Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 80 of 127
Found at i:15364134 original size:16 final size:16
Alignment explanation
Indices: 15364109--15364143 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15364099 ATTAATCAAA
* *
15364109 ATATCGTAAATAAATC
1 ATATCATAAACAAATC
15364125 ATATCATAAACAAATC
1 ATATCATAAACAAATC
15364141 ATA
1 ATA
15364144 AGCACAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29
Consensus pattern (16 bp):
ATATCATAAACAAATC
Found at i:15365598 original size:15 final size:15
Alignment explanation
Indices: 15365578--15365607 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15365568 TATTATTATT
*
15365578 GTGCATAAATTTAAA
1 GTGCATAAATATAAA
15365593 GTGCATAAATATAAA
1 GTGCATAAATATAAA
15365608 ATATACTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (15 bp):
GTGCATAAATATAAA
Found at i:15369608 original size:2 final size:2
Alignment explanation
Indices: 15369601--15369630 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15369591 CAAATTTATG
15369601 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15369631 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15369635 original size:2 final size:2
Alignment explanation
Indices: 15369630--15369654 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15369620 ATATATATAT
15369630 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
15369655 AGTCAAAAGA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15370174 original size:4 final size:4
Alignment explanation
Indices: 15370133--15370159 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
15370123 CCAACTATAT
15370133 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
15370160 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:15370385 original size:80 final size:80
Alignment explanation
Indices: 15370254--15370404 Score: 178
Period size: 80 Copynumber: 1.9 Consensus size: 80
15370244 TTATGTTAAT
* * * * *
15370254 AATAATTACAAATACTAACAATTTAATTTTGTTTTGGTATAATATAGGTAAATTTTGATAACTTT
1 AATAATGACAAATACTAACAATTTAATTATGTTTTGGTATAATATAAGTAAAGTTTAATAACTTT
*
15370319 TTATATGCTTTTGAA
66 TGATATGCTTTTGAA
* * ** * *
15370334 AATAATGATAAATACTAATAATTTAA-TATGTATTTTTTATAGTATAAGTAAAGTTTAATAAGTT
1 AATAATGACAAATACTAACAATTTAATTATGT-TTTGGTATAATATAAGTAAAGTTTAATAACTT
15370398 TTGATAT
65 TTGATAT
15370405 AATTTTGATT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
79 4 0.07
80 54 0.93
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (80 bp):
AATAATGACAAATACTAACAATTTAATTATGTTTTGGTATAATATAAGTAAAGTTTAATAACTTT
TGATATGCTTTTGAA
Found at i:15370438 original size:21 final size:21
Alignment explanation
Indices: 15370412--15370526 Score: 65
Period size: 21 Copynumber: 5.5 Consensus size: 21
15370402 TATAATTTTG
* *
15370412 ATTTTGCTAACCTTTGATAAA
1 ATTTTGATAACATTTGATAAA
**
15370433 ATTTTGATAACATTTGATATT
1 ATTTTGATAACATTTGATAAA
** * * *
15370454 GGTTTGGTAAC-TCATGATATA
1 ATTTTGATAACAT-TTGATAAA
* *
15370475 ATTTTGGTAAC-TATTGATACA
1 ATTTTGATAACAT-TTGATAAA
** *
15370496 ATTTTGAT-AGTTTTTATAAA
1 ATTTTGATAACATTTGATAAA
15370516 ATTTTGATAAC
1 ATTTTGATAAC
15370527 CCCTTGATAT
Statistics
Matches: 72, Mismatches: 19, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
20 16 0.22
21 56 0.78
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (21 bp):
ATTTTGATAACATTTGATAAA
Found at i:15370897 original size:22 final size:22
Alignment explanation
Indices: 15370856--15370897 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15370846 AACAATTAAG
* *
15370856 TTATCATTTATTTAATACTATT
1 TTATCATTGATTTAACACTATT
*
15370878 TTATCATTGATTTACCACTA
1 TTATCATTGATTTAACACTA
15370898 AGCTATTCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.14, G:0.02, T:0.52
Consensus pattern (22 bp):
TTATCATTGATTTAACACTATT
Found at i:15371080 original size:22 final size:22
Alignment explanation
Indices: 15370934--15371080 Score: 86
Period size: 22 Copynumber: 6.6 Consensus size: 22
15370924 AGCATTAAAA
* * * *
15370934 TACTATTAATTTATGAATAACT
1 TACTATAAAGTTATCAATAATT
* *
15370956 TACTATAAAAGTTATGAATGATT
1 TACTAT-AAAGTTATCAATAATT
*
15370979 TACGAATAAA-TTATCAATAATT
1 TAC-TATAAAGTTATCAATAATT
* *
15371001 TACTA-ATAAGTT-GCTAATGATT
1 TACTATA-AAGTTATC-AATAATT
* *
15371023 TATTATAAAGTTA-CAACTGATT
1 TACTATAAAGTTATCAA-TAATT
* * * *
15371045 TATTATTAATTTATCGATAATT
1 TACTATAAAGTTATCAATAATT
15371067 TACTATAAAGTTAT
1 TACTATAAAGTTAT
15371081 TAATGATTAA
Statistics
Matches: 98, Mismatches: 18, Indels: 18
0.73 0.13 0.13
Matches are distributed among these distances:
20 1 0.01
21 6 0.06
22 68 0.69
23 21 0.21
24 2 0.02
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.43
Consensus pattern (22 bp):
TACTATAAAGTTATCAATAATT
Found at i:15371129 original size:22 final size:22
Alignment explanation
Indices: 15371104--15371214 Score: 64
Period size: 22 Copynumber: 5.0 Consensus size: 22
15371094 ATTTGCTACA
* *
15371104 AAATTATTACTGATTTACAATT
1 AAATTATCAATGATTTACAATT
* * *
15371126 AAATTA-GAATTGATTTGCAACT
1 AAATTATCAA-TGATTTACAATT
* * * * * *
15371148 AAGTGATTACTGATTTACTACT
1 AAATTATCAATGATTTACAATT
* *
15371170 AAGTTATCAATAATTTAC-ATCT
1 AAATTATCAATGATTTACAAT-T
*
15371192 AAATTATCAATGATTTACTATT
1 AAATTATCAATGATTTACAATT
15371214 A
1 A
15371215 TGTTAGTATG
Statistics
Matches: 68, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
21 2 0.03
22 63 0.93
23 3 0.04
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (22 bp):
AAATTATCAATGATTTACAATT
Found at i:15371254 original size:22 final size:21
Alignment explanation
Indices: 15371201--15371255 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
15371191 TAAATTATCA
*
15371201 ATGATTTACTATTATGTTAGT-
1 ATGATTTACTATTATGTCA-TC
*
15371222 ATGCATATACTATTATGTCATC
1 ATG-ATTTACTATTATGTCATC
15371244 ATTGATTTACTA
1 A-TGATTTACTA
15371256 AATTTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 4 0.14
22 22 0.79
23 2 0.07
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (21 bp):
ATGATTTACTATTATGTCATC
Found at i:15371370 original size:11 final size:11
Alignment explanation
Indices: 15371289--15371374 Score: 52
Period size: 11 Copynumber: 7.9 Consensus size: 11
15371279 ATCATTACAG
15371289 ATTTATTATTAA
1 ATTTATTATT-A
* *
15371301 ATTAACTA-TA
1 ATTTATTATTA
*
15371311 ATTTATTATCA
1 ATTTATTATTA
* * *
15371322 AGTTATCACTA
1 ATTTATTATTA
15371333 ATTTA-TATTA
1 ATTTATTATTA
* *
15371343 AATTATTCA-TG
1 ATTTATT-ATTA
15371354 ATTTATTATTA
1 ATTTATTATTA
*
15371365 AGTTATTATT
1 ATTTATTATT
15371375 GATTAAACTG
Statistics
Matches: 53, Mismatches: 17, Indels: 9
0.67 0.22 0.11
Matches are distributed among these distances:
10 15 0.28
11 31 0.58
12 7 0.13
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.52
Consensus pattern (11 bp):
ATTTATTATTA
Found at i:15371377 original size:22 final size:22
Alignment explanation
Indices: 15371288--15371647 Score: 141
Period size: 22 Copynumber: 16.3 Consensus size: 22
15371278 AATCATTACA
* *
15371288 GATTTATTATTAAATTAAC-TAT
1 GATTTATTATTAAGTTATCAT-T
* * *
15371310 AATTTATTATCAAGTTATCACT
1 GATTTATTATTAAGTTATCATT
* *
15371332 AATTTA-TATTAAATTATTCA-T
1 GATTTATTATTAAGTTA-TCATT
*
15371353 GATTTATTATTAAGTTATTATT
1 GATTTATTATTAAGTTATCATT
* * * *
15371375 GATTAAACTGTTGAGTTATCGA-T
1 GATT-TATTATTAAGTTATC-ATT
*
15371398 GATTTATTACTATTAAATTAT-ATT
1 GATTTA-T--TATTAAGTTATCATT
* *
15371422 AATTTACTT-TTAAGTT-TCCAAT
1 GATTTA-TTATTAAGTTAT-CATT
* *
15371444 GATTAATTATTAAATTATCATT
1 GATTTATTATTAAGTTATCATT
* * * *
15371466 GGTTTACTACTAAGTTAT-TTAT
1 GATTTATTATTAAGTTATCAT-T
***
15371488 GATTTATTACGGAGTTTATCAATT
1 GATTTATTATTAAG-TTATC-ATT
* * * ** *
15371512 -AATTACTATTAAATTAAAACT
1 GATTTATTATTAAGTTATCATT
*
15371533 GA-TTATTATTAAGTTATCACT
1 GATTTATTATTAAGTTATCATT
* * *
15371554 AATTTACTATTAAATTATCATT
1 GATTTATTATTAAGTTATCATT
* *
15371576 AATTTATTATTAAGTTATCAAT
1 GATTTATTATTAAGTTATCATT
* * * *
15371598 GATTAACTATTAAATAATCACTT
1 GATTTATTATTAAGTTATCA-TT
*
15371621 G-TTTTTTATTAA-TCTATCATT
1 GATTTATTATTAAGT-TATCATT
15371642 GATTTA
1 GATTTA
15371648 CTAATATGTT
Statistics
Matches: 245, Mismatches: 70, Indels: 46
0.68 0.19 0.13
Matches are distributed among these distances:
20 1 0.00
21 47 0.19
22 149 0.61
23 30 0.12
24 9 0.04
25 9 0.04
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (22 bp):
GATTTATTATTAAGTTATCATT
Found at i:15371582 original size:11 final size:11
Alignment explanation
Indices: 15371535--15371595 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
15371525 TTAAAACTGA
*
15371535 TTATTATTAAG
1 TTATCATTAAG
* *
15371546 TTATCACTAAT
1 TTATCATTAAG
*
15371557 TTA-CTATTAAA
1 TTATC-ATTAAG
*
15371568 TTATCATTAAT
1 TTATCATTAAG
*
15371579 TTATTATTAAG
1 TTATCATTAAG
15371590 TTATCA
1 TTATCA
15371596 ATGATTAACT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
10 1 0.03
11 37 0.95
12 1 0.03
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (11 bp):
TTATCATTAAG
Found at i:15371600 original size:110 final size:111
Alignment explanation
Indices: 15371295--15371601 Score: 292
Period size: 110 Copynumber: 2.7 Consensus size: 111
15371285 ACAGATTTAT
*
15371295 TATTAAATT-AACTATAATTTATTATCAAGTTATCACTAATTTATATTAAATTATTCA-TGATTT
1 TATTAAATTAAAC--TAATTTATTATTAAGTTATCACTAATTTATATTAAATTA-TCATTGATTT
* *
15371358 ATTATTAAGTTATTATTGA-TTAAACTGTTGAGTTATCGATGATTTATTAC
63 ATTATTAAGTTATTAATGATTTAAACTG-TGAGTTATCGA-GATTAATTAC
* * * * * *
15371408 TATTAAATTATATTAATTTACTT-TTAAGTT-TCCAATGATTAATTATTAAATTATCATTGGTTT
1 TATTAAATTAAACTAATTTA-TTATTAAGTTAT-CACTAATTTA-TATTAAATTATCATTGATTT
* * * *
15371471 ACTACTAAGTTATTTATGATTTATTAC-G-GAGTTTATC-A-ATTAATTAC
63 ATTATTAAGTTATTAATGATTTA-AACTGTGAG-TTATCGAGATTAATTAC
* *
15371518 TATTAAATTAAAACTGA-TTATTATTAAGTTATCACTAATTTACTATTAAATTATCATTAATTTA
1 TATTAAATT-AAACTAATTTATTATTAAGTTATCACTAATTTA-TATTAAATTATCATTGATTTA
*
15371582 TTATTAAGTTATCAATGATT
64 TTATTAAGTTATTAATGATT
15371602 AACTATTAAA
Statistics
Matches: 157, Mismatches: 26, Indels: 25
0.75 0.12 0.12
Matches are distributed among these distances:
109 2 0.01
110 69 0.44
111 6 0.04
112 27 0.17
113 46 0.29
114 5 0.03
115 2 0.01
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (111 bp):
TATTAAATTAAACTAATTTATTATTAAGTTATCACTAATTTATATTAAATTATCATTGATTTATT
ATTAAGTTATTAATGATTTAAACTGTGAGTTATCGAGATTAATTAC
Found at i:15371921 original size:22 final size:22
Alignment explanation
Indices: 15371896--15371938 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15371886 AGGTTAGTAA
*
15371896 TAATTGACAATTAAGTTATCAT
1 TAATTGACAATTAAGCTATCAT
* *
15371918 TAATTTACTATTAAGCTATCA
1 TAATTGACAATTAAGCTATCA
15371939 ATGATTTACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.42
Consensus pattern (22 bp):
TAATTGACAATTAAGCTATCAT
Found at i:15371945 original size:22 final size:22
Alignment explanation
Indices: 15371905--15371980 Score: 80
Period size: 22 Copynumber: 3.5 Consensus size: 22
15371895 ATAATTGACA
* *
15371905 ATTAAGTTATCATTAATTTACT
1 ATTAAGTTATCAATGATTTACT
*
15371927 ATTAAGCTATCAATGATTTACT
1 ATTAAGTTATCAATGATTTACT
* * *
15371949 ACTAAATTATTAATGATTTACT
1 ATTAAGTTATCAATGATTTACT
* *
15371971 ACTAATTTAT
1 ATTAAGTTAT
15371981 GAATAGTCAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (22 bp):
ATTAAGTTATCAATGATTTACT
Found at i:15373672 original size:1 final size:1
Alignment explanation
Indices: 15373666--15373691 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
15373656 GCCACACACC
15373666 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
15373692 CCAAGGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15375285 original size:18 final size:17
Alignment explanation
Indices: 15375242--15375288 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
15375232 TAAATTAAAA
*
15375242 TTTTGTTATAATTTATTT
1 TTTTGTT-TAATTCATTT
*
15375260 TATT-TTTAATTGCATTT
1 TTTTGTTTAATT-CATTT
15375277 TTTTGTTTAATT
1 TTTTGTTTAATT
15375289 AAAGTTAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.21
17 9 0.38
18 10 0.42
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.70
Consensus pattern (17 bp):
TTTTGTTTAATTCATTT
Found at i:15378032 original size:13 final size:12
Alignment explanation
Indices: 15378008--15378036 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
15377998 AAAAATCTTG
15378008 AAAACTAAAAAA
1 AAAACTAAAAAA
15378020 AAAACTAAAAAA
1 AAAACTAAAAAA
15378032 AAAAC
1 AAAAC
15378037 AAAGCAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAACTAAAAAA
Found at i:15378126 original size:47 final size:47
Alignment explanation
Indices: 15378072--15378325 Score: 268
Period size: 46 Copynumber: 5.5 Consensus size: 47
15378062 TTCAAAAGAT
** * *
15378072 TCAACAATTTTTTAAAATAAATTTAAAAACTCCTTTAGAAAAAAGAC
1 TCAACAATTTTAGAAAATAAATTTAAAAACTCCTTTAGAGAAAAGGC
* * * *
15378119 TCCACAATTTT-GAAAATAAATTTAAAAATTTTCGTTAG-GAAAAAGGC
1 TCAACAATTTTAGAAAATAAATTTAAAAA-CTCCTTTAGAG-AAAAGGC
* * **
15378166 TCAACAATGTTT-GAAAATAAATTTTAAAAGTTTTTTA-AGAAAAGGC
1 TCAACAAT-TTTAGAAAATAAATTTAAAAACTCCTTTAGAGAAAAGGC
* * *
15378212 TCAACAACTTTAAAAAATAAATTTAAAAACTCATTTAG-GAAAAGGC
1 TCAACAATTTTAGAAAATAAATTTAAAAACTCCTTTAGAGAAAAGGC
* * * *
15378258 TCCACAACTTTAGAAGATAAATTTAAAAACCCCTTTA-AGAAAAGGC
1 TCAACAATTTTAGAAAATAAATTTAAAAACTCCTTTAGAGAAAAGGC
