Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 49 of 253
Found at i:13037873 original size:15 final size:16
Alignment explanation
Indices: 13037855--13037885 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13037845 TCTTATTTCA
13037855 TATTTTT-ATATTATT
1 TATTTTTAATATTATT
13037870 TATTTTTAATATTATT
1 TATTTTTAATATTATT
13037886 ATTCTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTTTAATATTATT
Found at i:13037997 original size:17 final size:18
Alignment explanation
Indices: 13037971--13038016 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
13037961 AAATAATAAC
13037971 AAAA-TTTAAAAAT-ACT
1 AAAATTTTAAAAATCACT
* *
13037987 AACATTTTAAAAATCTCT
1 AAAATTTTAAAAATCACT
13038005 AAAATTTTAAAA
1 AAAATTTTAAAA
13038017 TTTCTCATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 3 0.12
17 9 0.36
18 13 0.52
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATTTTAAAAATCACT
Found at i:13040436 original size:39 final size:40
Alignment explanation
Indices: 13040383--13040464 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 40
13040373 TTTTGAAACC
13040383 ATTAACTAT-TTTTTTCTTTTTGGTTACATGAACCAATTA
1 ATTAACTATCTTTTTTCTTTTTGGTTACATGAACCAATTA
* *
13040422 ATTAACTCTCTTTTTTTTTTTTTTGGTTACATGAACCAATTA
1 ATTAACTATC--TTTTTTCTTTTTGGTTACATGAACCAATTA
13040464 A
1 A
13040465 CTTTGATTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 8 0.21
42 30 0.79
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.52
Consensus pattern (40 bp):
ATTAACTATCTTTTTTCTTTTTGGTTACATGAACCAATTA
Found at i:13040588 original size:27 final size:27
Alignment explanation
Indices: 13040541--13040604 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
13040531 AAATATTCTC
13040541 TAAATTAAT-AAATATTAATTTATCGA
1 TAAATTAATAAAATATTAATTTATCGA
*
13040567 TAAATTAATAAAATATTCATTTATCGA
1 TAAATTAATAAAATATTAATTTATCGA
*
13040594 TAAACTAATAA
1 TAAATTAATAA
13040605 CCCTGATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 9 0.26
27 26 0.74
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTTATCGA
Found at i:13044928 original size:22 final size:22
Alignment explanation
Indices: 13044886--13044928 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
13044876 AGATAAAATG
* *
13044886 CAGAACATATCAGATATAGATA
1 CAGAACAAATCAGAAATAGATA
13044908 CAGAACAAATCA-AAATCAGAT
1 CAGAACAAATCAGAAAT-AGAT
13044929 GCAGTTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (22 bp):
CAGAACAAATCAGAAATAGATA
Found at i:13052137 original size:22 final size:20
Alignment explanation
Indices: 13052107--13052149 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
13052097 TTTTTCTATT
*
13052107 ACATATTTATTATGTGTCTTAA
1 ACATATTTA--ATGTGTCCTAA
*
13052129 ACATGTTTAATGTGTCCTAA
1 ACATATTTAATGTGTCCTAA
13052149 A
1 A
13052150 AGTGTGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
22 8 0.42
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (20 bp):
ACATATTTAATGTGTCCTAA
Found at i:13080268 original size:19 final size:19
Alignment explanation
Indices: 13080241--13080277 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13080231 GTTTATTATG
*
13080241 AATACTAATAATAATAAAA
1 AATAATAATAATAATAAAA
13080260 AATAATAATAATAATAAA
1 AATAATAATAATAATAAA
13080278 GAAAGTATTT
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:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (19 bp):
AATAATAATAATAATAAAA
Found at i:13080785 original size:25 final size:22
Alignment explanation
Indices: 13080754--13080811 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 22
13080744 ACAACGACTC
*
13080754 AATTTTAAATAAAATTATAATTAAT
1 AATTTTAAATAAAACTAT-A--AAT
*
13080779 AATTTTAAATTAAACTATAAAT
1 AATTTTAAATAAAACTATAAAT
13080801 AATTTTAAATA
1 AATTTTAAATA
13080812 TTAACTCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.43
24 1 0.03
25 16 0.53
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTTTAAATAAAACTATAAAT
Found at i:13087659 original size:16 final size:18
Alignment explanation
Indices: 13087620--13087653 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13087610 TAAGTTTATA
13087620 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
13087637 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
13087654 AATTTACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:13088618 original size:19 final size:20
Alignment explanation
Indices: 13088596--13088641 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
13088586 TTCTTTCTAT
*
13088596 ATTTTTAAT-TTTTTTTATA
1 ATTTTTAATAATTTTTTATA
*
13088615 ATTTTTTATAATTTTTTATA
1 ATTTTTAATAATTTTTTATA
13088635 ATTTTTA
1 ATTTTTA
13088642 CGGATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTTAATAATTTTTTATA
Found at i:13088641 original size:9 final size:10
Alignment explanation
Indices: 13088606--13088640 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
13088596 ATTTTTAATT
13088606 TTTTTTATAA
1 TTTTTTATAA
13088616 TTTTTTATAA
1 TTTTTTATAA
13088626 TTTTTTATAA
1 TTTTTTATAA
13088636 TTTTT
1 TTTTT
13088641 ACGGATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:13098438 original size:24 final size:23
Alignment explanation
Indices: 13098411--13098456 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
13098401 CCTGTTACAT
* *
13098411 GGCTCTTTGTGAGCATTCTTGATA
1 GGCTCTTCGTGAGC-TTCCTGATA
13098435 GGCTCTTCGTGAGCTTCCTGAT
1 GGCTCTTCGTGAGCTTCCTGAT
13098457 TAAAAGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.13, C:0.22, G:0.26, T:0.39
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTCCTGATA
Found at i:13102821 original size:12 final size:12
Alignment explanation
Indices: 13102804--13102831 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13102794 ACACGGTTTA
13102804 GTGACTAATCGT
1 GTGACTAATCGT
13102816 GTGACTAATCGT
1 GTGACTAATCGT
13102828 GTGA
1 GTGA
13102832 GCGAAGTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (12 bp):
GTGACTAATCGT
Found at i:13104151 original size:17 final size:16
Alignment explanation
Indices: 13104118--13104161 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
13104108 ATACGATGTT
*
13104118 TTGGATATTAGATTAAA
1 TTGGATGTTA-ATTAAA
13104135 TTGTGATGTTAATTAAA
1 TTG-GATGTTAATTAAA
13104152 TTGGATGTTA
1 TTGGATGTTA
13104162 TAATTGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 7 0.28
17 12 0.48
18 6 0.24
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.45
Consensus pattern (16 bp):
TTGGATGTTAATTAAA
Found at i:13104590 original size:25 final size:25
Alignment explanation
Indices: 13104562--13104610 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
13104552 TATGTGTATA
13104562 TGACATGAATTATAATCTTGAAAGG
1 TGACATGAATTATAATCTTGAAAGG
13104587 TGACATGAATTATAATCTTGAAAG
1 TGACATGAATTATAATCTTGAAAG
13104611 TTAACACGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (25 bp):
TGACATGAATTATAATCTTGAAAGG
Found at i:13107791 original size:28 final size:27
Alignment explanation
Indices: 13107734--13107885 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
13107724 TAAATTGTGC
*
13107734 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
13107761 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
13107789 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
13107816 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
13107844 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
13107871 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13107886 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:13107798 original size:55 final size:55
Alignment explanation
Indices: 13107734--13107885 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
13107724 TAAATTGTGC
*
13107734 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
13107789 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
13107844 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
13107886 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:13114274 original size:38 final size:36
Alignment explanation
Indices: 13114223--13114295 Score: 103
Period size: 38 Copynumber: 2.0 Consensus size: 36
13114213 CGGGTTATAA
13114223 AGTGGCATGTATTTTTACACTCTGAGCCA-GCTACAT
1 AGTGGCATGTATTTTTAC-CTCTGAGCCATGCTACAT
*
13114259 AGTGGCTATGGTATTTTTACCTCTGAGCGATGCTACA
1 AGTGGC-AT-GTATTTTTACCTCTGAGCCATGCTACA
13114296 GCGGGGTTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 6 0.18
37 11 0.33
38 16 0.48
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (36 bp):
AGTGGCATGTATTTTTACCTCTGAGCCATGCTACAT
Found at i:13115711 original size:26 final size:27
Alignment explanation
Indices: 13115675--13115813 Score: 176
Period size: 26 Copynumber: 5.2 Consensus size: 27
13115665 CAACACTCAT
* *
13115675 GTGCTATATAATCAACTCGCACACCTA
1 GTGCTACATAATCAACTCGCACACTTA
13115702 G-GCTACATAATCAACTCGCACACTTA
1 GTGCTACATAATCAACTCGCACACTTA
*
13115728 GTGCTACATAGTCAACTCGCACA-TTA
1 GTGCTACATAATCAACTCGCACACTTA
* *
13115754 GTGCTACATAGTCAAACTC-CGCACTTA
1 GTGCTACATAATC-AACTCGCACACTTA
* *
13115781 GTGCTACATAGTTCAATTCGCACACTTA
1 GTGCTACATA-ATCAACTCGCACACTTA
13115809 GTGCT
1 GTGCT
13115814 GCACAATTTA
Statistics
Matches: 100, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
26 43 0.43
27 43 0.43
28 14 0.14
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
GTGCTACATAATCAACTCGCACACTTA
Found at i:13115742 original size:27 final size:27
Alignment explanation
Indices: 13115675--13115813 Score: 185
Period size: 27 Copynumber: 5.2 Consensus size: 27
13115665 CAACACTCAT
* * *
13115675 GTGCTATATAATCAACTCGCACACCTA
1 GTGCTACATAGTCAACTCGCACACTTA
*
13115702 G-GCTACATAATCAACTCGCACACTTA
1 GTGCTACATAGTCAACTCGCACACTTA
13115728 GTGCTACATAGTCAACTCGCACA-TTA
1 GTGCTACATAGTCAACTCGCACACTTA
*
13115754 GTGCTACATAGTCAAACTC-CGCACTTA
1 GTGCTACATAGTC-AACTCGCACACTTA
*
13115781 GTGCTACATAGTTCAATTCGCACACTTA
1 GTGCTACATAG-TCAACTCGCACACTTA
13115809 GTGCT
1 GTGCT
13115814 GCACAATTTA
Statistics
Matches: 101, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
26 43 0.43
27 44 0.44
28 14 0.14
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
GTGCTACATAGTCAACTCGCACACTTA
Found at i:13115748 original size:53 final size:54
Alignment explanation
Indices: 13115675--13115813 Score: 176
Period size: 53 Copynumber: 2.6 Consensus size: 54
13115665 CAACACTCAT
* *
13115675 GTGCTATATAATCAACTCGCACACCTAG-GCTACATAATC-AACTCGCACACTTA
1 GTGCTACATAGTCAACTCGCACACCTAGTGCTACATAATCAAACTC-CACACTTA
* * *
13115728 GTGCTACATAGTCAACTCGCACA-TTAGTGCTACATAGTCAAACTCCGCACTTA
