAAAAAAAAAAAA-AGAAAA
*
47408 AAAGGAAAGAAGGGAAGAGAAAAACAAAAAAGGGAAAAAAAAAGGGAGAAAGGAAAG
130 AAAGGAAA-AAGGGAAGAGAAAAAAAAAAAAGGGAAAAAAAAAGGGAGAAAGGAAAG
* * * * *
47465 GAAAAAAGAAAAGAAAGAAAAAAGGGAAGAAAGAAAAAAGAA-GGGAAAAGAA-AAAAAAGAGGA
1 GAAAAAAAAAAAAAAAG-AAAAA--GAAGAAAGAAAAAAGAACGGAAAAAAAAGAAAAAAAAGGA
* * * *
47528 AGAAAAAA-AAGAGAAAAGAGAGAAAA-AAGGAAAGAAAAGGGAAAGGGAAGGAAAAAAAAAAGA
63 AAAAAAAAGAAAAGAAAAG-G-GAAAAGAAGGAAAGAAAA--AAAAGGGAA-GAAAAAAAAAAAA
* **** *
47591 AAGCAGGGGAGGAAAAAGGGGAGAGAAAAAAAAAAAAGGGAA
123 AAGAAAAAAAGGAAAAAGGGAAGAGAAAAAAAAAAAAGGGAA
47633 GGAGAGGAAA
Statistics
Matches: 140, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
186 24 0.17
187 34 0.24
188 13 0.09
189 48 0.34
190 9 0.06
191 12 0.09
ACGTcount: A:0.72, C:0.01, G:0.27, T:0.00
Consensus pattern (185 bp):
GAAAAAAAAAAAAAAAGAAAAAGAAGAAAGAAAAAAGAACGGAAAAAAAAGAAAAAAAAGGAAAA
AAAAAGAAAAGAAAAGGGAAAAGAAGGAAAGAAAAAAAAGGGAAGAAAAAAAAAAAAAAGAAAAA
AAGGAAAAAGGGAAGAGAAAAAAAAAAAAGGGAAAAAAAAAGGGAGAAAGGAAAG
Found at i:47591 original size:85 final size:88
Alignment explanation
Indices: 47385--47591 Score: 212
Period size: 85 Copynumber: 2.4 Consensus size: 88
47375 AAAAAAAAGG
* * * ** *
47385 GAAAAAAAAAAAAAAAGAGAA-AAAAAGGAAAGAAGGGAAGAGAAAAACAAAAAAGGGAAAAAAA
1 GAAAAGAAAGAAAAAAGGGAAGAAAAAAAAAAGAAGGGAAAAGAAAAACAAAAAAGGGAAAAAAA
* *
47449 AAGGGAGAAAGGAAAGGAAAAAA
66 AAGAGAGAAAAGAAAGGAAAAAA
* *
47472 GAAAAGAAAGAAAAAAGGGAAGAAAGAAAAAAGAAGGGAAAAG-AAAA-AAAAGA-GGAAGAAAA
1 GAAAAGAAAGAAAAAAGGGAAGAAAAAAAAAAGAAGGGAAAAGAAAAACAAAAAAGGGAA-AAAA
*
47534 AAA-AGAGAAAAGAGA-GAAAAAA
65 AAAGAGAGAAAAGAAAGGAAAAAA
* **
47556 GGAAAGAAA-AGGGAAAGGGAAGGAAAAAAAAAAGAA
1 GAAAAGAAAGA-AAAAAGGGAA-GAAAAAAAAAAGAA
47592 AGCAGGGGAG
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
83 1 0.01
84 23 0.23
85 26 0.26
86 12 0.12
87 22 0.22
88 17 0.17
ACGTcount: A:0.72, C:0.00, G:0.27, T:0.00
Consensus pattern (88 bp):
GAAAAGAAAGAAAAAAGGGAAGAAAAAAAAAAGAAGGGAAAAGAAAAACAAAAAAGGGAAAAAAA
AAGAGAGAAAAGAAAGGAAAAAA
Found at i:47592 original size:21 final size:21
Alignment explanation
Indices: 47554--47593 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
47544 AGAGAGAAAA
* **
47554 AAGGAAAGAAAAGGGAAAGGG
1 AAGGAAAAAAAAAAGAAAGGG
47575 AAGGAAAAAAAAAAGAAAG
1 AAGGAAAAAAAAAAGAAAG
47594 CAGGGGAGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (21 bp):
AAGGAAAAAAAAAAGAAAGGG
Found at i:47643 original size:23 final size:23
Alignment explanation
Indices: 47610--47682 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 23
47600 AGGAAAAAGG
*
47610 GGAGAGAAAAAAAAAAAAGGGAA
1 GGAGAGGAAAAAAAAAAAGGGAA
***
47633 GGAGAGGAAAAAAAAAAAAAAAAAA
1 GGAGAGG--AAAAAAAAAAAGGGAA
47658 GGAGAAGGAAAAAAAAAGAAGGGAA
1 GGAG-AGGAAAAAAAAA-AAGGGAA
47683 AAAAGAGGGA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
23 6 0.15
24 9 0.23
25 21 0.54
26 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (23 bp):
GGAGAGGAAAAAAAAAAAGGGAA
Found at i:47741 original size:60 final size:58
Alignment explanation
Indices: 47666--47854 Score: 181
Period size: 59 Copynumber: 3.2 Consensus size: 58
47656 AAGGAGAAGG
* *
47666 AAAAAAAAAGAAGGGAAAAAAGAGGGAAAGGAAAAAGAAAGGAGAGAAGAGAAAAGAA
1 AAAAAAAAAAAAGGGAAAAAAGAAGGAAAGGAAAAAGAAAGGAGAGAAGAGAAAAGAA
*** *
47724 AAAAGAAAAAACAAGGGAAAGCGGAAGGAAA-AAAAAAGAAAGG-G-GAAGAGGAAAA-AA
1 AAAA-AAAAAA-AAGGGAAAAAAGAAGGAAAGGAAAAAGAAAGGAGAGAAGA-GAAAAGAA
* * *
47781 AAAAAAAAGAAAAGAGGAAAAAAAAAAAGAAAGGAAAAGAAAAGTAGGAGAGAAGA-AAAAGAA
1 AAAAAAAA-AAAAG-GG-AAAAAAGAAGGAAAGGAAAA-AGAA--AGGAGAGAAGAGAAAAGAA
47844 AAAAAAAAAAA
1 AAAAAAAAAAA
47855 GAAAAAAAAA
Statistics
Matches: 105, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
56 7 0.07
57 15 0.14
58 19 0.18
59 20 0.19
60 18 0.17
62 10 0.10
63 11 0.10
64 5 0.05
ACGTcount: A:0.72, C:0.01, G:0.26, T:0.01
Consensus pattern (58 bp):