15378304 TCAACAATTTTAGAAAATAAAT
1 TCAACAATTTTAGAAAATAAAT
15378326 CTCATCTCGG
Statistics
Matches: 174, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
45 3 0.02
46 117 0.67
47 35 0.20
48 19 0.11
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.30
Consensus pattern (47 bp):
TCAACAATTTTAGAAAATAAATTTAAAAACTCCTTTAGAGAAAAGGC
Found at i:15378457 original size:31 final size:32
Alignment explanation
Indices: 15378377--15378508 Score: 110
Period size: 34 Copynumber: 4.1 Consensus size: 32
15378367 AACTAAGCTC
* * *
15378377 AAATCTCA--TAGGTACCAGTTAAATTAGGTTT
1 AAATCTCATCTAGGTGCTAGTTAAA-TAGGCTT
* * *
15378408 AAATGTTCATTTAGGTGCTAATTAAAGTAGGCTT
1 AAAT-CTCATCTAGGTGCTAGTTAAA-TAGGCTT
* * * *
15378442 CATTCTTAT-T-GGTGCTAGTTAAATGGGCTT
1 AAATCTCATCTAGGTGCTAGTTAAATAGGCTT
15378472 AAATCTCATCTAGGTGCTAGTTAAACTAGGCTT
1 AAATCTCATCTAGGTGCTAGTTAAA-TAGGCTT
15378505 AAAT
1 AAAT
15378509 TTATTTTGGG
Statistics
Matches: 79, Mismatches: 16, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
30 12 0.15
31 17 0.22
32 17 0.22
33 13 0.16
34 20 0.25
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (32 bp):
AAATCTCATCTAGGTGCTAGTTAAATAGGCTT
Found at i:15378602 original size:33 final size:33
Alignment explanation
Indices: 15378525--15378612 Score: 101
Period size: 33 Copynumber: 2.7 Consensus size: 33
15378515 TGGGTGCCAA
*
15378525 CTAAACTGAACTTAAATCTC--TTCGGTACCAG
1 CTAAACTGAACTTAAATCTCATTTAGGTACCAG
*
15378556 CTAAACT-AGACTTAAATCTCATTTAGGTATCAG
1 CTAAACTGA-ACTTAAATCTCATTTAGGTACCAG
* * *
15378589 CTGAATTGAACTTAAATCTAATTT
1 CTAAACTGAACTTAAATCTCATTT
15378613 GAATGTCAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
30 1 0.02
31 18 0.38
33 28 0.58
34 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (33 bp):
CTAAACTGAACTTAAATCTCATTTAGGTACCAG
Found at i:15380779 original size:15 final size:16
Alignment explanation
Indices: 15380762--15380804 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
15380752 TTTTTTTTTC
*
15380762 TTTTTTCCTTTCTTCT
1 TTTTTTCCTTTCTTCA
*
15380778 TTTTTTCATTTC-TCA
1 TTTTTTCCTTTCTTCA
15380793 TTTTTTCACTTT
1 TTTTTTC-CTTT
15380805 TCTTTTCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTTCCTTTCTTCA
Found at i:15381260 original size:9 final size:9
Alignment explanation
Indices: 15381248--15381288 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
15381238 ATAATTTCCT
15381248 TTTTTTCTC
1 TTTTTTCTC
*
15381257 TTTTTTTTC
1 TTTTTTCTC
15381266 -TTTTTCAT-
1 TTTTTTC-TC
15381274 TTTTTTCTC
1 TTTTTTCTC
15381283 TTTTTT
1 TTTTTT
15381289 TTTTCACGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
8 6 0.22
9 21 0.78
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTCTC
Found at i:15381291 original size:15 final size:15
Alignment explanation
Indices: 15381250--15381292 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
15381240 AATTTCCTTT
15381250 TTTTCTCTTTTTTTTC
1 TTTT-TCTTTTTTTTC
*
15381266 TTTTTCATTTTTTTC
1 TTTTTCTTTTTTTTC
15381281 TCTTTT-TTTTTT
1 T-TTTTCTTTTTT
15381293 CACGCCCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTCTTTTTTTTC
Found at i:15382389 original size:23 final size:23
Alignment explanation
Indices: 15382357--15382411 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
15382347 TATTTATATA
15382357 TTTATATTTAAAAAATAATATTT
1 TTTATATTTAAAAAATAATATTT
*
15382380 TTTATTTTTAAAAAATAATATTT
1 TTTATATTTAAAAAATAATATTT
15382403 TATTA-ATTT
1 T-TTATATTT
15382412 CAGGTCAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTATATTTAAAAAATAATATTT
Found at i:15384530 original size:23 final size:24
Alignment explanation
Indices: 15384489--15384533 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
15384479 TAAATCTTTT
*
15384489 TTTTTTTTTTTAGTTTTTCTCTCA
1 TTTTTTTTTTTAGTGTTTCTCTCA
15384513 TTTTTTTTTTTA-TGTTTCTCT
1 TTTTTTTTTTTAGTGTTTCTCT
15384534 TTTCTCTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.07, C:0.11, G:0.04, T:0.78
Consensus pattern (24 bp):
TTTTTTTTTTTAGTGTTTCTCTCA
Found at i:15390916 original size:144 final size:145
Alignment explanation
Indices: 15390425--15390985 Score: 519
Period size: 145 Copynumber: 3.8 Consensus size: 145
15390415 CCATTTTTGG
* * * *
15390425 GATTTTAAA-ACACCAAAAATCATGAAATATTATAAAATTACGATATGAAAAG-TTTCATGAAAA
1 GATTTCAAATACACCAAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTTCATGAAAA
* * ** *
15390488 TTCGAGTGAGCTTGAGAAA-ACCAAATTACGAAAATACCCCTATAAGGGTATTTTGGTAATTTCA
66 -TC---TAAGCTCGA-AAAGGTCAAATTACCAAAATACCCCTATAAGGGTATTTTGGTAATTTCA
* * * * *
15390552 CATGTACAAAGTATTGATAT
126 CCTTTTCAAGGTATTGCTAT
* *
15390572 GATTTCAGATGCACCAAAAATCA-GAAAATATTATAAAATTAAGATCTAAAAAGTTTT-ATGAAA
1 GATTTCAAATACACCAAAAATCATG-AAATATTATAAAATTAAGATCTAAAAAGTTTTCATGAAA
* * * * * *
15390635 TTCCAAGCTCGAAAAGGTTAAATTA-CAAAAGTATCCCT-TAAAGGATAATTTGGTAATTTCACA
65 ATCTAAGCTCGAAAAGGTCAAATTACCAAAA-TACCCCTAT-AAGGGTATTTTGGTAATTTCAC-
* ** *
15390698 CTTCTCGGGGTACTGCTAT
127 CTTTTCAAGGTATTGCTAT
* ** * * *
15390717 GGTTTCAAGCACACCACAAATCATGAAATATTATAAATTTAAAATCTAAAAA-TTTTCATGAAAA
1 GATTTCAAATACACCAAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTTCATGAAAA
* * *
15390781 TCTAAACTCGAGAATGTCAAATTACCAAAATACCCCTATAAGGGTATTTTGGTAATTTCACTCTT
66 TCTAAGCTCGAAAAGGTCAAATTACCAAAATACCCCTATAAGGGTATTTTGGTAATTTCAC-CTT
15390846 TTC-AGGTATTGCTAT
130 TTCAAGGTATTGCTAT
* * * * * **
15390861 GATTTTAAATGCACTAAAAATCATGAAATATTATAAAATTAAGATTTAAAAATTTTTCACAAAAA
1 GATTTCAAATACACCAAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTTCATGAAAA
* * * * * *
15390926 TTTGAGCTCAAAAAGGTCAAATTACAAAAAATACCTCTTATAAAGGTATTTTGGTAATTT
66 TCTAAGCTCGAAAAGGTCAAATTAC-CAAAATACC-CCTATAAGGGTATTTTGGTAATTT
15390986 TGTCATTCTC
Statistics
Matches: 332, Mismatches: 68, Indels: 28
0.78 0.16 0.07
Matches are distributed among these distances:
143 8 0.02
144 94 0.28
145 137 0.41
146 15 0.05
147 32 0.10
148 43 0.13
149 3 0.01
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.32
Consensus pattern (145 bp):
GATTTCAAATACACCAAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTTCATGAAAA
TCTAAGCTCGAAAAGGTCAAATTACCAAAATACCCCTATAAGGGTATTTTGGTAATTTCACCTTT
TCAAGGTATTGCTAT
Found at i:15391412 original size:5 final size:5
Alignment explanation
Indices: 15391402--15391431 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
15391392 TTGCTTCTTT
15391402 TTTTG TTTTG TTTTG TTTTG TTTTG ATTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG -TTTT
15391432 TGATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.03, C:0.00, G:0.17, T:0.80
Consensus pattern (5 bp):
TTTTG
Found at i:15391926 original size:35 final size:35
Alignment explanation
Indices: 15391887--15392061 Score: 119
Period size: 35 Copynumber: 5.1 Consensus size: 35
15391877 ATAGAATAAT
* *
15391887 GACGACTAAAATTGAACTGCGAGTCAAAAACTAAA
1 GACGACTAAGATTGAACTGCAAGTCAAAAACTAAA
* *
15391922 GACGA-TAGGGATTG-ACTGCAAGTCAAAAAATAAA
1 GACGACTA-AGATTGAACTGCAAGTCAAAAACTAAA
* * * *
15391956 -ACGACCAAGATT-AAATCGCAAGTCAGAGACTAAA
1 GACGACTAAGATTGAACT-GCAAGTCAAAAACTAAA
* * * * *
15391990 GA-TAATGGAGATTGAATTGCGAGTCAAAAACTAAA
1 GACGACT-AAGATTGAACTGCAAGTCAAAAACTAAA
*** *
15392025 GACGA-TAAGGATTGAACCATAAGTCAAAAAATAAA
1 GACGACTAA-GATTGAACTGCAAGTCAAAAACTAAA
15392060 GA
1 GA
15392062 GTCAAATATT
Statistics
Matches: 105, Mismatches: 26, Indels: 18
0.70 0.17 0.12
Matches are distributed among these distances:
33 10 0.10
34 37 0.35
35 54 0.51
36 4 0.04
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.18
Consensus pattern (35 bp):
GACGACTAAGATTGAACTGCAAGTCAAAAACTAAA
Found at i:15392106 original size:104 final size:104
Alignment explanation
Indices: 15391705--15392128 Score: 354
Period size: 104 Copynumber: 4.1 Consensus size: 104
15391695 CACAAGTTAG
* * * * * * * * *
15391705 AAACTAAAGACGATAGGGATAGAACCGTGAGTTAAAAAATAAAAACAATCAAGATTGAATCATAA
1 AAACTAAAGACGATAGGGATTGAACCATAAGTCAAAAAAT-AAAACGACCAAGATTAAACCACAA
* * * ** * * *
15391770 GTTAGAGAATAATGACAATGGAA-ATTGAACTACAAGTCAA
65 GTCAGAGACTAAAGACAA-CAAAGATTGAATTGCGAGTCAA
** * ** **
15391810 AAACTAAAGATAATAGGGATTGAACCATGAA-TCAAAAAATAAAATGACCGGGATTAAACCATGA
1 AAACTAAAGACGATAGGGATTGAACCAT-AAGTCAAAAAATAAAACGACCAAGATTAAACCACAA
* * * * *
15391874 GTCATAGAATAATGACGACTAAA-ATTGAACTGCGAGTCAA
65 GTCAGAGACTAAAGACAAC-AAAGATTGAATTGCGAGTCAA
*** * *
15391914 AAACTAAAGACGATAGGGATTG-ACTGCAAGTCAAAAAATAAAACGACCAAGATTAAATCGCAAG
1 AAACTAAAGACGATAGGGATTGAACCATAAGTCAAAAAATAAAACGACCAAGATTAAACCACAAG
* ***
15391978 TCAGAGACTAAAGATAATGGAGATTGAATTGCGAGTCAA
66 TCAGAGACTAAAGACAACAAAGATTGAATTGCGAGTCAA
* * * *
15392017 AAACTAAAGACGATAAGGATTGAACCATAAGTCAAAAAATAAAGA-GTCAAATATTAAACCACAA
1 AAACTAAAGACGATAGGGATTGAACCATAAGTCAAAAAATAAA-ACGACCAAGATTAAACCACAA
* * *
15392081 GTAAGAGACTAAAGACAACAAAGATTGAATCGTGAGTCAA
65 GTCAGAGACTAAAGACAACAAAGATTGAATTGCGAGTCAA
*
15392121 AAAATAAA
1 AAACTAAA
15392129 AACAATCAGG
Statistics
Matches: 254, Mismatches: 59, Indels: 13
0.78 0.18 0.04
Matches are distributed among these distances:
102 3 0.01
103 78 0.31
104 139 0.55
105 33 0.13
106 1 0.00
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.19
Consensus pattern (104 bp):
AAACTAAAGACGATAGGGATTGAACCATAAGTCAAAAAATAAAACGACCAAGATTAAACCACAAG
TCAGAGACTAAAGACAACAAAGATTGAATTGCGAGTCAA
Found at i:15392120 original size:207 final size:209
Alignment explanation
Indices: 15391705--15392128 Score: 455
Period size: 207 Copynumber: 2.0 Consensus size: 209
15391695 CACAAGTTAG
** * * * *
15391705 AAACTAAAGACGATAGGGATAGAACCGTGAGTTAAAAAATAAAAACAATCAAGATTGAATCATAA
1 AAACTAAAGACGATAGGGATAGAACCGCAAGTCAAAAAATAAAAACAACCAAGATTAAATCACAA
* * * *
15391770 GTTAGAGAATAATGACAATGGAAATTGAACTACAAGTCAAAAACTAAAGATAATAGGGATTGAAC
66 GTCAGAGAATAAAGACAATGGAAATTGAACTACAAGTCAAAAACTAAAGACAATAAGGATTGAAC
*** ** * * * *
15391835 CATGAATCAAAAAATAAAATGACCGGGATTAAACCATGAGTCATAGAATAATGACGACTAAAATT
131 CATGAATCAAAAAATAAAATGACAAAGATTAAACCACAAGTAAGAGAATAAAGACAACTAAAATT
15391900 GAACTGCGAGTCAA
196 GAACTGCGAGTCAA
* * * *
15391914 AAACTAAAGACGATAGGGATTG-ACTGCAAGTCAAAAAAT-AAAACGACCAAGATTAAATCGCAA
1 AAACTAAAGACGATAGGGATAGAACCGCAAGTCAAAAAATAAAAACAACCAAGATTAAATCACAA
* * * * * * *
15391977 GTCAGAGACTAAAGATAATGGAGATTGAATTGCGAGTCAAAAACTAAAGACGATAAGGATTGAAC
66 GTCAGAGAATAAAGACAATGGAAATTGAACTACAAGTCAAAAACTAAAGACAATAAGGATTGAAC
* * *
15392042 CAT-AAGTCAAAAAATAAAGA-GTCAAATATTAAACCACAAGTAAGAGACTAAAGACAAC-AAAG
131 CATGAA-TCAAAAAATAAA-ATGACAAAGATTAAACCACAAGTAAGAGAATAAAGACAACTAAA-
*
15392104 ATTGAA-TCGTGAGTCAA
193 ATTGAACT-GCGAGTCAA
*
15392121 AAAATAAA
1 AAACTAAA
15392129 AACAATCAGG
Statistics
Matches: 176, Mismatches: 35, Indels: 10
0.80 0.16 0.05
Matches are distributed among these distances:
206 6 0.03
207 135 0.77
208 14 0.08
209 21 0.12
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.19
Consensus pattern (209 bp):
AAACTAAAGACGATAGGGATAGAACCGCAAGTCAAAAAATAAAAACAACCAAGATTAAATCACAA
GTCAGAGAATAAAGACAATGGAAATTGAACTACAAGTCAAAAACTAAAGACAATAAGGATTGAAC
CATGAATCAAAAAATAAAATGACAAAGATTAAACCACAAGTAAGAGAATAAAGACAACTAAAATT
GAACTGCGAGTCAA
Found at i:15392178 original size:70 final size:70
Alignment explanation
Indices: 15392069--15392200 Score: 160
Period size: 70 Copynumber: 1.9 Consensus size: 70
15392059 AGAGTCAAAT
*
15392069 ATTAAACCACAAGTAAGAGACTAAAGACAACAAAGATTGAATCGTGAGTCAAAAAATAAAAACAA
1 ATTAAACCACAAGTAAGAGACTAAAGACAACAAAGATTGAACCGTGAGTCAAAAAATAAAAACAA
15392134 TCAGG
66 TCAGG
* * * * * * *
15392139 ATTAAATCACAAGTCAGAGAAC-AATGACTACCAAA-ATTGAACCGTGTGTCCAAAACTAAAAA
1 ATTAAACCACAAGTAAGAG-ACTAAAGAC-AACAAAGATTGAACCGTGAGTCAAAAAATAAAAA
15392201 TGACAGTGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
70 45 0.87
71 7 0.13
ACGTcount: A:0.52, C:0.17, G:0.14, T:0.17
Consensus pattern (70 bp):
ATTAAACCACAAGTAAGAGACTAAAGACAACAAAGATTGAACCGTGAGTCAAAAAATAAAAACAA
TCAGG
Found at i:15392395 original size:35 final size:35
Alignment explanation
Indices: 15392356--15392422 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
15392346 TTGAATAGCA
* *
15392356 AGTCAAAAACTAAAAACAATAGGGATTGAACCGTG
1 AGTCAAAAAATAAAAACAATAGGGATTAAACCGTG
* * *
15392391 AGTCAAAAAATGAAAACGATTGGGATTAAACC
1 AGTCAAAAAATAAAAACAATAGGGATTAAACC
15392423 ACGAGTCAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.18
Consensus pattern (35 bp):
AGTCAAAAAATAAAAACAATAGGGATTAAACCGTG
Found at i:15392395 original size:104 final size:105
Alignment explanation
Indices: 15392286--15392474 Score: 254
Period size: 104 Copynumber: 1.8 Consensus size: 105
15392276 ATTGAACTAC
** * * * *
15392286 GAGTCAAAAAATAAAAATTATCGAGATTAAACCACGAGTTAGATAATAATGA-GACCGAAATTGA
1 GAGTCAAAAAATAAAAACGATCGAGATTAAACCACGAGTCAGAGAATAATGACAACCGAAATTAA
*
15392350 ATAGCAAGTCAAAAACTAAAAACAATAGGGATTGAACCGT
66 ACAGCAAGTCAAAAACTAAAAACAATAGGGATTGAACCGT
* * * *
15392390 GAGTCAAAAAATGAAAACGATTGGGATTAAACCACGAGTCAGAGAATAATGACAACTGAAATTAA
1 GAGTCAAAAAATAAAAACGATCGAGATTAAACCACGAGTCAGAGAATAATGACAACCGAAATTAA
**
15392455 ACAGTGAGTCAAAAACTAAA
66 ACAGCAAGTCAAAAACTAAA
15392475 GACGATACTA
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
104 45 0.63
105 26 0.37
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (105 bp):
GAGTCAAAAAATAAAAACGATCGAGATTAAACCACGAGTCAGAGAATAATGACAACCGAAATTAA
