Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 36 of 93
Found at i:4065903 original size:16 final size:15
Alignment explanation
Indices: 4065882--4065928 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
4065872 AAATTTTAAC
*
4065882 TTAATTATTTTATAAA
1 TTAATT-TTTTAAAAA
4065898 TTAATTTTTTAAAAA
1 TTAATTTTTTAAAAA
* *
4065913 -TAATATTTAAAAAA
1 TTAATTTTTTAAAAA
4065927 TT
1 TT
4065929 TAATATTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 12 0.44
15 9 0.33
16 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAATTTTTTAAAAA
Found at i:4066197 original size:24 final size:24
Alignment explanation
Indices: 4066152--4066199 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4066142 TTACTTGAAA
** *
4066152 AAACTCATTTAATTTTTTTTTATC
1 AAACTCATTTAATTACTCTTTATC
*
4066176 AAACTCATTTAGTTACTCTTTATC
1 AAACTCATTTAATTACTCTTTATC
4066200 TAATACTGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.52
Consensus pattern (24 bp):
AAACTCATTTAATTACTCTTTATC
Found at i:4071811 original size:16 final size:16
Alignment explanation
Indices: 4071790--4071822 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
4071780 TACTTTGCTT
4071790 GAAAAAAAAAGAGAAAA
1 GAAAAAAAAA-AGAAAA
4071807 GAAAAAAAAAAGAAAA
1 GAAAAAAAAAAGAAAA
4071823 AAATATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
GAAAAAAAAAAGAAAA
Found at i:4071817 original size:11 final size:11
Alignment explanation
Indices: 4071803--4071836 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
4071793 AAAAAAAGAG
4071803 AAAAGAAAAAA
1 AAAAGAAAAAA
4071814 AAAAGAAAAAA
1 AAAAGAAAAAA
* *
4071825 ATATGAAAAAA
1 AAAAGAAAAAA
4071836 A
1 A
4071837 TGTAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:4071833 original size:20 final size:20
Alignment explanation
Indices: 4071810--4071847 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4071800 GAGAAAAGAA
4071810 AAAAAAAAGAAAAAAATATG
1 AAAAAAAAGAAAAAAATATG
* *
4071830 AAAAAAATGTAAAAAATA
1 AAAAAAAAGAAAAAAATA
4071848 AAAATAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (20 bp):
AAAAAAAAGAAAAAAATATG
Found at i:4073252 original size:18 final size:17
Alignment explanation
Indices: 4073226--4073268 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 17
4073216 TAAAATTTGG
*
4073226 TTTTAGGTTTAATTTTAA
1 TTTTTGGTTTAATTTT-A
4073244 TTTTTGGTTTAATTTTA
1 TTTTTGGTTTAATTTTA
4073261 TTTTTGGT
1 TTTTTGGT
4073269 CAAAGTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.67
Consensus pattern (17 bp):
TTTTTGGTTTAATTTTA
Found at i:4074206 original size:26 final size:28
Alignment explanation
Indices: 4074177--4074229 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
4074167 TCCTTTTTCT
*
4074177 TTCC-AATTTCAATTTTT-TTTTTTATC
1 TTCCTAATTTCAATTTTTATTTATTATC
* *
4074203 TTCCTATTTTCTATTTTTATTTATTAT
1 TTCCTAATTTCAATTTTTATTTATTAT
4074230 TTTAATTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 11 0.50
28 7 0.32
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (28 bp):
TTCCTAATTTCAATTTTTATTTATTATC
Found at i:4074324 original size:24 final size:24
Alignment explanation
Indices: 4074292--4074830 Score: 350
Period size: 24 Copynumber: 22.8 Consensus size: 24
4074282 GGTAAGATTT
*
4074292 TATAGTTTATTTGCATGATTATTAG
1 TATA-TTTATTTGCATGATTATTAA
* *
4074317 TATATTTACTTGTGTAATATATTGTATTAA
1 TATATTTA-TT-TG-CAT-GA-T-TATTAA
** *
4074347 TATATTTATTTGTGTAATTTATTAA
1 TATATTTATTTGCATGA-TTATTAA
* **
4074372 TATATCTATTTGTGTGATTTATTAA
1 TATATTTATTTGCATGA-TTATTAA
*
4074397 TATA---A-TTGCATGATTATTTA
1 TATATTTATTTGCATGATTATTAA
* *
4074417 TATATTTCTTTGAATGATTATTAA
1 TATATTTATTTGCATGATTATTAA
* **
4074441 TATATTTTTTTGTGTGATTATTAA
1 TATATTTATTTGCATGATTATTAA
* ** *
4074465 TGTATTTATTTGTGTAATTAATTAA
1 TATATTTATTTGCATGATT-ATTAA
**
4074490 TATATTTATTTGTGTGATTTATTAA
1 TATATTTATTTGCATGA-TTATTAA
*
4074515 TATA---ATTT-CATAATTATTAA
1 TATATTTATTTGCATGATTATTAA
*
4074535 TATATTTATTTTCATGATTATTAA
1 TATATTTATTTGCATGATTATTAA
* *
4074559 TATATTTATTTGCATTATTACTAA
1 TATATTTATTTGCATGATTATTAA
*
4074583 TATATTTATTTGTATGATTTATTAA
1 TATATTTATTTGCATGA-TTATTAA
***
4074608 TATATTTATTTATGTGATTTATT-A
1 TATATTTATTTGCATGA-TTATTAA
*
4074632 -ATA-TGA-TTGCATGATTATTAA
1 TATATTTATTTGCATGATTATTAA
* * *
4074653 TATATTTATTTGTATGTTTGTTAA
1 TATATTTATTTGCATGATTATTAA
***
4074677 TAT-TTTATTTATGTGATTTATT-A
1 TATATTTATTTGCATGA-TTATTAA
* *
4074700 -ATA-TGA-TTGCGTGATTATTAA
1 TATATTTATTTGCATGATTATTAA
*
4074721 TATATTTATTTGCTTGATTATTAA
1 TATATTTATTTGCATGATTATTAA
* * *
4074745 TATATTTGTTT--AT-ATAATTTA
1 TATATTTATTTGCATGATTATTAA
* *
4074766 T-TAATATATCTGCATGATTATTAA
1 TAT-ATTTATTTGCATGATTATTAA
** *
4074790 TATATTTATTTGTGTGATTTATT-T
1 TATATTTATTTGCATGA-TTATTAA
4074814 TATATTT-TTTGCATGAT
1 TATATTTATTTGCATGAT
4074831 AATTTTTGCA
Statistics
Matches: 414, Mismatches: 67, Indels: 69
0.75 0.12 0.13
Matches are distributed among these distances:
20 32 0.08
21 33 0.08
22 19 0.05
23 31 0.07
24 169 0.41
25 101 0.24
26 7 0.02
27 3 0.01
28 3 0.01
29 3 0.01
30 13 0.03
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (24 bp):
TATATTTATTTGCATGATTATTAA
Found at i:4074349 original size:13 final size:12
Alignment explanation
Indices: 4074331--4074400 Score: 50
Period size: 13 Copynumber: 5.6 Consensus size: 12
4074321 TTTACTTGTG
4074331 TAATATATTGTAT
1 TAATATATT-TAT
4074344 TAATATATTTAT
1 TAATATATTTAT
** *
4074356 TTGTGTAATTTAT
1 TAATAT-ATTTAT
*
4074369 TAATATATCTAT
1 TAATATATTTAT
** *
4074381 TTGTGTGATTTAT
1 TAATAT-ATTTAT
4074394 TAATATA
1 TAATATA
4074401 ATTGCATGAT
Statistics
Matches: 41, Mismatches: 14, Indels: 5
0.68 0.23 0.08
Matches are distributed among these distances:
12 15 0.37
13 26 0.63
ACGTcount: A:0.34, C:0.01, G:0.09, T:0.56
Consensus pattern (12 bp):
TAATATATTTAT
Found at i:4074351 original size:30 final size:30
Alignment explanation
Indices: 4074311--4074369 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
4074301 TTTGCATGAT
*
4074311 TATTAGTATATTTACTTGTGTAATATATTG
1 TATTAATATATTTACTTGTGTAATATATTG
* *
4074341 TATTAATATATTTATTTGTGTAATTTATT
1 TATTAATATATTTACTTGTGTAATATATT
4074370 AATATATCTA
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:0.31, C:0.02, G:0.10, T:0.58
Consensus pattern (30 bp):
TATTAATATATTTACTTGTGTAATATATTG
Found at i:4074520 original size:118 final size:118
Alignment explanation
Indices: 4074292--4074880 Score: 555
Period size: 118 Copynumber: 5.0 Consensus size: 118
4074282 GGTAAGATTT
* * *
4074292 TATAGTTTATTTGCATGATTATTAGTATATTTACTTGTGTAATATATTGTATTAATATATTTATT
1 TATA-TTTATTTGCATGATTATTAATATATTTA-TT-TGT-GT-GA-T-TATTAATATATTTATT
* *
4074357 TGTGTAATTTATTAATATATCTATTTGTGTGATTTATTAATATAATTGCATGATTATTTA
59 TGTGTAATTTATTAATATATTTATTTGTGTGATTTATTAATATAATTGCATGATTATTAA
* * * *
4074417 TATATTTCTTTGAATGATTATTAATATATTTTTTTGTGTGATTATTAATGTATTTATTTGTGTAA
1 TATATTTATTTGCATGATTATTAATATATTTATTTGTGTGATTATTAATATATTTATTTGTGTAA
* * *
4074482 TTAATTAATATATTTATTTGTGTGATTTATTAATATAATTTCATAATTATTAA
66 TTTATTAATATATTTATTTGTGTGATTTATTAATATAATTGCATGATTATTAA
* ** * * * *
4074535 TATATTTATTTTCATGATTATTAATATATTTATTTGCATTATTACTAATATATTTATTTGTATGA
1 TATATTTATTTGCATGATTATTAATATATTTATTTGTGTGATTATTAATATATTTATTTGTGTAA
* *
4074600 TTTATTAATATATTTATTTATGTGATTTATTAATATGATTGCATGATTATTAA
66 TTTATTAATATATTTATTTGTGTGATTTATTAATATAATTGCATGATTATTAA
* * * * * * *
4074653 TATATTTATTTGTATGTTTGTTAATAT-TTTATTTATGTGATTTATT-A-ATA-TGA-TTGCGTG
1 TATATTTATTTGCATGATTATTAATATATTTATTTGTGTGA-TTATTAATATATTTATTTGTGTA
*
4074713 A-TTATTAATATATTTATTTGCT-TGA-TTATTAATAT-ATT---TGTTTATATAA
65 ATTTATTAATATATTTATTTG-TGTGATTTATTAATATAATTGCATGATTAT-TAA
* *
4074762 TTTATTAATATATCTGCATGATTATTAATATATTTATTTGTGTGATTTATT-TTATATTT-TTTG
1 TATATT--TAT-T-TGCATGATTATTAATATATTTATTTGTGTGA-TTATTAATATATTTATTTG
* * * *
4074825 CATGATAATTT-TTGCATGATATTT-TTGGTATGATTTATT-ATATATTTTGCATGATT
61 --TG-TAATTTATT-AAT-ATATTTATTTGTGTGATTTATTAATATA-ATTGCATGATT
4074881 GTTTGATATT
Statistics
Matches: 385, Mismatches: 55, Indels: 48
0.79 0.11 0.10
Matches are distributed among these distances:
108 6 0.02
109 8 0.02
111 6 0.02
112 11 0.03
113 35 0.09
114 25 0.06
115 5 0.01
116 7 0.02
117 10 0.03
118 200 0.52
119 6 0.02
120 15 0.04
121 12 0.03
122 5 0.01
123 2 0.01
124 24 0.06
125 8 0.02
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (118 bp):
TATATTTATTTGCATGATTATTAATATATTTATTTGTGTGATTATTAATATATTTATTTGTGTAA
TTTATTAATATATTTATTTGTGTGATTTATTAATATAATTGCATGATTATTAA
Found at i:4074604 original size:13 final size:13
Alignment explanation
