Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 46 of 343
Found at i:15130401 original size:33 final size:31
Alignment explanation
Indices: 15130318--15130402 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 31
15130308 TGAAAACTTA
15130318 AATATAAT-A-ATAAATATATTTAAATAATTT
1 AATATAATAACATAAA-ATATTTAAATAATTT
15130348 AATATAATAACATATGAAATATTTAAATAATTT
1 AATATAATAACATA--AAATATTTAAATAATTT
15130381 AATATAATGATACATAAAATAT
1 AATATAAT-A-ACATAAAATAT
15130403 AAATTAATCT
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
30 8 0.16
31 1 0.02
32 3 0.06
33 29 0.59
34 3 0.06
35 5 0.10
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (31 bp):
AATATAATAACATAAAATATTTAAATAATTT
Found at i:15133067 original size:17 final size:19
Alignment explanation
Indices: 15133037--15133074 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
15133027 CTCCTCAACC
15133037 TTTTTTAAAGGGTTTAAGG
1 TTTTTTAAAGGGTTTAAGG
15133056 TTTTTT-AA-GGTTTAAGG
1 TTTTTTAAAGGGTTTAAGG
15133073 TT
1 TT
15133075 AGAAATTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.58
18 2 0.11
19 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (19 bp):
TTTTTTAAAGGGTTTAAGG
Found at i:15135616 original size:41 final size:42
Alignment explanation
Indices: 15135549--15135629 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 42
15135539 ATGTTAAGTT
* * *
15135549 TCACTCTGCGTGTTCCTTTGAGAGCATGAGCTTTTGTGAGCC
1 TCACTCTGCATGCTCCTTTGAAAGCATGAGCTTTTGTGAGCC
*
15135591 TCACTCTGCATGCT-CTTTGAAAGCATGGGCTTTTGTGAG
1 TCACTCTGCATGCTCCTTTGAAAGCATGAGCTTTTGTGAG
15135630 AATTGTGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 23 0.66
42 12 0.34
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.36
Consensus pattern (42 bp):
TCACTCTGCATGCTCCTTTGAAAGCATGAGCTTTTGTGAGCC
Found at i:15136797 original size:15 final size:15
Alignment explanation
Indices: 15136777--15136807 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15136767 TTTTCCACTA
*
15136777 CTTTATCTTTATCTT
1 CTTTATCTTGATCTT
15136792 CTTTATCTTGATCTT
1 CTTTATCTTGATCTT
15136807 C
1 C
15136808 ACCTCAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.61
Consensus pattern (15 bp):
CTTTATCTTGATCTT
Found at i:15152978 original size:18 final size:18
Alignment explanation
Indices: 15152955--15152992 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15152945 CTTTTTGGGG
**
15152955 AATTTTAAGGAGAAAAGA
1 AATTTTAAAAAGAAAAGA
15152973 AATTTTAAAAAGAAAAGA
1 AATTTTAAAAAGAAAAGA
15152991 AA
1 AA
15152993 AGAAAATAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.16, T:0.21
Consensus pattern (18 bp):
AATTTTAAAAAGAAAAGA
Found at i:15157401 original size:38 final size:38
Alignment explanation
Indices: 15157349--15157543 Score: 239
Period size: 38 Copynumber: 5.1 Consensus size: 38
15157339 TTAAGCTCGA
*
15157349 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
* * * * *
15157387 ATATAATACTAGCACTAAACTTGCGGAATTTAACCC-G
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
* * ** **
15157424 AATATAATACCAGCACGAAGCATGCAGGATAAAACCTGG
1 -ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
*
15157463 ATATAATACCAGCACGAAGCCTGCGGAATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
* *
15157501 ATATAATGCCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
15157539 ATATA
1 ATATA
15157544 CATCAAATAT
Statistics
Matches: 132, Mismatches: 23, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
37 1 0.01
38 130 0.98
39 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
Found at i:15157435 original size:76 final size:76
Alignment explanation
Indices: 15157326--15157543 Score: 276
Period size: 76 Copynumber: 2.8 Consensus size: 76
15157316 ACCAGCATAG
* * * *
15157326 AACCTGCAGAACTTTAAGCTCGAATATAATACCAGCACTAAGCCTGCGGGATTTAACCCAGATAT
1 AACCTGCGGAA-TTTAA-CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
* *
15157391 AATACTAGCACTA
64 AATACCAGCACGA
* * * ** *
15157404 AACTTGCGGAATTTAACCCGAATATAATACCAGCACGAAGCATGCAGGATAAAACCTGGATATAA
1 AACCTGCGGAATTTAACCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAA
15157469 TACCAGCACGA
66 TACCAGCACGA
* *
15157480 AGCCTGCGGAATTTAACCC-AGATATAATGCCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
1 AACCTGCGGAATTTAACCCGA-ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
15157544 CATCAAATAT
Statistics
Matches: 119, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
75 1 0.01
76 104 0.87
77 5 0.04
78 9 0.08
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (76 bp):
AACCTGCGGAATTTAACCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAA
TACCAGCACGA
Found at i:15166107 original size:27 final size:25
Alignment explanation
Indices: 15166058--15166107 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
15166048 TCTAAAATAC
*
15166058 AATTTTTTTCTATTTGGTCACTCTA
1 AATTTTTTTCTATTTAGTCACTCTA
*
15166083 AATTTTTTTCTCAATTTAGTTACTC
1 AATTTTTTTCT--ATTTAGTCACTC
15166108 CAGATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
27 10 0.48
ACGTcount: A:0.22, C:0.16, G:0.06, T:0.56
Consensus pattern (25 bp):
AATTTTTTTCTATTTAGTCACTCTA
Found at i:15170298 original size:28 final size:28
Alignment explanation
Indices: 15170245--15170328 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
15170235 CACTTTGTGC
15170245 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
15170274 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
15170302 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
15170329 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:15170340 original size:23 final size:24
Alignment explanation
Indices: 15170249--15170342 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 24
15170239 TTGTGCTATT
15170249 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
15170276 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
15170306 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
15170329 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
15170343 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
23 17 0.29
24 1 0.02
25 2 0.03
28 18 0.31
29 14 0.24
30 5 0.08
31 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:15170580 original size:21 final size:21
Alignment explanation
Indices: 15170532--15170638 Score: 128
Period size: 20 Copynumber: 5.1 Consensus size: 21
15170522 GGCTATACTG
* *
15170532 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
15170553 ATTTCAGGCACCTTGTGTGTCGT
1 A--TCAGGCACCTTGTGTGTCGT
15170576 ATCAGGCACC-TGTGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
* *
15170596 TTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
* *
15170617 TTCAGGCA-CTTATGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
15170637 AT
1 AT
15170639 ACTGATCAGG
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
20 30 0.39
21 27 0.36
23 19 0.25
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.36
Consensus pattern (21 bp):
ATCAGGCACCTTGTGTGTCGT
Found at i:15170599 original size:41 final size:41
Alignment explanation
Indices: 15170532--15170636 Score: 138
Period size: 41 Copynumber: 2.5 Consensus size: 41
15170522 GGCTATACTG
* *
15170532 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTTGTGTGTCGT
1 ATCAGGCAC-CTATGTGTCG--TTTCAGGCACCTCGTGTGTCGT
*
15170576 ATCAGGCACCTGTGTGTCGTTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTATGTGTCGTTTCAGGCACCTCGTGTGTCGT
* *
15170617 TTCAGGCACTTATGTGTCGT
1 ATCAGGCACCTATGTGTCGT
15170637 ATACTGATCA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 38 0.69
43 8 0.15
44 9 0.16
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (41 bp):
ATCAGGCACCTATGTGTCGTTTCAGGCACCTCGTGTGTCGT
Found at i:15171878 original size:46 final size:48
Alignment explanation
Indices: 15171720--15171906 Score: 163
Period size: 46 Copynumber: 3.9 Consensus size: 48
15171710 TGGTTGGACC
15171720 ATGGCATCA-A-TGTGATATGTGA-TCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTC-GTGTAAGACCATAGCTGGGCT
* * * * *
15171766 ATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGAG---TGTGA-TATGTGATT-CGTGTAAGACCATAGCTGGGCT
*
15171819 ATGGCATC--AGTGTGATATGTGATTCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
* * *
15171865 ATGGC-TACGGTGTGTGATATGTGACTAT-GTGCAAGACCATAG
1 ATGGCAT-CAGAGTGTGATATGTGA-T-TCGTGTAAGACCATAG
15171907 TTTTACTATG
Statistics
Matches: 114, Mismatches: 14, Indels: 23
0.75 0.09 0.15
Matches are distributed among these distances:
45 1 0.01
46 33 0.29
47 8 0.07
48 18 0.16
49 13 0.11
50 1 0.01
51 7 0.06
52 5 0.04
53 27 0.24
54 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (48 bp):
ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
Found at i:15179501 original size:7 final size:7
Alignment explanation
Indices: 15179485--15179553 Score: 102
Period size: 7 Copynumber: 9.7 Consensus size: 7
15179475 CATAAGGTTC
15179485 ACCCTAA
1 ACCCTAA
*
15179492 ACCATAA
1 ACCCTAA
*
15179499 ACCATAA
1 ACCCTAA
*
15179506 ACCATAA
1 ACCCTAA
15179513 ACCCTAA
1 ACCCTAA
15179520 ACCCTAAA
1 ACCCT-AA
15179528 ACCCTAA
1 ACCCTAA
15179535 ACCCTAA
1 ACCCTAA
15179542 ACCCTAA
1 ACCCTAA
15179549 ACCCT
1 ACCCT
15179554 CTAGGTATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
7 52 0.88
8 7 0.12
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.14
Consensus pattern (7 bp):
ACCCTAA
Found at i:15179530 original size:29 final size:28
Alignment explanation
Indices: 15179485--15179553 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 28
15179475 CATAAGGTTC
*
15179485 ACCCTAAACCATAAACCATAAACCATAA
1 ACCCTAAACCCTAAACCATAAACCATAA
* *
15179513 ACCCTAAACCCTAAAACCCTAAACCCTAA
1 ACCCTAAACCCT-AAACCATAAACCATAA
15179542 ACCCTAAACCCT
1 ACCCTAAACCCT
15179554 CTAGGTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 11 0.30
29 26 0.70
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.14
Consensus pattern (28 bp):
ACCCTAAACCCTAAACCATAAACCATAA
Found at i:15181735 original size:23 final size:23
Alignment explanation
Indices: 15181684--15181735 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
15181674 AAAAATGCAT
* *