ACAGCAAGTCAAAAACTAAAAACAATAGGGATTGAACCGT
Found at i:15392429 original size:35 final size:35
Alignment explanation
Indices: 15392356--15392430 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
15392346 TTGAATAGCA
* * **
15392356 AGTCAAAAACTAAAAACAATAGGGATTGAACCGTG
1 AGTCAAAAAATAAAAACAATAGGGATTAAACCACG
* * *
15392391 AGTCAAAAAATGAAAACGATTGGGATTAAACCACG
1 AGTCAAAAAATAAAAACAATAGGGATTAAACCACG
15392426 AGTCA
1 AGTCA
15392431 GAGAATAATG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (35 bp):
AGTCAAAAAATAAAAACAATAGGGATTAAACCACG
Found at i:15392454 original size:35 final size:35
Alignment explanation
Indices: 15392415--15392630 Score: 108
Period size: 35 Copynumber: 6.2 Consensus size: 35
15392405 AACGATTGGG
* *
15392415 ATTAAACCACGAGTCAGAGAATAATGACAACTGAA
1 ATTAAACCACGAGTCAGAAAATAAAGACAACTGAA
*
15392450 ATTAAA-CAGTGAGTCA-AAAACTAAAGACGATACT--A
1 ATTAAACCA-CGAGTCAGAAAA-TAAAGAC-A-ACTGAA
* * *
15392485 ATTAAACCGCAAGTCA-AAAATGAAA-ACCACTGATA
1 ATTAAACCACGAGTCAGAAAAT-AAAGACAACTGA-A
** * * *
15392520 ATT-AACCATAAGTCAGAGAATAAAGATAA-TCAAA
1 ATTAAACCACGAGTCAGAAAATAAAGACAACT-GAA
* ** *
15392554 ATTAAATCGTGAGTCAGAAAATAAAGACGACTGAA
1 ATTAAACCACGAGTCAGAAAATAAAGACAACTGAA
* * * * * *
15392589 AATAAACTACGAGTTA-AAGAATAATGAAAATTGAA
1 ATTAAACCACGAGTCAGAA-AATAAAGACAACTGAA
15392624 ATTAAAC
1 ATTAAAC
15392631 TGCAAGTCAA
Statistics
Matches: 135, Mismatches: 31, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
32 3 0.02
34 28 0.21
35 98 0.73
36 3 0.02
37 3 0.02
ACGTcount: A:0.52, C:0.13, G:0.14, T:0.20
Consensus pattern (35 bp):
ATTAAACCACGAGTCAGAAAATAAAGACAACTGAA
Found at i:15392504 original size:104 final size:104
Alignment explanation
Indices: 15392287--15392511 Score: 245
Period size: 104 Copynumber: 2.2 Consensus size: 104
15392277 TTGAACTACG
* ** * * * * * * *
15392287 AGTCAAAAAATAAAAATTATCGAGATTAAACCACGAGTTAGATAATAATGAGACCGAAATTGAAT
1 AGTCAAAAAATGAAAACGATTGGGATTAAACCACGAGTCAGAGAATAATGAAACCGAAATTAAAC
* * * **
15392352 AGCAAGTCAAAAACTAAAAACAATAGGGATTGAACCGTG
66 AGCAAGTCAAAAACTAAAAACAATACGAATTAAACCGCA
*
15392391 AGTCAAAAAATGAAAACGATTGGGATTAAACCACGAGTCAGAGAATAATGACAACTGAAATTAAA
1 AGTCAAAAAATGAAAACGATTGGGATTAAACCACGAGTCAGAGAATAATGA-AACCGAAATTAAA
** * * *
15392456 CAGTGAGTCAAAAACTAAAGACGATACTAATTAAACCGCA
65 CAGCAAGTCAAAAACTAAAAACAATACGAATTAAACCGCA
15392496 AGTC-AAAAATGAAAAC
1 AGTCAAAAAATGAAAAC
15392512 CACTGATAAT
Statistics
Matches: 99, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
104 56 0.57
105 43 0.43
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.19
Consensus pattern (104 bp):
AGTCAAAAAATGAAAACGATTGGGATTAAACCACGAGTCAGAGAATAATGAAACCGAAATTAAAC
AGCAAGTCAAAAACTAAAAACAATACGAATTAAACCGCA
Found at i:15392663 original size:35 final size:35
Alignment explanation
Indices: 15392624--15392783 Score: 96
Period size: 35 Copynumber: 4.6 Consensus size: 35
15392614 GAAAATTGAA
15392624 ATTAAACTGCAAGTCAAAAACTAAAGATAACAGGG
1 ATTAAACTGCAAGTCAAAAACTAAAGATAACAGGG
* * *
15392659 ATTAAA-T-CATAAGATAAAAAACTAAAGATGATAGGG
1 ATTAAACTGC--AAG-TCAAAAACTAAAGATAACAGGG
* * * * ** *
15392695 ATTGAA-TCGTAATTCAAAAA-TAAAGA-GATTGAG
1 ATTAAACT-GCAAGTCAAAAACTAAAGATAACAGGG
* * * * *
15392728 ATTAAACTGCAAGTTAGAGACTAAAGACAACATGG
1 ATTAAACTGCAAGTCAAAAACTAAAGATAACAGGG
*
15392763 ATTAAACTACAAGTCAGAAAA
1 ATTAAACTGCAAGTCA-AAAA
15392784 TGAAAACGAT
Statistics
Matches: 92, Mismatches: 24, Indels: 17
0.69 0.18 0.13
Matches are distributed among these distances:
33 18 0.20
34 14 0.15
35 31 0.34
36 29 0.32
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (35 bp):
ATTAAACTGCAAGTCAAAAACTAAAGATAACAGGG
Found at i:15392813 original size:35 final size:33
Alignment explanation
Indices: 15392774--15392942 Score: 99
Period size: 35 Copynumber: 4.9 Consensus size: 33
15392764 TTAAACTACA
*
15392774 AGTCAGAAAATGAAAACGATCAGGATTAAACCGTG
1 AGTCAGAAAAT-AAAACGA-CAGGATTAAACCATG
* * *
15392809 AGTCAGAGAAA-AATAACGACCGGAATTGAACCATA
1 AGTCAGA-AAATAA-AACGACAGG-ATTAAACCATG
* * * **
15392844 ATTCA-AAAACTAAAGATGACAGGATTGAACTGTG
1 AGTCAGAAAA-TAAA-ACGACAGGATTAAACCATG
* * * *
15392878 AGTTAGAAAATGAAAATGATCGGGATTAAATCATG
1 AGTCAGAAAAT-AAAACGA-CAGGATTAAACCATG
* *
15392913 AGTCAAAAAATAAAAAGACCAGGATTAAAC
1 AGTCAGAAAATAAAACGA-CAGGATTAAAC
15392943 TGCAAGTCAG
Statistics
Matches: 102, Mismatches: 23, Indels: 19
0.71 0.16 0.13
Matches are distributed among these distances:
33 3 0.03
34 38 0.37
35 58 0.57
36 3 0.03
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.19
Consensus pattern (33 bp):
AGTCAGAAAATAAAACGACAGGATTAAACCATG
Found at i:15393230 original size:105 final size:105
Alignment explanation
Indices: 15393048--15393250 Score: 298
Period size: 105 Copynumber: 1.9 Consensus size: 105
15393038 AGATTGAACT
* * * * *
15393048 GAGTCAAAAAATAAAAACGATCAAAATTAAACCATGAGTCAGAGAATAATGATGATCAACATTGA
1 GAGTCAAAAAATAAAAACAATCAAAATTAAACCATGAGTCAGAGAATAATGATAACCAAAATTAA
*
15393113 ACTGCGAGTCAGAAACTAAAGACAACAGGGATTAAATTAC
66 ACTGCGAATCAGAAACTAAAGACAACAGGGATTAAATTAC
* * * *
15393153 GAGTCAAAAAATAAAAATAATTAAGATTAAACCATGAGTCAGAGAATAGTGATAACCAAAATTAA
1 GAGTCAAAAAATAAAAACAATCAAAATTAAACCATGAGTCAGAGAATAATGATAACCAAAATTAA
**
15393218 ACTGCGAATCAGAAACTAAAGATGACAGGGATT
66 ACTGCGAATCAGAAACTAAAGACAACAGGGATT
15393251 GAATCATGAG
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
105 86 1.00
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (105 bp):
GAGTCAAAAAATAAAAACAATCAAAATTAAACCATGAGTCAGAGAATAATGATAACCAAAATTAA
ACTGCGAATCAGAAACTAAAGACAACAGGGATTAAATTAC
Found at i:15393285 original size:105 final size:105
Alignment explanation
Indices: 15393048--15393354 Score: 287
Period size: 105 Copynumber: 2.9 Consensus size: 105
15393038 AGATTGAACT
** * * * * *
15393048 GAGTCAAAAAATAAAAACGA-TCAAAATTAAACCATGAGTCAGAGAATAATGATGATCAACATTG
1 GAGTCAAAAAATAAAAATAACT-AAGATTAAACCATGAGTCAGAGAATAATGATAACCAAAATTA
* *
15393112 AACTGCGAGTCAGAAACTAAAGACAACAGGGATTAAATTAC
65 AACTGCGAATCAGAAACTAAAGACAACAGGGATTAAATCAC
* *
15393153 GAGTCAAAAAATAAAAATAATTAAGATTAAACCATGAGTCAGAGAATAGTGATAACCAAAATTAA
1 GAGTCAAAAAATAAAAATAACTAAGATTAAACCATGAGTCAGAGAATAATGATAACCAAAATTAA
** * *
15393218 ACTGCGAATCAGAAACTAAAGATGACAGGGATTGAATCAT
66 ACTGCGAATCAGAAACTAAAGACAACAGGGATTAAATCAC
* * * * * * * * * * * **
15393258 GAGTTAGAAATTGAAAGTGACTGAGATTAAACCATGAGTTAGATAATAAAGA-AATCAGGATTAA
1 GAGTCAAAAAATAAAAATAACTAAGATTAAACCATGAGTCAGAGAATAATGATAACCAAAATTAA
* * * *
15393322 ATTGTGAGTCA-AAGACTAAAGGCAACAGGGATT
66 ACTGCGAATCAGAA-ACTAAAGACAACAGGGATT
15393355 GAACCATGAG
Statistics
Matches: 165, Mismatches: 35, Indels: 5
0.80 0.17 0.02
Matches are distributed among these distances:
103 2 0.01
104 33 0.20
105 129 0.78
106 1 0.01
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.21
Consensus pattern (105 bp):
GAGTCAAAAAATAAAAATAACTAAGATTAAACCATGAGTCAGAGAATAATGATAACCAAAATTAA
ACTGCGAATCAGAAACTAAAGACAACAGGGATTAAATCAC
Found at i:15393363 original size:69 final size:67
Alignment explanation
Indices: 15393282--15393473 Score: 199
Period size: 69 Copynumber: 2.8 Consensus size: 67
15393272 AAGTGACTGA
* * *
15393282 GATTAAACCATGAGTTAGATAATAAAGAAATCAGGATTAAATTGTGAGTCA-AAGACTAAAGGCA
1 GATTGAACCATGAGTCAGA-AATAAA-AAATCAGGATTAAATTGTGAGTCAGAAG-CTAAAGACA
*
15393346 ACAGG
63 ACAAG
* * *
15393351 GATTGAACCATGAGTCAGCAGATAAAAAGATCAGGATTAAATCGTAAGTCAGAAGCTAAAGACAA
1 GATTGAACCATGAGTCAG-AAATAAAAA-ATCAGGATTAAATTGTGAGTCAGAAGCTAAAGACAA
15393416 CAAG
64 CAAG
* * *
15393420 GATTGAATCATGAGTCAAAAAATAAAAATAATC-GAGATTAAATTATGAGTCAGA
1 GATTGAACCATGAGTC-AGAAAT-AAAA-AATCAG-GATTAAATTGTGAGTCAGA
15393474 GAATAATGAC
Statistics
Matches: 103, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
68 2 0.02
69 72 0.70
70 28 0.27
71 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.21
Consensus pattern (67 bp):
GATTGAACCATGAGTCAGAAATAAAAAATCAGGATTAAATTGTGAGTCAGAAGCTAAAGACAACA
AG
Found at i:15393436 original size:35 final size:35
Alignment explanation
Indices: 15393326--15393436 Score: 100
Period size: 35 Copynumber: 3.2 Consensus size: 35
15393316 GATTAAATTG
* * *
15393326 TGAGTCA-AAGACTAAAGGCAACAGGGATTGAACCA
1 TGAGTCAGAAG-CTAAAGACAACAAGGATTGAATCA
* * * * * * *
15393361 TGAGTCAGCAGATAAAAAGATC-AGGATTAAATCG
1 TGAGTCAGAAGCTAAAGACAACAAGGATTGAATCA
*
15393395 TAAGTCAGAAGCTAAAGACAACAAGGATTGAATCA
1 TGAGTCAGAAGCTAAAGACAACAAGGATTGAATCA
15393430 TGAGTCA
1 TGAGTCA
15393437 AAAAATAAAA
Statistics
Matches: 55, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
34 24 0.44
35 29 0.53
36 2 0.04
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.18
Consensus pattern (35 bp):
TGAGTCAGAAGCTAAAGACAACAAGGATTGAATCA
Found at i:15393460 original size:173 final size:172
Alignment explanation
Indices: 15393226--15393683 Score: 401
Period size: 173 Copynumber: 2.7 Consensus size: 172
15393216 AAACTGCGAA
* ** * * * * *
15393226 TCAGAAACTAAAGATGACAGGGATTGAATCATGAGTTAGAAATTGAAAGTGA-CTGAGATTAAAC
1 TCAGAAGCTAAAGACAACAAGGATTGAATCATGAGTCAGAAAATAAAAATGATC-GAGATTAAAC
* * * ** ** *
15393290 CATGAGTTAGATAATAAAGA-AATCAGGATTAAATTGTGAGTCA-AAGACTAAAGGCAACAGGGA
65 CATGAGTCAGAGAATAAAGACAACCAAAATTAAACCGTGAGTCAGAA-ACTAAAGACAACA-GGA
* ** * *
15393353 TTGAACCATGAGTCAGCAGATAAAAAGA-TCAGGATTAAATCGT-AAG
128 TTGAACCATAAGTCAAAAAACAAAAAGACT-AGGATTAAA-C-TAAAG
* * **
15393399 TCAGAAGCTAAAGACAACAAGGATTGAATCATGAGTCAAAAAATAAAAATAATCGAGATTAAATT
1 TCAGAAGCTAAAGACAACAAGGATTGAATCATGAGTCAGAAAATAAAAATGATCGAGATTAAACC
* * *
15393464 ATGAGTCAGAGAATAATGACAACCAAAATTAAACCGTGAGTTAGAAACTAAAGACGACAGGATTG
66 ATGAGTCAGAGAATAAAGACAACCAAAATTAAACCGTGAGTCAGAAACTAAAGACAACAGGATTG
15393529 AACCATAAGTCAAAAAACAAAAAGACTAGGATTAAACTACAAG
131 AACCATAAGTCAAAAAACAAAAAGACTAGGATTAAACTA-AAG
* * * *
15393572 GCA-AAGACTAAAGACAA-TAGAGATT-AAACAGCGAGTCAGAAAATAAAAATGATCGAGATTAA
1 TCAGAAG-CTAAAGACAACAAG-GATTGAATCA-TGAGTCAGAAAATAAAAATGATCGAGATTAA
** * * ** * * *
15393634 ACCACAAGTCAAAGAATAATGATGACCGAAATTAAACCGCGAGTTAGAAA
63 ACCATGAGTCAGAGAATAAAGACAACCAAAATTAAACCGTGAGTCAGAAA
15393684 ATGAAAATAA
Statistics
Matches: 233, Mismatches: 43, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
171 1 0.00
172 10 0.04
173 190 0.82
174 30 0.13
175 2 0.01
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.19
Consensus pattern (172 bp):
TCAGAAGCTAAAGACAACAAGGATTGAATCATGAGTCAGAAAATAAAAATGATCGAGATTAAACC
ATGAGTCAGAGAATAAAGACAACCAAAATTAAACCGTGAGTCAGAAACTAAAGACAACAGGATTG
AACCATAAGTCAAAAAACAAAAAGACTAGGATTAAACTAAAG
Found at i:15393564 original size:381 final size:380
Alignment explanation
Indices: 15392850--15393565 Score: 870
Period size: 381 Copynumber: 1.9 Consensus size: 380
15392840 CATAATTCAA
* * *
15392850 AAACTAAAGATGACAGGATTGAACTGTGAGTTAGAAAATGAAAATGATCGGGATTAAATCATGAG
1 AAACTAAAGATGACAGGATTGAACTATGAGTTAGAAAATGAAAATGATCGAGATTAAACCATGAG
* ** *
15392915 TCAAAAAATAAAAAGACCAGGATTAAACTGCAAGTCAGAGACTAAAGGCAATGGGGATTGAATCA
66 TCAAAAAATAAAAAGACCAGGATTAAACTGCAAGTCAAAGACTAAAGGCAACAGGGATTGAACCA
* * *
15392980 CGCATTAGAAGATAAAGAGACCAGGATTAAATCACAAGTTAGATACTAAAGACAACAAAGATTGA
131 CGCATCAGAAGATAAAAAGACCAGGATTAAATCACAAGTCAGATACTAAAGACAACAAAGATTGA
* ** * *
15393045 ACTGAGTCAAAAAATAAAAACGATCAAAATTAAACCATGAGTCAGAGAATAATGATGATCAACAT
196 ACTGAGTCAAAAAATAAAAACAATCAAAATTAAACCATGAGTCAGAGAATAATGACAACCAAAAT
* * ** * * *
15393110 TGAACTGCGAGTCAGAAACTAAAGACAACAGGGATTAAATTACGAGTCAAAAAATAAAAATAATT
261 TAAACCGCGAGTCAGAAACTAAAGACAACAGGGATTAAACCACAAGTCAAAAAACAAAAATAACT
15393175 AAGATTAAACCATGAGTCAGAGAATAGTGATAACCAAAATTAAACTGCGAATCAG
326 AAGATTAAACCATGAGTCAGAGAATAGTGATAACCAAAATTAAACTGCGAATCAG
* *
15393230 AAACTAAAGATGACAGGGATTGAA-TCATGAGTTAGAAATTGAAAGTGA-CTGAGATTAAACCAT
1 AAACTAAAGATGACA-GGATTGAACT-ATGAGTTAGAAAATGAAAATGATC-GAGATTAAACCAT
* * * * * **
15393293 GAGTTAGATAATAAAGAA-ATCAGGATTAAATTGTGAGTCAAAGACTAAAGGCAACAGGGATTGA
63 GAGTCAAAAAATAAA-AAGACCAGGATTAAACTGCAAGTCAAAGACTAAAGGCAACAGGGATTGA
* * * ** *
15393357 ACCATG-AGTCAGCAGATAAAAAGATCAGGATTAAATCGTAAGTCAGA-AGCTAAAGACAACAAG
127 ACCACGCA-TCAGAAGATAAAAAGACCAGGATTAAATCACAAGTCAGATA-CTAAAGACAACAAA
* * * **
15393420 GATTGAATCATGAGTCAAAAAATAAAAATAATCGAGATTAAATTATGAGTCAGAGAATAATGACA
190 GATTGAA-C-TGAGTCAAAAAATAAAAACAATCAAAATTAAACCATGAGTCAGAGAATAATGACA
* * * * *
15393485 ACCAAAATTAAACCGTGAGTTAGAAACTAAAGACGACA-GGATTGAACCATAAGTCAAAAAACAA
253 ACCAAAATTAAACCGCGAGTCAGAAACTAAAGACAACAGGGATTAAACCACAAGTCAAAAAACAA
* *
15393549 AAA-GACTAGGATTAAAC
318 AAATAACTAAGATTAAAC
15393566 TACAAGGCAA
Statistics
Matches: 279, Mismatches: 49, Indels: 15
0.81 0.14 0.04
Matches are distributed among these distances:
380 19 0.07
381 156 0.56
382 26 0.09
383 78 0.28
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.20
Consensus pattern (380 bp):
AAACTAAAGATGACAGGATTGAACTATGAGTTAGAAAATGAAAATGATCGAGATTAAACCATGAG
TCAAAAAATAAAAAGACCAGGATTAAACTGCAAGTCAAAGACTAAAGGCAACAGGGATTGAACCA
CGCATCAGAAGATAAAAAGACCAGGATTAAATCACAAGTCAGATACTAAAGACAACAAAGATTGA
ACTGAGTCAAAAAATAAAAACAATCAAAATTAAACCATGAGTCAGAGAATAATGACAACCAAAAT
TAAACCGCGAGTCAGAAACTAAAGACAACAGGGATTAAACCACAAGTCAAAAAACAAAAATAACT
AAGATTAAACCATGAGTCAGAGAATAGTGATAACCAAAATTAAACTGCGAATCAG
Found at i:15393630 original size:35 final size:35
Alignment explanation
Indices: 15393591--15393691 Score: 98
Period size: 35 Copynumber: 2.9 Consensus size: 35