Indices: 4074528--4074639 Score: 67
Period size: 12 Copynumber: 9.1 Consensus size: 13
4074518 AATTTCATAA
*
4074528 TTATTAATAT-AT
1 TTATTTATATGAT
4074540 TTATTT-TCATGA-
1 TTATTTAT-ATGAT
*
4074552 TTATTAATAT-AT
1 TTATTTATATGAT
** *
4074564 TTATTTGCATTA-
1 TTATTTATATGAT
* *
4074576 TTACTAATAT-AT
1 TTATTTATATGAT
*
4074588 TTATTTGTATGAT
1 TTATTTATATGAT
*
4074601 TTATTAATAT-AT
1 TTATTTATATGAT
*
4074613 TTATTTATGTGAT
1 TTATTTATATGAT
*
4074626 TTATTAATATGAT
1 TTATTTATATGAT
4074639 T
1 T
4074640 GCATGATTAT
Statistics
Matches: 74, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
11 3 0.04
12 44 0.59
13 27 0.36
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (13 bp):
TTATTTATATGAT
Found at i:4074704 original size:68 final size:69
Alignment explanation
Indices: 4074430--4074820 Score: 361
Period size: 69 Copynumber: 5.6 Consensus size: 69
4074420 ATTTCTTTGA
* * * * * * *
4074430 ATGATTATTAATATATTTTTTTGTGTGATTATTAATGTATTTATTTGTGTAATTAATTAATATAT
1 ATGATTATTAATATATTTATTTGTATGTTTATTAATATATTTATTTATGTGATTTATT-A-ATA-
* *
4074495 TTATTTGT
63 TGA-TTGC
* * ** *
4074503 GTGATTTATTAATATA---ATTT-CATAATTATTAATATATTTATTT-TCATGA-TTATTAATAT
1 ATGA-TTATTAATATATTTATTTGTATGTTTATTAATATATTTATTTAT-GTGATTTATT-A-AT
*
4074562 ATTTATTTGC
62 A-TGA-TTGC
* *
4074572 ATTATTACTAATATATTTATTTGTATGATTTATTAATATATTTATTTATGTGATTTATTAATATG
1 ATGATTATTAATATATTTATTTGTATG-TTTATTAATATATTTATTTATGTGATTTATTAATATG
4074637 ATTGC
65 ATTGC
*
4074642 ATGATTATTAATATATTTATTTGTATGTTTGTTAATAT-TTTATTTATGTGATTTATTAATATGA
1 ATGATTATTAATATATTTATTTGTATGTTTATTAATATATTTATTTATGTGATTTATTAATATGA
4074706 TTGC
66 TTGC
* * * * *
4074710 GTGATTATTAATATATTTATTTGCT-TGATTATTAATATATTTGTTTATATAATTTATTAATAT-
1 ATGATTATTAATATATTTATTTG-TATGTTTATTAATATATTTATTTATGTGATTTATTAATATG
4074773 ATCTGC
65 AT-TGC
* *
4074779 ATGATTATTAATATATTTATTTGTGTGATTTATT-TTATATTT
1 ATGATTATTAATATATTTATTTGTATG-TTTATTAATATATTT
4074821 TTTGCATGAT
Statistics
Matches: 274, Mismatches: 30, Indels: 32
0.82 0.09 0.10
Matches are distributed among these distances:
68 76 0.28
69 87 0.32
70 55 0.20
71 9 0.03
72 5 0.02
73 25 0.09
74 17 0.06
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.57
Consensus pattern (69 bp):
ATGATTATTAATATATTTATTTGTATGTTTATTAATATATTTATTTATGTGATTTATTAATATGA
TTGC
Found at i:4074752 original size:20 final size:20
Alignment explanation
Indices: 4074694--4074796 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 20
4074684 TTTATGTGAT
*
4074694 TTATTAATATGA-TTGCGTGA
1 TTATTAATAT-ATTTGCTTGA
4074714 TTATTAATATATTTATTTGCTTGA
1 TTATT-A-ATA--TATTTGCTTGA
* *
4074738 TTATTAATATATTTGTTTATATAA
1 TTATTAATATATTTG---CT-TGA
* *
4074762 TTTATTAATATATCTGCATGA
1 -TTATTAATATATTTGCTTGA
4074783 TTATTAATATATTT
1 TTATTAATATATTT
4074797 ATTTGTGTGA
Statistics
Matches: 65, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
20 24 0.37
21 3 0.05
22 6 0.09
23 3 0.05
24 15 0.23
25 14 0.22
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (20 bp):
TTATTAATATATTTGCTTGA
Found at i:4074810 original size:45 final size:44
Alignment explanation
Indices: 4074365--4074812 Score: 216
Period size: 45 Copynumber: 9.7 Consensus size: 44
4074355 TTTGTGTAAT
*
4074365 TTATTAATATATCTATTTGTGTGATTTATTAATATAATTGCATGA
1 TTATTAATATATTTATTTGTGTGATTTATTAATAT-ATTGCATGA
* * ** **
4074410 TTATTTATATATTTCTTTGAATGA-TTATTAATATATTTTTTTGTGTGA
1 TTATTAATATATTTATTTGTGTGATTTATTAATATA-----TTGCATGA
* * * **
4074458 TTATTAATGTATTTATTTGTGTAATTAATTAATATATTTATTTGTGTGA
1 TTATTAATATATTTATTTGTGTGATTTATT-A-ATA--TA-TTGCATGA
* * * *
4074507 TTTATTAATATAATTTCATAATTAT-TAATATATT--TAT-TTTCATGA
1 -TTATTAATAT-ATTT-AT--TTGTGTGATTTATTAATATATTGCATGA
** * * * *
4074552 TTATTAATATATTTATTTGCATTATTACTAATATATTTATTTGTATGA
1 TTATTAATATATTTATTTGTGTGATT--TATTA-ATATA-TTGCATGA
*
4074600 TTTATTAATATATTTATTTATGTGATTTATTAATATGATTGCATGA
1 -TTATTAATATATTTATTTGTGTGATTTATTAATAT-ATTGCATGA
* * *
4074646 TTATTAATATATTTATTTGTATG-TTTGTTAATAT-TT-TAT--
1 TTATTAATATATTTATTTGTGTGATTTATTAATATATTGCATGA
* * * *
4074685 TTATGTGATTTATTAATATGATTGCGTGA-TTATTAATATATTTATTTGCTTGA
1 TTAT-TAATATATT--TAT--TTGTGTGATTTATT-A-ATA--TA-TTGCATGA
* * * *
4074738 TTATTAATATATTTGTTTATATAATTTATTAATATATCTGCATGA
1 TTATTAATATATTTATTTGTGTGATTTATTAATATAT-TGCATGA
4074783 TTATTAATATATTTATTTGTGTGATTTATT
1 TTATTAATATATTTATTTGTGTGATTTATT
4074813 TTATATTTTT
Statistics
Matches: 302, Mismatches: 59, Indels: 84
0.68 0.13 0.19
Matches are distributed among these distances:
39 4 0.01
40 9 0.03
41 5 0.02
42 7 0.02
43 8 0.03
44 40 0.13
45 80 0.26
46 15 0.05
47 9 0.03
48 36 0.12
49 42 0.14
50 14 0.05
51 8 0.03
52 9 0.03
53 13 0.04
54 3 0.01
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (44 bp):
TTATTAATATATTTATTTGTGTGATTTATTAATATATTGCATGA
Found at i:4074848 original size:13 final size:14
Alignment explanation
Indices: 4074819--4074851 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
4074809 TATTTTATAT
4074819 TTTTTGCATGATAA
1 TTTTTGCATGATAA
4074833 TTTTTGCATGAT-A
1 TTTTTGCATGATAA
4074846 TTTTTG
1 TTTTTG
4074852 GTATGATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.58
Consensus pattern (14 bp):
TTTTTGCATGATAA
Found at i:4074893 original size:21 final size:21
Alignment explanation
Indices: 4074841--4074894 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
4074831 AATTTTTGCA
*
4074841 TGATATTTTTGGTATGATTTAT
1 TGATATTTTT-GCATGATTTAT
4074863 T-ATATATTTTGCATGATTGT-T
1 TGATAT-TTTTGCATGATT-TAT
4074884 TGATATTTTTG
1 TGATATTTTTG
4074895 ATAGAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.22, C:0.02, G:0.17, T:0.59
Consensus pattern (21 bp):
TGATATTTTTGCATGATTTAT
Found at i:4074906 original size:21 final size:20
Alignment explanation
Indices: 4074841--4074906 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 20
4074831 AATTTTTGCA
*
4074841 TGATATTTTTGGTATGATTTAT
1 TGATATTTTTGATA-GATTT-T
4074863 T-ATATATTTTGCAT-GATTGTT
1 TGATAT-TTTTG-ATAGATT-TT
4074884 TGATATTTTTGATAGAATTTT
1 TGATATTTTTGATAG-ATTTT
4074905 TG
1 TG
4074907 TATGATAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
20 2 0.05
21 20 0.54
22 14 0.38
23 1 0.03
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.58
Consensus pattern (20 bp):
TGATATTTTTGATAGATTTT
Found at i:4076923 original size:266 final size:266
Alignment explanation
Indices: 4076449--4076980 Score: 962
Period size: 266 Copynumber: 2.0 Consensus size: 266
4076439 TTTCCCCTTT
4076449 TTTGATAATGATTCAATGACCTAAAAGTTTCTACCGATATGGATAGAGTAAGATTGATTTTATTG
1 TTTGATAATGATTCAATGACCTAAAAGTTTCTACCGATATGGATAGAGTAAGATTGATTTTATTG
4076514 TTCACTTGCTTCAAGGAAATGGATTACTGATTCCTCAATATACCCCAAAACCTTTAAGAAAATGA
66 TTCACTTGCTTCAAGGAAATGGATTACTGATTCCTCAATATACCCCAAAACCTTTAAGAAAATGA
*
4076579 TCAAGCCAAATAATTACCAAAGCTATCATTTTCATGCATTATGCATCTTTAAGTGTTTTACATTA
131 TCAAGCCAAATAATTACCAAAGCTATCATTTTCATGCATTATGCATCTTTAAGTGTTTGACATTA
* *
4076644 TAATACATAGGGTTTCCCATATGATGTAATTGCTTATG-CATTTGTTTGGATATACGAGCTTAGA
196 TAATACATAGGGTTTCCCATAGGATGTAATTGCTTATGCCATTTGTTTGGATATACGAGCTCAG-
4076708 ATCCTGA
260 ATCCTGA
4076715 TTTGATAATGATTCAATGACCTAAAAGTTTCTACCGATATGGATAGAGTAAGATTGATTTTATTG
1 TTTGATAATGATTCAATGACCTAAAAGTTTCTACCGATATGGATAGAGTAAGATTGATTTTATTG
*
4076780 TTCACTTGC-TCAAGGAAATGGATTACTGATTCCTCAATGTACCCCAAAACCTTTAAGAAAATGA
66 TTCACTTGCTTCAAGGAAATGGATTACTGATTCCTCAATATACCCCAAAACCTTTAAGAAAATGA
* *
4076844 TCAAGCCATA-AATTACCAAAGCTATCATTTTCATGCATTATTCATCCTTTAAGTGTTTGACATT
131 TCAAGCCAAATAATTACCAAAGCTATCATTTTCATGCATTATGCAT-CTTTAAGTGTTTGACATT
4076908 ATAATTACATAGGGTTTCCCATAGGATGTAATTGCTTATGCCATTTGTTTGGATATACGAGCTCA
195 ATAA-TACATAGGGTTTCCCATAGGATGTAATTGCTTATGCCATTTGTTTGGATATACGAGCTCA
4076973 GATCCTGA
259 GATCCTGA
4076981 GTGGAAACTT
Statistics
Matches: 257, Mismatches: 6, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
264 34 0.13
265 84 0.33
266 115 0.45
267 24 0.09
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (266 bp):
TTTGATAATGATTCAATGACCTAAAAGTTTCTACCGATATGGATAGAGTAAGATTGATTTTATTG
TTCACTTGCTTCAAGGAAATGGATTACTGATTCCTCAATATACCCCAAAACCTTTAAGAAAATGA
TCAAGCCAAATAATTACCAAAGCTATCATTTTCATGCATTATGCATCTTTAAGTGTTTGACATTA
TAATACATAGGGTTTCCCATAGGATGTAATTGCTTATGCCATTTGTTTGGATATACGAGCTCAGA
TCCTGA
Found at i:4078013 original size:29 final size:28
Alignment explanation
Indices: 4077969--4078026 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
4077959 TAAATATTCC
*
4077969 ATAATTAACAACAACATAAAATGAATAAA
1 ATAATTAACAACAACA-AAAATAAATAAA
* * *
4077998 ATAATTAACCATAACAAAACTAAATAAA