1 GTGCTACATAGTCAACTCGCACACCTAGTGCTACATAATCAAACTCCACACTTA
* *
13115781 GTGCTACATAGTTCAATTCGCACACTTAGTGCT
1 GTGCTACATAG-TCAACTCGCACACCTAGTGCT
13115814 GCACAATTTA
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
52 3 0.04
53 49 0.64
54 16 0.21
55 8 0.11
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (54 bp):
GTGCTACATAGTCAACTCGCACACCTAGTGCTACATAATCAAACTCCACACTTA
Found at i:13122783 original size:16 final size:17
Alignment explanation
Indices: 13122752--13122784 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13122742 GGAATATTAG
13122752 ATTAAATTGTGATGTTA
1 ATTAAATTGTGATGTTA
13122769 ATTAAATTG-GATGTTA
1 ATTAAATTGTGATGTTA
13122785 TAATTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (17 bp):
ATTAAATTGTGATGTTA
Found at i:13123815 original size:24 final size:24
Alignment explanation
Indices: 13123776--13123822 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
13123766 GTAGGTAATT
*
13123776 ATGGTTGATATGGTATGCTTTTGAA
1 ATGGTTAATATGGTATG-TTTTGAA
13123801 ATGGTTAAT-TGGTATGTTTTGA
1 ATGGTTAATATGGTATGTTTTGA
13123823 TATATGCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 7 0.33
25 8 0.38
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (24 bp):
ATGGTTAATATGGTATGTTTTGAA
Found at i:13126254 original size:28 final size:27
Alignment explanation
Indices: 13126197--13126349 Score: 234
Period size: 27 Copynumber: 5.6 Consensus size: 27
13126187 TAAATTGTGC
*
13126197 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
13126224 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
13126252 AGCCACTAAGTGTGCGAGTTGACTATGT
1 AG-CACTAAGTGTGCGAGTTGACTATGT
*
13126280 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
13126308 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
13126335 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13126350 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
27 54 0.45
28 50 0.42
29 15 0.13
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:13126266 original size:56 final size:55
Alignment explanation
Indices: 13126197--13126349 Score: 252
Period size: 56 Copynumber: 2.8 Consensus size: 55
13126187 TAAATTGTGC
*
13126197 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
13126252 AGCCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AG-CACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
13126308 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
13126350 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
55 39 0.42
56 53 0.58
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:13134293 original size:28 final size:27
Alignment explanation
Indices: 13134236--13134385 Score: 237
Period size: 27 Copynumber: 5.5 Consensus size: 27
13134226 TAAATTGTGC
*
13134236 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
13134263 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
13134291 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
13134318 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
13134346 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
13134373 AGCACTGAGTGTG
1 AGCACTAAGTGTG
13134386 TGGACTTAAT
Statistics
Matches: 117, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 64 0.55
28 53 0.45
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:13134300 original size:55 final size:55
Alignment explanation
Indices: 13134236--13134385 Score: 255
Period size: 55 Copynumber: 2.7 Consensus size: 55
13134226 TAAATTGTGC
*
13134236 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
13134291 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
13134346 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTG
13134386 TGGACTTAAT
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:13135793 original size:38 final size:38
Alignment explanation
Indices: 13135742--13135819 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
13135732 GTGTTACAGA
13135742 ATGTAGCATGCTCAGAGTGTAAAAATACATGCCACTTT
1 ATGTAGCATGCTCAGAGTGTAAAAATACATGCCACTTT
13135780 ATGTAGCATGCTCAGAGTGTAAAAATACATGCCACTTT
1 ATGTAGCATGCTCAGAGTGTAAAAATACATGCCACTTT
13135818 AT
1 AT
13135820 AACCTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (38 bp):
ATGTAGCATGCTCAGAGTGTAAAAATACATGCCACTTT
Found at i:13137244 original size:42 final size:43
Alignment explanation
Indices: 13137177--13137276 Score: 123
Period size: 42 Copynumber: 2.3 Consensus size: 43
13137167 GACTTATTAT
* *
13137177 TTACGTGTAAGACCATGTCTAGGACA-TCGACATCG-TATTTGA
1 TTACATGTAAGACCATATCTAGGACAGT-GACATCGATATTTGA
* * * *
13137219 TTTCATGTAAGACCCTATCTGGGACAGTGGCATCGATATTTGA
1 TTACATGTAAGACCATATCTAGGACAGTGACATCGATATTTGA
13137262 TTACATGTAAGACCA
1 TTACATGTAAGACCA
13137277 CGTCTGAGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 27 0.56
43 21 0.44
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (43 bp):
TTACATGTAAGACCATATCTAGGACAGTGACATCGATATTTGA
Found at i:13137468 original size:18 final size:18
Alignment explanation
Indices: 13137441--13137475 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13137431 GTAAGTATAT
*
13137441 GTACAGTTGATGATATGC
1 GTACAATTGATGATATGC
13137459 GTACAATTGATGATATG
1 GTACAATTGATGATATG
13137476 TGTTATATGT
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:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (18 bp):
GTACAATTGATGATATGC
Found at i:13144990 original size:21 final size:20
Alignment explanation
Indices: 13144966--13145021 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
13144956 TGTATGAGAA
*
13144966 AATATGCTATATGTGTAAATG
1 AATATGCAATATGTG-AAATG
* *
13144987 AATAGGGAATATGTGAAATG
1 AATATGCAATATGTGAAATG
*
13145007 TATATG-AACTATGTG
1 AATATGCAA-TATGTG
13145022 GTTTGAGATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.07
20 15 0.52
21 12 0.41
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (20 bp):
AATATGCAATATGTGAAATG
Found at i:13151573 original size:20 final size:20
Alignment explanation
Indices: 13151545--13151594 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
13151535 ATGTTGTCCT
* * *
13151545 ATGAGTAGTGGGGTCAAGTC
1 ATGAATAGTGGAGTCAAATC
13151565 ATGAATAGTGGAGTCAAATC
1 ATGAATAGTGGAGTCAAATC
*
13151585 ATGAACAGTG
1 ATGAATAGTG
13151595 ATAATATGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.10, G:0.32, T:0.24
Consensus pattern (20 bp):
ATGAATAGTGGAGTCAAATC
Found at i:13154129 original size:50 final size:50
Alignment explanation
Indices: 13153964--13154346 Score: 349
Period size: 50 Copynumber: 7.8 Consensus size: 50
13153954 AGGGTTATTC
* * * *
13153964 GAGAGCTAATGTAAGACCATGTCTTGGACATGGCATTGGC-CTCG---GCAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-GATAG-AT
* *
13154012 GTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAT-G-T
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGAT
** * * * *
13154060 GACTGCTAGTGTAAGACCATGTATGGCACATTGCATCGGCACTGATAGAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGAT
* * * *
13154110 GAGAGCCAGTGTAAGACCATGTCT-GGACAAGGCATCGGCACAGATGGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGAT
* * * * * *
13154159 GAGAGTCAGTGTAAGACCATGTTTGGGACATGGCATTGGC-CTCGACATAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-GATAGAT
* * * *
13154209 GAGATCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGC-CTCGATACAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-GATAGAT
* * * **
13154259 GATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTTGATACG-T
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATA-GAT
*
13154309 --GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
13154347 TTTCTACCCT
Statistics
Matches: 273, Mismatches: 53, Indels: 18
0.79 0.15 0.05
Matches are distributed among these distances:
48 109 0.40
49 44 0.16
50 119 0.44
51 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGAT
Found at i:13157256 original size:27 final size:26
Alignment explanation
Indices: 13157208--13157259 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
13157198 GCGAGGCTGC
*
13157208 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
13157234 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
13157260 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:13158963 original size:25 final size:25
Alignment explanation
Indices: 13158929--13158987 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
13158919 GACTGTTTTA
13158929 ATTGTAGTAATCGGCTAAAGTGGTT
1 ATTGTAGTAATCGGCTAAAGTGGTT
13158954 ATTGTAGTAATCGGCTAAAGTGGTT
1 ATTGTAGTAATCGGCTAAAGTGGTT
13158979 ATTGT-GTAA
1 ATTGTAGTAA
13158988 CTATTTATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.12
25 30 0.88
ACGTcount: A:0.29, C:0.07, G:0.27, T:0.37
Consensus pattern (25 bp):
ATTGTAGTAATCGGCTAAAGTGGTT
Found at i:13167575 original size:50 final size:49
Alignment explanation
Indices: 13167451--13167734 Score: 288
Period size: 50 Copynumber: 5.8 Consensus size: 49
13167441 AGGGTCATTC
* * *
13167451 GAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGATG-T
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGATGAT
* * *
13167499 GAGTGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGACACTGATAGAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGAT-GAT
* * * *
13167549 GAGAGCCAGTGAAAGACCATGTCTGGGACATGGCAT-TAGCACAGATGGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CACTGAT-GAT
* * * * *
13167599 GAGAGTCAGTGTAAAACCATGTCTGGGACATGGCGTCGGC-CTCGATACAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACT-GAT-GAT
* * * **
13167649 GATAGTCAGTGTAAGACCATGTCTGGGACATAGCATCGACTTTGAT-AT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGATGAT
* * *
13167697 GTGAGCTAGTGTAAGACCATGTCTGGGACAGGGCATCG
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
13167735 GCTTCCTACC
Statistics
Matches: 196, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
48 76 0.39
49 3 0.02
50 116 0.59
51 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (49 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGATGAT
Found at i:13170377 original size:24 final size:24
Alignment explanation
Indices: 13170323--13170377 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
13170313 ATTGTTACTC
13170323 TCTTCTCTTATTCTTTCTTAAAAAT
1 TCTTCTCTTATTCTTTCTT-AAAAT
*
13170348 TC-TCTCTTCTTCTTTCTCT-AAAT
1 TCTTCTCTTATTCTTTCT-TAAAAT
13170371 TCTTCTC
1 TCTTCTC
13170378 AAGATTGTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 6 0.22
24 18 0.67
25 3 0.11
ACGTcount: A:0.16, C:0.27, G:0.00, T:0.56