15181684 AATAAAATAAAATATATAAATCT
1 AATAAAATAAAATAAATAAATCA
15181707 AA-AAAATAAAAATAAATAAAT-A
1 AATAAAAT-AAAATAAATAAATCA
15181729 AATAAAA
1 AATAAAA
15181736 ATAGGGCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (23 bp):
AATAAAATAAAATAAATAAATCA
Found at i:15191884 original size:31 final size:32
Alignment explanation
Indices: 15191829--15191894 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
15191819 GAAATTAGGG
15191829 TTAAGATTTAAGGTTTTTTAA-TTTTAAGTGT
1 TTAAGATTTAAGGTTTTTTAATTTTTAAGTGT
* *
15191860 TTAAG-TTTAGGGTTTTATTTATTTTTAAGTGT
1 TTAAGATTTAAGGTTTT-TTAATTTTTAAGTGT
15191892 TTA
1 TTA
15191895 TTAATTACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 10 0.32
31 8 0.26
32 13 0.42
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.58
Consensus pattern (32 bp):
TTAAGATTTAAGGTTTTTTAATTTTTAAGTGT
Found at i:15192598 original size:22 final size:20
Alignment explanation
Indices: 15192559--15192598 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
15192549 GTAAACTAAT
*
15192559 TTTTCACCATTTTTAAGCCA
1 TTTTCACCATTTTGAAGCCA
15192579 TTTTCACACGATTTTGAAGC
1 TTTTCAC-C-ATTTTGAAGC
15192599 ACGACCATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 1 0.06
22 9 0.53
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (20 bp):
TTTTCACCATTTTGAAGCCA
Found at i:15193639 original size:54 final size:52
Alignment explanation
Indices: 15193472--15193643 Score: 159
Period size: 53 Copynumber: 3.2 Consensus size: 52
15193462 AAATCTCGGG
* * * * * *
15193472 TATGGTCTTACACGAAAGCACTTATCACTTGTCTCTGATGCCATAGCCCAAC
1 TATGGTCTTATACGGAATCACTTATCACTTGTTTCCGATGCCATAGCCCAGC
* * * ** *
15193524 TGTGGTCTTATACAG-ATCGCTTGTATCACTTCAATT-CGAAGCCATAGCCCAGC
1 TATGGTCTTATACGGAATCAC-T-TATCACTT-GTTTCCGATGCCATAGCCCAGC
* *
15193577 TATAGTCTTATACGGGAATCACTTATCACTTGTTTTCCGATGACATAGCCCAGC
1 TATGGTCTTATAC-GGAATCACTTATCACTTG-TTTCCGATGCCATAGCCCAGC
15193631 TATGGTCTTATAC
1 TATGGTCTTATAC
15193644 AAATATCGAT
Statistics
Matches: 92, Mismatches: 21, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
51 3 0.03
52 12 0.13
53 43 0.47
54 30 0.33
55 4 0.04
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (52 bp):
TATGGTCTTATACGGAATCACTTATCACTTGTTTCCGATGCCATAGCCCAGC
Found at i:15207762 original size:46 final size:46
Alignment explanation
Indices: 15207669--15207754 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 46
15207659 TACATCTCTC
* * **
15207669 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGACATGCCCAAACATAAGT
*
15207715 GAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCAAACAT
1 GAACTCGGACTCAACTCAACGAGTTCAGACATGCCCAAACAT
15207755 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 8 0.23
45 1 0.03
46 26 0.74
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACATGCCCAAACATAAGT
Found at i:15211359 original size:14 final size:12
Alignment explanation
Indices: 15211347--15211378 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
15211337 AAATTTCTCC
15211347 CTTTTTCTTTCT
1 CTTTTTCTTTCT
15211359 CTTTTTCTTT-T
1 CTTTTTCTTTCT
15211370 CTTTTTCTT
1 CTTTTTCTT
15211379 CCTTCTCTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
CTTTTTCTTTCT
Found at i:15211471 original size:8 final size:8
Alignment explanation
Indices: 15211448--15211482 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
15211438 TATATTTTAT
*
15211448 ATAATATT
1 ATAATATA
15211456 ATAATATA
1 ATAATATA
15211464 ATAATATA
1 ATAATATA
*
15211472 GTAATATA
1 ATAATATA
15211480 ATA
1 ATA
15211483 CCATTTACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (8 bp):
ATAATATA
Found at i:15221019 original size:13 final size:13
Alignment explanation
Indices: 15221001--15221025 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15220991 ACAACACCAG
15221001 ATACGGCCGTGTA
1 ATACGGCCGTGTA
15221014 ATACGGCCGTGT
1 ATACGGCCGTGT
15221026 GCACCTATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (13 bp):
ATACGGCCGTGTA
Found at i:15224072 original size:40 final size:40
Alignment explanation
Indices: 15224012--15224099 Score: 158
Period size: 40 Copynumber: 2.2 Consensus size: 40
15224002 GATCCATAAA
15224012 TCGAGTTAATGCAACCCTAGAGTGTTAATTATAGAAAAGTC
1 TCGA-TTAATGCAACCCTAGAGTGTTAATTATAGAAAAGTC
*
15224053 TCGATTAATGCAACCCTAGAGTGTTAATTATAGAAAATTC
1 TCGATTAATGCAACCCTAGAGTGTTAATTATAGAAAAGTC
15224093 TCGATTA
1 TCGATTA
15224100 TTCAATCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 42 0.91
41 4 0.09
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (40 bp):
TCGATTAATGCAACCCTAGAGTGTTAATTATAGAAAAGTC
Found at i:15236830 original size:79 final size:79
Alignment explanation
Indices: 15236736--15236893 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
15236726 TCAACTCACT
15236736 TTTCAATTTCAATCAATATTCATTTCAATTCAATAATTGTATATACTCATATGATCAATTAAATT
1 TTTCAATTTCAATCAATATTCATTTCAATTCAATAATTGTATATACTCATATGATCAATTAAATT
15236801 TATTCAATACCATC
66 TATTCAATACCATC
15236815 TTTCAATTTCAATCAATATTCATTTCAATTCAATAATTGTATATACTCATATGATCAATTAAATT
1 TTTCAATTTCAATCAATATTCATTTCAATTCAATAATTGTATATACTCATATGATCAATTAAATT
15236880 TATTCAATACCATC
66 TATTCAATACCATC
15236894 ATATCCAATA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.38, C:0.16, G:0.03, T:0.43
Consensus pattern (79 bp):
TTTCAATTTCAATCAATATTCATTTCAATTCAATAATTGTATATACTCATATGATCAATTAAATT
TATTCAATACCATC
Found at i:15239414 original size:20 final size:20
Alignment explanation
Indices: 15239381--15239419 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15239371 TATGGCTTTC
*
15239381 CATGAATCCTAATC-CATGG
1 CATGAATCCAAATCACATGG
15239400 CATGTAATCCAAATCACATG
1 CATG-AATCCAAATCACATG
15239420 CTAACTTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.26
Consensus pattern (20 bp):
CATGAATCCAAATCACATGG
Found at i:15245562 original size:47 final size:47
Alignment explanation
Indices: 15245509--15245666 Score: 149
Period size: 51 Copynumber: 3.2 Consensus size: 47
15245499 AAAAACAACA
* *
15245509 AACAATGAAGCATAATTAAAACACCACTTTATTTATAAATGCAATAG
1 AACAATGAAGCATAATTAAAACACCACTTTATTTATGAATGCAAAAG
* * *
15245556 AACAATGAATGAAGCATAAATATAAAACA--ACTCTATGTATGAATGCAACAAA
1 AAC----AATGAAGCAT-AAT-TAAAACACCACTTTATTTATGAATGCAA-AAG
* *
15245608 ATAGTCAATGAAGCATAATTAAAACACCACTTTATTTATGGATGCAACAG
1 A-A--CAATGAAGCATAATTAAAACACCACTTTATTTATGAATGCAAAAG
15245658 AACAATGAA
1 AACAATGAA
15245667 TGAAGTATAA
Statistics
Matches: 89, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
47 10 0.11
49 8 0.09
50 5 0.06
51 52 0.58
52 5 0.06
53 8 0.09
55 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.25
Consensus pattern (47 bp):
AACAATGAAGCATAATTAAAACACCACTTTATTTATGAATGCAAAAG
Found at i:15245624 original size:102 final size:100
Alignment explanation
Indices: 15245505--15245801 Score: 391
Period size: 102 Copynumber: 3.0 Consensus size: 100
15245495 AAAAAAAAAC
* * *
15245505 AACAAACAATGAAGCATAATTAAAACACCACTTTATTTATAAATGCAATAGAACAATGAATGAAG
1 AACAATCAATGAAGCATAATTAAAACACCACTTTATTTATAGATGCAACAGAACAATGAATGAAG
* *
15245570 CATAAATATAAAACAACTCTATGTATGAATGCAACAA
66 CAT-AA-ATAAAGCAACTCTATTTATGAATGCAACAA
* * *
15245607 AATAGTCAATGAAGCATAATTAAAACACCACTTTATTTATGGATGCAACAGAACAATGAATGAAG
1 AACAATCAATGAAGCATAATTAAAACACCACTTTATTTATAGATGCAACAGAACAATGAATGAAG
* * * *
15245672 TATAAATAAAGCAACTCTTTTTATGAATGGAGCAA
66 CATAAATAAAGCAACTCTATTTATGAATGCAACAA
* * * * * *
15245707 AACAATCAATGAAGAATAAATAAAACA--ACTTTATTTCTTGATGCAACAAAACAATCAATGAAG
1 AACAATCAATGAAGCATAATTAAAACACCACTTTATTTATAGATGCAACAGAACAATGAATGAAG
*
15245770 CATAAATAAAGCAACTTTATTTATGAATGCAA
66 CATAAATAAAGCAACTCTATTTATGAATGCAA
15245802 GTATGCTTTA
Statistics
Matches: 170, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
98 59 0.35
100 48 0.28
101 2 0.01
102 61 0.36
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (100 bp):
AACAATCAATGAAGCATAATTAAAACACCACTTTATTTATAGATGCAACAGAACAATGAATGAAG
CATAAATAAAGCAACTCTATTTATGAATGCAACAA
Found at i:15245711 original size:49 final size:49
Alignment explanation
Indices: 15245505--15245801 Score: 319
Period size: 49 Copynumber: 5.9 Consensus size: 49
15245495 AAAAAAAAAC
* * * * *
15245505 AACAAACAATGAAGCATAATTAAAACACCACTTTATTTATAAATGCAATAG
1 AACAATCAATGAAGCATAAATAAAACA--ACTTTATTTATGAATGCAACAA
* * *
15245556 AACAATGAATGAAGCATAAATATAAAACAACTCTATGTATGAATGCAACAA
1 AACAATCAATGAAGCAT-AA-ATAAAACAACTTTATTTATGAATGCAACAA
* * * * *
15245607 AATAGTCAATGAAGCATAATTAAAACACCACTTTATTTATGGATGCAACAG
1 AACAATCAATGAAGCATAAATAAAACA--ACTTTATTTATGAATGCAACAA
* * * * *
15245658 AACAATGAATGAAGTATAAATAAAGCAACTCTT-TTTATGAATGGAGCAA
1 AACAATCAATGAAGCATAAATAAAACAACT-TTATTTATGAATGCAACAA
* *
15245707 AACAATCAATGAAGAATAAATAAAACAACTTTATTTCTTG-ATGCAACAA
1 AACAATCAATGAAGCATAAATAAAACAACTTTATTT-ATGAATGCAACAA
*
15245756 AACAATCAATGAAGCATAAATAAAGCAACTTTATTTATGAATGCAA
1 AACAATCAATGAAGCATAAATAAAACAACTTTATTTATGAATGCAA
15245802 GTATGCTTTA
Statistics
Matches: 203, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
48 4 0.02
49 99 0.49
50 6 0.03
51 85 0.42
52 2 0.01
53 7 0.03
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (49 bp):
AACAATCAATGAAGCATAAATAAAACAACTTTATTTATGAATGCAACAA
Found at i:15254489 original size:5 final size:6
Alignment explanation
Indices: 15254472--15254496 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15254462 TTCCTCATGC
15254472 TCTTTT TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT T
15254497 TTGCATTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:15256781 original size:21 final size:22
Alignment explanation
Indices: 15256755--15256795 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
15256745 TGTATTTTGA
15256755 TGTTTAATGG-TAGA-AAATGCT
1 TGTTT-ATGGTTAGAGAAATGCT
15256776 TGTTTATGGTTAGAGAAATG
1 TGTTTATGGTTAGAGAAATG
15256796 ACTTTTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.39
Consensus pattern (22 bp):
TGTTTATGGTTAGAGAAATGCT
Found at i:15267050 original size:100 final size:100
Alignment explanation
Indices: 15266915--15267203 Score: 424
Period size: 100 Copynumber: 2.9 Consensus size: 100
15266905 AAAAAAAAAA
15266915 CAATGAAGCATAATTAAAACACCACTTTATTTATGAATGCAACAGAACAATGAATGAAGCATAAA