1 ATAATTAACAACAACAAAAATAAATAAA
4078026 A
1 A
4078027 CTATCAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.66, C:0.12, G:0.02, T:0.21
Consensus pattern (28 bp):
ATAATTAACAACAACAAAAATAAATAAA
Found at i:4078818 original size:55 final size:55
Alignment explanation
Indices: 4078718--4078831 Score: 131
Period size: 55 Copynumber: 2.1 Consensus size: 55
4078708 CTCTTTGATG
* ** * * *
4078718 AAATCTTAAAAATCAATTTTCAAACTGATATTAGGATTATGTCGACTTTTTGGTA
1 AAATCCTAAAAATCAATTTTCAAACTGATATTAAAATTATCTCGACTCTTTAGTA
* * *
4078773 AAATCCTAAAAACTC-ATTTTTAAACTGATTTTAAAATTGTCTCGACTCTTTAGTA
1 AAATCCTAAAAA-TCAATTTTCAAACTGATATTAAAATTATCTCGACTCTTTAGTA
4078828 AAAT
1 AAAT
4078832 TTAAAAAAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 47 0.96
56 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (55 bp):
AAATCCTAAAAATCAATTTTCAAACTGATATTAAAATTATCTCGACTCTTTAGTA
Found at i:4079113 original size:18 final size:19
Alignment explanation
Indices: 4079086--4079124 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
4079076 TATGAAAGAT
4079086 TTTTTCAAATAATTAATTA
1 TTTTTCAAATAATTAATTA
* *
4079105 TTTTT-AAATCATTTATTA
1 TTTTTCAAATAATTAATTA
4079123 TT
1 TT
4079125 CATAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTCAAATAATTAATTA
Found at i:4079354 original size:3 final size:3
Alignment explanation
Indices: 4079328--4079405 Score: 104
Period size: 3 Copynumber: 25.7 Consensus size: 3
4079318 TAAAAGAATG
* * *
4079328 AAT AAT AAA AAC AAT AAC ATAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
4079374 AAT AAT AAT AAT AAT AAT AAT AA- AAT CAAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AA
4079406 AAAATAACAA
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
2 2 0.03
3 60 0.90
4 5 0.07
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:4079427 original size:18 final size:19
Alignment explanation
Indices: 4079389--4079428 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
4079379 TAATAATAAT
* *
4079389 AATAATAAAATCAATAAAA
1 AATAACAAAATCAACAAAA
4079408 AATAACAAAAT-AACAAAA
1 AATAACAAAATCAACAAAA
4079426 AAT
1 AAT
4079429 TAAATAAAAA
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:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (19 bp):
AATAACAAAATCAACAAAA
Found at i:4079435 original size:30 final size:29
Alignment explanation
Indices: 4079405--4079462 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
4079395 AAAATCAATA
4079405 AAAAATAACAAA-ATAA-CAAAAAATTAAAT
1 AAAAATAA-AAATA-AATCAAAAAATTAAAT
4079434 AAAAATAAAAATCAAATCAAAAAATTAAA
1 AAAAATAAAAAT-AAATCAAAAAATTAAA
4079463 AGAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 3 0.12
29 10 0.38
30 13 0.50
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (29 bp):
AAAAATAAAAATAAATCAAAAAATTAAAT
Found at i:4079444 original size:18 final size:18
Alignment explanation
Indices: 4079356--4079428 Score: 65
Period size: 21 Copynumber: 3.7 Consensus size: 18
4079346 ATATAATAAT
*
4079356 AATAATAATAATAATAATAA
1 AATAATAA-AA-AATAACAA
*
4079376 TAATAATAATAATAATAATAA
1 -AATAATAA-AA-AATAACAA
4079397 AATCAATAAAAAATAACAA
1 AAT-AATAAAAAATAACAA
*
4079416 AATAACAAAAAAT
1 AATAATAAAAAAT
4079429 TAAATAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
18 9 0.18
19 10 0.20
20 5 0.10
21 25 0.51
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (18 bp):
AATAATAAAAAATAACAA
Found at i:4088369 original size:13 final size:14
Alignment explanation
Indices: 4088347--4088382 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
4088337 ATTCAAGGTC
*
4088347 AAAGTCAAAATTAA
1 AAAGTCAAAAATAA
4088361 AAA-TCAAAAATAA
1 AAAGTCAAAAATAA
4088374 AAAGTCAAA
1 AAAGTCAAA
4088383 GGGTCAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.69, C:0.08, G:0.06, T:0.17
Consensus pattern (14 bp):
AAAGTCAAAAATAA
Found at i:4089069 original size:21 final size:20
Alignment explanation
Indices: 4089035--4089074 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4089025 AGTTTTCTAG
*
4089035 AAATTTTTTGAAAAATTTCT
1 AAATTTTGTGAAAAATTTCT
*
4089055 AAATTTTGGTGAAAATTTTC
1 AAATTTT-GTGAAAAATTTC
4089075 AGTGAAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (20 bp):
AAATTTTGTGAAAAATTTCT
Found at i:4089489 original size:15 final size:15
Alignment explanation
Indices: 4089469--4089503 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
4089459 TATTTGGCAT
4089469 TTTATTTAG-TTTTTA
1 TTTATTT-GTTTTTTA
4089484 TTTATTTGTTTTTTA
1 TTTATTTGTTTTTTA
4089499 TTTAT
1 TTTAT
4089504 GGTTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.05
15 18 0.95
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (15 bp):
TTTATTTGTTTTTTA
Found at i:4089522 original size:12 final size:12
Alignment explanation
Indices: 4089469--4089539 Score: 67
Period size: 12 Copynumber: 6.1 Consensus size: 12
4089459 TATTTGGCAT
*
4089469 TTTATTTAGTT-
1 TTTATTTATTTG
4089480 TTTATTTATTTG
1 TTTATTTATTTG
*
4089492 TTT-TTTATTTA
1 TTTATTTATTTG
*
4089503 TGGT-TTTATTTG
1 T-TTATTTATTTG
4089515 TTTATTTATTTG
1 TTTATTTATTTG
* *
4089527 TTGATTTTTTTG
1 TTTATTTATTTG
4089539 T
1 T
4089540 ATGATTAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
11 19 0.38
12 31 0.62
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.75
Consensus pattern (12 bp):
TTTATTTATTTG
Found at i:4100048 original size:169 final size:170
Alignment explanation
Indices: 4099763--4100102 Score: 610
Period size: 169 Copynumber: 2.0 Consensus size: 170
4099753 AACATGTTAA
4099763 TGTATGTATGCCAATGAATATTATGTAAGATGAAATGCAATTTTAAAGTTGGGCTTTTAAGTATA
1 TGTATGTATGCCAATGAATATTATGTAAGATGAAATGCAATTTTAAAGTTGGGCTTTTAAGTATA
4099828 ATAAGACCACCCCGACTCTCCAACATTTAGGCAGAATTTAAGTGCGACTGTTTATATTTAAGACC
66 ATAAGACCACCCCGACTCTCCAACATTTAGGCAGAATTTAAGTGCGACTGTTTATATTTAAGACC
*
4099893 TCGATTTAGTACTATACTTTTTATTAATTAGTCCCATTAT
131 TCGATTTAGTACTATACTTTTCATTAATTAGTCCCATTAT
*
4099933 TGTATGTATGCTAATGAATATTATGTAAGATGAAATGCAA-TTTAAAGTTGGGCTTTTAAGTATA
1 TGTATGTATGCCAATGAATATTATGTAAGATGAAATGCAATTTTAAAGTTGGGCTTTTAAGTATA
* * * * *
4099997 ATGAGACCACCCTGACTCTCCGACATTTAGGCAGAGTTTAAGTGTGACTGTTTATATTTAAGACC
66 ATAAGACCACCCCGACTCTCCAACATTTAGGCAGAATTTAAGTGCGACTGTTTATATTTAAGACC
4100062 TCGATTTAGTACTATACTTTTCATTAATTAGTCCCATTAT
131 TCGATTTAGTACTATACTTTTCATTAATTAGTCCCATTAT
4100102 T
1 T
4100103 AATGAGGATT
Statistics
Matches: 163, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
169 124 0.76
170 39 0.24
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (170 bp):
TGTATGTATGCCAATGAATATTATGTAAGATGAAATGCAATTTTAAAGTTGGGCTTTTAAGTATA
ATAAGACCACCCCGACTCTCCAACATTTAGGCAGAATTTAAGTGCGACTGTTTATATTTAAGACC
TCGATTTAGTACTATACTTTTCATTAATTAGTCCCATTAT
Found at i:4100476 original size:89 final size:88
Alignment explanation
Indices: 4100340--4100573 Score: 231
Period size: 89 Copynumber: 2.6 Consensus size: 88
4100330 GGATTTTAGG
* * * *
4100340 GTTTGAGATTTTAGATTTTAGGGTTAAGGGTTTAAGGTTTCATTTTTAGGATTTTGATGTTTTAG
1 GTTTAAGATTTT-GATTTTAGGGTTAAGAGTTTAAGGTTTCAATTTTAGGATTTAGATGTTTTAG
*
4100405 GGATTTGATTTTAAGGTTTAGAGA
65 GGATTTGACTTTAAGGTTTAGAGA
* * *
4100429 GTTTAAGATTTTGTTTTTAGGGTTCAAAGAGTTT-AGAGTTT-AATTTTAGGGTTTAGGTGTTTT
1 GTTTAAGATTTTGATTTTAGGGTT--AAGAGTTTAAG-GTTTCAATTTTAGGATTTAGATGTTTT
* * * *
4100492 AGGGTTTTGACTTTAGGGTTTGGAGG
63 AGGGATTTGACTTTAAGGTTTAGAGA
* * * * *
4100518 GTTTAGGGTTTTGATTTTAGGGTTTGGAAG-GTTTAGGGTTCCAATTTTAGGGTTTA
1 GTTTAAGATTTTGATTTTAGGG-TT--AAGAGTTTAAGGTTTCAATTTTAGGATTTA
4100574 AGGTTTGAGA
Statistics
Matches: 120, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
88 11 0.09
89 78 0.65
90 31 0.26
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.47
Consensus pattern (88 bp):
GTTTAAGATTTTGATTTTAGGGTTAAGAGTTTAAGGTTTCAATTTTAGGATTTAGATGTTTTAGG
GATTTGACTTTAAGGTTTAGAGA
Found at i:4100508 original size:14 final size:14
Alignment explanation
Indices: 4100489--4100542 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
4100479 GTTTAGGTGT
4100489 TTTAGGGTTTTGAC
1 TTTAGGGTTTTGAC
* *
4100503 TTTAGGGTTTGGAGGG
1 TTTAGGGTTTTGA--C
*
4100519 TTTAGGGTTTTGAT
1 TTTAGGGTTTTGAC
4100533 TTTAGGGTTT
1 TTTAGGGTTT
4100543 GGAAGGTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
14 22 0.65
16 12 0.35
ACGTcount: A:0.13, C:0.02, G:0.35, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTTGAC
Found at i:4100524 original size:16 final size:15
Alignment explanation
Indices: 4100473--4100557 Score: 75
Period size: 16 Copynumber: 5.6 Consensus size: 15
4100463 AGAGTTTAAT
* *
4100473 TTTAGGGTTTAGGTGT
1 TTTAGGGTTT-GGAGG
