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 153 of 362
Found at i:50379927 original size:30 final size:28
Alignment explanation
Indices: 50379893--50379948 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
50379883 GAAGCAAAAA
* *
50379893 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
50379923 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
50379949 CGTGGAAGAA
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:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:50383438 original size:29 final size:28
Alignment explanation
Indices: 50383368--50383454 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 28
50383358 CTAACGGGAT
*
50383368 ATATAAATGTGATTTGAGCCTAATGGGCC
1 ATAT-AATGTGATTTGGGCCTAATGGGCC
* *
50383397 AAATACAGGTGATTTGGGCCTAATGGGCC
1 ATATA-ATGTGATTTGGGCCTAATGGGCC
* *
50383426 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATAT-AATGTGATTTGGGCCTAATGGGCC
50383454 A
1 A
50383455 GATACAAGTA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 17 0.35
29 31 0.63
30 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
ATATAATGTGATTTGGGCCTAATGGGCC
Found at i:50384782 original size:46 final size:47
Alignment explanation
Indices: 50384720--50384815 Score: 140
Period size: 46 Copynumber: 2.1 Consensus size: 47
50384710 GAGCTGCTAG
* * *
50384720 TGCATGGATGACATTAAATGATCTACTGAAGCATTAAAG-CAAAGCA
1 TGCATGGACGACATTAAATGAGCTACTGAAGCATTAAAGAAAAAGCA
* *
50384766 TGCATGGACGATATTAAATGAGCTGCTGAAGCATTAAAGAAAAAGCA
1 TGCATGGACGACATTAAATGAGCTACTGAAGCATTAAAGAAAAAGCA
50384813 TGC
1 TGC
50384816 TAGGATCAGC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
46 35 0.80
47 9 0.20
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.23
Consensus pattern (47 bp):
TGCATGGACGACATTAAATGAGCTACTGAAGCATTAAAGAAAAAGCA
Found at i:50386757 original size:56 final size:54
Alignment explanation
Indices: 50386684--50386792 Score: 139
Period size: 56 Copynumber: 2.0 Consensus size: 54
50386674 ATGCTTGTAG
*
50386684 GTGACTTTTCAGCTGGAATAAGTTA-AGTCTAAGGGAGCTGTTACAAAGTGTTAAAT
1 GTGACTATTCAGCTGGAATAAGTTACAGTC-AA-GGAGCTGTTACAAAGT-TTAAAT
* * * *
50386740 GTGACTATTCAGTTGGAATCAGTTACATTCAAGGAGCTGTTACAACGTTTAAA
1 GTGACTATTCAGCTGGAATAAGTTACAGTCAAGGAGCTGTTACAAAGTTTAAA
50386793 GAAGAACATT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
54 5 0.11
55 15 0.32
56 24 0.51
57 3 0.06
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (54 bp):
GTGACTATTCAGCTGGAATAAGTTACAGTCAAGGAGCTGTTACAAAGTTTAAAT
Found at i:50389422 original size:46 final size:46
Alignment explanation
Indices: 50389355--50389528 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
50389345 TGTAACCCGC
*
50389355 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
50389401 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
50389451 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
50389493 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
50389529 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 2 0.02
44 2 0.02
45 26 0.24
46 36 0.33
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:50389520 original size:92 final size:93
Alignment explanation
Indices: 50389362--50389532 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
50389352 CGCCCATAAG
* *
50389362 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
50389427 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
50389455 CGAACTCGGACTCAACTCAACGAGTTC-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
50389519 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
50389533 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 49 0.65
93 26 0.35
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:50394552 original size:46 final size:48
Alignment explanation
Indices: 50394435--50394602 Score: 151
Period size: 46 Copynumber: 3.7 Consensus size: 48
50394425 CCCATAAGTG
* * * *
50394435 AACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCGCATCCATAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACATCCATACTC
*
50394480 AACTC-GACTCAACTCAACGAGCTCGGATGCCTAGTTACAT-C-T-CTC
1 AACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCCATACTC
* * * *
50394525 AACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCAT-ACTC
50394571 AACTCGGACTCAACTCAACGAGTTCGGATGCC
1 AACTCGGACTCAACTCAACGAGTTCGGATGCC
50394603 CAAATATCCA
Statistics
Matches: 102, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
42 6 0.06
43 2 0.02
44 22 0.22
45 11 0.11
46 52 0.51
47 2 0.02
48 3 0.03
49 4 0.04
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.22
Consensus pattern (48 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCATACTC
Found at i:50399788 original size:93 final size:93
Alignment explanation
Indices: 50399675--50399846 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
50399665 CGCCCATAAG
* *
50399675 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
50399740 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
50399768 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
50399833 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
50399847 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:50399843 original size:46 final size:46
Alignment explanation
Indices: 50399668--50399843 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
50399658 TGTAACCCGC
* * *
50399668 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
50399714 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
50399764 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
50399807 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
50399844 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:50402330 original size:21 final size:20
Alignment explanation
Indices: 50402283--50402337 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 20
50402273 CCTAGCTCAT
* * *
50402283 TTCCAGCTCCA-CGAGCTTC
1 TTCCAGCTCAATCCAGCTTA
50402302 TTCCAGCTCAAATCCAGCTTA
1 TTCCAGCTC-AATCCAGCTTA
*
50402323 TTCGAGCTCAATCCA
1 TTCCAGCTCAATCCA
50402338 ACTTGCCTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 9 0.30
20 7 0.23
21 14 0.47
ACGTcount: A:0.24, C:0.36, G:0.13, T:0.27
Consensus pattern (20 bp):
TTCCAGCTCAATCCAGCTTA
Found at i:50402401 original size:30 final size:30
Alignment explanation
Indices: 50402367--50402463 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
50402357 AGCTCACTCC
50402367 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
50402397 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
50402427 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
50402457 TAGCTCA
1 TAGCTCA
50402464 TTTTTGTTTA
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:50404064 original size:11 final size:11
Alignment explanation
Indices: 50404048--50404099 Score: 61
Period size: 12 Copynumber: 4.6 Consensus size: 11
50404038 ATACAAGTCA
50404048 AAAAAAATTCG
1 AAAAAAATTCG
*
50404059 AAAAAAAATTCA
1 -AAAAAAATTCG
50404071 AAAAAAATTC-
1 AAAAAAATTCG
*
50404081 AAAAAAAATCTG
1 AAAAAAATTC-G
50404093 AAAAAAA
1 AAAAAAA
50404100 GTGTTTAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
10 9 0.25
11 10 0.28
12 17 0.47
ACGTcount: A:0.73, C:0.08, G:0.04, T:0.15
Consensus pattern (11 bp):
AAAAAAATTCG
Found at i:50404064 original size:12 final size:11
Alignment explanation
Indices: 50404045--50404099 Score: 83
Period size: 11 Copynumber: 4.8 Consensus size: 11
50404035 GTTATACAAG
50404045 TCAAAAAAAAT
1 TCAAAAAAAAT
50404056 TCGAAAAAAAAT
1 TC-AAAAAAAAT
50404068 TCAAAAAAAAT
1 TCAAAAAAAAT
50404079 TCAAAAAAAAT
1 TCAAAAAAAAT
*
50404090 CTGAAAAAAA
1 -TCAAAAAAA
50404100 GTGTTTAATG
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
11 22 0.54
12 19 0.46
ACGTcount: A:0.71, C:0.09, G:0.04, T:0.16
Consensus pattern (11 bp):
TCAAAAAAAAT
Found at i:50404071 original size:23 final size:23
Alignment explanation
Indices: 50404045--50404099 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
50404035 GTTATACAAG
50404045 TCAAAAAAAATTCGAAAAAAAAT-
1 TCAAAAAAAATTC-AAAAAAAATC
50404068 TCAAAAAAAATTCAAAAAAAATC
1 TCAAAAAAAATTCAAAAAAAATC
*
50404091 TGAAAAAAA
1 TCAAAAAAA
50404100 GTGTTTAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 9 0.30
23 21 0.70
ACGTcount: A:0.71, C:0.09, G:0.04, T:0.16
Consensus pattern (23 bp):
TCAAAAAAAATTCAAAAAAAATC
Found at i:50405044 original size:6 final size:5
Alignment explanation
Indices: 50405009--50405082 Score: 62
Period size: 5 Copynumber: 14.0 Consensus size: 5
50404999 ACATTCTTGT
* *
50405009 AAAGA AAAAA CAAAGA AAAGA AAAGAA AAAGTA AAAGA AGA-A AAAGAA
1 AAAGA AAAGA -AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAG-A
50405057 AAAGAA AAAGA AATA-A AAAGA AAAGA
1 AAAG-A AAAGA AA-AGA AAAGA AAAGA
50405083 GAGGCAAGAG
