Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 148 of 362
Found at i:49230575 original size:38 final size:40
Alignment explanation
Indices: 49230520--49230631 Score: 131
Period size: 38 Copynumber: 2.8 Consensus size: 40
49230510 ATAACCACAA
* *
49230520 GCACAAATTGCCTTCGGGTCTTAACCCGGGATAGCAACTC
1 GCACAAAATGCCTTCGGGTCTTAACCCGGAATAGCAACTC
* * *
49230560 GC-CACAATGCC-TCGGGTCTT-AGCCGGAATATCAACTC
1 GCACAAAATGCCTTCGGGTCTTAACCCGGAATAGCAACTC
*
49230597 GCACAAAATGCCTTCGGGTTCTTAGCCCCGGAATA
1 GCACAAAATGCCTTCGGG-TCTTA-ACCCGGAATA
49230632 AAAATCACTA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
37 16 0.27
38 17 0.29
39 12 0.20
40 6 0.10
42 8 0.14
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.22
Consensus pattern (40 bp):
GCACAAAATGCCTTCGGGTCTTAACCCGGAATAGCAACTC
Found at i:49230681 original size:43 final size:43
Alignment explanation
Indices: 49230602--49230710 Score: 127
Period size: 43 Copynumber: 2.5 Consensus size: 43
49230592 AACTCGCACA
*
49230602 AAATGCCTTCGGGTTCTTAGCCCCGGAATAAAAATCACTAG-CATT
1 AAATGCCTTCGGG-ACTTAG-CCCGGAATAAAAATCACTAGCCA-T
* *
49230647 AAATGCCTTCGGGACTTAGCCCGGAGTTAAAATCACTAGCCAT
1 AAATGCCTTCGGGACTTAGCCCGGAATAAAAATCACTAGCCAT
49230690 -AATGCC-TC-GGACTTTAGCCCG
1 AAATGCCTTCGGGAC-TTAGCCCG
49230711 AGATAATCAT
Statistics
Matches: 59, Mismatches: 3, Indels: 8
0.84 0.04 0.11
Matches are distributed among these distances:
40 4 0.07
41 10 0.17
42 6 0.10
43 19 0.32
44 7 0.12
45 13 0.22
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (43 bp):
AAATGCCTTCGGGACTTAGCCCGGAATAAAAATCACTAGCCAT
Found at i:49233764 original size:29 final size:29
Alignment explanation
Indices: 49233729--49233802 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
49233719 GTTGTGAGAT
* *
49233729 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
49233758 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
49233787 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49233803 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:49241873 original size:29 final size:29
Alignment explanation
Indices: 49241838--49241911 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
49241828 GTTGTGAGAT
* *
49241838 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
49241867 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
49241896 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49241912 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:49245634 original size:21 final size:22
Alignment explanation
Indices: 49245608--49245661 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
49245598 TAATGTGTTT
49245608 TGTGTTTAATAAG-TGTTTAAA
1 TGTGTTTAATAAGTTGTTTAAA
* *
49245629 TGTGTTTAATATGTTTGTTTTAA
1 TGTGTTTAATAAG-TTGTTTAAA
49245652 TGTGTTTAAT
1 TGTGTTTAAT
49245662 TGCAGGCGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 12 0.41
23 17 0.59
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (22 bp):
TGTGTTTAATAAGTTGTTTAAA
Found at i:49245659 original size:9 final size:9
Alignment explanation
Indices: 49245594--49245661 Score: 58
Period size: 9 Copynumber: 7.9 Consensus size: 9
49245584 TTAAGCTAAC
49245594 TGTTTAATG
1 TGTTTAATG
49245603 TGTTT--TG
1 TGTTTAATG
49245610 TGTTTAATAAG
1 TGTTTAAT--G
49245621 TGTTTAAATG
1 TGTTT-AATG
*
49245631 TGTTTAATA
1 TGTTTAATG
49245640 TG-TT--TG
1 TGTTTAATG
49245646 T-TTTAATG
1 TGTTTAATG
49245654 TGTTTAAT
1 TGTTTAAT
49245662 TGCAGGCGTC
Statistics
Matches: 48, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
6 4 0.08
7 7 0.15
8 5 0.10
9 17 0.35
10 6 0.12
11 6 0.12
12 3 0.06
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.57
Consensus pattern (9 bp):
TGTTTAATG
Found at i:49245714 original size:38 final size:38
Alignment explanation
Indices: 49245663--49245740 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
49245653 GTGTTTAATT
* *
49245663 GCAGGCGTCTTTTCAGCTGGAAACCGTTACATTCAAGG
1 GCAGGCGTCTTTTCAGCTAGAAACCATTACATTCAAGG
*
49245701 GCAGGTGTCTTTTCAGCTAGAAACCATTACATTCAAGG
1 GCAGGCGTCTTTTCAGCTAGAAACCATTACATTCAAGG
49245739 GC
1 GC
49245741 TGTTACAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (38 bp):
GCAGGCGTCTTTTCAGCTAGAAACCATTACATTCAAGG
Found at i:49247732 original size:19 final size:20
Alignment explanation
Indices: 49247708--49247757 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
49247698 AAAAGAAGTG
*
49247708 AGAAAAAGAAATCG-AGAGA
1 AGAAAAAGAAAACGCAGAGA
* *
49247727 AGAAAAA-AAAAGGCATAGA
1 AGAAAAAGAAAACGCAGAGA
49247746 AGAAAAAGAAAA
1 AGAAAAAGAAAA
49247758 GGAAATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 4 0.15
19 18 0.69
20 4 0.15
ACGTcount: A:0.70, C:0.04, G:0.22, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAAAACGCAGAGA
Found at i:49248019 original size:20 final size:20
Alignment explanation
Indices: 49247994--49248032 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
49247984 GAAACGAGTA
49247994 GAAAAGGTGAAAGTGAGCAG
1 GAAAAGGTGAAAGTGAGCAG
49248014 GAAAAGGTGAAAGTGAGCA
1 GAAAAGGTGAAAGTGAGCA
49248033 AAAAAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.38, T:0.10
Consensus pattern (20 bp):
GAAAAGGTGAAAGTGAGCAG
Found at i:49248038 original size:20 final size:20
Alignment explanation
Indices: 49247995--49248038 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
49247985 AAACGAGTAG
**
49247995 AAAAGGTGAAAGTGAGCAGG
1 AAAAGGTGAAAGTGAGCAAA
49248015 AAAAGGTGAAAGTGAGCAAA
1 AAAAGGTGAAAGTGAGCAAA
49248035 AAAA
1 AAAA
49248039 AAGTGAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.32, T:0.09
Consensus pattern (20 bp):
AAAAGGTGAAAGTGAGCAAA
Found at i:49249667 original size:14 final size:16
Alignment explanation
Indices: 49249636--49249668 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
49249626 TTAAGGACTT
49249636 TTTTAATTTAATTAAG
1 TTTTAATTTAATTAAG
49249652 TTTT-ATTTAA-TAAG
1 TTTTAATTTAATTAAG
49249666 TTT
1 TTT
49249669 GCATATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 6 0.35
16 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTTAATTTAATTAAG
Found at i:49260993 original size:46 final size:46
Alignment explanation
Indices: 49260935--49261110 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
49260925 TGTTTGGGCA
*
49260935 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *** * * ** *
49260981 TCCAAACACGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * *
49261028 TCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
49261074 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49261111 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 27, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
46 68 0.68
47 32 0.32
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:49261090 original size:93 final size:93
Alignment explanation
Indices: 49260931--49261102 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
49260921 AGGATGTTTG
* *
49260931 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCAAACACGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACACGTTGAG
49260996 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * * *
49261024 GGCATCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACACGTTGAG
49261089 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
49261103 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACACGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:49265421 original size:21 final size:20
Alignment explanation
Indices: 49265387--49265454 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
49265377 ACATTCTTGT
49265387 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
49265408 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
49265429 AAAGAAAACGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
49265450 AAAGA
1 AAAGA
49265455 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.01
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:49265422 original size:6 final size:5
Alignment explanation
Indices: 49265398--49265454 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
49265388 AAGAGAAAAC
*
49265398 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
49265445 AAAGA AAAGA
1 AAAGA AAAGA
49265455 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:49265429 original size:15 final size:14
Alignment explanation
Indices: 49265398--49265454 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
49265388 AAGAGAAAAC
49265398 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
49265414 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
49265429 AAAGAAAACGAAATAA
1 AAAGAAAA-G-AAGAA
49265445 AAAGAAAAGA
1 AAAGAAAAGA
49265455 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:49265534 original size:11 final size:12
Alignment explanation
Indices: 49265502--49265532 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
49265492 TTGAGAGAAC
49265502 TTGAAAAAGCCT
1 TTGAAAAAGCCT
49265514 TTGAAAAAGCCT
1 TTGAAAAAGCCT
49265526 TTGAAAA
1 TTGAAAA
49265533 GCAAAAAGAA
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:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:49265543 original size:12 final size:12
Alignment explanation