* *
4100489 TTTAGGGTTTTGA-C
1 TTTAGGGTTTGGAGG
4100503 TTTAGGGTTTGGAGGG
1 TTTAGGGTTTGGA-GG
* *
4100519 TTTAGGGTTTTGA-T
1 TTTAGGGTTTGGAGG
4100533 TTTAGGGTTTGGAAGG
1 TTTAGGGTTTGG-AGG
4100549 TTTAGGGTT
1 TTTAGGGTT
4100558 CCAATTTTAG
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
14 23 0.41
15 2 0.04
16 31 0.55
ACGTcount: A:0.14, C:0.01, G:0.38, T:0.47
Consensus pattern (15 bp):
TTTAGGGTTTGGAGG
Found at i:4100611 original size:58 final size:57
Alignment explanation
Indices: 4100533--4100726 Score: 228
Period size: 58 Copynumber: 3.4 Consensus size: 57
4100523 GGGTTTTGAT
* * *
4100533 TTTAGGGTTTGGAAGG-TTTAGGGTTCCAATTTTAGGGTTTAAGGTTTGAGATTTCGA
1 TTTAAGGTTT-GAAGGTTTTAGGGTTCCGATTTTAAGGTTTAAGGTTTGAGATTTCGA
* *
4100590 TTTCAAGGTTTGAAGGTTTTAGGGTTTCGATTTTACGGTTTAAGGTTTGAGATTTCGAA
1 TTT-AAGGTTTGAAGGTTTTAGGGTTCCGATTTTAAGGTTTAAGGTTTGAGATTTCG-A
* * * * * *
4100649 TTTAGGGTTTGCAGGTTTTAGGATTCTGATTTTAAGGTTTAAGGTTGGTGATTTCGA
1 TTTAAGGTTTGAAGGTTTTAGGGTTCCGATTTTAAGGTTTAAGGTTTGAGATTTCGA
* *
4100706 TTTTAGGATTTGAAGATTTTA
1 TTTAAGG-TTTGAAGGTTTTA
4100727 TTATTTATTA
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
57 14 0.12
58 99 0.85
59 4 0.03
ACGTcount: A:0.22, C:0.05, G:0.28, T:0.45
Consensus pattern (57 bp):
TTTAAGGTTTGAAGGTTTTAGGGTTCCGATTTTAAGGTTTAAGGTTTGAGATTTCGA
Found at i:4100620 original size:30 final size:30
Alignment explanation
Indices: 4100353--4100726 Score: 203
Period size: 30 Copynumber: 12.8 Consensus size: 30
4100343 TGAGATTTTA
* *
4100353 GATTTTAGGG-TT-AAGGGTTTAAGGTTTC
1 GATTTTAGGGTTTGAAGGTTTTAGGGTTTC
* *
4100381 -ATTTTTAGGATTTTG-ATGTTTTAGGGATTT-
1 GA-TTTTAGG-GTTTGAAGGTTTTAGGG-TTTC
* * * *
4100411 GATTTTAAGGTTT-AGAGAG-TTTAAGATTTT
1 GATTTTAGGGTTTGA-AG-GTTTTAGGGTTTC
* ** *
4100441 GTTTTTAGGGTTCAAAGAG-TTTAGAGTTT-
1 GATTTTAGGGTTTGAAG-GTTTTAGGGTTTC
* * *
4100470 AATTTTAGGGTTT-AGGTGTTTTAGGGTTTT
1 GATTTTAGGGTTTGAAG-GTTTTAGGGTTTC
* * * *
4100500 GACTTTAGGGTTTGGAGGGTTTAGGGTTTT
1 GATTTTAGGGTTTGAAGGTTTTAGGGTTTC
*
4100530 GATTTTAGGGTTTGGAAGG-TTTAGGGTTCC
1 GATTTTAGGGTTT-GAAGGTTTTAGGGTTTC
* * *
4100560 AATTTTAGGGTTT-AAGGTTTGA-GATTTC
1 GATTTTAGGGTTTGAAGGTTTTAGGGTTTC
* *
4100588 GATTTCAAGGTTTGAAGGTTTTAGGGTTTC
1 GATTTTAGGGTTTGAAGGTTTTAGGGTTTC
* * *
4100618 GATTTTACGGTTT-AAGGTTTGA-GATTTC
1 GATTTTAGGGTTTGAAGGTTTTAGGGTTTC
* * *
4100646 GAATTTAGGGTTTGCAGGTTTTA-GGATTC
1 GATTTTAGGGTTTGAAGGTTTTAGGGTTTC
*
4100675 TGATTTTAAGGTTT-AAGG--TT-GGTGATTTC
1 -GATTTTAGGGTTTGAAGGTTTTAGG-G-TTTC
* *
4100704 GATTTTAGGATTTGAAGATTTTA
1 GATTTTAGGGTTTGAAGGTTTTA
4100727 TTATTTATTA
Statistics
Matches: 263, Mismatches: 56, Indels: 50
0.71 0.15 0.14
Matches are distributed among these distances:
27 4 0.02
28 56 0.21
29 64 0.24
30 126 0.48
31 13 0.05
ACGTcount: A:0.21, C:0.03, G:0.29, T:0.46
Consensus pattern (30 bp):
GATTTTAGGGTTTGAAGGTTTTAGGGTTTC
Found at i:4101959 original size:22 final size:21
Alignment explanation
Indices: 4101920--4101962 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
4101910 GTGGGAAAGC
*
4101920 TTTTGGGTTTTTGGGTTTGAG
1 TTTTGGGCTTTTGGGTTTGAG
*
4101941 TTTTGGTGCTTTTGTGTTTGAG
1 TTTTGG-GCTTTTGGGTTTGAG
4101963 AGTTTAAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.05, C:0.02, G:0.35, T:0.58
Consensus pattern (21 bp):
TTTTGGGCTTTTGGGTTTGAG
Found at i:4102089 original size:15 final size:15
Alignment explanation
Indices: 4102069--4102101 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4102059 GGTTCTGGGT
*
4102069 AGTTAGGGCTAGTAA
1 AGTTAGGGCCAGTAA
4102084 AGTTAGGGCCAGTAA
1 AGTTAGGGCCAGTAA
4102099 AGT
1 AGT
4102102 GCAAGGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.09, G:0.33, T:0.24
Consensus pattern (15 bp):
AGTTAGGGCCAGTAA
Found at i:4102587 original size:36 final size:35
Alignment explanation
Indices: 4102547--4102644 Score: 108
Period size: 36 Copynumber: 2.7 Consensus size: 35
4102537 ATGTGAGTCA
* * *
4102547 AAAAATAAGGATGACTGGGATT-GAGTCACAAGTTAG
1 AAAAATAA-AATGACTGGGATTAAACT-ACAAGTTAG
*
4102583 AAAAATAAAAGTGACTAGGATTAAACTACAAGTTAG
1 AAAAATAAAA-TGACTGGGATTAAACTACAAGTTAG
*
4102619 GAAAATAAAAATGACTGGGATTAAAC
1 AAAAAT-AAAATGACTGGGATTAAAC
4102645 CACTAGTCAA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
35 1 0.02
36 46 0.87
37 6 0.11
ACGTcount: A:0.49, C:0.08, G:0.21, T:0.21
Consensus pattern (35 bp):
AAAAATAAAATGACTGGGATTAAACTACAAGTTAG
Found at i:4102821 original size:36 final size:36
Alignment explanation
Indices: 4102559--4102821 Score: 101
Period size: 36 Copynumber: 7.4 Consensus size: 36
4102549 AAATAAGGAT
* * * *
4102559 GACTGGGATTGAGTCACAAGTTAGAAAAATAAAAGT
1 GACTGGGATTAAATCACAAGTTAAAAAAATAAAAGC
* ** **
4102595 GACTAGGATTAAA-CTACAAGTTAGGAAAATAAAAAT
1 GACTGGGATTAAATC-ACAAGTTAAAAAAATAAAAGC
* * * * * *
4102631 GACTGGGATTAAACCACTAG-T-CAAAGATTAACGAC
1 GACTGGGATTAAATCACAAGTTAAAAAAATAAAAG-C
* * * * *
4102666 GATTAGGGCTGAACT-ACAAGTCAAAAAAAT-AAAGC
1 GACT-GGGATTAAATCACAAGTTAAAAAAATAAAAGC
* * * *
4102701 GACTGGGATTAAATCGCAAGTCAAGAAAATAGAAA-T
1 GACTGGGATTAAATCACAAGTTAAAAAAATA-AAAGC
* * * * * *** * * *
4102737 AACTGAGATTGAACCACTAG-T-CGGAGATTAACGAC
1 GACTGGGATTAAATCACAAGTTAAAAAAATAAAAG-C
*
4102772 GACTGGGACTAAATCACAAGTTAAAAAAATAAAAGC
1 GACTGGGATTAAATCACAAGTTAAAAAAATAAAAGC
4102808 GACTGGGATTAAAT
1 GACTGGGATTAAAT
4102822 TGCAAGTCAG
Statistics
Matches: 157, Mismatches: 57, Indels: 26
0.65 0.24 0.11
Matches are distributed among these distances:
33 2 0.01
34 17 0.11
35 40 0.25
36 83 0.53
37 15 0.10
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (36 bp):
GACTGGGATTAAATCACAAGTTAAAAAAATAAAAGC
Found at i:4102839 original size:107 final size:107
Alignment explanation
Indices: 4102572--4103578 Score: 717
Period size: 107 Copynumber: 9.4 Consensus size: 107
4102562 TGGGATTGAG
* * * * ** * * *
4102572 TCACAAGTTAGAAAAATAAAAGTGACTAGGATTAAACTACAAGTTAGGAAAATAAAAATGACTGG
1 TCACAAGTCAAAAAAATAAAAGCGACTGGGATTAAACTGTAAGTCAGGAAAATAGAAATGACTGA
* * *
4102637 GATTAAACCACTAGTCAAAGATTAACGACGATTAGGGCTGAA
66 GATTAAACCACTAGTCAGAGATTAACGACGACTAGGACTGAA
* * *
4102679 -CTACAAGTCAAAAAAAT-AAAGCGACTGGGATTAAA-TCGCAAGTCAAGAAAATAGAAATAACT
1 TC-ACAAGTCAAAAAAATAAAAGCGACTGGGATTAAACT-GTAAGTCAGGAAAATAGAAATGACT
* * * *
4102741 GAGATTGAACCACTAGTCGGAGATTAACGACGACTGGGACTAAA
64 GAGATTAAACCACTAGTCAGAGATTAACGACGACTAGGACTGAA
* * * * *
4102785 TCACAAGTTAAAAAAATAAAAGCGACTGGGATTAAATTGCAAGTCAGGAAAATAGAAATAAC-CA
1 TCACAAGTCAAAAAAATAAAAGCGACTGGGATTAAACTGTAAGTCAGGAAAATAGAAATGACTGA
* * *
4102849 GGATTGAACCACTAGTCGGAGATTAAAGACGACTAGGACTGAA
66 -GATTAAACCACTAGTCAGAGATTAACGACGACTAGGACTGAA
* * * * *
4102892 TCGA-AAGTCAAAAAAATAAAAGCAACTGGGATTAAACTGTGAGTTAAGAAAATAGAAAGGA-TC
1 TC-ACAAGTCAAAAAAATAAAAGCGACTGGGATTAAACTGTAAGTCAGGAAAATAGAAATGACT-
* * * * *
4102955 AAAATTAAATCA-TGAGTCATAGATTAACGACGA-TCAGGATTGAA
64 GAGATTAAACCACT-AGTCAGAGATTAACGACGACT-AGGACTGAA
* * * * * *
4102999 CCACAAGTCAGAAAAATAAAAGCGACTGGGATTAAATTGTAAATCAGGAACATATAAATGACT-A
1 TCACAAGTCAAAAAAATAAAAGCGACTGGGATTAAACTGTAAGTCAGGAAAATAGAAATGACTGA
* * * *
4103063 GGATTAAACTA-TGAGTCAGAGATTAATGACAACTAGGATTGAA
66 -GATTAAACCACT-AGTCAGAGATTAACGACGACTAGGACTGAA
* ** * * * * * *
4103106 CCGTAAGTCAAAAAAATAAAAGTGACTGGGA-TAAACTATAAGTCAAGAAACTAGAAATAAC-CA
1 TCACAAGTCAAAAAAATAAAAGCGACTGGGATTAAACTGTAAGTCAGGAAAATAGAAATGACTGA
* * * * * *
4103169 GGATTAAACCACGAGTCAGAGATTAATGATGATTGGGATTGAA
66 -GATTAAACCACTAGTCAGAGATTAACGACGACTAGGACTGAA
** * * * *** * *
4103212 TCGTAAGTTAGAAAAATAAAAGTGACTGGGATTAAACAACAGGTCAGGAAACTATAGAAATGATT
1 TCACAAGTCAAAAAAATAAAAGCGACTGGGATTAAACTGTAAGTCAGGAAA--ATAGAAATGACT
* * * * *
4103277 GGGATTAAACCACGAGTCAAAGATTAACGACAACTAGCACT-AA
64 GAGATTAAACCACTAGTCAGAGATTAACGACGACTAGGACTGAA
* ** * * * ** *
4103320 ACTGTAAGTCTAAAAAATAAAAGTGACTAGGATTAAACCATAAGTCAAGAAACTATAGAAATGAA
1 TC-ACAAGTCAAAAAAATAAAAGCGACTGGGATTAAACTGTAAGTCAGGAAA--ATAGAAATG-A
* *
4103385 C-GAGATTAAACCA-TCAGTCAGAGAAT-ACGATGA-TCAGGACT-AA
62 CTGAGATTAAACCACT-AGTCAGAGATTAACGACGACT-AGGACTGAA
* * * * * *
4103428 -CAGAAGTCAAAAAAATAAAAGTGAACT-GGATTAAACCGTAAGTCAGGAAACTATAGATGACT-
1 TCACAAGTCAAAAAAATAAAAGCG-ACTGGGATTAAACTGTAAGTCAGGAAAATAGAAATGACTG
* * * * * * * *
4103490 AGGCTTGAATCGCGAGTTAGA-ATTAACGACTACTGGGACTGAA
65 A-GATTAAACCACTAGTCAGAGATTAACGACGACTAGGACTGAA
* * * **
4103533 CCGCAAGTCAAAAAAATAAAAGCGATTGGGATTAAACCATAAGTCA
1 TCACAAGTCAAAAAAATAAAAGCGACTGGGATTAAACTGTAAGTCA
4103579 AAACTAAAGA
Statistics
Matches: 731, Mismatches: 135, Indels: 69
0.78 0.14 0.07
Matches are distributed among these distances:
103 5 0.01
