Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 26 of 50
Found at i:11614181 original size:10 final size:11
Alignment explanation
Indices: 11614168--11614265 Score: 50
Period size: 10 Copynumber: 9.2 Consensus size: 11
11614158 TTAATATTTA
11614168 AAAATA-AAAT
1 AAAATATAAAT
11614178 AAAATATAAAT
1 AAAATATAAAT
*
11614189 -AAATA-ATCAT
1 AAAATATA-AAT
*
11614199 AATAATAT--TT
1 AA-AATATAAAT
*
11614209 AAATTATAAAT
1 AAAATATAAAT
11614220 AAAATATTAATAT
1 AAAATA-TAA-AT
**
11614233 TTAA-A-AAAT
1 AAAATATAAAT
11614242 AAAATA-AAAT
1 AAAATATAAAT
11614252 AATAATATAAAT
1 AA-AATATAAAT
11614264 AA
1 AA
11614266 TATAAGATAT
Statistics
Matches: 67, Mismatches: 9, Indels: 22
0.68 0.09 0.22
Matches are distributed among these distances:
9 9 0.13
10 25 0.37
11 15 0.22
12 14 0.21
13 4 0.06
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATATAAAT
Found at i:11614234 original size:26 final size:26
Alignment explanation
Indices: 11614185--11614259 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 26
11614175 AATAAAATAT
*
11614185 AAATAAATAATCATAATAATATTTAAA
1 AAATAAATAA-AATAATAATATTTAAA
** *
11614212 TTATAAATAAAATATTAATATTTAAA
1 AAATAAATAAAATAATAATATTTAAA
11614238 AAATAAAATAAAATAATAATAT
1 AAAT-AAATAAAATAATAATAT
11614260 AAATAATATA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 16 0.40
27 24 0.60
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (26 bp):
AAATAAATAAAATAATAATATTTAAA
Found at i:11623152 original size:22 final size:22
Alignment explanation
Indices: 11623127--11623182 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
11623117 AACAGAGGGT
11623127 TTCTCGCTGCAGCAGAAAGGCA
1 TTCTCGCTGCAGCAGAAAGGCA
*
11623149 TTCTCACTGCAGCAGAAAGGCA
1 TTCTCGCTGCAGCAGAAAGGCA
11623171 TTCTCGCTGCAG
1 TTCTCGCTGCAG
11623183 TGAAATTCGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (22 bp):
TTCTCGCTGCAGCAGAAAGGCA
Found at i:11623432 original size:2 final size:2
Alignment explanation
Indices: 11623425--11623472 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
11623415 NNNNNNNNNN
11623425 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11623467 AT AT AT
1 AT AT AT
11623473 GCATATACAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11625738 original size:13 final size:13
Alignment explanation
Indices: 11625720--11625744 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11625710 TTTCAGAAAA
11625720 TTTATAAAATCAT
1 TTTATAAAATCAT
11625733 TTTATAAAATCA
1 TTTATAAAATCA
11625745 CAATTTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:11633605 original size:16 final size:16
Alignment explanation
Indices: 11633584--11633626 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
11633574 TCATCTGAAA
11633584 GAATGGTGGTATGTAG
1 GAATGGTGGTATGTAG
11633600 GAATGGTGGTATGTAG
1 GAATGGTGGTATGTAG
*
11633616 GAACGGTGGTA
1 GAATGGTGGTA
11633627 CAAATCCTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.26, C:0.02, G:0.44, T:0.28
Consensus pattern (16 bp):
GAATGGTGGTATGTAG
Found at i:11633770 original size:37 final size:36
Alignment explanation
Indices: 11633729--11633828 Score: 119
Period size: 37 Copynumber: 2.7 Consensus size: 36
11633719 ACGCTGAACA
*
11633729 TGATTTGATCTCTTTGTCCGTTGTTTTGGCATGTGTG
1 TGATTTGATC-CTTTGTCCGTTGCTTTGGCATGTGTG
* * * *
11633766 TGATTTAAACCCTTCGTCCGTTGCTTTGGTATGTGTG
1 TGATTT-GATCCTTTGTCCGTTGCTTTGGCATGTGTG
**
11633803 TGATTTGATCCTTTGTTAGTTGCTTT
1 TGATTTGATCCTTTGTCCGTTGCTTT
11633829 AATGTTATGT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
36 15 0.29
37 35 0.67
38 2 0.04
ACGTcount: A:0.11, C:0.15, G:0.24, T:0.50
Consensus pattern (36 bp):
TGATTTGATCCTTTGTCCGTTGCTTTGGCATGTGTG
Found at i:11649539 original size:17 final size:17
Alignment explanation
Indices: 11649513--11649558 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
11649503 ATTTATAAAA
11649513 AATTCAATTTATTTTAT
1 AATTCAATTTATTTTAT
*
11649530 AATTCCATTTATTTTAT
1 AATTCAATTTATTTTAT
11649547 AAATTCATATTT
1 -AATTCA-ATTT
11649559 TTCTCATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 16 0.64
18 5 0.20
19 4 0.16
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.57
Consensus pattern (17 bp):
AATTCAATTTATTTTAT
Found at i:11652596 original size:44 final size:43
Alignment explanation
Indices: 11652535--11652955 Score: 211
Period size: 45 Copynumber: 9.4 Consensus size: 43
11652525 AAGTAAAATT
** * *
11652535 ATTATTAAATTGCAATAAAAGATACTTTTGTCTTTTGATAAAAA
1 ATTATTAAATTATAATAAAAGATAATTTTATCTTTTGAT-AAAA
* * *
11652579 ATTATTAGATTATAATAAAA-ATATATTTTCTCTTTTTATGAAAA
1 ATTATTAAATTATAATAAAAGATA-ATTTTATCTTTTGAT-AAAA
* * * * *
11652623 TATTATTAAATTATAGTCAAGGATAATTTCATCTTTTGACGTAAAT
1 -ATTATTAAATTATAATAAAAGATAATTTTATCTTTTGA--TAAAA
* * * * **
11652669 ATTATTAAATTATAGTAAAGGGTAATTTTATCTTTTGGTATAGT
1 ATTATTAAATTATAATAAAAGATAATTTTATCTTTTGATA-AAA
* *
11652713 TTTACTAAATTATAAT-AAAGAGT-ATTTCTATCTTTTGATAAAA
1 ATTATTAAATTATAATAAAAGA-TAATTT-TATCTTTTGATAAAA
* * * ** * * *
11652756 ATCAACCTTAAATTATGATGAAAGGCATTTTTGTCTTTTAATAAAA
1 AT-TA--TTAAATTATAATAAAAGATAATTTTATCTTTTGATAAAA
* * * * * *
11652802 ATTATTAGATTATATTAAACGATATTTTGTAT-TTTTTATGATAAT
1 ATTATTAAATTATAATAAAAGATAATTT-TATCTTTTGAT-A-AAA
* * * * * *
11652847 ATTATTAAATTATAGTCAAGGATAATTTCATCTTTTGACATGAAT
1 ATTATTAAATTATAATAAAAGATAATTTTATCTTTTG--ATAAAA
*** * * *
11652892 ATTATTAAATTATAGGGAACGATAATTTTATCTTTAGGTAAAA
1 ATTATTAAATTATAATAAAAGATAATTTTATCTTTTGATAAAA
* *
11652935 ATTTTACTAAACTATAATAAA
1 A--TTATTAAATTATAATAAA
11652956 GGGTATTTTT
Statistics
Matches: 287, Mismatches: 69, Indels: 41
0.72 0.17 0.10
Matches are distributed among these distances:
43 41 0.14
44 66 0.23
45 139 0.48
46 31 0.11
47 10 0.03
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTATTAAATTATAATAAAAGATAATTTTATCTTTTGATAAAA
Found at i:11652840 original size:223 final size:225
Alignment explanation
Indices: 11652560--11652963 Score: 618
Period size: 223 Copynumber: 1.8 Consensus size: 225
11652550 TAAAAGATAC
* *
11652560 TTTTGTCTTTTGATAAAAAATTATTAGATTATAATAAAAATATATTTTCTCTTTTTATGAAAATA
1 TTTTGTCTTTTAATAAAAAATTATTAGATTATAATAAAAATATATTTTATCTTTTTATGAAAATA
* * *
11652625 TTATTAAATTATAGTCAAGGATAATTTCATCTTTTGACGTAAATATTATTAAATTATAGTAAAGG
66 TTATTAAATTATAGTCAAGGATAATTTCATCTTTTGACATAAATATTATTAAATTATAGGAAACG
* * * * *
11652690 GTAATTTTATCTTTTGGT-ATAGTTTTACTAAATTATAATAAAGAGTATTTCTATCTTTTGATAA
131 ATAATTTTATCTTTAGGTAAAAATTTTACTAAACTATAATAAAGAGTATTTCTATCTTTTGATAA
11652754 AAATCAACCTTAAATTATGATGAAAGGCAT
196 AAATCAACCTTAAATTATGATGAAAGGCAT
* * *
11652784 TTTTGTCTTTTAAT-AAAAATTATTAGATTATATTAAACGATAT-TTTGTAT-TTTTTATGATAA
1 TTTTGTCTTTTAATAAAAAATTATTAGATTATAATAAA-AATATATTT-TATCTTTTTATGAAAA
* *
11652846 TATTATTAAATTATAGTCAAGGATAATTTCATCTTTTGACATGAATATTATTAAATTATAGGGAA
64 TATTATTAAATTATAGTCAAGGATAATTTCATCTTTTGACATAAATATTATTAAATTATAGGAAA
*
11652911 CGATAATTTTATCTTTAGGTAAAAATTTTACTAAACTATAATAAAGGGTATTT
129 CGATAATTTTATCTTTAGGTAAAAATTTTACTAAACTATAATAAAGAGTATTT
11652964 TTTTCTTCTA
Statistics
Matches: 161, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
223 114 0.71
224 47 0.29
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (225 bp):
TTTTGTCTTTTAATAAAAAATTATTAGATTATAATAAAAATATATTTTATCTTTTTATGAAAATA
TTATTAAATTATAGTCAAGGATAATTTCATCTTTTGACATAAATATTATTAAATTATAGGAAACG
ATAATTTTATCTTTAGGTAAAAATTTTACTAAACTATAATAAAGAGTATTTCTATCTTTTGATAA
AAATCAACCTTAAATTATGATGAAAGGCAT
Found at i:11657569 original size:9 final size:9
Alignment explanation
Indices: 11657555--11657579 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11657545 TCCCTGGTGT
11657555 TGAAAATGC
1 TGAAAATGC
11657564 TGAAAATGC
1 TGAAAATGC
11657573 TGAAAAT
1 TGAAAAT
11657580 TTTTCTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.08, G:0.20, T:0.24
Consensus pattern (9 bp):
TGAAAATGC
Found at i:11658882 original size:19 final size:19
Alignment explanation
Indices: 11658855--11658896 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
11658845 CCATTTGACT
*
11658855 TATTAGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
11658874 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
11658893 -ATTG
1 TATTG
11658897 AGAAGTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:11664818 original size:28 final size:28
Alignment explanation
Indices: 11664778--11664839 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
11664768 CTAGGACAAC
*
11664778 AATATTATTATGGATGTCTGTGTTCTTA
1 AATATTATTATGGATATCTGTGTTCTTA
* *
11664806 AATATTATTATGGATATTTGTGTTCTTT
1 AATATTATTATGGATATCTGTGTTCTTA
11664834 AATATT
1 AATATT
11664840 TTCATCTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.53
Consensus pattern (28 bp):
AATATTATTATGGATATCTGTGTTCTTA
Found at i:11665565 original size:20 final size:19
Alignment explanation
Indices: 11665540--11665593 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
11665530 CATGTTCATC
11665540 AAGTATTGATACATTTAGAA
1 AAGTATTGATACATTT-GAA
* * *
11665560 AAGTATCGATAAAAATTGAA
1 AAGTATTGAT-ACATTTGAA
*
11665580 ATGTATTGATACAT
1 AAGTATTGATACAT
11665594 GTTCTTGAGA
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
19 2 0.08
20 20 0.77
21 4 0.15
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (19 bp):
AAGTATTGATACATTTGAA
Found at i:11669333 original size:14 final size:14
Alignment explanation
Indices: 11669314--11669368 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
11669304 AAATTTATAA
*
11669314 AAAATTAATTAAAC
1 AAAATTAAATAAAC
11669328 AAAATTAAATAAAC
1 AAAATTAAATAAAC
* *
11669342 ACTAAATTAACTAACAG
1 A--AAATTAAATAA-AC
11669359 AAAATTAAAT
1 AAAATTAAAT
11669369 TTACTTGAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
14 14 0.41
15 8 0.24
16 10 0.29
17 2 0.06
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (14 bp):
AAAATTAAATAAAC
Found at i:11669363 original size:15 final size:15
Alignment explanation
Indices: 11669314--11669368 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
11669304 AAATTTATAA
*
11669314 AAAATTAATTAA-AC
1 AAAATTAAATAACAC
11669328 AAAATTAAATAAACAC
1 AAAATTAAAT-AACAC
* * *
11669344 TAAATTAACTAACAG
1 AAAATTAAATAACAC
11669359 AAAATTAAAT
1 AAAATTAAAT
11669369 TTACTTGAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