1 CAATGAAGCATAATTAAAACACCACTTTATTTATGAATGCAACAGAACAATGAATGAAGCATAAA
* *
15266980 TAAAACAGCTCTATATATGAATGCAACAAAATAAT
66 TAAAACAACTCTATTTATGAATGCAACAAAATAAT
*
15267015 CAATGAAGCATAATTAAAACACCACTTTATTTATGAATGCAACAGAACAATGAATGAAGCATAAC
1 CAATGAAGCATAATTAAAACACCACTTTATTTATGAATGCAACAGAACAATGAATGAAGCATAAA
*
15267080 TAAAGCAACTCTATTTATGAATGCAACAAAATAAT
66 TAAAACAACTCTATTTATGAATGCAACAAAATAAT
* * * * * * *
15267115 AAATTAAGCATAAATAAAACA--ACTTGT-TTTATGAATGCAAGAAAACAATCAATAAAGCATAA
1 CAATGAAGCATAATTAAAACACCACTT-TATTTATGAATGCAACAGAACAATGAATGAAGCATAA
*
15267177 ATAAAGA-AACTTTATTTATGAATGCAA
65 ATAAA-ACAACTCTATTTATGAATGCAA
15267204 GTATATTGAA
Statistics
Matches: 173, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
98 58 0.34
99 1 0.01
100 114 0.66
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.25
Consensus pattern (100 bp):
CAATGAAGCATAATTAAAACACCACTTTATTTATGAATGCAACAGAACAATGAATGAAGCATAAA
TAAAACAACTCTATTTATGAATGCAACAAAATAAT
Found at i:15267131 original size:149 final size:148
Alignment explanation
Indices: 15266916--15267203 Score: 384
Period size: 149 Copynumber: 1.9 Consensus size: 148
15266906 AAAAAAAAAC
* * * *
15266916 AATGAAGCATAATTAAAACACCACTTTATTTATGAATGCAACAGAACAATGAATGAAGCATAAAT
1 AATGAAGCATAACTAAAACA-CACTCTATTTATGAATGCAACAAAACAATAAATGAAGCATAAAT
* * * *
15266981 AAAACAGCTCT-ATATATGAATGCAACAAAATAATCAATGAAGCATAATTAAA-ACACCACTTTA
65 AAAACAACT-TGATATATGAATGCAACAAAACAATCAATAAAGCATAAATAAAGA-A--ACTTTA
15267044 TTTATGAATGCAACAGAACAATG
126 TTTATGAATGCAACAGAACAATG
* * *
15267067 AATGAAGCATAACTAAAGCA-ACTCTATTTATGAATGCAACAAAATAATAAATTAAGCATAAATA
1 AATGAAGCATAACTAAAACACACTCTATTTATGAATGCAACAAAACAATAAATGAAGCATAAATA
* * *
15267131 AAACAACTTGTTTTATGAATGCAAGAAAACAATCAATAAAGCATAAATAAAGAAACTTTATTTAT
66 AAACAACTTGATATATGAATGCAACAAAACAATCAATAAAGCATAAATAAAGAAACTTTATTTAT
15267196 GAATGCAA
131 GAATGCAA
15267204 GTATATTGAA
Statistics
Matches: 121, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
147 19 0.16
148 1 0.01
149 82 0.68
150 1 0.01
151 18 0.15
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.25
Consensus pattern (148 bp):
AATGAAGCATAACTAAAACACACTCTATTTATGAATGCAACAAAACAATAAATGAAGCATAAATA
AAACAACTTGATATATGAATGCAACAAAACAATCAATAAAGCATAAATAAAGAAACTTTATTTAT
GAATGCAACAGAACAATG
Found at i:15267204 original size:49 final size:49
Alignment explanation
Indices: 15266915--15267203 Score: 348
Period size: 49 Copynumber: 5.8 Consensus size: 49
15266905 AAAAAAAAAA
* *
15266915 CAATGAAGCATAATTAAAACACCACTTTATTTATGAATGCAACAGAACAAT
1 CAATGAAGCATAAATAAAACA--ACTTTATTTATGAATGCAACAAAACAAT
* * * * *
15266966 GAATGAAGCATAAATAAAACAGCTCTATATATGAATGCAACAAAATAAT
1 CAATGAAGCATAAATAAAACAACTTTATTTATGAATGCAACAAAACAAT
* *
15267015 CAATGAAGCATAATTAAAACACCACTTTATTTATGAATGCAACAGAACAAT
1 CAATGAAGCATAAATAAAACA--ACTTTATTTATGAATGCAACAAAACAAT
* * * * *
15267066 GAATGAAGCATAACTAAAGCAACTCTATTTATGAATGCAACAAAATAAT
1 CAATGAAGCATAAATAAAACAACTTTATTTATGAATGCAACAAAACAAT
* * *
15267115 AAATTAAGCATAAATAAAACAACTTGT-TTTATGAATGCAAGAAAACAAT
1 CAATGAAGCATAAATAAAACAACTT-TATTTATGAATGCAACAAAACAAT
*
15267164 CAATAAAGCATAAATAAAGA-AACTTTATTTATGAATGCAA
1 CAATGAAGCATAAATAAA-ACAACTTTATTTATGAATGCAA
15267204 GTATATTGAA
Statistics
Matches: 204, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
48 1 0.00
49 141 0.69
50 2 0.01
51 60 0.29
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.25
Consensus pattern (49 bp):
CAATGAAGCATAAATAAAACAACTTTATTTATGAATGCAACAAAACAAT
Found at i:15267929 original size:38 final size:38
Alignment explanation
Indices: 15267887--15267975 Score: 133
Period size: 38 Copynumber: 2.3 Consensus size: 38
15267877 TAAGGTTTAA
* * *
15267887 GTAGAAAGCTTAAGGTAGTTTCAATCTTAAGATTTTGT
1 GTAGAAAGCTTAAGGCAGTTGCAATCTTAAGATTTTGG
*
15267925 GTAGAAAGCTTAGGGCAGTTGCAATCTTAAGATTTTGG
1 GTAGAAAGCTTAAGGCAGTTGCAATCTTAAGATTTTGG
*
15267963 GTAGAAATCTTAA
1 GTAGAAAGCTTAA
15267976 TAGAGTTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.35
Consensus pattern (38 bp):
GTAGAAAGCTTAAGGCAGTTGCAATCTTAAGATTTTGG
Found at i:15268766 original size:10 final size:10
Alignment explanation
Indices: 15268748--15268797 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
15268738 ATATTTTGCC
15268748 TAATTATTAT
1 TAATTATTAT
*
15268758 TAGTTATTAT
1 TAATTATTAT
*
15268768 T--TTA-AAT
1 TAATTATTAT
15268775 TAATTATTATT
1 TAATTATTA-T
15268786 TAATTATTAT
1 TAATTATTAT
15268796 TA
1 TA
15268798 TAGTTCAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
7 3 0.09
8 3 0.09
9 3 0.09
10 14 0.42
11 10 0.30
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
TAATTATTAT
Found at i:15268781 original size:17 final size:16
Alignment explanation
Indices: 15268756--15268798 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
15268746 CCTAATTATT
*
15268756 ATTAGTTATTATTTTAA
1 ATTAATTATTATTTT-A
15268773 ATTAATTATTA-TTTA
1 ATTAATTATTATTTTA
15268788 ATT-ATTATTAT
1 ATTAATTATTAT
15268799 AGTTCAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 7 0.29
15 4 0.17
16 3 0.12
17 10 0.42
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
ATTAATTATTATTTTA
Found at i:15268782 original size:14 final size:14
Alignment explanation
Indices: 15268750--15268798 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
15268740 ATTTTGCCTA
*
15268750 ATTATTATT-AGTT
1 ATTATTATTAAATT
15268763 ATTATT-TTAAATT
1 ATTATTATTAAATT
*
15268776 AATTATTATTTAATT
1 -ATTATTATTAAATT
15268791 ATTATTAT
1 ATTATTAT
15268799 AGTTCAATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 2 0.06
13 9 0.29
14 14 0.45
15 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (14 bp):
ATTATTATTAAATT
Found at i:15286839 original size:37 final size:37
Alignment explanation
Indices: 15286732--15286840 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
15286722 AGCTCAGATG
* * *
15286732 AAATCTCCACACGAAGTTATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
15286769 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
15286806 TAATCTCCATACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
15286841 ATATATATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:15287283 original size:98 final size:98
Alignment explanation
Indices: 15286992--15287435 Score: 743
Period size: 98 Copynumber: 4.5 Consensus size: 98
15286982 CATCGCCTAC
* *
15286992 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
15287057 TTCGGCTTTACCACATATGCATATCTC--ATAC
66 TTCGGCTTTACCACATATACATATCTCATATAT
*
15287088 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACATT-
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACATTA
15287152 GACCATTCGGCTTTACCACATATACATATCTCATATAT
62 G-CCATTCGGCTTTACCACATATACATATCTCATATAT
15287190 ATA-TTCAGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
1 ATATTTCA-CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
15287254 ATTCGGCTTTACCACATATACATATCTCATATAT
65 ATTCGGCTTTACCACATATACATATCTCATATAT
*
15287288 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
15287353 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
*
15287386 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
15287436 CAATTTCAGC
Statistics
Matches: 331, Mismatches: 7, Indels: 18
0.93 0.02 0.05
Matches are distributed among these distances:
96 43 0.13
98 193 0.58
99 6 0.02
100 43 0.13
101 4 0.01
102 42 0.13
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (98 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATATAT
Found at i:15287443 original size:50 final size:48
Alignment explanation
Indices: 15286989--15287435 Score: 707
Period size: 48 Copynumber: 9.1 Consensus size: 48
15286979 ACACATCGCC
*
15286989 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
15287037 TACATATTTCACACTAGCCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
15287085 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
*
15287137 TATATATTTCACATT-GACCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
15287185 TATATATATTCAGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATAT-TTCA-CATTAGCCATTCGGCTTTACCACATATACATATCTCA
15287235 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
15287285 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
15287333 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
15287383 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
15287431 TACAT
1 TACAT
15287436 CAATTTCAGC
Statistics
Matches: 375, Mismatches: 12, Indels: 24
0.91 0.03 0.06
Matches are distributed among these distances:
48 187 0.50
49 8 0.02
50 133 0.35
51 2 0.01
52 45 0.12
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:15291392 original size:40 final size:40
Alignment explanation
Indices: 15291327--15291673 Score: 478
Period size: 40 Copynumber: 8.7 Consensus size: 40
15291317 CTAGCATGAT
* *
15291327 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * * * *
15291367 TGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
15291407 TGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * *
15291447 TGCTCTTCGGGACTTAGCCCGGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * *
15291487 TGCTCTTCGAGACTTAGCCCAGACATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * *
15291527 TGCTCTTCGGGACTTAGCCCGGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
15291567 TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * *
15291607 TGCTCTTCGAGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
15291647 TGCTATTCGGAACTTAGCCCGGATATA
1 TGCTCTTCGGGACTTAGCCCGGATATA
15291674 TATAACTCTC
Statistics
Matches: 268, Mismatches: 39, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 268 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:15291450 original size:80 final size:80
Alignment explanation
Indices: 15291327--15291673 Score: 561
Period size: 80 Copynumber: 4.3 Consensus size: 80
15291317 CTAGCATGAT
* * * * *
15291327 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAATGCTCTTCGGGACTTAACCCTGATA
1 TGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
15291392 TAACTCTAGCACAAA
66 TAACTCTAGCACAAA