104 28 0.04
105 6 0.01
106 256 0.35
107 304 0.42
108 20 0.03
109 111 0.15
110 1 0.00
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.20
Consensus pattern (107 bp):
TCACAAGTCAAAAAAATAAAAGCGACTGGGATTAAACTGTAAGTCAGGAAAATAGAAATGACTGA
GATTAAACCACTAGTCAGAGATTAACGACGACTAGGACTGAA
Found at i:4104628 original size:1 final size:1
Alignment explanation
Indices: 4104622--4104693 Score: 63
Period size: 1 Copynumber: 72.0 Consensus size: 1
4104612 GAATCATCTC
* * * * * *** *
4104622 TTTTTTTTTCTTTTCTTTCTTTTTTTCTTTTTTTTTTTTTTGTTTTTTTTTTTGCATTTTTTTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4104687 TTTTTTT
1 TTTTTTT
4104694 AAGCAAAATA
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.01, C:0.08, G:0.03, T:0.88
Consensus pattern (1 bp):
T
Found at i:4104646 original size:17 final size:17
Alignment explanation
Indices: 4104624--4104693 Score: 86
Period size: 17 Copynumber: 3.9 Consensus size: 17
4104614 ATCATCTCTT
*
4104624 TTTTTTTCTTTTCTTTC
1 TTTTTTTCTTTTTTTTC
*
4104641 TTTTTTTCTTTTTTTTT
1 TTTTTTTCTTTTTTTTC
*
4104658 TTTTTGTTTTTTTTTTTGC
1 TTTTT-TTCTTTTTTTT-C
4104677 ATTTTTTTCTTTTTTTT
1 -TTTTTTTCTTTTTTTT
4104694 AAGCAAAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
17 20 0.44
18 10 0.22
19 10 0.22
20 5 0.11
ACGTcount: A:0.01, C:0.09, G:0.03, T:0.87
Consensus pattern (17 bp):
TTTTTTTCTTTTTTTTC
Found at i:4104648 original size:8 final size:8
Alignment explanation
Indices: 4104624--4104692 Score: 74
Period size: 7 Copynumber: 8.9 Consensus size: 8
4104614 ATCATCTCTT
4104624 TTTTTTTC
1 TTTTTTTC
4104632 TTTTCTTTC
1 TTTT-TTTC
4104641 TTTTTTTC
1 TTTTTTTC
4104649 -TTTTTT-
1 TTTTTTTC
4104655 TTTTTTT-
1 TTTTTTTC
*
4104662 TGTTTTT-
1 TTTTTTTC
*
4104669 TTTTTTGC
1 TTTTTTTC
4104677 ATTTTTTTC
1 -TTTTTTTC
4104686 TTTTTTT
1 TTTTTTT
4104693 TAAGCAAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
7 23 0.43
8 15 0.28
9 15 0.28
ACGTcount: A:0.01, C:0.09, G:0.03, T:0.87
Consensus pattern (8 bp):
TTTTTTTC
Found at i:4104656 original size:27 final size:27
Alignment explanation
Indices: 4104620--4104689 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
4104610 CTGAATCATC
4104620 TCTTTTTTTTTCTTTTCTTTCTTTTTT
1 TCTTTTTTTTTCTTTTCTTTCTTTTTT
* * *
4104647 TCTTTTTTTTTTTTTTGTTTTTTTTTT
1 TCTTTTTTTTTCTTTTCTTTCTTTTTT
*
4104674 TGC-ATTTTTTTCTTTT
1 T-CTTTTTTTTTCTTTT
4104690 TTTTAAGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.01, C:0.10, G:0.03, T:0.86
Consensus pattern (27 bp):
TCTTTTTTTTTCTTTTCTTTCTTTTTT
Found at i:4116251 original size:15 final size:15
Alignment explanation
Indices: 4116205--4116253 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
4116195 AATTTTAGAT
* *
4116205 TTTTAGGATTTTGGA
1 TTTTAGGGTTTCGGA
* *
4116220 TTTTAAGGTTTCAGA
1 TTTTAGGGTTTCGGA
*
4116235 TTTTAGGGTTTGGGA
1 TTTTAGGGTTTCGGA
4116250 TTTT
1 TTTT
4116254 GGATTTTAGA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.18, C:0.02, G:0.27, T:0.53
Consensus pattern (15 bp):
TTTTAGGGTTTCGGA
Found at i:4116343 original size:60 final size:57
Alignment explanation
Indices: 4116268--4116473 Score: 150
Period size: 60 Copynumber: 3.5 Consensus size: 57
4116258 TTTAGAGTTA
*
4116268 AGGGTTTAAGGTTTCATTTTTAGGGTTTGGATGTTTTAGGGATTTGATTTTAAGGTTTAG
1 AGGGTTTAAGATTTCATTTTTAGGGTTTGGA-G-TTTAGGG-TTTGATTTTAAGGTTTAG
* * *
4116328 AGGGTTTAAGATTTCATTTTCAGGGTTCAGAGAGTTTAGGGTTTAATTTTCAA-GTTT-G
1 AGGGTTTAAGATTTCATTTTTAGGGTT-TG-GAGTTTAGGGTTTGATTTT-AAGGTTTAG
* * * * * * *
4116386 AGTGTTTTAGAATTT-TTATTTTAAGGTTTAGAGGGTTTATGGTTTTGATTTTAGGGTTTAG
1 AGGGTTTAAG-ATTTCAT-TTTTAGGGTTT-G-GAGTTTA-GGGTTTGATTTTAAGGTTTAG
* * * *
4116447 -GGGTTTAAGGTTCCAATTTTGGGGTTT
1 AGGGTTTAAGATTTCATTTTTAGGGTTT
4116474 AAGGTTTGGG
Statistics
Matches: 114, Mismatches: 22, Indels: 21
0.73 0.14 0.13
Matches are distributed among these distances:
58 10 0.09
59 44 0.39
60 55 0.48
61 3 0.03
62 2 0.02
ACGTcount: A:0.21, C:0.03, G:0.28, T:0.48
Consensus pattern (57 bp):
AGGGTTTAAGATTTCATTTTTAGGGTTTGGAGTTTAGGGTTTGATTTTAAGGTTTAG
Found at i:4116458 original size:29 final size:30
Alignment explanation
Indices: 4116250--4116501 Score: 130
Period size: 30 Copynumber: 8.6 Consensus size: 30
4116240 GGGTTTGGGA
*
4116250 TTTTGGATTTTAGAG-TTA-AGGGTTTAAGG
1 TTTT-GATTTTAGGGTTTAGAGGGTTTAAGG
* * * * *
4116279 -TTTCATTTTTAGGGTTTGGATGTTTTAGGG
1 TTTTGA-TTTTAGGGTTTAGAGGGTTTAAGG
* *
4116309 ATTTGATTTTAAGGTTTAGAGGGTTTAA-G
1 TTTTGATTTTAGGGTTTAGAGGGTTTAAGG
* * * *
4116338 ATTTCATTTTCAGGGTTCAGAGAGTTT-AGG
1 TTTTGATTTT-AGGGTTTAGAGGGTTTAAGG
* * * * * *
4116368 GTTTAATTTTCA-AGTTT-GAGTGTTTTAGAA
1 TTTTGATTTT-AGGGTTTAGAGGGTTTAAG-G
* * *
4116398 TTTTTATTTTAAGGTTTAGAGGGTTTATGG
1 TTTTGATTTTAGGGTTTAGAGGGTTTAAGG
4116428 TTTTGATTTTAGGGTTTAG-GGGTTTAAGG
1 TTTTGATTTTAGGGTTTAGAGGGTTTAAGG
*** * *
4116457 TTCCAATTTTGGGGTTTA-A-GGTTT-GGG
1 TTTTGATTTTAGGGTTTAGAGGGTTTAAGG
*
4116484 ATTTCGATTTTAGGGTTT
1 -TTTTGATTTTAGGGTTT
4116502 TGAAAGTTTA
Statistics
Matches: 171, Mismatches: 40, Indels: 25
0.72 0.17 0.11
Matches are distributed among these distances:
27 3 0.02
28 36 0.21
29 42 0.25
30 78 0.46
31 12 0.07
ACGTcount: A:0.21, C:0.03, G:0.28, T:0.48
Consensus pattern (30 bp):
TTTTGATTTTAGGGTTTAGAGGGTTTAAGG
Found at i:4116465 original size:89 final size:88
Alignment explanation
Indices: 4116250--4116466 Score: 210
Period size: 89 Copynumber: 2.4 Consensus size: 88
4116240 GGGTTTGGGA
* * * * *
4116250 TTTTGGATTTTAGAG-TTAAGGGTTTAAGGTTTC-ATTTTTAGGGTTTGGATGTTTTAGGGATTT
1 TTTT-GATTTTAGGGTTTAGGGGTTTAAGG-TTCAATTTTCAGAGTTTGGATGTTTTAGGAATTT
4116313 GATTTTAAGGTTTAGAGGGTTTAAG
64 GATTTTAAGGTTTAGAGGGTTTAAG
* * * * * *
4116338 ATTTCATTTTCAGGGTTCAGAGAGTTTAGGGTTTAATTTTCA-AGTTT-GAGTGTTTTA-GAATT
1 TTTTGATTTT-AGGGTTTAG-GGGTTTAAGGTTCAATTTTCAGAGTTTGGA-TGTTTTAGGAA-T
* *
4116400 TTTATTTTAAGGTTTAGAGGGTTTATGG
62 TTGATTTTAAGGTTTAGAGGGTTTA-AG
4116428 TTTTGATTTTAGGGTTTAGGGGTTTAAGGTTCCAATTTT
1 TTTTGATTTTAGGGTTTAGGGGTTTAAGGTT-CAATTTT
4116467 GGGGTTTAAG
Statistics
Matches: 102, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
87 5 0.05
88 20 0.20
89 54 0.53
90 23 0.23
ACGTcount: A:0.22, C:0.03, G:0.27, T:0.48
Consensus pattern (88 bp):
TTTTGATTTTAGGGTTTAGGGGTTTAAGGTTCAATTTTCAGAGTTTGGATGTTTTAGGAATTTGA
TTTTAAGGTTTAGAGGGTTTAAG
Found at i:4116525 original size:58 final size:58
Alignment explanation
Indices: 4116432--4116567 Score: 186
Period size: 58 Copynumber: 2.4 Consensus size: 58
4116422 TTATGGTTTT
* * *
4116432 GATTTTAGGGTTTAG-GGGTTTAAGGTTCCAATTTTGGGGTTTAAGGTTTGGGATTTC
1 GATTTTAGGGTTTTGAAGGTTTAAGGTTCCAATTTTGGGGTTTAAGGTTTGAGATTTC
* * *
4116489 GATTTTAGGGTTTTGAAAGTTTACGGTTCCAATTTTGGGGTTTAAGTTTTGAGATTTC
1 GATTTTAGGGTTTTGAAGGTTTAAGGTTCCAATTTTGGGGTTTAAGGTTTGAGATTTC
* *
4116547 AATTTCAGGG-TTTGAAGGTTT
1 GATTTTAGGGTTTTGAAGGTTT
4116568 TAGGGTTTCG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 24 0.35
58 45 0.65
ACGTcount: A:0.20, C:0.06, G:0.29, T:0.45
Consensus pattern (58 bp):
GATTTTAGGGTTTTGAAGGTTTAAGGTTCCAATTTTGGGGTTTAAGGTTTGAGATTTC
Found at i:4116582 original size:58 final size:56
Alignment explanation
Indices: 4116435--4116627 Score: 183
Period size: 58 Copynumber: 3.4 Consensus size: 56
4116425 TGGTTTTGAT
* * * *
4116435 TTTAGGGTTT-AGGGGTTTAAGGTTCCAATTTTGGGGTTTAAGGTTTGGGATTTCGAT
1 TTTAGGGTTTGAAGGTTTTACGGTTCCAATTTTGGGGTTTAA-GTTTGGGATTTC-AA
* *
4116492 TTTAGGGTTTTGAAAG-TTTACGGTTCCAATTTTGGGGTTTAAGTTTTGAGATTTCAA
1 TTTAGGG-TTTGAAGGTTTTACGGTTCCAATTTTGGGGTTTAAG-TTTGGGATTTCAA
* * * *** *
4116549 TTTCAGGGTTTGAAGGTTTTAGGGTTTCGATTTTACAGTTTGAAGTTTGGGATTTTAAA
1 TTT-AGGGTTTGAAGGTTTTACGGTTCCAATTTTGGGGTTT-AAGTTTGGGA-TTTCAA
*
4116608 TTTAGGGTTTAAAGGTTTTA
1 TTTAGGGTTTGAAGGTTTTA
4116628 AGATTATGAT
Statistics
Matches: 114, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
57 19 0.17
58 82 0.72
59 13 0.11
ACGTcount: A:0.21, C:0.05, G:0.28, T:0.46
Consensus pattern (56 bp):
TTTAGGGTTTGAAGGTTTTACGGTTCCAATTTTGGGGTTTAAGTTTGGGATTTCAA
Found at i:4116694 original size:7 final size:7
Alignment explanation
Indices: 4116682--4116737 Score: 64
Period size: 7 Copynumber: 8.4 Consensus size: 7
4116672 GTTTGAAGAT
4116682 TTTATTA
1 TTTATTA
4116689 TTTATTA
1 TTTATTA
*
4116696 TTTGTTA
1 TTTATTA
4116703 -TTATTA
1 TTTATTA
4116709 TTTATTA
1 TTTATTA
*
4116716 TTTAATA
1 TTTATTA
*
4116723 TCT-TTA
1 TTTATTA
4116729 TTT-TTA
1 TTTATTA
4116735 TTT
1 TTT
4116738 TTCAAAAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
6 15 0.36
7 27 0.64
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (7 bp):