14 9 0.27
15 14 0.42
16 10 0.30
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (15 bp):
AAAATTAAATAACAC
Found at i:11676229 original size:21 final size:21
Alignment explanation
Indices: 11676205--11676245 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
11676195 GTTTGTTGTT
11676205 TCAAAAGTATCGATACATTTG
1 TCAAAAGTATCGATACATTTG
*
11676226 TCAAATGTATCGATACATTT
1 TCAAAAGTATCGATACATTT
11676246 TCGCAAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (21 bp):
TCAAAAGTATCGATACATTTG
Found at i:11693097 original size:2 final size:2
Alignment explanation
Indices: 11693090--11693114 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11693080 TGATACCTTC
11693090 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
11693115 AAGAGAGAGA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:11704960 original size:15 final size:15
Alignment explanation
Indices: 11704921--11704961 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
11704911 ACCTTTCGGA
11704921 AGAAGAAAAAAGAAG
1 AGAAGAAAAAAGAAG
* *
11704936 AGGAGAAAAAAAAAG
1 AGAAGAAAAAAGAAG
11704951 AGAACGAAAAA
1 AGAA-GAAAAA
11704962 CCAAATTGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.00
Consensus pattern (15 bp):
AGAAGAAAAAAGAAG
Found at i:11710462 original size:47 final size:47
Alignment explanation
Indices: 11710314--11710454 Score: 176
Period size: 47 Copynumber: 3.0 Consensus size: 47
11710304 TGTGACACGA
* * * *
11710314 CTGTGACACACTAGTGTTCAGAGTTGGTGAGACACCACGGAGGGAAT
1 CTGTGACACGCTAGTGTTCAAAGTTGGTGAGACGCCATGGAGGGAAT
* * * *
11710361 CTGTGACACGTTAGAGTT-AAGAGTTGGTGACACGCCATGGTGGGAAT
1 CTGTGACACGCTAGTGTTCAA-AGTTGGTGAGACGCCATGGAGGGAAT
* *
11710408 CTGTGACACGCTAGTGTTCAAAGTTGGTGAGATGCTATGGAGGGAAT
1 CTGTGACACGCTAGTGTTCAAAGTTGGTGAGACGCCATGGAGGGAAT
11710455 TTATGACATG
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
46 1 0.01
47 75 0.96
48 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (47 bp):
CTGTGACACGCTAGTGTTCAAAGTTGGTGAGACGCCATGGAGGGAAT
Found at i:11710503 original size:70 final size:70
Alignment explanation
Indices: 11710388--11710535 Score: 192
Period size: 70 Copynumber: 2.1 Consensus size: 70
11710378 TAAGAGTTGG
* * * *
11710388 TGACACGCCATGGTGGGAATCTGTGACACGCTAGTGTTCAAAGTTGGTGAGATGCTATGGAGGGA
1 TGACACGCCATGATGGGAATCTGTGACACGCTAGCGTTCAAAGTTGGTGAGACGCCATGGAGGGA
*
11710453 ATTTA
66 ATCTA
* * *
11710458 TGACATGCCATGATGGGAATCTGT-AGCACG-TCAGCGTTCAGAGTTGGTGAGACGCCATTGAGG
1 TGACACGCCATGATGGGAATCTGTGA-CACGCT-AGCGTTCAAAGTTGGTGAGACGCCATGGAGG
11710521 GAATCTA
64 GAATCTA
11710528 TGACACGC
1 TGACACGC
11710536 TAGAGTTCAG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
69 2 0.03
70 65 0.97
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.25
Consensus pattern (70 bp):
TGACACGCCATGATGGGAATCTGTGACACGCTAGCGTTCAAAGTTGGTGAGACGCCATGGAGGGA
ATCTA
Found at i:11710544 original size:47 final size:47
Alignment explanation
Indices: 11710458--11710704 Score: 286
Period size: 47 Copynumber: 5.3 Consensus size: 47
11710448 AGGGAATTTA
* *
11710458 TGACATGCCAT-GATGGGAATCTGT-AGCACG-TCAGCGTTCAGAGTTGG
1 TGACACGCCATGGA-GGGAATCTGTGA-CACGCT-AGAGTTCAGAGTTGG
* * *
11710505 TGAGACGCCATTGAGGGAATCTATGACACGCTAGAGTTCAGAGTTGG
1 TGACACGCCATGGAGGGAATCTGTGACACGCTAGAGTTCAGAGTTGG
* * * * *
11710552 TGACATGGCATGGAGGGAATCTGTGACACGCTAGCGTTTAGAGTTCG
1 TGACACGCCATGGAGGGAATCTGTGACACGCTAGAGTTCAGAGTTGG
* * *
11710599 TGAGACACCATGGAGTGAATCTGTGACACGCTAGAGTTCAGAGTTGG
1 TGACACGCCATGGAGGGAATCTGTGACACGCTAGAGTTCAGAGTTGG
* * *
11710646 TGACACGCCATGGAGGGAAGCTGTGACAAG-TCAGAGTTCAGAATTGG
1 TGACACGCCATGGAGGGAATCTGTGACACGCT-AGAGTTCAGAGTTGG
11710693 TGACACGCCATG
1 TGACACGCCATG
11710705 TTTAGAGTGT
Statistics
Matches: 170, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
46 1 0.01
47 165 0.97
48 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.23
Consensus pattern (47 bp):
TGACACGCCATGGAGGGAATCTGTGACACGCTAGAGTTCAGAGTTGG
Found at i:11710565 original size:117 final size:117
Alignment explanation
Indices: 11710355--11710571 Score: 312
Period size: 117 Copynumber: 1.9 Consensus size: 117
11710345 ACACCACGGA
* * *
11710355 GGGAATCTGTGACACGTTAGAGTTAAGAGTTGGTGACACGCCATGGTGGGAATCTGTGACACGCT
1 GGGAATCTGTGACACGTCAGAGTTAAGAGTTGGTGACACGCCATGGAGGGAATCTATGACACGCT
* *
11710420 AGTGTTCAAAGTTGGTGAGATGCTATGGAGGGAATTTATGACATGCCATGAT
66 AGAGTTCAAAGTTGGTGACATGCTATGGAGGGAATTTATGACATGCCATGAT
* * * *
11710472 GGGAATCTGT-AGCACGTCAGCGTTCAGAGTTGGTGAGACGCCATTGAGGGAATCTATGACACGC
1 GGGAATCTGTGA-CACGTCAGAGTTAAGAGTTGGTGACACGCCATGGAGGGAATCTATGACACGC
*
11710536 TAGAGTTCAGAGTTGGTGACATGGC-ATGGAGGGAAT
65 TAGAGTTCAAAGTTGGTGACAT-GCTATGGAGGGAAT
11710572 CTGTGACACG
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
116 1 0.01
117 85 0.97
118 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.25
Consensus pattern (117 bp):
GGGAATCTGTGACACGTCAGAGTTAAGAGTTGGTGACACGCCATGGAGGGAATCTATGACACGCT
AGAGTTCAAAGTTGGTGACATGCTATGGAGGGAATTTATGACATGCCATGAT
Found at i:11710762 original size:52 final size:52
Alignment explanation
Indices: 11710695--11710847 Score: 209
Period size: 52 Copynumber: 3.0 Consensus size: 52
11710685 AGAATTGGTG
** *
11710695 ACACGCCAT-GTTTAGAGTGTGTGACACAACATTGCTTGAACAGTTGACATC
1 ACACGCCATGGTTTAGAGTGTGTGACACGGCATTGCTTGAACAGCTGACATC
* * * * *
11710746 CCATGCCATGGTTTAGAGTGTGAGACACGGCATTGCTTGAAAAGCTGACATG
1 ACACGCCATGGTTTAGAGTGTGTGACACGGCATTGCTTGAACAGCTGACATC
* *
11710798 AGACACCATGGTTTAGAGTGTGTGACACGGCATTGCTTGAACAGCTGACA
1 ACACGCCATGGTTTAGAGTGTGTGACACGGCATTGCTTGAACAGCTGACA
11710848 CGTCATGGTT
Statistics
Matches: 87, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
51 7 0.08
52 80 0.92
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (52 bp):
ACACGCCATGGTTTAGAGTGTGTGACACGGCATTGCTTGAACAGCTGACATC
Found at i:11711578 original size:31 final size:31
Alignment explanation
Indices: 11711351--11711575 Score: 281
Period size: 31 Copynumber: 7.3 Consensus size: 31
11711341 AACGTTAGCT
* * *
11711351 TGTGACAACATTTGACTCGATATGCATGGCG
1 TGTGACAACATTTTACTTGTTATGCATGGCG
*
11711382 TGTGACAACATTTTACTTGATATGCATGGCG
1 TGTGACAACATTTTACTTGTTATGCATGGCG
*
11711413 TGTGACAACATTTTACTTTTTATGCATGGCG
1 TGTGACAACATTTTACTTGTTATGCATGGCG
* * *
11711444 GGTCACAACATTTTACTTGATATGCATGGCG
1 TGTGACAACATTTTACTTGTTATGCATGGCG
* *
11711475 TGTGACAAAATTTTACTTTTTATGCATGGCG
1 TGTGACAACATTTTACTTGTTATGCATGGCG
* * *
11711506 GGTCACAACATTTTA-TGTGTTATGCATGGCA
1 TGTGACAACATTTTACT-TGTTATGCATGGCG
* * * *
11711537 TGTCACAATATCTTGCTTGTTATGCATGGCG
1 TGTGACAACATTTTACTTGTTATGCATGGCG
11711568 TGTGACAA
1 TGTGACAA
11711576 TATTAATTCC
Statistics
Matches: 168, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
30 1 0.01
31 166 0.99
32 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (31 bp):
TGTGACAACATTTTACTTGTTATGCATGGCG
Found at i:11713800 original size:31 final size:31
Alignment explanation
Indices: 11713762--11713934 Score: 222
Period size: 31 Copynumber: 5.6 Consensus size: 31
11713752 GATGTGACAA
*
11713762 CATTTTACTTTTTATGCATGGCGTGTCAGAT
1 CATTTTACTTGTTATGCATGGCGTGTCAGAT
*
11713793 CATTTTACTTGTTATGCATGGCGTGTCAAAAT
1 CATTTTACTTGTTATGCATGGCGTGTC-AGAT
* * *
11713825 -AATTTACTTGTTATGCATGGCGTGTCACAA
1 CATTTTACTTGTTATGCATGGCGTGTCAGAT
* * *
11713855 CATTTAACTTGTTATGCATGGCATGACAGAT
1 CATTTTACTTGTTATGCATGGCGTGTCAGAT
* * *
11713886 CATTTTGCTAGTTATACATGGCGTGTCAGAT
1 CATTTTACTTGTTATGCATGGCGTGTCAGAT
*
11713917 CATTTTGCTTGTTATGCA
1 CATTTTACTTGTTATGCA
11713935 CTCCACTCGA
Statistics
Matches: 121, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
30 2 0.02
31 116 0.96
32 3 0.02
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (31 bp):
CATTTTACTTGTTATGCATGGCGTGTCAGAT
Found at i:11717839 original size:31 final size:31
Alignment explanation
Indices: 11717775--11717857 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 31
11717765 TTTGTCAGTC
* * *
11717775 ATGTTGTTACACGCCTTGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATACAACGTAAA
*
11717806 ATGTTGTAACACGCCATGCATAACAAC-TCAA
1 ATGTTGTAACACGCCATGCAT-ACAACGTAAA
* * *
11717837 ATGTCGTGACACACCATGCAT
1 ATGTTGTAACACGCCATGCAT
11717858 CACTGTCGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 40 0.91
32 4 0.09
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.27
Consensus pattern (31 bp):
ATGTTGTAACACGCCATGCATACAACGTAAA
Found at i:11717981 original size:55 final size:55
Alignment explanation
Indices: 11717911--11718254 Score: 247
Period size: 55 Copynumber: 6.3 Consensus size: 55
11717901 ACCAACAGCA
** * * **
11717911 GTGACACGTTAAAAACCGAAAAAACCAGTTTACCCACAACACACCAAGAACAGTC
1 GTGACACGCCAAAAACCCAAAAAACCAGTTAACCCACAACACACCAAGAACAACC
* * * *
11717966 GTGACATGCCCAAAACCCAAAAAACCAGTTAACCCATAACACGCCAAGAACAACC
1 GTGACACGCCAAAAACCCAAAAAACCAGTTAACCCACAACACACCAAGAACAACC
** ** * * * * *
11718021 GTGACACGCCAAAAACCCCTAAATTCAATTAACCCACAACACGCCAGGACCAGCC
1 GTGACACGCCAAAAACCCAAAAAACCAGTTAACCCACAACACACCAAGAACAACC
* * * ** * * *
11718076 GTGACACACCAAAAATCCATAAATTCAGTTAACCCACGACACGCCAAGAACAGCC
1 GTGACACGCCAAAAACCCAAAAAACCAGTTAACCCACAACACACCAAGAACAACC
* * * * * * * * * * **
11718131 GTGACACACTAACAATCCAAAAAACTAGTTAACCCATAACACGCTAGGAATAGTC
1 GTGACACGCCAAAAACCCAAAAAACCAGTTAACCCACAACACACCAAGAACAACC
* * * * * * * * *
11718186 GTGACACACTAACAACCCAAAAAACTACTTAACCCATAACACGCCAGGAACAGCC
1 GTGACACGCCAAAAACCCAAAAAACCAGTTAACCCACAACACACCAAGAACAACC
*
11718241 GTGACACGCTAAAA
1 GTGACACGCCAAAA
11718255 TAACACTAAC
Statistics
Matches: 242, Mismatches: 47, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 242 1.00
ACGTcount: A:0.43, C:0.32, G:0.12, T:0.12
Consensus pattern (55 bp):
GTGACACGCCAAAAACCCAAAAAACCAGTTAACCCACAACACACCAAGAACAACC
Found at i:11718105 original size:110 final size:109
Alignment explanation
Indices: 11717904--11718254 Score: 344
Period size: 110 Copynumber: 3.2 Consensus size: 109
11717894 TTGTTACACC
* * * * * * * * *
11717904 AACAGCAGTGACACGTTAAAAACCGAAAAAACCAGTTTACCCACAACACACCAAGAACAGTCGTG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAACTAATTAACCCACAACACGCCAGGAACAGCCGTG
** *
11717969 ACATGCCCAAAACCCAAAAAACCAGTTAACCCATAACACGCCAAG
66 ACACACCAAAAACCCAAAAAA-CAGTTAACCCATAACACGCCAAG