AAAAAAAAAAAAGGGAAAAAAGAAGGAAAGGAAAAAGAAAGGAGAGAAGAGAAAAGAA
Found at i:47764 original size:21 final size:23
Alignment explanation
Indices: 47740--47806 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 23
47730 AAAAACAAGG
47740 GAAAGCGG-A-AGGAAAAAAAAA
1 GAAAGCGGAAGAGGAAAAAAAAA
*
47761 GAAAGGGGAAGAGGAAAAAAAAAA
1 GAAAGCGGAAGAGG-AAAAAAAAA
* **
47785 AAAAG-AAAAGAGGAAAAAAAAA
1 GAAAGCGGAAGAGGAAAAAAAAA
47807 AAGAAAGGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 7 0.18
22 10 0.26
23 9 0.23
24 13 0.33
ACGTcount: A:0.72, C:0.01, G:0.27, T:0.00
Consensus pattern (23 bp):
GAAAGCGGAAGAGGAAAAAAAAA
Found at i:47775 original size:23 final size:23
Alignment explanation
Indices: 47769--48520 Score: 130
Period size: 23 Copynumber: 32.1 Consensus size: 23
47759 AAGAAAGGGG
47769 AAGAGGAAAAAAAAAAAAAAGAA
1 AAGAGGAAAAAAAAAAAAAAGAA
47792 AAGAGGAAAAAAAAAAAGAAAGGAA
1 AAGAGGAAAAAAAAAAA-AAA-GAA
** ** * *
47817 AAGA--AAAGTAGGAGAGAAGAA
1 AAGAGGAAAAAAAAAAAAAAGAA
*
47838 AA-AGAAAAAAAAAAAAAGAA-AA
1 AAGAGGAAAAAAAAAAAA-AAGAA
47860 AA-A--AAAAAAAAGAAGAGAAA-AA
1 AAGAGGAAAAAAAA-AA-A-AAAGAA
*
47882 AAGAGGAAAGGGAAAAGGAGAAAAA-AA
1 AAGAGGAAA---AAAA--AAAAAAAGAA
*
47909 AAGA--AAAAAAAAAAAAAAAAA
1 AAGAGGAAAAAAAAAAAAAAGAA
* **
47930 AAGGGGGGGGAAAAAAAGAAAGGAAGAA
1 AA----GAGGAAAAAAA-AAAAAAAGAA
* *
47958 GAGAAGAAAGAAAGGAAAAGAAAAGGAA
1 AAGAGGAAA-AAA--AAAA-AAAA-GAA
**
47986 AA-AGGGGAAAATAAAAAAAA-AA
1 AAGAGGAAAAAA-AAAAAAAAGAA
**
48008 AA-A--AAAAAAGGAAAAAAG--
1 AAGAGGAAAAAAAAAAAAAAGAA
* *
48026 AAG-GGAAAAAGAGAAAAAAGAA
1 AAGAGGAAAAAAAAAAAAAAGAA
**
48048 GGGAGGGAGAGAAAAAAAAAAAA-AA
1 AAGA-GGA-A-AAAAAAAAAAAAGAA
*
48073 AAGAGGGAAGAGGGAGAAAAAAAAA-AA
1 AAGA-GGAA-A---AAAAAAAAAAAGAA
48100 AAGA--AAAGAAAAGAAAAAAA-AA
1 AAGAGGAAA-AAAA-AAAAAAAGAA
*
48122 AA-A-AAAAAAAAAGAAAAAAG-A
1 AAGAGGAAAAAAAA-AAAAAAGAA
** ****
48143 AAGAGGAAACGAAAAGGGGA-AA
1 AAGAGGAAAAAAAAAAAAAAGAA
** *
48165 AAGAGGAGGAGAAAAAAAAA-AA
1 AAGAGGAAAAAAAAAAAAAAGAA
* *
48187 AAGA-AAAAAAGAAGAAAAAAAGGA
1 AAGAGGAAAAA-AA-AAAAAAAGAA
48211 AAGA--AAAAAAAAAAAAAA-AA
1 AAGAGGAAAAAAAAAAAAAAGAA
* *
48231 AAGGGAGAAAAAAAAAAAAAAAAA
1 AAGAG-GAAAAAAAAAAAAAAGAA
*
48255 AAGAGGAAAAAAAAAAAAAGGCAA
1 AAGAGGAAAAAAAAAAAAAAG-AA
* *
48279 AA-A--AAAGAAGAAAAGAAA-AA
1 AAGAGGAAA-AAAAAAAAAAAGAA
*
48299 AAGAGAAAAAAAAAGAAAGAGAGAAGGGAA
1 AAGAG-GAAAAAAA-AAA-A-A-AA--GAA
**
48329 AAG-GGAAGAGAAAAGGGAAAAA-AA
1 AAGAGGAA-A-AAAA-AAAAAAAGAA
48353 AAGAGGGAAAAAAAAAAAAAAGAA
1 AAGA-GGAAAAAAAAAAAAAAGAA
*
48377 GAGGATGAGGAAAAGAAAAAATAAGGAGAA
1 -A--A-GAGGAAAA-AAAAAA-AA-AAGAA
48407 AA-A--AATAAAAAAGAAAAAAG--
1 AAGAGGAA-AAAAAA-AAAAAAGAA
* * *
48427 AAGGGGAAAAAAGGAAAGAAA-AA
1 AAGAGGAAAAAA-AAAAAAAAGAA
*
48450 AAGA--AAAGAAAAAAGCAAAAGAA
1 AAGAGGAAA-AAAAAA-AAAAAGAA
*
48473 AA-A--AAAGAAAAAGAAAAA-AA
1 AAGAGGAAA-AAAAAAAAAAAGAA
48493 AAGAGGAGAAAAAAAGAAAAAAGAA
1 AAGAGGA-AAAAAAA-AAAAAAGAA
48518 AAG
1 AAG
48521 CATAAGGAAG
Statistics
Matches: 543, Mismatches: 88, Indels: 194
0.66 0.11 0.24
Matches are distributed among these distances:
18 2 0.00
19 6 0.01
20 47 0.09
21 52 0.10
22 106 0.20
23 107 0.20
24 63 0.12
25 38 0.07
26 21 0.04
27 50 0.09
28 28 0.05
29 7 0.01
30 16 0.03
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (23 bp):
AAGAGGAAAAAAAAAAAAAAGAA
Found at i:47817 original size:5 final size:5
Alignment explanation
Indices: 47774--47932 Score: 59
Period size: 5 Copynumber: 32.2 Consensus size: 5
47764 AGGGGAAGAG
* * *
47774 GAAAA AAAAA AAAAA GAAAA GAGGAAA -AAAA -AAAA GAAAG GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GA--AAA GAAAA GAAAA GAAAA GAAAA GAAAA
** * * * *
47824 GTAGGA GAGAA GAAAAA GAAAA -AAAA AAAAA GAAAAA AAAAA AAAAA
1 G-AAAA GAAAA G-AAAA GAAAA GAAAA GAAAA G-AAAA GAAAA GAAAA
* * * *
47871 GAAGA GAAAA -AAAGA GGAAAGG GAAAA G--GA GAAAA AAAAA GAAAA
1 GAAAA GAAAA GAAA-A -GAAA-A GAAAA GAAAA GAAAA GAAAA GAAAA
47916 -AAAA -AAAA -AAAA -AAAA G