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
4 4 0.07
5 28 0.48
6 26 0.45
ACGTcount: A:0.80, C:0.01, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:50405076 original size:31 final size:30
Alignment explanation
Indices: 50405020--50405078 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
50405010 AAGAAAAAAC
50405020 AAAGAAAAGAAAAGAAAAAGTAAAAGAAGAA
1 AAAGAAAAGAAAAGAAAAAG-AAAAGAAGAA
*
50405051 AAAGAAAAAGAAAAAGAAATA-AAAAGAA
1 AAAG-AAAAG-AAAAGAAAAAGAAAAGAA
50405079 AAGAGAGGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 11 0.44
32 5 0.20
33 9 0.36
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (30 bp):
AAAGAAAAGAAAAGAAAAAGAAAAGAAGAA
Found at i:50405082 original size:15 final size:15
Alignment explanation
Indices: 50405009--50405080 Score: 67
Period size: 16 Copynumber: 4.5 Consensus size: 15
50404999 ACATTCTTGT
50405009 AAAGAAAAAACAAAGA
1 AAAGAAAAAA-AAAGA
50405025 AAAGAAAAGAAAAAGTA
1 AAAGAAAA-AAAAAG-A
*
50405042 AAAG-AAGAAAAAGAA
1 AAAGAAAAAAAAAG-A
50405057 AAAGAAAAAGAAATA-A
1 AAAGAAAAA-AAA-AGA
50405073 AAAGAAAA
1 AAAGAAAA
50405081 GAGAGGCAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
15 11 0.23
16 26 0.54
17 10 0.21
18 1 0.02
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAAAAAGA
Found at i:50405082 original size:21 final size:21
Alignment explanation
Indices: 50405009--50405080 Score: 92
Period size: 21 Copynumber: 3.4 Consensus size: 21
50404999 ACATTCTTGT
*
50405009 AAAGAAAAA-ACAAAGAAAAGA
1 AAAGAAAAAGAAAAAGAAAA-A
* *
50405030 AAAGAAAAAGTAAAAGAAGAA
1 AAAGAAAAAGAAAAAGAAAAA
50405051 AAAGAAAAAGAAAAAGAAATAA
1 AAAGAAAAAGAAAAAGAAA-AA
50405073 AAAGAAAA
1 AAAGAAAA
50405081 GAGAGGCAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
21 27 0.61
22 17 0.39
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (21 bp):
AAAGAAAAAGAAAAAGAAAAA
Found at i:50405161 original size:13 final size:12
Alignment explanation
Indices: 50405130--50405161 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
50405120 TTGAGAGAAC
50405130 TTGAAAAAGCCT
1 TTGAAAAAGCCT
50405142 TTGAAAAAGCCT
1 TTGAAAAAGCCT
50405154 TTGAAAAA
1 TTGAAAAA
50405162 TAAAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:50407587 original size:30 final size:30
Alignment explanation
Indices: 50407501--50407588 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
50407491 CTAGCTTATA
* *
50407501 TTCAGCTCACAAGCTAAACCTTAGCTTAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
* * * * * *
50407531 TTCAGCTTAGGAGTTTAATCTCAGCTCAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
* *
50407561 TTTAGCTCACGAGCTAAAGCTTAGCTCA
1 TTCAGCTCACGAGCTAAACCTTAGCTCA
50407589 TTTTAGTTTA
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (30 bp):
TTCAGCTCACGAGCTAAACCTTAGCTCAAC
Found at i:50408575 original size:30 final size:30
Alignment explanation
Indices: 50408541--50408637 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
50408531 AGCTCACTCC
50408541 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
50408571 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * * *
50408601 CAGCTCAACTTTAGCTCATGAGCTAAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
50408631 TAGCTCA
1 TAGCTCA
50408638 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:50411356 original size:11 final size:11
Alignment explanation
Indices: 50411342--50411371 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
50411332 AAAAGAAATA
50411342 AAAAAAAATCG
1 AAAAAAAATCG
*
50411353 AAAAAAAATTG
1 AAAAAAAATCG
50411364 AAAAAAAA
1 AAAAAAAA
50411372 ATTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:50411374 original size:12 final size:12
Alignment explanation
Indices: 50411341--50411385 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 12
50411331 AAAAAGAAAT
*
50411341 AAAAAAAAATCG
1 AAAAAAAAATTG
50411353 -AAAAAAAATTG
1 AAAAAAAAATTG
50411364 AAAAAAAAATTTTG
1 AAAAAAAAA--TTG
50411378 AAAAAAAA
1 AAAAAAAA
50411386 TTGCATACGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 10 0.34
12 8 0.28
14 11 0.38
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.16
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:50413659 original size:17 final size:18
Alignment explanation
Indices: 50413620--50413661 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
50413610 AAGAAGAAAA
50413620 ACAAAA-AGATGAGTGAT
1 ACAAAAGAGATGAGTGAT
*
50413637 AAAAAAGAGA-GAGTGAT
1 ACAAAAGAGATGAGTGAT
*
50413654 TCAAAAGA
1 ACAAAAGA
50413662 AAAAGAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.24, T:0.14
Consensus pattern (18 bp):
ACAAAAGAGATGAGTGAT
Found at i:50419467 original size:21 final size:20
Alignment explanation
Indices: 50419433--50419500 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 20
50419423 ACATTCTTGT
50419433 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
50419454 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
*
50419475 AAAGAAAAAGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
50419496 AAAGA
1 AAAGA
50419501 GAGGCAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.20
21 28 0.68
22 5 0.12
ACGTcount: A:0.78, C:0.03, G:0.18, T:0.01
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:50419468 original size:6 final size:5
Alignment explanation
Indices: 50419444--50419500 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
50419434 AAGAGAAAAC
*
50419444 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGAA AAAGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAG-A AAAGA AA-AGA
50419491 AAAGA AAAGA
1 AAAGA AAAGA
50419501 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 24 0.55
6 16 0.36
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:50419493 original size:25 final size:25
Alignment explanation
Indices: 50419448--50419496 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
50419438 GAAAACAAAG
50419448 AAAAGAAAAGAAAAAGCAAAAGAAGA
1 AAAAGAAAAGAAAAA-CAAAAGAAGA
*
50419474 AAAAGAAAAAGAAATA-AAAAGAA
1 AAAAG-AAAAGAAAAACAAAAGAA
50419497 AAGAGAGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 5 0.24
27 9 0.43
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (25 bp):
AAAAGAAAAGAAAAACAAAAGAAGA
Found at i:50419606 original size:30 final size:30
Alignment explanation
Indices: 50419570--50419656 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
50419560 TTGAAAAGCA
* *
50419570 AAAAAGAAAAAGAAAAAGAAAATGAGATTG
1 AAAAAGAAAAAGAAAAAGAAATTGAGAGTG
* *
50419600 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAAAGAAAAAGAAA-TTGAGAGTG
* *
50419630 AAAAAGAAGATGAAAAAGAAATTGAGA
1 AAAAAGAAAAAGAAAAAGAAATTGAGA
50419657 CAAAAGAAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 8 0.17
30 32 0.67
31 8 0.17
ACGTcount: A:0.64, C:0.01, G:0.23, T:0.11
Consensus pattern (30 bp):
AAAAAGAAAAAGAAAAAGAAATTGAGAGTG
Found at i:50419624 original size:24 final size:24
Alignment explanation
Indices: 50419575--50419644 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
50419565 AAGCAAAAAA
*
50419575 GAAAAAGAAAAAGAAAATGAGATT
1 GAAAAAGAAAAAGAAAATGAAATT
* *
50419599 GAAAAAGAGAACGAAAA-GAAATTT
1 GAAAAAGAAAAAGAAAATGAAA-TT
* ** *
50419623 GAGAGTGAAAAAGAAGATGAAA
1 GAAAAAGAAAAAGAAAATGAAA
50419645 AAGAAATTGA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
23 3 0.09
24 28 0.80
25 4 0.11
ACGTcount: A:0.63, C:0.01, G:0.24, T:0.11
Consensus pattern (24 bp):
GAAAAAGAAAAAGAAAATGAAATT
Found at i:50442263 original size:30 final size:31
Alignment explanation
Indices: 50442206--50442264 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
50442196 TGAAATAAAG
* **
50442206 AACGAGCTAAAAATAAGCTCAGTTGAGCTCA
1 AACGAGCTAAAAACAAGCTCAAATGAGCTCA
50442237 AACGAGCT-AAAACAAGCTCAAATGAGCT
1 AACGAGCTAAAAACAAGCTCAAATGAGCT
50442265 GAGTTGAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (31 bp):
AACGAGCTAAAAACAAGCTCAAATGAGCTCA
Found at i:50444060 original size:24 final size:21
Alignment explanation
Indices: 50444033--50444094 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 21
50444023 TCTTCTCACA
50444033 TTCTTTTTCACTCTCGATCTCTTT
1 TTCTTTTTCACTCT---TCTCTTT
50444057 TTCTTTTT--C-CTTCTCTTT
1 TTCTTTTTCACTCTTCTCTTT
50444075 TTCTTTTTCACT-TTCT-TTT
1 TTCTTTTTCACTCTTCTCTTT
50444094 T
1 T
50444095 CAATTTTCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
18 15 0.43
19 4 0.11
20 5 0.14
21 2 0.06
22 1 0.03
24 8 0.23
ACGTcount: A:0.05, C:0.26, G:0.02, T:0.68
Consensus pattern (21 bp):
TTCTTTTTCACTCTTCTCTTT
Found at i:50444061 original size:6 final size:6
Alignment explanation
Indices: 50444052--50444095 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
50444042 ACTCTCGATC
* * **
50444052 TCTTTT TCTTTT TCCTTC TCTTTT TCTTTT TCACTT TCTTTT TC
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TC