* * ** * *
11718014 AACAACCGTGACACGCCAAAAACCC-CTAAATTCAATTAACCCACAACACGCCAGGACCAGCCGT
1 AACAGCCGTGACACGCTAAAAACCCAAAAAACT-AATTAACCCACAACACGCCAGGAACAGCCGT
* ** **
11718078 GACACACCAAAAATCCATAAATTCAGTTAACCCACGACACGCCAAG
65 GACACACCAAAAACCCA-AAAAACAGTTAACCCATAACACGCCAAG
* * * * * * * *
11718124 AACAGCCGTGACACACTAACAATCCAAAAAACTAGTTAACCCATAACACGCTAGGAATAGTCGTG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAACTAATTAACCCACAACACGCCAGGAACAGCCGTG
* * * *
11718189 ACACACTAACAACCCAAAAAACTACTTAACCCATAACACGCCAGG
66 ACACACCAAAAACCCAAAAAAC-AGTTAACCCATAACACGCCAAG
11718234 AACAGCCGTGACACGCTAAAA
1 AACAGCCGTGACACGCTAAAA
11718255 TAACACTAAC
Statistics
Matches: 189, Mismatches: 48, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
109 7 0.04
110 175 0.93
111 7 0.04
ACGTcount: A:0.43, C:0.32, G:0.13, T:0.12
Consensus pattern (109 bp):
AACAGCCGTGACACGCTAAAAACCCAAAAAACTAATTAACCCACAACACGCCAGGAACAGCCGTG
ACACACCAAAAACCCAAAAAACAGTTAACCCATAACACGCCAAG
Found at i:11718153 original size:165 final size:164
Alignment explanation
Indices: 11717936--11718247 Score: 385
Period size: 165 Copynumber: 1.9 Consensus size: 164
11717926 CCGAAAAAAC
* *
11717936 CAGTTTACCCACAACACACCAAGAACAGTCGTGACATGCCCAAAACCCAAAAAACCAGTTAACCC
1 CAGTTAACCCACAACACACCAAGAACAGCCGTGACA-GCCCAAAACCCAAAAAACCAGTTAACCC
* ** *
11718001 ATAACACGCCAAGAACAACCGTGACACGCCAAAAACCC-CTAAATTCAATTAACCCACAACACGC
65 ATAACACGCCAAGAACAACCGTGACACACCAAAAACCCAAAAAACT-AATTAACCCACAACACGC
*
11718065 CAGGACCAGCCGTGACACACCAAAAATCCATAAATT
129 CAGGAACAGCCGTGACACACCAAAAATCCATAAATT
* * * * *
11718101 CAGTTAACCCACGACACGCCAAGAACAGCCGTGACA-CACTAACAATCCAAAAAACTAGTTAACC
1 CAGTTAACCCACAACACACCAAGAACAGCCGTGACAGC-CCAA-AACCCAAAAAACCAGTTAACC
* * * ** * * * *
11718165 CATAACACGCTAGGAATAGTCGTGACACACTAACAACCCAAAAAACTACTTAACCCATAACACGC
64 CATAACACGCCAAGAACAACCGTGACACACCAAAAACCCAAAAAACTAATTAACCCACAACACGC
11718230 CAGGAACAGCCGTGACAC
129 CAGGAACAGCCGTGACAC
11718248 GCTAAAATAA
Statistics
Matches: 123, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
163 1 0.01
164 3 0.02
165 115 0.93
166 4 0.03
ACGTcount: A:0.42, C:0.33, G:0.12, T:0.12
Consensus pattern (164 bp):
CAGTTAACCCACAACACACCAAGAACAGCCGTGACAGCCCAAAACCCAAAAAACCAGTTAACCCA
TAACACGCCAAGAACAACCGTGACACACCAAAAACCCAAAAAACTAATTAACCCACAACACGCCA
GGAACAGCCGTGACACACCAAAAATCCATAAATT
Found at i:11718643 original size:63 final size:63
Alignment explanation
Indices: 11718470--11718636 Score: 264
Period size: 63 Copynumber: 2.7 Consensus size: 63
11718460 GATGACGATG
11718470 GTGCTCAACAGAGAGTTGACAGAGCTCATACAGTTCAGAGATCTGAGAGAGTTGACGACGTTC
1 GTGCTCAACAGAGAGTTGACAGAGCTCATACAGTTCAGAGATCTGAGAGAGTTGACGACGTTC
* *
11718533 GTGCTCAACAGAGAGTTGACAAAGCTCATATAGTTCAGAGATCTGAGAGAGTTGACGACGTTC
1 GTGCTCAACAGAGAGTTGACAGAGCTCATACAGTTCAGAGATCTGAGAGAGTTGACGACGTTC
* * * *
11718596 GTGCTCAACAGAGACTTG-CTAGAGTTGAGACAGTTCAGAGA
1 GTGCTCAACAGAGAGTTGAC-AGAGCTCATACAGTTCAGAGA
11718637 GTTGAGACAG
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
62 1 0.01
63 94 0.99
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (63 bp):
GTGCTCAACAGAGAGTTGACAGAGCTCATACAGTTCAGAGATCTGAGAGAGTTGACGACGTTC
Found at i:11730429 original size:13 final size:13
Alignment explanation
Indices: 11730411--11730435 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11730401 TTCCAAAAAA
11730411 TTTATAAAATCAT
1 TTTATAAAATCAT
11730424 TTTATAAAATCA
1 TTTATAAAATCA
11730436 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:11735774 original size:5 final size:5
Alignment explanation
Indices: 11735767--11735806 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
11735757 CTATTCAATC
* *
11735767 TAACC TAACT TAACT TAACT TAACT TATCT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAACT
11735807 GGACTTAGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (5 bp):
TAACT
Found at i:11735872 original size:15 final size:15
Alignment explanation
Indices: 11735852--11735893 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
11735842 TAAAACAACC
11735852 TTAAAATCAAAAACT
1 TTAAAATCAAAAACT
* *
11735867 TTAAAATCCAAAGCT
1 TTAAAATCAAAAACT
11735882 TTAAAATCAAAA
1 TTAAAATCAAAA
11735894 TATCAGATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.26
Consensus pattern (15 bp):
TTAAAATCAAAAACT
Found at i:11737305 original size:13 final size:13
Alignment explanation
Indices: 11737287--11737311 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11737277 TTTTAGAAAA
11737287 TTTATAAAATCAT
1 TTTATAAAATCAT
11737300 TTTATAAAATCA
1 TTTATAAAATCA
11737312 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:11738484 original size:27 final size:27
Alignment explanation
Indices: 11738433--11738484 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
11738423 ATGTCCTGGT
*
11738433 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTGACCCTGA
*
11738460 GGTGGCAAAATTACCATTTT-ACCCT
1 GGTGG-AAAATTACAATTTTGACCCT
11738485 TTTACTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTGACCCTGA
Found at i:11743926 original size:21 final size:19
Alignment explanation
Indices: 11743876--11743929 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
11743866 TTGTTTTTCT
* *
11743876 ATTTAGTTTATTTTTAGTG
1 ATTTACTTTAATTTTAGTG
* *
11743895 AGTTATTTTAATTTTATGTTG
1 ATTTACTTTAATTTTA-G-TG
11743916 ATTTACTTTAATTT
1 ATTTACTTTAATTT
11743930 CTCTATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 13 0.46
20 1 0.04
21 14 0.50
ACGTcount: A:0.24, C:0.02, G:0.11, T:0.63
Consensus pattern (19 bp):
ATTTACTTTAATTTTAGTG
Found at i:11746040 original size:69 final size:69
Alignment explanation
Indices: 11745956--11746119 Score: 240
Period size: 69 Copynumber: 2.4 Consensus size: 69
11745946 GGAGACGAGA
* * *
11745956 AGAAGAATGAGAGGGAAGAAAAAAGAAAAAGAAAAAGAAGAAGAATGAGAGAATGAGCAGCGGCA
1 AGAAGAAGGAGAGGGAAGAAAAAAGAAAAAGAAAAAGAAGAAGAATGAGAGAAGGAGCAGCAGCA
11746021 GAAG
66 GAAG
* * * *
11746025 AGAAGAAGGAGAGGGAAGAAAGAAGAAAAAGAAAAAGAAGAAGAATGAGATAAGGAGTAGCAGTA
1 AGAAGAAGGAGAGGGAAGAAAAAAGAAAAAGAAAAAGAAGAAGAATGAGAGAAGGAGCAGCAGCA
*
11746090 GAGG
66 GAAG
*
11746094 AGAAGAAGGAGA-GGAAAAAAAAAGAA
1 AGAAGAAGGAGAGGGAAGAAAAAAGAA
11746120 TAGCTAAATA
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
68 12 0.14
69 73 0.86
ACGTcount: A:0.59, C:0.02, G:0.34, T:0.04
Consensus pattern (69 bp):
AGAAGAAGGAGAGGGAAGAAAAAAGAAAAAGAAAAAGAAGAAGAATGAGAGAAGGAGCAGCAGCA
GAAG
Found at i:11746221 original size:2 final size:2
Alignment explanation
Indices: 11746205--11746247 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
11746195 ACTATGTCCC
11746205 TA TA -A TA TA -A 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 TA TA TA TA TA TA
11746245 TA T
1 TA T
11746248 GTCATATTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:11746833 original size:60 final size:60
Alignment explanation
Indices: 11746740--11747005 Score: 379
Period size: 60 Copynumber: 4.4 Consensus size: 60
11746730 TTGATTGTAA
* *
11746740 AAAGGGGGACCTGAAGCCCCGATTTATATTTGGTAACATAGGTAGTTCCCACGAGTAGGC
1 AAAGGGGGACCTGAAGCCCCGATTTATATTTGGTGACATGGGTAGTTCCCACGAGTAGGC
* ** *
11746800 AAAGGGGGACCTGAAGCCCCGATTAATATTTGGTGATGTGGGTAGTTCGCACGAGTAGGC
1 AAAGGGGGACCTGAAGCCCCGATTTATATTTGGTGACATGGGTAGTTCCCACGAGTAGGC
* * *
11746860 AAAGGGGGACCTGAAGCCCAGATTTATATTTGGTGACATGGATAGTTCCCACGAGTAGGT
1 AAAGGGGGACCTGAAGCCCCGATTTATATTTGGTGACATGGGTAGTTCCCACGAGTAGGC
* * * * *
11746920 AAAAGGGGACCTGAAGCCCCGATTTATGTATGGTGACGTGGGTAGTTCCCACGAGTAGGTA
1 AAAGGGGGACCTGAAGCCCCGATTTATATTTGGTGACATGGGTAGTTCCCACGAGTAGG-C
*
11746981 AATAGGGAGACCTGAAGCCCCGATT
1 AA-AGGGGGACCTGAAGCCCCGATT
11747006 CATTTAGTGG
Statistics
Matches: 182, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
60 160 0.88
61 2 0.01
62 20 0.11
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.23
Consensus pattern (60 bp):
AAAGGGGGACCTGAAGCCCCGATTTATATTTGGTGACATGGGTAGTTCCCACGAGTAGGC
Found at i:11747020 original size:60 final size:60
Alignment explanation
Indices: 11746739--11747039 Score: 369
Period size: 60 Copynumber: 5.0 Consensus size: 60
11746729 TTTGATTGTA
* * *
11746739 AAAAGGGGGACCTGAAGCCCCGATTTATATTTGGTAACATAGGTAGTTCCCACGAGTAGG-
1 AAAAGGGGGACCTGAAGCCCCGA-TTATATTTGGTGACGTGGGTAGTTCCCACGAGTAGGT
* * *
11746799 CAAAGGGGGACCTGAAGCCCCGATTAATATTTGGTGATGTGGGTAGTTCGCACGAGTAGG-
1 AAAAGGGGGACCTGAAGCCCCGATT-ATATTTGGTGACGTGGGTAGTTCCCACGAGTAGGT
* * * *
11746859 CAAAGGGGGACCTGAAGCCCAGATTTATATTTGGTGACATGGATAGTTCCCACGAGTAGGT
1 AAAAGGGGGACCTGAAGCCCCGA-TTATATTTGGTGACGTGGGTAGTTCCCACGAGTAGGT
11746920 AAAA-GGGGACCTGAAGCCCCGATT-TATGTATGGTGACGTGGGTAGTTCCCACGAGTAGGT
1 AAAAGGGGGACCTGAAGCCCCGATTATAT-T-TGGTGACGTGGGTAGTTCCCACGAGTAGGT
* * * * * *
11746980 AAATAGGGAGACCTGAAGCCCCGATT-CATTTAGTGGCGTGGGCAGTTCCCATGAGTAGGT
1 AAA-AGGGGGACCTGAAGCCCCGATTATATTTGGTGACGTGGGTAGTTCCCACGAGTAGGT
11747040 GATGATGTCA
Statistics
Matches: 213, Mismatches: 21, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
58 3 0.01
59 5 0.02
60 177 0.83
61 7 0.03
62 21 0.10
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.24
Consensus pattern (60 bp):
AAAAGGGGGACCTGAAGCCCCGATTATATTTGGTGACGTGGGTAGTTCCCACGAGTAGGT
Found at i:11749583 original size:199 final size:198
Alignment explanation
Indices: 11749243--11749640 Score: 769
Period size: 199 Copynumber: 2.0 Consensus size: 198
11749233 TTGTGGTCAA
11749243 ATTCATACAGGGCCATCTAACTAGATGACAACGTTTTATTATGAGTGAGGGGGAATTGGTCATGT
1 ATTCATACAGGGCCATCTAACTAGATGACAACGTTTTATTATGAGTGAGGGGGAATTGGTCATGT
11749308 GAAGAAGAATTGTCCTACCTATAGACATAACCAGGAGATGACTCGTGGCTCAATACGACCCGATT
66 GAAGAAGAATTGTCCTACCTATAGACATAACCAGGAGATGACTCGTGGCTCAATACGACCCGATT
11749373 TTGCTACCACACCAACTAGAAATGTCAGAAGGGATAAAGGAAAAGGGTTAGCTTTCTCATCATAA
131 TTGCTACCACACCAACTAGAAATGTCAGAAGGGATAAAGGAAAAGGGTTAGCTTTCTCATCATAA
11749438 GGT
196 GGT
11749441 NATTCATACAGGGCCATCTAACTAGATGACAACGTTTTATTATGAGTGAGGGGGAATTGGTCATG
1 -ATTCATACAGGGCCATCTAACTAGATGACAACGTTTTATTATGAGTGAGGGGGAATTGGTCATG
* *
11749506 TGAAGAAGGATTGTCTTACCTATAGACATAACCAGGAGATGACTCGTGGCTCAATACGACCCGAT
65 TGAAGAAGAATTGTCCTACCTATAGACATAACCAGGAGATGACTCGTGGCTCAATACGACCCGAT
11749571 TTTGCTACCACACCAACTAGAAATGTCAGAAGGGATAAAGGAAAAGGGTTAGCTTTCTCATCATA