15393581 AAAGACAATA
*
15393591 GAGATTAAACAGCGAGTCAGAAAATAAAAATGATC
1 GAGATTAAACAGCGAGTCAGAAAATAAAAATGACC
* **
15393626 GAGATTAAACCA-CAAGTCA-AAGAATAATGATGACC
1 GAGATTAAA-CAGCGAGTCAGAA-AATAAAAATGACC
* * * *
15393661 GAAATTAAACCGCGAGTTAGAAAATGAAAAT
1 GAGATTAAACAGCGAGTCAGAAAATAAAAAT
15393692 AACTAGGATT
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
34 3 0.06
35 44 0.86
36 4 0.08
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.18
Consensus pattern (35 bp):
GAGATTAAACAGCGAGTCAGAAAATAAAAATGACC
Found at i:15393668 original size:70 final size:70
Alignment explanation
Indices: 15393594--15393758 Score: 224
Period size: 70 Copynumber: 2.4 Consensus size: 70
15393584 GACAATAGAG
* *
15393594 ATTAAACAGCGAGTCAGAAAATAAAAATGATCGA-GATTAAACCACAAGTCAAAGAATAATGATG
1 ATTAAACAGCGAGTTAGAAAATAAAAAT-AACGAGGATTAAACCACAAGTCAAAGAATAATGATG
*
15393658 ACCGAA
65 ACCAAA
* * * *
15393664 ATTAAACCGCGAGTTAGAAAATGAAAATAACTAGGATTAAATCACAAGTCAAAGAATAATGATGA
1 ATTAAACAGCGAGTTAGAAAATAAAAATAACGAGGATTAAACCACAAGTCAAAGAATAATGATGA
15393729 CCAAA
66 CCAAA
* * *
15393734 ATTGAACTGCGAGTTAGAAACTAAA
1 ATTAAACAGCGAGTTAGAAAATAAA
15393759 GACGACAGGG
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
69 3 0.04
70 80 0.96
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.19
Consensus pattern (70 bp):
ATTAAACAGCGAGTTAGAAAATAAAAATAACGAGGATTAAACCACAAGTCAAAGAATAATGATGA
CCAAA
Found at i:15394466 original size:105 final size:105
Alignment explanation
Indices: 15394356--15394641 Score: 310
Period size: 105 Copynumber: 2.7 Consensus size: 105
15394346 GGCAATAGAG
* * * * * ** *
15394356 ATTGAACTGCGAGTTAGAAACTGAAGATGATGAGGATTGAATCGTGAGTCAAAAAATAAAAATGA
1 ATTGAACCGCGAGTCAGAAACTAAAGACGATAAGGATTGAATCACGAGTAAAAAAATAAAAATGA
** * *
15394421 CTGAGATTAAACCATGGGTCA-AGGAATAATGATAACCAAA
66 CCAAGATTAAACCACGAGTCAGA-GAATAATGATAACCAAA
* *
15394461 ATTGAACCGCGAGTCAGAACCTAAAGACGATAAGGATTGAATCACGAGTAAAAAAATGAAAATGA
1 ATTGAACCGCGAGTCAGAAACTAAAGACGATAAGGATTGAATCACGAGTAAAAAAATAAAAATGA
* *
15394526 CCAAGATTAAATCACGAGTCAGAGAATAATGATAATCAAA
66 CCAAGATTAAACCACGAGTCAGAGAATAATGATAACCAAA
* * * * * * *
15394566 ATTGAACCACGAGTCAAAAACTAAATACGACAAGAATTGAA-CTACGAGTCAAAATATAAAGAA-
1 ATTGAACCGCGAGTCAGAAACTAAAGACGATAAGGATTGAATC-ACGAGTAAAAAAATAAA-AAT
15394629 -ACCAAGATTAAAC
64 GACCAAGATTAAAC
15394642 TGTAAGGCAG
Statistics
Matches: 152, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
104 13 0.09
105 136 0.89
106 3 0.02
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (105 bp):
ATTGAACCGCGAGTCAGAAACTAAAGACGATAAGGATTGAATCACGAGTAAAAAAATAAAAATGA
CCAAGATTAAACCACGAGTCAGAGAATAATGATAACCAAA
Found at i:15394635 original size:35 final size:35
Alignment explanation
Indices: 15394460--15394635 Score: 87
Period size: 35 Copynumber: 5.0 Consensus size: 35
15394450 TGATAACCAA
* * * * *
15394460 AATTGAACCGCGAGTCAGAACCTAAAGACGATAAG
1 AATTGAACCACGAGTCAAAAACTAAAGACAACAAG
* * * *
15394495 GATTGAATCACGAGTAAAAAAATGAAAATGAC--CAAG
1 AATTGAACCACGAGTCAAAAACT--AAA-GACAACAAG
* * * * *
15394531 -ATTAAATCACGAGTCAGAGAA-TAATGATAATCAA-
1 AATTGAACCACGAGTCA-AAAACTAAAGACAA-CAAG
* *
15394565 AATTGAACCACGAGTCAAAAACTAAATACGACAAG
1 AATTGAACCACGAGTCAAAAACTAAAGACAACAAG
*
15394600 AATTGAACTACGAGTCAAAATA-TAAAGA-AACCAAG
1 AATTGAACCACGAGTCAAAA-ACTAAAGACAA-CAAG
15394635 A
1 A
15394636 TTAAACTGTA
Statistics
Matches: 106, Mismatches: 23, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
32 2 0.02
33 2 0.02
34 7 0.07
35 82 0.77
36 7 0.07
37 3 0.03
38 3 0.03
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (35 bp):
AATTGAACCACGAGTCAAAAACTAAAGACAACAAG
Found at i:15394882 original size:104 final size:105
Alignment explanation
Indices: 15394681--15394930 Score: 256
Period size: 104 Copynumber: 2.4 Consensus size: 105
15394671 GTAAACCGCA
* ** * * *
15394681 AGTCAAAAAATGAAA-ACGATTGGGATTAAACTATGAGTCCAAGAATAATGATGATCAAAATTGA
1 AGTCAAAAAATGAAAGA-GATCGGGATTAAACTACAAGTCAAAAAATAATGACGATCAAAATTGA
* *
15394745 ACCATAAGTCAAAAACTAAAGACAACAGAGATTGAACTATG
65 ACCATAAGTCAAAAACTAAAGACAACAGAGATTGAACCACG
* * * *
15394786 AGTCAAAAAATGAAAGTGATCAGGATT-AACTACAAGTCAAAAAATAATGACGATCGAAATTGAG
1 AGTCAAAAAATGAAAGAGATCGGGATTAAACTACAAGTCAAAAAATAATGACGATCAAAATTGAA
* * * *** * *
15394850 CCATGAGTTAGAAACTAAAGGTGATAGGGATTGAACCACG
66 CCATAAGTCAAAAACTAAAGACAACAGAGATTGAACCACG
* *
15394890 AG-CAAAAAAAT-AAAGAGTTCGGGATTAAACTACAAGGCAAA
1 AGTC-AAAAAATGAAAGAGATCGGGATTAAACTACAAGTCAAA
15394931 GATTAAAGAC
Statistics
Matches: 118, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
103 13 0.11
104 82 0.69
105 23 0.19
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (105 bp):
AGTCAAAAAATGAAAGAGATCGGGATTAAACTACAAGTCAAAAAATAATGACGATCAAAATTGAA
CCATAAGTCAAAAACTAAAGACAACAGAGATTGAACCACG
Found at i:15394973 original size:35 final size:33
Alignment explanation
Indices: 15394873--15394974 Score: 87
Period size: 35 Copynumber: 3.0 Consensus size: 33
15394863 ACTAAAGGTG
* *
15394873 ATAGGGATTGAACCACGAGCAAAAAAATAAAGAG
1 ATAGGGATTGAACCACAAGC-AAAAAATAAAGAA
* * * * * *
15394907 TTCGGGATTAAACTACAAGGCAAAGATTAAAGACA
1 ATAGGGATTGAACCACAA-GCAAAAAATAAAGA-A
*
15394942 ATAGGGATTGAACCGCAAGTCAAAAAATAAAGA
1 ATAGGGATTGAACCACAAG-CAAAAAATAAAGA
15394975 GTGATCGAAA
Statistics
Matches: 50, Mismatches: 15, Indels: 5
0.71 0.21 0.07
Matches are distributed among these distances:
34 24 0.48
35 26 0.52
ACGTcount: A:0.50, C:0.13, G:0.22, T:0.16
Consensus pattern (33 bp):
ATAGGGATTGAACCACAAGCAAAAAATAAAGAA
Found at i:15395833 original size:41 final size:41
Alignment explanation
Indices: 15395788--15395899 Score: 120
Period size: 39 Copynumber: 2.8 Consensus size: 41
15395778 TGCAAATGCC
*
15395788 AATGATACAAATGCAAATATTTTTCTTATGATGTAGATACA
1 AATGATACAAATGCAAATATTTTTCTTATGATGCAGATACA
* * * * * *
15395829 AATGACATAAATACGAATATCTTT-TT-TGATGCAGATGCA
1 AATGATACAAATGCAAATATTTTTCTTATGATGCAGATACA
* * *
15395868 AACGATACAAATGTAAATATTTTTCTCATGAT
1 AATGATACAAATGCAAATATTTTTCTTATGAT
15395900 ACACATAAGT
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
39 28 0.52
40 3 0.06
41 23 0.43
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (41 bp):
AATGATACAAATGCAAATATTTTTCTTATGATGCAGATACA
Found at i:15396195 original size:93 final size:93
Alignment explanation
Indices: 15396089--15396356 Score: 257
Period size: 101 Copynumber: 2.8 Consensus size: 93
15396079 ATGCAACTGC
* * *
15396089 GAATGTCTCTTTTTGATGTAGATGCAAGCGATACAAATGCGAATGTCTTTCTTATGATGCACACA
1 GAATGTCTTTTTTTGATATAGATGCAAGCGATACAAATGCGAATGTCTTTCTCATGATGCACACA
* *
15396154 TAAGCGTGAATGCAAATTATAAAAATGT
66 TAAGCGCGAATGCAAATAATAAAAATGT
* * * *
15396182 GAATGTCTTTTTTTTGTATACAGATGCAAGTGATACAAATGTGAATGCAAATGCCTTTCTCATAA
1 GAATGTC-TTTTTTTG-ATATAGATGCAAGCGATACAAATGCGAATG----T--CTTTCTCATGA
* * * **
15396247 TGCACACATAGGTGCGAATGCAAGTAATGCAAATGT
58 TGCACACATAAGCGCGAATGCAAATAATAAAAATGT
* * * * * * **
15396283 GAATATCTTTTTTTTATATAGATGCAAACAATGCAAATGCAAATGTCTTTCTCATGACACACACA
1 GAATGTCTTTTTTTGATATAGATGCAAGCGATACAAATGCGAATGTCTTTCTCATGATGCACACA
*
15396348 TAAGTGCGA
66 TAAGCGCGA
15396357 TTGTAAATGA
Statistics
Matches: 140, Mismatches: 27, Indels: 16
0.77 0.15 0.09
Matches are distributed among these distances:
93 31 0.22
94 7 0.05
95 27 0.19
99 24 0.17
100 7 0.05
101 44 0.31
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (93 bp):
GAATGTCTTTTTTTGATATAGATGCAAGCGATACAAATGCGAATGTCTTTCTCATGATGCACACA
TAAGCGCGAATGCAAATAATAAAAATGT
Found at i:15396370 original size:93 final size:93
Alignment explanation
Indices: 15396077--15396380 Score: 275
Period size: 93 Copynumber: 3.2 Consensus size: 93
15396067 CAGATGTGAG
* * * * * * * * * *
15396077 TGATGCAACTGCGAATGTCTCTTTTTGATGTAGATGCAAGCGATACAAATGCGAATGTCTTTCTT
1 TGATGCAAATGTGAATGTCTTTTTTTTATATAGATGCAAACAATGCAAATGCAAATGTCTTTCTC
* *
15396142 ATGATGCACACATAAGCGTGAATGCAAA
66 ATGATGCACACATAAGTGCGAATGCAAA
* ** * **
15396170 TTATAAAAATGTGAATGTCTTTTTTTTGTATACAGATGCAAGTGATACAAATGTGAATGCAAATG
1 TGATGCAAATGTGAATGTC-TTTTTTT-TATATAGATGC-A---A-AC-AATGCAAATGCAAATG
* * * *
15396235 CCTTTCTCATAATGCACACATAGGTGCGAATGCAAG
58 TCTTTCTCATGATGCACACATAAGTGCGAATGCAAA
* *
15396271 TAATGCAAATGTGAATATCTTTTTTTTATATAGATGCAAACAATGCAAATGCAAATGTCTTTCTC
1 TGATGCAAATGTGAATGTCTTTTTTTTATATAGATGCAAACAATGCAAATGCAAATGTCTTTCTC
** * *
15396336 ATGACACACACATAAGTGCGATTGTAAA
66 ATGATGCACACATAAGTGCGAATGCAAA
*
15396364 TGATGCAAAGGTGAATG
1 TGATGCAAATGTGAATG
15396381 CCCTTTTGCT
Statistics
Matches: 163, Mismatches: 40, Indels: 16
0.74 0.18 0.07
Matches are distributed among these distances:
93 70 0.43
94 8 0.05
95 9 0.06
96 1 0.01
98 1 0.01
99 11 0.07
100 8 0.05
101 55 0.34
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (93 bp):
TGATGCAAATGTGAATGTCTTTTTTTTATATAGATGCAAACAATGCAAATGCAAATGTCTTTCTC
ATGATGCACACATAAGTGCGAATGCAAA
Found at i:15396922 original size:44 final size:44
Alignment explanation
Indices: 15396860--15396953 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
15396850 AATGCAAATA
* * *
15396860 TTTTTCTTATGATGTAGATACAAGTGATGCAAATACGAATATCT
1 TTTTTTTTATGATATAGATACAAGTGATGCAAATACAAATATCT
* * * *
15396904 TTTTTTTTGTGATATAGATGCAAGTGATGTAAATGCAAATATCT
1 TTTTTTTTATGATATAGATACAAGTGATGCAAATACAAATATCT
*
15396948 CTTTTT
1 TTTTTT
15396954 GATGCAAATG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.44
Consensus pattern (44 bp):
TTTTTTTTATGATATAGATACAAGTGATGCAAATACAAATATCT
Found at i:15398755 original size:24 final size:22
Alignment explanation
Indices: 15398724--15398791 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 22
15398714 CCACTCATTC
15398724 ATTTTTTTTCTTTTATTTTTTTT
1 ATTTTTTTTCTTTT-TTTTTTTT
* *
15398747 ATTTCTTTTTCTCTTTTGTTTTAT
1 ATTT-TTTTTCT-TTTTTTTTTTT
*
15398771 GTTGTTTTTTCTTTTTTTTTT
1 ATT-TTTTTTCTTTTTTTTTT
15398792 CACTGAGTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
23 12 0.32
24 22 0.58
25 4 0.11
ACGTcount: A:0.06, C:0.07, G:0.04, T:0.82
Consensus pattern (22 bp):
ATTTTTTTTCTTTTTTTTTTTT
Found at i:15398787 original size:31 final size:31
Alignment explanation
Indices: 15398729--15398786 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
15398719 CATTCATTTT
* *
15398729 TTTTCTTTTATTTTTTTTATTTCTTTTTCTC
1 TTTTCTTTTATGTTGTTTATTTCTTTTTCTC
*
15398760 TTTTGTTTTATGTTGTTT-TTTCTTTTT
1 TTTTCTTTTATGTTGTTTATTTCTTTTT
15398787 TTTTTCACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.05, C:0.09, G:0.05, T:0.81
Consensus pattern (31 bp):
TTTTCTTTTATGTTGTTTATTTCTTTTTCTC
Found at i:15401751 original size:86 final size:86
Alignment explanation
Indices: 15401519--15401776 Score: 471
Period size: 88 Copynumber: 3.0 Consensus size: 86
15401509 TTTTGAGTTC
15401519 AATCATTTTTGTGGTCAATTCATCCATTCCTCTTTTAAGCTCATCCAAACTTTGGTCACTAGTCG
1 AATCATTTTTGTGGTCAATTCATCCATTCCTCTTTTAAGCTCATCCAAACTTTGGTCACTAGTCG
15401584 AATCACCTAATGCCTTAGTCG
66 AATCACCTAATGCCTTAGTCG
*
15401605 AATCATTTTTGTGTGGTCAATTCATCCATTCCTCTTTTAAGCTCATCCAAACTTTTGTCACTAGT
1 AATCA-TTTT-TGTGGTCAATTCATCCATTCCTCTTTTAAGCTCATCCAAACTTTGGTCACTAGT
15401670 CGAATCACCTAATGCCTTAGTCG
64 CGAATCACCTAATGCCTTAGTCG
* *
15401693 AATCATTTTTGTGGTCAATTCATCCATTCTTCTTTTAAGCTCATCAAAACTTTGGTCACTAGTCG
1 AATCATTTTTGTGGTCAATTCATCCATTCCTCTTTTAAGCTCATCCAAACTTTGGTCACTAGTCG
15401758 AATCACCTAATGCCTTAGT
66 AATCACCTAATGCCTTAGT
15401777 ATGCTCAGGA
Statistics
Matches: 166, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
86 77 0.46
87 8 0.05
88 81 0.49
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.38
Consensus pattern (86 bp):
AATCATTTTTGTGGTCAATTCATCCATTCCTCTTTTAAGCTCATCCAAACTTTGGTCACTAGTCG
AATCACCTAATGCCTTAGTCG
Found at i:15407279 original size:144 final size:142
Alignment explanation
Indices: 15406828--15407393 Score: 544
Period size: 145 Copynumber: 3.9 Consensus size: 142
15406818 CATTTTTGGA
* * ** * ***
15406828 ATTTTAAA-ACACAAAAAATCATGAAATATTATAAAATTACGATTTGAAAAGTTTTGTGAAAATC
1 ATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTTACAAAAATC
**** *
15406892 TGAGCCCAAGAAGGCCAAATTACGAAAATATCCCTATAAGAGTATTTTGATAATTTCACACTTTT
66 TGAG-ATTGGAAGGCCAAATTACGAAAATA-CCCT-TAAGGGTATTTTGATAATTTCACACTTTT
**
15406957 TAAGGTATTGCTATG
128 CGAGGTATTGCTATG
* * * *** * *
15406972 ATTTTAGATGCACCAAAAATCATAAAATATTATAAAATTAAGATCTGAAAAGTTTTGTGAAATTT
1 ATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTTACAAAAATC
* *
15407037 TGAGATTGGAAAGGCCAAATTATGAAAATACCCCTTAAAGGATATTTTGATAATTTCACACTTTT
66 TGAGATTGG-AAGGCCAAATTACGAAAATA-CCCTT-AAGGGTATTTTGATAATTTCACACTTTT
* *
15407102 CGACGTACTGCTATG
128 CGAGGTATTGCTATG
* *
15407117 GTTTCAAATGCACCAAAAATCATGAAATATTATAAAATTAAAATCTGAAAA-TTTTCACAAAAAT
1 ATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTT-ACAAAAAT
* * * * * *
15407181 CTGAGTTTGGAATGCCAAATTACAAAAATACCTCTCTAAGGGTATTTTGGTAATTTTACTCTTTT
65 CTGAGATTGGAAGGCCAAATTACGAAAATACC-CT-TAAGGGTATTTTGATAATTTCACACTTTT
*
15407246 CGAGGTATTGCTGTG
128 CGAGGTATTGCTATG
** * * * *
15407261 ATTTTAAATGTGCTAAAAATCATGAAATATTATAAAATTAAAATCTAAAAAATTTCACAAAAATC
1 ATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTTACAAAAATC
* * * * * * * *
15407326 TCAGCTCGGGAAGGTCAAATTATGAAAATGCCCTTTATAAAGGTATTTTGATAATTTTACA-TTT
66 TGAGAT-TGGAAGGCCAAATTACGAAAATACCC--T-TAAGGGTATTTTGATAATTTCACACTTT