Consensus pattern (24 bp):
TCTTCTCTTATTCTTTCTTAAAAT
Found at i:13177649 original size:48 final size:46
Alignment explanation
Indices: 13177592--13177720 Score: 143
Period size: 48 Copynumber: 2.8 Consensus size: 46
13177582 CTCAATTGAT
*
13177592 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGTTAACTTATCC-CCG
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAAC---TCCTCCG
* ** *
13177640 GAGTACCTATACCATGGCCCGTGGCCAAATTAAGGTAACTCCTCCG
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCCTCCG
* * **
13177686 AAGTGCGTATAATATGGCCCGAAGCCAAATCAAGG
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGG
13177721 CATAACTTGC
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
45 3 0.04
46 30 0.45
48 34 0.51
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (46 bp):
AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCCTCCG
Found at i:13192970 original size:27 final size:27
Alignment explanation
Indices: 13192940--13193115 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
13192930 ATATTGAGTC
* *
13192940 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
13192967 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
13192994 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
13193021 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
13193048 CGCACACTTAGTGC-ATCAT-TTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
13193074 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
13193101 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13193116 GTACAATTTA
Statistics
Matches: 126, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 22 0.17
27 103 0.82
28 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:13193022 original size:54 final size:54
Alignment explanation
Indices: 13192940--13193115 Score: 212
Period size: 54 Copynumber: 3.3 Consensus size: 54
13192930 ATATTGAGTC
* * * *
13192940 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * * *
13192994 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** * *
13193048 CGCACACTTAGTGC-ATCAT-TTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
13193101 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13193116 GTACAATTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 41 0.39
54 63 0.61
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:13195088 original size:49 final size:47
Alignment explanation
Indices: 13194994--13195503 Score: 823
Period size: 47 Copynumber: 10.8 Consensus size: 47
13194984 ATTTAGGATT
13194994 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
13195041 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
13195090 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
13195139 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
13195188 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
13195235 CAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
13195284 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
13195331 CGATGTGATGAATGTGAAAGTGTATATATGTG---A--CCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
13195373 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGT
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
13195420 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
13195467 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
13195504 TCCCGAAGGG
Statistics
Matches: 440, Mismatches: 14, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
42 41 0.09
44 1 0.00
45 1 0.00
47 206 0.47
49 191 0.43
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:13195094 original size:96 final size:96
Alignment explanation
Indices: 13194994--13195503 Score: 849
Period size: 96 Copynumber: 5.4 Consensus size: 96
13194984 ATTTAGGATT
13194994 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
13195059 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATATGTGATAAGGCCTAATGGC
13195090 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
13195155 AAAGTGTATATATATGTGATAAGGCCTAATGGC
64 AAAGTGTATATATATGTGATAAGGCCTAATGGC
*
13195188 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
13195253 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATATGTGATAAGGCCTAATGGC
13195284 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
13195349 AGTG--TATATATGTG---A--CCTAATGGC
66 AGTGTATATATATGTGATAAGGCCTAATGGC
*
13195373 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * *
13195438 AGTG--TATATATGTGACAGGGCCGAGTGGC
66 AGTGTATATATATGTGATAAGGCCTAATGGC
* * * *
13195467 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
13195504 TCCCGAAGGG
Statistics
Matches: 397, Mismatches: 10, Indels: 16
0.94 0.02 0.04
Matches are distributed among these distances:
89 87 0.22
91 1 0.00
94 50 0.13
96 163 0.41
98 96 0.24
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATATGTGATAAGGCCTAATGGC
Found at i:13195405 original size:25 final size:25
Alignment explanation
Indices: 13195375--13195452 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
13195365 CTAATGGCCG
13195375 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** * **
13195400 ATGTGAT-AAGGCCTAA-TG-GTCG
1 ATGTGATGAATGTGAAAGTGTATAT
13195422 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
13195447 ATGTGA
1 ATGTGA
13195453 CAGGGCCGAG
Statistics
Matches: 36, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 8 0.22
23 7 0.19
24 7 0.19
25 14 0.39
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:13195678 original size:37 final size:37
Alignment explanation
Indices: 13195622--13195700 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
13195612 CCGAGCTCTA
* * *
13195622 AAGACCCGATGACTACGTGTGGGGA-TATTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTA-TGTCCGAGT
*
13195659 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
13195696 AAGAC
1 AAGAC
13195701 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:13212866 original size:18 final size:18
Alignment explanation
Indices: 13212843--13212877 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13212833 TACTTAACAC
*
13212843 AAGCTCACAAATCATGAG
1 AAGCTCACAAAACATGAG
*
13212861 AAGCTCGCAAAACATGA
1 AAGCTCACAAAACATGA
13212878 AACCATATAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.23, G:0.17, T:0.14
Consensus pattern (18 bp):
AAGCTCACAAAACATGAG
Found at i:13215260 original size:27 final size:27
Alignment explanation
Indices: 13215230--13215359 Score: 98
Period size: 27 Copynumber: 4.8 Consensus size: 27
13215220 ATTACCAAAG
*
13215230 TACCCCCAATTTACATAATTACCGTTT
1 TACCCCCAATTTACAGAATTACCGTTT
* *
13215257 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCCCAATTTACAGAATTACCGTTT
** * * **
13215284 TACCGTCGATTTATAGAATTACTATTT
1 TACCCCCAATTTACAGAATTACCGTTT
*** * **
13215311 TACCCTTGATTTATAGAATTATTGTTT
1 TACCCCCAATTTACAGAATTACCGTTT
* * *
13215338 TACCCTCGATTTACAAAATTAC
1 TACCCCCAATTTACAGAATTAC
13215360 TAAAATACCC
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCCCAATTTACAGAATTACCGTTT
Found at i:13215360 original size:54 final size:54
Alignment explanation
Indices: 13215238--13215361 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 54
13215228 AGTACCCCCA
* ** *
13215238 ATTTACATAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCGTCG
1 ATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCG
* * * * **
13215292 ATTTATAGAATTACTATTTTACCCTTGATTTATAGAATTATTGTTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCG
13215346 ATTTACAAAATTACTA
1 ATTTACAAAATTACTA
13215362 AAATACCCTT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.43
Consensus pattern (54 bp):
ATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCG
Found at i:13215369 original size:54 final size:54
Alignment explanation
Indices: 13215257--13215387 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 54
13215247 ATTACCGTTT
* * * * ***
13215257 TACCCTCGATTTACAGAATTACCGTTTTACCGTCGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
* **
13215311 TACCCTTGATTTATAGAATTATTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
*
13215365 TACCCTT-AGTTTACAAAATTACC
1 TACCCTTGA-TTTACAGAATTACC
13215388 AAAATACCCT
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
53 1 0.02
54 61 0.98
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:13215396 original size:54 final size:54
Alignment explanation
Indices: 13215338--13215669 Score: 264
Period size: 54 Copynumber: 6.1 Consensus size: 54
13215328 ATTATTGTTT
* * **
13215338 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * *
13215392 TACCCTCGA-TTAGTAAAATTACCGAAATA-CCTTGGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * *
13215445 TA-CCTCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * *
13215499 TACCACT-GGTTTGTGAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAA
1 TACC-CTCGATTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * *
13215553 TACCC-CTGATTTATAAAATTA-CAGAAATACCCTTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTC-GATTTATAAAATTACCA-AAATACCC-TT-AGTTTGT-AAAATTACCA-AAA
* * * * ** * * *
13215610 TACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
*
13215664 CACCCT
1 TACCCT
13215670 TGTAGGGTGA
Statistics
Matches: 220, Mismatches: 42, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
52 4 0.02
53 41 0.19
54 123 0.56
55 8 0.04
56 10 0.05
57 34 0.15
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:13215556 original size:81 final size:80
Alignment explanation
Indices: 13215352--13215585 Score: 278
Period size: 81 Copynumber: 2.9 Consensus size: 80
13215342 CTCGATTTAC
** * *
13215352 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATA-CCCTCGATTAGTAAAATTACCG
1 AAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCT-GATTTGTAAAATTACCA
*
13215416 AAATACCTTGGTCTGT
65 AAATACCCTGGTCTGT
* *
13215432 AAAATTGCTAAAATA-CCTCTGGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACC
1 AAAATTACTAAAATACCCT-TAGTTTGTAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACC
*
13215495 AAAATACCACTGGTTTGT
64 AAAATACC-CTGGTCTGT
* ** * *
13215513 GAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTGATTTATAAAATTA-CAG
1 AAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCA-
13215577 AAATACCCT
65 AAATACCCT
13215586 TTGACTTTCT
Statistics
Matches: 132, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
79 4 0.03
80 58 0.44
81 66 0.50
82 4 0.03
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAA
AATACCCTGGTCTGT
Found at i:13215636 original size:27 final size:27