15291407 TGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
15291472 TAACTCTAGCACAAA
66 TAACTCTAGCACAAA
* *
15291487 TGCTCTTCGAGACTTAGCCCAGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
15291552 TAACTCTAGCACAAA
66 TAACTCTAGCACAAA
* *
15291567 TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATA
1 TGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* * *
15291632 TATCACTAGCACGAA
66 TAACTCTAGCACAAA
*
15291647 TGCTATTCG-GAACTTAGCCCGGATATA
1 TGCTCTTCGAG-ACTTAGCCCGGATATA
15291674 TATAACTCTC
Statistics
Matches: 252, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
79 1 0.00
80 251 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (80 bp):
TGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
TAACTCTAGCACAAA
Found at i:15292991 original size:37 final size:37
Alignment explanation
Indices: 15292929--15293035 Score: 160
Period size: 37 Copynumber: 2.9 Consensus size: 37
15292919 AGCTCAGATG
* * *
15292929 AAATCTCCACACGAAGTTATTGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
* *
15292966 AAATCTCCACACGTAGTCATCGGGTCTTACCAGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
*
15293003 TAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCG
15293036 GAATATATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
Found at i:15293360 original size:50 final size:49
Alignment explanation
Indices: 15293186--15293634 Score: 685
Period size: 48 Copynumber: 9.1 Consensus size: 49
15293176 ACACATCGCC
*
15293186 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC-A
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCTA
* *
15293234 TACATATTTCACACTAGCCATTCGGCTTTACCACATATGCATATCTC-A
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCTA
15293282 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-TA
*
15293332 TATATATTTCACATT-GACCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTC-TA
* *
15293382 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTC-A
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCTA
15293430 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-----TA
* *
15293484 TATATATTTCAAATTAGCCATTCGGCTTTACCACATATACATATCT-TA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCTA
*
15293532 TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-TA
*
15293582 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT-TA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCTA
15293630 TACAT
1 TACAT
15293635 CAATTTCAGC
Statistics
Matches: 374, Mismatches: 15, Indels: 24
0.91 0.04 0.06
Matches are distributed among these distances:
48 189 0.51
49 1 0.00
50 138 0.37
51 1 0.00
54 45 0.12
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCTA
Found at i:15293437 original size:98 final size:98
Alignment explanation
Indices: 15293189--15293634 Score: 718
Period size: 98 Copynumber: 4.5 Consensus size: 98
15293179 CATCGCCTAC
* *
15293189 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
15293254 TTCGGCTTTACCACATATGCATATCTC--ATAC
66 TTCGGCTTTACCACATATACATATCTCATATAT
*
15293285 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT-GA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAG-
15293349 CCATTCGGCTTTACCACATATACATATCTCATATAT
63 CCATTCGGCTTTACCACATATACATATCTCATATAT
*
15293385 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
15293450 TTCGGCTTTACCACATATACATATCTCATATATATAT
66 TTCGGCTTTACCACATATACATATCTC----ATATAT
* *
15293487 ATATTTCAAATTAGCCATTCGGCTTTACCACATATACATATCTTATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
15293552 TTCGACTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
*
15293585 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
15293635 CAATTTCAGC
Statistics
Matches: 328, Mismatches: 12, Indels: 18
0.92 0.03 0.05
Matches are distributed among these distances:
96 43 0.13
97 1 0.00
98 143 0.44
99 1 0.00
100 46 0.14
102 94 0.29
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (98 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATATAT
Found at i:15296687 original size:18 final size:17
Alignment explanation
Indices: 15296664--15296726 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
15296654 TATTTGTAAC
15296664 ATTATATATATAAATTTT
1 ATTATAT-TATAAATTTT
*
15296682 ATTATATGTTATATATTTTT
1 ATTATA--TTATA-AATTTT
**
15296702 ATTATATTATTTATTTT
1 ATTATATTATAAATTTT
15296719 ATTATATT
1 ATTATATT
15296727 TTTATATGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 12 0.32
18 10 0.26
19 4 0.11
20 12 0.32
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTATATTATAAATTTT
Found at i:15296694 original size:23 final size:20
Alignment explanation
Indices: 15296678--15296725 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 20
15296668 TATATATAAA
15296678 TTTTATTATATGTTATATAT
1 TTTTATTATATGTTATATAT
*
15296698 TTTTATTATA--TTATTTA-
1 TTTTATTATATGTTATATAT
15296715 TTTTATTATAT
1 TTTTATTATAT
15296726 TTTTATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 10 0.38
18 6 0.23
20 10 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATTATATGTTATATAT
Found at i:15296703 original size:20 final size:18
Alignment explanation
Indices: 15296664--15296733 Score: 79
Period size: 18 Copynumber: 3.8 Consensus size: 18
15296654 TATTTGTAAC
* *
15296664 ATTATATATATAAATTTT
1 ATTATATTTATATATTTT
15296682 ATTATATGTTATATATTTTT
1 ATTATAT-TTATATA-TTTT
*
15296702 ATTATA-TTATTTATTTT
1 ATTATATTTATATATTTT
*
15296719 ATTATATTTTTATAT
1 ATTATATTTATATAT
15296734 GTAAAATATT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
17 10 0.23
18 19 0.43
19 5 0.11
20 10 0.23
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (18 bp):
ATTATATTTATATATTTT
Found at i:15296732 original size:25 final size:28
Alignment explanation
Indices: 15296680--15296733 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
15296670 TATATAAATT
*
15296680 TTATTATATGTTATATATTTTTATTATA
1 TTATTATATGTTATATATATTTATTATA
*
15296708 TTATT-TATTTTAT-TATATTT-TTATA
1 TTATTATATGTTATATATATTTATTATA
15296733 T
1 T
15296734 GTAAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 6 0.25
27 7 0.29
28 5 0.21
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (28 bp):
TTATTATATGTTATATATATTTATTATA
Found at i:15300594 original size:15 final size:15
Alignment explanation
Indices: 15300558--15300607 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
15300548 CGATGTCCTT
15300558 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
15300572 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
15300588 TTT-CATCGCAT-CA
1 TTTGCATCTCATGCA
15300601 TTTGCAT
1 TTTGCAT
15300608 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:15308797 original size:44 final size:44
Alignment explanation
Indices: 15308738--15308866 Score: 195
Period size: 44 Copynumber: 2.9 Consensus size: 44
15308728 GATCTAAGAT
** *
15308738 GATTTGGTGTCTCTGTATTGTCAGAGGGCAGATTGAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATTGAAGATAGCA
* * *
15308782 GATTTGGCATTTCTGTATTGTCAGAGAGTAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATTGAAGATAGCA
*
15308826 GATTTGGCATCTCTGTATTGTCAGAGAGCAAATTGAAGATA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATTGAAGATA
15308867 TAGCAGATCT
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 75 1.00
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.32
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAGATTGAAGATAGCA
Found at i:15309001 original size:87 final size:89
Alignment explanation
Indices: 15308866--15309175 Score: 291
Period size: 89 Copynumber: 3.5 Consensus size: 89
15308856 AATTGAAGAT
* * * * *
15308866 ATAGCAGATCTGACTTTCAGAGGTTTTTACATCAAAGCAGATCCAAGATAACAGATCTGGTATCT
1 ATAGCAGATCTAACCTTCAGAGGTTTATACATCAAAGCAGATCCAAGATAACAGATATGGCATCT
15308931 CCATATTCGACGGAGAGCAGACAC
66 CCATATTCGACGGAGAGCAGACAC
* * *
15308955 ATAACAGATCTAACCTTCAGATGTTTATAC-T-AAAGCAGATCCAAGAT----GATTTGGCAT-T
1 ATAGCAGATCTAACCTTCAGAGGTTTATACATCAAAGCAGATCCAAGATAACAGATATGGCATCT
** * * * *
15309013 CTTGTGTTTAC-AAGGAGTA-AATCGAAGAC
66 C-CAT-ATT-CGACGGAG-AGCA--G-ACAC
* * * * *
15309042 ATAGCAGATCTGACTTTCAGAGGTTTTTACATCAAAGCAGATCCAAGATAACAGATATAGCGTCT
1 ATAGCAGATCTAACCTTCAGAGGTTTATACATCAAAGCAGATCCAAGATAACAGATATGGCATCT
15309107 CCATATTCGACGGAGAGCAGACAC
66 CCATATTCGACGGAGAGCAGACAC
* *
15309131 ATAGCAGATCTAACCTTCAGATGTTTATAC-T-GAAGCAGATCCAAG
1 ATAGCAGATCTAACCTTCAGAGGTTTATACATCAAAGCAGATCCAAG
15309176 TTGATTTGGC
Statistics
Matches: 173, Mismatches: 32, Indels: 34
0.72 0.13 0.14
Matches are distributed among these distances:
82 2 0.01
83 9 0.05
84 8 0.05
85 2 0.01
86 1 0.01
87 57 0.33
88 3 0.02
89 70 0.40
90 1 0.01
91 2 0.01
92 8 0.05
93 8 0.05
94 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (89 bp):
ATAGCAGATCTAACCTTCAGAGGTTTATACATCAAAGCAGATCCAAGATAACAGATATGGCATCT
CCATATTCGACGGAGAGCAGACAC
Found at i:15309120 original size:176 final size:176
Alignment explanation
Indices: 15308852--15309264 Score: 650
Period size: 176 Copynumber: 2.4 Consensus size: 176
15308842 ATTGTCAGAG
* *
15308852 AGCAAATTGAAGATATAGCAGATCTGACTTTCAGAGGTTTTTACATCAAAGCAGATCCAAGATAA
1 AGCAAATCGAAGACATAGCAGATCTGACTTTCAGAGGTTTTTACATCAAAGCAGATCCAAGATAA
* * *
15308917 CAGATCTGGTATCTCCATATTCGACGGAGAGCAGACACATAACAGATCTAACCTTCAGATGTTTA
66 CAGATATAGCATCTCCATATTCGACGGAGAGCAGACACATAACAGATCTAACCTTCAGATGTTTA
* *
15308982 TACTAAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
131 TACTAAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGA
*
15309028 AGTAAATCGAAGACATAGCAGATCTGACTTTCAGAGGTTTTTACATCAAAGCAGATCCAAGATAA
1 AGCAAATCGAAGACATAGCAGATCTGACTTTCAGAGGTTTTTACATCAAAGCAGATCCAAGATAA
* *
15309093 CAGATATAGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTA
66 CAGATATAGCATCTCCATATTCGACGGAGAGCAGACACATAACAGATCTAACCTTCAGATGTTTA
* *
15309158 TACTGAAGCAGATCCAAGTTGATTTGGCATCCTTGTGTTTACAAGA
131 TACTAAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGA
* * * * * *
15309204 AGCAAATCGAAGACATAGCAGGTCTGACCTTCAGATGTTTATAC-T-GAAGCAGATCTAAGAT
1 AGCAAATCGAAGACATAGCAGATCTGACTTTCAGAGGTTTTTACATCAAAGCAGATCCAAGAT
15309265 GATTTGGCAT
Statistics