130 TTTGCTACCACACCAACTAGAAATGTCAGAAGGGATAAAGGAAAAGGGTTAGCTTTCTCATCATA
11749636 AGGT
195 AGGT
11749640 A
1 A
11749641 GATCGGCAGG
Statistics
Matches: 197, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
198 1 0.01
199 196 0.99
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.25
Consensus pattern (198 bp):
ATTCATACAGGGCCATCTAACTAGATGACAACGTTTTATTATGAGTGAGGGGGAATTGGTCATGT
GAAGAAGAATTGTCCTACCTATAGACATAACCAGGAGATGACTCGTGGCTCAATACGACCCGATT
TTGCTACCACACCAACTAGAAATGTCAGAAGGGATAAAGGAAAAGGGTTAGCTTTCTCATCATAA
GGT
Found at i:11751855 original size:12 final size:12
Alignment explanation
Indices: 11751828--11751878 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
11751818 AAAAGAGAGA
*
11751828 AAAGACAAGAAAG
1 AAAGAGAAG-AAG
11751841 AAAGAGAAGAAG
1 AAAGAGAAGAAG
*
11751853 AAAGAGAAGAGG
1 AAAGAGAAGAAG
*
11751865 AAAAAGAAGGAAG
1 AAAGAGAA-GAAG
11751878 A
1 A
11751879 GAGTGGGGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
12 21 0.64
13 12 0.36
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (12 bp):
AAAGAGAAGAAG
Found at i:11751963 original size:12 final size:12
Alignment explanation
Indices: 11751932--11752109 Score: 61
Period size: 12 Copynumber: 15.2 Consensus size: 12
11751922 GTCTCGGGGG
*
11751932 GAAGAAAAAGAA
1 GAAGAAAGAGAA
*
11751944 AAAGAAAGAGAA
1 GAAGAAAGAGAA
11751956 GAAGAAAGAGATA
1 GAAGAAAGAGA-A
* ** *
11751969 GTGAGCACGGAGAT
1 G-AAG-AAAGAGAA
11751983 GAAGAAA-AGAA
1 GAAGAAAGAGAA
*
11751994 GAAG--AGGGAA
1 GAAGAAAGAGAA
11752004 GAA-AAA-AGAA
1 GAAGAAAGAGAA
* *
11752014 AAAGAAAAAGAA
1 GAAGAAAGAGAA
*
11752026 GAAG-AA-TG-A
1 GAAGAAAGAGAA
*
11752035 G-AGAAAGAGTA
1 GAAGAAAGAGAA
* ** *
11752046 G-CGGTAGAGGA
1 GAAGAAAGAGAA
*
11752057 GAAGAAAGAAAA
1 GAAGAAAGAGAA
11752069 GGAAGAAAGAAGAA
1 -GAAGAAAG-AGAA
* *
11752083 AAAGAAAAAGAA
1 GAAGAAAGAGAA
* *
11752095 AAAGAAAAAGAA
1 GAAGAAAGAGAA
11752107 GAA
1 GAA
11752110 AAGAAGGAGC
Statistics
Matches: 122, Mismatches: 30, Indels: 28
0.68 0.17 0.16
Matches are distributed among these distances:
8 2 0.02
9 5 0.04
10 13 0.11
11 22 0.18
12 51 0.42
13 18 0.15
14 6 0.05
15 5 0.04
ACGTcount: A:0.65, C:0.02, G:0.30, T:0.03
Consensus pattern (12 bp):
GAAGAAAGAGAA
Found at i:11752016 original size:70 final size:69
Alignment explanation
Indices: 11751930--11752110 Score: 197
Period size: 70 Copynumber: 2.6 Consensus size: 69
11751920 ACGTCTCGGG
* * **
11751930 GGGAAG-AAAAAGAAAAAGAAAGAGAAGAAGAAAGAGATAGTGAGCA-CGG-AGATGAAGAAAAG
1 GGGAAGAAAAAAGAAAAAGAAAAAGAAGAAGAAAGAGAGAAAGAGCAGCGGTAGA-GAAGAAAA-
11751992 AAGAAGA
64 AAGAA-A
* * * *
11751999 GGGAAGAAAAAAGAAAAAGAAAAAGAAGAAGAATGAGAGAAAGAGTAGCGGTAGAGGAGAAGAAA
1 GGGAAGAAAAAAGAAAAAGAAAAAGAAGAAGAAAGAGAGAAAGAGCAGCGGTAGAGAAGAAAAAA
11752064 GAAA
66 GAAA
* * * *
11752068 AGGAAGAAAGAAGAAAAAGAAAAAGAAAAAGAAAAAGAAGAAA
1 GGGAAGAAAAAAGAAAAAGAAAAAGAAGAAGAAAGAG-AGAAA
11752111 AGAAGGAGCA
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
69 39 0.41
70 44 0.46
71 9 0.09
72 3 0.03
ACGTcount: A:0.64, C:0.02, G:0.31, T:0.03
Consensus pattern (69 bp):
GGGAAGAAAAAAGAAAAAGAAAAAGAAGAAGAAAGAGAGAAAGAGCAGCGGTAGAGAAGAAAAAA
GAAA
Found at i:11752075 original size:13 final size:13
Alignment explanation
Indices: 11752056--11752110 Score: 66
Period size: 12 Copynumber: 4.6 Consensus size: 13
11752046 GCGGTAGAGG
11752056 AGAAGAAAGAAAA
1 AGAAGAAAGAAAA
*
11752069 GGAAGAAAG---A
1 AGAAGAAAGAAAA
11752079 AGAA-AAAGAAAA
1 AGAAGAAAGAAAA
11752091 AGAA-AAAGAAAA
1 AGAAGAAAGAAAA
11752103 AGAAGAAA
1 AGAAGAAA
11752111 AGAAGGAGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
9 4 0.11
10 4 0.11
12 17 0.47
13 11 0.31
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AGAAGAAAGAAAA
Found at i:11752089 original size:6 final size:6
Alignment explanation
Indices: 11752071--11752106 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
11752061 AAAGAAAAGG
11752071 AAGAAA GAAGAAA AAGAAA AAGAAA AAGAAA AAGAA
1 AAGAAA -AAGAAA AAGAAA AAGAAA AAGAAA AAGAA
11752107 GAAAAGAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:11752131 original size:75 final size:69
Alignment explanation
Indices: 11751931--11752155 Score: 174
Period size: 69 Copynumber: 3.2 Consensus size: 69
11751921 CGTCTCGGGG
* * * * * * *
11751931 GGAAG-AAAAAGAAAAAGAAAGAGAAGAAG--AAAGAGATAG-TGAGCACGGAGATGAAGAAAAG
1 GGAAGAAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAGAAAGAGGAGCA-GTAGA-GGAGAAGA-
*
11751992 AAGAAGAG
63 AAGAA-AA
* ** * *
11752000 GGAAGAAAAAAGAAAAAGAAAAAGAAGAAGAATGAGAGAAAGAGTAGCGGTAGAGGAGAAGAAAG
1 GGAAGAAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAGAAAGAGGAGCAGTAGAGGAGAAGAAAG
11752065 AAAA
66 AAAA
*
11752069 GGAAGAAAGAAGAAAAAGAAAAAGAAAAAGAAAAAGAAGAAAAGAAGGAGCAGTGACGGAGGAGA
1 GGAAGAAAAAAGAAAAAGAAAAAGAAAAAGAAAAAG-AG-AAAG-AGGAGCAGT-A--GAGGAGA
* *
11752134 AG-AAGGAGA
60 AGAAAGAAAA
11752143 GGAA-AAAAAAGAA
1 GGAAGAAAAAAGAA
11752156 TAGCTAAATA
Statistics
Matches: 126, Mismatches: 20, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
69 38 0.30
70 30 0.24
71 10 0.08
72 18 0.14
73 12 0.10
74 9 0.07
75 9 0.07
ACGTcount: A:0.62, C:0.02, G:0.32, T:0.03
Consensus pattern (69 bp):
GGAAGAAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAGAAAGAGGAGCAGTAGAGGAGAAGAAAG
AAAA
Found at i:11752228 original size:86 final size:88
Alignment explanation
Indices: 11752084--11752262 Score: 326
Period size: 87 Copynumber: 2.1 Consensus size: 88
11752074 AAAGAAGAAA
11752084 AAGAAAAAGAAAAAGAAAAAGAAGAAAAGAAGGAGCAGTGACGGAGGAGAAGAAGGAGAGG-AAA
1 AAGAAAAAGAAAAAGAAAAAGAAGAAAAGAAGGAGCAGTGACGGAGGAGAAGAAGGAGAGGAAAA
11752148 AAAAAGAATAGCTAAATATACGC
66 AAAAAGAATAGCTAAATATACGC
* *
11752171 AAGAANAAGGAAAAGAAAAAGAAGAAAAGAA-GAGCAGTGACGGAGGAGAAGAAGGAGAGGAAAA
1 AAGAAAAAGAAAAAGAAAAAGAAGAAAAGAAGGAGCAGTGACGGAGGAGAAGAAGGAGAGGAAAA
11752235 AAAAAGAATAGCTAAATATACGC
66 AAAAAGAATAGCTAAATATACGC
11752258 AAGAA
1 AAGAA
11752263 TCAATAGCGA
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
86 29 0.33
87 60 0.67
ACGTcount: A:0.60, C:0.06, G:0.28, T:0.06
Consensus pattern (88 bp):
AAGAAAAAGAAAAAGAAAAAGAAGAAAAGAAGGAGCAGTGACGGAGGAGAAGAAGGAGAGGAAAA
AAAAAGAATAGCTAAATATACGC
Found at i:11752458 original size:2 final size:2
Alignment explanation
Indices: 11752446--11752502 Score: 84
Period size: 2 Copynumber: 30.0 Consensus size: 2
11752436 TTTCTTCATA
*
11752446 AT AT A- AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11752486 AT AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
11752503 CTACTTGCTT
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
1 3 0.06
2 47 0.94
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11752473 original size:19 final size:20
Alignment explanation
Indices: 11752443--11752502 Score: 90
Period size: 21 Copynumber: 3.1 Consensus size: 20
11752433 ATTTTTCTTC
11752443 ATAATATA--ATATATATAT
1 ATAATATATTATATATATAT
11752461 AT-ATATATTATATATATAT
1 ATAATATATTATATATATAT
11752480 ATAGATATATTATATATATAT
1 ATA-ATATATTATATATATAT
11752501 AT
1 AT
11752503 CTACTTGCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.13
18 2 0.05
19 12 0.32
21 19 0.50
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
ATAATATATTATATATATAT
Found at i:11752477 original size:21 final size:21
Alignment explanation
Indices: 11752451--11752502 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
11752441 TCATAATATA
*
11752451 ATATATATATATATATATTAT
1 ATATATATATAGATATATTAT
11752472 ATATATATATAGATATATTAT
1 ATATATATATAGATATATTAT
11752493 ATATATATAT
1 ATATATATAT
11752503 CTACTTGCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
ATATATATATAGATATATTAT
Found at i:11752967 original size:60 final size:60
Alignment explanation
Indices: 11752865--11753104 Score: 268
Period size: 60 Copynumber: 4.0 Consensus size: 60
11752855 TTTGATTGTA
* * * *
11752865 AAAAGGGGGACCTAAAGCCCCGATTTATATTTGGTGATGTGGGTAATTCCCACAAGTAGG
1 AAAAGGGGGACCTGAAGCCTCGATTTATATTTAGTGACGTGGGTAATTCCCACAAGTAGG
* *
11752925 CAAAGGGGGACCTGAAGCCTCGATTTATATTTAGTGACGTGGGTAGTTCCCACAAGTAGG
1 AAAAGGGGGACCTGAAGCCTCGATTTATATTTAGTGACGTGGGTAATTCCCACAAGTAGG
* * * * * * *
11752985 TAAAGGGGGACCTGAAGCCTCGATTTATGTATGGTGGCGTGGGTAGTTCCCACGAGTAGG
1 AAAAGGGGGACCTGAAGCCTCGATTTATATTTAGTGACGTGGGTAATTCCCACAAGTAGG
* * * * * * *
11753045 TAAACAGGGGGGCTTGAAGCCTC-AATT-CATTTAGTGGCGTGGGCAATTCCCACGAGTAGG
1 -AAA-AGGGGGACCTGAAGCCTCGATTTATATTTAGTGACGTGGGTAATTCCCACAAGTAGG
11753105 TGATGATGTC
Statistics
Matches: 156, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
60 135 0.87
61 5 0.03
62 16 0.10
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.25
Consensus pattern (60 bp):
AAAAGGGGGACCTGAAGCCTCGATTTATATTTAGTGACGTGGGTAATTCCCACAAGTAGG
Found at i:11753077 original size:120 final size:120
Alignment explanation
Indices: 11752866--11753105 Score: 295
Period size: 120 Copynumber: 2.0 Consensus size: 120
11752856 TTGATTGTAA
* * *
11752866 AAAGGGGGACCTAAAGCCCCGATTTATATTTGGTGATGTGGGTAATTCCCACAAGTAGGCAAAGG
1 AAAGGGGGACCTAAAGCCCCGATTTATATATGGTGACGTGGGTAATTCCCACAAGTAGGAAAAGG
* * * *
11752931 GGGACCTGAAGCCTCGATTTATATTTAGTGACGTGGGTAGTTCCCACAAGTAGGT
66 GGGACCTGAAGCCTCGAATTACATTTAGTGACGTGGGCAATTCCCACAAGTAGGT
* * * * * *
11752986 AAAGGGGGACCTGAAGCCTCGATTTATGTATGGTGGCGTGGGTAGTTCCCACGAGTAGGTAAACA
1 AAAGGGGGACCTAAAGCCCCGATTTATATATGGTGACGTGGGTAATTCCCACAAGTAGG-AAA-A
* * * *
11753051 GGGGGGCTTGAAGCCTC-AATT-CATTTAGTGGCGTGGGCAATTCCCACGAGTAGGT
64 GGGGGACCTGAAGCCTCGAATTACATTTAGTGACGTGGGCAATTCCCACAAGTAGGT
11753106 GATGATGTCG
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
120 80 0.79
121 5 0.05
122 16 0.16
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (120 bp):
AAAGGGGGACCTAAAGCCCCGATTTATATATGGTGACGTGGGTAATTCCCACAAGTAGGAAAAGG
GGGACCTGAAGCCTCGAATTACATTTAGTGACGTGGGCAATTCCCACAAGTAGGT
Found at i:11754109 original size:20 final size:20
Alignment explanation
Indices: 11754086--11754126 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
11754076 ATCAAATCTC
*
11754086 ATTTCATTTCATATAAATCA
1 ATTTCATTTCATAAAAATCA
11754106 ATTTCATTTCATAAAAATCA
1 ATTTCATTTCATAAAAATCA
11754126 A
1 A
11754127 CAAGGCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTCATTTCATAAAAATCA
Found at i:11758035 original size:38 final size:40
Alignment explanation
Indices: 11757937--11758042 Score: 117
Period size: 38 Copynumber: 2.7 Consensus size: 40
11757927 CTCATCCAGC
* *
11757937 TCATGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCA
1 TCATGTGCATCCCCCCACATCGTGCACATAGCCAGAGCCA
* ** * * *
11757977 TCGTGTGCATCCCCTAACATCATGCACA-A-TCAGTGCCA
1 TCATGTGCATCCCCCCACATCGTGCACATAGCCAGAGCCA
*
11758015 TCATGTACATCCCCCCACATCGTGCACA
1 TCATGTGCATCCCCCCACATCGTGCACA
11758043 CGAGCACTAT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
38 28 0.53
39 1 0.02
40 24 0.45
ACGTcount: A:0.25, C:0.38, G:0.16, T:0.22
Consensus pattern (40 bp):
TCATGTGCATCCCCCCACATCGTGCACATAGCCAGAGCCA
Found at i:11758966 original size:19 final size:19
Alignment explanation
Indices: 11758928--11758966 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11758918 AGAAGGAGAA
*
11758928 AAGCTGCTGGAGAATGAAG
1 AAGCTGCTGGAGAATCAAG
11758947 AAGCTGCTGGAAGAA-CAAG
1 AAGCTGCTGG-AGAATCAAG
11758966 A
1 A
11758967 TATTTATAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.41, C:0.13, G:0.33, T:0.13
Consensus pattern (19 bp):
AAGCTGCTGGAGAATCAAG
Found at i:11768060 original size:60 final size:60
Alignment explanation
Indices: 11767953--11768073 Score: 188
Period size: 60 Copynumber: 2.0 Consensus size: 60
11767943 TGGCAACACA
** * *
11767953 TTGCCTAAACACATCATATATGTTTTGCCTTGCGCCTCTAGTTTCCATAATAATCAAGTT
1 TTGCCTAAACACATCATATATGTTTCACCTTGAGCCTCTAGTATCCATAATAATCAAGTT
* *
11768013 TTGCCTAAACATATCATATATGTTTCACCTTGAGCCTTTAGTATCCATAATAATCAAGTT
1 TTGCCTAAACACATCATATATGTTTCACCTTGAGCCTCTAGTATCCATAATAATCAAGTT
11768073 T
1 T
11768074 CCAAGCATCC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (60 bp):
TTGCCTAAACACATCATATATGTTTCACCTTGAGCCTCTAGTATCCATAATAATCAAGTT
Found at i:11771877 original size:43 final size:43
Alignment explanation
Indices: 11771812--11771897 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
11771802 GTTTGGAAGC
* *
11771812 TTTTGATCAACAAAATGTTGATCTCATTCTTTACATGATTTTG
1 TTTTGATCAACAAAATGCTGATCTCATTCTTCACATGATTTTG
*
11771855 TTTTGATTAACAAAATGCTGATCTCATTCTTCACATGATTTTG
1 TTTTGATCAACAAAATGCTGATCTCATTCTTCACATGATTTTG
11771898 GCACCATCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (43 bp):
TTTTGATCAACAAAATGCTGATCTCATTCTTCACATGATTTTG
Found at i:11779487 original size:21 final size:19
Alignment explanation
Indices: 11779446--11779489 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
11779436 TTATAAGTTT
*
11779446 TATAATTTTATAATAATAA
1 TATAATTTTATAATAAAAA
*
11779465 TATAATTGATTATATTAAAAA
1 TATAATT--TTATAATAAAAA
11779486 TATA
1 TATA
11779490 TAAAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
21 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TATAATTTTATAATAAAAA
Found at i:11779863 original size:30 final size:30
Alignment explanation
Indices: 11779820--11779878 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
11779810 CTCTTTCTTC
* *
11779820 CTTAACTTCAATAAAAAAAAGCCTCATTTT
1 CTTAACTTAAATAAAAAAAAACCTCATTTT
*
11779850 CTTAATTTAAATAAAAAAAAACCTCATTT
1 CTTAACTTAAATAAAAAAAAACCTCATTT
11779879 AAATATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.34
Consensus pattern (30 bp):
CTTAACTTAAATAAAAAAAAACCTCATTTT
Found at i:11779886 original size:29 final size:30
Alignment explanation
Indices: 11779829--11779888 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
11779819 CCTTAACTTC
* ***
11779829 AATAAAAAAAAGCCTCATTTTCTTAATTTA
1 AATAAAAAAAAACCTCATTTAAATAATTTA
11779859 AATAAAAAAAAACCTCATTTAAAT-ATTTA
1 AATAAAAAAAAACCTCATTTAAATAATTTA
11779888 A
1 A
11779889 GTTTAGGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (30 bp):
AATAAAAAAAAACCTCATTTAAATAATTTA
Found at i:11782931 original size:12 final size:13
Alignment explanation
Indices: 11782914--11782947 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
11782904 AAACATAAAT
11782914 TTAAAAAAAAAC-
1 TTAAAAAAAAACA
11782926 TTAAAAGAAAAACA
1 TTAAAA-AAAAACA
11782940 TTAAAAAA
1 TTAAAAAA
11782948 GAGCTTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.30
13 8 0.40
14 6 0.30
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.18
Consensus pattern (13 bp):
TTAAAAAAAAACA
Found at i:11794868 original size:243 final size:243
Alignment explanation
Indices: 11794440--11794924 Score: 846
Period size: 243 Copynumber: 2.0 Consensus size: 243
11794430 TGTGTGGCAT
*
11794440 TCTTGATGATGACTTATATTGTGCCTTGATTGCAATGGTTAAATATATTTCTTCGTGCTTTAATT
1 TCTTGATGATGACTTATATTGTGCCTTGATTGCAATGGTTAAATATATTTCTTCATGCTTTAATT
11794505 GAATATCTTGAGTAGAAATATATTACAACTTATACATATTGCTCCTTAGATGTGCTAAATGAGTA
66 GAATATCTTGAGTAGAAATATATTACAACTTATACATATTGCTCCTTAGATGTGCTAAATGAGTA
* *
11794570 TATTTTCCTATGCTTTGCATGAATATATATTAGTTGGGAATATATTTTGATTTAATGCTTTTATA
131 TATTTCCCTATGCTTTGCATGAACATATATTAGTTGGGAATATATTTTGATTTAATGCTTTTATA
11794635 CTACGATGATTGGATATATTTCTTGATCTATTGATTGAATATTTGCAC
196 CTACGATGATTGGATATATTTCTTGATCTATTGATTGAATATTTGCAC
*
11794683 TCTTGATGATGACTTATATTGTGCCTTGATTGCAATGTTTAAATATATTTCTTCATGCTTTAATT
1 TCTTGATGATGACTTATATTGTGCCTTGATTGCAATGGTTAAATATATTTCTTCATGCTTTAATT
* * * *
11794748 GAATATCTTGAGTAGAAATATATTATAACTTATACATATTGCTCCTTAGTTGTGCTAATTGAGTG
66 GAATATCTTGAGTAGAAATATATTACAACTTATACATATTGCTCCTTAGATGTGCTAAATGAGTA
* * *
11794813 TATTTCCCTATGCTTTGCTTGAACATATATTGGTTGTGAATAT-TTCTTGATTTAATGCTTTTAT
131 TATTTCCCTATGCTTTGCATGAACATATATTAGTTGGGAATATATT-TTGATTTAATGCTTTTAT
*
11794877 ACTATGATGATTGGATATATTTCTTGATCTATTGATTGAATATTTGCA
195 ACTACGATGATTGGATATATTTCTTGATCTATTGATTGAATATTTGCA
11794925 TAGAAATATA
Statistics
Matches: 229, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
242 2 0.01
243 227 0.99
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (243 bp):
TCTTGATGATGACTTATATTGTGCCTTGATTGCAATGGTTAAATATATTTCTTCATGCTTTAATT
GAATATCTTGAGTAGAAATATATTACAACTTATACATATTGCTCCTTAGATGTGCTAAATGAGTA
TATTTCCCTATGCTTTGCATGAACATATATTAGTTGGGAATATATTTTGATTTAATGCTTTTATA
CTACGATGATTGGATATATTTCTTGATCTATTGATTGAATATTTGCAC
Found at i:11799874 original size:42 final size:42
Alignment explanation
Indices: 11799811--11799899 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
11799801 TTATGTGTAT
*
11799811 ATAGCCGAGTCAGCAATGGCTTATGTGCACTCCCACTCACAC
1 ATAGCCGAGTCAGCAACGGCTTATGTGCACTCCCACTCACAC
* ** *
11799853 ATAGCCGAGTCAGCAACGGCTTATTTGCACTCTTACTCGCAC
1 ATAGCCGAGTCAGCAACGGCTTATGTGCACTCCCACTCACAC
11799895 ATAGC
1 ATAGC
11799900 TGGGTCCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (42 bp):
ATAGCCGAGTCAGCAACGGCTTATGTGCACTCCCACTCACAC
Found at i:11815052 original size:3 final size:3
Alignment explanation
Indices: 11815046--11815080 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
11815036 TGGTTGTTGA
*
11815046 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11815081 AGCATCGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:11816719 original size:34 final size:33
Alignment explanation
Indices: 11816672--11816769 Score: 115
Period size: 34 Copynumber: 2.9 Consensus size: 33
11816662 AAATTGCAAG
* * * *
11816672 ATTGTAGAGGTTGTGCTGGCTCTTTGAAAAGGC
1 ATTGTAAAAGTTGTGCTTGCTCATTGAAAAGGC
* * *
11816705 ATTGTGAAATGTTGTGCTTGCTCCTTGAAAACGC
1 ATTGT-AAAAGTTGTGCTTGCTCATTGAAAAGGC
*
11816739 ATTGTAAAAGATGTGCTTGCTCATTGAAAAG
1 ATTGTAAAAGTTGTGCTTGCTCATTGAAAAG
11816770 TGTGAAATCC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 27 0.49
34 28 0.51
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.34
Consensus pattern (33 bp):
ATTGTAAAAGTTGTGCTTGCTCATTGAAAAGGC
Found at i:11819729 original size:42 final size:42
Alignment explanation
Indices: 11819674--11819886 Score: 237
Period size: 42 Copynumber: 5.0 Consensus size: 42
11819664 TGTTGATGTG
**
11819674 GACCCGGCTATGTGCGAGTAGGAGTGCGCATTTGCCGATGAT
1 GACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
* * *
11819716 GACCCGGCTATGTGCGAATAAGAGTGTGCATAAGCCGATGAT
1 GACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
* * *
11819758 GACCCGACTATGTGCGAATAGGAGTACGCATAAGCCGATGAT
1 GACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
* * * * *
11819800 GACCCAGCTATATGCGAGTGGGGGTACGCATAAGCCGATGAT
1 GACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
* * * * * * *
11819842 GATCCAGCCATGTGCGAGTGGGGAGTGCACATGAGCTGATGAT
1 GACCCGGCTATGTGCGAGT-AGGAGTGCGCATAAGCCGATGAT
11819885 GA
1 GA
11819887 TGGGAGGGTG
Statistics
Matches: 147, Mismatches: 23, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 127 0.86
43 20 0.14
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
Found at i:11827286 original size:12 final size:13
Alignment explanation
Indices: 11827267--11827303 Score: 58
Period size: 12 Copynumber: 2.8 Consensus size: 13
11827257 GTTCCTCCCG
11827267 AGAGAAAGAAAAT
1 AGAGAAAGAAAAT
11827280 A-AGAAAGAAAAT
1 AGAGAAAGAAAAT
11827292 AGAGAAATGAAA
1 AGAGAAA-GAAA
11827304 GAAAAGGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.55
13 6 0.27
14 4 0.18
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.08
Consensus pattern (13 bp):
AGAGAAAGAAAAT
Found at i:11833795 original size:22 final size:22
Alignment explanation
Indices: 11833754--11833795 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11833744 AAACAAAAAA
*
11833754 ACAAAGAAGAAAAATTGATTTT
1 ACAAAGAAGAAAAATCGATTTT
11833776 ACAAAG-AGAAAAAGTCGATT
1 ACAAAGAAGAAAAA-TCGATT
11833796 CTTGAAGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.55, C:0.07, G:0.17, T:0.21
Consensus pattern (22 bp):
ACAAAGAAGAAAAATCGATTTT
Found at i:11837559 original size:21 final size:20
Alignment explanation
Indices: 11837533--11837571 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
11837523 TACCTTAAAA
*
11837533 GTATTGATATATTTATCAAAT
1 GTATTGATACATTT-TCAAAT
11837554 GTATTGATACATTTTCAA
1 GTATTGATACATTTTCAA
11837572 TAGAATGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (20 bp):
GTATTGATACATTTTCAAAT
Found at i:11841009 original size:21 final size:20
Alignment explanation
Indices: 11840975--11841016 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
11840965 TAATTTAAAA
11840975 TAAAATAATATAAAATTTAAC
1 TAAAATAATAT-AAATTTAAC
11840996 TAAAATAACT-TAAA-TTAAC
1 TAAAATAA-TATAAATTTAAC