1 GAAAA GAAAA GAAAA GAAAA G
47933 GGGGGGGAAA
Statistics
Matches: 122, Mismatches: 19, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
3 2 0.02
4 30 0.25
5 67 0.55
6 16 0.13
7 7 0.06
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (5 bp):
GAAAA
Found at i:47898 original size:57 final size:58
Alignment explanation
Indices: 47772--47926 Score: 167
Period size: 56 Copynumber: 2.6 Consensus size: 58
47762 AAAGGGGAAG
*
47772 AGGAAAAAAAAAAAAAAGAAAAGAGGAAAAAAAAAAAGAAAGGAAAAGAAAAGTAGGAGAGA
1 AGGAAAAGAAAAAAAAA-AAAAGA--AAAAAAAAAAA-AAAGGAAAAGAAAAGTAGGAGAGA
*
47834 AGAAAAAGAAAAAAAAAAAAAGAAAAAAAAAAAAAAAGAAGAGAAA-AAAAG-AGGA-A-A
1 AGGAAAAGAAAAAAAAAAAAAGAAAAAAAAAAAAAAAG--GA-AAAGAAAAGTAGGAGAGA
* * *
47891 GGGAAAAG-GAGAAAAAAAAAGAAAAAAAAAAAAAAA
1 AGGAAAAGAAAAAAAAAAAAAGAAAAAAAAAAAAAAA
47927 AAAAAGGGGG
Statistics
Matches: 84, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
56 26 0.31
57 7 0.08
58 5 0.06
59 15 0.18
60 7 0.08
61 9 0.11
62 15 0.18
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (58 bp):
AGGAAAAGAAAAAAAAAAAAAGAAAAAAAAAAAAAAAGGAAAAGAAAAGTAGGAGAGA
Found at i:47909 original size:59 final size:58
Alignment explanation
Indices: 47747--47930 Score: 176
Period size: 60 Copynumber: 3.0 Consensus size: 58
47737 AGGGAAAGCG
* *
47747 GAAG-GAAAAAAA-AAGAAAGGGGAAGAGGAAAAAAAAAAAAAAGAAAAGAGGAAAAAAAAAAA
1 GAAGAGAAAAAAAGAGGAAA-GGGAAAAGG-AAAAAAAAAAAAAG-AAA-A--AAAAAAAAAAA
* * *
47809 GAA-AGGAAAAGAAAAGTAGGAGAGAAGAAAAAGAAAAAAAAAAAAAGAAAAAAAAAAAAAAA
1 GAAGA-G-AAA-AAAAG-AGGAAAG-GGAAAAGGAAAAAAAAAAAAAGAAAAAAAAAAAAAAA
*
47871 GAAGAGAAAAAAAGAGGAAAGGGAAAAGGAGAAAAAAAAAGAAAAAAAAAAAAAAAAAAA
1 GAAGAGAAAAAAAGAGGAAAGGGAAAAGGA-AAAAAAAAA-AAAGAAAAAAAAAAAAAAA
47931 AGGGGGGGGA
Statistics
Matches: 103, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
58 7 0.07
59 15 0.15
60 23 0.22
61 3 0.03
62 18 0.17
63 2 0.02
64 4 0.04
65 7 0.07
66 15 0.15
67 9 0.09
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.01
Consensus pattern (58 bp):
GAAGAGAAAAAAAGAGGAAAGGGAAAAGGAAAAAAAAAAAAAGAAAAAAAAAAAAAAA
Found at i:47927 original size:57 final size:60
Alignment explanation
Indices: 47775--47933 Score: 168
Period size: 59 Copynumber: 2.6 Consensus size: 60
47765 GGGGAAGAGG
*
47775 AAAA-AAAAAAAAAAGAAAAGAGGAAAAAAAAAAAGAAAGGAAAAGAAAAGTAGGAGAGAAGA
1 AAAAGAAAAAAAAAAGAAAA-A--AAAAAAAAAAAGAAAGGAAAAGAAAAGTAGGAAAGAAGA
* *
47837 AAAAGAAAAAAAAAA-AAAGAAAAAAAAAAAAA-AAGAAGAGAAA-AAAAG-AGGAAAG-GGA
1 AAAAGAAAAAAAAAAGAAA-AAAAAAAAAAAAAGAA-AGGA-AAAGAAAAGTAGGAAAGAAGA
* *
47895 AAAGGAGAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAGG
1 AAAAGA-AAAAAAAAAGAAAAAAAAAAAAAAAAGAAAGG
47934 GGGGGGAAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 17
0.79 0.05 0.16
Matches are distributed among these distances:
58 7 0.08
59 32 0.38
60 24 0.28
61 3 0.04
62 8 0.09
63 11 0.13
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (60 bp):
AAAAGAAAAAAAAAAGAAAAAAAAAAAAAAAAGAAAGGAAAAGAAAAGTAGGAAAGAAGA
Found at i:47946 original size:1 final size:1
Alignment explanation
Indices: 47836--47931 Score: 57
Period size: 1 Copynumber: 96.0 Consensus size: 1
47826 AGGAGAGAAG
* * * * * * ** *** **
47836 AAAAAGAAAAAAAAAAAAAGAAAAAAAAAAAAAAAGAAGAGAAAAAAAGAGGAAAGGGAAAAGGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
47901 GAAAAAAAAAGAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
47932 GGGGGGGGAA
Statistics
Matches: 73, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (1 bp):
A
Found at i:47946 original size:84 final size:84
Alignment explanation
Indices: 47855--48016 Score: 204
Period size: 84 Copynumber: 1.9 Consensus size: 84
47845 AAAAAAAAAA
*
47855 GAAAAAAAAAAAAAAAGAAGAGAA-AAA-AAGAGGAAAGGGAAAAGGAGAAAA-AAAAAGAAAAA
1 GAAAAAAAAAAAAAAAGAAGAGAAGAAAGAA-AGGAAA-AGAAAAGGA-AAAAGAAAAAGAAAAA
47917 AAAAAAAAAAAAAAAGGGGGGG
63 AAAAAAAAAAAAAAAGGGGGGG