Indices: 49265535--49265559 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49265525 TTTGAAAAGC
49265535 AAAAAGAAAATG
1 AAAAAGAAAATG
49265547 AAAAAGAAAATG
1 AAAAAGAAAATG
49265559 A
1 A
49265560 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:49265556 original size:18 final size:18
Alignment explanation
Indices: 49265529--49265571 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
49265519 AAAGCCTTTG
49265529 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
49265548 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
49265566 AAAAGA
1 AAAAGA
49265572 GAACAAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:49265569 original size:30 final size:31
Alignment explanation
Indices: 49265535--49265616 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
49265525 TTTGAAAAGC
*
49265535 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
49265565 AAAAAGAGAA-CAAAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
49265595 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
49265617 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 9 0.21
30 24 0.56
31 10 0.23
ACGTcount: A:0.66, C:0.01, G:0.21, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:49267852 original size:30 final size:30
Alignment explanation
Indices: 49267818--49267914 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
49267808 AGCTCACTCC
49267818 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
49267848 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
49267878 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
49267908 TAGCTCA
1 TAGCTCA
49267915 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:49270863 original size:14 final size:15
Alignment explanation
Indices: 49270814--49270863 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
49270804 GTATCTTGGG
*
49270814 TTTCTTTATCCTAGA
1 TTTCTTTATTCTAGA
*
49270829 TCTCTTTATTCTAGA
1 TTTCTTTATTCTAGA
*
49270844 TTTCTTTATTC-AGT
1 TTTCTTTATTCTAGA
49270858 TTTCTT
1 TTTCTT
49270864 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.16, C:0.18, G:0.06, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTAGA
Found at i:49273301 original size:46 final size:46
Alignment explanation
Indices: 49273251--49273422 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
49273241 TGTTTGGGCA
*
49273251 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
** * * ** *
49273297 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGA-AGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
49273343 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
49273389 -CCGAGCTCGTTGAGTTGAGT-CGAGTT-ACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49273423 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
43 8 0.08
44 6 0.06
45 22 0.21
46 67 0.64
47 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:49275548 original size:60 final size:59
Alignment explanation
Indices: 49275468--49275608 Score: 169
Period size: 60 Copynumber: 2.4 Consensus size: 59
49275458 TTTAGTGTTA
*
49275468 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCT-TACAGTAATAGAG-TAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAG-CCCTATACA--AATAGAGATAT
* * * *
49275529 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATACAAGTCGAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATACAAATAGAGATAT
* *
49275588 ATTGGGCCTTGCCCATATCAA
1 ACTGGGCCTAGCCCATATCAA
49275609 CACAGTTGGG
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
58 5 0.07
59 25 0.36
60 32 0.46
61 8 0.11
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATACAAATAGAGATAT
Found at i:49278327 original size:19 final size:19
Alignment explanation
Indices: 49278303--49278339 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49278293 ATTTATGTTT
49278303 TAGATACAGCACCTTTTAA
1 TAGATACAGCACCTTTTAA
*
49278322 TAGATATAGCACCTTTTA
1 TAGATACAGCACCTTTTA
49278340 TATTAATAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TAGATACAGCACCTTTTAA
Found at i:49279496 original size:18 final size:18
Alignment explanation
Indices: 49279473--49279507 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
49279463 AAAATGTGAG
*
49279473 AAATGATGTTCACATTTC
1 AAATGATGTTCAAATTTC
49279491 AAATGATGTTCAAATTT
1 AAATGATGTTCAAATTT
49279508 ATGGAAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCAAATTTC
Found at i:49280053 original size:72 final size:72
Alignment explanation
Indices: 49279931--49280167 Score: 354
Period size: 72 Copynumber: 3.3 Consensus size: 72
49279921 AAATGCTAAA
* * *
49279931 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAACTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
49279996 GTGTAAT
66 GTGTAAT
*
49280003 CTAGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
49280068 GTGTAAT
66 GTGTAAT
* *
49280075 CT-GCTTTTATTAATAGTTGTTTATGTTTGGTCTTTGAGATATTGAATTTATGTTCTACTTATTT
1 CTAG-TTTTATCAATAGTTGTTTATGTTTGGTTTTTGA-ATATTGAATTTATGTTCTACTTATTT
* *
49280139 ATACT-AAAT
64 AT-GTGTAAT
49280148 -TAGTTTTATCAATAGTTGTT
1 CTAGTTTTATCAATAGTTGTT
49280168 AATATATGAT
Statistics
Matches: 151, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
71 1 0.01
72 117 0.77
73 32 0.21
74 1 0.01
ACGTcount: A:0.24, C:0.07, G:0.15, T:0.54
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:49282237 original size:13 final size:13
Alignment explanation
Indices: 49282214--49282277 Score: 74
Period size: 13 Copynumber: 4.9 Consensus size: 13
49282204 ACACCTAAAA
*
49282214 TTTTTAAAAGCAC
1 TTTTCAAAAGCAC
*
49282227 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
49282240 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
*
49282253 TTTTTAAAAGCAC
1 TTTTCAAAAGCAC
*
49282266 TTTTTAAAAGCA
1 TTTTCAAAAGCA
49282278 TTGCCAAACA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:49282277 original size:26 final size:26
Alignment explanation
Indices: 49282214--49282277 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
49282204 ACACCTAAAA
49282214 TTTTTAAAAGCACTTCTCAAAAGCAC
1 TTTTTAAAAGCACTTCTCAAAAGCAC
** * * *
49282240 TTTTCCACAGCACTTTTTAAAAGCAC
1 TTTTTAAAAGCACTTCTCAAAAGCAC
49282266 TTTTTAAAAGCA
1 TTTTTAAAAGCA
49282278 TTGCCAAACA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (26 bp):
TTTTTAAAAGCACTTCTCAAAAGCAC
Found at i:49296809 original size:15 final size:15
Alignment explanation
Indices: 49296789--49296822 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
49296779 TCAACGGATT
49296789 ATCCGTCCGGGCTAA
1 ATCCGTCCGGGCTAA
*
49296804 ATCCGTCCGGGCTAG
1 ATCCGTCCGGGCTAA
49296819 ATCC
1 ATCC
49296823 TTTTCATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.35, G:0.26, T:0.21
Consensus pattern (15 bp):
ATCCGTCCGGGCTAA
Found at i:49296813 original size:59 final size:59
Alignment explanation
Indices: 49296745--49296866 Score: 244
Period size: 59 Copynumber: 2.1 Consensus size: 59
49296735 TTCACGGAAC
49296745 ATCCGTCCGGGCTAGATCCTTTTCATAATTGAGATCAACGGATTATCCGTCCGGGCTAA
1 ATCCGTCCGGGCTAGATCCTTTTCATAATTGAGATCAACGGATTATCCGTCCGGGCTAA
49296804 ATCCGTCCGGGCTAGATCCTTTTCATAATTGAGATCAACGGATTATCCGTCCGGGCTAA
1 ATCCGTCCGGGCTAGATCCTTTTCATAATTGAGATCAACGGATTATCCGTCCGGGCTAA
49296863 ATCC
1 ATCC
49296867 TTACTGCAAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (59 bp):
ATCCGTCCGGGCTAGATCCTTTTCATAATTGAGATCAACGGATTATCCGTCCGGGCTAA
Found at i:49299461 original size:28 final size:28
Alignment explanation
Indices: 49299421--49299488 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
49299411 TATGAGATTG
*
49299421 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
49299449 GCACTAAGTGTGCGAGTTTTATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
49299477 GCACTAAGTGTG
1 GCACTAAGTGTG
49299489 TGAACTTACT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 35 0.95
29 2 0.05
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:49306744 original size:28 final size:28
Alignment explanation
Indices: 49306703--49306773 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
49306693 TATGAGATTG
*
49306703 GCACTAAGTGTGCGAGTTTAATTGTATAA
1 GCACTAAGTGTGCGAGTTTAATTAT-TAA
*
49306732 -CACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
49306759 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
49306774 ACCTACTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 3 0.08
28 36 0.92
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:49309347 original size:17 final size:19
Alignment explanation
Indices: 49309320--49309356 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
49309310 TTAGCATTCT
49309320 TACCAAGAGTTCAT-CTCA
1 TACCAAGAGTTCATACTCA
49309338 TACC-AGAGTTCATACTCA
1 TACCAAGAGTTCATACTCA
49309356 T
1 T
49309357 GGGTTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (19 bp):
TACCAAGAGTTCATACTCA
Found at i:49318703 original size:11 final size:12
Alignment explanation
Indices: 49318671--49318704 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
49318661 TTTCTTTTAT
*
49318671 TTTAAATTAATA
1 TTTAAATTATTA
49318683 TTTAAATTATTA
1 TTTAAATTATTA
49318695 TTT-AATTATT
1 TTTAAATTATT
49318705 GGGTTCAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTAAATTATTA
Found at i:49319055 original size:20 final size:20
Alignment explanation