11841015 TA
1 TA
11841017 CTCAACATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.35
20 3 0.15
21 9 0.45
22 1 0.05
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAATAATATAAATTTAAC
Found at i:11843432 original size:25 final size:25
Alignment explanation
Indices: 11843374--11843433 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
11843364 GTGGTCACAA
* *
11843374 CCACGTATATCAACCTGTGGCCTAG
1 CCACATATATCAACCCGTGGCCTAG
* * *
11843399 CCACGTATATCAACCCGTGGCTTTG
1 CCACATATATCAACCCGTGGCCTAG
*
11843424 CTACATATAT
1 CCACATATAT
11843434 ATATCACAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (25 bp):
CCACATATATCAACCCGTGGCCTAG
Found at i:11844988 original size:35 final size:32
Alignment explanation
Indices: 11844927--11845035 Score: 121
Period size: 32 Copynumber: 3.3 Consensus size: 32
11844917 TTTACTGGGA
* * *
11844927 TCAACCAAAACCCAAAGTGATTTTTCAAAGGC
1 TCAACCACAAGCCAAAGTGGTTTTTCAAAGGC
**
11844959 TCAACCACAAGCTTTCACAA-TGGTTTTTCATGGGC
1 TCAACCACAAGC---CA-AAGTGGTTTTTCAAAGGC
*
11844994 TCAACCAAAAGCCAAAGTGGTTTTTCAAAGGC
1 TCAACCACAAGCCAAAGTGGTTTTTCAAAGGC
11845026 TCAACCACAA
1 TCAACCACAA
11845036 TCTACAACAA
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
31 2 0.03
32 34 0.54
35 25 0.40
36 2 0.03
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.24
Consensus pattern (32 bp):
TCAACCACAAGCCAAAGTGGTTTTTCAAAGGC
Found at i:11844998 original size:67 final size:67
Alignment explanation
Indices: 11844904--11845075 Score: 233
Period size: 67 Copynumber: 2.6 Consensus size: 67
11844894 AGCCAAAACA
11844904 TTTCACAATGGTTTTT-ACTGGGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCACA
1 TTTCACAATGGTTTTTCA-TGGGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCACA
11844968 AGC
65 AGC
* * *
11844971 TTTCACAATGGTTTTTCATGGGCTCAACCAAAAGCCAAAGTGGTTTTTCAAAGGCTCAACCACAA
1 TTTCACAATGGTTTTTCATGGGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCACAA
*
11845036 TC
66 GC
* * *
11845038 -TACAACAAT-TTCTTTTCACGGGATCAACCAAAACCCAA
1 TTTC-ACAATGGT-TTTTCATGGGATCAACCAAAACCCAA
11845076 CAACTAACTT
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
66 3 0.03
67 89 0.96
68 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (67 bp):
TTTCACAATGGTTTTTCATGGGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCACAA
GC
Found at i:11858718 original size:19 final size:18
Alignment explanation
Indices: 11858694--11858733 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
11858684 GTTCAAACTA
*
11858694 TCAACTGGCCAAGGGTTTC
1 TCAACTAGCCAA-GGTTTC
*
11858713 TCAACTAGCCGAGGTTTC
1 TCAACTAGCCAAGGTTTC
11858731 TCA
1 TCA
11858734 CTAAACCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.28
Consensus pattern (18 bp):
TCAACTAGCCAAGGTTTC
Found at i:11859360 original size:2 final size:2
Alignment explanation
Indices: 11859353--11859396 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
11859343 AATACACATC
* * * *
11859353 AT AT AT AT TT AG AT AT AC AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11859395 AT
1 AT
11859397 CAACATAACA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:11860002 original size:183 final size:182
Alignment explanation
Indices: 11859694--11860058 Score: 721
Period size: 183 Copynumber: 2.0 Consensus size: 182
11859684 TCAAGGGTTT
11859694 TAAAGTGAGAGAGTGAAAGAGCACAAGAGGTTCTATGAAAGGGTGCACAAAAGCATGAAAATTGA
1 TAAAGTGAGAGAGTGAAAGAGCACAAGAGGTTCTATGAAAGGGTGCACAAAAGCATGAAAATTGA
11859759 AGCTAGCTTGTGAGAAGTTATGGAGGTTTCAAAACAAGCTTCCATGGAGGATGAAAGCAATGTGG
66 AGCTAGCTTGTGAGAAGTTATGGAGGTTTCAAAACAAGCTTCCATGGAGGATGAAAGCAATGTGG
11859824 GATGGAAAGAAGAAAAAGAAGAAGCTGTTGGAGAAATGAAGCTGTTGGAAGA
131 GATGGAAAGAAGAAAAAGAAGAAGCTGTTGGAGAAATGAAGCTGTTGGAAGA
11859876 NTAAAGTGAGAGAGTGAAAGAGCACAAGAGGTTCTATGAAAGGGTGCACAAAAGCATGAAAATTG
1 -TAAAGTGAGAGAGTGAAAGAGCACAAGAGGTTCTATGAAAGGGTGCACAAAAGCATGAAAATTG
11859941 AAGCTAGCTTGTGAGAAGTTATGGAGGTTTCAAAACAAGCTTCCATGGAGGATGAAAGCAATGTG
65 AAGCTAGCTTGTGAGAAGTTATGGAGGTTTCAAAACAAGCTTCCATGGAGGATGAAAGCAATGTG
11860006 GGATGGAAAGAAGAAAAAGAAGAAGCTGTTGGAGAAATGAAGCTGTTGGAAGA
130 GGATGGAAAGAAGAAAAAGAAGAAGCTGTTGGAGAAATGAAGCTGTTGGAAGA
11860059 AAATGATATT
Statistics
Matches: 182, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
183 182 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (182 bp):
TAAAGTGAGAGAGTGAAAGAGCACAAGAGGTTCTATGAAAGGGTGCACAAAAGCATGAAAATTGA
AGCTAGCTTGTGAGAAGTTATGGAGGTTTCAAAACAAGCTTCCATGGAGGATGAAAGCAATGTGG
GATGGAAAGAAGAAAAAGAAGAAGCTGTTGGAGAAATGAAGCTGTTGGAAGA
Found at i:11860049 original size:17 final size:18
Alignment explanation
Indices: 11860027--11860060 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
11860017 AGAAAAAGAA
11860027 GAAGCTGTTGG-AGAAAT
1 GAAGCTGTTGGAAGAAAT
11860044 GAAGCTGTTGGAAGAAA
1 GAAGCTGTTGGAAGAAA
11860061 ATGATATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.38, C:0.06, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGCTGTTGGAAGAAAT
Found at i:11865356 original size:32 final size:32
Alignment explanation
Indices: 11865320--11865468 Score: 140
Period size: 35 Copynumber: 4.5 Consensus size: 32
11865310 TTTACCGAGA
*
11865320 TCAACTAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* *
11865352 TCAACCATAACCTTTCACAA-TGGTTTTTC-ATGAGC
1 TCAACCAAAACC---CA-AAGTGGTTTTTCAAAG-GC
11865387 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* * ** *
11865419 TCAACCACAACCTACAACAATGGTTTTTCACGGGA
1 TCAACCAAAACC--CAA-AGTGGTTTTTCAAAGGC
11865454 TCAACCAAAACCCAA
1 TCAACCAAAACCCAA
11865469 CAACTAACTT
Statistics
Matches: 96, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
31 2 0.02
32 34 0.35
33 5 0.05
34 5 0.05
35 48 0.50
36 2 0.02
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (32 bp):
TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
Found at i:11865401 original size:67 final size:67
Alignment explanation
Indices: 11865293--11865468 Score: 257
Period size: 67 Copynumber: 2.6 Consensus size: 67
11865283 GCTTAGCCAA
* *
11865293 AACCTTTCACAATAGTTTTT-ACCGAGATCAACTAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
1 AACCTTTCACAATGGTTTTTCA-CGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
*
11865357 CAT
65 CAC
* *
11865360 AACCTTTCACAATGGTTTTTCATGAGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGGTTTTTCACGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
11865425 AC
66 AC
* *
11865427 AACC-TACAACAATGGTTTTTCACGGGATCAACCAAAACCCAA
1 AACCTTTC-ACAATGGTTTTTCACGAGATCAACCAAAACCCAA
11865469 CAACTAACTT
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
66 2 0.02
67 95 0.97
68 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (67 bp):
AACCTTTCACAATGGTTTTTCACGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
AC
Found at i:11866935 original size:142 final size:140
Alignment explanation
Indices: 11866709--11866987 Score: 540
Period size: 142 Copynumber: 2.0 Consensus size: 140
11866699 TTTCCTTCTC
11866709 TTTTTTTTTTTTTTGCCATTATTAAAAAAGATAATCAAAACTCCCCCTTAATGAGTGCATCAAGA
1 TTTTTTTTTTTTTTGCCATTATTAAAAAAGATAATCAAAACTCCCCCTTAATGAGTGCATCAAGA
11866774 TTTTCCTTTAATCTTTAAATCAAACTTTAATGAATAGGAATCATAAGCACTCATATACTTAAGTC
66 TTTTCCTTTAATCTTTAAATCAAACTTTAATGAATAGGAATCATAAGCACTCATATACTTAAGTC
11866839 ATACAAGNTCT
131 ATACAAG-TCT
11866850 TTTTTTTTTTTTTTGTCCATTATTAAAAAAGATAATCAAAACTCCCCCTTAATGAGTGCATCAAG
1 TTTTTTTTTTTTTTG-CCATTATTAAAAAAGATAATCAAAACTCCCCCTTAATGAGTGCATCAAG
11866915 ATTTTCCTTTAATCTTTAAATCAAACTTTAATGAATAGGAATCATAAGCACTCATATACTTAAGT
65 ATTTTCCTTTAATCTTTAAATCAAACTTTAATGAATAGGAATCATAAGCACTCATATACTTAAGT
11866980 CATACAAG
130 CATACAAG
11866988 CTTATAGATA
Statistics
Matches: 137, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
141 15 0.11
142 122 0.89
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (140 bp):
TTTTTTTTTTTTTTGCCATTATTAAAAAAGATAATCAAAACTCCCCCTTAATGAGTGCATCAAGA
TTTTCCTTTAATCTTTAAATCAAACTTTAATGAATAGGAATCATAAGCACTCATATACTTAAGTC
ATACAAGTCT
Found at i:11868111 original size:67 final size:67
Alignment explanation
Indices: 11868039--11868214 Score: 239
Period size: 67 Copynumber: 2.6 Consensus size: 67
11868029 GCTTAGCCAA
** * *
11868039 AACCTTTCACAATTATTTTT-ACCGAGATCAACCAAAACCCAAAGTGGTTTTTTAAATACTCAAC
1 AACCTTTCACAATGGTTTTTCA-CGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGACTCAAC
11868103 CAC
65 CAC
* * *
11868106 AACCTTTCACAATGGTTTTTCACAAGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGGTTTTTCACGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGACTCAACC
11868171 AC
66 AC
* *
11868173 AACC-TACAACAATGGTTTTTCACGGGATCAACCAAAACCCAA
1 AACCTTTC-ACAATGGTTTTTCACGAGATCAACCAAAACCCAA
11868215 CAACTAACTT
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
66 2 0.02
67 93 0.97
68 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.26
Consensus pattern (67 bp):
AACCTTTCACAATGGTTTTTCACGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGACTCAACC
AC
Found at i:11868124 original size:35 final size:32
Alignment explanation
Indices: 11868066--11868194 Score: 113
Period size: 32 Copynumber: 3.9 Consensus size: 32
11868056 TTTACCGAGA
* * *
11868066 TCAACCAAAACC-CA-AAGTGGTTTTTTAAATAC
1 TCAACCACAACCTCACAA-TGGTTTTTCAAA-GC
11868098 TCAACCACAACCTTTCACAATGGTTTTTCACAAGC
1 TCAACCACAACC--TCACAATGGTTTTTCA-AAGC
*
11868133 TCAACCAAAACC-CA-AAGTGGTTTTTCAAAGGC
1 TCAACCACAACCTCACAA-TGGTTTTTCAAA-GC
11868165 TCAACCACAACCTACAACAATGGTTTTTCA
1 TCAACCACAACCT-C-ACAATGGTTTTTCA
11868195 CGGGATCAAC
Statistics
Matches: 81, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
31 4 0.05
32 36 0.44
34 1 0.01
35 34 0.42
36 6 0.07
ACGTcount: A:0.36, C:0.27, G:0.10, T:0.26
Consensus pattern (32 bp):
TCAACCACAACCTCACAATGGTTTTTCAAAGC
Found at i:11868204 original size:35 final size:34
Alignment explanation
Indices: 11868066--11868217 Score: 127
Period size: 35 Copynumber: 4.6 Consensus size: 34
11868056 TTTACCGAGA
* * * **
11868066 TCAACCAAAACC-CAA-AGTGGTTTTTTAAATAC
1 TCAACCAAAACCTCAACAATGGTTTTTCACAGGC
* *
11868098 TCAACCACAACCTTTC-ACAATGGTTTTTCACAAGC
1 TCAACCAAAACC--TCAACAATGGTTTTTCACAGGC
* *
11868133 TCAACCAAAACC-CAA-AGTGGTTTTTCAAAGGC
1 TCAACCAAAACCTCAACAATGGTTTTTCACAGGC
* * *
11868165 TCAACCACAACCTACAACAATGGTTTTTCACGGGA