50444096 AATTTTCTCT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (6 bp):
TCTTTT
Found at i:50444071 original size:18 final size:19
Alignment explanation
Indices: 50444050--50444095 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
50444040 TCACTCTCGA
50444050 TCTCTTTTTCTTTTTC-CT
1 TCTCTTTTTCTTTTTCACT
50444068 TCTCTTTTTCTTTTTCACT
1 TCTCTTTTTCTTTTTCACT
50444087 T-TCTTTTTC
1 TCTCTTTTTC
50444096 AATTTTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTCACT
Found at i:50444102 original size:13 final size:12
Alignment explanation
Indices: 50444052--50444103 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
50444042 ACTCTCGATC
*
50444052 TCTTTTTCTTTT
1 TCTTTTTCATTT
* * *
50444064 TCCTTCTCTTTT
1 TCTTTTTCATTT
*
50444076 TCTTTTTCACTT
1 TCTTTTTCATTT
50444088 TCTTTTTCAATTT
1 TCTTTTTC-ATTT
50444101 TCT
1 TCT
50444104 CTTCTTGATC
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 26 0.81
13 6 0.19
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (12 bp):
TCTTTTTCATTT
Found at i:50444108 original size:18 final size:17
Alignment explanation
Indices: 50444087--50444150 Score: 56
Period size: 19 Copynumber: 3.5 Consensus size: 17
50444077 CTTTTTCACT
50444087 TTCTTTTTCAATTTTCTC
1 TTCTTTTTCAATTTT-TC
** *
50444105 TTCTTGATCAAATTTTTT
1 TTCTTTTTC-AATTTTTC
*
50444123 TTCTTTTTCAATTTCGTTT
1 TTCTTTTTCAATTT--TTC
50444142 TTCTTTTTC
1 TTCTTTTTC
50444151 TCACTTTCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
17 5 0.13
18 15 0.39
19 18 0.47
ACGTcount: A:0.12, C:0.17, G:0.03, T:0.67
Consensus pattern (17 bp):
TTCTTTTTCAATTTTTC
Found at i:50444158 original size:21 final size:19
Alignment explanation
Indices: 50444115--50444188 Score: 64
Period size: 21 Copynumber: 3.8 Consensus size: 19
50444105 TTCTTGATCA
50444115 AATTT-TTTTTC-TTTTTC
1 AATTTCTTTTTCTTTTTTC
50444132 AATTTCGTTTTTCTTTTTCTC
1 AATTTC-TTTTTCTTTTT-TC
*
50444153 ACTTTCTTTTTGCTTTCTTTC
1 AATTTCTTTTT-CTTT-TTTC
*
50444174 ACA-CTCTTTTTCTTT
1 A-ATTTCTTTTTCTTT
50444189 CATTTCTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
17 5 0.11
19 6 0.13
20 13 0.28
21 21 0.45
22 2 0.04
ACGTcount: A:0.09, C:0.20, G:0.03, T:0.68
Consensus pattern (19 bp):
AATTTCTTTTTCTTTTTTC
Found at i:50444188 original size:20 final size:20
Alignment explanation
Indices: 50444139--50444194 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
50444129 TTCAATTTCG
**
50444139 TTTTTCTTT-TTCTCACTTTC
1 TTTTTCTTTCTT-TCACACTC
50444159 TTTTTGCTTTCTTTCACACTC
1 TTTTT-CTTTCTTTCACACTC
50444180 TTTTTCTTTCATTTC
1 TTTTTCTTTC-TTTC
50444195 TTTTTTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 10 0.32
21 19 0.61
22 2 0.06
ACGTcount: A:0.07, C:0.25, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTTCTTTCTTTCACACTC
Found at i:50446699 original size:10 final size:10
Alignment explanation
Indices: 50446686--50446720 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
50446676 AAGCTCGGTT
50446686 GAGCTCAAAC
1 GAGCTCAAAC
*
50446696 GAGCTAAAAC
1 GAGCTCAAAC
*
50446706 GAGCTCAAAT
1 GAGCTCAAAC
50446716 GAGCT
1 GAGCT
50446721 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:50446729 original size:20 final size:20
Alignment explanation
Indices: 50446683--50446730 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
50446673 AGTAAGCTCG
50446683 GTTGAGCTCAAACGAGCTAA
1 GTTGAGCTCAAACGAGCTAA
*** * *
50446703 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTAA
50446723 GTTGAGCT
1 GTTGAGCT
50446731 GGACGGAGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTAA
Found at i:50451082 original size:27 final size:27
Alignment explanation
Indices: 50451052--50451256 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
50451042 ATATTAAGTC
* * *
50451052 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
50451079 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
50451107 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
50451134 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
50451161 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
50451188 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
*
50451215 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
50451242 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50451257 GTACAATTTA
Statistics
Matches: 158, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
27 132 0.84
28 26 0.16
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:50454811 original size:20 final size:20
Alignment explanation
Indices: 50454788--50454834 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
50454778 GGGTTAAGAT
*
50454788 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
50454808 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
50454828 TGAGCTG
1 TGAGCTG
50454835 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:50455554 original size:30 final size:30
Alignment explanation
Indices: 50455459--50455555 Score: 72
Period size: 30 Copynumber: 3.2 Consensus size: 30
50455449 AGCTCACTCC
* * *
50455459 TAGCTC-ACTTTCAACTCATGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * * **
50455489 TAGCTCAACTTCAGATTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
50455519 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
50455549 TAGCTCA
1 TAGCTCA
50455556 TTTTAGTTTA
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
29 2 0.04
30 39 0.81
31 7 0.15
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:50457281 original size:12 final size:12
Alignment explanation
Indices: 50457264--50457309 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
50457254 ATACAAGTCA
50457264 AAAAAAAATTTG
1 AAAAAAAATTTG
**
50457276 AAAAAAAATTCA
1 AAAAAAAATTTG
50457288 AAAAAAAATTTCG
1 AAAAAAAATTT-G
50457301 AAAAGAAAA
1 AAAA-AAAA
50457310 AAAAATCTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 20 0.71
13 4 0.14
14 4 0.14
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.17
Consensus pattern (12 bp):
AAAAAAAATTTG
Found at i:50457288 original size:24 final size:26
Alignment explanation
Indices: 50457261--50457309 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 26
50457251 GTTATACAAG
50457261 TCAAAAAAAAATTT-GAAAA-AAAAT
1 TCAAAAAAAAATTTCGAAAAGAAAAT
50457285 TCAAAAAAAAATTTCGAAAAGAAAA
1 TCAAAAAAAAATTTCGAAAAGAAAA
50457310 AAAAATCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 14 0.61
25 5 0.22
26 4 0.17
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.18
Consensus pattern (26 bp):
TCAAAAAAAAATTTCGAAAAGAAAAT
Found at i:50457321 original size:18 final size:18
Alignment explanation
Indices: 50457287--50457327 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
50457277 AAAAAAATTC
*
50457287 AAAAAAAAATTTCGAAAA
1 AAAAAAAAATCTCGAAAA
50457305 GAAAAAAAAATCT-GAAAA
1 -AAAAAAAAATCTCGAAAA
50457323 AAAAA
1 AAAAA
50457328 GTGTTTAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 5 0.24
19 11 0.52
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (18 bp):
AAAAAAAAATCTCGAAAA
Found at i:50458383 original size:30 final size:31
Alignment explanation
Indices: 50458349--50458430 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
50458339 TTTGAAAAGC
*
50458349 AAAAAGAAAAAGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAAAGAAAAAGAAATATGAGAGTG
* * *
50458379 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAAAGAAAAAGAAATATGAGAGTG
* *
50458409 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAAAGAAAAAGAAAT
50458431 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.66, C:0.01, G:0.22, T:0.11
Consensus pattern (31 bp):
AAAAAGAAAAAGAAAAAGAAATATGAGAGTG
Found at i:50458403 original size:24 final size:24
Alignment explanation
Indices: 50458354--50458423 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
50458344 AAAGCAAAAA
*
50458354 GAAAAAGAAAAAGAAAATGAGATT
1 GAAAAAGAAAAAGAAAATGAAATT
* *
50458378 GAAAAAGAGAACGAAAA-GAAATTT
1 GAAAAAGAAAAAGAAAATGAAA-TT
* ** *
50458402 GAGAGTGAAAAAGAAGATGAAA
1 GAAAAAGAAAAAGAAAATGAAA
50458424 AAGAAATTGA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
23 3 0.09
24 28 0.80
25 4 0.11
ACGTcount: A:0.63, C:0.01, G:0.24, T:0.11
Consensus pattern (24 bp):
GAAAAAGAAAAAGAAAATGAAATT
Found at i:50460576 original size:30 final size:31
Alignment explanation
Indices: 50460542--50460637 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 31
50460532 AGCTCACTCC
50460542 TAGCTC-ACTTTCAGCTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
50460572 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * *
50460602 CAGCTCAACTTT-AGCTCACAAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
50460632 TAGCTC
1 TAGCTC
50460638 GTTTTAGTTT
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
30 46 0.92
31 4 0.08