* ** * *
47939 GAAAAAAAGAAAGGAAGAAGAGAAGAAAGAAAGGAAAAGAAAAGGAAAAAGGGGAAAATAAAAAA
1 GAAAAAAAAAAAAAAAGAAGAGAAGAAAGAAAGGAAAAGAAAAGGAAAAA--GAAAAAGAAAAAA
48004 AAAAAAAAAAAAA
64 AAAAAAAAAAAAA
48017 GGAAAAAAGA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
83 4 0.06
84 29 0.43
85 9 0.13
86 25 0.37
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (84 bp):
GAAAAAAAAAAAAAAAGAAGAGAAGAAAGAAAGGAAAAGAAAAGGAAAAAGAAAAAGAAAAAAAA
AAAAAAAAAAAAGGGGGGG
Found at i:48004 original size:196 final size:194
Alignment explanation
Indices: 47634--47982 Score: 414
Period size: 196 Copynumber: 1.8 Consensus size: 194
47624 AAAAGGGAAG
* * ** *
47634 GAGAGGAAAAAAAAAAAAAAAAAAGGAGAAGGAAAAAAAAAGAAGGGAAAAAAGAGGGAAAGGAA
1 GAGAAGAAAAAAAAAAAAAAAAAAGGAAAAAAAAAAAAAAAGAAGGAAAAAAAGAGGGAAAGG--
* ***
47699 AAAGAAAGGAGAGAAGAGAAAAGAAAAAAGAAAAAACAAGGGAAAGCGGAAGGAAAAAAAAAGAA
64 AAAGAAAGGAGAGAAGAAAAAAGAAAAAAGAAAAAACAAAAAAAAGCGGAAGGAAAAAAAAAGAA
*
47764 AGGGGAAGAGGAAAAAAAAAAAAAAGAAAAGAGGAAAAAAAAAAAGAAAGGAAAAGAAAAGTAGG
129 AGGAGAAGAGGAAAAAAAAAAAAAAGAAAAGAGGAAAAAAAAAAAGAAAGGAAAAGAAAAGTAGG
47829 A
194 A
47830 GAGAAGAAAAAGAAAAAAAAAAAAA-GAAAAAAAAAAAAAAAGAAGAGAAAAAAAGA-GGAAAGG
1 GAGAAGAAAAA-AAAAAAAAAAAAAGGAAAAAAAAAAAAAAAGAAG-GAAAAAAAGAGGGAAAGG
* * **
47893 -GA-AAAGGAGA-AA-AAAAAAGAAAAAA-AAAAAA-AAAAAAAAG-GG-GGGGGAAAAAAAGAA
64 AAAGAAAGGAGAGAAGAAAAAAGAAAAAAGAAAAAACAAAAAAAAGCGGAAGGAAAAAAAAAGAA
**
47950 AGGAAGAAGA-GAAGAAAGAAAGGAAAAGAAAAG
129 AGG-AGAAGAGGAA-AAA-AAAAAAAAAGAAAAG
47983 GAAAAAGGGG
Statistics
Matches: 132, Mismatches: 16, Indels: 18
0.80 0.10 0.11
Matches are distributed among these distances:
186 18 0.14
187 10 0.08
188 19 0.14
189 6 0.05
190 12 0.09
191 2 0.02
192 8 0.06
193 1 0.01
196 34 0.26
197 22 0.17
ACGTcount: A:0.72, C:0.01, G:0.27, T:0.00
Consensus pattern (194 bp):
GAGAAGAAAAAAAAAAAAAAAAAAGGAAAAAAAAAAAAAAAGAAGGAAAAAAAGAGGGAAAGGAA
AGAAAGGAGAGAAGAAAAAAGAAAAAAGAAAAAACAAAAAAAAGCGGAAGGAAAAAAAAAGAAAG
GAGAAGAGGAAAAAAAAAAAAAAGAAAAGAGGAAAAAAAAAAAGAAAGGAAAAGAAAAGTAGGA
Found at i:48024 original size:28 final size:28
Alignment explanation
Indices: 47984--49138 Score: 122
Period size: 29 Copynumber: 40.1 Consensus size: 28
47974 AAAGAAAAGG
** *
47984 AAAAAGGGGAAAATAAAAAAAAAAAAAA
1 AAAAAGGAAAAAAGAAAAAAAAAAAAAA
*
48012 AAAAAGGAAAAAAGAAGGGAAAAAGAGAAAAA
1 AAAAAGGAAAAAAGAA---AAAAA-AAAAAAA
* * ** *
48044 AGAAGGGAGGGAGAGAAAAAAAAAAAAAA
1 AAAAAGGA-AAAAAGAAAAAAAAAAAAAA
* * * **
48073 AAGAGGGAAGAGGGAGAAAAAAAAAAAAA
1 AAAAAGGAAAAAAGA-AAAAAAAAAAAAA
*
48102 GAAAA-GAAAAGAA-AAAAAAAAAAAAAA
1 AAAAAGGAAAA-AAGAAAAAAAAAAAAAA
* ** **
48129 AAAAA-GAAAAAAG-AAAGAGGAAACGA
1 AAAAAGGAAAAAAGAAAAAAAAAAAAAA
** * ** *
48155 AAAGGGGAAAAAGAGGAGGAGAAAAAAAA
1 AAAAAGGAAAAA-AGAAAAAAAAAAAAAA
*
48184 AAAAAGAAAAAAAGAAGAAAAAAAGGAAAGAA
1 AAAAAGGAAAAAAGAA-AAAAAAA--AAA-AA
*
48216 AAAAA--AAAAAA-AAAAAAGGGAGAAAAAA
1 AAAAAGGAAAAAAGAAAAAA---AAAAAAAA
* **
48244 AAAAA--AAAAAA-AAGAGGAAAAAAAA
1 AAAAAGGAAAAAAGAAAAAAAAAAAAAA
* * * *
48269 AAAAAGGCAAAAA-AAAGAAGAAAAGAA
1 AAAAAGGAAAAAAGAAAAAAAAAAAAAA
* * **
48296 AAAAAGAGAAAAAA-AAAGAAAGAGAGAAGG
1 AAAAAG-GAAAAAAGAAA-AAA-AAAAAAAA
* * * ***
48326 GAAAAGG-GAAGAGAAAAGGGAAAAAAA
1 AAAAAGGAAAAAAGAAAAAAAAAAAAAA
* * * * *
48353 AAGAGGGAAAAAA-AAAAAAAAGAAGAG
1 AAAAAGGAAAAAAGAAAAAAAAAAAAAA
* ** ** *
48380 GATGAGG--AAAAGAAAAAATAAGGAGAA
1 AAAAAGGAAAAAAGAAAAAA-AAAAAAAA
* * ****
48407 AAAAA-TAAAAAAGAAAAAAGAAGGGGA
1 AAAAAGGAAAAAAGAAAAAAAAAAAAAA
48434 AAAAAGGAAAGAAA-AAAAGAAAAGAAAAAA
1 AAAAAGGAAA-AAAGAAAA-AAAA-AAAAAA
* *
48464 GCAAAA-GAAAAAA-AAGAAAAAGAAAAAA
1 -AAAAAGGAAAAAAGAA-AAAAAAAAAAAA
* * *
48492 AAAGAGGAGAAAAA-AAGAAAAAAGAAAAG
1 AAAAAGGA-AAAAAGAA-AAAAAAAAAAAA
* * ****
48521 CATAAGGAAGGGGGGAAAAAAAAAAAAGGAA
1 AAAAAGGAA-AAAAGAAAAAAAAAAAA--AA
* * * *
48552 AAGAAGGGGAGAAAAGAAAAAGAAAGAAAA
1 AA-AA-AGGAAAAAAGAAAAAAAAAAAAAA
*
48582 AGAAA-GAAAAAAGAAAAAAGGAAGAACAAAA