1 TCAACCAAAACCT-CAACAATGGTTTTTCACAGGC
11868200 TCAACCAAAACC-CAACAA
1 TCAACCAAAACCTCAACAA
11868218 CTAACTTTTC
Statistics
Matches: 96, Mismatches: 16, Indels: 15
0.76 0.13 0.12
Matches are distributed among these distances:
32 37 0.39
33 7 0.07
34 4 0.04
35 48 0.50
ACGTcount: A:0.38, C:0.28, G:0.11, T:0.23
Consensus pattern (34 bp):
TCAACCAAAACCTCAACAATGGTTTTTCACAGGC
Found at i:11868770 original size:73 final size:73
Alignment explanation
Indices: 11868637--11868821 Score: 230
Period size: 73 Copynumber: 2.5 Consensus size: 73
11868627 CAGAGAGCTT
* * * ** *
11868637 TTAGTCGACTAACTTCCTTCTTAGTCAATTAAGTTGGTTTTGTCTTCTGGTCTCAGTTTTTGGCA
1 TTAGTCGACTAACTTACTTCTTGGTCAACTAAGTTGGTTTTGTCTTCAAGTCTCAGTTTTTAGCA
11868702 GATAAC-AC
66 G-TAACTAC
* *
11868710 TTAGTCGACTAACTTATTTCTTGGTCAACTAAGTTGGTTTTGTCTTGAAGTCT-AGATTTTTAGC
1 TTAGTCGACTAACTTACTTCTTGGTCAACTAAGTTGGTTTTGTCTTCAAGTCTCAG-TTTTTAGC
* *
11868774 AGTAGCTTC
65 AGTAACTAC
* *
11868783 TTAGTCAACTAACTCACTTCTTGGTCAACTAAGTTGGTT
1 TTAGTCGACTAACTTACTTCTTGGTCAACTAAGTTGGTT
11868822 CTGTTTCTCA
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
72 5 0.05
73 92 0.95
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (73 bp):
TTAGTCGACTAACTTACTTCTTGGTCAACTAAGTTGGTTTTGTCTTCAAGTCTCAGTTTTTAGCA
GTAACTAC
Found at i:11871752 original size:74 final size:74
Alignment explanation
Indices: 11871615--11871759 Score: 168
Period size: 74 Copynumber: 2.0 Consensus size: 74
11871605 TGTCCTTCCC
* ** * *
11871615 TATGATTTGTTTCTATGCTGGTTGCTTCAGCATTGAACGTGATTTGTTTCTTTATCGATTGCTTT
1 TATGATTTGTTTCTATGCTGGTTGCTTCAGCATAGAACGTGATTTGTTTCTCCACCGACTGCTTT
11871680 AACACCGAG
66 AACACCGAG
* ** *
11871689 TATGATTTGTTTCTCCAT-C-GGTTTCTTCAGCATAGAGTGTGATTTGTTTCTCCCCCGACTGCT
1 TATGATTTGTTTCT--ATGCTGGTTGCTTCAGCATAGAACGTGATTTGTTTCTCCACCGACTGCT
*
11871752 TTGACACC
64 TTAACACC
11871760 TGCGTGATTT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
74 56 0.95
75 1 0.02
76 2 0.03
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (74 bp):
TATGATTTGTTTCTATGCTGGTTGCTTCAGCATAGAACGTGATTTGTTTCTCCACCGACTGCTTT
AACACCGAG
Found at i:11874334 original size:29 final size:29
Alignment explanation
Indices: 11874284--11874340 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
11874274 GAGAAGGGGT
* *
11874284 ATATGTGAAAAGGCATAGGAGAAAAAGCC
1 ATATGTGAAAAGGCACAAGAGAAAAAGCC
* * *
11874313 ATATGTGAATAGGTACAAGAGAAGAAGC
1 ATATGTGAAAAGGCACAAGAGAAAAAGC
11874341 TACTTGTGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (29 bp):
ATATGTGAAAAGGCACAAGAGAAAAAGCC
Found at i:11874392 original size:29 final size:30
Alignment explanation
Indices: 11874314--11874384 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
11874304 GAAAAAGCCA
*
11874314 TATGTGAATAGGTACAAGAGAAGAAGCTAC
1 TATGTGAACAGGTACAAGAGAAGAAGCTAC
* * * *
11874344 T-TGTGAACAAGTACAGGAGAAGAAGGT-G
1 TATGTGAACAGGTACAAGAGAAGAAGCTAC
11874372 TATGTGAACAGGT
1 TATGTGAACAGGT
11874385 GCACGAGAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 1 0.03
29 32 0.94
30 1 0.03
ACGTcount: A:0.39, C:0.08, G:0.31, T:0.21
Consensus pattern (30 bp):
TATGTGAACAGGTACAAGAGAAGAAGCTAC
Found at i:11874648 original size:35 final size:35
Alignment explanation
Indices: 11874572--11874661 Score: 99
Period size: 35 Copynumber: 2.6 Consensus size: 35
11874562 AAGTGGTTGT
* * *
11874572 TCCACTTATCCTAGTTATTCGACATGAAGTAATGC
1 TCCACTTATTCTAGTTGTTCGACATGAAGTAATAC
** *
11874607 TCCACTTATTCTAGTTGTTTTACATGAAGTAGTAC
1 TCCACTTATTCTAGTTGTTCGACATGAAGTAATAC
* * *
11874642 TTCACTTATTTTACTTGTTC
1 TCCACTTATTCTAGTTGTTC
11874662 TCTTTATTCT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.43
Consensus pattern (35 bp):
TCCACTTATTCTAGTTGTTCGACATGAAGTAATAC
Found at i:11874892 original size:15 final size:15
Alignment explanation
Indices: 11874830--11874893 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
11874820 CATTGTGCTG
11874830 TAATACCTTAGACAA
1 TAATACCTTAGACAA
* *
11874845 TAACACTTTAGACAA
1 TAATACCTTAGACAA
* ** *
11874860 CAATGTCTTCAAACAA
1 TAATACCTT-AGACAA
11874876 TAATACCTTAGACAA
1 TAATACCTTAGACAA
11874891 TAA
1 TAA
11874894 CATGCTACTA
Statistics
Matches: 36, Mismatches: 12, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
15 25 0.69
16 11 0.31
ACGTcount: A:0.47, C:0.20, G:0.06, T:0.27
Consensus pattern (15 bp):
TAATACCTTAGACAA
Found at i:11882555 original size:23 final size:23
Alignment explanation
Indices: 11882525--11882571 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
11882515 CTTACTTCCA
11882525 AAGTAAGGAACATAGAACATACT
1 AAGTAAGGAACATAGAACATACT
*
11882548 AAGTAAGGAACATAGAATATACT
1 AAGTAAGGAACATAGAACATACT
11882571 A
1 A
11882572 GTCTTTAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (23 bp):
AAGTAAGGAACATAGAACATACT
Found at i:11883669 original size:29 final size:28
Alignment explanation
Indices: 11883612--11883681 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
11883602 AGAAAGTAAT
* *
11883612 AGAAAAAAGGTATACGTGAAAAAGCACA
1 AGAAAAAAGTTGTACGTGAAAAAGCACA
* * *
11883640 AGTAAAAAAGTTGTACGTGAACATGTACA
1 AG-AAAAAAGTTGTACGTGAAAAAGCACA
11883669 AGAGAAAAAGTTG
1 AGA-AAAAAGTTG
11883682 AAGAAGTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.51, C:0.09, G:0.23, T:0.17
Consensus pattern (28 bp):
AGAAAAAAGTTGTACGTGAAAAAGCACA
Found at i:11897825 original size:35 final size:35
Alignment explanation
Indices: 11897676--11897812 Score: 224
Period size: 35 Copynumber: 3.9 Consensus size: 35
11897666 GAGAATAATG
11897676 AGAACAACTAGAACAATTGAAGCATTACTTCACGT
1 AGAACAACTAGAACAATTGAAGCATTACTTCACGT
11897711 AGAACAACTAGAACAATTGAAGCATTACTTCACGT
1 AGAACAACTAGAACAATTGAAGCATTACTTCACGT
*
11897746 AGAACAACTAGAACAAGTT-AAGCACTACTTCACGT
1 AGAACAACTAGAACAA-TTGAAGCATTACTTCACGT
*
11897781 AGAACAACTA-AAGCAAATGAAGCATTACTTCA
1 AGAACAACTAGAA-CAATTGAAGCATTACTTCA
11897813 TGCGGAACAA
Statistics
Matches: 96, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
34 3 0.03
35 91 0.95
36 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.21
Consensus pattern (35 bp):
AGAACAACTAGAACAATTGAAGCATTACTTCACGT
Found at i:11903260 original size:21 final size:20
Alignment explanation
Indices: 11903232--11903270 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
11903222 TCACTACCTC
*
11903232 AAAAGTATAGATATATTTGA
1 AAAAGTATAGATACATTTGA
*
11903252 AAAATGTATCGATACATTT
1 AAAA-GTATAGATACATTT
11903271 TCAACAGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (20 bp):
AAAAGTATAGATACATTTGA
Found at i:11903286 original size:61 final size:60
Alignment explanation
Indices: 11903211--11903336 Score: 180
Period size: 61 Copynumber: 2.1 Consensus size: 60
11903201 AATAGAATTG
*
11903211 CAACAGAATGCTCACTACCTCAAAAGTATAGATATATTTGAAAAATGTATCGATACATTTT
1 CAACAGAATGCTCACTACCTCAAAAGTATAGATACA-TTGAAAAATGTATCGATACATTTT
** * * *
11903272 CAACAGAATGCTCACTGTCTCAAAAGTATTGATACATTGAAAAATGTATTGATGCATTTT
1 CAACAGAATGCTCACTACCTCAAAAGTATAGATACATTGAAAAATGTATCGATACATTTT
*
11903332 AAACA
1 CAACA
11903337 AAATCTTAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
60 26 0.45
61 32 0.55
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (60 bp):
CAACAGAATGCTCACTACCTCAAAAGTATAGATACATTGAAAAATGTATCGATACATTTT
Found at i:11906929 original size:18 final size:18
Alignment explanation
Indices: 11906872--11906933 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
11906862 AAAGGAAAAC
11906872 ATATTTAATTTT-TTAAT
1 ATATTTAATTTTATTAAT
**
11906889 ATTATAAAATTTAGTATGT-AT
1 A-TATTTAATTT--TAT-TAAT
11906910 ATATTTAATTTTATTAAT
1 ATATTTAATTTTATTAAT
11906928 ATATTT
1 ATATTT
11906934 CCTATAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
17 2 0.06
18 19 0.54
20 9 0.26
21 4 0.11
22 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
ATATTTAATTTTATTAAT
Found at i:11907255 original size:112 final size:110
Alignment explanation
Indices: 11907114--11907343 Score: 336
Period size: 112 Copynumber: 2.1 Consensus size: 110
11907104 CGCCTTAAAC
* ** *
11907114 TTTCCAACGGATTATTTTTCATTGGAAATTTCCAATGAAAATTTGTCCGAAATTCCATTGGAAAG
1 TTTCCAACGGATTATTTTTCATTGAAAATTTCCAATGAAAATCCGTCCGAAATTCCATTAGAAA-
* *
11907179 TT-TGGCAATAATAAATTTTTTTTTGTGCCAAAAAATTTTCTGACGGA
65 TTCTGGCAACAATAAA--TTTTTTTGTGCAAAAAAATTTTCTGACGGA
* *
11907226 TTTCCAATGGATTATTTTTCATTGAAAATTTCCAATGAAAATCCGTCCGAAATTCTATTAGAAAT
1 TTTCCAACGGATTATTTTTCATTGAAAATTTCCAATGAAAATCCGTCCGAAATTCCATTAGAAAT
* *
11907291 TCTGGCAGCAATAAATTTTTTTGTGCAAAAAAATTTTCTGATGGA
66 TCTGGCAACAATAAATTTTTTTGTGCAAAAAAATTTTCTGACGGA
11907336 TTTCCAAC
1 TTTCCAAC
11907344 AGAATTTATT
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
110 35 0.33
111 2 0.02
112 69 0.65
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (110 bp):
TTTCCAACGGATTATTTTTCATTGAAAATTTCCAATGAAAATCCGTCCGAAATTCCATTAGAAAT
TCTGGCAACAATAAATTTTTTTGTGCAAAAAAATTTTCTGACGGA
Found at i:11908917 original size:33 final size:33
Alignment explanation
Indices: 11908880--11908951 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 33
11908870 ATAAATTCAA
* * *
11908880 AATAATTTATATATTA-TTAATGAAAATTACATT
1 AATAATTTA-AAATTAGTTAATGAAAACTAAATT
* *
11908913 AATAAATTAAAATTAGTTTATGAAAACTAAATT
1 AATAATTTAAAATTAGTTAATGAAAACTAAATT
11908946 AA-AATT
1 AATAATT
11908952 AGCTTATGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
32 8 0.25
33 24 0.75
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (33 bp):
AATAATTTAAAATTAGTTAATGAAAACTAAATT
Found at i:11908944 original size:25 final size:25
Alignment explanation
Indices: 11908915--11908976 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
11908905 ATTACATTAA
*
11908915 TAAATTAAAATTAGTTTATGAAAAC
1 TAAATTAAAATTAGCTTATGAAAAC
11908940 TAAATTAAAATTAGCTTATGAAAAC
1 TAAATTAAAATTAGCTTATGAAAAC
11908965 TAAATTAAAATT
1 TAAATTAAAATT
11908977 TAAAATTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.35
Consensus pattern (25 bp):
TAAATTAAAATTAGCTTATGAAAAC
Found at i:11910036 original size:18 final size:20
Alignment explanation
Indices: 11909989--11910036 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
11909979 TAACATATTA
11909989 ATATATTATAATAAATAGTG
1 ATATATTATAATAAATAGTG
11910009 ATATATT-T-ATATAAT-GTG