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:50469024 original size:40 final size:40
Alignment explanation
Indices: 50468931--50469148 Score: 311
Period size: 40 Copynumber: 5.5 Consensus size: 40
50468921 AAGCCAAGTA
* * *
50468931 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
50468969 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
50469009 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
50469049 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
50469089 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
50469130 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
50469149 TTATCATCCA
Statistics
Matches: 167, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
38 12 0.07
39 18 0.11
40 109 0.65
41 24 0.14
42 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:50470307 original size:5 final size:5
Alignment explanation
Indices: 50470293--50470324 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
50470283 TCAAGCTAAC
50470293 AAAT- AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAA
50470325 ACATGCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:50475429 original size:12 final size:12
Alignment explanation
Indices: 50475378--50475423 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
50475368 TCGATTTCTT
*
50475378 TTTCTTTTTCAC
1 TTTCTTTTTCAA
50475390 TTTCTTTTTCAA
1 TTTCTTTTTCAA
**
50475402 TTTCAATTTCAA
1 TTTCTTTTTCAA
*
50475414 TTTCATTTTC
1 TTTCTTTTTC
50475424 TTTTTCTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:50475429 original size:18 final size:18
Alignment explanation
Indices: 50475371--50475423 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
50475361 CTCGATCTCG
*
50475371 ATTTCTTTTTCTTTTTCA
1 ATTTCTTTTTCATTTTCA
* *
50475389 CTTTCTTTTTCAATTTCA
1 ATTTCTTTTTCATTTTCA
**
50475407 ATTTCAATTTCATTTTC
1 ATTTCTTTTTCATTTTC
50475424 TTTTTCTCAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTCTTTTTCATTTTCA
Found at i:50478701 original size:20 final size:20
Alignment explanation
Indices: 50478678--50478724 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
50478668 GGGTTAAGAT
*
50478678 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
50478698 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
50478718 TGAGCTG
1 TGAGCTG
50478725 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:50480479 original size:18 final size:18
Alignment explanation
Indices: 50480384--50480484 Score: 78
Period size: 18 Copynumber: 5.4 Consensus size: 18
50480374 TTGTCTTTTC
50480384 TTTCTTTTTCAATTTTCTTT
1 TTTCTTTTTC-ATTTTC-TT
* * *
50480404 TCTTCATTTTCTTTTTCTC
1 T-TTCTTTTTCATTTTCTT
**
50480423 TCACTTTTTCGA-TTTCTT
1 TTTCTTTTTC-ATTTTCTT
* *
50480441 TTTCTTTTGCAATTTCTT
1 TTTCTTTTTCATTTTCTT
*
50480459 TTTCTTTTTCGTTTTCTT
1 TTTCTTTTTCATTTTCTT
*
50480477 TTTGTTTT
1 TTTCTTTT
50480485 CTTTCAATTT
Statistics
Matches: 63, Mismatches: 15, Indels: 8
0.73 0.17 0.09
Matches are distributed among these distances:
17 1 0.02
18 46 0.73
19 2 0.03
20 6 0.10
21 8 0.13
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.71
Consensus pattern (18 bp):
TTTCTTTTTCATTTTCTT
Found at i:50480501 original size:6 final size:6
Alignment explanation
Indices: 50480384--50480488 Score: 68
Period size: 6 Copynumber: 17.2 Consensus size: 6
50480374 TTGTCTTTTC
* * * ** **
50480384 TTTCTT TTTCAAT TTTCTTT TCTTCAT TTTCTT TTTCTC TCACTT TTTCGA
1 TTTCTT TTTC-TT TTTC-TT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* ** * *
50480435 TTTCTT TTTCTT TTGCAA TTTCTT TTTCTT TTTCGT TTTCTT TTT-GT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
50480482 TTTCTT T
1 TTTCTT T
50480489 CAATTTCTTT
Statistics
Matches: 71, Mismatches: 25, Indels: 6
0.70 0.25 0.06
Matches are distributed among these distances:
5 4 0.06
6 55 0.77
7 9 0.13
8 3 0.04
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.71
Consensus pattern (6 bp):
TTTCTT
Found at i:50481560 original size:12 final size:12
Alignment explanation
Indices: 50481545--50481582 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
50481535 CTTTTTTTTC
*
50481545 TTTTTTTCG-AT
1 TTTTTTTTGAAT
50481556 TTTTTTTTGAATT
1 TTTTTTTTGAA-T
50481569 TTTTTTTTGAAT
1 TTTTTTTTGAAT
50481581 TT
1 TT
50481583 CTTCTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 8 0.33
12 4 0.17
13 12 0.50
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTTTTTTGAAT
Found at i:50481577 original size:13 final size:13
Alignment explanation
Indices: 50481555--50481582 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50481545 TTTTTTTCGA
50481555 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
50481568 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
50481581 TT
1 TT
50481583 CTTCTCTTTT
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:0.07, T:0.79
Consensus pattern (13 bp):
TTTTTTTTTGAAT
Found at i:50481675 original size:11 final size:11
Alignment explanation
Indices: 50481659--50481687 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
50481649 CCAACTCAAA
50481659 TTTTTTTTGA-
1 TTTTTTTTGAC
50481669 TTTTTTTTGAC
1 TTTTTTTTGAC
50481680 TTTTTTTT
1 TTTTTTTT
50481688 TACATTACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (11 bp):
TTTTTTTTGAC
Found at i:50483121 original size:20 final size:20
Alignment explanation
Indices: 50483098--50483144 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
50483088 GGGTTAAGAT
*
50483098 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
50483118 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
50483138 TGAGCTG
1 TGAGCTG
50483145 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:50485655 original size:19 final size:19
Alignment explanation
Indices: 50485633--50485690 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
50485623 AATTTAAGTA
50485633 ATATAATGTTATTTATATG
1 ATATAATGTTATTTATATG
* *
50485652 ATATGATG--A-TTATTATC
1 ATATAATGTTATTTA-TATG
*
50485669 AT-TAATGTTATCTATATG
1 ATATAATGTTATTTATATG
50485687 ATAT
1 ATAT
50485691 GAAGATTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 10
0.66 0.11 0.23
Matches are distributed among these distances:
16 7 0.24
17 6 0.21
18 6 0.21
19 10 0.34
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.50
Consensus pattern (19 bp):
ATATAATGTTATTTATATG
Found at i:50485675 original size:35 final size:35
Alignment explanation
Indices: 50485636--50485702 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
50485626 TTAAGTAATA
* *
50485636 TAATGTTATTTATATGATATGATGATTATTATCAT
1 TAATGTTATCTATATGATATGAAGATTATTATCAT
*
50485671 TAATGTTATCTATATGATATGAAGATTGTTAT
1 TAATGTTATCTATATGATATGAAGATTATTAT
50485703 TATGAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.49
Consensus pattern (35 bp):
TAATGTTATCTATATGATATGAAGATTATTATCAT
Found at i:50486090 original size:49 final size:49
Alignment explanation
Indices: 50486024--50486269 Score: 269
Period size: 49 Copynumber: 5.0 Consensus size: 49
50486014 GCTATTGTGA
* * *
50486024 GGTCACATGTGTAGTACTAAGTGCAGGGTACTACGTGTACCAGATTGTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * *
50486073 GGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTA-ATAACTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AGAT-AGTT
* * * * * *
50486123 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTT
1 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * *
50486173 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT
1 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * *
50486223 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTAACAGATAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
50486270 CTTCAGCTAC
Statistics
Matches: 163, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
49 78 0.48
50 49 0.30
51 36 0.22
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:50491459 original size:20 final size:19
Alignment explanation
Indices: 50491419--50491458 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
50491409 TTTTTCATTT
50491419 TCTTTTCTTTGTTTTTCTC
1 TCTTTTCTTTGTTTTTCTC
50491438 TCTTTTCTTTGTTTTT-TC
1 TCTTTTCTTTGTTTTTCTC
50491456 TCT
1 TCT
50491459 CGATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.00, C:0.20, G:0.05, T:0.75
Consensus pattern (19 bp):
TCTTTTCTTTGTTTTTCTC
Found at i:50492437 original size:18 final size:18
Alignment explanation
Indices: 50492396--50492442 Score: 76
Period size: 19 Copynumber: 2.6 Consensus size: 18
50492386 ATCACACACT
*
50492396 TTTTTTTAATTTCGTCTA
1 TTTTTTTAATTTCGTATA
50492414 TATTTTTTAATTTCGTATA
1 T-TTTTTTAATTTCGTATA
50492433 TTTTTTTAAT
1 TTTTTTTAAT
50492443 ACTTCACAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.68
Consensus pattern (18 bp):
TTTTTTTAATTTCGTATA
Found at i:50493950 original size:20 final size:21