Alignment explanation
Indices: 13215338--13215671 Score: 230
Period size: 27 Copynumber: 12.3 Consensus size: 27
13215328 ATTATTGTTT
* * * *
13215338 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* *
13215365 TACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
13215392 TACCC-TCGATTAGTAAAATTACCGAAA
1 TACCCTTGGTTTA-TAAAATTACCAAAA
* * * *
13215419 TA-CCTTGGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
13215445 TA-CCTCTGGTTTGTAAAATTACCAAAA
1 TACCCT-TGGTTTATAAAATTACCAAAA
* * *
13215472 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
13215499 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTATAAAATTACCAAAA
** *
13215526 TACCCTTAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* *
13215553 TACCCCTGATTTATAAAATTA-CAGAAA
1 TACCCTTGGTTTATAAAATTACCA-AAA
* * *
13215580 TACCCTTTGACTTTCTAAAAATTA-TAGAAA
1 TACCC-TTG-GTTTAT-AAAATTACCA-AAA
* * **
13215610 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
13215637 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
13215664 CACCCTTG
1 TACCCTTG
13215672 TAGGGTGAAA
Statistics
Matches: 249, Mismatches: 47, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
26 26 0.10
27 191 0.77
28 9 0.04
29 7 0.03
30 16 0.06
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACCAAAA
Found at i:13215732 original size:27 final size:27
Alignment explanation
Indices: 13215702--13215761 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
13215692 ATCCCTATTA
13215702 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
**
13215729 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
13215756 GGTAAA
1 GGTAAA
13215762 GTGACTGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.20, G:0.28, T:0.17
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAGCCCCTGTAG
Found at i:13215788 original size:27 final size:27
Alignment explanation
Indices: 13215710--13215781 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
13215700 TAGGTAAAAA
13215710 GACCGTAAAGCCCCTGTAGGGTAAAGT
1 GACCGTAAAGCCCCTGTAGGGTAAAGT
13215737 GACCGTAAAGCCCCTGTAGGGTAAAGT
1 GACCGTAAAGCCCCTGTAGGGTAAAGT
*
13215764 GACTGTAATA-CCCCTGTA
1 GACCGTAA-AGCCCCTGTA
13215782 TAGTAAAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
27 42 0.98
28 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (27 bp):
GACCGTAAAGCCCCTGTAGGGTAAAGT
Found at i:13216659 original size:24 final size:25
Alignment explanation
Indices: 13216602--13216670 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
13216592 ACGAAGTGCT
*
13216602 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
13216627 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
13216651 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
13216671 ATTAAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
24 20 0.48
25 22 0.52
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:13216678 original size:24 final size:24
Alignment explanation
Indices: 13216602--13216678 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
13216592 ACGAAGTGCT
* ***
13216602 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAG-TTATTA
*
13216627 AAAAGGGCTTTGCCCCAGTT-TATC
1 AAAAGGGCTTTGCCCCAGTTAT-TA
13216651 AAAAGGGCTTTGCCCCAGTTATTA
1 AAAAGGGCTTTGCCCCAGTTATTA
13216675 AAAA
1 AAAA
13216679 AAGCTAGGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
24 27 0.60
25 18 0.40
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTATTA
Found at i:13216924 original size:31 final size:31
Alignment explanation
Indices: 13216890--13217029 Score: 235
Period size: 31 Copynumber: 4.5 Consensus size: 31
13216880 GTTTACAGTA
*
13216890 AAGGCTTCGGCCCAGTGATATGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
* * *
13216921 AAGGCTTCAGCCCAGAGATATAATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
*
13216952 AAGGCTTCAGCCCAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
13216983 AAGGCTTCGGCCCAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
13217014 AAGGCTTCGGCCCAGT
1 AAGGCTTCGGCCCAGT
13217030 AACCGTTAAA
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 102 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGATATGATTTATGAT
Found at i:13217824 original size:26 final size:25
Alignment explanation
Indices: 13217795--13217882 Score: 81
Period size: 26 Copynumber: 3.4 Consensus size: 25
13217785 AAACTGACCA
*
13217795 ACTCAAACTTAAGGGTCCTTCGACTC
1 ACTCAAACTTAAGGGTCCTTCAAC-C
** *
13217821 ACTC-AACTTAAGGAACCTCCAACC
1 ACTCAAACTTAAGGGTCCTTCAACC
*
13217845 AACTCAAACTCAAGGGT-CTTCAAACCC
1 -ACTCAAACTTAAGGGTCCTTC-AA-CC
13217872 ACTCAAACTTA
1 ACTCAAACTTA
13217883 GGAGACCTCT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
24 1 0.02
25 22 0.45
26 24 0.49
27 2 0.04
ACGTcount: A:0.35, C:0.33, G:0.10, T:0.22
Consensus pattern (25 bp):
ACTCAAACTTAAGGGTCCTTCAACC
Found at i:13217875 original size:51 final size:52
Alignment explanation
Indices: 13217791--13217891 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 52
13217781 TGTTAAACTG
* * *
13217791 ACCAACTCAAACTTAAGGGTCCTTCGACTCACTC-AACTTAAGGA-ACCTCCA
1 ACCAACTCAAACTCAAGGGTCCTTCAACCCACTCAAACTT-AGGAGACCTCCA
13217842 ACCAACTCAAACTCAAGGGT-CTTCAAACCCACTCAAACTTAGGAGACCTC
1 ACCAACTCAAACTCAAGGGTCCTTC-AACCCACTCAAACTTAGGAGACCTC
13217892 TGACCCATCT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
50 4 0.09
51 30 0.68
52 10 0.23
ACGTcount: A:0.35, C:0.34, G:0.12, T:0.20
Consensus pattern (52 bp):
ACCAACTCAAACTCAAGGGTCCTTCAACCCACTCAAACTTAGGAGACCTCCA
Found at i:13219884 original size:9 final size:9
Alignment explanation
Indices: 13219872--13219915 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
13219862 ATTAATTCAT
13219872 TAATTAAAC
1 TAATTAAAC
13219881 TAATTAAAC
1 TAATTAAAC
* *
13219890 AAATTTAAC
1 TAATTAAAC
13219899 TAAATCTAAAC
1 T-AAT-TAAAC
13219910 TAATTA
1 TAATTA
13219916 TAATTAATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 18 0.62
10 6 0.21
11 5 0.17
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (9 bp):
TAATTAAAC
Found at i:13220852 original size:2 final size:2
Alignment explanation
Indices: 13220847--13220879 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
13220837 CTTATATATA
*
13220847 TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
13220880 TGCACCCGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.45, T:0.52
Consensus pattern (2 bp):
TG
Found at i:13222770 original size:33 final size:35
Alignment explanation
Indices: 13222675--13222771 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
13222665 TTAATATTTT
*
13222675 AATATATGAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
13222710 AATAAATATTAATTAT-TTATAAA-ATTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
13222743 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
13222772 ATATAACCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 13 0.25
34 8 0.16
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:13228014 original size:34 final size:34
Alignment explanation
Indices: 13227976--13228043 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
13227966 TCAGTTAAAT
* * *
13227976 GCAGTTTGGGCATAAGTCCATTCCAGTTTCAGTA
1 GCAGTTCGAGCATAAGCCCATTCCAGTTTCAGTA
* **
13228010 GCAGTTCGAGCTTAAGCCCATTTTAGTTTCAGTA
1 GCAGTTCGAGCATAAGCCCATTCCAGTTTCAGTA
13228044 TCAGATATGC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.34
Consensus pattern (34 bp):
GCAGTTCGAGCATAAGCCCATTCCAGTTTCAGTA
Found at i:13229450 original size:41 final size:41
Alignment explanation
Indices: 13229393--13229477 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
13229383 CCCATTCTGA
*
13229393 TATGGTTTTACAAATAATTTAATATAAGCCTGCTGAACAAG
1 TATGGTTTTAAAAATAATTTAATATAAGCCTGCTGAACAAG
13229434 TATGGTTTTAAAAATAATTTAATATAAGCCTGCTGAACAAG
1 TATGGTTTTAAAAATAATTTAATATAAGCCTGCTGAACAAG
13229475 TAT
1 TAT
13229478 AAGGATTAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (41 bp):
TATGGTTTTAAAAATAATTTAATATAAGCCTGCTGAACAAG
Found at i:13230709 original size:28 final size:28
Alignment explanation
Indices: 13230669--13230777 Score: 155
Period size: 28 Copynumber: 3.9 Consensus size: 28
13230659 GCTATGTACA
* **
13230669 GCACTTAGTGTGCGAGACATTGAGAATG
1 GCACTTAGTGTGCGAGATATTGAGTGTG
* *
13230697 GCACTTTGTGTGCAAGATATTGAGTGTG
1 GCACTTAGTGTGCGAGATATTGAGTGTG
*
13230725 GCACTTAGTGTGCGAGATATCGAGTGTG
1 GCACTTAGTGTGCGAGATATTGAGTGTG
*
13230753 GCACTTAGTGTGCGAGATATCGAGT
1 GCACTTAGTGTGCGAGATATTGAGT
13230778 ATTCAACGGC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.29
Consensus pattern (28 bp):
GCACTTAGTGTGCGAGATATTGAGTGTG
Found at i:13235581 original size:47 final size:47
Alignment explanation
Indices: 13235469--13235599 Score: 145
Period size: 47 Copynumber: 2.8 Consensus size: 47
13235459 GTTCGAATGA
* * * * *
13235469 TACCTTCATTTGGATATGGGTCATGGTATAGGTATTTCAGAGAGGAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTA-CTCAGAGAGAAGT
* * * * * *
13235517 TACCTTGTTTTGACTATGGGCCATAGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCAGAGAGAAGT
*
13235564 TACCTTGATTTGGCTATGGGCCATGGTATAGTTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
13235600 TATCAATTGT
Statistics
Matches: 68, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
47 40 0.59
48 28 0.41
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.37
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCAGAGAGAAGT
Found at i:13257086 original size:27 final size:27
Alignment explanation
Indices: 13257020--13257142 Score: 122
Period size: 27 Copynumber: 4.5 Consensus size: 27
13257010 ACACACCAGA
* *
13257020 AAATGAAAGCCTTTAGGGCAACCTATG
1 AAATGAAAGCCTTTATGGCAATCTATG
* *
13257047 AAAATAAAAGCCTTTATGGAAATCTATG
1 -AAATGAAAGCCTTTATGGCAATCTATG
* *
13257075 AAATGGAAGCCTTTGTGGCAATCTATG
1 AAATGAAAGCCTTTATGGCAATCTATG
* *
13257102 AAAT-ATAAGCCTTTGTGGTAATCTATG
1 AAATGA-AAGCCTTTATGGCAATCTATG
* *
13257129 GAATGGAATGCCTT
1 AAAT-GAAAGCCTT
13257143 CATGACGCAT
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
27 50 0.62
28 29 0.36
29 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (27 bp):
AAATGAAAGCCTTTATGGCAATCTATG
Found at i:13257134 original size:54 final size:55
Alignment explanation
Indices: 13257020--13257142 Score: 160
Period size: 54 Copynumber: 2.2 Consensus size: 55
13257010 ACACACCAGA
*
13257020 AAATGAAAGCCTTTAGGGCAACCTATGAAAATAAAAGCCTTTATGGAAATCTATG
1 AAATGGAAGCCTTTAGGGCAACCTATGAAAATAAAAGCCTTTATGGAAATCTATG
* * * *