Indices: 49319030--49319067 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49319020 TATATAACAA
*
49319030 TTCAAAAAAATTTTAAAATT
1 TTCAAAAAAATTATAAAATT
*
49319050 TTCAAAATAATTATAAAA
1 TTCAAAAAAATTATAAAA
49319068 CTCTAAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
TTCAAAAAAATTATAAAATT
Found at i:49319359 original size:31 final size:31
Alignment explanation
Indices: 49319311--49319369 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
49319301 TAAATAATTT
49319311 TTTATATTATTTTGAATTTT-TGAAATTTATA
1 TTTATATTATTTTGAATTTTAT-AAATTTATA
49319342 TTTATA-TATTTTAGAATTTTATAAATTT
1 TTTATATTATTTT-GAATTTTATAAATTT
49319370 TAAGTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 6 0.23
31 19 0.73
32 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (31 bp):
TTTATATTATTTTGAATTTTATAAATTTATA
Found at i:49324340 original size:20 final size:20
Alignment explanation
Indices: 49324315--49324374 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
49324305 TGCCTTACAT
49324315 GCCCGTGTGCTTAGGGACAC
1 GCCCGTGTGCTTAGGGACAC
49324335 GCCCGTGTGCTTAGGGACAC
1 GCCCGTGTGCTTAGGGACAC
*
49324355 GCCCGTGTGCTTGGGGACAC
1 GCCCGTGTGCTTAGGGACAC
49324375 ACCCATGTCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.13, C:0.30, G:0.37, T:0.20
Consensus pattern (20 bp):
GCCCGTGTGCTTAGGGACAC
Found at i:49334984 original size:66 final size:69
Alignment explanation
Indices: 49334854--49334984 Score: 151
Period size: 66 Copynumber: 1.9 Consensus size: 69
49334844 GGGATGTATC
* * *
49334854 CCATGTAGACAAGAGAGCTACGGGAGAGGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTG
1 CCATGTAGACAAGAGAGCTAC--G-GAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTG
49334919 AAGGACA
63 AAGGACA
* * * *
49334926 CCATGTAGAGAAGAGAGCTAC-GA-GATAAAT-TGGCTAGGTCACATGGGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTG
49334985 TTCACCATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
66 23 0.44
67 7 0.13
68 2 0.04
72 20 0.38
ACGTcount: A:0.33, C:0.15, G:0.32, T:0.21
Consensus pattern (69 bp):
CCATGTAGACAAGAGAGCTACGGAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTGAAG
GACA
Found at i:49337306 original size:13 final size:13
Alignment explanation
Indices: 49337288--49337315 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
49337278 ATGCTCGAAT
49337288 TTTTGGGTATGGA
1 TTTTGGGTATGGA
49337301 TTTTGGGTATGGA
1 TTTTGGGTATGGA
49337314 TT
1 TT
49337316 GGTTAACTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (13 bp):
TTTTGGGTATGGA
Found at i:49340796 original size:40 final size:40
Alignment explanation
Indices: 49340741--49340957 Score: 266
Period size: 40 Copynumber: 5.5 Consensus size: 40
49340731 TGGATGATAA
49340741 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAG-TACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTCTGCG--AGTTACTA-TAT
*
49340781 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTCTGCGAGTTACTATAT
* *
49340821 TCGGGCTAAGTCCCGAAGGCATTTCTGCGAGTTAATATAT
1 CCGGGCTAAGTCCCGAAGGCATTTCTGCGAGTTACTATAT
**
49340861 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTCTGCGAGTTACTATAT
* **
49340901 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTCTGCGAGTTA-CTATAT
* *
49340940 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
49340958 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 13, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
38 15 0.09
39 18 0.11
40 123 0.77
41 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTCTGCGAGTTACTATAT
Found at i:49352306 original size:27 final size:28
Alignment explanation
Indices: 49352249--49352307 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
49352239 TTAGAACATG
* * ** *
49352249 ATTTTAATTTGTCTTATTTTATTACATA
1 ATTTTAATGTGTCTTAGTTTAAGACAAA
49352277 ATTTTAATGTGT-TTAGTTTAAGACAAA
1 ATTTTAATGTGTCTTAGTTTAAGACAAA
49352304 ATTT
1 ATTT
49352308 AATTAGCTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.54
Consensus pattern (28 bp):
ATTTTAATGTGTCTTAGTTTAAGACAAA
Found at i:49354255 original size:16 final size:16
Alignment explanation
Indices: 49354230--49354348 Score: 100
Period size: 16 Copynumber: 7.3 Consensus size: 16
49354220 GTAATTCTAG
*
49354230 ATGATGTATGAACTAA
1 ATGATTTATGAACTAA
49354246 ATGATTTATGAACTAA
1 ATGATTTATGAACTAA
* * *
49354262 ATGA--TGT-AATTAC
1 ATGATTTATGAACTAA
*
49354275 ATGATGTATGAACTAA
1 ATGATTTATGAACTAA
49354291 ATGATTTATGAACTAA
1 ATGATTTATGAACTAA
* *
49354307 ATCGATTCATGATTTAATGAA
1 AT-GATTTATGA---ACT-AA
*
49354328 AGGATTTATGAACTAA
1 ATGATTTATGAACTAA
49354344 ATGAT
1 ATGAT
49354349 GTAATTACAT
Statistics
Matches: 81, Mismatches: 14, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
13 8 0.10
14 2 0.02
15 2 0.02
16 46 0.57
17 10 0.12
20 10 0.12
21 3 0.04
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (16 bp):
ATGATTTATGAACTAA
Found at i:49354283 original size:45 final size:45
Alignment explanation
Indices: 49354230--49354359 Score: 170
Period size: 45 Copynumber: 3.1 Consensus size: 45
49354220 GTAATTCTAG
49354230 ATGATGTATGAACTAAATGATTTATGAACTAAATGATGTAATTAC
1 ATGATGTATGAACTAAATGATTTATGAACTAAATGATGTAATTAC
*
49354275 ATGATGTATGAACTAAATGATTTATGAACTAAAT--CG--ATT-C
1 ATGATGTATGAACTAAATGATTTATGAACTAAATGATGTAATTAC
*
49354315 ATGAT-T-T-AA-TGAAAGGATTTATGAACTAAATGATGTAATTAC
1 ATGATGTATGAACT-AAATGATTTATGAACTAAATGATGTAATTAC
49354357 ATG
1 ATG
49354360 TATAAATTTA
Statistics
Matches: 76, Mismatches: 3, Indels: 15
0.81 0.03 0.16
Matches are distributed among these distances:
36 1 0.01
37 21 0.28
38 1 0.01
39 2 0.03
40 6 0.08
41 6 0.08
42 4 0.05
43 1 0.01
45 34 0.45
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (45 bp):
ATGATGTATGAACTAAATGATTTATGAACTAAATGATGTAATTAC
Found at i:49357715 original size:16 final size:16
Alignment explanation
Indices: 49357696--49357726 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49357686 CTTCTTCACT
49357696 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
49357712 TACTTACTTACTTAA
1 TACTCACTTACTTAA
49357727 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:49357732 original size:20 final size:20
Alignment explanation
Indices: 49357693--49357732 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
49357683 AAACTTCTTC
* *
49357693 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
49357713 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
49357733 TTATTAATAC
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:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:49358171 original size:55 final size:53
Alignment explanation
Indices: 49357917--49358171 Score: 245
Period size: 55 Copynumber: 4.8 Consensus size: 53
49357907 ACGCGGGTAC
* * * *
49357917 CTTACCATTGCCATGACTTGTCATGGTCTTACTTGGTATCCTT---TT-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
49357966 CTTACCATTTCCATGTCTTGACATGGTCTTACATGGTATCCTCGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * *
49358019 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * *
49358074 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
49358127 CCTTACCAATTTCCATGCCTTAGA-ATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTT-GACATGGTCTTACATGGTATCCTT
49358172 AAACCCTAAT
Statistics
Matches: 168, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
49 38 0.23
52 4 0.02
53 43 0.26
54 11 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:49361302 original size:23 final size:22
Alignment explanation
Indices: 49361250--49361302 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
49361240 TCCACGTCTT
*
49361250 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
49361272 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
49361295 TTTCTTTT
1 TTTCTTTT
49361303 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:49367711 original size:36 final size:36
Alignment explanation
Indices: 49367664--49367737 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
49367654 TGACAGTCCT
49367664 AATTTGACCCTAGTCAGAATGTGGTTTCGAGGCCAC
1 AATTTGACCCTAGTCAGAATGTGGTTTCGAGGCCAC
49367700 AATTTGACCCTAGTCAGAATGTGGTTTCGAGGCCAC
1 AATTTGACCCTAGTCAGAATGTGGTTTCGAGGCCAC
49367736 AA
1 AA
49367738 GACCGAGTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (36 bp):
AATTTGACCCTAGTCAGAATGTGGTTTCGAGGCCAC
Found at i:49369096 original size:28 final size:27
Alignment explanation
Indices: 49369064--49369139 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 27
49369054 AATGAGATTG
49369064 GCACTAAGTGTGCGAGTTTAAT-TGTATA
1 GCACTAAGTGTGCGAGTTTAATAT-TA-A
*
49369092 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTT-AATATTAA
*
49369120 GCACTAAGTGTGCGACTTTA
1 GCACTAAGTGTGCGAGTTTA
49369140 TCGAGTAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 1 0.02
28 38 0.86
29 4 0.09
30 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTTAATATTAA
Found at i:49376841 original size:28 final size:27
Alignment explanation
Indices: 49376809--49376884 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 27
49376799 AATGAGATTG
49376809 GCACTAAGTGTGCGAGTTTAAT-TGTATA
1 GCACTAAGTGTGCGAGTTTAATAT-TA-A
*
49376837 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTT-AATATTAA
*
49376865 GCACTAAGTGTGCGACTTTA