Alignment explanation
Indices: 50493912--50493960 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
50493902 TGAGCTAGAT
*
50493912 CGAGCTGAATTCTAGCTCAAA
1 CGAGCTGAATTCGAGCTCAAA
*
50493933 CGAGCTGAA-TCGAGCTCAAG
1 CGAGCTGAATTCGAGCTCAAA
*
50493953 TGAGCTGA
1 CGAGCTGA
50493961 TGGGAGCTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
CGAGCTGAATTCGAGCTCAAA
Found at i:50496986 original size:47 final size:46
Alignment explanation
Indices: 50496869--50497041 Score: 198
Period size: 45 Copynumber: 3.8 Consensus size: 46
50496859 GGATGGTTGA
50496869 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTA-GGATGCGAAT
* *
50496916 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GT-GAGATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAG-GATGCGAA-T
*
50496959 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TA-GGATGCGAAT
*
50497009 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
50497042 TAGGGGCGGG
Statistics
Matches: 109, Mismatches: 6, Indels: 24
0.78 0.04 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 31 0.28
46 29 0.27
47 30 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAGGATGCGAAT
Found at i:50497038 original size:93 final size:92
Alignment explanation
Indices: 50496869--50497038 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
50496859 GGATGGTTGA
* *
50496869 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
50496934 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
50496961 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAACTCGTTGAGT
50497026 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
50497039 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 34 0.46
93 40 0.54
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50503446 original size:46 final size:46
Alignment explanation
Indices: 50503396--50503568 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
50503386 TGGTTGAGCA
50503396 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
50503442 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
50503487 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
50503535 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
50503569 GGGGGGTTAC
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50503552 original size:93 final size:93
Alignment explanation
Indices: 50503393--50503563 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
50503383 GGATGGTTGA
* *
50503393 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50503458 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
50503486 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50503551 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
50503564 ACTTAGGGGG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50507051 original size:19 final size:19
Alignment explanation
Indices: 50507029--50507086 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
50507019 AATTTAAGTA
50507029 ATATAATGTTATTTATATG
1 ATATAATGTTATTTATATG
* *
50507048 ATATGATG--A-TTATTATC
1 ATATAATGTTATTTA-TATG
50507065 AT-TAATGTTATTTATATG
1 ATATAATGTTATTTATATG
50507083 ATAT
1 ATAT
50507087 GAAGATTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 7 0.23
17 6 0.20
18 6 0.20
19 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (19 bp):
ATATAATGTTATTTATATG
Found at i:50507071 original size:35 final size:35
Alignment explanation
Indices: 50507032--50507098 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
50507022 TTAAGTAATA
*
50507032 TAATGTTATTTATATGATATGATGATTATTATCAT
1 TAATGTTATTTATATGATATGAAGATTATTATCAT
*
50507067 TAATGTTATTTATATGATATGAAGATTGTTAT
1 TAATGTTATTTATATGATATGAAGATTATTAT
50507099 TATGAATAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.51
Consensus pattern (35 bp):
TAATGTTATTTATATGATATGAAGATTATTATCAT
Found at i:50513063 original size:40 final size:40
Alignment explanation
Indices: 50512964--50513221 Score: 346
Period size: 40 Copynumber: 6.5 Consensus size: 40
50512954 TGGATGATAA
*
50512964 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
50513005 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
50513045 CCAGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
50513085 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50513125 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
50513165 CCAGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
50513204 CCGGTC-AAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
50513222 TACTTGGCTT
Statistics
Matches: 196, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
38 12 0.06
39 17 0.09
40 139 0.71
41 24 0.12
42 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:50520482 original size:93 final size:93
Alignment explanation
Indices: 50520371--50520541 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
50520361 TGTACTCAAT
*
50520371 TTTTTTTCGGCTGCGTAGATTTTTGTTTTTATAGCAACAATAATAAACTAATCGAAATGAGAAAA
1 TTTTTTTCGGCTGCGTAGATTTTTGTTTTTATAGCAACAATAACAAACTAATCGAAATGAGAAAA
50520436 CTTCAGTATACAAAAAAAAATTCTACTC
66 CTTCAGTATACAAAAAAAAATTCTACTC
*
50520464 TTTTTTTCGGCTGTGTAGATTTTTGTTTTTATAGCAACAATAACAAACTAATCGAAATGAGAAAA
1 TTTTTTTCGGCTGCGTAGATTTTTGTTTTTATAGCAACAATAACAAACTAATCGAAATGAGAAAA
*
50520529 CTTCGGTATACAA
66 CTTCAGTATACAA
50520542 TTTTTTTTTC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.36
Consensus pattern (93 bp):
TTTTTTTCGGCTGCGTAGATTTTTGTTTTTATAGCAACAATAACAAACTAATCGAAATGAGAAAA
CTTCAGTATACAAAAAAAAATTCTACTC
Found at i:50520789 original size:14 final size:14
Alignment explanation
Indices: 50520742--50520789 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
50520732 GTACGAATGG
*
50520742 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
50520756 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
50520770 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
50520784 ATTGGT
1 AATGGT
50520790 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:50524853 original size:30 final size:30
Alignment explanation
Indices: 50524758--50524854 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
50524748 AGCTCACTCC
* * *
50524758 TAGCTC-ACTTTCAACTCACAAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * **
50524788 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
50524818 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
50524848 TAGCTCA
1 TAGCTCA
50524855 TTTTAGTTTA
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 40 0.82
31 7 0.14
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:50527579 original size:17 final size:18
Alignment explanation
Indices: 50527542--50527579 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
50527532 GATTGAGAGT
* *
50527542 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
50527560 GAAAAGAAAT-TGAAAAA
1 GAAAAGAAATGTGAAAAA
50527577 GAA
1 GAA
50527580 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.24, T:0.11
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:50527592 original size:13 final size:12
Alignment explanation
Indices: 50527561--50527615 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
50527551 TGTGAAACAG
*
50527561 AAAAGAAATTGA
1 AAAAGAAGTTGA
50527573 AAAAGAAGTTGA
1 AAAAGAAGTTGA
*
50527585 AGAAAGAAG-AGA
1 A-AAAGAAGTTGA
*
50527597 AAATG-AGTTAGA
1 AAAAGAAGTT-GA
50527609 AAAAGAA
1 AAAAGAA
50527616 ACAAAAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 21 0.62
13 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.13
Consensus pattern (12 bp):
AAAAGAAGTTGA
Found at i:50531367 original size:12 final size:12
Alignment explanation
Indices: 50531350--50531402 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
50531340 TATACAAGTA
50531350 AAAAAAAATTCG
1 AAAAAAAATTCG
50531362 AAAAAAAATT--
1 AAAAAAAATTCG
*
50531372 TAAAAAAATTCG
1 AAAAAAAATTCG
50531384 AAAAAAAA-TCTG
1 AAAAAAAATTC-G
50531396 AAAAAAA
1 AAAAAAA
50531403 GTGTTTAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
10 9 0.25
11 2 0.06
12 25 0.69
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.17
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:50531376 original size:22 final size:23
Alignment explanation
Indices: 50531351--50531402 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
50531341 ATACAAGTAA
*
50531351 AAAAAAATTCGAAAAAAAAT-TT
1 AAAAAAATTCGAAAAAAAATCTG
50531373 AAAAAAATTCGAAAAAAAATCTG
1 AAAAAAATTCGAAAAAAAATCTG
50531396 AAAAAAA
1 AAAAAAA
50531403 GTGTTTAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.17
Consensus pattern (23 bp):
AAAAAAATTCGAAAAAAAATCTG
Found at i:50532344 original size:6 final size:5
Alignment explanation
Indices: 50532321--50532376 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
50532311 AAGAGAAAAT
*
50532321 AAGAA AAGAA AAGAAA AAGCAA AAGAA GA-AA AAGAAA AAGAA ATA-AA