15407390 TCGA
127 TCGA
15407394 AACACAATGA
Statistics
Matches: 352, Mismatches: 60, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
143 2 0.01
144 127 0.36
145 201 0.57
146 22 0.06
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (142 bp):
ATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTTACAAAAATC
TGAGATTGGAAGGCCAAATTACGAAAATACCCTTAAGGGTATTTTGATAATTTCACACTTTTCGA
GGTATTGCTATG
Found at i:15407393 original size:289 final size:290
Alignment explanation
Indices: 15406841--15407393 Score: 657
Period size: 289 Copynumber: 1.9 Consensus size: 290
15406831 TTAAAACACA
** * ***
15406841 AAAAATCATGAAATATTATAAAATTACGATTTGAAAAGTTTTGTGAAAATCTGAGCCCAAGAAGG
1 AAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTTACAAAAATCTGAGCCCAAGAAGG
* *
15406906 CCAAATTACGAAAATATCCCTATAAGAGTATTTTGATAATTTCACACTTTTTAAGGTATTGCTAT
66 CCAAATTACAAAAATATCCCTATAAGAGTATTTTGATAATTTCACACTTTTCAAGGTATTGCTAT
* * * * **** *
15406971 GATTTTAGATGCACCAAAAATCATAAAATATTATAAAATTAAGATCTGAAAAGTTTTGTGAAATT
131 GATTTTAAATGCACCAAAAATCATAAAATATTATAAAATTAAAATCTAAAAAATTTCACAAAAAT
* * *
15407036 TTGAGATTGGAAAGGCCAAATTATGAAAATACCCCTTAAAGGATATTTTGATAATTTCACACTTT
196 CTCAGATCGGAAAGGCCAAATTATGAAAATACCCCTTAAAGGATATTTTGATAATTTCACACTTT
15407101 TCGACGTACTGCTATGGTTTCAAATGCACC
261 TCGACGTACTGCTATGGTTTCAAATGCACC
**** *
15407131 AAAAATCATGAAATATTATAAAATTAAAATCTGAAAA-TTTTCACAAAAATCTGAG-TTTGGAAT
1 AAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTT-ACAAAAATCTGAGCCCAAGAAG
* * * * * *
15407194 GCCAAATTACAAAAATA-CCTCTCTAAGGGTATTTTGGTAATTTTACTCTTTTCGAGGTATTGCT
65 GCCAAATTACAAAAATATCC-CTATAAGAGTATTTTGATAATTTCACACTTTTCAAGGTATTGCT
* ** * *
15407258 GTGATTTTAAATGTGCTAAAAATCATGAAATATTATAAAATTAAAATCTAAAAAATTTCACAAAA
129 ATGATTTTAAATGCACCAAAAATCATAAAATATTATAAAATTAAAATCTAAAAAATTTCACAAAA
* * * * * *
15407323 ATCTCAGCTCGGGAAGGTCAAATTATGAAAATGCCCTTTATAAAGG-TATTTTGATAATTTTACA
194 ATCTCAGATCGGAAAGGCCAAATTATGAAAATACCC-CT-TAAAGGATATTTTGATAATTTCACA
15407387 -TTTTCGA
257 CTTTTCGA
15407394 AACACAATGA
Statistics
Matches: 217, Mismatches: 42, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
288 2 0.01
289 147 0.68
290 62 0.29
291 6 0.03
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (290 bp):
AAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTTACAAAAATCTGAGCCCAAGAAGG
CCAAATTACAAAAATATCCCTATAAGAGTATTTTGATAATTTCACACTTTTCAAGGTATTGCTAT
GATTTTAAATGCACCAAAAATCATAAAATATTATAAAATTAAAATCTAAAAAATTTCACAAAAAT
CTCAGATCGGAAAGGCCAAATTATGAAAATACCCCTTAAAGGATATTTTGATAATTTCACACTTT
TCGACGTACTGCTATGGTTTCAAATGCACC
Found at i:15411449 original size:22 final size:22
Alignment explanation
Indices: 15411424--15411493 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
15411414 TACCACTAAG
*
15411424 TTATTGATGATTTATTATAAAT
1 TTATTGATGATTTACTATAAAT
* * *
15411446 TTA-TAATTGACTTACTATTAAT
1 TTATTGA-TGATTTACTATAAAT
* *
15411468 TTATTGATGATTTACTAAAAAA
1 TTATTGATGATTTACTATAAAT
15411490 TTAT
1 TTAT
15411494 CAATGATTAA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (22 bp):
TTATTGATGATTTACTATAAAT
Found at i:15411672 original size:23 final size:24
Alignment explanation
Indices: 15411635--15411679 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
15411625 ATTTTATATA
*
15411635 TTTATTGATTTACTATTAAATTTT
1 TTTATTGATTTACTATAAAATTTT
15411659 TTTATT-ATTTACTATAAAATT
1 TTTATTGATTTACTATAAAATT
15411680 ATCACTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTATTGATTTACTATAAAATTTT
Found at i:15411783 original size:22 final size:22
Alignment explanation
Indices: 15411665--15411787 Score: 83
Period size: 22 Copynumber: 5.7 Consensus size: 22
15411655 TTTTTTTATT
* * *
15411665 ATTTACTATAAAATTATCACTA
1 ATTTATTATTAAATTATCACTG
* *
15411687 ATTTATTGTTAAAATATCTA-TG
1 ATTTATTATTAAATTATC-ACTG
* * * * *
15411709 ATTCAGTATTAATTTATTACTA
1 ATTTATTATTAAATTATCACTG
15411731 ATTTA-TATTAAA-TATGCA-TG
1 ATTTATTATTAAATTAT-CACTG
**
15411751 ATTTACAATTAAATTATCACTG
1 ATTTATTATTAAATTATCACTG
*
15411773 ATTAATTATTAAATT
1 ATTTATTATTAAATT
15411788 GTAGATGGTT
Statistics
Matches: 75, Mismatches: 20, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
20 9 0.12
21 16 0.21
22 49 0.65
23 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (22 bp):
ATTTATTATTAAATTATCACTG
Found at i:15411867 original size:22 final size:22
Alignment explanation
Indices: 15411802--15411892 Score: 80
Period size: 22 Copynumber: 4.2 Consensus size: 22
15411792 ATGGTTTATG
15411802 ACTAAATTA-TATTGATTTACT
1 ACTAAATTATTATTGATTTACT
** * *
15411823 TTTAAATT-TTCAATGATTAACT
1 ACTAAATTATT-ATTGATTTACT
*
15411845 ACTAAATTATTATTAATTTACT
1 ACTAAATTATTATTGATTTACT
* *
15411867 AATAAGTTATT-TATGATTTACT
1 ACTAAATTATTAT-TGATTTACT
15411889 ACTA
1 ACTA
15411893 TCAATTAATT
Statistics
Matches: 53, Mismatches: 13, Indels: 7
0.73 0.18 0.10
Matches are distributed among these distances:
21 8 0.15
22 43 0.81
23 2 0.04
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.48
Consensus pattern (22 bp):
ACTAAATTATTATTGATTTACT
Found at i:15411946 original size:22 final size:22
Alignment explanation
Indices: 15411921--15411989 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
15411911 GTTAAAACTG
* *
15411921 ATTTACTAATAAATTATCAATA
1 ATTTATTAATAAGTTATCAATA
* * *
15411943 ATTTATTATTAAGTTATCATTG
1 ATTTATTAATAAGTTATCAATA
**
15411965 ATTTATTGCTAAGTTATCAATA
1 ATTTATTAATAAGTTATCAATA
15411987 ATT
1 ATT
15411990 AACAACTAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (22 bp):
ATTTATTAATAAGTTATCAATA
Found at i:15412000 original size:44 final size:45
Alignment explanation
Indices: 15411934--15412027 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 45
15411924 TACTAATAAA
* ** *
15411934 TTATCAATAATTTATTATTAAGTTATCA-TT-GATTTATTGCTAAG
1 TTATCAATAATTAACAACTAAGTTATCACTTAG-TTTATTGCTAAG
* *
15411978 TTATCAATAATTAACAACTAAGTTATCACTTAGTTTTTTGTTAAG
1 TTATCAATAATTAACAACTAAGTTATCACTTAGTTTATTGCTAAG
15412023 TTATC
1 TTATC
15412028 CTTAATTTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
44 24 0.57
45 17 0.40
46 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.48
Consensus pattern (45 bp):
TTATCAATAATTAACAACTAAGTTATCACTTAGTTTATTGCTAAG
Found at i:15412277 original size:22 final size:22
Alignment explanation
Indices: 15412108--15412326 Score: 68
Period size: 22 Copynumber: 10.3 Consensus size: 22
15412098 ATTCATTATA
** *
15412108 TTATT-ATTGATTTACTAAAAAA
1 TTATTAATT-ATTTACTACTAAG
* *
15412130 TTATTAATTATTAACTACTAAA
1 TTATTAATTATTTACTACTAAG
* * * ** *
15412152 TTATCATTTATTTATTTTTAGG
1 TTATTAATTATTTACTACTAAG
* * * *
15412174 TTAGTACTAATTTACTACTAAA
1 TTATTAATTATTTACTACTAAG
* *
15412196 TTA-TAGA-TAATTATTACTAAG
1 TTATTA-ATTATTTACTACTAAG
* * *
15412217 TT-GTACTTA-TTA-TAGTTAAG
1 TTATTAATTATTTACTA-CTAAG
* * *
15412237 TTTTTAATTATTAATTACTAAG
1 TTATTAATTATTTACTACTAAG
15412259 TTATTAATTATTTACTACTATA-
1 TTATTAATTATTTACTACTA-AG
15412281 TTATT-ATTGA-TT--TA-TAAG
1 TTATTAATT-ATTTACTACTAAG
* *
15412299 TTATTAATTATCTATTACTATA-
1 TTATTAATTATTTACTACTA-AG
15412321 TTATTA
1 TTATTA
15412327 TTGATTTGTG
Statistics
Matches: 145, Mismatches: 35, Indels: 34
0.68 0.16 0.16
Matches are distributed among these distances:
17 1 0.01
18 8 0.06
19 8 0.06
20 9 0.06
21 30 0.21
22 82 0.57
23 7 0.05
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.51
Consensus pattern (22 bp):
TTATTAATTATTTACTACTAAG
Found at i:15412287 original size:40 final size:40
Alignment explanation
Indices: 15412243--15412330 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
15412233 TAAGTTTTTA
*
15412243 ATTATT-AATTACTAAGTTATTAATTATTTACTACTATATT
1 ATTATTGAATTA-TAAGTTATTAATTATCTACTACTATATT
* *
15412283 ATTATTGATTTATAAGTTATTAATTATCTATTACTATATT
1 ATTATTGAATTATAAGTTATTAATTATCTACTACTATATT
15412323 ATTATTGA
1 ATTATTGA
15412331 TTTGTGTATA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 40 0.91
41 4 0.09
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.53
Consensus pattern (40 bp):
ATTATTGAATTATAAGTTATTAATTATCTACTACTATATT
Found at i:15412331 original size:40 final size:40
Alignment explanation
Indices: 15412255--15412333 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
15412245 TATTAATTAC
*
15412255 TAAGTTATTAATTATTTACTACTATATTATTATTGATTTA
1 TAAGTTATTAATTATCTACTACTATATTATTATTGATTTA
*
15412295 TAAGTTATTAATTATCTATTACTATATTATTATTGATTT
1 TAAGTTATTAATTATCTACTACTATATTATTATTGATTT
15412334 GTGTATATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (40 bp):
TAAGTTATTAATTATCTACTACTATATTATTATTGATTTA
Found at i:15412851 original size:24 final size:25
Alignment explanation
Indices: 15412824--15412883 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
15412814 TAATGAGAGC
15412824 AAATTTATTAAATAA-AATTTATAA
1 AAATTTATTAAATAACAATTTATAA
* ** *
15412848 AAATTAAACAAATAACAATTTTTAA
1 AAATTTATTAAATAACAATTTATAA
15412873 AAA--TATTAAAT
1 AAATTTATTAAAT
15412884 TCATAATAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
23 5 0.18
24 12 0.43
25 11 0.39
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (25 bp):
AAATTTATTAAATAACAATTTATAA
Found at i:15416563 original size:51 final size:49
Alignment explanation
Indices: 15416467--15416644 Score: 205
Period size: 51 Copynumber: 3.5 Consensus size: 49
15416457 AATTTTAAGA
* * * * *
15416467 AAAAATTAATACTTCAACTTTTTCCTTAAAAAT-ATAAAAAATATTTAAAT
1 AAAAATTGATATTTCAAC-TTTT-CTCAAAAATCTTAAAAATTATTTAAAT
* *
15416517 AGAATAATTGATATTTCAACTTTTCTCAAAAATCTTAAAAGTTATTTAAACAA
1 A-AA-AATTGATATTTCAACTTTTCTCAAAAATCTTAAAAATTATTT-AA-AT
*
15416570 AAAAATTGATATTTCAACTTTTTTCAAAAATCTTAAAAATTATTTAAAT
1 AAAAATTGATATTTCAACTTTTCTCAAAAATCTTAAAAATTATTTAAAT
15416619 AAAAAGGTTGATATTTCAACTTTTCT
1 AAAAA--TTGATATTTCAACTTTTCT
15416645 TTTTATTTTG
Statistics
Matches: 110, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
49 6 0.05
50 11 0.10
51 74 0.67
52 17 0.15
53 2 0.02
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (49 bp):
AAAAATTGATATTTCAACTTTTCTCAAAAATCTTAAAAATTATTTAAAT
Found at i:15418301 original size:20 final size:20
Alignment explanation
Indices: 15418260--15418307 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
15418250 CAATCAGAAC
*
15418260 AAAAAAAACCAAAATCACCA
1 AAAAAAAACCAAAACCACCA
*
15418280 AAAAAAAACC-AACCCACTCA
1 AAAAAAAACCAAAACCAC-CA
15418300 AAAAAAAA
1 AAAAAAAA
15418308 TCCCCAGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.71, C:0.25, G:0.00, T:0.04
Consensus pattern (20 bp):
AAAAAAAACCAAAACCACCA
Found at i:15420947 original size:11 final size:10
Alignment explanation
Indices: 15420926--15420961 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
15420916 AGAAAAAAAT
*
15420926 AAAAAATAAA
1 AAAAAACAAA
15420936 AAAAATACAAA
1 AAAAA-ACAAA
15420947 AAAAAACAAA
1 AAAAAACAAA
15420957 AAAAA
1 AAAAA
15420962 GTTTTCTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.89, C:0.06, G:0.00, T:0.06
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:15421243 original size:19 final size:18
Alignment explanation
Indices: 15421205--15421246 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
15421195 AAATAGTGTA
*
15421205 AAAAAAAAGAAAAAAGAG
1 AAAAAAAAGAAAAAAAAG
*
15421223 AAAAAAAATAAAATAAAAG
1 AAAAAAAAGAAAA-AAAAG
15421242 AAAAA
1 AAAAA
15421247 TATTCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.05
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAAAG
Found at i:15421702 original size:610 final size:600
Alignment explanation
Indices: 15420526--15421734 Score: 2152
Period size: 610 Copynumber: 2.0 Consensus size: 600
15420516 AAATTACCCA
15420526 GATTAGGGCACAAGACAAACAATCCAATACATTTTATATTTAAGTGTATGGATAGTATAAATAGG
1 GATTAGGGCACAAGACAAACAATCCAATACATTTTATATTTAAGTGTATGGATAGTATAAATAGG
*
15420591 ACCAAAATAGTGTAAAAAAAAAGAGAAAAAAAATAAAATAAAAGAAAAATATTTTTTTAATAAAT
66 ACCAAAATAGTGTAAAAAAAAAGAGAAAAAAAATAAAATAAAAGAAAAATATTCTTTTAATAAAT
15420656 TGACATATAGTTCAATTCAACTAATGCTTATTCAAAATTTGCATCTTCAAAAAATATTTTCCAAA
131 TGACATATAGTTCAATTCAACTAATGCTTATTCAAAATTTGCATCTTCAAAAAATATTTTCCAAA
15420721 AAAAAAAAACTTTTTTTATAACAAACAAAAATAGAAAAATAATTTTAAAAAAGGGTTTTTTATTA
196 AAAAAAAAACTTTTTTTATAACAAACAAAAATAGAAAAATAATTTTAAAAAAGGGTTTTTTATTA
* *
15420786 TTTCTTTATATATTGACCGAATAGAAAGAAAAAAATTAAAAAAAAAGAAAAATTTTTTGAAGTAG
261 TTTCTTTATATATTGACCGAATAAAAAGAAAAAAATTAAAAAAAAAGAAAAATTTCTTGAAGTAG
* *
15420851 TGGTAATCTTATGTACTTGTTTTCCATAGGAAATGTTTTCTTGAATTATTCTTGTTTTTCTTCTA
326 TGGTAATCTTATATACTTGTTTTCCATAGGAAATGTTTTCTTGAATTATTCTTCTTTTTCTTCTA
*
15420916 AGAAAAAAATAAAAAATAAAAAAAATACAAAAAAAAACAAAAAAAAGTTTTCTTAATTTCTTTAT
391 AGAAAAAAAGAAAAAATAAAAAAAATACAAAAAAAAACAAAAAAAAGTTTTCTTAATTTCTTTAT
15420981 TTGACTAATAAAAAGCAAAAGCATGAAGAAAAGAGAGATTTTACCCTTTTTATTTCAACTAAAAG
456 TTGACTAATAAAAAGCAAAAGCATGAAGAAAAGAGAGATTTTACCCTTTTTATTTCAACTAAAAG
*
15421046 TTTCTTTTAAATTTAGAATCAAGTTGTTCTATATTTTATTTTGTATTCTAAGATCTTGTTTATAA
521 TTTCTTTTAAATTTAGAATCAAGTTGTTCTATATGTTATTTTGTATTCTAAGATCTTGTTTATAA
15421111 AAAAAGGAGAAGTTG
586 AAAAAGGAGAAGTTG
15421126 GATTAGGGCACAAGACAAACAATCCAATACATTTTATATTTAAGTGTATGGATAGTATAAATAGG
1 GATTAGGGCACAAGACAAACAATCCAATACATTTTATATTTAAGTGTATGGATAGTATAAATAGG
15421191 ACCAAAATAGTGTAAAAAAAAAGAAAAAAGAGAAAAAAAATAAAATAAAAGAAAAATATTCTTTT
66 ACCAAAATAGTGT------AAA-AAAAAAGAGAAAAAAAATAAAATAAAAGAAAAATATTCTTTT