TTTATTA
Found at i:4116708 original size:13 final size:13
Alignment explanation
Indices: 4116682--4116717 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
4116672 GTTTGAAGAT
4116682 TTTATTATTTATTA
1 TTTATTA-TTATTA
*
4116696 TTTGTTATTATTA
1 TTTATTATTATTA
4116709 TTTATTATT
1 TTTATTATT
4116718 TAATATCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTATTATTATTA
Found at i:4116729 original size:20 final size:20
Alignment explanation
Indices: 4116683--4116737 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
4116673 TTTGAAGATT
**
4116683 TTATTATTTATTATTTGTTA
1 TTATTATTTATTATTTAATA
4116703 TTATTATTTATTATTTAATA
1 TTATTATTTATTATTTAATA
4116723 TCT-TTATTT-TTATTT
1 T-TATTATTTATTATTT
4116738 TTCAAAAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 6 0.19
20 25 0.78
21 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (20 bp):
TTATTATTTATTATTTAATA
Found at i:4119962 original size:22 final size:22
Alignment explanation
Indices: 4119915--4120013 Score: 73
Period size: 22 Copynumber: 4.6 Consensus size: 22
4119905 GAATCCACAT
***
4119915 AAAGAAAAAGAAAAAG-AAGGTG
1 AAAGAAAAA-AAAAAGTAAGAAA
4119937 AAAGAAAAAAAAAAGTAAGAAA
1 AAAGAAAAAAAAAAGTAAGAAA
*
4119959 AAAGAAAAAAATAAA-T--GAAT
1 AAAGAAAAAAA-AAAGTAAGAAA
* * *
4119979 GAAGAAAAAAAAAAGAAAGGAA
1 AAAGAAAAAAAAAAGTAAGAAA
*
4120001 AAA-AATAAAAAAA
1 AAAGAAAAAAAAAA
4120014 TAAAAGAAGA
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
19 3 0.05
20 13 0.21
21 15 0.24
22 28 0.45
23 3 0.05
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (22 bp):
AAAGAAAAAAAAAAGTAAGAAA
Found at i:4120033 original size:44 final size:43
Alignment explanation
Indices: 4119915--4120051 Score: 136
Period size: 44 Copynumber: 3.1 Consensus size: 43
4119905 GAATCCACAT
* *
4119915 AAAGAAAAAGA-AAAAGAAGGTGAAAGAAAAAAAAAAGTAAG-AAA
1 AAAGAAAAAAATAAAAGAA--TG-AAGAAAAAAAAAAGAAAGAAAA
*
4119959 AAAGAAAAAAATAAATGAATGAAGAAAAAAAAAAGAAAGGAAAA
1 AAAGAAAAAAATAAAAGAATGAAGAAAAAAAAAAGAAA-GAAAA
* *
4120003 AAATAAAAAAATAAAAGAA-GAAGAGGAAAAAGAAAAAACAAGAAAA
1 AAAGAAAAAAATAAAAGAATGAAGA--AAAAA-AAAAGA-AAGAAAA
4120049 AAA
1 AAA
4120052 ATAGAAGAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
42 16 0.20
43 8 0.10
44 30 0.38
45 11 0.14
46 13 0.16
47 2 0.03
ACGTcount: A:0.77, C:0.01, G:0.17, T:0.05
Consensus pattern (43 bp):
AAAGAAAAAAATAAAAGAATGAAGAAAAAAAAAAGAAAGAAAA
Found at i:4122245 original size:35 final size:34
Alignment explanation
Indices: 4122188--4122260 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 34
4122178 CAAGTTTGAA
* *
4122188 TTTTATCAAAATTTTGTCGGTGGTAAAATCTAACC
1 TTTTATCAAAACTCTGTCGGTGGTAAAATCTAA-C
* *
4122223 TTTTATCAAAACTCTGTTGGTGGTGAAATCTAAC
1 TTTTATCAAAACTCTGTCGGTGGTAAAATCTAAC
4122257 TTTT
1 TTTT
4122261 CTTAAAATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
34 5 0.15
35 29 0.85
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (34 bp):
TTTTATCAAAACTCTGTCGGTGGTAAAATCTAAC
Found at i:4122475 original size:33 final size:34
Alignment explanation
Indices: 4122405--4122479 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 34
4122395 TCTTTGGTGA
*
4122405 TGATATCCAAAGTTGTTTGATTTCTCTTCAGTAG
1 TGATATCCAAAGTTGCTTGATTTCTCTTCAGTAG
* *
4122439 TGATATCCAAAGTTGCTTG-TTTCTAC-TCTGTGG
1 TGATATCCAAAGTTGCTTGATTTCT-CTTCAGTAG
4122472 TGATATCC
1 TGATATCC
4122480 CAGTCTTCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 18 0.49
34 19 0.51
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (34 bp):
TGATATCCAAAGTTGCTTGATTTCTCTTCAGTAG
Found at i:4122612 original size:33 final size:33
Alignment explanation
Indices: 4122575--4122661 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 33
4122565 CTTTTAGTTT
*
4122575 ACTCAATGGTGATATCCGAAGTTATTTGTC-TTC
1 ACTCAATGGTGATATCCGAAGTCATTTG-CATTC
* *
4122608 ACTCAATGGTAATATCCGAAGTCATTTGCATTT
1 ACTCAATGGTGATATCCGAAGTCATTTGCATTC
* *
4122641 ACTCTATGGTGATGTCC-AAGT
1 ACTCAATGGTGATATCCGAAGT
4122662 ATTCAAGTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
32 5 0.11
33 42 0.89
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (33 bp):
ACTCAATGGTGATATCCGAAGTCATTTGCATTC
Found at i:4124243 original size:24 final size:22
Alignment explanation
Indices: 4124208--4124259 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
4124198 TAACATGGAA
* *
4124208 AAAAAAAGGAAAAATAAGAAGGG
1 AAAAAAAGGAAAAAAAAGAA-AG
*
4124231 AAAAAATGAGAAAAAAAAGAAAG
1 AAAAAAAG-GAAAAAAAAGAAAG
4124254 AAAAAA
1 AAAAAA
4124260 CTTTACTGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (22 bp):
AAAAAAAGGAAAAAAAAGAAAG
Found at i:4125631 original size:14 final size:14
Alignment explanation
Indices: 4125594--4125624 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4125584 CCTAAATCCC
4125594 AAACCTTAAATTAT
1 AAACCTTAAATTAT
*
4125608 AAACCTTAAATTCT
1 AAACCTTAAATTAT
4125622 AAA
1 AAA
4125625 ACCTAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (14 bp):
AAACCTTAAATTAT
Found at i:4125671 original size:13 final size:13
Alignment explanation
Indices: 4125620--4125719 Score: 55
Period size: 13 Copynumber: 7.8 Consensus size: 13
4125610 ACCTTAAATT
4125620 CTAAAACCTAAACC
1 CTAAAACC-AAACC
* ** *
4125634 CTAACATTAAACA
1 CTAAAACCAAACC
4125647 CT-AAACCAAAACC
1 CTAAAACC-AAACC
4125660 CTAAAACCAAACC
1 CTAAAACCAAACC
** *
4125673 CTAACTCTAAA-C
1 CTAAAACCAAACC
*
4125685 CT-AAACCTAA-C
1 CTAAAACCAAACC
**
4125696 CTAGACCCCAAACC
1 CTA-AAACCAAACC
4125710 CTAAAACCAA
1 CTAAAACCAA
4125720 CCTTTAAACC
Statistics
Matches: 61, Mismatches: 20, Indels: 11
0.66 0.22 0.12
Matches are distributed among these distances:
11 7 0.11
12 5 0.08
13 35 0.57
14 14 0.23
ACGTcount: A:0.49, C:0.36, G:0.01, T:0.14
Consensus pattern (13 bp):
CTAAAACCAAACC
Found at i:4125682 original size:19 final size:19
Alignment explanation
Indices: 4125619--4125713 Score: 63
Period size: 19 Copynumber: 4.9 Consensus size: 19
4125609 AACCTTAAAT
4125619 TCTAAAACCTAAACCCTAAC
1 TCTAAAACC-AAACCCTAAC
* **
4125639 AT-TAAACACTAAACCAAAAC
1 -TCTAAA-ACCAAACCCTAAC
*
4125659 CCTAAAACCAAACCCTAAC
1 TCTAAAACCAAACCCTAAC
4125678 TCT-AAACCTAAA-CCTAAC
1 TCTAAAACC-AAACCCTAAC
**
4125696 -CTAGACCCCAAACCCTAA
1 TCTA-AAACCAAACCCTAA
4125714 AACCAACCTT
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
17 2 0.03
18 14 0.24
19 23 0.40
20 16 0.28
21 3 0.05
ACGTcount: A:0.47, C:0.36, G:0.01, T:0.16
Consensus pattern (19 bp):
TCTAAAACCAAACCCTAAC
Found at i:4125801 original size:23 final size:23
Alignment explanation
Indices: 4125739--4125801 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
4125729 CCTAAACTAT
*
4125739 TCATGCATTTGCATTTTATCTTA
1 TCATGCATTTGCATTTTATATTA
**
4125762 TCAT-CACATGCATTTTTATATTA
1 TCATGCATTTGCA-TTTTATATTA
*
4125785 TCATGCATTTGTATTTT
1 TCATGCATTTGCATTTT
4125802 GTCATTCATA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
22 6 0.19
23 21 0.66
24 5 0.16
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (23 bp):
TCATGCATTTGCATTTTATATTA
Found at i:4126948 original size:34 final size:33
Alignment explanation
Indices: 4126887--4126968 Score: 87
Period size: 34 Copynumber: 2.5 Consensus size: 33
4126877 TTTAATGGCA
*
4126887 TTTGTAT-AAAAAATATCGTTAATTTAGT-GACG
1 TTTGTATCAAAAAATACCGTTAATTTAGTAG-CG
* * *
4126919 TTTGTATCATAAAATACCGCTTTATTTAGTAGTG
1 TTTGTATCAAAAAATACCG-TTAATTTAGTAGCG
4126953 TTTGTATCAGAAAAAT
1 TTTGTATCA-AAAAAT
4126969 GTTGTTAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 7 0.17
33 9 0.22
34 19 0.46
35 6 0.15
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (33 bp):
TTTGTATCAAAAAATACCGTTAATTTAGTAGCG
Found at i:4127112 original size:17 final size:17
Alignment explanation
Indices: 4127085--4127117 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4127075 TGCCATGAAA
4127085 TTAAGAAATTTACTTTTT
1 TTAAGAAATTT-CTTTTT
4127103 TTAA-AAATTTCTTTT
1 TTAAGAAATTTCTTTT
4127118 AATATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (17 bp):
TTAAGAAATTTCTTTTT
Found at i:4128490 original size:160 final size:161
Alignment explanation
Indices: 4128316--4128759 Score: 542
Period size: 160 Copynumber: 2.8 Consensus size: 161
4128306 CATTTTGACC
* * * * * ** *
4128316 TTTCACACATATCAATCATGGAAATCAAATTCAATCATTTAGACAAGTTTAATGCCATGTATTAA
1 TTTCACATATATCAATCATGAAAACCAAGTTCAATCATTTAGAAAAGTTTAATATCATGTATTGA
* * **
4128381 AGCTATCCAAACTGTTAAACTAGAACAATAACAACAGCTTTGTATTTTTGCCTTTTAACA-AT-A
66 AGCTATCCAAATTGTTAAAATAGAACAATAACAACAAATTTGTATTTTTGCCTTTTAACAGATCA
4128444 AAAAAGTCCTAAACAGAGGTAAACAACAACTG