1 AAAAAGGAAAAAAGAAAAAA--AA-AA-AAAA
** *
48613 AAAAA-GAAAAAA-AAAAAAGGGAAAAGA
1 AAAAAGGAAAAAAGAAAAAA-AAAAAAAA
*
48640 AAAAA-GAAAGAGAGGAAAAAAAAAAAGGAAA
1 AAAAAGGAAA-A-AAGAAAAAAAAAAA--AAA
**
48671 AGAAGGGGAAGAAGAAAGAGGGAAAAAAAAAAAAA
1 A-AAAAGG-A-AA-AAAGA---AAAAAAAAAAAAA
** * * *
48706 GAAAAAGGAAAAGAAGGGAAAAAGAGAGAA
1 -AAAAAGGAAAA-AAGAAAAAAAAAAAAAA
*** *
48736 AAAAA--AAAGGGGAAAAAGAAAAAAAA
1 AAAAAGGAAAAAAGAAAAAAAAAAAAAA
* **
48762 GAAAAGGAGAGAAGGGAAGAAAAAAAAAAAA
1 AAAAAGGA-A-AAAAGAA-AAAAAAAAAAAA
* ** * ***
48793 AAAAGGGAAAAGGGGGAGGGAAAAAAAAA
1 AAAAAGGAAAA-AAGAAAAAAAAAAAAAA
***
48822 AAAAAGGAGAAGGGGAAAAAAAAAAAGAAA
1 AAAAAGGA-AAAAAGAAAAAAAAAAA-AAA
* ****
48852 AAAAGGGGAGGGGAGAAAGGAGAAAAAAAAAA
1 AAAA-AGGAAAAAAGAAA--A-AAAAAAAAAA
** * * *
48884 AGGAAGGCAAAAGGGAGAGGAAAAAGAAAAAA
1 AAAAAGG-AAAA--AAGA-AAAAAAAAAAAAA
***
48916 AAAAA-GAAAAAAG--AAGGGAAAAAAA
1 AAAAAGGAAAAAAGAAAAAAAAAAAAAA
* **
48941 AAAAAGG-AAAAA-AAGAGGAAAAAAAA
1 AAAAAGGAAAAAAGAAAAAAAAAAAAAA
** **
48967 AAAGGGGAAAAAA-AAAGGAGAAAAAAAAGGG
1 AAAAAGGAAAAAAGAAA--A-AAAAAAAA-AA
* **
48998 AAAAA--AAAAAA-AAAAGAAAA-GGAA
1 AAAAAGGAAAAAAGAAAAAAAAAAAAAA
* ** * * *
49022 AAGAAGGAGGGGAAAGAAAAGAGAAAAAAT
1 AAAAAGGA--AAAAAGAAAAAAAAAAAAAA
*
49052 AAAAGGGAGAAAAA-AAAAAGAAAAAAAAA
1 AAAAAGGA-AAAAAGAAAAA-AAAAAAAAA
***
49081 GGGAA-GACAAAAAG-AAAAAAAAAAAAA
1 AAAAAGGA-AAAAAGAAAAAAAAAAAAAA
*
49108 AAAAAGGAAGAAAGAAAAAAAAAAAAAA
1 AAAAAGGAAAAAAGAAAAAAAAAAAAAA
49136 AAA
1 AAA
49139 GGAGAAAAGG
Statistics
Matches: 797, Mismatches: 235, Indels: 190
0.65 0.19 0.16
Matches are distributed among these distances:
24 4 0.01
25 34 0.04
26 53 0.07
27 136 0.17
28 133 0.17
29 174 0.22
30 96 0.12
31 60 0.08
32 53 0.07
33 22 0.03
34 9 0.01
35 12 0.02
36 1 0.00
37 10 0.01
ACGTcount: A:0.74, C:0.01, G:0.24, T:0.01
Consensus pattern (28 bp):
AAAAAGGAAAAAAGAAAAAAAAAAAAAA
Found at i:48036 original size:11 final size:11
Alignment explanation
Indices: 48008--48049 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
47998 AAAAAAAAAA
*
48008 AAAAAAAAAGG
1 AAAAAAGAAGG
48019 AAAAAAGAAGG
1 AAAAAAGAAGG
*
48030 GAAAAAG-A-G
1 AAAAAAGAAGG
48039 AAAAAAGAAGG
1 AAAAAAGAAGG
48050 GAGGGAGAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 7 0.27
10 2 0.08
11 17 0.65
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAGG
Found at i:48061 original size:91 final size:90
Alignment explanation
Indices: 47848--48373 Score: 221
Period size: 91 Copynumber: 5.9 Consensus size: 90
47838 AAAGAAAAAA
* * * * *
47848 AAAAAAAGAAAAAAAAAAAAAAAGAAGAGAAA--AAAAGAGGAAAGGGAAAAGGAGAAAAAAAAA
1 AAAAAAAGAAAGAAAGAAGAGAAGAA-AGAAAGGAAAAGA--AAAGGAAAAAGGAGAAAAAAAAA
**
47911 GAAAAAAAAAAAAAAAAAAAAGGGGGGGG
63 GAAAAAAAAAAAAAAAAAAAA-GGAAGGG
* *
47940 AAAAAAAGAAAGGAAGAAGAGAAGAAAGAAAGGAAAAGAAAAGGAAAAAGGGGAAAATAAAAA-A
1 AAAAAAAGAAAGAAAGAAGAGAAGAAAGAAAGGAAAAGAAAAGGAAAAAGGAGAAAA-AAAAAGA
48004 AAAAAAAAAAAAAGGAAAAAA-GAAGGG
65 AAAAAAAAAAAAA--AAAAAAGGAAGGG
* ** * * *
48031 AAAAAGAGAAA-AAAGAAGGGAGGGAGAGAAA-AAAAAAAAAAAAAGAGGGAAGAGGGAGAAAAA
1 AAAAAAAGAAAGAAAGAA--GA--GA-AGAAAGAAAGGAAAAGAAA-A-GGAAAAAGGAGAAAAA
* *
48094 AAAA-AAAAGAAAAGAAAAGAAAAAA--AA---
59 AAAAGAAAA-AAAAAAAAAAAAAAAAGGAAGGG
* *
48121 AAAAAAA-AAA-AAAGAA-AAAAGAAAG--AGGAAACGAAAAGGGGAAAAAGAGGAGGAGAAAAA
1 AAAAAAAGAAAGAAAGAAGAGAAGAAAGAAAGGAAAAGAAAA--GG-AAAA-AGGA-GA-AAAAA
* * *
48181 AAAAAAAAGAAAAAAAGAAGAAAAAAAGGAAAGA
60 AAAGAAAA-AAAAAAA-AA-AAAAAAAGGAAGGG
* * * * *
48215 AAAAAAAAAAAAAAAAAAG-GGAGAAA-AAA--AAAA-AAAA--AAAAA-GAG-GAAAAAAA-AA
1 AAAAAAAGAAAGAAAGAAGAGAAGAAAGAAAGGAAAAGAAAAGGAAAAAGGAGAAAAAAAAAGAA
*** * **
48270 AAAAGGCAAAAAAAAGAA-GAAAAG
66 AAAAAAAAAAAAAAAAAAGGAAGGG
* * * * ** *
48294 AAAAAAAGAGAAAAAAAAAGA-AAGAGAGAAGGGAAAAGGGAAGAGAAAAGGGA-AAAAAAAAGA
1 AAAAAAAGA-AAGAAAGAAGAGAAGAAAGAAAGGAAAAGAAAAG-GAAAAAGGAGAAAAAAAA-A
**
48357 GGGAAAAAAAAAAAAAA
63 GAAAAAAAAAAAAAAAA