13257075 AAATGGAAGCCTTT-GTGGCAATCTATG-AAATATAAGCCTTTGTGGTAATCTATG
1 AAATGGAAGCCTTTAG-GGCAACCTATGAAAATAAAAGCCTTTATGGAAATCTATG
*
13257129 GAATGGAATGCCTT
1 AAATGGAA-GCCTT
13257143 CATGACGCAT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
54 32 0.53
55 28 0.47
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (55 bp):
AAATGGAAGCCTTTAGGGCAACCTATGAAAATAAAAGCCTTTATGGAAATCTATG
Found at i:13258860 original size:53 final size:53
Alignment explanation
Indices: 13258780--13259150 Score: 363
Period size: 53 Copynumber: 7.0 Consensus size: 53
13258770 GAAAGAGAAA
* * * * *
13258780 AATGGTAAGTATGACAAAACCTAGAAGAATTATATGTACGACTAACTATGAAG
1 AATGGTAAATATGACAAACCCTAGAAGAATGATATGTATGACTAACTTTGAAG
* * * *
13258833 AATGGTAAATATTACAAACCCTAGAAGAATGATATGTATGGCTAAATTTGAAA
1 AATGGTAAATATGACAAACCCTAGAAGAATGATATGTATGACTAACTTTGAAG
* * *
13258886 AATGGTAAATACGAAAAACCCGAGAAGAATGATATGTATAGA-TAACTTTGAAG
1 AATGGTAAATATGACAAACCCTAGAAGAATGATATGTAT-GACTAACTTTGAAG
* * * *
13258939 AATGGTAAATATGGA-AAACCCTAAAAGAATGATATGTATGGCTAACTCTGAGG
1 AATGGTAAATAT-GACAAACCCTAGAAGAATGATATGTATGACTAACTTTGAAG
* * * * * * * *
13258992 AACGGTAAGTATGGCAAACCCTGGAAAAATAATATGTATGGCTAACTTTTAAG
1 AATGGTAAATATGACAAACCCTAGAAGAATGATATGTATGACTAACTTTGAAG
* * * * * *
13259045 AATAGTAAATAAGGCAAACCCTGGAAGAATGATATGTAT-ACCTAACTCTGAGG
1 AATGGTAAATATGACAAACCCTAGAAGAATGATATGTATGA-CTAACTTTGAAG
* * * * *
13259098 AATGGTAAGTATGGCAAACCCT-GAAGGAATGATATGTGTGACTAGCTCTGAAG
1 AATGGTAAATATGACAAACCCTAGAA-GAATGATATGTATGACTAACTTTGAAG
13259151 GATTGGTAGA
Statistics
Matches: 263, Mismatches: 48, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
52 5 0.02
53 254 0.97
54 4 0.02
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (53 bp):
AATGGTAAATATGACAAACCCTAGAAGAATGATATGTATGACTAACTTTGAAG
Found at i:13259072 original size:159 final size:159
Alignment explanation
Indices: 13258780--13259150 Score: 431
Period size: 159 Copynumber: 2.3 Consensus size: 159
13258770 GAAAGAGAAA
* * * * * *
13258780 AATGGTAAGTAT-GACAAAACCTAGAAGAATTATATGTACGACTAACTATGAAGAATGGTAAATA
1 AATGGTAAGTATGGA-AAACCCTAAAAGAATGATATGTATGACTAACTCTGAAGAACGGTAAATA
* * * * *
13258844 TTACAAACCCTAGAAGAATGATATGTATGGCTAAATTTGAAAAATGGTAAATACGAAAAACCCGA
65 TGACAAACCCTAGAAAAATAATATGTATGGCTAAATTTGAAAAATAGTAAATAAGAAAAACCCGA
* *
13258909 GAAGAATGATATGTATAGATAACTTTGAAG
130 GAAGAATGATATGTATACATAACTCTGAAG
* * * *
13258939 AATGGTAAATATGGAAAACCCTAAAAGAATGATATGTATGGCTAACTCTGAGGAACGGTAAGTAT
1 AATGGTAAGTATGGAAAACCCTAAAAGAATGATATGTATGACTAACTCTGAAGAACGGTAAATAT
* * * * * **
13259004 GGCAAACCCTGGAAAAATAATATGTATGGCTAACTTTTAAGAATAGTAAATAAGGCAAACCCTG-
66 GACAAACCCTAGAAAAATAATATGTATGGCTAAATTTGAAAAATAGTAAATAAGAAAAACCC-GA
* *
13259068 GAAGAATGATATGTATACCTAACTCTGAGG
130 GAAGAATGATATGTATACATAACTCTGAAG
* * * * *
13259098 AATGGTAAGTATGGCAAACCCTGAAGGAATGATATGTGTGACTAGCTCTGAAG
1 AATGGTAAGTATGGAAAACCCTAAAAGAATGATATGTATGACTAACTCTGAAG
13259151 GATTGGTAGA
Statistics
Matches: 176, Mismatches: 34, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
159 173 0.98
160 3 0.02
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (159 bp):
AATGGTAAGTATGGAAAACCCTAAAAGAATGATATGTATGACTAACTCTGAAGAACGGTAAATAT
GACAAACCCTAGAAAAATAATATGTATGGCTAAATTTGAAAAATAGTAAATAAGAAAAACCCGAG
AAGAATGATATGTATACATAACTCTGAAG
Found at i:13260876 original size:10 final size:10
Alignment explanation
Indices: 13260863--13260898 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
13260853 TAATTTTTAA
13260863 TTCTTTTATT
1 TTCTTTTATT
13260873 TTC-TTTATT
1 TTCTTTTATT
*
13260882 TTCTTTTACT
1 TTCTTTTATT
13260892 TTCTTTT
1 TTCTTTT
13260899 TCTATATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (10 bp):
TTCTTTTATT
Found at i:13261182 original size:15 final size:16
Alignment explanation
Indices: 13261157--13261186 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13261147 ATTGAATCAG
13261157 TTTTCTTTATTTTTAA
1 TTTTCTTTATTTTTAA
13261173 TTTT-TTTATTTTTA
1 TTTTCTTTATTTTTA
13261187 TGTATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTTTATTTTTAA
Found at i:13267503 original size:917 final size:917
Alignment explanation
Indices: 13264973--13267726 Score: 5179
Period size: 916 Copynumber: 3.0 Consensus size: 917
13264963 CTATAAGCTC
*
13264973 TGTCAAATTCTGATCACTTCCATCATATTCCAGTAACGTTGCTAACTTTGAAGTTAGAACCTCTG
1 TGTCAAATTCTCATCACTTCCATCATATTCCAGTAACGTTGCTAACTTTGAAGTTAGAACCTCTG
*
13265038 TTTTCATTTTTTTACTCCATCGAATCTGACGTGCCCAGCTTTCTAAACCTCTTTTCAGATTTTCC
66 TTTTCATTTTTTTACTCCATCAAATCTGACGTGCCCAGCTTTCTAAACCTCTTTTCAGATTTTCC
13265103 AATTTACTCAAAAGATCTCTTATGGAATTTTCCCAAAGACGCCTAGCTTTCTCAAAAAATGTTTC
131 AATTTACTCAAAAGATCTCTTATGGAATTTTCCCAAAGACGCCTAGCTTTCTCAAAAAATGTTTC
13265168 CTCCAAAACCCAAAACCCACCTGGCTTCAAACTTAAAATTTTTATTAAGCAGCCTTCTAGCTCCA
196 CTCCAAAACCCAAAACCCACCTGGCTTCAAACTTAAAATTTTTATTAAGCAGCCTTCTAGCTCCA
*
13265233 TATTCTGTATTAATAAGAAGTGGACAATGTAATATCCTGAATTAGGGCTTAATCGAAATAGTGGT
261 TATTCTGTATTAATAAGAAGTGGACAATGTAATATCCTGAATTAGGGCTTAATCGGAATAGTGGT
13265298 TTCGTGACCACAAATCTGAGATAGAAATAATAATTTTATAATTATTTTGATGATTATGATATGAT
326 TTCGTGACCACAAATCTGAGATAGAAATAATAATTTTATAATTATTTTGATGATTATGATATGAT
*
13265363 TGCATGATTGTGTGAAAATTTCGTGAAGAAATTTTATGCCTAAAATGCTTAAATTGAAAGTAGGG
391 TGCATGATTGTGTGAAAATTTCGTGATGAAATTTTATGCCTAAAATGCTTAAATTGAAAGTAGGG
* * *
13265428 ACTAAATCGAATAAGTTGTAAAACTTACATTCTAGAAATTTTTAGTATAAAATTGTTTTAGAATA
456 ACTAAATCGAATAAGTTGTAAAACTTGCATTCTAGAAGTTTTTAGTATAAAATTGTTTTGGAATA
13265493 TTAATGAGGATTAAAATAGAAATTTGACCAATTTTAAGTTCATGGACAAAATTAGAACATGGAAA
521 TTAATGAGGATTAAAATAGAAATTTGACCAATTTTAAGTTCATGGACAAAATTAGAACATGGAAA
*
13265558 GAATTTTTGGAAAGTTTAGTAGTAAGGGTATTTTGGTCATTTAATTATTAAAATGAATTAAAAAT
586 GAATTTTTGGAAAGTTTAGTAGTAAGGGTATTTTGGTCATTTAGTTATTAAAATGAATTAAAAAT
* *
13265623 AAAATTAAAAGTTAATTTTTGTCCATCTTCTTCATTAGGCCGAAATTTTAAGGGTTTTCTATAGC
651 AAAATTAAAAGCTAATTTTTGTCCATCTTCTTCATTAGGCCGAAATTTCAAGGGTTTTCTATAGC
* *
13265688 TAGGGTTTGTTTTAAGCTTCTAAGCTTCATAATAAGTGATTTCAAGCCCCGTTTTTAATGTTCTT
716 TAGGGTTTGTTTCAAGCTTCTAAGCTTCATAATAAGTGATTTCAAGCCCCATTTTTAATGTTCTT
*
13265753 TACGTTTTCAGAATCCCGGTAGTTCAATTAAGCTTATGTTAGCAATAATTCAACCTAGGGTTTAT
781 TACGTTTTCAGAATCCCGGTAGTTCGATTAAGCTTATGTTAGCAATAATTCAACCTAGGGTTTAT
*
13265818 ATTTGAAAAAATACTCATAGGTGAAATTTGTGTATTATGATGTTTTATGATAGAATATGAGGTTT
846 ATTTGAAAAAATACCCATAGGTGAAATTTGTGTATTATGATGTTTTATGATAGAATATGAGGTTT
13265883 TAAATTA
911 TAAATTA
*
13265890 TGTCAAATTCTCATCACTTCCATCATATTCCAGTAATGTTGCTAACTTTGAAGTTAGAACCTCTG
1 TGTCAAATTCTCATCACTTCCATCATATTCCAGTAACGTTGCTAACTTTGAAGTTAGAACCTCTG
*
13265955 TTTTCATTTTTTTACTCCATCAAATCTGACGTGCCCAGTTTTCTAAACCTCTTTTCAGATTTTCC
66 TTTTCATTTTTTTACTCCATCAAATCTGACGTGCCCAGCTTTCTAAACCTCTTTTCAGATTTTCC
13266020 AATTTACTCAAAAGATCTCTTATGGAATTTTCCCAAAGACGCCTAGCTTTCTCAAAAAATGTTTC
131 AATTTACTCAAAAGATCTCTTATGGAATTTTCCCAAAGACGCCTAGCTTTCTCAAAAAATGTTTC
*
13266085 CTCCAAAACCCAAAACCCACCTGGCTTC-AACTTAAAATTTTTATTGAGCAGCCTTCTAGCTCCA
196 CTCCAAAACCCAAAACCCACCTGGCTTCAAACTTAAAATTTTTATTAAGCAGCCTTCTAGCTCCA
13266149 TATTCTGTATTAATAAGAAGTGGACAATGTAATATCCTGAATTAGGGCTTAATCGGAATAGTGGT
261 TATTCTGTATTAATAAGAAGTGGACAATGTAATATCCTGAATTAGGGCTTAATCGGAATAGTGGT
13266214 TTCGTGACCACAAATCTGAGATAGAAATAATAATTTTATAATTATTTTGATGATTATGATATGAT
326 TTCGTGACCACAAATCTGAGATAGAAATAATAATTTTATAATTATTTTGATGATTATGATATGAT
*
13266279 TGCATGATTGTGTGAAAATTTCGTGATGAAATTTTATGCCTAAAATGCTTAAATTGAAAGTAAGG
391 TGCATGATTGTGTGAAAATTTCGTGATGAAATTTTATGCCTAAAATGCTTAAATTGAAAGTAGGG
13266344 ACTAAATCGAATAAGTTGTAAAACTTGCATTCTAGAAGTTTTTAGTATAAAATTGTTTTGGAATA
456 ACTAAATCGAATAAGTTGTAAAACTTGCATTCTAGAAGTTTTTAGTATAAAATTGTTTTGGAATA
13266409 TTAATGAGGATTAAAATAGAAATTTGACCAATTTTAAGTTCATGGACAAAATTAGAACATGGAAA
521 TTAATGAGGATTAAAATAGAAATTTGACCAATTTTAAGTTCATGGACAAAATTAGAACATGGAAA
13266474 GAATTTTTGGAAAGTTTAGTAGTAAGGGTATTTTGGTCATTTAGTTATTAAAATGAATTAAAAAT
586 GAATTTTTGGAAAGTTTAGTAGTAAGGGTATTTTGGTCATTTAGTTATTAAAATGAATTAAAAAT
13266539 AAAATTAAAAGCTAATTTTTGTCCATCTTCTTCATTAGGCCGAAATTTCAAGGGTTTTCTATAGC
651 AAAATTAAAAGCTAATTTTTGTCCATCTTCTTCATTAGGCCGAAATTTCAAGGGTTTTCTATAGC
*
13266604 TAGGGTTTGTTTCAAGCTTCTAAGTTTCATAATAAGTGATTTCAAGCCCCATTTTTAATGTTCTT
716 TAGGGTTTGTTTCAAGCTTCTAAGCTTCATAATAAGTGATTTCAAGCCCCATTTTTAATGTTCTT
13266669 TACGTTTTCAGAATCCCGGTAGTTCGATTAAGCTTATGTTAGCAATAATTCAACCTAGGGTTTAT
781 TACGTTTTCAGAATCCCGGTAGTTCGATTAAGCTTATGTTAGCAATAATTCAACCTAGGGTTTAT
13266734 ATTTGAAAAAATACCCATAGGTGAAATTTGTGTATTATGATGTTTTATGATAGAATATGAGGTTT
846 ATTTGAAAAAATACCCATAGGTGAAATTTGTGTATTATGATGTTTTATGATAGAATATGAGGTTT
13266799 TAAATTA
911 TAAATTA
*
13266806 TGTCAAATTCTCATCACTTCCATCATATTCTAGTAACGTTGCTAACTTTGAAGTTAGAACCTCTG
1 TGTCAAATTCTCATCACTTCCATCATATTCCAGTAACGTTGCTAACTTTGAAGTTAGAACCTCTG
13266871 TTTTCATTTTTTTACTCCATCAAATCTGACGTGCCCAGCTTTCTAAACCTCTTTTCAGATTTTCC
66 TTTTCATTTTTTTACTCCATCAAATCTGACGTGCCCAGCTTTCTAAACCTCTTTTCAGATTTTCC
*
13266936 AATTTACTCAAAAGATCTCCTATGGAATTTTCCCAAAGACGCCTAGCTTTCTCAAAAAATGTTTC
131 AATTTACTCAAAAGATCTCTTATGGAATTTTCCCAAAGACGCCTAGCTTTCTCAAAAAATGTTTC
13267001 CTCCAAAACCCAAAACCCACCTGGCTTCAAACTTAAAATTTTTATTAAGCAGCCTTCTAGCTCCA
196 CTCCAAAACCCAAAACCCACCTGGCTTCAAACTTAAAATTTTTATTAAGCAGCCTTCTAGCTCCA
13267066 TATTCTGTATTAATAAGAAGTGGACAATGTAATATCCTGAATTAGGGCTTAATCGGAATAGTGGT
261 TATTCTGTATTAATAAGAAGTGGACAATGTAATATCCTGAATTAGGGCTTAATCGGAATAGTGGT
* * *
13267131 TTTGTAATCACAAATCTGAGATAGAAATAATAATTTTATAATTATTTTGATGATTATGATATGAT
326 TTCGTGACCACAAATCTGAGATAGAAATAATAATTTTATAATTATTTTGATGATTATGATATGAT
*
13267196 TGCATGATTGTGTGAAAATTTCGTGATGAAATTTTATGCCTAAAATACTTAAATTGAAAGTAGGG
391 TGCATGATTGTGTGAAAATTTCGTGATGAAATTTTATGCCTAAAATGCTTAAATTGAAAGTAGGG
13267261 ACTAAATCGAATAAGTTGTAAAACTTGCATTCTAGAAGTTTTTAGTATAAAATTGTTTTGGAATA
456 ACTAAATCGAATAAGTTGTAAAACTTGCATTCTAGAAGTTTTTAGTATAAAATTGTTTTGGAATA
*
13267326 TTAATGAGG-TCTAAAATAGAAATTTGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGAA
521 TTAATGAGGAT-TAAAATAGAAATTTGACCAATTTTAAGTTCATGGACAAAATTAGAACATGGAA
13267390 AGAATTTTTGGAAAGTTTAGTAGTAAGGGTATTTTGGTCATTTAGTTATTAAAATGAATTAAAAA
585 AGAATTTTTGGAAAGTTTAGTAGTAAGGGTATTTTGGTCATTTAGTTATTAAAATGAATTAAAAA
* * *
13267455 CAAAATGAAAAGCTAATTTTTGTCCATCTTCTTCATTAGGCTGAAATTTCAAGGGTTTTCTATAG
650 TAAAATTAAAAGCTAATTTTTGTCCATCTTCTTCATTAGGCCGAAATTTCAAGGGTTTTCTATAG
* * *
13267520 CTAGGGTTTGTTTCAAGCTTCTAAGCTTCATAATAAGTAATTCCAAGCCCCATTTTTAATATTCT
715 CTAGGGTTTGTTTCAAGCTTCTAAGCTTCATAATAAGTGATTTCAAGCCCCATTTTTAATGTTCT
*
13267585 TTACGTTTTTAGAATCCCGGTAGTTCGATTAAGCTTATGTTAGCAATAATTCAACCTAGGGTTTA