Matches: 218, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
174 14 0.06
175 1 0.00
176 203 0.93
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (176 bp):
AGCAAATCGAAGACATAGCAGATCTGACTTTCAGAGGTTTTTACATCAAAGCAGATCCAAGATAA
CAGATATAGCATCTCCATATTCGACGGAGAGCAGACACATAACAGATCTAACCTTCAGATGTTTA
TACTAAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGA
Found at i:15309234 original size:87 final size:87
Alignment explanation
Indices: 15308953--15309362 Score: 388
Period size: 87 Copynumber: 4.7 Consensus size: 87
15308943 GAGAGCAGAC
* * * *
15308953 ACATAACAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
** * *
15309018 GTTTACAAGGAGTAAATCGAAG
66 GTCGACAAGAAGCAAATCGAAG
* * * * *
15309040 ACATAGCAGATCTGACTTTCAGAGGTTTTTACATCAAAGCAGATCCAAGATAACAGATATAGCGT
1 ACATAGCAGATCTGACCTTCAGATGTTTATAC-T-GAAGCAGATCCAAGAT----GAT-TTG-G-
* * * *
15309105 C-TCCATAT-TCGAC-GGAGAGC--A--G-AC
57 CATCCTTGTGTCGACAAGA-AGCAAATCGAAG
* *
15309129 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGTTGATTTGGCATCCTTGT
1 ACATAGCAGATCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
**
15309194 GTTTACAAGAAGCAAATCGAAG
66 GTCGACAAGAAGCAAATCGAAG
* *
15309216 ACATAGCAGGTCTGACCTTCAGATGTTTATACTGAAGCAGATCTAAGATGATTTGGCATCCTTGT
1 ACATAGCAGATCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
15309281 GTCGACAAGAAGCAAATCGAAG
66 GTCGACAAGAAGCAAATCGAAG
* * * ** * *
15309303 ACATAGCAGATTTGGCTTTCATG-TGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATC
1 ACATAGCAGATCTGACCTTCA-GATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATC
15309363 TCTATATTGT
Statistics
Matches: 263, Mismatches: 41, Indels: 38
0.77 0.12 0.11
Matches are distributed among these distances:
80 1 0.00
81 6 0.02
82 8 0.03
83 5 0.02
84 1 0.00
86 1 0.00
87 174 0.66
88 3 0.01
89 45 0.17
90 1 0.00
92 1 0.00
93 4 0.02
94 7 0.03
95 5 0.02
96 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (87 bp):
ACATAGCAGATCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
GTCGACAAGAAGCAAATCGAAG
Found at i:15313806 original size:20 final size:19
Alignment explanation
Indices: 15313781--15313841 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
15313771 TAACATTATA
15313781 TATATAATTTTATTATATGT
1 TATATAATTTTATTATAT-T
*
15313801 TATATATTTTTATTATA-T
1 TATATAATTTTATTATATT
*
15313819 TAT-TTATTTTATTATATT
1 TATATAATTTTATTATATT
15313837 T-TATA
1 TATATA
15313842 TGTAAAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 12 0.34
18 7 0.20
20 16 0.46
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TATATAATTTTATTATATT
Found at i:15313836 original size:17 final size:17
Alignment explanation
Indices: 15313750--15313836 Score: 68
Period size: 17 Copynumber: 4.9 Consensus size: 17
15313740 TAATAATATA
15313750 TTATTTTATTTATATTAT
1 TTATTTTA-TTATATTAT
* ***
15313768 TTGTAACATTATA-TAT
1 TTATTTTATTATATTAT
*
15313784 ATAATTTTATTATATGTTAT
1 -TTATTTTATTATA--TTAT
*
15313804 ATATTTTTATTATATTAT
1 TTA-TTTTATTATATTAT
15313822 TTATTTTATTATATT
1 TTATTTTATTATATT
15313837 TTATATGTAA
Statistics
Matches: 52, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
16 3 0.06
17 25 0.48
18 10 0.19
19 1 0.02
20 13 0.25
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.64
Consensus pattern (17 bp):
TTATTTTATTATATTAT
Found at i:15318692 original size:26 final size:26
Alignment explanation
Indices: 15318656--15318762 Score: 178
Period size: 26 Copynumber: 4.1 Consensus size: 26
15318646 GAAATGCCCG
*
15318656 TCATGGAACATTTACCTAAACCATTA
1 TCATGGAACATTTACCTAACCCATTA
15318682 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
* *
15318708 TCATGGAATATTTACCTAATCCATTA
1 TCATGGAACATTTACCTAACCCATTA
*
15318734 TCATGGAACATTTGCCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
15318760 TCA
1 TCA
15318763 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TCATGGAACATTTACCTAACCCATTA
Found at i:15328771 original size:26 final size:26
Alignment explanation
Indices: 15328735--15328867 Score: 230
Period size: 26 Copynumber: 5.1 Consensus size: 26
15328725 GAAATGCCCG
*
15328735 TCATGGAACATTTACCTAAACCATTA
1 TCATGGAACATTTACCTAACCCATTA
15328761 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
*
15328787 TCATGGAACGTTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
* *
15328813 TCATGGAATATTTACCTAATCCATTA
1 TCATGGAACATTTACCTAACCCATTA
15328839 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
15328865 TCA
1 TCA
15328868 ATTTGTACCA
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 100 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (26 bp):
TCATGGAACATTTACCTAACCCATTA
Found at i:15335737 original size:55 final size:55
Alignment explanation
Indices: 15335639--15335766 Score: 141
Period size: 55 Copynumber: 2.3 Consensus size: 55
15335629 TCGAGCCTAC
* * * * *
15335639 CAAAACAACACAGGCGTGCGACACGCCCGTGTGGAAGAACCGTGGGT-GAACCTGT
1 CAAAATAACACGGGCGTGCAACACGCCCGTGTCGAACAACCGT-GGTCGAACCTGT
* * * * *
15335694 TAAAATAGCATGGGCGTGCAACACGCCCGTGTCTAACACCCGTGGTCGAACCTGT
1 CAAAATAACACGGGCGTGCAACACGCCCGTGTCGAACAACCGTGGTCGAACCTGT
*
15335749 CAAATTAACACGGGCGTG
1 CAAAATAACACGGGCGTG
15335767 GGGCTCTCAT
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
54 3 0.05
55 55 0.95
ACGTcount: A:0.28, C:0.27, G:0.28, T:0.16
Consensus pattern (55 bp):
CAAAATAACACGGGCGTGCAACACGCCCGTGTCGAACAACCGTGGTCGAACCTGT
Found at i:15345343 original size:14 final size:14
Alignment explanation
Indices: 15345307--15345345 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
15345297 ATATAAAGTA
15345307 AAACAAAAGAAAAAG
1 AAAC-AAAGAAAAAG
* *
15345322 AGAGAAAGAAAAAG
1 AAACAAAGAAAAAG
15345336 AAACAAAGAA
1 AAACAAAGAA
15345346 GGAGACGAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 18 0.90
15 2 0.10
ACGTcount: A:0.77, C:0.05, G:0.18, T:0.00
Consensus pattern (14 bp):
AAACAAAGAAAAAG
Found at i:15345650 original size:21 final size:21
Alignment explanation
Indices: 15345596--15345651 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
15345586 TATGAAATGG
* *
15345596 ATTGAATATTGATTATATTGA
1 ATTGATTATTGAATATATTGA
15345617 ATTGATT-TATGAATATATGTGA
1 ATTGATTAT-TGAATATAT-TGA
15345639 ATTG-TTATTGAAT
1 ATTGATTATTGAAT
15345652 TGAAATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 1 0.03
21 21 0.70
22 8 0.27
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (21 bp):
ATTGATTATTGAATATATTGA
Found at i:15346036 original size:5 final size:5
Alignment explanation
Indices: 15346009--15346065 Score: 51
Period size: 5 Copynumber: 11.2 Consensus size: 5
15345999 AGTGGAAAAG
* * * * *
15346009 TGAATT TGATT TGATT TGGAT TGAAT TGAAT TGAAT TGAAT GGAAT GGAAT
1 TGAA-T TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT
*
15346060 GGAAT T
1 TGAAT T
15346066 ATGATTAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
5 42 0.93
6 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.40
Consensus pattern (5 bp):
TGAAT
Found at i:15346660 original size:45 final size:45
Alignment explanation
Indices: 15346473--15346667 Score: 246
Period size: 45 Copynumber: 4.3 Consensus size: 45
15346463 CTGTTACCGC
* * *
15346473 TACTGCTACTGTTATCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
** * * * *
15346518 TACTACTACTGTTATCGATTCGGCACTGTGTCTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
15346563 TACTGTTACCATTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
** * *
15346608 TACTGTTACCGTTACCGATTCAACACTTTGTGTGTTGAATACTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
15346653 TATTGTTACTGTTAC
1 TACTGTTACCGTTAC
15346668 TATTCCGGAT
Statistics
Matches: 133, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 133 1.00
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:15346868 original size:18 final size:18
Alignment explanation
Indices: 15346847--15347037 Score: 135
Period size: 18 Copynumber: 10.6 Consensus size: 18
15346837 TAACTGATTA
15346847 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
15346865 TTACCGAATAACTGACTG
1 TTACTGAATAATTGACTG
*
15346883 TTACT-AGAT-ATTAGACTA
1 TTACTGA-ATAATT-GACTG
* * *
15346901 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
15346919 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
15346937 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
15346955 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* * *
15346973 CTACTAAATAACTT-AATAG
1 TTACTGAATAA-TTGACT-G
*
15346992 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
15347009 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
15347027 TTAATGAATAA
1 TTACTGAATAA
15347038 CCGCTCAATT
Statistics
Matches: 138, Mismatches: 21, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
17 19 0.14
18 103 0.75
19 16 0.12
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.36
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:15346887 original size:36 final size:35
Alignment explanation
Indices: 15346835--15347117 Score: 169
Period size: 36 Copynumber: 7.7 Consensus size: 35
15346825 AAAGGTATAA
* * *
15346835 AATAACTGATTATTACTGAATAATTGACTGTTACCG
1 AATAACTGACTGTTACTGAATAATTGA-TGTTACTG
*
15346871 AATAACTGACTGTTACT-AGAT-ATTAGACTATTACTG
1 AATAACTGACTGTTACTGA-ATAATT-GA-TGTTACTG
* * *
15346907 AATAACTGAATATTACTGAATAATTGATCATTACTG
1 AATAACTGACTGTTACTGAATAATTGAT-GTTACTG
* * * *
15346943 AATAACTGATTGTCACTGAATGAA-TGACTGCTACTA
1 AATAACTGACTGTTACTGAAT-AATTGA-TGTTACTG
* * *
15346979 AATAACTTAATAGTTACTGAAT-ATCTGATTTTACTG
1 AATAACTGACT-GTTACTGAATAAT-TGATGTTACTG
* * *
15347015 AATAATTGACTGTTAATGAATAACCGCTCAATTGATCGATACTG
1 AATAACTGACTGTTACTG---AA----T-AATTGAT-GTTACTG
** * * *
15347059 AATAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGACTGTTACTGAATAATTGA-TGTTACTG
15347095 AATAACTGACTGTTACTGAATAA
1 AATAACTGACTGTTACTGAATAA
15347118 ATAATTATTC
Statistics
Matches: 191, Mismatches: 35, Indels: 42
0.71 0.13 0.16
Matches are distributed among these distances:
35 12 0.06
36 129 0.68
37 21 0.11
38 2 0.01
41 2 0.01
42 1 0.01
43 4 0.02
44 20 0.10
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (35 bp):
AATAACTGACTGTTACTGAATAATTGATGTTACTG
Found at i:15346983 original size:72 final size:72