48374 GAAGAGGATG
Statistics
Matches: 336, Mismatches: 53, Indels: 92
0.70 0.11 0.19
Matches are distributed among these distances:
79 12 0.04
80 20 0.06
81 5 0.01
82 14 0.04
83 16 0.05
84 13 0.04
85 2 0.01
86 10 0.03
87 17 0.05
88 11 0.03
89 20 0.06
90 22 0.07
91 51 0.15
92 28 0.08
93 14 0.04
94 29 0.09
95 21 0.06
96 30 0.09
97 1 0.00
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.00
Consensus pattern (90 bp):
AAAAAAAGAAAGAAAGAAGAGAAGAAAGAAAGGAAAAGAAAAGGAAAAAGGAGAAAAAAAAAGAA
AAAAAAAAAAAAAAAAAAGGAAGGG
Found at i:48093 original size:1 final size:1
Alignment explanation
Indices: 48089--48140 Score: 68
Period size: 1 Copynumber: 52.0 Consensus size: 1
48079 GAAGAGGGAG
* * * *
48089 AAAAAAAAAAAAAGAAAAGAAAAGAAAAAAAAAAAAAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
48141 GAAAGAGGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:48100 original size:57 final size:57
Alignment explanation
Indices: 47999--49366 Score: 234
Period size: 58 Copynumber: 22.4 Consensus size: 57
47989 GGGGAAAATA
* * ** **
47999 AAAAAAAAAAAAAAAAAAGGAAAAAAGAAGGGAAAAAGAGAAAAAAGAAGGGAGGGAG
1 AAAAAAAAAAAAAAAAAAGGAAAAAAGAAGGGAAAAAAAAAAAAAAGAAAAGA-AAAG
* ***
48057 AGAAAAAAAAAAAAAAAA-GAGGGAAG-AGGGAGAAAAAAAAAAAAAGAAAAGAAAAG
1 AAAAAAAAAAAAAAAAAAGGAAAAAAGAAGGGA-AAAAAAAAAAAAAGAAAAGAAAAG
* * **
48113 AAAAAAAAAAAAAAAAAAAAAGAAAAAAGAAAGAGGAAACGAAAAGGGGAAAAAGAGGAGGAGAA
1 --AAAAAAAAAAAAAAAAAAGGAAAAAAG-AAG-GGAAA--AAAA----AAAAA-AAGAAAAGAA
48178 AA-
55 AAG
* * *
48180 AAAAAAAAAGAAAAAAAGAAGAAAAAAAGGAA-AGAAAAAAAAAAAAAAAAAAAGGGAGAAA-
1 AAAAAAAAA-AAAAAAA-AAGGAAAAAA-GAAGGGAAAAAAAAAAAAAAGAAAA--GA-AAAG
* *
48241 AAAAAAAAAAAAAAAAGAGGAAAAAA-AA---AAAAAGGCAAAAAAAAG--AAGAAAAG
1 AAAAAAAAAAAAAAAAAAGGAAAAAAGAAGGGAAAAA--AAAAAAAAAGAAAAGAAAAG
* * * ** *
48294 AAAAAAAGAGAAAAAAAAA-GAAAGAGAGAAGGGAAAAGGGAAGAGAAAAGGGAAAAAAAAAG
1 AAAAAAA-AAAAAAAAAAAGGAAA-AAAGAAGGGAAAA---AA-AAAAAAAAGAAAAGAAAAG
*** * * * * * *
48356 AGGGAAAAAAAAAAAAAA-G-AAGAGGATGAGGAAAAGAAAAAATAAGGAGAAA-AAAAT
1 AAAAAAAAAAAAAAAAAAGGAAAAAAGAAG-GGAAAA-AAAAAAAAAAGA-AAAGAAAAG
* * ** * *
48413 AAAAAAGAAAAAAGAAGGGGAAAAAAGGAA-AGAAAAAAAGAAAAGAA-AAAAGCAAAAG
1 AAAAAAAAAAAAAAAAAAGGAAAAAA-GAAGGGAAAAAAA-AAAAAAAGAAAAG-AAAAG
* * * *
48471 AAAAAAAAGAAAAAGAAA--AAAAAAG-AGGAGAAAAAAAGAAAAAAGAAAAGCATAAGG
1 AAAAAAAAAAAAAAAAAAGGAAAAAAGAAGG-GAAAAAAAAAAAAAAGAAAAG-A-AAAG
**** *
48528 AAGGGGGGAAAAAAAAAAAAGG--AAAAGAAGGGGAGAAAAGAAAAAGAAAGAAAA-AGAAAG
1 AA--AAAAAAAAAAAAAAAAGGAAAAAAGAA-GGGA-AAAA-AAAAAAAAAGAAAAGA-AAAG
* * * * **
48588 AAAAAAGAAAAAAGGAAGAA-CAAAAAA-AA-AGAAAAAAAAAAAAGGGAAAAGAAAA-
1 AAAAAA-AAAAAA-AAAAAAGGAAAAAAGAAGGGAAAAAAAAAAAAAAGAAAAGAAAAG
* * * * **
48643 AAGAAAGAGAGGAAAAAAAAAAAGG--AAAAGAAGGGGAAGAAGAAAGAGGGAAAA-AAAA-
1 AA-AAA-A-A--AAAAAAAAAAAGGAAAAAAGAAGGGAAAAAAAAAAAAAAGAAAAGAAAAG
* * * *
48701 AAAAAGAAAAAGGAAAAGAAGGGAAAAAG-AGAGAAAAAAAAAAGGGGAAAAAGAAAA-AAAAG
1 AAAAA-AAAAA-AAAAAAAAGGAAAAAAGAAG-GGAAAAAAAAA----AAAAAGAAAAGAAAAG
*
48763 AAAAGGAGAGAAGGGAAGAAAAAAAA--AAAAAA-AAGGGAAAAGGGGGAGGGAAAAAAAAAAAA
1 AAAA--A-A-AA---AA-AAAAAAAAGGAAAAAAGAAGGGAAAA-----A---AAAAAAAAAGAA
*
48825 AAGGAGAAGGGG
50 AA-GA-AA--AG
**** * * *
48837 AAAAAAAAAAAGAAAAAAAGGGGAGGGGAGAAAGGAGAAAAAAAAAAAGGAAGGCAAAAGGGAGA
1 AAAAAAAAAAA-AAAAAAA--GGAAAAAAG-AAGG-GAAAAAAAAAAA--AAAG-AAAA-GAAAA
48902 G
57 G
* * *
48903 GAAAAAGAAAAAAAAAAA-GAAAAAAGAAGGGAAAAAAAAAAAAGGAAAAAAAGAGGAAA-
1 AAAAAAAAAAAAAAAAAAGGAAAAAAGAAGGGAAAAAAAAAAAA--AAGAAAAGA--AAAG
* *
48962 AAAAAAAAGGGGAAAAAAAAAGGAGAAAAAAAAGGGAAAAAAAAAAAAAAAGAAAAGGAAAAG
1 AAAAAAAA---AAAAAAAAAAGGA-AAAAAGAAGGG-AAAAAAAAAAAAAAGAAAA-GAAAAG
* * * ***
49025 AAGGAGGGGAAAGAAAAGAGAAAAAA-TAAAAGGGAGAAAAAAAAAAGAAAAAAAAAGGGAAGAC
1 AA--A----AAA-AAAA-AAAAAAAAGGAAAA--AAGAAGGGAAAAA-AAAAAAAAA--GAA-A-
49089 A-AAAAG
51 AGAAAAG
* ** * **
49095 AAAAAAAAAAAAAAAAAAGGAAGAAAGAA-AAAAAAAAAAAAAAAGGAGAAAAGGAGGG