1 AAGAA AAGAA AAG-AA AAG-AA AAGAA AAGAA AAG-AA AAGAA A-AGAA
50532368 AAGAA AAGA
1 AAGAA AAGA
50532377 GAGGCAAGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 23 0.53
6 16 0.37
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (5 bp):
AAGAA
Found at i:50532355 original size:21 final size:22
Alignment explanation
Indices: 50532324--50532374 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
50532314 AGAAAATAAG
*
50532324 AAAAG-AAAAGAAAAAGCAA-A
1 AAAAGAAAAAGAAAAAGAAATA
*
50532344 AGAAGAAAAAGAAAAAGAAATA
1 AAAAGAAAAAGAAAAAGAAATA
50532366 AAAAGAAAA
1 AAAAGAAAA
50532375 GAGAGGCAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 4 0.15
21 13 0.50
22 9 0.35
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (22 bp):
AAAAGAAAAAGAAAAAGAAATA
Found at i:50532368 original size:16 final size:16
Alignment explanation
Indices: 50532324--50532374 Score: 68
Period size: 15 Copynumber: 3.2 Consensus size: 16
50532314 AGAAAATAAG
*
50532324 AAAAGAAAAGAAAAAGC
1 AAAAG-AAAGAAAAAGA
50532341 AAAAG-AAGAAAAAGA
1 AAAAGAAAGAAAAAGA
*
50532356 AAAAGAAATAAAAAGA
1 AAAAGAAAGAAAAAGA
50532372 AAA
1 AAA
50532375 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
15 14 0.45
16 12 0.39
17 5 0.16
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (16 bp):
AAAAGAAAGAAAAAGA
Found at i:50532369 original size:25 final size:24
Alignment explanation
Indices: 50532316--50532372 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
50532306 TTGTAAAGAG
*
50532316 AAAATAAGAAAAGAAAAGAAAAAGC
1 AAAAGAAGAAAAGAAAAGAAAAA-C
*
50532341 AAAAGAAGAAAAAGAAAAAGAAATA-
1 AAAAGAAG-AAAAG-AAAAGAAAAAC
50532366 AAAAGAA
1 AAAAGAA
50532373 AAGAGAGGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 14 0.50
26 5 0.18
27 9 0.32
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.04
Consensus pattern (24 bp):
AAAAGAAGAAAAGAAAAGAAAAAC
Found at i:50532456 original size:11 final size:12
Alignment explanation
Indices: 50532424--50532454 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
50532414 TTGAGAGAAC
*
50532424 TTGAAAAAGCCT
1 TTGAAAAAGCCG
50532436 TTGAAAAAGCCG
1 TTGAAAAAGCCG
50532448 TTGAAAA
1 TTGAAAA
50532455 GCAAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (12 bp):
TTGAAAAAGCCG
Found at i:50532511 original size:24 final size:24
Alignment explanation
Indices: 50532462--50532508 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
50532452 AAAGCAAAAA
* *
50532462 GAAAAAGAAAATGAAAATGAGATT
1 GAAAAAGAAAACGAAAATGAAATT
*
50532486 GAAAAAGAGAACGAAAAT-AAATT
1 GAAAAAGAAAACGAAAATGAAATT
50532509 TGAGAGTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.64, C:0.02, G:0.19, T:0.15
Consensus pattern (24 bp):
GAAAAAGAAAACGAAAATGAAATT
Found at i:50532513 original size:30 final size:30
Alignment explanation
Indices: 50532457--50532524 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
50532447 GTTGAAAAGC
* *
50532457 AAAAAGAAAAAGAAAATGAAAATGAGATTG
1 AAAAAGAAAAAGAAAATGAAAATGAGAGTA
* * *
50532487 AAAAAGAGAACGAAAAT-AAATTTGAGAGTA
1 AAAAAGAAAAAGAAAATGAAA-ATGAGAGTA
50532517 AAAAAGAA
1 AAAAAGAA
50532525 GATGAAAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 3 0.10
30 28 0.90
ACGTcount: A:0.66, C:0.01, G:0.19, T:0.13
Consensus pattern (30 bp):
AAAAAGAAAAAGAAAATGAAAATGAGAGTA
Found at i:50534751 original size:30 final size:30
Alignment explanation
Indices: 50534665--50534752 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
50534655 CTAACTCACT
* *
50534665 TTCAACTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTCACGAGCTAAAGCTTAGCTCAAC
* * ** *
50534695 TTCAGCTTAGGAG-TTTAGCCTCAGCTCAAC
1 TTCAGCTCACGAGCTAAAG-CTTAGCTCAAC
*
50534725 TTTAGCTCACGAGCTAAAGCTTAGCTCA
1 TTCAGCTCACGAGCTAAAGCTTAGCTCA
50534753 TTTTAGTTTA
Statistics
Matches: 43, Mismatches: 13, Indels: 4
0.72 0.22 0.07
Matches are distributed among these distances:
29 2 0.05
30 38 0.88
31 3 0.07
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (30 bp):
TTCAGCTCACGAGCTAAAGCTTAGCTCAAC
Found at i:50535683 original size:22 final size:20
Alignment explanation
Indices: 50535651--50535699 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
50535641 GCCGAATTTA
50535651 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
50535674 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
50535694 TGAACA
1 TGAACA
50535700 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:50537347 original size:11 final size:11
Alignment explanation
Indices: 50537331--50537379 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
50537321 CATAAATCAC
50537331 TTTTTTTTGAT
1 TTTTTTTTGAT
*
50537342 TTTTTTTTTAT
1 TTTTTTTTGAT
*
50537353 TTTTTTTCGA-
1 TTTTTTTTGAT
50537363 TTTTTTTTGAAT
1 TTTTTTTTG-AT
50537375 TTTTT
1 TTTTT
50537380 AAACTTGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
10 8 0.25
11 19 0.59
12 5 0.16
ACGTcount: A:0.10, C:0.02, G:0.06, T:0.82
Consensus pattern (11 bp):
TTTTTTTTGAT
Found at i:50537359 original size:22 final size:22
Alignment explanation
Indices: 50537331--50537379 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
50537321 CATAAATCAC
**
50537331 TTTTTTTT-GATTTTTTTTTTA
1 TTTTTTTTCGATTTTTTTTGAA
50537352 TTTTTTTTCGATTTTTTTTGAA
1 TTTTTTTTCGATTTTTTTTGAA
50537374 TTTTTT
1 TTTTTT
50537380 AAACTTGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.10, C:0.02, G:0.06, T:0.82
Consensus pattern (22 bp):
TTTTTTTTCGATTTTTTTTGAA
Found at i:50540916 original size:16 final size:16
Alignment explanation
Indices: 50540897--50540927 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50540887 TTTGAGATAG
50540897 AAATAATTATTTTATA
1 AAATAATTATTTTATA
50540913 AAATAATTATTTTAT
1 AAATAATTATTTTAT
50540928 TATTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AAATAATTATTTTATA
Found at i:50540927 original size:21 final size:21
Alignment explanation
Indices: 50540903--50540946 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50540893 ATAGAAATAA
50540903 TTATT-TTATAAAATAATTATT
1 TTATTATTAT-AAATAATTATT
**
50540924 TTATTATTATTTATAATTATT
1 TTATTATTATAAATAATTATT
50540945 TT
1 TT
50540947 GAGGTCTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTATTATTATAAATAATTATT
Found at i:50547507 original size:79 final size:79
Alignment explanation
Indices: 50547376--50547532 Score: 314
Period size: 79 Copynumber: 2.0 Consensus size: 79
50547366 ATTAAACTTG
50547376 TCTTATATTAATATTTGTTATTAATATGTCATAGATATCACATAACTTAAATGTGTTCACATTGT
1 TCTTATATTAATATTTGTTATTAATATGTCATAGATATCACATAACTTAAATGTGTTCACATTGT
50547441 GCTGAATTTATGTA
66 GCTGAATTTATGTA
50547455 TCTTATATTAATATTTGTTATTAATATGTCATAGATATCACATAACTTAAATGTGTTCACATTGT
1 TCTTATATTAATATTTGTTATTAATATGTCATAGATATCACATAACTTAAATGTGTTCACATTGT
50547520 GCTGAATTTATGT
66 GCTGAATTTATGT
50547533 GTGTTCACAT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.46
Consensus pattern (79 bp):
TCTTATATTAATATTTGTTATTAATATGTCATAGATATCACATAACTTAAATGTGTTCACATTGT
GCTGAATTTATGTA
Found at i:50551600 original size:40 final size:40
Alignment explanation
Indices: 50551545--50551741 Score: 274
Period size: 40 Copynumber: 4.9 Consensus size: 40
50551535 TAACAGTGCC
* * *
50551545 AAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCGGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCT
50551585 AAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCT
* *
50551625 ACGTCCCGAAGGCATTTGTGCGAGTTACTGTATCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCT
**
50551665 AAGTCCCGAAGGCATTTGTGCGAACTACTATATCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCT
*
50551705 AAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCCGG
1 AAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
50551742 TTAAATCCCA
Statistics
Matches: 144, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
39 2 0.01
40 141 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
AAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCT
Found at i:50559503 original size:21 final size:22
Alignment explanation
Indices: 50559461--50559503 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
50559451 TTTTGAACCA
50559461 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
50559483 TTACCATTTCGTACC-AATCCC
1 TTACCATTTCGTACCAAATCCC
50559504 AAATACCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.26, C:0.37, G:0.05, T:0.33
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:50560272 original size:12 final size:12
Alignment explanation
Indices: 50560241--50560279 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
50560231 GTGTTTATTC
*
50560241 TTTCTGTGAGAGA
1 TTTCTGTGAG-GT
50560254 TTT-TGTGAGGT
1 TTTCTGTGAGGT
50560265 TTTCTGTGAGGT
1 TTTCTGTGAGGT
50560277 TTT
1 TTT
50560280 TATTTACATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 4 0.17