Alignment explanation
Indices: 15346834--15347027 Score: 200
Period size: 72 Copynumber: 2.7 Consensus size: 72
15346824 TAAAGGTATA
* * * * *
15346834 AAATAACTGATTATTACTGAATAATTGA-CTGTTACCGAATAACTGACTGTTACTAGATATTAGA
1 AAATAACTGAATATTACTGAATAATTGATC-ATTACTGAATAACTGACTGTCACTAGATAATAGA
*
15346898 CTATTACT
65 CTACTACT
* *
15346906 GAATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCACT-GAATGAAT-G
1 AAATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTAG-AT-AATAG
*
15346969 ACTGCTACT
64 ACTACTACT
* * *
15346978 AAATAACTTAATAGTTACTGAAT-ATCTGAT-TTTACTGAATAATTGACTGT
1 AAATAACTGAATA-TTACTGAATAAT-TGATCATTACTGAATAACTGACTGT
15347028 TAATGAATAA
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
71 1 0.01
72 86 0.83
73 16 0.16
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (72 bp):
AAATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTAGATAATAGAC
TACTACT
Found at i:15347097 original size:18 final size:18
Alignment explanation
Indices: 15347076--15347117 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
15347066 GGTTATTATT
* *
15347076 GAATAATTGATTGTTACC
1 GAATAACTGACTGTTACC
*
15347094 GAATAACTGACTGTTACT
1 GAATAACTGACTGTTACC
15347112 GAATAA
1 GAATAA
15347118 ATAATTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (18 bp):
GAATAACTGACTGTTACC
Found at i:15348447 original size:15 final size:16
Alignment explanation
Indices: 15348415--15348447 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
15348405 TCTTTGATCC
15348415 TTCTTTTCTTTCTCAT
1 TTCTTTTCTTTCTCAT
*
15348431 TTCTTTT-TTTCTTAT
1 TTCTTTTCTTTCTCAT
15348446 TT
1 TT
15348448 ATAAGGTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (16 bp):
TTCTTTTCTTTCTCAT
Found at i:15350826 original size:5 final size:5
Alignment explanation
Indices: 15350816--15350860 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
15350806 TTTTATGCGT
15350816 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
15350861 ATAGAAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:15354788 original size:12 final size:12
Alignment explanation
Indices: 15354771--15354796 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15354761 CCACTGCAGT
15354771 AAAAAAAAAAAG
1 AAAAAAAAAAAG
15354783 AAAAAAAAAAAG
1 AAAAAAAAAAAG
15354795 AA
1 AA
15354797 GAATTTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:15356284 original size:52 final size:52
Alignment explanation
Indices: 15356218--15356317 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
15356208 TTACTATATT
15356218 TTTAAAACACTCTTAATTTATTTGTAAAATATAAAAACTCTAATAATAATTA
1 TTTAAAACACTCTTAATTTATTTGTAAAATATAAAAACTCTAATAATAATTA
* * * *
15356270 TTTAAAATATTCTTAATTTATTTGTGAAGTATAAAAACTCTAATAATA
1 TTTAAAACACTCTTAATTTATTTGTAAAATATAAAAACTCTAATAATA
15356318 GTTACCAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (52 bp):
TTTAAAACACTCTTAATTTATTTGTAAAATATAAAAACTCTAATAATAATTA
Found at i:15362770 original size:39 final size:39
Alignment explanation
Indices: 15362700--15362917 Score: 330
Period size: 39 Copynumber: 5.5 Consensus size: 39
15362690 ACAAAGCATG
* * * * *
15362700 CGGGACTTTAAGCTCGGATAAAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
15362740 CGGGACTTTAGCCCGGATATAACACTAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
15362780 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
15362819 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
15362858 CGGGACTTAGCTCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
15362897 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
15362918 TTCTCCATTA
Statistics
Matches: 166, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 145 0.87
40 21 0.13
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:15367717 original size:39 final size:39
Alignment explanation
Indices: 15367618--15367719 Score: 177
Period size: 39 Copynumber: 2.6 Consensus size: 39
15367608 CATATTCACT
* *
15367618 TTTAAGCATATATCACATTACACATATAATCACATAAAA
1 TTTAAGCATATATCACAATACTCATATAATCACATAAAA
*
15367657 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAAAA
15367696 TTTAAGCATATATCACAATACTCA
1 TTTAAGCATATATCACAATACTCA
15367720 AAAACATGTT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAAAA
Found at i:15367772 original size:15 final size:15
Alignment explanation
Indices: 15367752--15367794 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
15367742 ACATAATGGT
15367752 CACATATCATATAAA
1 CACATATCATATAAA
* *
15367767 CACATATCACAATACA
1 CACATATCA-TATAAA
15367783 CACATATTCATA
1 CACATA-TCATA
15367795 ATTTAAGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 9 0.39
16 11 0.48
17 3 0.13
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (15 bp):
CACATATCATATAAA
Found at i:15372530 original size:62 final size:59
Alignment explanation
Indices: 15372461--15372577 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
15372451 AGTGATTATC
* * *
15372461 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAACATTATATTATTTTAATAAGAT
*
15372523 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTATTTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAACATTATATTATTTTAATA
15372578 TTCAAGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.43
60 1 0.02
61 1 0.02
62 27 0.53
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAACATTATATTATTTTAATAAGAT
Found at i:15393094 original size:13 final size:13
Alignment explanation
Indices: 15393076--15393100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15393066 ATAAGTGATT
15393076 TTGATGATTTTTC
1 TTGATGATTTTTC
15393089 TTGATGATTTTT
1 TTGATGATTTTT
15393101 GCACTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:15393941 original size:46 final size:46
Alignment explanation
Indices: 15393855--15393979 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 46
15393845 TACGAGGGTG
* * *
15393855 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGATGTA-AGCC
* * *
15393903 AGTGTAAGACATGTTTGGGTCATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATGTAAGCC
* *
15393949 AGTGTAAGACATGTGTGGCACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
15393980 TGCATGATGT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 45 0.67
47 13 0.19
48 9 0.13
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATGTAAGCC
Found at i:15394101 original size:47 final size:48
Alignment explanation
Indices: 15393990--15394118 Score: 145
Period size: 47 Copynumber: 2.6 Consensus size: 48
15393980 TGCATGATGT
* * *
15393990 GTCAGTATAAGACCTTGTTTGGGACATGGCATCGGTACGGATATGTGAGA
1 GTCAGTGTAAGACCATG-TTGGGACATGGCATC-GAACGGATATGTGAGA
** **
15394040 GTCAAAGTAAGACCATGCTTGGGACATGGCATC-AACTTA-ATGTGAGA
1 GTCAGTGTAAGACCATG-TTGGGACATGGCATCGAACGGATATGTGAGA
15394087 GTCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GTCAGTGTAAGACCATGT-TGGGACATGGCAT
15394119 AGGCATTATA
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.01
47 36 0.53
48 3 0.04
50 28 0.41
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (48 bp):
GTCAGTGTAAGACCATGTTGGGACATGGCATCGAACGGATATGTGAGA
Found at i:15395137 original size:28 final size:28
Alignment explanation
Indices: 15395097--15395152 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
15395087 CAAGGTTTTT
15395097 AGACACGGACGTGTCAT-GGCCGTGTGAG
1 AGACACGGACGTGT-ATAGGCCGTGTGAG
*
15395125 AGACACGGGCGTGTATCAGGCCGTGTGA
1 AGACACGGACGTGTAT-AGGCCGTGTGA
15395153 AAACCCCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 2 0.08
28 13 0.52
29 10 0.40
ACGTcount: A:0.21, C:0.21, G:0.39, T:0.18
Consensus pattern (28 bp):
AGACACGGACGTGTATAGGCCGTGTGAG
Found at i:15395205 original size:13 final size:13
Alignment explanation
Indices: 15395187--15395220 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
15395177 AATTTAATTC
15395187 ACACGGGCATGGG
1 ACACGGGCATGGG
15395200 ACACGGGCATGGG
1 ACACGGGCATGGG
15395213 ACACGGGC
1 ACACGGGC
15395221 GTGTCCCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.26, G:0.44, T:0.06
Consensus pattern (13 bp):
ACACGGGCATGGG
Found at i:15400848 original size:13 final size:13
Alignment explanation
Indices: 15400830--15400854 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15400820 GTAAGTGATT
15400830 TTGATGATTTTTC
1 TTGATGATTTTTC
15400843 TTGATGATTTTT
1 TTGATGATTTTT
15400855 GCACTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:15401633 original size:47 final size:48
Alignment explanation
Indices: 15401563--15401923 Score: 201
Period size: 47 Copynumber: 7.7 Consensus size: 48
15401553 TTTGTGTGCT
*
15401563 AGTGTAAGA-CATGTCTGGCACAT-GCATCGGCCACATTATAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATAAGAGCC
* * *
15401609 AGTGTAAGACCATGTCTGGGACATGGCATTGG---CATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-ATA--AGAGCC
* * * *
15401657 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTAT-AAGAGCC
* ** * * *
15401703 AGTGTAAGA-CATGTCTGGGATAT-GCATCGGTTACATGAT--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATAAGAGCC
* * * *
15401747 AGTATAAGACCATGTCTGGGACATGGCATCGG-CATGGA-TACGTGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA--CATTA--TAAGAGCC
* * * *
15401797 AGTGTAAGACCATGCCTGGGACATGGCAT---CAAC-TTAACGTGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-A--TAAGAGCC
* *
15401844 AGTGTAAGACCATGTTTGGGACATGGCGTC-G--AC-TTAGCGTAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTA---TAAGAGCC
*
15401891 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
15401924 ATTATACCCT
Statistics
Matches: 254, Mismatches: 33, Indels: 53
0.75 0.10 0.16
Matches are distributed among these distances:
44 10 0.04
45 19 0.07
46 63 0.25
47 105 0.41
48 24 0.09
49 1 0.00
50 32 0.13
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATAAGAGCC
Found at i:15401707 original size:46 final size:46
Alignment explanation
Indices: 15401563--15401821 Score: 195
Period size: 46 Copynumber: 5.5 Consensus size: 46
15401553 TTTGTGTGCT
* * * * *
15401563 AGTGTAAGACATGTCTGGCACATGCATCGGCCAC-ATTATAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCGA-GATGAGAGCC
* * * *