1 ATATATTATAATA-AATAGTG
11910027 ATGATATTAT
1 AT-ATATTAT
11910037 TATATGATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 8 0.32
19 9 0.36
20 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (20 bp):
ATATATTATAATAAATAGTG
Found at i:11914833 original size:34 final size:34
Alignment explanation
Indices: 11914795--11914862 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
11914785 TCAATAAAAA
11914795 AAGAGAAATGTTGTAGAATCAATCAGATTTAGTT
1 AAGAGAAATGTTGTAGAATCAATCAGATTTAGTT
11914829 AAGAGAAATGTTGTAGAATCAATCAGATTTAGTT
1 AAGAGAAATGTTGTAGAATCAATCAGATTTAGTT
11914863 TTCTTGTCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (34 bp):
AAGAGAAATGTTGTAGAATCAATCAGATTTAGTT
Found at i:11920767 original size:2 final size:2
Alignment explanation
Indices: 11920755--11920828 Score: 73
Period size: 2 Copynumber: 38.0 Consensus size: 2
11920745 TATAAATTAA
* *
11920755 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
11920796 AT AT -T ACT TT AT -T TT AT AT AT AT AC AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
11920829 GAAATTAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
1 3 0.05
2 55 0.93
3 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:11921722 original size:19 final size:19
Alignment explanation
Indices: 11921698--11921735 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11921688 CCATTTAACT
*
11921698 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
11921717 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
11921736 GGTTTGACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:11931883 original size:19 final size:19
Alignment explanation
Indices: 11931859--11931896 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11931849 CCATTTAACT
*
11931859 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
11931878 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
11931897 GGTTTGGCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:11933292 original size:13 final size:13
Alignment explanation
Indices: 11933274--11933298 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11933264 AGAGAAATTG
11933274 TGATTTTATAAAA
1 TGATTTTATAAAA
11933287 TGATTTTATAAA
1 TGATTTTATAAA
11933299 TTTTTTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:11936892 original size:38 final size:39
Alignment explanation
Indices: 11936841--11936921 Score: 128
Period size: 38 Copynumber: 2.1 Consensus size: 39
11936831 NNNTTTTTTT
* *
11936841 TTTTTAAAATGAACTCCTCAAAATTGAGGAAACGAAA-C
1 TTTTAAAAATGAACTCCTCAAAACTGAGGAAACGAAATC
*
11936879 TTTTAAAAATGAACTCCTCAAAACTGAGGTAACGAAATC
1 TTTTAAAAATGAACTCCTCAAAACTGAGGAAACGAAATC
11936918 TTTT
1 TTTT
11936922 TTTTTTCTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 34 0.87
39 5 0.13
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (39 bp):
TTTTAAAAATGAACTCCTCAAAACTGAGGAAACGAAATC
Found at i:11948805 original size:17 final size:17
Alignment explanation
Indices: 11948771--11948825 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
11948761 AAAATTTTCT
11948771 TTTTTA-TATTA-TACTA
1 TTTTTATTATTATTA-TA
*
11948787 TTTCTTATT-TTTTTATA
1 TTT-TTATTATTATTATA
11948804 TTTTTATTATTATTATA
1 TTTTTATTATTATTATA
11948821 TTTTT
1 TTTTT
11948826 TCGTAAGCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
16 8 0.24
17 22 0.67
18 3 0.09
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTATTATTATTATA
Found at i:11950823 original size:2 final size:2
Alignment explanation
Indices: 11950816--11950857 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
11950806 NTGTATATTA
*
11950816 AT AT AT AT AT AT AT AT -T CT AT AT AT -T AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11950855 AT A
1 AT A
11950858 AAATTAGTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
1 3 0.08
2 33 0.92
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:11950839 original size:9 final size:9
Alignment explanation
Indices: 11950809--11950853 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
11950799 NNNNNNNNTG
11950809 TATATTA-A
1 TATATTATA
11950817 TATATATATA
1 TATAT-TATA
*
11950827 TATATTCTA
1 TATATTATA
11950836 TATATTATA
1 TATATTATA
11950845 TATA-TATA
1 TATATTATA
11950853 T
1 T
11950854 TATAAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 10 0.30
9 17 0.52
10 6 0.18
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (9 bp):
TATATTATA
Found at i:11950857 original size:20 final size:19
Alignment explanation
Indices: 11950809--11950857 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 19
11950799 NNNNNNNNTG
11950809 TATATTA-ATATATATATA
1 TATATTATATATATATATA
11950827 TATATTCTATATATTATATATA
1 TATA-T-TATATA-TATATATA
11950849 TATATTATA
1 TATATTATA
11950858 AAATTAGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.15
19 1 0.04
20 6 0.22
21 4 0.15
22 12 0.44
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
TATATTATATATATATATA
Found at i:11951303 original size:20 final size:20
Alignment explanation
Indices: 11951280--11951323 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11951270 GGGAAGAACG
*
11951280 CATTCATCATGGG-AAAAATA
1 CATTCATCA-GGGCAAAAACA
*
11951300 CATTCCTCAGGGCAAAAACA
1 CATTCATCAGGGCAAAAACA
11951320 CATT
1 CATT
11951324 AGCCTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.23
Consensus pattern (20 bp):
CATTCATCAGGGCAAAAACA
Found at i:11951496 original size:28 final size:28
Alignment explanation
Indices: 11951430--11951486 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
11951420 GCAACAAAAT
*
11951430 TTTTAAAAATTTTTATTTATTATATATA
1 TTTTAAAAATGTTTATTTATTATATATA
11951458 TTTTAAAAATGTTTATTTATTATATATA
1 TTTTAAAAATGTTTATTTATTATATATA
11951486 T
1 T
11951487 ATTTTTAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (28 bp):
TTTTAAAAATGTTTATTTATTATATATA
Found at i:11952583 original size:73 final size:73
Alignment explanation
Indices: 11952459--11952659 Score: 303
Period size: 73 Copynumber: 2.8 Consensus size: 73
11952449 CAAACAGAAT
* * * * *
11952459 GCTCTTAGTCGACTAACTATGCTTCTTAGTCGATTAAGTCATTTCTGTCTCTGAACCTAGTTTCT
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCATCTCTATCTCTGAACCCAGCTTCT
*
11952524 GGCAGTAA
66 GGCAATAA
*
11952532 GCTCTTAGTCGACTAACAATACTTCTTAGTCGATTAAGTCATCTCTATCTCTGAACCCAGCTTCT
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCATCTCTATCTCTGAACCCAGCTTCT
11952597 GGCAATAA
66 GGCAATAA
* * * *
11952605 GCTCTTAGTTGACTAACAATGCTTCTTAGTCGATTAAGTCGTCTTTATTTCTGAA
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCATCTCTATCTCTGAA
11952660 TTGGCCATAT
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 116 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (73 bp):
GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCATCTCTATCTCTGAACCCAGCTTCT
GGCAATAA
Found at i:11964333 original size:18 final size:18
Alignment explanation
Indices: 11964296--11964334 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11964286 TGACTTCTAA
11964296 TCTTTGTCTTTTGTTGCT
1 TCTTTGTCTTTTGTTGCT
*
11964314 TCTTTTTCTGTTTGTT-CT
1 TCTTTGTCT-TTTGTTGCT
11964332 TCT
1 TCT
11964335 CTGACCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.00, C:0.18, G:0.13, T:0.69
Consensus pattern (18 bp):
TCTTTGTCTTTTGTTGCT
Found at i:11973282 original size:13 final size:13
Alignment explanation
Indices: 11973264--11973288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11973254 AGGGGTTTTA
11973264 TTGGGTAATGGGC
1 TTGGGTAATGGGC
11973277 TTGGGTAATGGG
1 TTGGGTAATGGG
11973289 TAGTGGGCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.48, T:0.32
Consensus pattern (13 bp):
TTGGGTAATGGGC
Found at i:11974128 original size:21 final size:21
Alignment explanation
Indices: 11974099--11974166 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
11974089 CTGACTTTGA
* *
11974099 ATGATGGCATCAGTCCTTGTC
1 ATGAAGGCATCAGTCTTTGTC
*
11974120 ATGAAGGCATCTGTCTTTGTC
1 ATGAAGGCATCAGTCTTTGTC
* *
11974141 ATAAAGGCATAAGTCTTTGTC
1 ATGAAGGCATCAGTCTTTGTC
11974162 ATGAA
1 ATGAA
11974167 TTGCATGAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (21 bp):
ATGAAGGCATCAGTCTTTGTC
Found at i:11981601 original size:35 final size:35
Alignment explanation
Indices: 11981507--11981616 Score: 100
Period size: 36 Copynumber: 3.1 Consensus size: 35
11981497 TCTCACCAGC
* *
11981507 TCATGTGCACTTCCACACCGCACATA-GCTAGA-ATTA
1 TCATGTGCACTCCCACA-CGCACA-AGGC-AGATATCA
* *
11981543 TCCTGTGCACTCTCACACTGCACAAGGCA-ATATCA
1 TCATGTGCACTCCCACAC-GCACAAGGCAGATATCA
* *
11981578 TCATGTGCACTCCCACATCGCACATGGCATATATCA
1 TCATGTGCACTCCCACA-CGCACAAGGCAGATATCA
11981614 TCA
1 TCA
11981617 GTGTATGCAC
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
34 1 0.02
35 30 0.48
36 31 0.50
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.25
Consensus pattern (35 bp):
TCATGTGCACTCCCACACGCACAAGGCAGATATCA
Found at i:11993829 original size:43 final size:43
Alignment explanation
Indices: 11993740--11993906 Score: 214
Period size: 43 Copynumber: 4.0 Consensus size: 43
11993730 TCATTCATCA
* ** *
11993740 TCATGTGCACTCCCTACTTGCACATTTC-A--ACATCATCAGC
1 TCATGTGCACTCCCTACTCGCACATAGCTAGGTCATCATCAGC
* * * *
11993780 TCATGTGCACACCCTATTCGCATATAGCTAGGTCATCATCGGC
1 TCATGTGCACTCCCTACTCGCACATAGCTAGGTCATCATCAGC
* *
11993823 TCATGTGCACTCCTTACTCGCACATAACTAGGTCATCATCAGC
1 TCATGTGCACTCCCTACTCGCACATAGCTAGGTCATCATCAGC
*
11993866 TCATGTGCACTCCCTACTCGCACATAGCCAGGTCATCATCA
1 TCATGTGCACTCCCTACTCGCACATAGCTAGGTCATCATCA
11993907 TCACATAATT
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
40 22 0.21
41 1 0.01
43 84 0.79
ACGTcount: A:0.25, C:0.34, G:0.14, T:0.28
Consensus pattern (43 bp):
TCATGTGCACTCCCTACTCGCACATAGCTAGGTCATCATCAGC
Found at i:11997984 original size:21 final size:21
Alignment explanation
Indices: 11997934--11997987 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
11997924 CCTTGCTTAC
11997934 ATATTTATTATTATAATTTTT
1 ATATTTATTATTATAATTTTT
* *
11997955 -TTTGTTATTATTATTATTTTT
1 ATAT-TTATTATTATAATTTTT
*
11997976 ATATATATTATT
1 ATATTTATTATT
11997988 TTTTAACAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 23 0.85
22 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
ATATTTATTATTATAATTTTT
Done.