*
15421256 AATAAATTGACATATAGTTCAATTCAACTAATGCTTATTCAAAATTTGTATCTTCAAAAAATATT
124 AATAAATTGACATATAGTTCAATTCAACTAATGCTTATTCAAAATTTGCATCTTCAAAAAATATT
* *
15421321 TTCCAAAAAAAGAAGACTTTTTTTTATAACAAACAAAAATAGAAAAATAATTTTAAAAAAGGGTT
189 TTCCAAAAAAAAAAAAC-TTTTTTTATAACAAACAAAAATAGAAAAATAATTTTAAAAAAGGGTT
*
15421386 TTTTATTATTTCTTTATATATTGACCGAATAAAAAGCAAAAAATTAAAAAAAAAAAGAAAAATTT
253 TTTTATTATTTCTTTATATATTGACCGAATAAAAAGAAAAAAATT--AAAAAAAAAGAAAAATTT
*
15421451 CTTGAAGTATTGGTAATCTTATATACTTGTTTTCCATAGGAAATGTTTTCTTGAATTATTCTTCT
316 CTTGAAGTAGTGGTAATCTTATATACTTGTTTTCCATAGGAAATGTTTTCTTGAATTATTCTTCT
* *
15421516 TTTTCTTCTAAGAAAAAAAGAAAAAATAAAAAAATGTGA-AAAAAAAAATAAAAAAAAGTTTTCT
381 TTTTCTTCTAAGAAAAAAAGAAAAAATAAAAAAA-AT-ACAAAAAAAAACAAAAAAAAGTTTTCT
*
15421580 TAATTTCTTTATTTGGCTAATAAAAAGCAAAAGCATGAAGAAAAGAGAGATTTTACCCTTTTTAT
444 TAATTTCTTTATTTGACTAATAAAAAGCAAAAGCATGAAGAAAAGAGAGATTTTACCCTTTTTAT
*
15421645 TTCAACTAAAAGTTTCTTTTGAATTTAGAATCAAGTTGTTCTATA-GTTATTTTGTATTCTAAGA
509 TTCAACTAAAAGTTTCTTTTAAATTTAGAATCAAGTTGTTCTATATGTTATTTTGTATTCTAAGA
15421709 TCTTGTTTATAAAAAAAGGAGAAGTT
574 TCTTGTTTATAAAAAAAGGAGAAGTT
15421735 TTAAAACTGA
Statistics
Matches: 581, Mismatches: 16, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
600 78 0.13
606 3 0.01
607 120 0.21
608 90 0.15
610 156 0.27
611 133 0.23
612 1 0.00
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (600 bp):
GATTAGGGCACAAGACAAACAATCCAATACATTTTATATTTAAGTGTATGGATAGTATAAATAGG
ACCAAAATAGTGTAAAAAAAAAGAGAAAAAAAATAAAATAAAAGAAAAATATTCTTTTAATAAAT
TGACATATAGTTCAATTCAACTAATGCTTATTCAAAATTTGCATCTTCAAAAAATATTTTCCAAA
AAAAAAAAACTTTTTTTATAACAAACAAAAATAGAAAAATAATTTTAAAAAAGGGTTTTTTATTA
TTTCTTTATATATTGACCGAATAAAAAGAAAAAAATTAAAAAAAAAGAAAAATTTCTTGAAGTAG
TGGTAATCTTATATACTTGTTTTCCATAGGAAATGTTTTCTTGAATTATTCTTCTTTTTCTTCTA
AGAAAAAAAGAAAAAATAAAAAAAATACAAAAAAAAACAAAAAAAAGTTTTCTTAATTTCTTTAT
TTGACTAATAAAAAGCAAAAGCATGAAGAAAAGAGAGATTTTACCCTTTTTATTTCAACTAAAAG
TTTCTTTTAAATTTAGAATCAAGTTGTTCTATATGTTATTTTGTATTCTAAGATCTTGTTTATAA
AAAAAGGAGAAGTTG
Found at i:15425907 original size:15 final size:14
Alignment explanation
Indices: 15425867--15425909 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
15425857 AATCAAATTT
15425867 AAAAAA-AAAGAAA
1 AAAAAAGAAAGAAA
*
15425880 AAAAAATAGAAGAAA
1 AAAAAAGA-AAGAAA
15425895 AAACAAAGAAAGAAA
1 AAA-AAAGAAAGAAA
15425910 GATATACACC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 6 0.23
14 1 0.04
15 15 0.58
16 4 0.15
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (14 bp):
AAAAAAGAAAGAAA
Found at i:15426277 original size:16 final size:16
Alignment explanation
Indices: 15426256--15426294 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15426246 AGAGGTGTCT
*
15426256 AAAAAAAAGTAAAAAA
1 AAAAAAAAGCAAAAAA
*
15426272 AAAAAAAAGCAAAGAA
1 AAAAAAAAGCAAAAAA
*
15426288 AGAAAAA
1 AAAAAAA
15426295 CATGCTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.85, C:0.03, G:0.10, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGCAAAAAA
Found at i:15428915 original size:43 final size:44
Alignment explanation
Indices: 15428860--15428960 Score: 111
Period size: 43 Copynumber: 2.3 Consensus size: 44
15428850 TTAGTAGTAG
15428860 TAAATC-ATTGATAACTTAATAATAAATCATAGA-TAATTTAAT-A
1 TAAATCTA-TGATAACTTAATAATAAATCATA-ATTAATTTAATAA
** * *
15428903 TAAAT-TAATGATAACTTGGTAATGAATTATAATTAATTTAATAA
1 TAAATCT-ATGATAACTTAATAATAAATCATAATTAATTTAATAA
15428947 TAAATCTATGATAA
1 TAAATCTATGATAA
15428961 TTTTGTAGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
42 1 0.02
43 33 0.67
44 14 0.29
45 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.39
Consensus pattern (44 bp):
TAAATCTATGATAACTTAATAATAAATCATAATTAATTTAATAA
Found at i:15429324 original size:22 final size:22
Alignment explanation
Indices: 15428857--15429355 Score: 143
Period size: 22 Copynumber: 22.4 Consensus size: 22
15428847 AATTTAGTAG
* *
15428857 TAGTAAATCATTGATAACTTAA
1 TAGTAAATCATTAATAATTTAA
*
15428879 TAATAAATCA-TAGATAATTTAA
1 TAGTAAATCATTA-ATAATTTAA
* * * * **
15428901 TA-TAAATTAATGATAACTTGG
1 TAGTAAATCATTAATAATTTAA
* * *
15428922 TAATGAATTA-TAATTAATTTAA
1 TAGTAAATCATTAA-TAATTTAA
* * **
15428944 TAATAAATC-TATGATAATTTTG
1 TAGTAAATCAT-TAATAATTTAA
* **
15428966 TAGTAAATAATTAA-AAAATAA
1 TAGTAAATCATTAATAATTTAA
* * * ** *
15428987 GTAGTAAATCAATGACAACATAG
1 -TAGTAAATCATTAATAATTTAA
**
15429010 TAGTAAATACA-TAATAACATAA
1 TAGTAAAT-CATTAATAATTTAA
* *
15429032 TAGTAAATAATTTATAATTTAGA
1 TAGTAAATCATTAATAATTTA-A
* * *
15429055 T-GTAAATTATTAATAACTTAT
1 TAGTAAATCATTAATAATTTAA
*
15429076 TAGTAAATCAGTAATAATTTAA
1 TAGTAAATCATTAATAATTTAA
* * * *
15429098 TTGCAAATCAATGATAATTTAA
1 TAGTAAATCATTAATAATTTAA
* * * *
15429120 TTGTAAATTAGTAATAATTTTA
1 TAGTAAATCATTAATAATTTAA
* * * *
15429142 CAATAAATTAGTTAATCATTGATAACTTTA
1 TAGTAAATCA-TTAAT-A---AT---TTAA
* * *
15429172 TAGTAAATTATCAATAAATTAA
1 TAGTAAATCATTAATAATTTAA
* * *
15429194 TAGTAAATTATTTATAATTTTA
1 TAGTAAATCATTAATAATTTAA
* * * * *
15429216 TATTAAAT-TTTCAGTAACTTAG
1 TAGTAAATCATT-AATAATTTAA
* * *
15429238 TAGTAAATTATCAATAATTTAT
1 TAGTAAATCATTAATAATTTAA
* * *
15429260 TAATAAATCATTCATAACTTT-G
1 TAGTAAATCATTAATAA-TTTAA
** * *
15429282 TAGTATTTCAATACTAATTTAA
1 TAGTAAATCATTAATAATTTAA
*
15429304 TAGTAAATCATTGATAATTTAA
1 TAGTAAATCATTAATAATTTAA
* * ** *
15429326 TAATATATCATTAATAGCTTAG
1 TAGTAAATCATTAATAATTTAA
15429348 TAGTAAAT
1 TAGTAAAT
15429356 TACTGACAAA
Statistics
Matches: 347, Mismatches: 105, Indels: 50
0.69 0.21 0.10
Matches are distributed among these distances:
21 27 0.08
22 279 0.80
23 20 0.06
24 1 0.00
25 1 0.00
27 2 0.01
28 1 0.00
29 4 0.01
30 12 0.03
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (22 bp):
TAGTAAATCATTAATAATTTAA
Found at i:15429528 original size:19 final size:20
Alignment explanation
Indices: 15429506--15429546 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
15429496 AATAAGTCAA
15429506 TGATAAT-TTAATAGTAAAT
1 TGATAATATTAATAGTAAAT
15429525 TGATAATAACTTAATAGTAAAT
1 TGATAAT-A-TTAATAGTAAAT
15429547 CAATTTGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
22 12 0.63
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (20 bp):
TGATAATATTAATAGTAAAT
Found at i:15429845 original size:22 final size:22
Alignment explanation
Indices: 15429820--15429982 Score: 107
Period size: 22 Copynumber: 7.4 Consensus size: 22
15429810 AAAAACTATT
* * *
15429820 TAGTAAATTAATGATAATATAG
1 TAGTAAATCAATAATAATTTAG
* ** *
15429842 TAGTGAAT-ACATAATAACATAA
1 TAGTAAATCA-ATAATAATTTAG
*
15429864 TAGTAAATCATTTAATAATTTAG
1 TAGTAAATCA-ATAATAATTTAG
* * * *
15429887 -ATGTAAGTTATTGATAATTTAG
1 TA-GTAAATCAATAATAATTTAG
15429909 TAGTAAATCAATAATAATTTAG
1 TAGTAAATCAATAATAATTTAG
* * * *
15429931 TTGCAAATCAGTGATAATTTAG
1 TAGTAAATCAATAATAATTTAG
*
15429953 -ATGTAAATCAATAATAATTTTG
1 TA-GTAAATCAATAATAATTTAG
*
15429975 TAATAAAT
1 TAGTAAAT
15429983 TAGTTAATCA
Statistics
Matches: 108, Mismatches: 27, Indels: 12
0.73 0.18 0.08
Matches are distributed among these distances:
21 1 0.01
22 90 0.83
23 17 0.16
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (22 bp):
TAGTAAATCAATAATAATTTAG
Found at i:15429929 original size:44 final size:44
Alignment explanation
Indices: 15429864--15429972 Score: 139
Period size: 44 Copynumber: 2.5 Consensus size: 44
15429854 AATAACATAA
* * * * *
15429864 TAGTAAATCATTTAATAATTTAGATGTAAGTTATTGATAATTTAG
1 TAGTAAATCA-ATAATAATTTAGATGCAAATCAGTGATAATTTAG
*
15429909 TAGTAAATCAATAATAATTTAGTTGCAAATCAGTGATAATTTAG
1 TAGTAAATCAATAATAATTTAGATGCAAATCAGTGATAATTTAG
15429953 -ATGTAAATCAATAATAATTT
1 TA-GTAAATCAATAATAATTT
15429973 TGTAATAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.02
44 46 0.81
45 10 0.18
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (44 bp):
TAGTAAATCAATAATAATTTAGATGCAAATCAGTGATAATTTAG
Found at i:15429998 original size:30 final size:30
Alignment explanation
Indices: 15429958--15430014 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
15429948 TTTAGATGTA
* *
15429958 AATCAATAATAATTTTGTAATAAATTAGTT
1 AATCAATAATAACTTTATAATAAATTAGTT
*
15429988 AATCATTAATAACTTTATAATAAATTA
1 AATCAATAATAACTTTATAATAAATTA
15430015 TCAATAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (30 bp):
AATCAATAATAACTTTATAATAAATTAGTT
Found at i:15430020 original size:22 final size:22
Alignment explanation
Indices: 15429995--15430092 Score: 90
Period size: 22 Copynumber: 4.5 Consensus size: 22
15429985 GTTAATCATT
15429995 AATAACTTTATAATAAATTATC
1 AATAACTTTATAATAAATTATC
* * *
15430017 AATAAATTAATAATAAATTATT
1 AATAACTTTATAATAAATTATC
* * * * *
15430039 TATAATTTTATATTAAATCATT
1 AATAACTTTATAATAAATTATC
* * *
15430061 AGTAACTTAATAGTAAATTATC
1 AATAACTTTATAATAAATTATC
15430083 AATAA-TTTAT
1 AATAACTTTAT
15430093 TAGTATATCA
Statistics
Matches: 59, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
21 4 0.07
22 55 0.93
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (22 bp):
AATAACTTTATAATAAATTATC
Found at i:15430026 original size:30 final size:30
Alignment explanation
Indices: 15429964--15430029 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
15429954 TGTAAATCAA
* * * *
15429964 TAATAATTTTGTAATAAATTAGTTAATCAT
1 TAATAACTTTATAATAAATTAGTCAATAAT
15429994 TAATAACTTTATAATAAATTA-TCAATAAAT
1 TAATAACTTTATAATAAATTAGTCAAT-AAT
15430024 TAATAA
1 TAATAA
15430030 TAAATTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (30 bp):
TAATAACTTTATAATAAATTAGTCAATAAT
Found at i:15430043 original size:11 final size:11
Alignment explanation
Indices: 15429992--15430094 Score: 59
Period size: 11 Copynumber: 9.4 Consensus size: 11
15429982 TTAGTTAATC
*
15429992 ATTAATAACTT
1 ATTAATAAATT
15430003 -TATAATAAATT
1 AT-TAATAAATT
*
15430014 ATCAATAAATT
1 ATTAATAAATT
*
15430025 AATAATAAATT
1 ATTAATAAATT
*
15430036 ATTTAT-AATT
1 ATTAATAAATT
*
15430046 -TTATATTAAATC
1 ATTA-A-TAAATT
* *
15430058 ATTAGTAACTT
1 ATTAATAAATT
* *
15430069 AATAGTAAATT
1 ATTAATAAATT
* *
15430080 ATCAATAATTT
1 ATTAATAAATT
15430091 ATTA
1 ATTA
15430095 GTATATCATT
Statistics
Matches: 68, Mismatches: 18, Indels: 12
0.69 0.18 0.12
Matches are distributed among these distances:
9 2 0.03
10 6 0.09
11 53 0.78
12 4 0.06
13 3 0.04
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.45
Consensus pattern (11 bp):
ATTAATAAATT
Found at i:15430096 original size:22 final size:22
Alignment explanation
Indices: 15429981--15430197 Score: 89
Period size: 22 Copynumber: 9.9 Consensus size: 22
15429971 TTTGTAATAA
* *
15429981 ATTAGTTAATCATTAATAACTTT
1 ATTAGTAAATTATTAATAA-TTT
* * *
15430004 A-TAATAAATTATCAATAAATT
1 ATTAGTAAATTATTAATAATTT
* * *
15430025 AATAATAAATTATTTATAATTT
1 ATTAGTAAATTATTAATAATTT
* * * *
15430047 -TATATTAAATCATTAGTAACTT
1 AT-TAGTAAATTATTAATAATTT
* *
15430069 AATAGTAAATTATCAATAATTT
1 ATTAGTAAATTATTAATAATTT
* * * *
15430091 ATTAGTATATCATTCATAACTT
1 ATTAGTAAATTATTAATAATTT
* * * *
15430113 AATAGT-ACTTCAATATTAATTT
1 ATTAGTAAATT-ATTAATAATTT
* * *
15430135 AGTAGTAAATCATTGATAATTT
1 ATTAGTAAATTATTAATAATTT
* * * * **
15430157 AGTAATATATTATTGATAGCTT
1 ATTAGTAAATTATTAATAATTT
* *
15430179 AGTAGTAAATCATTAATAA
1 ATTAGTAAATTATTAATAA
15430198 AATAATAATA
Statistics
Matches: 139, Mismatches: 50, Indels: 11
0.69 0.25 0.05
Matches are distributed among these distances:
21 4 0.03
22 132 0.95
23 3 0.02
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (22 bp):
ATTAGTAAATTATTAATAATTT
Found at i:15430103 original size:44 final size:44
Alignment explanation
Indices: 15429995--15430119 Score: 121
Period size: 44 Copynumber: 2.8 Consensus size: 44
15429985 GTTAATCATT
* * * * * *
15429995 AATAACTTTATAATAAATTA-TCAATAAATTAATAATAAATTATT
1 AATAATTTTATAGTAAATCATTC-ATAACTTAATAGTAAATTATC
* *
15430039 TATAATTTTATATTAAATCATT-AGTAACTTAATAGTAAATTATC
1 AATAATTTTATAGTAAATCATTCA-TAACTTAATAGTAAATTATC
*
15430083 AATAA-TTTATTAGTATATCATTCATAACTTAATAGTA
1 AATAATTTTA-TAGTAAATCATTCATAACTTAATAGTA
15430120 CTTCAATATT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
43 5 0.07
44 60 0.90
45 2 0.03
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.43
Consensus pattern (44 bp):
AATAATTTTATAGTAAATCATTCATAACTTAATAGTAAATTATC
Found at i:15430181 original size:44 final size:44
Alignment explanation
Indices: 15430133--15430242 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
15430123 CAATATTAAT
** * * * *
15430133 TTAGTAGTAAATCATTGATAATTTAGTAATATATTATTGATAGC
1 TTAGTAGTAAATCATTGATAAAATAATAATAAATTAATGATAAC
*
15430177 TTAGTAGTAAATCATTAATAAAATAATAATAAATTAATGATAAC
1 TTAGTAGTAAATCATTGATAAAATAATAATAAATTAATGATAAC
* * *
15430221 TTAATTGTTAATCATTGATAAA
1 TTAGTAGTAAATCATTGATAAA
15430243 TTTTTTATAC
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (44 bp):
TTAGTAGTAAATCATTGATAAAATAATAATAAATTAATGATAAC
Found at i:15430565 original size:21 final size:22
Alignment explanation
Indices: 15430513--15430575 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
15430503 ATCATAAGGT
15430513 ATCAAAAAATTACTAAAATTAA
1 ATCAAAAAATTACTAAAATTAA
* **
15430535 ATCTAAAAATTACTAAAATTTT
1 ATCAAAAAATTACTAAAATTAA
*
15430557 AT-AAAAAATTATTAAAATT
1 ATCAAAAAATTACTAAAATT
15430576 GTACCAATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 15 0.42
22 21 0.58