1 AAAAAAAAAAAAAAAAAAGGAAAAAAGAAGGGAAAAAAAAAAAAA--AGAAAAGAAAAG
* * * ** ***
49153 AAAAAAAGAAAACAAAAGAAGGAAAGGAA-AAGGTAAAAAAGAAAAAGGAGGGGAGAAAAAG
1 AAAAAAA-AAAA-AAAAAAAGGAAA-AAAGAAGGGAAAAAA-AAAAAAAAGAAAAG-AAAAG
* *
49214 AAAAAAGAAAGATAAAAAGAAA-AAAAAAAAAAGCGGAAAAAAAAAAGAAAAGAGAAAGAAAGAG
1 AAAAAA-AAA-A-AAAAA-AAAGGAAAAAAGAAG-GGAAAAAAAAAA-AAAAGA-AAAGAAA-AG
* *
49278 AGAAGAAAAAAAAGAGAAGAAGAA-GAAAAGGAA-AAGGGGAAGAAAAAAAAAAATGAAAAAAAA
1 A-AA-AAAAAAAA-A-AA-AA-AAGGAAAA--AAGAA-GGGAA-AAAAAAAAAAAAGAAAAGAAA
*
49341 AA
56 AG
49343 AAGGAAGGAAAAAAAAAAAAAAGG
1 AA--AA--AAAAAAAAAAAAAAGG
49367 GAGGGAGAAA
Statistics
Matches: 960, Mismatches: 182, Indels: 330
0.65 0.12 0.22
Matches are distributed among these distances:
52 3 0.00
53 13 0.01
54 15 0.02
55 25 0.03
56 51 0.05
57 92 0.10
58 99 0.10
59 91 0.09
60 78 0.08
61 78 0.08
62 74 0.08
63 44 0.05
64 29 0.03
65 53 0.06
66 52 0.05
67 49 0.05
68 53 0.06
69 19 0.02
70 15 0.02
71 5 0.01
72 4 0.00
73 8 0.01
74 10 0.01
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.01
Consensus pattern (57 bp):
AAAAAAAAAAAAAAAAAAGGAAAAAAGAAGGGAAAAAAAAAAAAAAGAAAAGAAAAG
Found at i:48167 original size:60 final size:57
Alignment explanation
Indices: 47961--48494 Score: 211
Period size: 59 Copynumber: 9.0 Consensus size: 57
47951 GGAAGAAGAG
* **
47961 AAGAAAGAAAGGAAAAGAAAAGGAAAAAGGGGAAAATAAAAAAAAAAAAAAAAAAAGGAAAA
1 AAGAAAG--AGGAAAAGAAAAGGAAAAA---GAAAAGAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * * * ***
48023 AAG-AAG-GGAAAAAGAGAAA--AAAGAAGGGAGGGAGAGAAAAAAAAAAAAAAAAGAGGG
1 AAGAAAGAGG-AAAAGA-AAAGGAAA-AA-GAAAAGAAAAAAAAAAAAAAAAAAAAAAAAA
** * * **
48080 AAGAGGGAGAAAAAAAAAAAAAGAAAAGAAAAGAAAAAAAAAAAAAAAAAAAAAGAAAA
1 AAGAAAGAGGAAAAGAAAAGGA-AAAAGAAAAGAAAAAAAAAAAAAAAAAAAAA-AAAA
* * * *
48139 AAGAAAGAGGAAACGAAAAGGGGAAAAAGAGGAGGAGAAAAAAAAAAAAAGAAAAAAAGAAGA
1 AAGAAAGAGGAAAAGAAAA--GGAAAAAGA--A-AAGAAAAAAAAAAAAA-AAAAAAAAAAAA
*** *
48202 AA-AAA-AGG-AAAGAAAA--AAAAA-AAAA-AAAAAAGGGAGAAAAAAAAAAAAAA
1 AAGAAAGAGGAAAAGAAAAGGAAAAAGAAAAGAAAAAAAAAAAAAAAAAAAAAAAAA
48252 AA-AAAGAGGAAAA-AAAA--AAAAAGGCAAAA-AAAAGAAGAAAAGAAAAAAAGAGAAAAAAA
1 AAGAAAGAGGAAAAGAAAAGGAAAAA-G-AAAAGAAAA-AA-AAAA-AAAAAAA-A-AAAAAAA
** * * ***
48311 AAGAAAGAGAGAAGGGAAAAGGGAAGAGAAAAGGGAAAAAAAAAGAGGGAAAAAAAAAAAA
1 AAGAAAGAG-GAAAAGAAAAGGAAAAAGAAAA--GAAAAAAAAA-AAAAAAAAAAAAAAAA
* * * * *
48372 AAG-AAGAGGATGAGGAAAAGAAAAAATAAGGAGAAAAAAATAAAAAAGAAAAAAGAAGGGGAAA
1 AAGAAAGAGGA-AAAGAAAAGGAAAAAGAA-AAGAAAAAAA-AAAAAA-AAAAAA-AA----AAA
48436 A
57 A
** * * *
48437 AAGGAAAGAAAAAAAGAAAAGAAAAAAGCAAAAGAAAAAAAAGAAAAAGAAAAAAAAA
1 AA-GAAAGAGGAAAAGAAAAGGAAAAAG-AAAAGAAAAAAAAAAAAAAAAAAAAAAAA
48495 GAGGAGAAAA
Statistics
Matches: 356, Mismatches: 70, Indels: 95
0.68 0.13 0.18
Matches are distributed among these distances:
50 15 0.04
51 21 0.06
52 4 0.01
53 1 0.00
54 8 0.02
55 3 0.01
56 6 0.02
57 34 0.10
58 33 0.09
59 50 0.14
60 49 0.14
61 23 0.06
62 16 0.04
63 30 0.08
64 18 0.05
65 15 0.04
66 23 0.06
67 7 0.02
ACGTcount: A:0.76, C:0.01, G:0.23, T:0.01
Consensus pattern (57 bp):
AAGAAAGAGGAAAAGAAAAGGAAAAAGAAAAGAAAAAAAAAAAAAAAAAAAAAAAAA
Found at i:48180 original size:1 final size:1
Alignment explanation
Indices: 48176--48312 Score: 85
Period size: 1 Copynumber: 137.0 Consensus size: 1
48166 AGAGGAGGAG
* * * ** * *** *
48176 AAAAAAAAAAAAAGAAAAAAAGAAGAAAAAAAGGAAAGAAAAAAAAAAAAAAAAAAAGGGAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** *** * * * * *
48241 AAAAAAAAAAAAAAAAGAGGAAAAAAAAAAAAAGGCAAAAAAAAGAAGAAAAGAAAAAAAGAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
48306 AAAAAAA
1 AAAAAAA
48313 GAAAGAGAGA
Statistics
Matches: 105, Mismatches: 31, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 105 1.00
ACGTcount: A:0.85, C:0.01, G:0.15, T:0.00
Consensus pattern (1 bp):
A
Found at i:48185 original size:88 final size:84
Alignment explanation