1 GCACTAAGTGTGCGAGTTTA
49376885 TCGAGTAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 1 0.02
28 38 0.86
29 4 0.09
30 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTTAATATTAA
Found at i:49381501 original size:16 final size:16
Alignment explanation
Indices: 49381482--49381512 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49381472 CTTCTTCAGT
49381482 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
49381498 TACTTACTTACTTAA
1 TACTCACTTACTTAA
49381513 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:49381891 original size:55 final size:53
Alignment explanation
Indices: 49381703--49381957 Score: 229
Period size: 55 Copynumber: 4.8 Consensus size: 53
49381693 ACGCGGGTAC
* * * * *
49381703 CTTACCATTGCCATGACTTGTCATGGTCTTACCTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
49381752 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * * *
49381805 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* ***
49381860 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
49381913 CCTTACCAATTGCCATGCCTT-AGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGA-CATGGTCTTACATGGGATCCTT
49381958 AAACCTAATG
Statistics
Matches: 172, Mismatches: 22, Indels: 18
0.81 0.10 0.08
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 2 0.01
53 48 0.28
54 11 0.06
55 70 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:49381894 original size:108 final size:110
Alignment explanation
Indices: 49381750--49381950 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
49381740 ATCCTTTTGA
* *
49381750 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
*
49381813 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
65 TTGCCATGCCTTAGCATGGTCTTACATGGGACCTTTTCCTTATAGT
* * *
49381858 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
49381923 TGCCATGCCTTAGCATGGTCTTACATGG
66 TGCCATGCCTTAGCATGGTCTTACATGG
49381951 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 27 0.32
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTAGCATGGTCTTACATGGGACCTTTTCCTTATAGT
Found at i:49386141 original size:49 final size:49
Alignment explanation
Indices: 49386087--49386446 Score: 642
Period size: 49 Copynumber: 7.5 Consensus size: 49
49386077 TATCACAGTT
* *
49386087 ATACACTTTCACATTCATCACATTGGCCATTTGGCCTTGTCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
49386136 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
**
49386185 ATACACTTTCACATTCATCACATTGAACATTCGGCCTTATCAC--ATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
49386232 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
49386279 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
49386328 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
49386377 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
49386424 ATACACTTTCACATTCATCACAT
1 ATACACTTTCACATTCATCACAT
49386447 AAAATCCTAA
Statistics
Matches: 303, Mismatches: 6, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
47 119 0.39
49 184 0.61
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.33
Consensus pattern (49 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
Found at i:49386156 original size:27 final size:27
Alignment explanation
Indices: 49386126--49386207 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
49386116 TTTGGCCTTG
49386126 TCACATATACATACACTTTCACATTCA
1 TCACATATACATACACTTTCACATTCA
* * *
49386153 TCACAT-TGGC---CA--TTCGGCCTT-A
1 TCACATAT-ACATACACTTTC-ACATTCA
49386175 TCACATATACATACACTTTCACATTCA
1 TCACATATACATACACTTTCACATTCA
49386202 TCACAT
1 TCACAT
49386208 TGAACATTCG
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
22 11 0.28
23 4 0.10
24 2 0.05
25 2 0.05
26 4 0.10
27 17 0.43
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (27 bp):
TCACATATACATACACTTTCACATTCA
Found at i:49386255 original size:96 final size:97
Alignment explanation
Indices: 49386087--49386446 Score: 638
Period size: 96 Copynumber: 3.7 Consensus size: 97
49386077 TATCACAGTT
* *
49386087 ATACACTTTCACATTCATCACATTGGCCATTTGGCCTTGTCACATATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACA-ATACATACACTTTCACATTC
49386152 ATCACATTGGCCATTCGGCCTTATCACATATAC
65 ATCACATTGGCCATTCGGCCTTATCACATATAC
**
49386185 ATACACTTTCACATTCATCACATTGAACATTCGGCCTTATCAC-ATACATACACTTTCACATTCA
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATACATACACTTTCACATTCA
49386249 TCACATTGGCCATTCGGCCTTATCAC--ATAC
66 TCACATTGGCCATTCGGCCTTATCACATATAC
49386279 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACA-ATACATACACTTTCACATTC
49386344 ATCACATTGGCCATTCGGCCTTATCACATATAC
65 ATCACATTGGCCATTCGGCCTTATCACATATAC
49386377 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ATACATACACTTTCACATTCA
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATACATACACTTTCACATTCA
49386441 TCACAT
66 TCACAT
49386447 AAAATCCTAA
Statistics
Matches: 252, Mismatches: 6, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
94 45 0.18
96 121 0.48
98 86 0.34
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.33
Consensus pattern (97 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATACATACACTTTCACATTCA
TCACATTGGCCATTCGGCCTTATCACATATAC
Found at i:49386347 original size:27 final size:27
Alignment explanation
Indices: 49386317--49386399 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
49386307 ATTCGGCCTT
49386317 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
* * *
49386344 ATCACAT-TGGC---CA--TTCGGCCTT-
1 ATCACATAT-ACATACACTTTC-ACATTC
49386366 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
49386393 ATCACAT
1 ATCACAT
49386400 TGGCCATTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
22 11 0.27
23 4 0.10
24 2 0.05
25 2 0.05
26 4 0.10
27 18 0.44
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (27 bp):
ATCACATATACATACACTTTCACATTC
Found at i:49392089 original size:30 final size:30
Alignment explanation
Indices: 49392055--49392151 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
49392045 TAAACTAAAA
*
49392055 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCATGAGCTAAAGT
* * * * * *
49392085 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCATGAGCTAAAGT
* *
49392115 TGAGCTAAGGTTTAGCTCATGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCATGAGCT-AAAGT
49392145 TGAGCTA
1 TGAGCTA
49392152 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCATGAGCTAAAGT
Found at i:49395062 original size:53 final size:54
Alignment explanation
Indices: 49394933--49395187 Score: 231
Period size: 55 Copynumber: 4.8 Consensus size: 54
49394923 ACACGGGTAC
* * * * *
49394933 CTTACCATTGCCATGACTTGTCATGGCCTTACTTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
49394982 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
49395035 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * * * * *
49395090 CTTATCAATGTCATGTCTTGAAATGGTCTTACATGATTTCCTTACCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
49395143 CCTTACCAATTGCCATGCCTT-ACCATAGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGA-CATGGTCTTACATGGTATCCTT
49395188 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 27, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 49 0.29
54 11 0.07
55 65 0.39
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:49397343 original size:51 final size:51
Alignment explanation
Indices: 49397288--49397387 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
49397278 CTACCTTATA
* *
49397288 ACATGTAACACATCCATAATGAACTC-AGACCTCTCAACGAGCTCAGATGTT
1 ACATGTAACACATCCATAATGAACTCGA-ACCACTCAAAGAGCTCAGATGTT
* * *
49397339 ACATGTATCGCATCCATTATGAACTCGAACCACTCAAAGAGCTCAGATG
1 ACATGTAACACATCCATAATGAACTCGAACCACTCAAAGAGCTCAGATG
49397388 CCTCATATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (51 bp):
ACATGTAACACATCCATAATGAACTCGAACCACTCAAAGAGCTCAGATGTT
Found at i:49397472 original size:43 final size:42
Alignment explanation
Indices: 49397357--49397472 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
49397347 CGCATCCATT
* * * * *
49397357 ATGAACTCGAACCACTCAAAGAGCTCAGATGCCTCATATATC
1 ATGAACTCGGACCACTCAACGAGCTCGGATTCCACATATATC
* * * *
49397399 ATGAACTTGGACCACTCAACAAGTTTGGATTCTCACATATATC
1 ATGAACTCGGACCACTCAACGAGCTCGGATTC-CACATATATC
*
49397442 ATGAACTCGGACCGCTCAACGAGCTCGGATT
1 ATGAACTCGGACCACTCAACGAGCTCGGATT
49397473 TCTTAATTCC
Statistics
Matches: 59, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 24 0.41
43 35 0.59
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGAACTCGGACCACTCAACGAGCTCGGATTCCACATATATC
Found at i:49400546 original size:30 final size:30
Alignment explanation
Indices: 49400512--49400589 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
49400502 GACTAAAATA
*
49400512 AAGAAATCCAAGATAGAAAAATCCAAGATG
1 AAGAAATCCAAGATACAAAAATCCAAGATG
*
49400542 AAGAAATCCAAGATACAGAAATCCAAGAT-
1 AAGAAATCCAAGATACAAAAATCCAAGATG
* *
49400571 ATGGAAATCCAATATACAA
1 A-AGAAATCCAAGATACAA
49400590 TACCGTACCT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 1 0.02
30 41 0.98
ACGTcount: A:0.55, C:0.15, G:0.14, T:0.15
Consensus pattern (30 bp):
AAGAAATCCAAGATACAAAAATCCAAGATG
Found at i:49400577 original size:15 final size:14
Alignment explanation
Indices: 49400512--49400582 Score: 88