131 AAAAA-TCCTAAACAGAGGTAAACAACAACTG
*
4128476 TTTCACATATATCAA-CTATGAAAACCAAGTTCAATCA-TTCGAAAAAGTTTAATATCATGTATT
1 TTTCACATATATCAATC-ATGAAAACCAAGTTCAATCATTTAG-AAAAGTTTAATATCATGTATT
* * * * *
4128539 GAAGCTATCCAAATTGTTAAAATAGAACAATAATATCAATTTTGTATTTTTTCCTTTTAACAGCT
64 GAAGCTATCCAAATTGTTAAAATAGAACAATAACAACAAATTTGTATTTTTGCCTTTTAACAGAT
* * * * *
4128604 CAAAAAATCCTAAACAGAGGTACATAGCATCTT
129 CAAAAAATCCTAAACAGAGGTAAACAACAACTG
* *
4128637 TTTCACATATATCAATGCA--AAAACCAAGTTCAATC-TTTCAAAAAAATTTAATATCATGTATT
1 TTTCACATATATCAAT-CATGAAAACCAAGTTCAATCATTT-AGAAAAGTTTAATATCATGTATT
* * *
4128699 GAAGCCATCCAAATTGTTAAAATAGAATAATAACAATAAATTTGTATTTTTGCCTTTTAAC
64 GAAGCTATCCAAATTGTTAAAATAGAACAATAACAACAAATTTGTATTTTTGCCTTTTAAC
4128760 GGTAGAAATA
Statistics
Matches: 244, Mismatches: 32, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
159 4 0.02
160 195 0.80
161 37 0.15
162 7 0.03
163 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.33
Consensus pattern (161 bp):
TTTCACATATATCAATCATGAAAACCAAGTTCAATCATTTAGAAAAGTTTAATATCATGTATTGA
AGCTATCCAAATTGTTAAAATAGAACAATAACAACAAATTTGTATTTTTGCCTTTTAACAGATCA
AAAAATCCTAAACAGAGGTAAACAACAACTG
Found at i:4129957 original size:13 final size:13
Alignment explanation
Indices: 4129931--4129970 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
4129921 AAAGTGAATC
* *
4129931 TATAAAAAAAATA
1 TATAAAGAACATA
*
4129944 TGTAAAGAACATA
1 TATAAAGAACATA
4129957 TATAAAGAACATA
1 TATAAAGAACATA
4129970 T
1 T
4129971 CGATTTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.25
Consensus pattern (13 bp):
TATAAAGAACATA
Found at i:4134803 original size:63 final size:63
Alignment explanation
Indices: 4134718--4135022 Score: 165
Period size: 63 Copynumber: 4.7 Consensus size: 63
4134708 GACAAATATG
** **
4134718 CCTTCAATAATCCCCTCCAATTTTTTAAAAGAAATTATTGAAGGTGTTTTTTTGTAGAAAATA
1 CCTTCAATAATCCCCTTAAATTTTTTAAAAGAAATTATTGAAGGTGTTTTTTAATAGAAAATA
** *
4134781 CCTTCAATAATCCCCTTAAATTTTGATGT-TCAG--ATTATTGAAGGTGTTTTTGATAAAAAAAA
1 CCTTCAATAATCCCCTTAAATTTT--T-TAAAAGAAATTATTGAAGGTGTTTTT--T----AATA
* *
4134843 AAAAACA
57 GAAAATA
* * * * * *
4134850 CCTTCAATAATCTCCTTCAATTTTTT-AAAGAAAATTATTAAAGGCATTTTTTTTTTACAGAAAA
1 CCTTCAATAATCCCCTTAAATTTTTTAAAAG-AAATTATTGAAGG---TGTTTTTTAATAGAAAA
*
4134914 TG
62 TA
* * * * * * ** * * *
4134916 CCTTCAATTATCCTCTTAAA-TTTTGACAATGAGATTATTAAAGGCATTTTTGACTA-AAAATG
1 CCTTCAATAATCCCCTTAAATTTTTTA-AAAGAAATTATTGAAGGTGTTTTTTAATAGAAAATA
* *
4134978 CCTTCAATAATCCCCTCTAAA-TTTTGAAAGGAAATTATTGAAGGT
1 CCTTCAATAATCCCCT-TAAATTTTTTAAAAGAAATTATTGAAGGT
4135023 ATACAAAAAA
Statistics
Matches: 185, Mismatches: 39, Indels: 37
0.71 0.15 0.14
Matches are distributed among these distances:
62 34 0.18
63 56 0.30
65 8 0.04
66 38 0.21
67 4 0.02
69 38 0.21
70 1 0.01
72 6 0.03
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (63 bp):
CCTTCAATAATCCCCTTAAATTTTTTAAAAGAAATTATTGAAGGTGTTTTTTAATAGAAAATA
Found at i:4134966 original size:135 final size:133
Alignment explanation
Indices: 4134718--4134975 Score: 324
Period size: 135 Copynumber: 1.9 Consensus size: 133
4134708 GACAAATATG
*
4134718 CCTTCAATAATCCCCTCCAATTTTTTAAAAGAAATTATTGAAGGTGTTTTTTTGTAGAAAATACC
1 CCTTCAATAATCCCCTCCAATTTTTTAAAAGAAATTATTAAAGGTGTTTTTTTGTAGAAAATACC
*** * **
4134783 TTCAATAATCCCCTTAAATTTTGATGTTCAGATTATTGAAGGTGTTTTTGA-TAAAAAAAAAAAA
66 TTCAATAATCCCCTTAAATTTTGACAATCAGATTATTAAAGGCATTTTTGACTAAAAAAAAAAAA
4134847 ACA
131 ACA
* * *
4134850 CCTTCAATAATCTCCTTCAATTTTTT-AAAGAAAATTATTAAAGGCAT-TTTTTTTTTACAGAAA
1 CCTTCAATAATCCCCTCCAATTTTTTAAAAG-AAATTATTAAAGG--TGTTTTTTTGT--AGAAA
* * * *
4134913 ATGCCTTCAATTATCCTCTTAAATTTTGACAATGAGATTATTAAAGGCATTTTTGACTAAAAA
61 ATACCTTCAATAATCCCCTTAAATTTTGACAATCAGATTATTAAAGGCATTTTTGACTAAAAA
4134976 TGCCTTCAAT
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
131 4 0.04
132 36 0.34
133 8 0.08
134 1 0.01
135 51 0.48
136 6 0.06
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (133 bp):
CCTTCAATAATCCCCTCCAATTTTTTAAAAGAAATTATTAAAGGTGTTTTTTTGTAGAAAATACC
TTCAATAATCCCCTTAAATTTTGACAATCAGATTATTAAAGGCATTTTTGACTAAAAAAAAAAAA
ACA
Found at i:4135015 original size:62 final size:62
Alignment explanation
Indices: 4134850--4135021 Score: 177
Period size: 62 Copynumber: 2.7 Consensus size: 62
4134840 AAAAAAAACA
* * * * *
4134850 CCTTCAATAATCTCCTTCAATTTTTTAAAGAAAATTATTAAAGGCATTTTTTTTTTACAGAAAAT
1 CCTTCAATAATCCCCTT-AAATTTTGAAAGGAAATTATTAAAGGCA---TTTTTTGACAGAAAAT
4134915 G
62 G
* * * *
4134916 CCTTCAATTATCCTCTTAAATTTTGACAATGAGATTATTAAAGGCA-TTTTTGACTA-AAAATG
1 CCTTCAATAATCCCCTTAAATTTTGA-AAGGAAATTATTAAAGGCATTTTTTGAC-AGAAAATG
*
4134978 CCTTCAATAATCCCCTCTAAATTTTGAAAGGAAATTATTGAAGG
1 CCTTCAATAATCCCCT-TAAATTTTGAAAGGAAATTATTAAAGG
4135022 TATACAAAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
62 41 0.46
63 11 0.12
65 7 0.08
66 30 0.34
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (62 bp):
CCTTCAATAATCCCCTTAAATTTTGAAAGGAAATTATTAAAGGCATTTTTTGACAGAAAATG
Found at i:4139887 original size:64 final size:62
Alignment explanation
Indices: 4139489--4139907 Score: 219
Period size: 62 Copynumber: 6.7 Consensus size: 62
4139479 AATTTTGACA
* ** ** * * *
4139489 AGGAGATTATTGAAGGTGTTTT-TGACTAAAAATGCTTTCAATAGTCCCCTTCAATTTTT-TAA
1 AGGAGATTATTCAAGGCATTTTCT-ACTAAAAACACCTTCAATAATCCCCTTCAATTTTTAT-G
* * * ** * * *
4139551 AGGA-ATTATTAAAGGCGTTTTTTTGTAAAAAATACCTTTAATAATCACC-TCAATTTTTATG
1 AGGAGATTATTCAAGGCATTTTCTACT-AAAAACACCTTCAATAATCCCCTTCAATTTTTATG
* ** * * * * * * * ** *
4139612 AAGTTATTATTCAAGGCGCTGTT-TACCAAAATCGCATTGAATAATCTTCTATCCATTTTTATG
1 AGGAGATTATTCAAGGC-ATTTTCTACTAAAAACACCTTCAATAATCCCCT-TCAATTTTTATG
* * * * * * * * *
4139675 AGGGGATTATTCAAGG-AGTTTATGGCAAAAAATACCTTCAATGATCCCCTTAAATTTTGATG
1 AGGAGATTATTCAAGGCATTTTCT-ACTAAAAACACCTTCAATAATCCCCTTCAATTTTTATG
* * * ** * * *
4139737 ATGAGATTATTAAAGGTATTTT-TTGTAGAAAACACCATCAATAATTGCCC-TCATTTTTTATG
1 AGGAGATTATTCAAGGCATTTTCTACTA-AAAACACCTTCAATAA-TCCCCTTCAATTTTTATG
* * *
4139799 A-GAGGA-TATTCAAGGCGTTATCTACTAAAAACACCTTTAATAATCCCCTATTCAATTTTTATG
1 AGGA-GATTATTCAAGGCATTTTCTACTAAAAACACCTTCAATAATCCCC--TTCAATTTTTATG
*
4139862 AGGAGATTATTCAAGGCATTTTCTACCAAAAACACCTTCAATAATC
1 AGGAGATTATTCAAGGCATTTTCTACTAAAAACACCTTCAATAATC
4139908 ACTCTAAATT
Statistics
Matches: 265, Mismatches: 73, Indels: 36
0.71 0.20 0.10
Matches are distributed among these distances:
60 4 0.02
61 72 0.27
62 87 0.33
63 65 0.25
64 37 0.14
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.37
Consensus pattern (62 bp):
AGGAGATTATTCAAGGCATTTTCTACTAAAAACACCTTCAATAATCCCCTTCAATTTTTATG
Found at i:4141743 original size:58 final size:60
Alignment explanation
Indices: 4141629--4141760 Score: 148
Period size: 58 Copynumber: 2.2 Consensus size: 60
4141619 CATGCCTTTA
* * **
4141629 TTCAGGGAAAATTGATACTTTCAACTTTCCTTCAAAAAATATCTTTTGCATTTTTTAT-T
1 TTCAAGGAAAATTGATACTTTCAACTTTCCTTCAAAAAATATCTTTTGAAAATTTTATCT
* *
4141688 TTCAAGGAAAATTGATGCTATT-AATTTTTCC-TC-AAAAATATCTTTTGAAAATTTTATCT
1 TTCAAGGAAAATTGATACT-TTCAA-CTTTCCTTCAAAAAATATCTTTTGAAAATTTTATCT
*
4141747 TT-AAGGATAATTGA
1 TTCAAGGAAAATTGA
4141761 AACATTTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
58 32 0.51
59 24 0.38
60 7 0.11
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (60 bp):
TTCAAGGAAAATTGATACTTTCAACTTTCCTTCAAAAAATATCTTTTGAAAATTTTATCT
Found at i:4142026 original size:56 final size:55
Alignment explanation
Indices: 4141767--4142140 Score: 399
Period size: 56 Copynumber: 6.6 Consensus size: 55
4141757 TTGAAACATT
* * * * *
4141767 TTTTTGAAATTTTCATTTTTGAAGGTAAATTGATACTTTCAACTTTTCATCACAGAGCA
1 TTTTTGAAATTTT-A-TTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTA-A-AACA
* * * *
4141826 TTTTTTAAAGTTTTCATTTTTAAGGAAAATTGATACTTTGAACTTTTCCTTAAAGCA
1 TTTTTGAAA-TTTT-ATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAACA
* ** * * *
4141883 TTTTTTAAAATTTTTATTTTCAATAAAAATTGATTCTTTCAACTTTTCCTGAAAGCA
1 -TTTTTGAAA-TTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAACA
* * * * * *
4141940 TTTTTTAATTTTTATTTTTAAAGAAAATTGATACTTTTAACTTTTCCTCAAAAAACA
1 TTTTTGAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCT--TAAAACA
*
4141997 TTTTTGAAATTTTATCTT-AAGGAAAATTGATACTTTCAACTTTTCCTTAAAACA
1 TTTTTGAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAACA
*
4142051 TTTTTGAAATTTTCATTTTCAAGGAAAATTAATACTTTCAACTTTTCCTTAAAACA
1 TTTTTGAAATTTT-ATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAACA
* * *
4142107 TTCTTGAAATTTACATTTTCAAGAAAAATTGATA
1 TTTTTGAAATTT-TATTTTCAAGGAAAATTGATA