780 TTACGTTTTCAGAATCCCGGTAGTTCGATTAAGCTTATGTTAGCAATAATTCAACCTAGGGTTTA
13267650 TATTTGAAAAAAATACCCATAGGTGAAATTTGTGTATTATGATGTTTTATGATAGAATATGAGGT
845 TATTTG-AAAAAATACCCATAGGTGAAATTTGTGTATTATGATGTTTTATGATAGAATATGAGGT
13267715 TTTAAATTA
909 TTTAAATTA
13267724 TGT
1 TGT
13267727 TAGACAACTT
Statistics
Matches: 1796, Mismatches: 38, Indels: 5
0.98 0.02 0.00
Matches are distributed among these distances:
916 898 0.50
917 828 0.46
918 70 0.04
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.37
Consensus pattern (917 bp):
TGTCAAATTCTCATCACTTCCATCATATTCCAGTAACGTTGCTAACTTTGAAGTTAGAACCTCTG
TTTTCATTTTTTTACTCCATCAAATCTGACGTGCCCAGCTTTCTAAACCTCTTTTCAGATTTTCC
AATTTACTCAAAAGATCTCTTATGGAATTTTCCCAAAGACGCCTAGCTTTCTCAAAAAATGTTTC
CTCCAAAACCCAAAACCCACCTGGCTTCAAACTTAAAATTTTTATTAAGCAGCCTTCTAGCTCCA
TATTCTGTATTAATAAGAAGTGGACAATGTAATATCCTGAATTAGGGCTTAATCGGAATAGTGGT
TTCGTGACCACAAATCTGAGATAGAAATAATAATTTTATAATTATTTTGATGATTATGATATGAT
TGCATGATTGTGTGAAAATTTCGTGATGAAATTTTATGCCTAAAATGCTTAAATTGAAAGTAGGG
ACTAAATCGAATAAGTTGTAAAACTTGCATTCTAGAAGTTTTTAGTATAAAATTGTTTTGGAATA
TTAATGAGGATTAAAATAGAAATTTGACCAATTTTAAGTTCATGGACAAAATTAGAACATGGAAA
GAATTTTTGGAAAGTTTAGTAGTAAGGGTATTTTGGTCATTTAGTTATTAAAATGAATTAAAAAT
AAAATTAAAAGCTAATTTTTGTCCATCTTCTTCATTAGGCCGAAATTTCAAGGGTTTTCTATAGC
TAGGGTTTGTTTCAAGCTTCTAAGCTTCATAATAAGTGATTTCAAGCCCCATTTTTAATGTTCTT
TACGTTTTCAGAATCCCGGTAGTTCGATTAAGCTTATGTTAGCAATAATTCAACCTAGGGTTTAT
ATTTGAAAAAATACCCATAGGTGAAATTTGTGTATTATGATGTTTTATGATAGAATATGAGGTTT
TAAATTA
Found at i:13268437 original size:46 final size:45
Alignment explanation
Indices: 13268381--13268553 Score: 154
Period size: 46 Copynumber: 3.8 Consensus size: 45
13268371 TGGTTGAGCA
13268381 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATTGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-TGATGCGAATG
* * * * * *
13268427 TCTGAACTCGTTGATTTGAGTCCGAGTTC-GTGA-AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAA-T--G
* * *
13268472 CATCCGACCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATG
* * *
13268520 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
13268554 GGGGCGGGTT
Statistics
Matches: 99, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 57 0.58
47 25 0.25
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAATG
Found at i:13268539 original size:93 final size:93
Alignment explanation
Indices: 13268378--13268548 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
13268368 GGATGGTTGA
* * * * *
13268378 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATTGATGCGAATGTCTGAACTCGTTGATT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13268443 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
13268471 GCATCCGACCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
13268536 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
13268549 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:13283412 original size:24 final size:23
Alignment explanation
Indices: 13283371--13283416 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
13283361 ACCCAAGCCC
13283371 ATTTTAATATTTAATATTTAATA
1 ATTTTAATATTTAATATTTAATA
**
13283394 ATTTTATATATTTTTTATTTAAT
1 ATTTTA-ATATTTAATATTTAAT
13283417 GAAATGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
ATTTTAATATTTAATATTTAATA
Found at i:13287322 original size:20 final size:19
Alignment explanation
Indices: 13287294--13287359 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
13287284 AGGTTTAGAG
*
13287294 TTTTGAGTTTTTTTTATAT
1 TTTTTAGTTTTTTTTATAT
13287313 TTTTTAAGTTTTTTTAATATAT
1 TTTTT-AGTTTTTTT--TATAT
* *
13287335 TATCTAGTTTTTTTTATGAT
1 TTTTTAGTTTTTTTTAT-AT
13287355 TTTTT
1 TTTTT
13287360 GAGATGTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 7 0.18
20 14 0.37
21 9 0.24
22 8 0.21
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.71
Consensus pattern (19 bp):
TTTTTAGTTTTTTTTATAT
Found at i:13293203 original size:7 final size:7
Alignment explanation
Indices: 13293191--13293216 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13293181 GGTATTTTGG
13293191 GAAAAAA
1 GAAAAAA
13293198 GAAAAAA
1 GAAAAAA
13293205 GAAAAAA
1 GAAAAAA
13293212 GAAAA
1 GAAAA
13293217 TATTTTAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:13296196 original size:54 final size:54
Alignment explanation
Indices: 13296117--13296227 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
13296107 ACACTAAAGA
13296117 AAGAATATTTTTCACGGTTGGAATAAGTGATTAATCTTTTTTCTATTCCAAACT
1 AAGAATATTTTTCACGGTTGGAATAAGTGATTAATCTTTTTTCTATTCCAAACT
13296171 AAGAATATTTTTCACGGTTGGAATAAGTGATTAATCTTTTTTCTATTCCAAACT
1 AAGAATATTTTTCACGGTTGGAATAAGTGATTAATCTTTTTTCTATTCCAAACT
13296225 AAG
1 AAG
13296228 TCTATATATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (54 bp):
AAGAATATTTTTCACGGTTGGAATAAGTGATTAATCTTTTTTCTATTCCAAACT
Found at i:13296228 original size:30 final size:30
Alignment explanation
Indices: 13296140--13296228 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 30
13296130 ACGGTTGGAA
13296140 TAAGTGATTAATCTTTTTTCTATTCCAAAC
1 TAAGTGATTAATCTTTTTTCTATTCCAAAC
* ** ** **
13296170 TAA--GAAT-AT-TTTTCACGGTT-GGAA-
1 TAAGTGATTAATCTTTTTTCTATTCCAAAC
13296194 TAAGTGATTAATCTTTTTTCTATTCCAAAC
1 TAAGTGATTAATCTTTTTTCTATTCCAAAC
13296224 TAAGT
1 TAAGT
13296229 CTATATATAA
Statistics
Matches: 39, Mismatches: 14, Indels: 12
0.60 0.22 0.18
Matches are distributed among these distances:
24 3 0.08
25 2 0.05
26 10 0.26
27 4 0.10
28 10 0.26
29 2 0.05
30 8 0.21
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (30 bp):
TAAGTGATTAATCTTTTTTCTATTCCAAAC
Found at i:13300845 original size:30 final size:29
Alignment explanation
Indices: 13300809--13300885 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
13300799 TAGTTACGGA
*
13300809 TGACTGATTTATTATTTTTCTAAAGTTTAG
1 TGACTGATTTATTATTTTTC-AAAATTTAG
* * *
13300839 TGACTGAGTTATAACTTTTCAAAATTTAG
1 TGACTGATTTATTATTTTTCAAAATTTAG
*
13300868 TAACT-ATTTTATTATTTT
1 TGACTGA-TTTATTATTTT
13300886 AATTAAATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
28 1 0.03
29 20 0.53
30 17 0.45
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.52
Consensus pattern (29 bp):
TGACTGATTTATTATTTTTCAAAATTTAG
Found at i:13302259 original size:15 final size:15
Alignment explanation
Indices: 13302239--13302290 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
13302229 ACTACAAAAC
13302239 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
13302254 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
13302273 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
13302288 ATT
1 ATT
13302291 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:13302368 original size:18 final size:18
Alignment explanation
Indices: 13302330--13302365 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
13302320 TAATATTATT
*
13302330 TAAAATTAATTATTAAAA
1 TAAAATTAAATATTAAAA
13302348 TAAAATTAAAATATTAAA
1 TAAAATT-AAATATTAAA
13302366 TAATTTATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAATTAAATATTAAAA
Found at i:13303622 original size:21 final size:21
Alignment explanation
Indices: 13303573--13303631 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
13303563 ATAATAAATT
*
13303573 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
13303593 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
13303615 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
13303632 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:13303708 original size:15 final size:16
Alignment explanation
Indices: 13303678--13303710 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13303668 AAATGGTTAT
13303678 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
13303695 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
13303710 A
1 A
13303711 ATATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:13307089 original size:20 final size:20
Alignment explanation
Indices: 13307060--13307129 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
13307050 TTGCACCTCG
* *
13307060 GTGCCTCTGATAGTACATTA
1 GTGCCCCTGATAGCACATTA
* *
13307080 GTGCCCCTGA-ATGCACTTTG
1 GTGCCCCTGATA-GCACATTA
*
13307100 GTGCCCCTGATAGCACATTT
1 GTGCCCCTGATAGCACATTA
13307120 GTGCCCCTGA
1 GTGCCCCTGA
13307130 CTGCGCTTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
19 1 0.02
20 40 0.95
21 1 0.02
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.30
Consensus pattern (20 bp):
GTGCCCCTGATAGCACATTA
Found at i:13307145 original size:40 final size:40
Alignment explanation
Indices: 13307051--13307148 Score: 106
Period size: 40 Copynumber: 2.5 Consensus size: 40
13307041 GTGATTTCAT
* * * *
13307051 TGCACCTCGGTGCCTCTGATAGTACATTAGTGCCCCTGAA
1 TGCACTTCAGTGCCCCTGATAGCACATTAGTGCCCCTGAA
** * *
13307091 TGCACTTTGGTGCCCCTGATAGCACATTTGTGCCCCTGAC
1 TGCACTTCAGTGCCCCTGATAGCACATTAGTGCCCCTGAA
* *
13307131 TGCGCTTCATTGCCCCTG
1 TGCACTTCAGTGCCCCTG
13307149 TTTTGCATCT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.15, C:0.33, G:0.22, T:0.30
Consensus pattern (40 bp):
TGCACTTCAGTGCCCCTGATAGCACATTAGTGCCCCTGAA
Found at i:13309145 original size:12 final size:12
Alignment explanation
Indices: 13309128--13309160 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
13309118 CGGCCCGCCC
13309128 ATATTAATTTTT
1 ATATTAATTTTT
13309140 ATATT-ATTTTT
1 ATATTAATTTTT
13309151 ATA-TAATTTT
1 ATATTAATTTT
13309161 AAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:13309185 original size:18 final size:18
Alignment explanation
Indices: 13309162--13309201 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
13309152 TATAATTTTA
*
13309162 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
13309180 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
13309198 AAAA
1 AAAA
13309202 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:13317966 original size:5 final size:5
Alignment explanation
Indices: 13317956--13317991 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
13317946 CTTGTACGGT
13317956 TAAAA TAAAA TAAAA TAAAA TAAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA TAAAA
13317992 AACAATCGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:13317983 original size:11 final size:11
Alignment explanation
Indices: 13317957--13317992 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
13317947 TTGTACGGTT
13317957 AAAATAAAAT-
1 AAAATAAAATA
13317967 AAAATAAAATA
1 AAAATAAAATA
13317978 AAAATAAAATA
1 AAAATAAAATA
13317989 AAAA
1 AAAA