15401609 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTCGAGATGAGAGCC
15401657 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATG-AGAGCC
* * * * * *
15401703 AGTGTAAGACATGTCTGGGATATGCATCGG--T-TACATGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATGA-GAGCC
* * * * * *
15401747 AGTATAAGACCATGTCTGGGACATGGCATCGGCATGGATACGTGAGAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTCGAGA--TGAGAGCC
*
15401797 AGTGTAAGACCATGCCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
15401822 GCATCAACTT
Statistics
Matches: 174, Mismatches: 26, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
42 1 0.01
43 4 0.02
44 11 0.06
45 13 0.07
46 61 0.35
47 28 0.16
48 23 0.13
49 4 0.02
50 26 0.15
51 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATGAGAGCC
Found at i:15401801 original size:140 final size:140
Alignment explanation
Indices: 15401563--15401821 Score: 353
Period size: 140 Copynumber: 1.8 Consensus size: 140
15401553 TTTGTGTGCT
* *
15401563 AGTGTAAGACATGTCTGGCACATGCATCGGCCACATTATAAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGCACATGCATCGGCCACATGAT-AGAGCCAGTATAAGACCATGTCTGG
* * *
15401628 GACATGGCATTGGCATTGAGACGAGAGCTAGTGTAAGA-CATGTCTGGGACATGCATTGGCCTCG
65 GACATGGCATCGGCATGGAGACGAGAGCTAGTGTAAGACCATGCCTGGGACATGCATTGGCCTCG
15401692 AGATGTAAGCC
130 AGATGTAAGCC
* * ** * *
15401703 AGTGTAAGACATGTCTGGGATATGCATCGGTTACATGAT-GTGTCAGTATAAGACCATGTCTGGG
1 AGTGTAAGACATGTCTGGCACATGCATCGGCCACATGATAGAGCCAGTATAAGACCATGTCTGGG
*
15401767 ACATGGCATCGGCATGGATACGTGAGAG-TCAGTGTAAGACCATGCCTGGGACATG
66 ACATGGCATCGGCATGGAGAC--GAGAGCT-AGTGTAAGACCATGCCTGGGACATG
15401822 GCATCAACTT
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
138 40 0.39
139 1 0.01
140 48 0.47
141 14 0.14
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGCACATGCATCGGCCACATGATAGAGCCAGTATAAGACCATGTCTGGG
ACATGGCATCGGCATGGAGACGAGAGCTAGTGTAAGACCATGCCTGGGACATGCATTGGCCTCGA
GATGTAAGCC
Found at i:15406832 original size:13 final size:13
Alignment explanation
Indices: 15406814--15406853 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
15406804 GAAGAAATCA
15406814 CACATGGGCGTGT
1 CACATGGGCGTGT
15406827 CACATGGGCGTGT
1 CACATGGGCGTGT
15406840 CACATGGGCGTGT
1 CACATGGGCGTGT
15406853 C
1 C
15406854 CCTATTGAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.15, C:0.25, G:0.38, T:0.23
Consensus pattern (13 bp):
CACATGGGCGTGT
Found at i:15414134 original size:40 final size:39
Alignment explanation
Indices: 15414080--15414161 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 39
15414070 GACTTATCGA
* *
15414080 CTAAAATGGCACTTAGTGTG-AGGTTCGAAATAGCTTCGG
1 CTAAAATGACACTTAGTGTGCA-ATTCGAAATAGCTTCGG
* *
15414119 CTAAAAGTGACACTTAGTGTGCAATTTGAGATAGCTTCGG
1 CTAAAA-TGACACTTAGTGTGCAATTCGAAATAGCTTCGG
15414159 CTA
1 CTA
15414162 TATTTATGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 6 0.16
40 30 0.81
41 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (39 bp):
CTAAAATGACACTTAGTGTGCAATTCGAAATAGCTTCGG
Found at i:15422586 original size:25 final size:25
Alignment explanation
Indices: 15422558--15422608 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
15422548 CCCTTATAAT
* *
15422558 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
15422583 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
15422608 G
1 G
15422609 GATATGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:15422755 original size:25 final size:25
Alignment explanation
Indices: 15422721--15422790 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
15422711 GAGGAAGTGC
*
15422721 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
15422746 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
15422771 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
15422791 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:15422803 original size:24 final size:24
Alignment explanation
Indices: 15422720--15422803 Score: 116
Period size: 25 Copynumber: 3.4 Consensus size: 24
15422710 GGAGGAAGTG
*
15422720 CAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
15422744 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
15422769 CAAAAAGGGCTTTGCCCCAG-TTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
*
15422793 TAAAAGAGGCT
1 CAAAAG-GGCT
15422804 AGGCCTCCAG
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
23 5 0.09
24 9 0.16
25 41 0.75
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:15422814 original size:50 final size:50
Alignment explanation
Indices: 15422721--15422815 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
15422711 GAGGAAGTGC
**
15422721 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
**
15422771 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
15422816 ATATGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 24 0.62
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:15430387 original size:25 final size:25
Alignment explanation
Indices: 15430359--15430409 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
15430349 CCCTTATAAT
* *
15430359 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
15430384 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
15430409 G
1 G
15430410 GATATGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:15430461 original size:10 final size:10
Alignment explanation
Indices: 15430448--15430486 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
15430438 CTGTTTTATA
15430448 CATGATATGC
1 CATGATATGC
15430458 CATGATATGC
1 CATGATATGC
15430468 ACATGATATGC
1 -CATGATATGC
15430479 CATGATAT
1 CATGATAT
15430487 ATTCATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:15430473 original size:21 final size:21
Alignment explanation
Indices: 15430447--15430486 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
15430437 ACTGTTTTAT
15430447 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
15430468 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
15430487 ATTCATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:15430589 original size:24 final size:24
Alignment explanation
Indices: 15430531--15430603 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 24
15430521 GGAGGAAGTG
*
15430531 CAAAAG-GGCTTTTCCCCAGTTTAT
1 CAAAAGAGGCTTTGCCCCAG-TTAT
15430555 CAAAA-AGGGCTTTGCCCCAGTTAT
1 CAAAAGA-GGCTTTGCCCCAGTTAT
* **
15430579 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAGAGGCTTTGCC-CCAGTTAT
15430604 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
24 20 0.49
25 21 0.51
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
CAAAAGAGGCTTTGCCCCAGTTAT
Found at i:15441807 original size:43 final size:42
Alignment explanation
Indices: 15441759--15441928 Score: 148
Period size: 43 Copynumber: 4.0 Consensus size: 42
15441749 GTTATCGAGA
*
15441759 TGTGATTAGATGTAAGACAATGTCTAGGACATTGGCATTGTAT
1 TGTGATTAG-TGTAAGACCATGTCTAGGACATTGGCATTGTAT
* * * *
15441802 TGTGATTACGTGTAAGACCATGTCTGGGAAATTAGCATCGTTAT
1 TGTGATTA-GTGTAAGACCATGTCTAGGACATTGGCATTG-TAT
* * *
15441846 T-TGATTTCGTGTAAGACCTTGTCTAGGACAGTGGCATTG-AT
1 TGTGA-TTAGTGTAAGACCATGTCTAGGACATTGGCATTGTAT
* * * * *
15441887 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 -TGTGATTA-GTGTAAGACCATGTCTAGGACATTGGCATTGTA
15441929 CAAGTTATAT
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
41 2 0.02
42 10 0.10
43 82 0.81
44 7 0.07
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.34
Consensus pattern (42 bp):
TGTGATTAGTGTAAGACCATGTCTAGGACATTGGCATTGTAT
Found at i:15444683 original size:21 final size:20
Alignment explanation
Indices: 15444655--15444694 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
15444645 CAAAACTTGT
15444655 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
15444675 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
15444695 AAAATACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:15445688 original size:15 final size:15
Alignment explanation
Indices: 15445668--15445710 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
15445658 AAGTAACTTC
15445668 AATAATAATGAAAAT
1 AATAATAATGAAAAT
15445683 AATAATAAT-AAAGAT
1 AATAATAATGAAA-AT
15445698 AATAA-AATGAAAA
1 AATAATAATGAAAA
15445711 CAAAATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
AATAATAATGAAAAT
Found at i:15449123 original size:39 final size:39
Alignment explanation
Indices: 15449069--15449147 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
15449059 CCAATAGTGC
15449069 AAATATTTTAAGGTTGGAATTATCTAGAAACTAAGGAAA
1 AAATATTTTAAGGTTGGAATTATCTAGAAACTAAGGAAA
15449108 AAATATTTTAAGGTTGGAATTATCTAGAAACTAAGGAAA
1 AAATATTTTAAGGTTGGAATTATCTAGAAACTAAGGAAA
15449147 A
1 A
15449148 TGGATTAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.30
Consensus pattern (39 bp):
AAATATTTTAAGGTTGGAATTATCTAGAAACTAAGGAAA
Found at i:15449369 original size:22 final size:18
Alignment explanation
Indices: 15449338--15449390 Score: 52
Period size: 22 Copynumber: 2.7 Consensus size: 18
15449328 AATAAATAAA
*
15449338 TATTAGTTTATTAATATTT
1 TATTATTTTATT-ATATTT
15449357 TGATTTGATTTTAATTATATTT
1 T-A-TT-ATTTT-ATTATATTT
15449379 TATTATTTTATT
1 TATTATTTTATT
15449391 TAGTATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
18 3 0.10
19 6 0.21
20 3 0.10
21 3 0.10
22 11 0.38
23 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (18 bp):
TATTATTTTATTATATTT
Found at i:15451452 original size:101 final size:101
Alignment explanation
Indices: 15451273--15451501 Score: 287
Period size: 101 Copynumber: 2.3 Consensus size: 101
15451263 GAATTGATGG
* *
15451273 ATAAGACCATGGTTGGACCATGGCAATATTTATATGTAAGACCATAGCTGGGCTATGGAATTTTA
1 ATAAGACCATGGTTGGACCATGGCAATATTTATAAGTAAGACCATAGCTGGGCTATGGAATTCTA
**
15451338 ATGAAAATTCCATAACTAGTTTATGGCACTTTGAAC
66 ATGAAAAGACCATAACTAGTTTATGGCACTTTGAAC
* * * *
15451374 ATAAGACCATGGTTGGACCATGGCAGTATTTATAAGTAAGACCATAGTTGGGCTATGGCATTCTG
1 ATAAGACCATGGTTGGACCATGGCAATATTTATAAGTAAGACCATAGCTGGGCTATGGAATTCTA
* * * * ** *
15451439 ATGATAAGACCATAACTGGGTTATGACACTACGAAT
66 ATGAAAAGACCATAACTAGTTTATGGCACTTTGAAC
* * * *
15451475 GTAAGATCATGGCTGGGCCATGGCAAT
1 ATAAGACCATGGTTGGACCATGGCAAT