12 17 0.71
13 3 0.12
ACGTcount: A:0.13, C:0.05, G:0.31, T:0.51
Consensus pattern (12 bp):
TTTCTGTGAGGT
Found at i:50562062 original size:19 final size:19
Alignment explanation
Indices: 50562001--50562064 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
50561991 CAAATGAGAG
50562001 AAAAAGAAAAGAGCGAAAAT-A
1 AAAAAGAAAAGA---AAAATCA
* *
50562022 CAAAAGAAAAGAAAAATGA
1 AAAAAGAAAAGAAAAATCA
*
50562041 AAAAAGAAAAGAAAATTCA
1 AAAAAGAAAAGAAAAATCA
50562060 AAAAA
1 AAAAA
50562065 AGAGAATGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 5 0.13
19 22 0.58
21 11 0.29
ACGTcount: A:0.75, C:0.05, G:0.14, T:0.06
Consensus pattern (19 bp):
AAAAAGAAAAGAAAAATCA
Found at i:50568222 original size:40 final size:40
Alignment explanation
Indices: 50568167--50568354 Score: 272
Period size: 40 Copynumber: 4.7 Consensus size: 40
50568157 TGATAATGGT
* * *
50568167 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGG
*
50568207 GCTAAGTCCAGAAGGCATTTGTGCGAGTTACTAATTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGG
50568247 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGG
** *
50568287 GCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCCAG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGG
*
50568327 GCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GCTAAGTCCCGAAGGCATTTGTGCGAGT
50568355 AGCTATATCC
Statistics
Matches: 136, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
39 2 0.01
40 134 0.99
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGG
Found at i:50570102 original size:19 final size:19
Alignment explanation
Indices: 50570078--50570117 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
50570068 AGCTCCCATG
50570078 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
50570097 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
50570116 TA
1 TA
50570118 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:50575297 original size:13 final size:13
Alignment explanation
Indices: 50575279--50575337 Score: 84
Period size: 13 Copynumber: 4.5 Consensus size: 13
50575269 ATACAAGTCC
*
50575279 AAAAAAAAATTTG
1 AAAAAAAAATTCG
*
50575292 AAAAAAAAATTCA
1 AAAAAAAAATTCG
50575305 AAAAAAAAATTCG
1 AAAAAAAAATTCG
50575318 -AAAAAAAATTCTG
1 AAAAAAAAATTC-G
50575331 AAAAAAA
1 AAAAAAA
50575338 GTGTTTAATG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
12 11 0.27
13 24 0.59
14 6 0.15
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (13 bp):
AAAAAAAAATTCG
Found at i:50576265 original size:15 final size:14
Alignment explanation
Indices: 50576245--50576296 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 14
50576235 TCTTGTAAAG
50576245 AGAAAACAAAGAAAA
1 AGAAAA-AAAGAAAA
50576260 AGAAAAAGAAGAAAA
1 AGAAAAA-AAGAAAA
*
50576275 AGAAAATGAAATAAAA
1 AGAAAA--AAAGAAAA
50576291 AGAAAA
1 AGAAAA
50576297 GAGAGGCAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
14 1 0.03
15 19 0.58
16 12 0.36
17 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (14 bp):
AGAAAAAAAGAAAA
Found at i:50576275 original size:16 final size:15
Alignment explanation
Indices: 50576256--50576296 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
50576246 GAAAACAAAG
*
50576256 AAAAAGAAAAAGAAG
1 AAAAAGAAAAAGAAT
*
50576271 AAAAAGAAAATGAAAT
1 AAAAAGAAAAAG-AAT
50576287 AAAAAGAAAA
1 AAAAAGAAAA
50576297 GAGAGGCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (15 bp):
AAAAAGAAAAAGAAT
Found at i:50576298 original size:21 final size:21
Alignment explanation
Indices: 50576252--50576296 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
50576242 AAGAGAAAAC
*
50576252 AAAGAAAAAGAAAAAGAAGAA
1 AAAGAAAAAGAAAAAAAAGAA
*
50576273 AAAGAAAATGAAATAAAAAGAA
1 AAAGAAAAAGAAA-AAAAAGAA
50576295 AA
1 AA
50576297 GAGAGGCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (21 bp):
AAAGAAAAAGAAAAAAAAGAA
Found at i:50576401 original size:30 final size:31
Alignment explanation
Indices: 50576367--50576448 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 31
50576357 TTTGAAAAGC
*
50576367 AAAAAGAAAAACAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAAACAAAAAGAAATATGAGAGTG
* *
50576397 AAAAAG-AGAACAAAAAGAAATTTGAGAGTG
1 AAAAAGAAAAACAAAAAGAAATATGAGAGTG
* * **
50576427 ATAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAAACAAAAAGAAAT
50576449 TGAAACAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 13 0.30
30 18 0.41
31 13 0.30
ACGTcount: A:0.66, C:0.02, G:0.20, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAAACAAAAAGAAATATGAGAGTG
Found at i:50580175 original size:30 final size:31
Alignment explanation
Indices: 50580141--50580236 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
50580131 AGCAAAATCG
*
50580141 AGCTC-ACTTTCAACTCACGAGCTAAGCCTT
1 AGCTCAACTTTCAGCTCACGAGCTAAGCCTT
* * * * *
50580171 AGCTCAAC-TTCAGCTTAGGAGTTTAGCCTC
1 AGCTCAACTTTCAGCTCACGAGCTAAGCCTT
50580201 AGCTCAACTTT-AGCTCACGAGCTAAAG-CTT
1 AGCTCAACTTTCAGCTCACGAGCT-AAGCCTT
50580231 AGCTCA
1 AGCTCA
50580237 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
30 46 0.88
31 6 0.12
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (31 bp):
AGCTCAACTTTCAGCTCACGAGCTAAGCCTT
Found at i:50589541 original size:27 final size:27
Alignment explanation
Indices: 50589503--50589816 Score: 387
Period size: 27 Copynumber: 11.6 Consensus size: 27
50589493 TTAGTTTACC
* *
50589503 AAATTACCAAAATACCCCTAGATTGTT
1 AAATTACCAAAATACCCCTAGTTTGTA
* * *** * *
50589530 AAATCACTAAAATACATTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
50589557 AAATCACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* **
50589584 AAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
50589611 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
** * *
50589638 AAATTACCAAAATACCTTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
50589665 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
50589692 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
50589719 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
50589746 AAATTACCAAAATACCTCTAGTTTGTT
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
50589773 AAAGTACCAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATACCCCTAG-TTTGTA
**
50589800 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
50589817 TCGACCTGTA
Statistics
Matches: 245, Mismatches: 41, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.00
27 244 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:50589682 original size:108 final size:108
Alignment explanation
Indices: 50589493--50589817 Score: 461
Period size: 108 Copynumber: 3.0 Consensus size: 108
50589483 TTAGAATACT
* * * * * * *
50589493 TTAGTTTACCAAATTACCAAAATACCCCTAGATTGTTAAATCACTAAAATACATTTGGTTTATAA
1 TTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTTTAGTTTATAA
* *
50589558 AATCACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCC
66 AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCC
*
50589601 TTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTTTTGTTTATAA
1 TTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTTTAGTTTATAA
*
50589666 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
66 AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCC
* ** * * *
50589709 CTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTAGTTTGTTA
1 TTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTTTAGTTTATAA
* * **
50589774 AAGTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCC
66 AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCC
50589817 T
1 T
50589818 CGACCTGTAA
Statistics
Matches: 194, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
108 194 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (108 bp):
TTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTTTAGTTTATAA
AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCC
Found at i:50589827 original size:81 final size:80
Alignment explanation
Indices: 50589503--50589870 Score: 348
Period size: 81 Copynumber: 4.5 Consensus size: 80
50589493 TTAGTTTACC
* * * * *** * * *
50589503 AAATTACCAAAATACCCCTAGATTGTTAAATCACTAAAATACATTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
*
50589568 ATACCC-CTAATTTGTA
65 ATACCCTC-GATTTGTA
**
50589584 AAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
* * *
50589649 ATACCTTTTG-TTTATA
65 ATACC-CTCGATTTGTA
*
50589665 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
*
50589730 ATACCC-CTAGTTTGTA
65 ATACCCTCGA-TTTGTA
* * * **
50589746 AAATTACCAAAATACCTCTAGTTTGTTAAAGTACCAAAATACCCCT-GATTTGTGAAATTACTGA
1 AAATTACCAAAATACC-CTAGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAA
**
50589810 AATACCCTCGACCTGTA
64 AATACCCTCGATTTGTA
*** * * *
50589827 AAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCC
1 AAATTACCAAAATACCCTAG-TTTGTAAAATTACCAAAATACCC
50589871 TTGATTTACA
Statistics
Matches: 237, Mismatches: 40, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
80 9 0.04
81 223 0.94
82 5 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
AAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
TACCCTCGATTTGTA
Found at i:50589827 original size:108 final size:106
Alignment explanation
Indices: 50589503--50589869 Score: 398
Period size: 108 Copynumber: 3.4 Consensus size: 106
50589493 TTAGTTTACC
* * * * * * *
50589503 AAATTACCAAAATACCCCTAGATTGTTAAATCACTAAAATACATTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTTTAGTTTTTAAAAT-ACCAAA
* * *
50589568 ATACCCCTAATTTGTAAAATTACCAAAATACCCT-TAGTTTACA
65 ATACCCCTGATTTGTAAAATTACCAAAATACCCTCTACTGT--A
* *
50589611 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTTTTGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTTTAGTTTTTAAAA-TACCAAA
* *
50589676 ATACCCCTGGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTA
65 ATACCCCTGATTTGTAAAATTACCAAAATACCCTCTA--CTGTA
* *
50589719 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTAGTTTGTTAAAGTACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTTTAGTTT-TTAAAATACCAAA
* ** *
50589784 ATACCCCTGATTTGTGAAATTACTGAAATACCCTCGACCTGTA
65 ATACCCCTGATTTGTAAAATTACCAAAATACCCTCTA-CTGTA
*** * * *
50589827 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACC
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACC
50589870 CTTGATTTAC
Statistics
Matches: 225, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
107 5 0.02
108 211 0.94
109 7 0.03
110 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (106 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTTTAGTTTTTAAAATACCAAAA
TACCCCTGATTTGTAAAATTACCAAAATACCCTCTACTGTA
Found at i:50589869 original size:27 final size:27
Alignment explanation
Indices: 50589503--50589877 Score: 275
Period size: 27 Copynumber: 13.9 Consensus size: 27
50589493 TTAGTTTACC
* *
50589503 AAATTACCAAAATACCCCTAGA-TTGTT
1 AAATTACCAAAATA-CCCTCGATTTGTA
* * ** * * *
50589530 AAATCACTAAAATACATTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
50589557 AAATCACCAAAATACCC-CTAATTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* **
50589584 AAATTACCAAAATACCCT-TAGTTTACA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
50589611 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
50589638 AAATTACCAAAATACCTTTTG-TTTATA
1 AAATTACCAAAATACC-CTCGATTTGTA
*
50589665 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
50589692 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
50589719 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
50589746 AAATTACCAAAATA-CCTCTAGTTTGTT
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
50589773 AAAGTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** **
50589800 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
50589827 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
50589854 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCTCGATTT
50589878 ACAGAATTAC
Statistics
Matches: 286, Mismatches: 48, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.02
27 275 0.96
28 4 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:50589885 original size:27 final size:26
Alignment explanation
Indices: 50589853--50589927 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 26
50589843 CTCGACTTGT
50589853 AAAATTACCAAAGTACCCTTGATTTAC
1 AAAATTACCAAA-TACCCTTGATTTAC
* **** *
50589880 AGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTAC-CAAATACCCTTGATTTAC
50589907 AAAATTACCGAAATACCCTTG
1 AAAATTACC-AAATACCCTTG
50589928 TAGGGTAGAA
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (26 bp):
AAAATTACCAAATACCCTTGATTTAC
Found at i:50589942 original size:27 final size:27
Alignment explanation
Indices: 50589909--50590103 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
50589899 CGATTTACAA
*
50589909 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
50589936 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
50589963 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
50589990 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
50590017 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
50590044 AATTACTAAAATACCCCTGTAGGATGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
50590071 AATTATCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
50590097 AATTACC
1 AATTACC
50590104 ATTTTGCCCC
Statistics
Matches: 145, Mismatches: 23, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
26 14 0.10
27 131 0.90
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:50590563 original size:22 final size:22
Alignment explanation
Indices: 50590533--50590594 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
50590523 AAGCCTTCTG
* *
50590533 ATTATGGCTTTGTGTCAACCTA
1 ATTATGGCTCTGTGCCAACCTA
*
50590555 CA-TATGGCTCTGTGCCAGCCTA
1 -ATTATGGCTCTGTGCCAACCTA
*
50590577 ATTATGGCTGTGTGCCAA
1 ATTATGGCTCTGTGCCAA
50590595 ACGTATTTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
ATTATGGCTCTGTGCCAACCTA
Found at i:50590789 original size:26 final size:27
Alignment explanation
Indices: 50590753--50590826 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
50590743 ATTCTGTTAA
* *
50590753 GTGGCTTTGCCACATTATCTGT-TCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
50590779 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
50590806 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
50590827 ATAACTGAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 20 0.47
27 23 0.53
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:50591001 original size:6 final size:6
Alignment explanation
Indices: 50590963--50591104 Score: 112
Period size: 6 Copynumber: 22.8 Consensus size: 6
50590953 TTGCATTCAC
* * *
50590963 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
50591013 -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
*
50591063 ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
50591105 AGTTCTTATA
Statistics
Matches: 109, Mismatches: 14, Indels: 26
0.73 0.09 0.17
Matches are distributed among these distances:
5 7 0.06
6 81 0.74
7 17 0.16
8 4 0.04
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:50591027 original size:37 final size:31
Alignment explanation
Indices: 50590963--50591104 Score: 239
Period size: 31 Copynumber: 4.5 Consensus size: 31
50590953 TTGCATTCAC
50590963 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
50590995 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
50591026 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * *
50591057 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
50591088 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
50591105 AGTTCTTATA
Statistics
Matches: 107, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
31 100 0.93
32 7 0.07
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:50593806 original size:11 final size:11
Alignment explanation
Indices: 50593790--50593821 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
50593780 TTATACAAGT
50593790 TAAAAAAAATC
1 TAAAAAAAATC
50593801 TAAAAAAAATC
1 TAAAAAAAATC
*
50593812 GAAAAAAAAT
1 TAAAAAAAAT
50593822 TGAAGTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.16
Consensus pattern (11 bp):
TAAAAAAAATC
Found at i:50602606 original size:13 final size:13
Alignment explanation
Indices: 50602577--50602616 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
50602567 AACCAACCAA
*
50602577 TTTGTTCATATCCC
1 TTTGTTCCTA-CCC
50602591 TTTGTTCCTACCC
1 TTTGTTCCTACCC
50602604 TTTCGTTCCTACC
1 TTT-GTTCCTACC
50602617 ATTCCGTTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.10, C:0.35, G:0.07, T:0.47
Consensus pattern (13 bp):
TTTGTTCCTACCC
Found at i:50605411 original size:30 final size:30
Alignment explanation
Indices: 50605377--50605437 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
50605367 TCCTTAACTC
50605377 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
50605407 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
50605437 A
1 A
50605438 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:50614332 original size:17 final size:17
Alignment explanation
Indices: 50614273--50614332 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
50614263 GAGACAGCCA
* * *
50614273 CCATACATGCACTTAAG
1 CCATTCATGCATTTAAT
50614290 CCATTCATGCATTCT-AT
1 CCATTCATGCATT-TAAT
*
50614307 -CATCCCATGCATTTAAT
1 CCAT-TCATGCATTTAAT
50614324 CCATTCATG
1 CCATTCATG
50614333 GACTAGACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 4 0.12
17 26 0.76
18 4 0.12
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (17 bp):
CCATTCATGCATTTAAT
Done.