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (22 bp):
ATCAAAAAATTACTAAAATTAA
Found at i:15430614 original size:21 final size:21
Alignment explanation
Indices: 15430590--15430679 Score: 74
Period size: 21 Copynumber: 4.3 Consensus size: 21
15430580 CAATGATTAA
* * *
15430590 CAAAATTATATTATAAGTTAT
1 CAAAATTATATCAAAAGTTAC
* * *
15430611 CAAAATAAAATCAAAAGCTAC
1 CAAAATTATATCAAAAGTTAC
* *
15430632 CAAAATTGTATTC-AAGGTTAC
1 CAAAATTATA-TCAAAAGTTAC
* *
15430653 CAAAATTTTATCAAAAGTTAT
1 CAAAATTATATCAAAAGTTAC
15430674 CAAAAT
1 CAAAAT
15430680 CAAAATTATA
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
20 2 0.04
21 49 0.92
22 2 0.04
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (21 bp):
CAAAATTATATCAAAAGTTAC
Found at i:15430683 original size:16 final size:17
Alignment explanation
Indices: 15430662--15430694 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
15430652 CCAAAATTTT
15430662 ATCAAAAGT-TATCAAA
1 ATCAAAAGTATATCAAA
*
15430678 ATCAAAATTATATCAAA
1 ATCAAAAGTATATCAAA
15430695 TGTTATCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (17 bp):
ATCAAAAGTATATCAAA
Found at i:15430691 original size:27 final size:27
Alignment explanation
Indices: 15430653--15430704 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
15430643 TCAAGGTTAC
*
15430653 CAAAATTTTATCAAAAGTTATCAAAAT
1 CAAAATTATATCAAAAGTTATCAAAAT
*
15430680 CAAAATTATATCAAATGTTATCAAA
1 CAAAATTATATCAAAAGTTATCAAA
15430705 TTTTACTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.33
Consensus pattern (27 bp):
CAAAATTATATCAAAAGTTATCAAAAT
Found at i:15431061 original size:22 final size:21
Alignment explanation
Indices: 15431036--15431095 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
15431026 ATAAAATATC
15431036 AAAAAGTTACTAAAATTAAAT
1 AAAAAGTTACTAAAATTAAAT
* **
15431057 AAAAAAATTACTAAAATTTTAT
1 -AAAAAGTTACTAAAATTAAAT
*
15431079 AAAAAGTTATTAAAATT
1 AAAAAGTTACTAAAATT
15431096 GTACCAATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
21 15 0.45
22 18 0.55
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (21 bp):
AAAAAGTTACTAAAATTAAAT
Found at i:15431064 original size:32 final size:31
Alignment explanation
Indices: 15431001--15431064 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
15430991 ACGTAAATTT
* * * *
15431001 TATCAATAATTACTAAAAATATATCATAAAA
1 TATCAAAAATTACTAAAAATAAATAAAAAAA
*
15431032 TATCAAAAAGTTACTAAAATTAAATAAAAAAA
1 TATCAAAAA-TTACTAAAAATAAATAAAAAAA
15431064 T
1 T
15431065 TACTAAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 8 0.30
32 19 0.70
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.30
Consensus pattern (31 bp):
TATCAAAAATTACTAAAAATAAATAAAAAAA
Found at i:15431192 original size:21 final size:21
Alignment explanation
Indices: 15431031--15431199 Score: 72
Period size: 21 Copynumber: 8.0 Consensus size: 21
15431021 ATATCATAAA
*
15431031 ATATCAAAAAGTTACTAAAATT
1 ATATC-AAAAGTTACCAAAATT
* * * *
15431053 AAATAAAAAAATTACTAAAATT
1 ATAT-CAAAAGTTACCAAAATT
* * **
15431075 TTATAAAAAGTTATTAAAATT
1 ATATCAAAAGTTACCAAAATT
* * * *
15431096 GTA-CCAATGATTATCAAAATT
1 ATATCAAAAG-TTACCAAAATT
* * * *
15431117 ATATTATAAGTTATCAAAATA
1 ATATCAAAAGTTACCAAAATT
* * *
15431138 AAATCGAAAGCTACCAAAATT
1 ATATCAAAAGTTACCAAAATT
* *
15431159 GTATTC-AAGGTTACCAAAATT
1 ATA-TCAAAAGTTACCAAAATT
* *
15431180 TTATCAAAAGTTATCAAAAT
1 ATATCAAAAGTTACCAAAAT
15431200 CAAAATTATA
Statistics
Matches: 110, Mismatches: 32, Indels: 11
0.72 0.21 0.07
Matches are distributed among these distances:
20 5 0.05
21 81 0.74
22 24 0.22
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (21 bp):
ATATCAAAAGTTACCAAAATT
Found at i:15431203 original size:16 final size:17
Alignment explanation
Indices: 15431182--15431214 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
15431172 CCAAAATTTT
15431182 ATCAAAAGT-TATCAAA
1 ATCAAAAGTATATCAAA
*
15431198 ATCAAAATTATATCAAA
1 ATCAAAAGTATATCAAA
15431215 TGTTATCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (17 bp):
ATCAAAAGTATATCAAA
Found at i:15431211 original size:27 final size:27
Alignment explanation
Indices: 15431173--15431224 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
15431163 TCAAGGTTAC
*
15431173 CAAAATTTTATCAAAAGTTATCAAAAT
1 CAAAATTATATCAAAAGTTATCAAAAT
*
15431200 CAAAATTATATCAAATGTTATCAAA
1 CAAAATTATATCAAAAGTTATCAAA
15431225 TTTTACTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.33
Consensus pattern (27 bp):
CAAAATTATATCAAAAGTTATCAAAAT
Found at i:15434104 original size:35 final size:35
Alignment explanation
Indices: 15434055--15434122 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
15434045 AACTCTGGTC
*
15434055 TATTGTATAAAGGAATTGTTAGGGGCATTTGATCA
1 TATTGTATAAAGGAATTATTAGGGGCATTTGATCA
*
15434090 TATTGTATAGAGGAATTATTAGGGGCATTTGAT
1 TATTGTATAAAGGAATTATTAGGGGCATTTGAT
15434123 AGTCAAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.31, C:0.04, G:0.26, T:0.38
Consensus pattern (35 bp):
TATTGTATAAAGGAATTATTAGGGGCATTTGATCA
Found at i:15434699 original size:85 final size:85
Alignment explanation
Indices: 15434551--15435327 Score: 465
Period size: 85 Copynumber: 9.1 Consensus size: 85
15434541 AAAGAAGGAG
* * * *** *
15434551 AAATAACTCGGCCAAAAGAACTCGAACTCAGCTCAATCAAAAGAGCTC-GAATCTACCAAATGCC
1 AAATAACTCGACCAAAA-AATTCGGACTCAGCTCGGCCAAAAGAGTTCAG-ATCTACCAAATGCC
*
15434615 TTCATAAAGGTCCAATTCAACA
64 TTCATAAAGGCCCAATTCAACA
* * * *
15434637 AAATAGCTCGACCAAAAAATTCGGACTCAGCTCGGCCAAAAAAGTTCAGATTTACCATATGCCTT
1 AAATAACTCGACCAAAAAATTCGGACTCAGCTCGGCCAAAAGAGTTCAGATCTACCAAATGCCTT
* *
15434702 CGTAAAGGTCCAATTCAACA
66 CATAAAGGCCCAATTCAACA
* * * ** * * * * * **
15434722 AAACAGCTCGACCAAAAAGTTTAGAATCAGCTTGGTCAAAAGAGCTCAGATATATGAAATGCCTT
1 AAATAACTCGACCAAAAAATTCGGACTCAGCTCGGCCAAAAGAGTTCAGATCTACCAAATGCCTT
*
15434787 CATAAAGGCCCAACTCAACA
66 CATAAAGGCCCAATTCAACA
* * * * * * * * * **
15434807 AAATAGCT-TAGCTAAAGAGTTTGGATTCAGCTCAGCCAAAAGAGGTC-GAATCTATGAAATGCC
1 AAATAACTCGA-CCAAAAAATTCGGACTCAGCTCGGCCAAAAGAGTTCAG-ATCTACCAAATGCC
* * * *
15434870 TTTATAAAGACCCAACTCGACA
64 TTCATAAAGGCCCAATTCAACA
* ** * ** ** * * *
15434892 AAACAACTCGACCAAAGAGCTT-GGACTCAACTCGATCAAAAGAGTTTGGATCCACAAAATACCT
1 AAATAACTCGACCAAA-AAATTCGGACTCAGCTCGGCCAAAAGAGTTCAGATCTACCAAATGCCT
*
15434956 TTATAAAGGCCCAATTCGAA-A
65 TCATAAAGGCCCAATTC-AACA
* * * * * * **
15434977 AAAGTAACTCTACCAAAAAACTCAGACTCAGTTCGACCAAAAGAGTTTAGATCTATGAAATGCCT
1 AAA-TAACTCGACCAAAAAATTCGGACTCAGCTCGGCCAAAAGAGTTCAGATCTACCAAATGCCT
* *
15435042 TCATAAAGGCCAAACTCAACA
65 TCATAAAGGCCCAATTCAACA
* * ** * * * * * * * * **
15435063 AAATAACTTGGCCAAAAAGCTCGGATTTAGCTTGGTCAAAAGAATTCGGATCCACAAAATATCTT
1 AAATAACTCGACCAAAAAATTCGGACTCAGCTCGGCCAAAAGAGTTCAGATCTACCAAATGCCTT
* **
15435128 CATAAATGCCCAATTTGACA
66 CATAAAGGCCCAATTCAACA
* ** * *
15435148 AAATAACTCGACCAAAGAGA-TCAAACTCAACTCGGCCAAAAGAATTC-GAATCTACC-AATGCC
1 AAATAACTCGACCAAA-AAATTCGGACTCAGCTCGGCCAAAAGAGTTCAG-ATCTACCAAATGCC
*
15435210 TTCATAAAGGCCTAATTCAACA
64 TTCATAAAGGCCCAATTCAACA
* * * ** * * * * * *
15435232 AAACAACTCGACCAAATGAGTTCAAACTCAACTCGGTCAAAAAAGCTT-GGATCTACAAAATACC
1 AAATAACTCGACCAAA-AAATTCGGACTCAGCTCGGCCAAAAGAG-TTCAGATCTACCAAATGCC
* ** *
15435296 TTCATAAAGACTTAACTCAACA
64 TTCATAAAGGCCCAATTCAACA
*
15435318 AAATAGCTCG
1 AAATAACTCG
15435328 CTTAAAGAGC
Statistics
Matches: 537, Mismatches: 138, Indels: 32
0.76 0.20 0.05
Matches are distributed among these distances:
84 40 0.07
85 378 0.70
86 119 0.22
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.21
Consensus pattern (85 bp):
AAATAACTCGACCAAAAAATTCGGACTCAGCTCGGCCAAAAGAGTTCAGATCTACCAAATGCCTT
CATAAAGGCCCAATTCAACA
Found at i:15434922 original size:24 final size:25
Alignment explanation
Indices: 15434895--15434941 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
15434885 CTCGACAAAA
*
15434895 CAACTCGA-CCAAAGAGCTTGGACT
1 CAACTCGATCAAAAGAGCTTGGACT
*
15434919 CAACTCGATCAAAAGAGTTTGGA
1 CAACTCGATCAAAAGAGCTTGGA
15434942 TCCACAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.19
Consensus pattern (25 bp):
CAACTCGATCAAAAGAGCTTGGACT
Found at i:15435104 original size:171 final size:170
Alignment explanation
Indices: 15434854--15435304 Score: 462
Period size: 171 Copynumber: 2.6 Consensus size: 170
15434844 AAAAGAGGTC
* * * * * *
15434854 GAATCTATGAAATGCCTTTATAAAGACCCAACTCGACAAAACAACTCGACCAAAGAGCTTGGACT
1 GAATCTATGAAATGCCTTCATAAAGGCCAAACTCAACAAAACAACTCGACCAAAAAGCTCGGACT
* * *
15434919 CAACTCGATCAAAAGAGTTTGGATCCACAAAATACCTTTATAAAGGCCCAATTCGAAAAAAGTAA
66 CAACTCGATCAAAAGAATTCGGATCCACAAAATACCTTCATAAAGGCCCAATTCGAAAAAA-TAA
* * ** *
15434984 CTCTACCAAA-AAACTCAGACTCAGTTCGACCAAAAGAGTTTA
130 CTCGACCAAAGAAA-TCAAACTCAACTCGACCAAAAGA-ATTA
* * * *
15435026 G-ATCTATGAAATGCCTTCATAAAGGCCAAACTCAACAAAATAACTTGGCCAAAAAGCTCGGATT
1 GAATCTATGAAATGCCTTCATAAAGGCCAAACTCAACAAAACAACTCGACCAAAAAGCTCGGACT
* * * * * * * *
15435090 TAGCTTGGTCAAAAGAATTCGGATCCACAAAATATCTTCATAAATGCCCAATTTGACAAAATAAC
66 CAACTCGATCAAAAGAATTCGGATCCACAAAATACCTTCATAAAGGCCCAATTCGAAAAAATAAC
* * *
15435155 TCGACCAAAGAGATCAAACTCAACTCGGCCAAAAGAATTC
131 TCGACCAAAGAAATCAAACTCAACTCGACCAAAAGAATTA
** * * * * **
15435195 GAATCTA-CCAATGCCTTCATAAAGGCCTAATTCAACAAAACAACTCGACCAAATGAGTTCAAAC
1 GAATCTATGAAATGCCTTCATAAAGGCCAAACTCAACAAAACAACTCGACCAAA-AAGCTCGGAC
* *
15435259 TCAACTCGGTCAAAA-AAGCTT-GGATCTACAAAATACCTTCATAAAG
65 TCAACTCGATCAAAAGAA--TTCGGATCCACAAAATACCTTCATAAAG
15435305 ACTTAACTCA
Statistics
Matches: 227, Mismatches: 47, Indels: 12
0.79 0.16 0.04
Matches are distributed among these distances:
169 44 0.19
170 75 0.33
171 107 0.47
172 1 0.00
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.22
Consensus pattern (170 bp):
GAATCTATGAAATGCCTTCATAAAGGCCAAACTCAACAAAACAACTCGACCAAAAAGCTCGGACT
CAACTCGATCAAAAGAATTCGGATCCACAAAATACCTTCATAAAGGCCCAATTCGAAAAAATAAC
TCGACCAAAGAAATCAAACTCAACTCGACCAAAAGAATTA
Found at i:15435713 original size:86 final size:84
Alignment explanation
Indices: 15435523--15435729 Score: 236
Period size: 85 Copynumber: 2.4 Consensus size: 84
15435513 AATAGTTTGA
* ** * *
15435523 CCAAAAAGCTTGGATCTACAAAATACCTTCATAAAGGTCCAATTTGACAAAACAGTTCGGTCAAA
1 CCAAAAAGCTTGGATCTACGAAATACCTTCATAAAGGTCCAATTTGACAAAACAACTCAGCCAAA
** * * *
15435588 GATTTTGAACTCAGCTTAG
66 GAGCTCGAACTCAACTGAG
* *
15435607 CCAAAAAAGCTTGGATCTACGAAATACCTTCATAAATGTCTAATTTGACAAAACAACTCAGCCAA
1 CC-AAAAAGCTTGGATCTACGAAATACCTTCATAAAGGTCCAATTTGACAAAACAACTCAGCC-A
*
15435672 AAGAGCTCGGACTCAACTCGA-
64 AAGAGCTCGAACTCAACT-GAG
* *
15435693 TCAAAAGAGCTTGGATCTACGAAATAACTTCATAAAG
1 CCAAAA-AGCTTGGATCTACGAAATACCTTCATAAAG
15435730 ACCAAATTCG
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
84 2 0.02
85 57 0.55
86 43 0.42
87 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (84 bp):
CCAAAAAGCTTGGATCTACGAAATACCTTCATAAAGGTCCAATTTGACAAAACAACTCAGCCAAA
GAGCTCGAACTCAACTGAG
Found at i:15436022 original size:27 final size:27
Alignment explanation
Indices: 15435976--15436027 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
15435966 GCTTGGCTCA
* **
15435976 ATCACCTCTGTCAAGGAGCTAATCTCT
1 ATCACCTCAGTCAAAAAGCTAATCTCT
*
15436003 ATCACCTCAGTCAAAAAGCTCATCT
1 ATCACCTCAGTCAAAAAGCTAATCT
15436028 TAGTAAATTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.27
Consensus pattern (27 bp):
ATCACCTCAGTCAAAAAGCTAATCTCT
Found at i:15463899 original size:6 final size:6
Alignment explanation
Indices: 15463868--15463907 Score: 50
Period size: 5 Copynumber: 7.0 Consensus size: 6
15463858 GAGATTAGAG
15463868 TTTT-T TTTT-T TTTT-T TTTTCT TTTTCT TTTTCCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT-CT TTTTCT
15463908 GGCATTGGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 14 0.42
6 13 0.39
7 6 0.18
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTCT
Found at i:15473827 original size:13 final size:13
Alignment explanation
Indices: 15473809--15473844 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
15473799 CTATGAAAGA
15473809 CACATCATTTGGT
1 CACATCATTTGGT
15473822 CACATCATTTGGT
1 CACATCATTTGGT
*
15473835 CATATCATTT
1 CACATCATTT
15473845 CTCATGTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (13 bp):
CACATCATTTGGT
Found at i:15479847 original size:64 final size:64
Alignment explanation
Indices: 15479779--15479989 Score: 196
Period size: 64 Copynumber: 3.3 Consensus size: 64
15479769 AATTTTTAGA
*
15479779 GGATTATTGAAAGCATTTTTAGTCTAAAAATGCTTTCAATAATTCCCTAATAAAAAATTGGAGT
1 GGATTATTGAAAGCATTTTTAGTCTAAAAATGCTTTCAATAATTCCCTATTAAAAAATTGGAGT
* * **** * * * ** **
15479843 GGATTATTGAAGGTATTTTCTACAAAAAAAAGGCTTTCAATAATTTCCT-TTACAATTTTTCA-T
1 GGATTATTGAAAGCATTTT-TAGTCTAAAAATGCTTTCAATAATTCCCTATTAAAAAATTGGAGT
* * *
15479906 GGGATTATTGAAGGCGTTTTTAGTCTAAAAATGCCTTCAATAA-TCTCCTATTAAAAAATTGGAG
1 -GGATTATTGAAAGCATTTTTAGTCTAAAAATGCTTTCAATAATTC-CCTATTAAAAAATTGGAG
15479970 T
64 T
*
15479971 GGATT-TTTAAAGGCATTTT
1 GGATTATTGAAA-GCATTTT
15479990 CTGCCAAAAA
Statistics
Matches: 110, Mismatches: 31, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
62 1 0.01
63 25 0.23
64 60 0.55
65 24 0.22
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (64 bp):
GGATTATTGAAAGCATTTTTAGTCTAAAAATGCTTTCAATAATTCCCTATTAAAAAATTGGAGT
Found at i:15480077 original size:133 final size:128