Period size: 15 Copynumber: 4.8 Consensus size: 14
49400502 GACTAAAATA
49400512 AAGAAATCCAAGAT
1 AAGAAATCCAAGAT
*
49400526 AGAAAAATCCAAGAT
1 A-AGAAATCCAAGAT
49400541 GAAGAAATCCAAGAT
1 -AAGAAATCCAAGAT
49400556 ACAGAAATCCAAGAT
1 A-AGAAATCCAAGAT
*
49400571 ATGGAAATCCAA
1 A-AGAAATCCAA
49400583 TATACAATAC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
14 2 0.04
15 47 0.94
16 1 0.02
ACGTcount: A:0.55, C:0.15, G:0.15, T:0.14
Consensus pattern (14 bp):
AAGAAATCCAAGAT
Found at i:49402045 original size:23 final size:23
Alignment explanation
Indices: 49402015--49402061 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
49402005 AGATGGTTCT
*
49402015 CGTTCGCGTCGGGGGACATCACA
1 CGTTCGCGTCGGGAGACATCACA
49402038 CGTTCGCGTCGGGAGACATCACA
1 CGTTCGCGTCGGGAGACATCACA
49402061 C
1 C
49402062 TATCACAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.17
Consensus pattern (23 bp):
CGTTCGCGTCGGGAGACATCACA
Found at i:49404003 original size:43 final size:43
Alignment explanation
Indices: 49403955--49404037 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
49403945 ACATGTAACA
*
49403955 CATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGCTCG
1 CATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGCTCG
*
49403998 CATCCATAATGAACTCGGACCACTCAATGAGCTCAGATGC
1 CATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGC
49404038 CTTATATATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.19
Consensus pattern (43 bp):
CATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGCTCG
Found at i:49407075 original size:28 final size:28
Alignment explanation
Indices: 49407044--49407113 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 28
49407034 ATATATGTAT
*
49407044 ATGGCACTTAGTGTGCAAAATATTAAGA
1 ATGGAACTTAGTGTGCAAAATATTAAGA
* * * * * *
49407072 ATGGAACTTGGTGTTCGAGATATTGAGT
1 ATGGAACTTAGTGTGCAAAATATTAAGA
*
49407100 ATGGGACTTAGTGT
1 ATGGAACTTAGTGT
49407114 ATGAGACATC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.30, C:0.09, G:0.29, T:0.33
Consensus pattern (28 bp):
ATGGAACTTAGTGTGCAAAATATTAAGA
Found at i:49407354 original size:15 final size:15
Alignment explanation
Indices: 49407334--49407381 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
49407324 TCAAAGATGG
49407334 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
49407349 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
49407364 -TTTATGGATATAAA
1 GTTTATGGATATGAA
49407378 GTTT
1 GTTT
49407382 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:49407361 original size:29 final size:29
Alignment explanation
Indices: 49407328--49407387 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
49407318 AAGGATTCAA
* *
49407328 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGATTTATGGATATAAAGTTTATGT
*
49407357 AGATGGATTTATGGATATAAAGTTTTTGT
1 AGATGGATTTATGGATATAAAGTTTATGT
49407386 AG
1 AG
49407388 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGATTTATGGATATAAAGTTTATGT
Found at i:49409572 original size:42 final size:42
Alignment explanation
Indices: 49409525--49409609 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
49409515 CTTCAGAAAG
49409525 ATAGTAAAGTCATTGCTCTTTACTTGAACTAACCTGAAATGT
1 ATAGTAAAGTCATTGCTCTTTACTTGAACTAACCTGAAATGT
*
49409567 ATAGTAAAGTCGTTGCTCTTTACTTGAACTAACCTGAAATGT
1 ATAGTAAAGTCATTGCTCTTTACTTGAACTAACCTGAAATGT
49409609 A
1 A
49409610 GGAGAAATAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.35
Consensus pattern (42 bp):
ATAGTAAAGTCATTGCTCTTTACTTGAACTAACCTGAAATGT
Found at i:49410709 original size:30 final size:28
Alignment explanation
Indices: 49410656--49410711 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
49410646 TTCTTCCACG
* *
49410656 CTTTCTTTTTGCTCACTCTCTTTTTCAA
1 CTTTCTTTTTGCACACACTCTTTTTCAA
49410684 CTTTACTTTCTTGCACACACTCTTTTTC
1 CTTT-CTTT-TTGCACACACTCTTTTTC
49410712 TTTTTCGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.12, C:0.30, G:0.04, T:0.54
Consensus pattern (28 bp):
CTTTCTTTTTGCACACACTCTTTTTCAA
Found at i:49411763 original size:17 final size:19
Alignment explanation
Indices: 49411741--49411775 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49411731 TATGTTCAAA
49411741 TTTTCAG-A-TTTTGTTTT
1 TTTTCAGAATTTTTGTTTT
49411758 TTTTCAGAATTTTTGTTT
1 TTTTCAGAATTTTTGTTT
49411776 GAAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (19 bp):
TTTTCAGAATTTTTGTTTT
Found at i:49412038 original size:15 final size:15
Alignment explanation
Indices: 49412018--49412065 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
49412008 TCAAAGATGG
49412018 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
49412033 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
49412048 -TTTATGGATATAAA
1 GTTTATGGATATGAA
49412062 GTTT
1 GTTT
49412066 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:49412045 original size:29 final size:29
Alignment explanation
Indices: 49412012--49412071 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
49412002 AAGGATTCAA
* *
49412012 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGATTTATGGATATAAAGTTTATGT
*
49412041 AGATGGATTTATGGATATAAAGTTTTTGT
1 AGATGGATTTATGGATATAAAGTTTATGT
49412070 AG
1 AG
49412072 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGATTTATGGATATAAAGTTTATGT
Found at i:49415943 original size:37 final size:37
Alignment explanation
Indices: 49415893--49416015 Score: 151
Period size: 37 Copynumber: 3.4 Consensus size: 37
49415883 ACATGTGGCA
* *
49415893 CGTGTAAGACCATAGCTCGGCTATGGCATCGTAATAG
1 CGTGTAAGACCATAGCTAGGCTATGGCATCGTGATAG
* * *
49415930 CGTGTAAGACCATAGTTGGGCTATGGCATCATGAT-G
1 CGTGTAAGACCATAGCTAGGCTATGGCATCGTGATAG
* *
49415966 ACATGTAAGACCATAGCTAGGCTATGGCATTGTGATA-
1 -CGTGTAAGACCATAGCTAGGCTATGGCATCGTGATAG
*
49416003 TGTGTAAGACCAT
1 CGTGTAAGACCAT
49416016 GTCTGGTACA
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
36 12 0.16
37 61 0.84
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (37 bp):
CGTGTAAGACCATAGCTAGGCTATGGCATCGTGATAG
Found at i:49416050 original size:42 final size:42
Alignment explanation
Indices: 49416003--49416344 Score: 192
Period size: 48 Copynumber: 7.7 Consensus size: 42
49415993 CATTGTGATA
* *
49416003 TGTGTAAGACCATGTCTGGTACATGGCATCGATATGAGATCC
1 TGTGTAAGACCATATCTGGTACATGGCATCGATATGAGATCT
*
49416045 TGTGTAAGACCATATCTGGCATATGGCATCAGCATCGATATGAGATCT
1 TGTGTAAGACCATATCTGG--TA---CAT-GGCATCGATATGAGATCT
* *
49416093 TGTGTAAAACCATATCTGGGATATGACATCAGCATCGATATGAGATCT
1 TGTGTAAGACCATATCT-GG---T-ACAT-GGCATCGATATGAGATCT
* *
49416141 TGTGTAAGACCATATCTGGGATATGACATCAGCATCTATATGAGAT-T
1 TGTGTAAGACCATATCT-GG---T-ACAT-GGCATCGATATGAGATCT
** * * * * *
49416188 ACATGTAAGACCATATCTTGG-ATATGGCTTTGGTATGAGATTT
1 -TGTGTAAGACCATATC-TGGTACATGGCATCGATATGAGATCT
* * * *** *
49416231 TGTGTAAGACCGTGTCTGGGATGCGGCATCGATATGTGAT-T
1 TGTGTAAGACCATATCTGGTACATGGCATCGATATGAGATCT
* * * * *
49416272 TCATATAAGACCATGTCTGGGACATGGCATCGATGTGAGA-CTT
1 T-GTGTAAGACCATATCTGGTACATGGCATCGATATGAGATC-T
49416315 TGTGTAAGACCATAGT-TGG-ACTATGGCATC
1 TGTGTAAGACCATA-TCTGGTAC-ATGGCATC
49416345 AAGTAAACGA
Statistics
Matches: 246, Mismatches: 36, Indels: 36
0.77 0.11 0.11
Matches are distributed among these distances:
41 7 0.03
42 106 0.43
43 7 0.03
44 2 0.01
47 4 0.02
48 114 0.46
49 3 0.01
50 2 0.01
51 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTGTAAGACCATATCTGGTACATGGCATCGATATGAGATCT
Found at i:49416099 original size:48 final size:48
Alignment explanation
Indices: 49416028--49416213 Score: 284
Period size: 48 Copynumber: 3.9 Consensus size: 48
49416018 CTGGTACATG
* * *
49416028 GCATCGATATGAGATCCTGTGTAAGACCATATCTGGCATATGGCATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
*
49416076 GCATCGATATGAGATCTTGTGTAAAACCATATCTGGGATATGACATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
49416124 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
* ** *
49416172 GCATCTATATGAGAT-TACATGTAAGACCATATCTTGGATATG
1 GCATCGATATGAGATCT-TGTGTAAGACCATATCTGGGATATG
49416214 GCTTTGGTAT
Statistics
Matches: 128, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
47 1 0.01
48 127 0.99
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (48 bp):
GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
Found at i:49416311 original size:84 final size:84
Alignment explanation
Indices: 49416172--49416325 Score: 200
Period size: 84 Copynumber: 1.8 Consensus size: 84
49416162 TATGACATCA
* * * * * * * *
49416172 GCATCTATATGAGATTACATGTAAGACCATATCTTGGATATGGCTTTGGTATGAGATTTTGTGTA
1 GCATCGATATGAGATTACATATAAGACCATATCTGGGACATGGCATCGATATGAGACTTTGTGTA
49416237 AGACCGTGTCTGGGATGCG
66 AGACCGTGTCTGGGATGCG
* * * *
49416256 GCATCGATATGTGATTTCATATAAGACCATGTCTGGGACATGGCATCGATGTGAGACTTTGTGTA
1 GCATCGATATGAGATTACATATAAGACCATATCTGGGACATGGCATCGATATGAGACTTTGTGTA
49416321 AGACC
66 AGACC
49416326 ATAGTTGGAC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 58 1.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (84 bp):
GCATCGATATGAGATTACATATAAGACCATATCTGGGACATGGCATCGATATGAGACTTTGTGTA
AGACCGTGTCTGGGATGCG
Found at i:49421389 original size:27 final size:27
Alignment explanation
Indices: 49421332--49421507 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 27