Indices: 48080--48354 Score: 263
Period size: 87 Copynumber: 3.2 Consensus size: 84
48070 AAAAAGAGGG
48080 AAGAGGGAGAAAAAAAAAAAAAGAAAAGAAAAGAAAAAAAAAAAAAAAAAAAAAGAAAAAAGAAA
1 AAGA-GGAGAAAAAAAAAAAAAGAAAA-AAAAGAAAAAAAAAAAAAAAAAAAAA-AAAAAAGAAA
* *
48145 GAGGAAACGAAAAGGGGAAAAAG
63 GAGGAAA-GAAAAGGGAAAAAAA
* *
48168 AGGAGGAGAAAAAAAAAAAAAG-AAAAAAAGAAGAAAAAAAGGAAAGAAAAAAAAAAAAAAAAAA
1 AAGAGGAGAAAAAAAAAAAAAGAAAAAAAAGAA-AAAAAAA--AAA-AAAAAAAAAAAAAAAGAA
* ***
48232 AG-GGAGAAAAAAAAAAAAAAAAA
62 AGAGGA-AAGAAAAGGGAAAAAAA
* * * * *
48255 AAGAGGA-AAAAAAAAAAAAGGCAAAAAAAAGAAGAAAAGAAAAAAAGAGAAAAAAAAAGAAAGA
1 AAGAGGAGAAAAAAAAAAAAAG-AAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAGA
* * *
48319 GAGAAGGGAAAAGGGAAGAGAA
65 G-GAA-AGAAAAGGGAAAAAAA
48341 AAG-GGA-AAAAAAAA
1 AAGAGGAGAAAAAAAA
48355 GAGGGAAAAA
Statistics
Matches: 155, Mismatches: 22, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
84 17 0.11
85 23 0.15
86 37 0.24
87 41 0.26
88 28 0.18
89 9 0.06
ACGTcount: A:0.78, C:0.01, G:0.21, T:0.00
Consensus pattern (84 bp):
AAGAGGAGAAAAAAAAAAAAAGAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAGAG
GAAAGAAAAGGGAAAAAAA
Found at i:48348 original size:85 final size:80
Alignment explanation
Indices: 48088--48373 Score: 252
Period size: 85 Copynumber: 3.4 Consensus size: 80
48078 GGAAGAGGGA
*
48088 GAAAAAAAAAAAAAGAAAAGAAAAGAAAAAAAAAAAAAAAAAAAAAGAAAAAAGAAAGAG-GAAA
1 GAAAAAAAAAAAAAGAAAA-AAAAG-AAAAAAAGAAAAAAAAAAAA-AAAAAAGAAAGAGAG-AA
**
48152 CGAAAAGGGGAAAAAGAGGAGG
62 -GAAAA-GGG-AAAAGAAAAGG
* *
48174 AGAAAAAAAAAAAAAGAAAAAAAGAAGAAAAAAAGGAAAGAAAAAAAAAAAAAAAAAAAGGGAGA
1 -GAAAAAAAAAAAAAG-AAAAAA-AAGAAAAAAA-GAAA-AAAAAAAAAAAAAAAGAAAGAGAGA
* *** *
48239 AAAAAAAAAAAAAAAAAAGAG
61 AGAAAAGGGAAAAGAAAAG-G
* *
48260 GAAAAAAAAAAAAAGGCAAAAAAAAGAAGAAAAGAAAAAAAGAGAAAAAAAAAGAAAGAGAGAAG
1 GAAAAAAAAAAAAA-G-AAAAAAAAGAAAAAAAGAAAAAAA-AAAAAAAAAAAGAAAGAGAGAA-
*
48325 GGAAAAGGGAAGAGAAAAGG
62 -GAAAAGGGAAAAGAAAAGG
* **
48345 GAAAAAAAAAGAGGGAAAAAAAA-AAAAAA
1 GAAAAAAAAAAAAAGAAAAAAAAGAAAAAA
48374 GAAGAGGATG
Statistics
Matches: 164, Mismatches: 25, Indels: 25
0.77 0.12 0.12
Matches are distributed among these distances:
82 5 0.03
83 12 0.07
84 24 0.15
85 42 0.26
86 20 0.12
87 28 0.17
88 23 0.14
89 10 0.06
ACGTcount: A:0.79, C:0.01, G:0.21, T:0.00
Consensus pattern (80 bp):
GAAAAAAAAAAAAAGAAAAAAAAGAAAAAAAGAAAAAAAAAAAAAAAAAAGAAAGAGAGAAGAAA
AGGGAAAAGAAAAGG
Found at i:48437 original size:66 final size:68
Alignment explanation
Indices: 48386--48520 Score: 172
Period size: 66 Copynumber: 2.0 Consensus size: 68
48376 AGAGGATGAG
* * * *
48386 GAAAAGAAAAAA-TAAGGAGAAAAAAATA-AAAAAGAAAAAAGAAG-GG-GAAAAAAGGAAAGAA
1 GAAAAGAAAAAAGCAA-AAGAAAAAAA-AGAAAAAGAAAAAAAAAGAGGAGAAAAAAAGAAAGAA
48447 AAAAA
64 AAAAA
48452 GAAAAGAAAAAAGCAAAAGAAAAAAAAGAAAAAGAAAAAAAAAGAGGAGAAAAAAAGAAA-AAAG
1 GAAAAGAAAAAAGCAAAAGAAAAAAAAGAAAAAGAAAAAAAAAGAGGAGAAAAAAAGAAAGAAA-
48516 AAAA
65 AAAA
48520 G
1 G
48521 CATAAGGAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
65 1 0.02
66 36 0.60
67 7 0.12
68 16 0.27
ACGTcount: A:0.78, C:0.01, G:0.20, T:0.01
Consensus pattern (68 bp):
GAAAAGAAAAAAGCAAAAGAAAAAAAAGAAAAAGAAAAAAAAAGAGGAGAAAAAAAGAAAGAAAA
AAA
Found at i:48474 original size:38 final size:38
Alignment explanation
Indices: 48389--48496 Score: 100
Period size: 38 Copynumber: 2.8 Consensus size: 38
48379 GGATGAGGAA
48389 AAGAA-AAAATAAGGAGAAAAAAATAAAAAAGAAAAAAG
1 AAGAAGAAAA-AAGGAGAAAAAAATAAAAAAGAAAAAAG
**
48427 AAGGGGAAAAAAGGA-AAGAAAAA-AAGAAAAGAAAAAAG
1 AAGAAGAAAAAAGGAGAA-AAAAATAA-AAAAGAAAAAAG
* *
48465 CAA-AAGAAAAAA-AAGAAAAAGAAAAAAAAAGA
1 -AAGAAGAAAAAAGGAGAAAAA-AATAAAAAAGA
48497 GGAGAAAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
37 8 0.14
38 42 0.72
39 8 0.14
ACGTcount: A:0.79, C:0.01, G:0.19, T:0.02
Consensus pattern (38 bp):
AAGAAGAAAAAAGGAGAAAAAAATAAAAAAGAAAAAAG
Done.