Alignment explanation
Indices: 15479748--15480080 Score: 325
Period size: 128 Copynumber: 2.6 Consensus size: 128
15479738 CAACAAAATA
* * * * * * *
15479748 CCTTTAATAATTTTCTATAAAA-ATTTTTAGAGGATTATTGAAAGCATTTTTAGTCTAAAAATGC
1 CCTTCAATAATTTCCTTTAAAATA-TTTAAGGGGATTATTGAAGGCATTTTTAGTCAAAAAATGC
* * * * *
15479812 TTTCAATAATTCCCTAATAAAAAATTGGAGTGGATTATTGAAGGTATTTTCTACAAAAAAAAGG
65 CTTCAATAATTCCCTAATAAAAAATTGGAGTGGATTATTAAAGGCATTTTCTAAAAAAAAAAAG
* * * * * * *
15479876 CTTTCAATAATTTCCTTTACAATTTTTCATGGGATTATTGAAGGCGTTTTTAGTCTAAAAATGCC
1 CCTTCAATAATTTCCTTTAAAATATTTAAGGGGATTATTGAAGGCATTTTTAGTCAAAAAATGCC
* *
15479941 TTCAATAA-TCTCCTATTAAAAAATTGGAGTGGATTTTTAAAGGCATTTTCTGCCAAAAAAAAAA
66 TTCAATAATTC-CCTAATAAAAAATTGGAGTGGATTATTAAAGGCATTTTCT-----AAAAAAAA
15480005 AAAG
125 AAAG
* * *
15480009 CCTTCAATAAATTT-TTTTAAAATATTTAAGGGGATTATT-AGAGGCATTTTTTG-CAAAAAAAA
1 CCTTCAAT-AATTTCCTTTAAAATATTTAAGGGGATTATTGA-AGGCATTTTTAGTC-AAAAAAT
15480071 GCCTTCAATA
63 GCCTTCAATA
15480081 GTTTTCATTA
Statistics
Matches: 167, Mismatches: 28, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
127 2 0.01
128 96 0.57
132 2 0.01
133 62 0.37
134 5 0.03
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.37
Consensus pattern (128 bp):
CCTTCAATAATTTCCTTTAAAATATTTAAGGGGATTATTGAAGGCATTTTTAGTCAAAAAATGCC
TTCAATAATTCCCTAATAAAAAATTGGAGTGGATTATTAAAGGCATTTTCTAAAAAAAAAAAG
Found at i:15480122 original size:63 final size:64
Alignment explanation
Indices: 15479748--15480146 Score: 184
Period size: 64 Copynumber: 6.2 Consensus size: 64
15479738 CAACAAAATA
* * * * * * * * * *
15479748 CCTTTAATAATTTTCTATAAAAAT-TTTTAGAGGATTATTGAAAGCATTTTTAGTC-TAAAAATG
1 CCTTCAATAA-TTTCCATTAAAATATTTCAGTGGATTATTGAAGGCATTTTTTGCCAAAAAAAAG
* * * * ** * * *
15479811 CTTTCAATAATTCCCTAATAAAAAATTGGAGTGGATTATTGAAGGTATTTTCT-ACAAAAAAAAG
1 CCTTCAATAATTTCC-ATTAAAATATTTCAGTGGATTATTGAAGGCATTTTTTGCCAAAAAAAA-
15479875 G
64 G
* * * * * * * * *
15479876 CTTTCAATAATTTCCTTTACAATTTTTCA-TGGGATTATTGAAGGCGTTTTTAGTC-TAAAAATG
1 CCTTCAATAATTTCCATTAAAATATTTCAGT-GGATTATTGAAGGCATTTTTTGCCAAAAAAAAG
* * ** * * *
15479939 CCTTCAATAATCTCCTATTAAAAAATTGGAGTGGATTTTTAAAGGCATTTTCTGCCAAAAAAAAA
1 CCTTCAATAATTTCC-ATTAAAATATTTCAGTGGATTATTGAAGGCATTTTTTGCC-----AAAA
15480004 AAAAG
60 AAAAG
** * *
15480009 CCTTCAATAAATTT-TTTTAAAATATTTAAGGGGATTATT-AGAGGCATTTTTTG-CAAAAAAAA
1 CCTTCAAT-AATTTCCATTAAAATATTTCAGTGGATTATTGA-AGGCATTTTTTGCCAAAAAAAA
15480071 G
64 G
* * * * * * * * * *
15480072 CCTTCAATAGTTTTCATTACAATTTTTCATTGGATTATTGAAGGCGTTTTTAGTCTAAAAAATG
1 CCTTCAATAATTTCCATTAAAATATTTCAGTGGATTATTGAAGGCATTTTTTGCCAAAAAAAAG
*
15480136 ACTTCAATAAT
1 CCTTCAATAAT
15480147 CCTTATCAAA
Statistics
Matches: 246, Mismatches: 71, Indels: 37
0.69 0.20 0.10
Matches are distributed among these distances:
62 7 0.03
63 74 0.30
64 99 0.40
65 17 0.07
68 2 0.01
69 29 0.12
70 14 0.06
71 4 0.02
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.38
Consensus pattern (64 bp):
CCTTCAATAATTTCCATTAAAATATTTCAGTGGATTATTGAAGGCATTTTTTGCCAAAAAAAAG
Found at i:15480188 original size:196 final size:197
Alignment explanation
Indices: 15479843--15480253 Score: 578
Period size: 196 Copynumber: 2.1 Consensus size: 197
15479833 AAATTGGAGT
* * *
15479843 GGATTATT-GAAGGTATTTTCTACAAAAAAAAGGCTTTCAATAATTTCCTTTACAATTTTTCATG
1 GGATTATTAG-AGGCATTTTCTACAAAAAAAAGGCCTTCAATAATTTCCATTACAATTTTTCATG
* *
15479907 GGATTATTGAAGGCGTTTTTAGTCTAAAAATGCCTTCAATAATCTCCTATTAAAAAATTGGAGTG
65 GGATTATTGAAGGCGTTTTTAGTCTAAAAATGACTTCAATAATCTCCTATCAAAAAATTGGAGTG
** * *
15479972 GATTTTTAAAGGCATTTTCTGCCAAAAAAAAAAAAA-GCCTTCAATAAATTTTTTTAAAATATTT
130 GATTTCCAAAGGCATTTTCTGCAAAAAAAAAAAAAATACCTTCAAT-AATTTTTTTAAAATATTT
*
15480036 AAGG
194 AAAG
* * * * *
15480040 GGATTATTAGAGGCATTTTTTGCAAAAAAAA-GCCTTCAATAGTTTTCATTACAATTTTTCATTG
1 GGATTATTAGAGGCATTTTCTACAAAAAAAAGGCCTTCAATAATTTCCATTACAATTTTTCATGG
*
15480104 GATTATTGAAGGCGTTTTTAGTCTAAAAAATGACTTCAATAATC-CTTATCAAAAAATTGGAGTG
66 GATTATTGAAGGCGTTTTTAGTCT-AAAAATGACTTCAATAATCTCCTATCAAAAAATTGGAGTG
* * *
15480168 GATTTCCAAAGGCGTTTTCTGTAAAAAAAAAAAAAATACCTTTAATAATTTTTTTAAAATATTTA
130 GATTTCCAAAGGCATTTTCTGCAAAAAAAAAAAAAATACCTTCAATAATTTTTTTAAAATATTTA
*
15480233 AAT
195 AAG
*
15480236 GGATTATTAAAGGCATTT
1 GGATTATTAGAGGCATTT
15480254 GTGATTGAAA
Statistics
Matches: 190, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
196 138 0.73
197 51 0.27
198 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (197 bp):
GGATTATTAGAGGCATTTTCTACAAAAAAAAGGCCTTCAATAATTTCCATTACAATTTTTCATGG
GATTATTGAAGGCGTTTTTAGTCTAAAAATGACTTCAATAATCTCCTATCAAAAAATTGGAGTGG
ATTTCCAAAGGCATTTTCTGCAAAAAAAAAAAAAATACCTTCAATAATTTTTTTAAAATATTTAA
AG
Found at i:15480306 original size:196 final size:196
Alignment explanation
Indices: 15479908--15480318 Score: 481
Period size: 196 Copynumber: 2.1 Consensus size: 196
15479898 TTTTTCATGG
* *
15479908 GATTATTGAAGGCGTTTTTAGTCTAAAAATGCCTTCAATAATCTCCTATTAAAAAATTGGAGTGG
1 GATTATTGAAGGCGTTTTTAGTCTAAAAATGACTTCAATAATCTCCTATCAAAAAATTGGAGTGG
** * *
15479973 ATTTTTAAAGGCATTTTCTGCCAAAAAAAAAAAAAGCCTTCAATAAATTTTTTTAAAATATTTAA
66 ATTTCCAAAGGCATTTTCTGCAAAAAAAAAAAAAAACCTTCAATAAATTTTTTTAAAATATTTAA
* * * * ** * * * * *
15480038 GGGGATTATTAGAGGCATTTTTTGCAAAAAAAAGCCTTCAATAGTTTTCATTACAATTTTTCATT
131 AGGGATTATTAAAGGCATTTTGTGCAAAAAAAAGCCTTCAATAATCCTCATAAAAACTTATCAAT
*
15480103 G
196 A
*
15480104 GATTATTGAAGGCGTTTTTAGTCTAAAAAATGACTTCAATAATC-CTTATCAAAAAATTGGAGTG
1 GATTATTGAAGGCGTTTTTAGTCT-AAAAATGACTTCAATAATCTCCTATCAAAAAATTGGAGTG
* * *
15480168 GATTTCCAAAGGCGTTTTCTGTAAAAAAAAAAAAAATACCTTTAAT-AATTTTTTTAAAATATTT
65 GATTTCCAAAGGCATTTTCTGCAAAAAAAAAAAAAA-ACCTTCAATAAATTTTTTTAAAATATTT
* ** * *
15480232 AAATGGATTATTAAAGGCA-TTTGTG-ATTGAAAATGCCTTCAATAATCCCCTGATAAAAACTTA
129 AAAGGGATTATTAAAGGCATTTTGTGCA-AAAAAAAGCCTTCAATAAT--CCTCATAAAAACTTA
15480295 T-AATA
191 TCAATA
* *
15480300 GATTATTGAAAGCATTTTT
1 GATTATTGAAGGCGTTTTT
15480319 TGCAAAAAAA
Statistics
Matches: 181, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
194 1 0.01
195 20 0.11
196 126 0.70
197 34 0.19
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (196 bp):
GATTATTGAAGGCGTTTTTAGTCTAAAAATGACTTCAATAATCTCCTATCAAAAAATTGGAGTGG
ATTTCCAAAGGCATTTTCTGCAAAAAAAAAAAAAAACCTTCAATAAATTTTTTTAAAATATTTAA
AGGGATTATTAAAGGCATTTTGTGCAAAAAAAAGCCTTCAATAATCCTCATAAAAACTTATCAAT
A
Found at i:15480377 original size:267 final size:262
Alignment explanation
Indices: 15480063--15480554 Score: 609
Period size: 267 Copynumber: 1.9 Consensus size: 262
15480053 CATTTTTTGC
* ** *
15480063 AAAAAAAAGCCTTCAATAGTTTTCATTACAATTTTTCATTGGATTATTGAAGGCGTTTTTAGTCT
1 AAAAAAAAGCCTTCAATAATTTTCATTACAATTTTTCATCAGATTATTGAAGGCATTTTTAGTCT
* * * ** * *
15480128 AAAAAATGAC-TTCAATAAT-CCTTATCAAAAAATTGGAGTGGATT-TCCAAAGGCGTTTTCTGT
66 -AAAAA-CACTTTCAATAATCCCTGAT-AAAAAATTAGAGTAAATTAT-CAAAAGCATTTTC--T
* * *
15480190 AAAAAAAAAAAAAATACCTTTAATAATTTT-TTTAAAATATTTAAATGGATTATTAAAGGCATTT
125 --AAAAAAAAAAAATACATTTAATAATTTTATTTAAAATATTTAAATGGATTATTAAACGCAATT
* *
15480254 GTGATTGAAAA-TGCCTTCAATAATCCCCTGATAAAAACTTATAATAGATTATTGAAAGCATTTT
188 GTGACT-AAAACCGCCTTCAATAATCCCCTGATAAAAACTTATAATAGATTATTGAAAGCATTTT
15480318 TTGCAAAAAAA
252 TTGCAAAAAAA
* *
15480329 AAAAAAAATGCCTTCAATAA-TTTCTTTTACAATTTTTCATCAGATTATTGAAGGTATTTTTAGT
1 AAAAAAAA-GCCTTCAATAATTTTC-ATTACAATTTTTCATCAGATTATTGAAGGCATTTTTAGT
* *
15480393 CTAAAAACACTTTCAATAATCCCCTGATAAAAAATTAGAGTAAATTATTAAAAGCATTTTCTATA
64 CTAAAAACACTTTCAATAAT-CCCTGATAAAAAATTAGAGTAAATTATCAAAAGCATTTTCTAAA
* * * *
15480458 AAAAAAAAATACATTTAATAATTTTATTTAAAATATTTTAGTGGATTATTGAACGTAATTGTGAC
128 AAAAAAAAATACATTTAATAATTTTATTTAAAATATTTAAATGGATTATTAAACGCAATTGTGAC
*
15480523 TAAAACCGCCTTCAATAATCCTCTGATAAAAA
193 TAAAACCGCCTTCAATAATCCCCTGATAAAAA
15480555 TTTTGAGTGG
Statistics
Matches: 193, Mismatches: 25, Indels: 18
0.82 0.11 0.08
Matches are distributed among these distances:
263 30 0.16
264 57 0.30
265 3 0.02
266 26 0.13
267 71 0.37
268 6 0.03
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (262 bp):
AAAAAAAAGCCTTCAATAATTTTCATTACAATTTTTCATCAGATTATTGAAGGCATTTTTAGTCT
AAAAACACTTTCAATAATCCCTGATAAAAAATTAGAGTAAATTATCAAAAGCATTTTCTAAAAAA
AAAAAATACATTTAATAATTTTATTTAAAATATTTAAATGGATTATTAAACGCAATTGTGACTAA
AACCGCCTTCAATAATCCCCTGATAAAAACTTATAATAGATTATTGAAAGCATTTTTTGCAAAAA
AA
Found at i:15480673 original size:193 final size:193
Alignment explanation
Indices: 15480371--15480774 Score: 526
Period size: 193 Copynumber: 2.1 Consensus size: 193
15480361 TTTTTCATCA
* * * *
15480371 GATTATTGAAGGTATTTTTAGTCTAAAAACACTTTCAATAATCCCCTGATAAAAAATTAGAGTAA
1 GATTATTAAAGGCATTTTTAGTCTAAAAACACCTTCAATAATCCCCTAATAAAAAATTAGAGTAA
* * * *
15480436 ATTATTAAAAGCATTTTCTATAAAAAAAAAATACATTTAATAATTTTATTTAAAATATTTTAGTG
66 ATTATTAAAAGCATTTTCCATAAAAAAAAAATACATTCAATAATTTCATTTAAAATATTTGAGTG
* * *
15480501 GATTATTGAACGTAATTGTGAC-TAAAACCGCCTTCAATAAT-CCTCTGATAAAAATTTTGAGTG
131 GATTATTGAACGTAATTGTGACTTAAAA-CGCCTTCAATAATCCCACT-ATAAAAAATTGGAGTG
* * * * * **
15480564 GATTATTAAAGGCGTTTTTAGTTTTAAAACACCTTCAATAATCCCCTAATAAAACATTGGAGTGG
1 GATTATTAAAGGCATTTTTAGTCTAAAAACACCTTCAATAATCCCCTAATAAAAAATTAGAGTAA
* * *
15480629 ATTATTGAATA-CGTTTTCCATAAAAAAAAAATACCTTCAATAATTTCATTTAAAATATTTGAGT
66 ATTATT-AAAAGCATTTTCCATAAAAAAAAAATACATTCAATAATTTCATTTAAAATATTTGAGT
* * * *
15480693 GGATTATTGAAGGTATTTGTGACTTAAAATGCCTTCAATAATCCCACTATAAAAAATTGGAGTT
130 GGATTATTGAACGTAATTGTGACTTAAAACGCCTTCAATAATCCCACTATAAAAAATTGGAGTG
*
15480757 AATTATTAAAGGCATTTT
1 GATTATTAAAGGCATTTT
15480775 CTGCAAAAAA
Statistics
Matches: 181, Mismatches: 27, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
193 169 0.93
194 12 0.07
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (193 bp):
GATTATTAAAGGCATTTTTAGTCTAAAAACACCTTCAATAATCCCCTAATAAAAAATTAGAGTAA
ATTATTAAAAGCATTTTCCATAAAAAAAAAATACATTCAATAATTTCATTTAAAATATTTGAGTG
GATTATTGAACGTAATTGTGACTTAAAACGCCTTCAATAATCCCACTATAAAAAATTGGAGTG
Found at i:15480732 original size:129 final size:125
Alignment explanation
Indices: 15480551--15480860 Score: 327
Period size: 129 Copynumber: 2.4 Consensus size: 125
15480541 TCCTCTGATA
* * ** **
15480551 AAAATTTTGAGTGGATTATTAAAGGCGTTTTTAGTTTTAAAACACCTTCAATAATCCC-CTAATA
1 AAAATTTTGAGTGGATTATTGAAGGC-ATTTT-GAATTAAAATGCCTTCAATAATCCCACT-ATA
* * * * *
15480615 AAACATTGGAGTGGATTATTGAATACGTTTTCCATAAAAAAAAAATACCTTCAATAATTTCATTT
63 AAAAATTGGAGTGAATTATTAAAGACATTTT-C-TAAAAAAAAAATACCTTCAATAATTTCATTT
* *
15480680 AAAATATTTGAGTGGATTATTGAAGGTATTTGTGACTTAAAATGCCTTCAATAATCCCACTATAA
1 AAAAT-TTTGAGTGGATTATTGAAGGCATTT-TGAATTAAAATGCCTTCAATAATCCCACTATAA
* * ** * *
15480745 AAAATTGGAGTTAATTATTAAAGGCATTTTCTGCAAAAAAAATGCCTTCAATAATTTCTTTT
64 AAAATTGGAGTGAATTATTAAAGACATTTTCTAAAAAAAAAATACCTTCAATAATTTCATTT
* * *
15480807 AAAATTTTTA-TGGAATTATTGAAGGCATTTTTAATAATAAATGCCTTCAATAAT
1 AAAATTTTGAGTGG-ATTATTGAAGGCATTTTGAATTA-AAATGCCTTCAATAAT
15480861 GTTAAATGTT
Statistics
Matches: 153, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
125 7 0.05
126 35 0.23
127 32 0.21
128 1 0.01
129 56 0.37
130 22 0.14
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (125 bp):
AAAATTTTGAGTGGATTATTGAAGGCATTTTGAATTAAAATGCCTTCAATAATCCCACTATAAAA
AATTGGAGTGAATTATTAAAGACATTTTCTAAAAAAAAAATACCTTCAATAATTTCATTT
Found at i:15481243 original size:17 final size:17
Alignment explanation
Indices: 15481213--15481245 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15481203 GTATAAATTT
15481213 TTTCTTCAAAACCCATC
1 TTTCTTCAAAACCCATC
15481230 TTTC-TCAAATACCCAT
1 TTTCTTCAAA-ACCCAT
15481246 TTAAAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.36
Consensus pattern (17 bp):
TTTCTTCAAAACCCATC
Found at i:15481725 original size:19 final size:19
Alignment explanation
Indices: 15481697--15481733 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15481687 AAAATCAAAC
*
15481697 AAAATCAAAAAATAAAAAT
1 AAAATCAAAAAAGAAAAAT
*
15481716 AAAATGAAAAAAGAAAAA
1 AAAATCAAAAAAGAAAAA
15481734 CCTGCGATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.81, C:0.03, G:0.05, T:0.11
Consensus pattern (19 bp):
AAAATCAAAAAAGAAAAAT
Found at i:15482617 original size:3 final size:3
Alignment explanation
Indices: 15482609--15482673 Score: 82
Period size: 3 Copynumber: 22.3 Consensus size: 3
15482599 AATGAAGATG
*
15482609 ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA GA-A ATC
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
*
15482653 ATA ATA AT- ATA ATA AGA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
15482674 ATGTACGTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 5 0.09
3 48 0.89
4 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:15482972 original size:25 final size:26
Alignment explanation
Indices: 15482902--15482972 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 26
15482892 CCCAGCATTG
* * * *
15482902 AATGGGCCTAGACACAAATAGGCCCA
1 AATGGACCAAGACACGAATGGGCCCA
15482928 AATGGACCAAGACACG-ATGGGCCCA
1 AATGGACCAAGACACGAATGGGCCCA
**
15482953 AATGG-CCCGGACACGAATGG
1 AATGGACCAAGACACGAATGG
15482973 ATGTCTACAG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 8 0.21
25 17 0.45
26 13 0.34
ACGTcount: A:0.35, C:0.27, G:0.28, T:0.10
Consensus pattern (26 bp):
AATGGACCAAGACACGAATGGGCCCA
Done.