49421322 ATATTGAGCC
* * * *
49421332 CGCACACTCAGTGCTATATA-TCAACT
1 CGCACACTTAGTGCCACATAGTCAAAT
* *
49421358 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACATAGTCAAAT
* * *
49421385 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCCACATAGTCA-AAT
* * *
49421413 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAGTCAAAT
* **
49421440 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAGTCAAAT
* *
49421467 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCCACATAGTCAAAT
49421494 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49421508 TGTACAATTT
Statistics
Matches: 122, Mismatches: 24, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
26 17 0.14
27 82 0.67
28 23 0.19
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAGTCAAAT
Found at i:49421424 original size:55 final size:53
Alignment explanation
Indices: 49421332--49421508 Score: 203
Period size: 55 Copynumber: 3.3 Consensus size: 53
49421322 ATATTGAGCC
* * * * *
49421332 CGCACACTCAGTGCTATATATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATATTAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
49421385 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATA-TTA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
49421440 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTA-CATATT-AACTCGCACACTTAGTGCCACATAGTCAAAT
49421494 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49421509 GTACAATTTA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
53 18 0.17
54 42 0.40
55 44 0.42
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATATTAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:49421451 original size:82 final size:81
Alignment explanation
Indices: 49421352--49421507 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
49421342 GTGCTATATA
* * *
49421352 TCAACTCGCACACTTAGTGCCA-CGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGC
1 TCAACTCGCACACTTAGTG-CATCATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGC
49421416 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * ** *
49421434 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
49421499 ACTTAGTGC
66 ACTTAGTGC
49421508 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49429512 original size:27 final size:27
Alignment explanation
Indices: 49429455--49429629 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 27
49429445 ATATTGAGCC
* * * *
49429455 CGCACACTCAGTGCTATATA-TCAACT
1 CGCACACTTAGTGCCACATAGTCAAAT
* *
49429481 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACATAGTCAAAT
* *
49429508 CGCACACTTAGTGCTACATAGT-AGACT
1 CGCACACTTAGTGCCACATAGTCA-AAT
* * *
49429535 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAGTCAAAT
* **
49429562 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAGTCAAAT
* *
49429589 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCCACATAGTCAAAT
49429616 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49429630 TGTACAATTT
Statistics
Matches: 122, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
26 18 0.15
27 102 0.84
28 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAGTCAAAT
Found at i:49429546 original size:54 final size:53
Alignment explanation
Indices: 49429455--49429630 Score: 203
Period size: 54 Copynumber: 3.3 Consensus size: 53
49429445 ATATTGAGCC
* * * *
49429455 CGCACACTCAGTGCTATATATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
49429508 CGCACACTTAGTGCTACATAGT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATA-TCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
49429562 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTA-CATA-TCAACTCGCACACTTAGTGCCACATAGTCAAAT
49429616 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49429631 GTACAATTTA
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
53 20 0.19
54 82 0.80
55 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:49429573 original size:81 final size:81
Alignment explanation
Indices: 49429475--49429629 Score: 222
Period size: 81 Copynumber: 1.9 Consensus size: 81
49429465 GTGCTATATA
* * *
49429475 TCAACTCGCACACTTAGTGCCA-CGTAATCAAATCGCACACTTAGTGCTACATAGTAGACTCGCA
1 TCAACTCGCACACTTAGTG-CATCATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
49429539 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
49429556 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
49429621 ACTTAGTGC
66 ACTTAGTGC
49429630 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
80 2 0.03
81 63 0.97
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49431834 original size:35 final size:35
Alignment explanation
Indices: 49431795--49431867 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
49431785 CAAGTATGTG
49431795 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
*
49431830 ATATATATTATTTATGTGAGATTGATCTTACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
49431865 ATA
1 ATA
49431868 AAGAATGTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (35 bp):
ATATATATTATTTATGTGAGATTGATCTGACGAGA
Found at i:49435979 original size:27 final size:27
Alignment explanation
Indices: 49435949--49436126 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
49435939 ATATTGAGCC
* * *
49435949 CGCACACTCAGTGCTATATATTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
49435976 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
49436003 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
49436031 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
49436058 CGCACACTTAGTGC-ATCATATTC-TTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
49436084 CGCACACTTAAGTGCAACATAGTCGAA-T
1 CGCACACTT-AGTGCTACATAATC-AACT
49436112 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49436127 GTACAATTTA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
26 11 0.09
27 79 0.64
28 34 0.27
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:49444689 original size:27 final size:26
Alignment explanation
Indices: 49444658--49444834 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
49444648 TAAATTGTAC
49444658 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
49444685 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
49444711 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
49444739 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
49444767 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
49444794 GGCACTAAGTGTGCGAGTTGA-TATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
49444820 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49444835 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
26 17 0.14
27 83 0.66
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:49444774 original size:82 final size:81
Alignment explanation
Indices: 49444659--49444814 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
49444649 AAATTGTACA
* * *
49444659 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
49444723 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
49444740 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
49444805 TGCGAGTTGA
65 TGCGAATTGA
49444815 TATATAGCAC
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:49444782 original size:55 final size:53
Alignment explanation
Indices: 49444658--49444834 Score: 205
Period size: 55 Copynumber: 3.3 Consensus size: 53
49444648 TAAATTGTAC
* **
49444658 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCGAGTTG-ATATGT
* *
49444711 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTGACTATGT
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-TGA-TATGT
* * * *
49444767 AGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGTTGATATAT
1 AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTTGATATGT
*
49444820 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49444835 GGCTCAATAT
Statistics
Matches: 107, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
53 19 0.18
54 39 0.36
55 48 0.45
56 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (53 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTTGATATGT
Found at i:49448361 original size:46 final size:44
Alignment explanation
Indices: 49448269--49448475 Score: 211
Period size: 46 Copynumber: 4.5 Consensus size: 44
49448259 GCCAATGCCG
* *
49448269 TGTCCCAGACATGGTCTTACACTAACACATCTCGTA-GCCGATGCA
1 TGTCCCAGACAT-GTCTTACACTGACTCATCTCG-AGGCCGATGCA
* *
49448314 TGTCCCAGACATGTCTTACACTGACTTACGTCTCGAGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTGAC-T-CATCTCGAGGCCGATGCA
* * *
49448360 TGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGATGCCA
1 TGTCCCAGACATGTCTTACACT-G-ACTCATCTCGAGGCCGATG-CA
* * *
49448407 TGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGCCGATGCA
1 TGTCCCAGACAT-GTCTTACACTGACTCATC-T--CGAGGCCGATGCA
49448454 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
49448476 AGCTCACAAT
Statistics
Matches: 140, Mismatches: 12, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 63 0.45
47 31 0.22
48 19 0.14
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTGACTCATCTCGAGGCCGATGCA
Found at i:49448452 original size:94 final size:90
Alignment explanation