13317993 ACAATCGTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:13326819 original size:15 final size:15
Alignment explanation
Indices: 13326799--13326829 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13326789 AAAGCAATAA
13326799 AAATAAAAAGTTAAT
1 AAATAAAAAGTTAAT
13326814 AAATAAAAAGTTAAT
1 AAATAAAAAGTTAAT
13326829 A
1 A
13326830 CTATCAGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AAATAAAAAGTTAAT
Found at i:13333455 original size:24 final size:24
Alignment explanation
Indices: 13333427--13333486 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
13333417 AGGAAGGCGA
*
13333427 TGGAGATGAAGATAAAG-CCAATGG
1 TGGAGATGAAGAT-AAGTACAATGG
*
13333451 TGGAGATGAAGATGAGTACAATGG
1 TGGAGATGAAGATAAGTACAATGG
*
13333475 TGGAGGTGAAGA
1 TGGAGATGAAGA
13333487 CGAAGACGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 2 0.06
24 30 0.94
ACGTcount: A:0.38, C:0.05, G:0.38, T:0.18
Consensus pattern (24 bp):
TGGAGATGAAGATAAGTACAATGG
Found at i:13341912 original size:20 final size:19
Alignment explanation
Indices: 13341885--13341926 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
13341875 CCCTTCAAAT
13341885 TTTCTTACTTT-CATTTGCA
1 TTTCTTACTTTCCA-TTGCA
13341904 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
13341924 TTT
1 TTT
13341927 ACTATCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:13342605 original size:25 final size:25
Alignment explanation
Indices: 13342571--13342790 Score: 225
Period size: 25 Copynumber: 8.8 Consensus size: 25
13342561 TCCTATACAT
*
13342571 GTATGCTCACACGAGTTGTGAATCG
1 GTATGCTCACACGAGTTGTGAATCA
*
13342596 GTATGCTCACATGA-TCTGTGAATCA
1 GTATGCTCACACGAGT-TGTGAATCA
* * *
13342621 GTATGCTCACACGAGCTATAAATCA
1 GTATGCTCACACGAGTTGTGAATCA
13342646 GTATGCTCACACGA-TCTGTGAATC-
1 GTATGCTCACACGAGT-TGTGAATCA
*
13342670 GATATGCTCACACGA-TCTGTGAATCG
1 G-TATGCTCACACGAGT-TGTGAATCA
**
13342696 GTATGCTCACACGA-TCTGTGAATTG
1 GTATGCTCACACGAGT-TGTGAATCA
* * * *
13342721 GTATGCTCACACAAGCTATAAATCA
1 GTATGCTCACACGAGTTGTGAATCA
* *
13342746 GTATGCTCACATGAGCTGTGAATCA
1 GTATGCTCACACGAGTTGTGAATCA
*
13342771 GTATGCTCACACGAGCTGTG
1 GTATGCTCACACGAGTTGTG
13342791 GGTCGAAACG
Statistics
Matches: 168, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
24 2 0.01
25 165 0.98
26 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
GTATGCTCACACGAGTTGTGAATCA
Found at i:13342650 original size:50 final size:50
Alignment explanation
Indices: 13342571--13342787 Score: 292
Period size: 50 Copynumber: 4.3 Consensus size: 50
13342561 TCCTATACAT
* * * * *
13342571 GTATGCTCACACGAGTTGTGAATCGGTATGCTCACATGATCTGTGAATCA
1 GTATGCTCACACGAGCTATAAATCAGTATGCTCACACGATCTGTGAATCA
13342621 GTATGCTCACACGAGCTATAAATCAGTATGCTCACACGATCTGTGAATC-
1 GTATGCTCACACGAGCTATAAATCAGTATGCTCACACGATCTGTGAATCA
* * * * **
13342670 GATATGCTCACACGATCTGTGAATCGGTATGCTCACACGATCTGTGAATTG
1 G-TATGCTCACACGAGCTATAAATCAGTATGCTCACACGATCTGTGAATCA
* * *
13342721 GTATGCTCACACAAGCTATAAATCAGTATGCTCACATGAGCTGTGAATCA
1 GTATGCTCACACGAGCTATAAATCAGTATGCTCACACGATCTGTGAATCA
13342771 GTATGCTCACACGAGCT
1 GTATGCTCACACGAGCT
13342788 GTGGGTCGAA
Statistics
Matches: 145, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 1 0.01
50 143 0.99
51 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (50 bp):
GTATGCTCACACGAGCTATAAATCAGTATGCTCACACGATCTGTGAATCA
Found at i:13342790 original size:75 final size:74
Alignment explanation
Indices: 13342571--13342790 Score: 296
Period size: 75 Copynumber: 2.9 Consensus size: 74
13342561 TCCTATACAT
*
13342571 GTATGCTCACACGAGTTGTGAATCGGTATGCTCACATGATCTGTGAATCAGTATGCTCACACGAG
1 GTATGCTCACACGAGCTGTGAATC-GTATGCTCACATGATCTGTGAATCAGTATGCTCACACGAG
* *
13342636 CTATAAATCA
65 CTGTGAATCA
* * * *
13342646 GTATGCTCACACGATCTGTGAATCGATATGCTCACACGATCTGTGAATCGGTATGCTCACACGAT
1 GTATGCTCACACGAGCTGTGAATCG-TATGCTCACATGATCTGTGAATCAGTATGCTCACACGAG
**
13342711 CTGTGAATTG
65 CTGTGAATCA
* * * *
13342721 GTATGCTCACACAAGCTATAAATCAGTATGCTCACATGAGCTGTGAATCAGTATGCTCACACGAG
1 GTATGCTCACACGAGCTGTGAATC-GTATGCTCACATGATCTGTGAATCAGTATGCTCACACGAG
13342786 CTGTG
65 CTGTG
13342791 GGTCGAAACG
Statistics
Matches: 126, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
74 1 0.01
75 124 0.98
76 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (74 bp):
GTATGCTCACACGAGCTGTGAATCGTATGCTCACATGATCTGTGAATCAGTATGCTCACACGAGC
TGTGAATCA
Found at i:13345953 original size:22 final size:24
Alignment explanation
Indices: 13345928--13345971 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
13345918 CTATCTAATT
13345928 ATCAAATC-TCT-AAGATTACAAA
1 ATCAAATCTTCTAAAGATTACAAA
*
13345950 ATCATATCTTCTAAAGATTACA
1 ATCAAATCTTCTAAAGATTACA
13345972 TTTAATGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 3 0.16
24 9 0.47
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (24 bp):
ATCAAATCTTCTAAAGATTACAAA
Found at i:13352609 original size:16 final size:17
Alignment explanation
Indices: 13352588--13352619 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13352578 AATTTTATCA
13352588 TTATAAATT-TAAAATT
1 TTATAAATTATAAAATT
13352604 TTATAAATTATAAAAT
1 TTATAAATTATAAAAT
13352620 GACCTAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATAAATTATAAAATT
Found at i:13362375 original size:22 final size:22
Alignment explanation
Indices: 13362332--13362384 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
13362322 GAAATAGAGG
*
13362332 ATATCAGATACAATTGCAAAAC
1 ATATCAGATACAATTACAAAAC
*
13362354 ATATCAGATACAGA-TACGAAAC
1 ATATCAGATACA-ATTACAAAAC
*
13362376 AGATCAGAT
1 ATATCAGAT
13362385 GTAGATGCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (22 bp):
ATATCAGATACAATTACAAAAC
Found at i:13363928 original size:540 final size:541
Alignment explanation
Indices: 13362885--13364474 Score: 2724
Period size: 539 Copynumber: 2.9 Consensus size: 541
13362875 CCACGTTCTA
*
13362885 GATATGC-AAAAAATTTGGATGCATGAATGAAATTATGCATGGTTGTATGATATCCAAAAGGAAC
1 GATATGCAAAAAAATTTGGATGCACGAATGAAATTATGCATGGTTGTATGATATCCAAAAGGAAC
* *
13362949 AAAGGGTGGATTATTCTACAATTCAAAAGATAATACGATTAAAGTTTTTACTCATGTTGCTTTTC
66 AAAGGGTGGATTATTCTACAATCCAAAAGATAATACGATTAAAGTTTTTACTCATGCTGCTTTTC
*
13363014 TTCAAGAAAACTATACGAATAACTTTAAACCTCGAAGTAAAATGGTACTCGAGGAACTTTCAGGA
131 TTCAAGAAAACTATATGAATAACTTTAAACCTCGAAGTAAAATGGTACTCGAGGAACTTTCAGGA
* *
13363079 GTTGTAGAATAATCACCAAGTTCAATTCTCAAGAAAGTTGTGGAAAGACCTACAAACAATCAACA
196 GTTGTAGAATAATCACCAAGTTCAATTCTCGAGAAAGTTGTGGAAAGACCTACAAACGATCAACA
* * *
13363144 ATATAGGACAATTTGTTATAGTAGGAGAGTTTCTAAGAAATTAGACTTCTTCATCTATGATAGTA
261 ATATAGGGCAATTCGTTATAGTAGGAGAGTTTCTAAGAAACTAGACTTCTTCATCTATGATAGTA
* * ** *
13363209 GTATTTATATTA-TGGAGAAAATCATGAGGATGATGATCCACTCACTTACAAGGAGGCTATGCAA
326 GTATTTATATTACAGAAGCCAATCATGAGGATGATGATCCACTCACTTACAAGGAGGCTATGCAG
* * *
13363273 GACATTGATTCCAAGCTCTGGAAACAAACCATGGATGCCGAAATGGATTCTATGAAATCCAATAT
391 GACGTTGATTCCAAGCTCTGGAAACAGACCATGGATGCCGAAATGGATTCTATGAAATCCAATAC
* * * *
13363338 AGTATGGGAACTTGTATACTTACTAGTTGGGATTAAACTTATAGGGTGTAAGTGGATATGCAAAA
456 GGTGTGGGAACTTGTATACTTACCAGTTGGGATTAAACTTATAGGGTGTAAGTGGATATGAAAAA
13363403 AATCCACTCACTTACAAGGAG
521 AATCCACTCACTTACAAGGAG
13363424 GATATGCAAAAAAATTTGGATGCACGAATGAAATTATGCATGGTTGTATGATATCCAAAAGGAAC
1 GATATGCAAAAAAATTTGGATGCACGAATGAAATTATGCATGGTTGTATGATATCCAAAAGGAAC
* * * *
13363489 AAATGGTGGATTATTTTACAATCCAAAAGATAATATGATTAAAGTTTTTACTCATGCTACTTTTC
66 AAAGGGTGGATTATTCTACAATCCAAAAGATAATACGATTAAAGTTTTTACTCATGCTGCTTTTC
*
13363554 TTCAAGAAAACTATATGAATAACTTTAAACCTC-ACAGTAAAACGGTACTCGAGGAACTTTCAGG
131 TTCAAGAAAACTATATGAATAACTTTAAACCTCGA-AGTAAAATGGTACTCGAGGAACTTTCAGG
* *
13363618 AGTTGTAGAATAATCACCAAGTTCAATTCTCGAGAAAGTTGTGGAAAAACCTGCAAACGATCAAC
195 AGTTGTAGAATAATCACCAAGTTCAATTCTCGAGAAAGTTGTGGAAAGACCTACAAACGATCAAC
*
13363683 AATATAGGGCAATTCGTTATAGTAGGAGAGTTTCTAAGAAACTAAACTTCTTCATCTATGATAGT
260 AATATAGGGCAATTCGTTATAGTAGGAGAGTTTCTAAGAAACTAGACTTCTTCATCTATGATAGT
*
13363748 AGTATTTATATTACAGAAGCCAATCATGAGGATGATGATCCACTCACTTACAAGGAAGCTATGCA
325 AGTATTTATATTACAGAAGCCAATCATGAGGATGATGATCCACTCACTTACAAGGAGGCTATGCA
13363813 GGACGTTGATTCCAAGCTCTGGAAACAGACCATGGATGCCGAAATGGATTCTATGAAATCCAATA
390 GGACGTTGATTCCAAGCTCTGGAAACAGACCATGGATGCCGAAATGGATTCTATGAAATCCAATA
13363878 CGGTGTGGGAACTTGTATACTTACCAGTTGGGATTAAACTTATA-GGTGTAAGTGGATATGAAAA
455 CGGTGTGGGAACTTGTATACTTACCAGTTGGGATTAAACTTATAGGGTGTAAGTGGATATGAAAA
13363942 AAATCCACTCACTTACAAGGAG
520 AAATCCACTCACTTACAAGGAG
* *
13363964 GATATGTAAAAAAA-TTGGATGCACGAATGAAATTATGCACGGTTGTATGATATCCAAAAGGAAC
1 GATATGCAAAAAAATTTGGATGCACGAATGAAATTATGCATGGTTGTATGATATCCAAAAGGAAC
*
13364028 AAAGGGTGGATTATTCTACAATCCAAAAGATAATACGATTAAAATTTTTACTCATGCTGCTTTTC
66 AAAGGGTGGATTATTCTACAATCCAAAAGATAATACGATTAAAGTTTTTACTCATGCTGCTTTTC
* *
13364093 TTCAAGAAAACTATATGAATAAATTTAAACCTCGAAGTAAAATGGTACTCAAGGAACTTTCAGGA
131 TTCAAGAAAACTATATGAATAACTTTAAACCTCGAAGTAAAATGGTACTCGAGGAACTTTCAGGA
* * *
13364158 GTTGTAGAATAATCACCAAGTTCAATTCTCGAGAAAGTTATGGAAAGACCTACAAATGATCAATA
196 GTTGTAGAATAATCACCAAGTTCAATTCTCGAGAAAGTTGTGGAAAGACCTACAAACGATCAACA
*
13364223 ATATAGGGCAATTCGTTATAGTAGGAGAGTTTCTAAGAAACTAGACTTATTCATCTATGATAGTA
261 ATATAGGGCAATTCGTTATAGTAGGAGAGTTTCTAAGAAACTAGACTTCTTCATCTATGATAGTA
*
13364288 GTATTTATATTACGGAAGCCAATCATGAGGATGATGATCCACTCACTTACAAGGAGGCTATAG-A
326 GTATTTATATTACAGAAGCCAATCATGAGGATGATGATCCACTCACTTACAAGGAGGCTAT-GCA
* * *
13364352 GGACGTTGATTCCAAGTTCTGGAAACAGACAATGGATACCGAAATGGATTCTATGAAATCCAATA
390 GGACGTTGATTCCAAGCTCTGGAAACAGACCATGGATGCCGAAATGGATTCTATGAAATCCAATA
*
13364417 CGGTGTGGGAACTTGTATACTTACCAGTTGGGATTAAACCTATAGGGTGTAAGTGGAT
455 CGGTGTGGGAACTTGTATACTTACCAGTTGGGATTAAACTTATAGGGTGTAAGTGGAT
13364475 CTACAAGAAA
Statistics
Matches: 992, Mismatches: 53, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
539 465 0.47
540 379 0.38
541 148 0.15
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (541 bp):
GATATGCAAAAAAATTTGGATGCACGAATGAAATTATGCATGGTTGTATGATATCCAAAAGGAAC
AAAGGGTGGATTATTCTACAATCCAAAAGATAATACGATTAAAGTTTTTACTCATGCTGCTTTTC
TTCAAGAAAACTATATGAATAACTTTAAACCTCGAAGTAAAATGGTACTCGAGGAACTTTCAGGA
GTTGTAGAATAATCACCAAGTTCAATTCTCGAGAAAGTTGTGGAAAGACCTACAAACGATCAACA
ATATAGGGCAATTCGTTATAGTAGGAGAGTTTCTAAGAAACTAGACTTCTTCATCTATGATAGTA
GTATTTATATTACAGAAGCCAATCATGAGGATGATGATCCACTCACTTACAAGGAGGCTATGCAG
GACGTTGATTCCAAGCTCTGGAAACAGACCATGGATGCCGAAATGGATTCTATGAAATCCAATAC
GGTGTGGGAACTTGTATACTTACCAGTTGGGATTAAACTTATAGGGTGTAAGTGGATATGAAAAA
AATCCACTCACTTACAAGGAG
Found at i:13374037 original size:23 final size:23
Alignment explanation