15451502 GCATGTGTAA
Statistics
Matches: 108, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
101 108 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (101 bp):
ATAAGACCATGGTTGGACCATGGCAATATTTATAAGTAAGACCATAGCTGGGCTATGGAATTCTA
ATGAAAAGACCATAACTAGTTTATGGCACTTTGAAC
Found at i:15454442 original size:49 final size:49
Alignment explanation
Indices: 15454321--15454508 Score: 241
Period size: 49 Copynumber: 3.8 Consensus size: 49
15454311 TGAGGTCGCA
* * * *
15454321 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-T-TGGTCACG
* * *
15454372 TGTGTATTACTAAGTGTAGGCTACTACGTGTACCAGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCACG
* * * *
15454421 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCACG
* *
15454470 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
15454509 GGTTTGGCTA
Statistics
Matches: 121, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
49 86 0.71
50 1 0.01
51 34 0.28
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCACG
Found at i:15457247 original size:93 final size:93
Alignment explanation
Indices: 15457136--15457306 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
15457126 GCCCATAAGT
* * *
15457136 GAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15457201 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
15457229 GAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15457294 CGAGTTCGGATGC
66 CGAGTTCGGATGC
15457307 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:15457303 original size:46 final size:46
Alignment explanation
Indices: 15457128--15457303 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
15457118 TGTAACCCGC
* * * * *
15457128 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
15457174 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
15457224 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
15457267 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
15457304 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 61 0.58
47 28 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:15472985 original size:16 final size:16
Alignment explanation
Indices: 15472964--15472995 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15472954 AATTTATTTA
*
15472964 AATTAATTAATTTTCT
1 AATTAAATAATTTTCT
15472980 AATTAAATAATTTTCT
1 AATTAAATAATTTTCT
15472996 TAACCGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTAAATAATTTTCT
Found at i:15480294 original size:17 final size:18
Alignment explanation
Indices: 15480267--15480300 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15480257 AATTAAATAT
15480267 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
15480285 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
15480301 TAAAAATAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:15480406 original size:13 final size:13
Alignment explanation
Indices: 15480383--15480415 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
15480373 AATTATATAT
15480383 TAAAGATTATCAAA
1 TAAA-ATTATCAAA
15480397 TAAAATTATCAAA
1 TAAAATTATCAAA
15480410 TAAAAT
1 TAAAAT
15480416 ATGATTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (13 bp):
TAAAATTATCAAA
Found at i:15501812 original size:55 final size:54
Alignment explanation
Indices: 15501725--15501979 Score: 256
Period size: 55 Copynumber: 4.8 Consensus size: 54
15501715 ATTAGGGTTT
* *
15501725 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCATAAGGC
* * * *
15501780 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGTA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-ATAAGG-C
* * *
15501836 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
* * * *
15501888 AAGGATACCATGTAAGACCATGTCGAGACATGACAATGGTAAGTTTC--AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
* * * * *
15501937 AAGGATACCATATAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
15501980 GTACCCGTGT
Statistics
Matches: 169, Mismatches: 26, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
49 37 0.22
52 6 0.04
53 42 0.25
54 12 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
Found at i:15501931 original size:108 final size:110
Alignment explanation
Indices: 15501732--15501934 Score: 313
Period size: 108 Copynumber: 1.9 Consensus size: 110
15501722 TTTAAGGATA
*
15501732 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
* *
15501797 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGTAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTTCTATAAGGTAAAGGTC
* *
15501842 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
15501904 ACCATGTCGAGACATGACAATGGTAAGTTTC
65 ACCATGTCAAGACATGACAATGATAAGTTTC
15501935 AAAAGGATAC
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 49 0.58
109 6 0.07
110 27 0.32
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTTCTATAAGGTAAAGGTC
Found at i:15507657 original size:29 final size:29
Alignment explanation
Indices: 15507615--15507673 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
15507605 ACACCCTAAG
* *
15507615 TGCCACATATATAGCCGAAGCTATCTCAA
1 TGCCACATATATAGACAAAGCTATCTCAA
15507644 TGCCACATATATAGACAAAGCTATCTCAA
1 TGCCACATATATAGACAAAGCTATCTCAA
15507673 T
1 T
15507674 CTCATATCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (29 bp):
TGCCACATATATAGACAAAGCTATCTCAA
Found at i:15513822 original size:21 final size:21
Alignment explanation
Indices: 15513798--15513843 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
15513788 GGCTGCAGGG
15513798 CTTCCTCATCTTCATCTTCTT
1 CTTCCTCATCTTCATCTTCTT
*
15513819 CTTCCTCATCTTCATTTTCTT
1 CTTCCTCATCTTCATCTTCTT
15513840 CTTC
1 CTTC
15513844 TTCAACATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.09, C:0.37, G:0.00, T:0.54
Consensus pattern (21 bp):
CTTCCTCATCTTCATCTTCTT
Found at i:15513867 original size:15 final size:15
Alignment explanation
Indices: 15513849--15513915 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 15
15513839 TCTTCTTCAA
* *
15513849 CATCCTCTTCATCCT
1 CATCCTCGTCATCAT
15513864 CATCCTC-TCCATCAT
1 CATCCTCGT-CATCAT
* *
15513879 CATCGTCGTCGTCAT
1 CATCCTCGTCATCAT
* * *
15513894 CCTCGTCGTCATCCT
1 CATCCTCGTCATCAT
15513909 CATCCTC
1 CATCCTC
15513916 ATCCTCAGGG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
14 1 0.02
15 40 0.95
16 1 0.02
ACGTcount: A:0.13, C:0.45, G:0.07, T:0.34
Consensus pattern (15 bp):
CATCCTCGTCATCAT
Found at i:15513868 original size:6 final size:6
Alignment explanation
Indices: 15513857--15513922 Score: 57
Period size: 6 Copynumber: 11.5 Consensus size: 6
15513847 AACATCCTCT
* * * * * *
15513857 TCATCC TCATCC TC-T-C -CATCA TCATCG TCGTCG TCATCC TCGTCG
1 TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC
15513902 TCATCC TCATCC TCATCC TCA
1 TCATCC TCATCC TCATCC TCA
15513923 GGGTCTTCAC
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 1 0.02
6 44 0.92
ACGTcount: A:0.15, C:0.44, G:0.08, T:0.33
Consensus pattern (6 bp):
TCATCC
Found at i:15514728 original size:26 final size:26
Alignment explanation
Indices: 15514678--15514730 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
15514668 ATATATATAT
**
15514678 ATGTTTAATATATTTAAAATTATAAA
1 ATGTTTAATATATTTAAAACAATAAA
15514704 ATGTTTAATATATTTAAAACAATAAA
1 ATGTTTAATATATTTAAAACAATAAA
15514730 A
1 A
15514731 CAAGTGGTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (26 bp):
ATGTTTAATATATTTAAAACAATAAA
Found at i:15516455 original size:12 final size:12
Alignment explanation
Indices: 15516440--15516473 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
15516430 TTTTATTTAT
15516440 AAAATTTTAAAA
1 AAAATTTTAAAA
*
15516452 AAAACTTT-AAA
1 AAAATTTTAAAA
15516463 AAAATTTTAAA
1 AAAATTTTAAA
15516474 TTTATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTTTAAAA
Found at i:15517354 original size:17 final size:17
Alignment explanation
Indices: 15517332--15517372 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
15517322 TCCAAATGAA
15517332 AGAAAAAAAATA-GAGTG
1 AGAAAAAAAATATGAG-G
15517349 AGAAAAAAAATATGAGG
1 AGAAAAAAAATATGAGG
15517366 -GAAAAAA
1 AGAAAAAA
15517373 TTAGTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.30
17 13 0.57
18 3 0.13
ACGTcount: A:0.68, C:0.00, G:0.22, T:0.10
Consensus pattern (17 bp):
AGAAAAAAAATATGAGG
Found at i:15519673 original size:22 final size:22
Alignment explanation
Indices: 15519621--15519673 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
15519611 ATCAATACTT
**
15519621 AAAAAAAGATTCTTTTGTTGTTC
1 AAAAAAA-ATTCTTTTGTTGACC
15519644 AAAAAAAATTCTTTTG-TGACC
1 AAAAAAAATTCTTTTGTTGACC
15519665 AAAATAAAA
1 AAAA-AAAA
15519674 ATGACATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 7 0.26
22 13 0.48
23 7 0.26
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.34
Consensus pattern (22 bp):
AAAAAAAATTCTTTTGTTGACC
Found at i:15521502 original size:23 final size:23
Alignment explanation
Indices: 15521474--15521517 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
15521464 ATACACTATA
15521474 AATTTTAACCTGTTGTAATAAAT
1 AATTTTAACCTGTTGTAATAAAT
* * *
15521497 AATTTTCACTTGTTTTAATAA
1 AATTTTAACCTGTTGTAATAA
15521518 TATTTGTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (23 bp):
AATTTTAACCTGTTGTAATAAAT
Found at i:15523790 original size:2 final size:2
Alignment explanation
Indices: 15523783--15523807 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15523773 TATAATTGTT
15523783 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
15523808 GAAATAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15528738 original size:36 final size:36
Alignment explanation
Indices: 15528687--15528763 Score: 129
Period size: 36 Copynumber: 2.2 Consensus size: 36
15528677 TATTAATGCA
* *
15528687 TTAT-TAGTTTGTACTGTAACTCTGTTTGTTTGTTC
1 TTATCTAGTTTGTACTGTAACTATGTTTGTTTATTC
15528722 TTATCTAGTTTGTACTGTAACTATGTTTGTTTATTC
1 TTATCTAGTTTGTACTGTAACTATGTTTGTTTATTC
15528758 TTATCT
1 TTATCT
15528764 CCTTTGCCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 4 0.10
36 35 0.90
ACGTcount: A:0.17, C:0.12, G:0.14, T:0.57
Consensus pattern (36 bp):
TTATCTAGTTTGTACTGTAACTATGTTTGTTTATTC
Done.