Indices: 49448269--49448478 Score: 257
Period size: 94 Copynumber: 2.3 Consensus size: 90
49448259 GCCAATGCCG
*
49448269 TGTCCCAGACATGGTCTTACACTAACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACA
1 TGTCCCAGACAT-GTCTTACACTAGCACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACA
* * *
49448334 CTGACTTACGTCTCGAGGCTGATGCA
65 CTGACTTACATATCGAGGCCGATGCA
49448360 TGTCCCAGACATGTCTTACACTAGCAC-TCGTC-TCAATGCCGATGCCATGTCCCAGACATGGTC
1 TGTCCCAGACATGTCTTACACTAGCACATC-TCGT--A-GCCGATG-CATGTCCCAGACAT-GTC
* *
49448423 TTACACTGGCTCT-CATAAT-GTGGCCGATGCA
60 TTACACTGACT-TACAT-ATCGAGGCCGATGCA
49448454 TGTCCCAGACATGTCTTACACTAGC
1 TGTCCCAGACATGTCTTACACTAGC
49448479 TCACAATAAC
Statistics
Matches: 105, Mismatches: 6, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
89 3 0.03
90 16 0.15
91 13 0.12
92 7 0.07
93 14 0.13
94 50 0.48
95 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (90 bp):
TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACAC
TGACTTACATATCGAGGCCGATGCA
Found at i:49449678 original size:13 final size:13
Alignment explanation
Indices: 49449660--49449684 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49449650 TAACCTACAA
49449660 AATTAAATAACAT
1 AATTAAATAACAT
49449673 AATTAAATAACA
1 AATTAAATAACA
49449685 CACAACTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:49449942 original size:10 final size:10
Alignment explanation
Indices: 49449909--49449957 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
49449899 AAAAAGGAAT
*
49449909 GAGCTGAAAC
1 GAGCTCAAAC
49449919 GAGCT-AAATTC
1 GAGCTCAAA--C
49449930 GAGCTCAAAC
1 GAGCTCAAAC
*
49449940 GAGCTAAAAC
1 GAGCTCAAAC
49449950 GAGCTCAA
1 GAGCTCAA
49449958 GTGAGCTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 3 0.09
10 22 0.65
11 6 0.18
12 3 0.09
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:49449964 original size:20 final size:21
Alignment explanation
Indices: 49449909--49449957 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
49449899 AAAAAGGAAT
* *
49449909 GAGCTGAAACGAGCTAAATTC
1 GAGCTCAAACGAGCTAAATAC
49449930 GAGCTCAAACGAGCTAAA-AC
1 GAGCTCAAACGAGCTAAATAC
49449950 GAGCTCAA
1 GAGCTCAA
49449958 GTGAGCTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (21 bp):
GAGCTCAAACGAGCTAAATAC
Found at i:49457053 original size:40 final size:40
Alignment explanation
Indices: 49457016--49457200 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
49457006 GCTACTCGTT
*
49457016 CAAATGCCTTCGGGACATAGCCCGG-TTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAATAACTCGCA
* * *
49457056 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
* * *
49457096 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
* * * * * *
49457135 CAAATGTCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAATAAC-TCGCA
49457176 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49457201 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 77 0.63
41 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
Found at i:49457118 original size:79 final size:80
Alignment explanation
Indices: 49457018--49457200 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
49457008 TACTCGTTCA
* *
49457018 AATGCCTTCGGGACATAGCCCGG-TTATAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAATAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
49457081 ATTTAGTAACTT-GCACC
64 ATATAGTAACTTAGCA-C
* * **
49457098 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGTCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
*
49457162 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
49457177 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
49457201 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.67
80 27 0.30
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:49459880 original size:40 final size:40
Alignment explanation
Indices: 49459824--49460006 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
49459814 TAGATGATAA
* *
49459824 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA-TAT
* *
49459864 CCGGGCTAAGTTCCGAAGGCAGTTGTG-TGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATAT
*
49459904 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
*
49459944 CCGGGCTAAGTCCCGAAGGCATTGGTG-TGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATAT
* **
49459984 CCGGGCTATGTCCTAAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
49460007 CGAGCAAGTA
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
39 2 0.02
40 125 0.98
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:49459960 original size:80 final size:80
Alignment explanation
Indices: 49459824--49460006 Score: 271
Period size: 80 Copynumber: 2.3 Consensus size: 80
49459814 TAGATGATAA
* *
49459824 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTTCCGAAGGCAGTT-
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCA-TTG
49459888 GTGTGAGTTACTATAT
65 GTGTGAGTTACTATAT
* *
49459904 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTG
49459968 GTGTGAGTTACTATAT
65 GTGTGAGTTACTATAT
* **
49459984 CCGGGCTATGTCCTAAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
49460007 CGAGCAAGTA
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
79 3 0.03
80 91 0.97
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
TGTGAGTTACTATAT
Found at i:49460022 original size:40 final size:40
Alignment explanation
Indices: 49459824--49460027 Score: 234
Period size: 40 Copynumber: 5.1 Consensus size: 40
49459814 TAGATGATAA
* * * *
49459824 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
* *
49459864 CCGGGCTAAGTTCCGAAGGCAGTT-GTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTCGTGCGAGTTACTATAT
*
49459904 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
49459944 CCGGGCTAAGTCCCGAAGGCATTGGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* ** * *
49459984 CCGGGCTATGTCCTAAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
49460024 CCGG
1 CCGG
49460028 TTAAATCCTG
Statistics
Matches: 144, Mismatches: 16, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
39 5 0.03
40 137 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:49471723 original size:43 final size:43
Alignment explanation
Indices: 49471633--49471756 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
49471623 TACCGAGATG
* *
49471633 TGATTATATGTAAGACCATGTCTGGGACATTGGCATTGTATTG
1 TGATTATGTGTAAGACCATGTCTGGGACATTGGCATTGTATTA
*
49471676 TGATTATGTGTAAGACCATGTCTAGGACATTGGCATCAT-TA-TA
1 TGATTATGTGTAAGACCATGTCTGGGACATTGGCAT--TGTATTA
* * *
49471719 TGATT-TCGTATAAGACCCTGTCTGGGACAGTGGCATTG
1 TGATTAT-GTGTAAGACCATGTCTGGGACATTGGCATTG
49471757 ATATGTTGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 65 0.93
44 2 0.03
45 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.35
Consensus pattern (43 bp):
TGATTATGTGTAAGACCATGTCTGGGACATTGGCATTGTATTA
Found at i:49486196 original size:34 final size:33
Alignment explanation
Indices: 49486152--49486229 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 33
49486142 TAGTTTCGTG
* *
49486152 ACAGTCCAGTATTAGT-TAGGGCCGTAGCCCATT
1 ACAGTACAGTATCAGTGT-GGGCCGTAGCCCATT
*
49486185 ACAGTAGCAGTATCAGTGTGGGCCTTAGCCCATT
1 ACAGTA-CAGTATCAGTGTGGGCCGTAGCCCATT
49486219 ACAGTACAGTA
1 ACAGTACAGTA
49486230 ATAGAAATGC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
33 10 0.25
34 29 0.73
35 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (33 bp):
ACAGTACAGTATCAGTGTGGGCCGTAGCCCATT
Found at i:49489668 original size:55 final size:55
Alignment explanation
Indices: 49489535--49489732 Score: 235
Period size: 55 Copynumber: 3.6 Consensus size: 55
49489525 AGAATTGAAT
* * *
49489535 TGCCATGTCTCGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTTGCCTTATAGAACTTACCAA
* * *
49489588 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTTGCCTTATAG-AACTTACCAA
* *
49489643 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTT-CCTTAGA-AACCTTACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTTGCCTTATAGAA-CTTACCAA
* * *
49489697 TTCCCATGCCTTGGCATGGTCTTACATGGTGTCCTT
1 -TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
49489733 AAACCCTAAT
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
52 2 0.02
53 37 0.30
54 8 0.06
55 72 0.58
56 5 0.04
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (55 bp):
TGCCATGCCTTGACATGGTCTTACATGGTATCCTTTGCCTTATAGAACTTACCAA
Found at i:49498923 original size:46 final size:46
Alignment explanation
Indices: 49498856--49499033 Score: 211
Period size: 46 Copynumber: 3.8 Consensus size: 46
49498846 ATGTACCCGC
*
49498856 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGATGTTCGCAT
* **
49498902 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TCGCAT
* **
49498952 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
49498995 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
49499034 CTCAATCATC
Statistics
Matches: 110, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 5 0.05
46 63 0.57
47 29 0.26
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:49498975 original size:93 final size:93
Alignment explanation
Indices: 49498863--49499034 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
49498853 CGCCCATAAG