Indices: 13373973--13374040 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
13373963 TGTAGTATAT
* * *
13373973 TATGCATGGAAATGCCAAAATGA
1 TATGCATCGAAGTACCAAAATGA
* * *
13373996 TATGCACCGAAGCGA-CAAAATGG
1 TATGCATCGAAG-TACCAAAATGA
13374019 TATGCATCGAAGTACCAAAATG
1 TATGCATCGAAGTACCAAAATG
13374041 TTCCCACCAA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
22 1 0.03
23 34 0.97
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (23 bp):
TATGCATCGAAGTACCAAAATGA
Found at i:13382283 original size:3 final size:3
Alignment explanation
Indices: 13382277--13382335 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
13382267 ATCTAAGATT
* ** *
13382277 TTA TTA TTA TTA TTAA TTA TTA GTA TGG TT- TTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13382322 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
13382336 TTTAAGTTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:13382699 original size:22 final size:21
Alignment explanation
Indices: 13382667--13382707 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
13382657 TTAATTAAGT
13382667 AAATAAAAGAATA-AAAGAATG
1 AAATAAAAGAA-ACAAAGAATG
13382688 AAATAAAAAGAAACAAAGAA
1 AAAT-AAAAGAAACAAAGAA
13382708 AAGAAAGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (21 bp):
AAATAAAAGAAACAAAGAATG
Found at i:13388598 original size:3 final size:3
Alignment explanation
Indices: 13388592--13388644 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
13388582 ATCTAAGATT
* **
13388592 TTA TTA TTA TTA TTAA TTA TTA GTA TGG TT- TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13388636 TTA TTA TTA
1 TTA TTA TTA
13388645 AGTTAAAGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
2 4 0.10
3 35 0.83
4 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:13388660 original size:35 final size:33
Alignment explanation
Indices: 13388589--13388660 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 33
13388579 AAAATCTAAG
* *
13388589 ATTT-TATTATTATTATTAATTATTAGTATGGT
1 ATTTATATTATTATTATTAATTATTAGTAAGAT
13388621 -TTTATATTATTATTATT-ATTATTAAGTTAAAGAT
1 ATTTATATTATTATTATTAATTATT-AG-T-AAGAT
13388655 ATTTAT
1 ATTTAT
13388661 TAATTAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
31 9 0.27
32 15 0.45
33 1 0.03
34 3 0.09
35 5 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (33 bp):
ATTTATATTATTATTATTAATTATTAGTAAGAT
Found at i:13391872 original size:22 final size:21
Alignment explanation
Indices: 13391841--13391881 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
13391831 TTAATTAAGT
13391841 AAATAAAAGAATA-AAAGAATG
1 AAATAAAAGAA-ACAAAGAATG
13391862 AAATATAAAGAAACAAAGAA
1 AAATA-AAAGAAACAAAGAA
13391882 AAGAAAGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.12
Consensus pattern (21 bp):
AAATAAAAGAAACAAAGAATG
Found at i:13394482 original size:68 final size:68
Alignment explanation
Indices: 13394373--13394649 Score: 333
Period size: 68 Copynumber: 4.1 Consensus size: 68
13394363 ATTGGAATCG
* * * * * * * *
13394373 GAAGTCCGCCAAGATAGTAAACAAGAGTTCATATTGTGTAAGACCATATCTAGGCTATATCAACA
1 GAAGTCCGCCAGGACAATAAACATGGGTTCATATTGTGTAAGACCATAACTGGGCTATAGCAACA
13394438 AAT
66 AAT
* * * *
13394441 GAAGTCCGCTAGGACATTAAACATGGGTTCATATTGTGTAAGACCAT-ACTTGCGCTATGGCAAC
1 GAAGTCCGCCAGGACAATAAACATGGGTTCATATTGTGTAAGACCATAAC-TGGGCTATAGCAAC
13394505 AAAT
65 AAAT
* ** * *
13394509 AAAGTGGGCCAGGACAGTAAACATGGGTTCATATTGTGTAAGACCATAACTGGGCTAT-GACAAA
1 GAAGTCCGCCAGGACAATAAACATGGGTTCATATTGTGTAAGACCATAACTGGGCTATAG-CAAC
13394573 AAAT
65 AAAT
* * * *
13394577 GAAGTCCACCAGGACAATAAATATGGGTTTATATTGTGTAAGACCATAACTGGGCTATGGCAACA
1 GAAGTCCGCCAGGACAATAAACATGGGTTCATATTGTGTAAGACCATAACTGGGCTATAGCAACA
13394642 AAT
66 AAT
13394645 GAAGT
1 GAAGT
13394650 GCTGGAATGC
Statistics
Matches: 179, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
67 2 0.01
68 174 0.97
69 3 0.02
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (68 bp):
GAAGTCCGCCAGGACAATAAACATGGGTTCATATTGTGTAAGACCATAACTGGGCTATAGCAACA
AAT
Found at i:13394634 original size:136 final size:136
Alignment explanation
Indices: 13394388--13394650 Score: 386
Period size: 136 Copynumber: 1.9 Consensus size: 136
13394378 CCGCCAAGAT
* * * *
13394388 AGTAAACAAGAGTTCATATTGTGTAAGACCATATCTAGGCTATATCAACAAATGAAGTCCGCTAG
1 AGTAAACAAGAGTTCATATTGTGTAAGACCATAACTAGGCTATATCAAAAAATGAAGTCCACCAG
*
13394453 GACATTAAACATGGGTTCATATTGTGTAAGACCATACTTGCGCTATGGCAACAAATAAAGTGGGC
66 GACAATAAACATGGGTTCATATTGTGTAAGACCATACTTGCGCTATGGCAACAAATAAAGTGGGC
13394518 CAGGAC
131 CAGGAC
* * *
13394524 AGTAAACATGGGTTCATATTGTGTAAGACCATAACTGGGCTATGA-CAAAAAATGAAGTCCACCA
1 AGTAAACAAGAGTTCATATTGTGTAAGACCATAACTAGGCTAT-ATCAAAAAATGAAGTCCACCA
* * * *
13394588 GGACAATAAATATGGGTTTATATTGTGTAAGACCATAAC-TGGGCTATGGCAACAAATGAAGTG
65 GGACAATAAACATGGGTTCATATTGTGTAAGACCAT-ACTTGCGCTATGGCAACAAATAAAGTG
13394651 CTGGAATGCC
Statistics
Matches: 113, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
136 110 0.97
137 3 0.03
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (136 bp):
AGTAAACAAGAGTTCATATTGTGTAAGACCATAACTAGGCTATATCAAAAAATGAAGTCCACCAG
GACAATAAACATGGGTTCATATTGTGTAAGACCATACTTGCGCTATGGCAACAAATAAAGTGGGC
CAGGAC
Found at i:13397479 original size:20 final size:20
Alignment explanation
Indices: 13397454--13397502 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
13397444 ATAACACGAA
13397454 CATAACT-TACCATTTCAATG
1 CATAACTGT-CCATTTCAATG
13397474 CATAACTGTCCATTTCAATG
1 CATAACTGTCCATTTCAATG
13397494 CATAACTGT
1 CATAACTGT
13397503 AAAATTAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (20 bp):
CATAACTGTCCATTTCAATG
Found at i:13398338 original size:16 final size:17
Alignment explanation
Indices: 13398309--13398340 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13398299 CAATTTAGTC
13398309 CAAAATTCATACTTTTA
1 CAAAATTCATACTTTTA
13398326 CAAAATT-ATACTTTT
1 CAAAATTCATACTTTT
13398341 GCCCCTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.44
Consensus pattern (17 bp):
CAAAATTCATACTTTTA
Found at i:13401199 original size:26 final size:26
Alignment explanation
Indices: 13401170--13401220 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
13401160 AATAAAATAA
13401170 AACATTCAATATTTCAATTTAATTAG
1 AACATTCAATATTTCAATTTAATTAG
*
13401196 AACATTGAATATTTCAATTTAATTA
1 AACATTCAATATTTCAATTTAATTA
13401221 ACATTAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (26 bp):
AACATTCAATATTTCAATTTAATTAG
Found at i:13405152 original size:23 final size:24
Alignment explanation
Indices: 13405120--13405165 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
13405110 AAAAGAAAAC
13405120 ATTCAATATTTCAATTTAATTAGA
1 ATTCAATATTTCAATTTAATTAGA
*
13405144 ATTC-ATATTTCAGTTTAATTAG
1 ATTCAATATTTCAATTTAATTAG
13405166 CATTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.48
Consensus pattern (24 bp):
ATTCAATATTTCAATTTAATTAGA
Found at i:13407240 original size:26 final size:26
Alignment explanation
Indices: 13407211--13407262 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
13407201 AATAAAAGAA
13407211 AACATTCAATATTTCAATTTAATTAG
1 AACATTCAATATTTCAATTTAATTAG
*
13407237 AACATTCAATATTTCAGTTTAATTAG
1 AACATTCAATATTTCAATTTAATTAG
13407263 CATTAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (26 bp):
AACATTCAATATTTCAATTTAATTAG
Found at i:13409340 original size:26 final size:26
Alignment explanation
Indices: 13409311--13409362 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
13409301 AATAAAAGAA
13409311 AACATTCAATATTTCAATTTAATTAG
1 AACATTCAATATTTCAATTTAATTAG
*
13409337 AACATTCAATATTTCAGTTTAATTAG
1 AACATTCAATATTTCAATTTAATTAG
13409363 CATTAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (26 bp):
AACATTCAATATTTCAATTTAATTAG
Found at i:13410125 original size:32 final size:34
Alignment explanation
Indices: 13410089--13410153 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
13410079 TAACAGTGGT
*
13410089 ACTGGGCCAGAG-CCCTT-TTCAGATTACAGTAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAGTAA
**
13410121 ACTGGGCCTTAGCCCCTTATTCAGATAACAGTA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAGTA
13410154 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAGTAA
Found at i:13410512 original size:26 final size:26
Alignment explanation
Indices: 13410461--13410513 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
13410451 TCAAACATGC
*
13410461 ATTTAGGTCAATTTAACTCTATGGGT
1 ATTTAGGTCAATTTAACTCTAGGGGT
* *
13410487 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACT-CTAGGGGT
13410513 A
1 A
13410514 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.42
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCTAGGGGT
Found at i:13419063 original size:12 final size:12
Alignment explanation
Indices: 13419028--13419067 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
13419018 TTGTGTGTTC
13419028 TTTCTTTTATATT
1 TTTCTTTT-TATT
*
13419041 TTATATTTTTATT
1 TT-TCTTTTTATT
13419054 TTTCTTTTTATT
1 TTTCTTTTTATT
13419066 TT
1 TT
13419068 ATTTTAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.46
13 8 0.33
14 5 0.21
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTCTTTTTATT
Found at i:13421005 original size:26 final size:26
Alignment explanation
Indices: 13420976--13421025 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
13420966 AATAAAAGAA
13420976 AACATTCAATATTTCAATTTAATTCT
1 AACATTCAATATTTCAATTTAATTCT
*
13421002 AACATTCAATATTTCAGTTTAATT
1 AACATTCAATATTTCAATTTAATT
13421026 AGCATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.46
Consensus pattern (26 bp):
AACATTCAATATTTCAATTTAATTCT
Found at i:13423117 original size:26 final size:26
Alignment explanation
Indices: 13423088--13423137 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
13423078 CAATAAAGAA
13423088 AACATTCAATATTTCAATTTAATTCT
1 AACATTCAATATTTCAATTTAATTCT
*
13423114 AACATTCAATATTTCAGTTTAATT
1 AACATTCAATATTTCAATTTAATT
13423138 AGCATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.46
Consensus pattern (26 bp):
AACATTCAATATTTCAATTTAATTCT
Found at i:13425230 original size:26 final size:26
Alignment explanation
Indices: 13425201--13425250 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
13425191 CAATAAAGAA
13425201 AACATTCAATATTTCAATTTAATTCT
1 AACATTCAATATTTCAATTTAATTCT
*
13425227 AACATTCAATATTTCAGTTTAATT
1 AACATTCAATATTTCAATTTAATT
13425251 AGCATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.46
Consensus pattern (26 bp):
AACATTCAATATTTCAATTTAATTCT
Done.