**
49498863 CGAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
49498927 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
49498956 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49499021 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
49499035 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:49505007 original size:55 final size:54
Alignment explanation
Indices: 49504863--49505070 Score: 235
Period size: 55 Copynumber: 3.8 Consensus size: 54
49504853 ATCCTTTTGA
* *
49504863 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCC-TTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCTTATG
* * *
49504916 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCTTAT-G
* *
49504970 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCTTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCTTATG
** * * *
49505023 AAACCTTACCAATTTTCATGCCTTGGCATGGTATTACATGGTATCCTT
1 -AA-CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
49505071 AAACCCTAAT
Statistics
Matches: 131, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
52 2 0.02
53 47 0.36
54 8 0.06
55 71 0.54
56 3 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCTTATG
Found at i:49509248 original size:43 final size:43
Alignment explanation
Indices: 49509165--49509251 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
49509155 ACATATCGTA
* *
49509165 CAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCATATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGCAATCATATAT
* *
49509208 CAATGCCACTGTCCCAGACATGGTCTTACTTGCACA-CATATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGCA-ATCATATAT
49509251 C
1 C
49509252 GGAATCACAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 38 0.97
44 1 0.03
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACATGCAATCATATAT
Found at i:49511092 original size:11 final size:11
Alignment explanation
Indices: 49511071--49511107 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
49511061 TACAAGCATT
49511071 TTAAGAAACACA
1 TTAA-AAACACA
49511083 TTAAAAACACA
1 TTAAAAACACA
49511094 TT--AAACACA
1 TTAAAAACACA
49511103 TTAAA
1 TTAAA
49511108 CTTAATAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
9 9 0.39
11 10 0.43
12 4 0.17
ACGTcount: A:0.59, C:0.16, G:0.03, T:0.22
Consensus pattern (11 bp):
TTAAAAACACA
Found at i:49511330 original size:40 final size:41
Alignment explanation
Indices: 49511269--49511356 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 41
49511259 AGTTTAATAA
49511269 AAATAAAGTCCAACAAATCAATAATTAACTAAGATGAGTTT
1 AAATAAAGTCCAACAAATCAATAATTAACTAAGATGAGTTT
* * * *
49511310 -AATAAAGTCTAGCAACTCAATTATTAACTAAGATGAGTTT
1 AAATAAAGTCCAACAAATCAATAATTAACTAAGATGAGTTT
49511350 AAATAAA
1 AAATAAA
49511357 TTAAAGTTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 36 0.86
41 6 0.14
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.28
Consensus pattern (41 bp):
AAATAAAGTCCAACAAATCAATAATTAACTAAGATGAGTTT
Found at i:49516574 original size:56 final size:56
Alignment explanation
Indices: 49516510--49516689 Score: 306
Period size: 56 Copynumber: 3.2 Consensus size: 56
49516500 GACCATGGCA
49516510 CTGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCAATATGTGATT
1 CTGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCAATATGTGATT
* * * * *
49516566 TTGATATATGTGTGCGAGTAAGACCACGTTTACTATGTTGGCATCGATATGTGATT
1 CTGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCAATATGTGATT
49516622 CTGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCAATATGTGATT
1 CTGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCAATATGTGATT
*
49516678 CTGATAAATGTG
1 CTGATATATGTG
49516690 ATTACATGTA
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 113 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCAATATGTGATT
Found at i:49517140 original size:63 final size:63
Alignment explanation
Indices: 49517041--49517162 Score: 226
Period size: 63 Copynumber: 1.9 Consensus size: 63
49517031 TGAAAGAATA
49517041 GAAAGAAGGAACTCAAAAACAAGCACGAACCAATACTAGAGAGTATTGACCCAATTGCTAATG
1 GAAAGAAGGAACTCAAAAACAAGCACGAACCAATACTAGAGAGTATTGACCCAATTGCTAATG
* *
49517104 GAAAGAAGGAACTCAAAAGCAAGCATGAACCAATACTAGAGAGTATTGACCCAATTGCT
1 GAAAGAAGGAACTCAAAAACAAGCACGAACCAATACTAGAGAGTATTGACCCAATTGCT
49517163 TATAGGCTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (63 bp):
GAAAGAAGGAACTCAAAAACAAGCACGAACCAATACTAGAGAGTATTGACCCAATTGCTAATG
Found at i:49530630 original size:21 final size:21
Alignment explanation
Indices: 49530576--49530616 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
49530566 AAAAAGTGAA
49530576 AATGAAAAAGAAAGAAAAGAT
1 AATGAAAAAGAAAGAAAAGAT
49530597 AATGAAAAAGAAAGAAAAGA
1 AATGAAAAAGAAAGAAAAGA
49530617 ACATGAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (21 bp):
AATGAAAAAGAAAGAAAAGAT
Found at i:49533684 original size:30 final size:30
Alignment explanation
Indices: 49533650--49533731 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
49533640 TAAACTAAAT
*
49533650 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGC
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
* * * * *
49533680 TGAGCTAAGATTAAACTCCTAAGCTTAAGC
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
*
49533710 TGAGCTAAGGTTTAGCTCGTGA
1 TGAGCTAAGATTTAGCTCGTGA
49533732 ACTGAATATG
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
Found at i:49536017 original size:16 final size:17
Alignment explanation
Indices: 49535982--49536019 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
49535972 TTTATCTCAA
* *
49535982 TTTCTTTTTCCACTTTT
1 TTTCTTGTTCCACATTT
49535999 TTTCTTGTT-CACATTT
1 TTTCTTGTTCCACATTT
49536015 TTTCT
1 TTTCT
49536020 CTCTCAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.08, C:0.21, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTCTTGTTCCACATTT
Found at i:49536045 original size:12 final size:12
Alignment explanation
Indices: 49536028--49536072 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
49536018 CTCTCTCAAA
49536028 CTCTTTTTCATT
1 CTCTTTTTCATT
*
49536040 CTCTTTTTCAAT
1 CTCTTTTTCATT
* *
49536052 CTCATTTTCTTT
1 CTCTTTTTCATT
*
49536064 TTCTTTTTC
1 CTCTTTTTC
49536073 TTTTTCAAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (12 bp):
CTCTTTTTCATT
Found at i:49536055 original size:30 final size:30
Alignment explanation
Indices: 49536021--49536080 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
49536011 ATTTTTTCTC
49536021 TCTCAAACTCTTTTTCATTCTCTTTTTCAA
1 TCTCAAACTCTTTTTCATTCTCTTTTTCAA
*** * *
49536051 TCTCATTTTCTTTTTCTTTTTCTTTTTCAA
1 TCTCAAACTCTTTTTCATTCTCTTTTTCAA
49536081 AGGCTTTTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (30 bp):
TCTCAAACTCTTTTTCATTCTCTTTTTCAA
Found at i:49536059 original size:24 final size:24
Alignment explanation
Indices: 49536023--49536072 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
49536013 TTTTTCTCTC
*
49536023 TCAAACTCTTTTTCATTCTCTTTT
1 TCAAACTCATTTTCATTCTCTTTT
* * *
49536047 TCAATCTCATTTTCTTTTTCTTTT
1 TCAAACTCATTTTCATTCTCTTTT
49536071 TC
1 TC
49536073 TTTTTCAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (24 bp):
TCAAACTCATTTTCATTCTCTTTT
Found at i:49536090 original size:30 final size:30
Alignment explanation
Indices: 49536029--49536090 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
49536019 TCTCTCAAAC
* *
49536029 TCTTTTTCATTCTCTTTTTCAATCTCATTT
1 TCTTTTTCATTCTCTTTTTCAAACGCATTT
* * * *
49536059 TCTTTTTCTTTTTCTTTTTCAAAGGCTTTT
1 TCTTTTTCATTCTCTTTTTCAAACGCATTT
49536089 TC
1 TC
49536091 AAGTTCTCTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.11, C:0.21, G:0.03, T:0.65
Consensus pattern (30 bp):
TCTTTTTCATTCTCTTTTTCAAACGCATTT
Found at i:49536150 original size:5 final size:5
Alignment explanation
Indices: 49536140--49536207 Score: 59
Period size: 5 Copynumber: 13.0 Consensus size: 5
49536130 CTCTTGCCTC
*
49536140 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
*
49536187 TCTTT TCTTT GTTTTT TCTTT
1 TCTTT TCTTT -TCTTT TCTTT
49536208 ACAAGAATGT
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
4 4 0.08
5 33 0.63
6 10 0.19
7 5 0.10
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (5 bp):
TCTTT
Found at i:49536180 original size:15 final size:14
Alignment explanation
Indices: 49536140--49536196 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
49536130 CTCTTGCCTC
*
49536140 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
49536155 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
49536170 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
49536187 TCTTTTCTTT
1 TCTTTTCTTT
49536197 GTTTTTTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:49536197 original size:21 final size:21
Alignment explanation
Indices: 49536140--49536207 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
49536130 CTCTTGCCTC
* *
49536140 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
49536161 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
*
49536182 TCTTTTCTTTTCTTTGTTTTT
1 TCTTTTCTTTTCTTTGCTTTT
49536203 TCTTT
1 TCTTT
49536208 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.08
21 31 0.79
22 5 0.13
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Done.