4142141 TTTTTCAATT
Statistics
Matches: 273, Mismatches: 35, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
54 19 0.07
55 38 0.14
56 98 0.36
57 60 0.22
58 13 0.05
59 39 0.14
60 6 0.02
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.46
Consensus pattern (55 bp):
TTTTTGAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAACA
Found at i:4142382 original size:9 final size:9
Alignment explanation
Indices: 4142368--4142392 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4142358 AAACAAATAA
4142368 ATAAATAGC
1 ATAAATAGC
4142377 ATAAATAGC
1 ATAAATAGC
4142386 ATAAATA
1 ATAAATA
4142393 AACAAAAAAA
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:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (9 bp):
ATAAATAGC
Found at i:4143450 original size:85 final size:84
Alignment explanation
Indices: 4143354--4143998 Score: 543
Period size: 85 Copynumber: 7.7 Consensus size: 84
4143344 ACTATAAGTT
* * * * * *
4143354 AAAATCCAAAACAAAATGACCAGAATGAAACCAAAGTCTAAGATAAATAACTTGGATTGAACTGA
1 AAAATCTAAAACAAAATGACCTGAATGGAACCAAAGTCTAAAATAAGTAACTTGGACTGAACT-A
*
4143419 AAAAAGATCTAGCATAGGCC
65 AAAAAGATCTAGCATAAGCC
* * * * *
4143439 AAAATCTAAAACAAAATGACCTGAAAGGAACCGAAGTCTAAAATAAGTAACTTAGATTGAACCAA
1 AAAATCTAAAACAAAATGACCTGAATGGAACCAAAGTCTAAAATAAGTAACTTGGACTGAA-CTA
* * *
4143504 AAAAAGATTTGGCATAAGTC
65 AAAAAGATCTAGCATAAGCC
* * * ** * * * ** *
4143524 AAAATTTGAAACAAAATGACCTGGATGGAACTGAAGTCTAAAATAGGCAACTTAGTTTGCATCTA
1 AAAATCTAAAACAAAATGACCTGAATGGAACCAAAGTCTAAAATAAGTAACTTGGACTG-AACTA
* * *
4143589 AAAAGGATCTGGCATAAGCT
65 AAAAAGATCTAGCATAAGCC
* * * * * * * * *
4143609 GAAATTTCAAACATAATGA-CTTAGATGGTATCAAAGTCTAAAATAAGTAACTTGGACTGAGCCA
1 AAAATCTAAAACAAAATGACCTGA-ATGGAACCAAAGTCTAAAATAAGTAACTTGGACTGAACTA
* * *
4143673 AAGAAAGATTTTGCATAAACC
65 AA-AAAGATCTAGCATAAGCC
* * * * * * *
4143694 AAAATCTGAAACAAAATGACTTGGATGGAACCAAATTTTGAAATAAGTAACTTGGACTGAACCAA
1 AAAATCTAAAACAAAATGACCTGAATGGAACCAAAGTCTAAAATAAGTAACTTGGACTGAACTAA
* * *
4143759 AGAAAGATTTGGCATAAGCT
66 A-AAAGATCTAGCATAAGCC
* * * *
4143779 GAAATTTGAAACAAAATGACCTGAATGGAACTAACA-TCTAAAATAAGTAACTTGGACTGAACTA
1 AAAATCTAAAACAAAATGACCTGAATGGAACCAA-AGTCTAAAATAAGTAACTTGGACTGAACTA
* *
4143843 AAAAAGATCTAGCATAGGTC
65 AAAAAGATCTAGCATAAGCC
* * *** *
4143863 AAAATCCAAAACAAAATGACCTGGATGGAATTGAAGTCTGAAATAAGTAACTT-G---G-ACTAA
1 AAAATCTAAAACAAAATGACCTGAATGGAACCAAAGTCTAAAATAAGTAACTTGGACTGAACTAA
* * *
4143923 GAAGGATCTAGCATAGGCC
66 AAAAGATCTAGCATAAGCC
* *
4143942 AAAATCTAAAACAAAGTGACCT-AGATGGAA-CAAAGTTTAAAATAAGTAACTTGGACT
1 AAAATCTAAAACAAAATGACCTGA-ATGGAACCAAAGTCTAAAATAAGTAACTTGGACT
4143999 AAGCCAAAGT
Statistics
Matches: 453, Mismatches: 95, Indels: 27
0.79 0.17 0.05
Matches are distributed among these distances:
78 18 0.04
79 48 0.11
80 1 0.00
83 2 0.00
84 63 0.14
85 317 0.70
86 4 0.01
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (84 bp):
AAAATCTAAAACAAAATGACCTGAATGGAACCAAAGTCTAAAATAAGTAACTTGGACTGAACTAA
AAAAGATCTAGCATAAGCC
Found at i:4144857 original size:45 final size:47
Alignment explanation
Indices: 4144768--4144902 Score: 141
Period size: 45 Copynumber: 2.9 Consensus size: 47
4144758 ATCCTTTGCT
* *
4144768 GACTCAAACTGCCTTTTATAGGTTTTTAATTTGAA-CCTTTTTTTT-A
1 GACTCAAACTGCCTTTTATGGGTTTTTAATTT-AAGCTTTTTTTTTCA
* * * *
4144814 -ACTTAAATTGCCTTTTTTGGGTTTTCAATTTAAGCTTTTTTTTTCA
1 GACTCAAACTGCCTTTTATGGGTTTTTAATTTAAGCTTTTTTTTTCA
* * * * *
4144860 GACTCAAACTACCCTTTGTGGGTTTTTAACTTGAGCTTTTTTT
1 GACTCAAACTGCCTTTTATGGGTTTTTAATTTAAGCTTTTTTT
4144903 CTTTTTTTTT
Statistics
Matches: 72, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
44 2 0.03
45 35 0.49
46 1 0.01
47 34 0.47
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.51
Consensus pattern (47 bp):
GACTCAAACTGCCTTTTATGGGTTTTTAATTTAAGCTTTTTTTTTCA
Found at i:4144960 original size:54 final size:55
Alignment explanation
Indices: 4144848--4144960 Score: 129
Period size: 55 Copynumber: 2.1 Consensus size: 55
4144838 TCAATTTAAG
* * * * * **
4144848 CTTTTTTTTTCAGACTCAAACTACCCTTTGTGGGTTTTTAACTTGAGCTTTTTTT
1 CTTTTTTTTTCAGACTCAAACCACCATTTATGGATTTTCAACTTGAGCTCATTTT
* * *
4144903 CTTTTTTTTTTAGACTTAAACCACCATTTATGGATTTTCAATTTGAGC-CATTTT
1 CTTTTTTTTTCAGACTCAAACCACCATTTATGGATTTTCAACTTGAGCTCATTTT
4144957 CTTT
1 CTTT
4144961 AAGAGAAATA
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
54 8 0.17
55 40 0.83
ACGTcount: A:0.19, C:0.18, G:0.11, T:0.52
Consensus pattern (55 bp):
CTTTTTTTTTCAGACTCAAACCACCATTTATGGATTTTCAACTTGAGCTCATTTT
Found at i:4151852 original size:310 final size:310
Alignment explanation
Indices: 4151284--4151904 Score: 1019
Period size: 310 Copynumber: 2.0 Consensus size: 310
4151274 ATCTTCGGGC
* * * * *
4151284 GTATTGTTTGAAACTTTTTGTGGCTTTGTTTTTCATGCTTTGTAAGGAAAGGCGATCAGGTGTTA
1 GTATTATTTGAAACTTTTTGTGGCTTTCTTTTCCATGCTTTGTAAGGAAAAGCGATCAAGTGTTA
*
4151349 AGTCCATTATGTGTCTATATTAGGCTATAAATGCTTTTGCCAAATCGTTTCAACAACGGACACGG
66 AGTCCATTATGTGTCTATATTAGGCTATAAATGCTTTTGCCAAATCGTTTCAACAACAGACACGG
* * *
4151414 ACTTGGTCTAACTGCACATACCATTTAGTCACGGAGCTTGTAAGACTATCTTGAAATACATGCAT
131 ACTCGATCTAACTGCACATACCATTTAGTCACGGAGCTAGTAAGACTATCTTGAAATACATGCAT
* * ** *
4151479 TAATAGTTTCTCATCATGAGCATGGGTAGCCATTTTGCAACAATATATGGTAACGTGAGTTATCG
196 CAATAGTTTCTCATCATGAGCATCGACAGCCATTTTGCAACAATATATGGTAACATGAGTTATCG
* * * *
4151544 GGCATTTACT-CTCGTCGTATTTTTCAAATTGGAAGACTTTAAACTTTGGT
261 AGCATTTACTCCT-ATCGTATTTTTCAAATTCGAAGACTTTAAACTTCGGT
4151594 GTATTATTTGAAACTTTTTGTGGCTTTCTTTTCCATGCTTTGTAAGGAAAAGCGATCAAGTGTTA
1 GTATTATTTGAAACTTTTTGTGGCTTTCTTTTCCATGCTTTGTAAGGAAAAGCGATCAAGTGTTA
* *
4151659 AGTCCATTATGTGTCTATATTGGGCTATAAATGCTTTTGCCAAATCGTTTCAAGAACAGACACGG
66 AGTCCATTATGTGTCTATATTAGGCTATAAATGCTTTTGCCAAATCGTTTCAACAACAGACACGG
*
4151724 ACTCGATCTAACTGCACATACCATTTAGTCGCGGAGCTAGTAAGACTATCTTGAAATACATGCAT
131 ACTCGATCTAACTGCACATACCATTTAGTCACGGAGCTAGTAAGACTATCTTGAAATACATGCAT
* *
4151789 CAATAGTTTTTCATCATGAGCATCGACAGCCATTTTGCAGCAATATATGGTAACATGAGTTATCG
196 CAATAGTTTCTCATCATGAGCATCGACAGCCATTTTGCAACAATATATGGTAACATGAGTTATCG
4151854 AGCATTTACTCCTATCGTATTTTTCAAATTCGAAGACTTTAAACTTCGGT
261 AGCATTTACTCCTATCGTATTTTTCAAATTCGAAGACTTTAAACTTCGGT
4151904 G
1 G
4151905 GGATAACCAC
Statistics
Matches: 287, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
310 285 0.99
311 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (310 bp):
GTATTATTTGAAACTTTTTGTGGCTTTCTTTTCCATGCTTTGTAAGGAAAAGCGATCAAGTGTTA
AGTCCATTATGTGTCTATATTAGGCTATAAATGCTTTTGCCAAATCGTTTCAACAACAGACACGG
ACTCGATCTAACTGCACATACCATTTAGTCACGGAGCTAGTAAGACTATCTTGAAATACATGCAT
CAATAGTTTCTCATCATGAGCATCGACAGCCATTTTGCAACAATATATGGTAACATGAGTTATCG
AGCATTTACTCCTATCGTATTTTTCAAATTCGAAGACTTTAAACTTCGGT
Found at i:4155961 original size:2 final size:2
Alignment explanation
Indices: 4155950--4155983 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4155940 CTTTATATGT
4155950 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4155984 GTGATCCCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4163526 original size:10 final size:10
Alignment explanation
Indices: 4163511--4163553 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
4163501 TAATCATGAG
4163511 AATAAATTAA
1 AATAAATTAA
**
4163521 AATAAAAGAA
1 AATAAATTAA
*
4163531 AATAAGCTTAA
1 AATAA-ATTAA
4163542 AATAAATTAA
1 AATAAATTAA
4163552 AA
1 AA
4163554 AATATATAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
10 19 0.73
11 7 0.27
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (10 bp):
AATAAATTAA
Found at i:4163706 original size:11 final size:10
Alignment explanation
Indices: 4163681--4163705 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4163671 GTATATTTAC
4163681 AAAAATAAAA
1 AAAAATAAAA
4163691 AAAAATAAAA
1 AAAAATAAAA
4163701 AAAAA
1 AAAAA
4163706 ACACGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:4167571 original size:6 final size:6
Alignment explanation
Indices: 4167550--4167601 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
4167540 TTGAAGGTTA
* * *
4167550 GTTTGG GTTCTAG GTTTAG GTTTAG GGTTAG GTTTTAGG GTTTAG GGTTAG
1 GTTTAG GTT-TAG GTTTAG GTTTAG GTTTAG G-TTTA-G GTTTAG GTTTAG
4167601 G
1 G
4167602 GCTTAGACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 25 0.64
7 12 0.31
8 2 0.05
ACGTcount: A:0.13, C:0.02, G:0.40, T:0.44
Consensus pattern (6 bp):
GTTTAG
Found at i:4167578 original size:7 final size:7
Alignment explanation
Indices: 4167550--4167733 Score: 101
Period size: 7 Copynumber: 28.0 Consensus size: 7
4167540 TTGAAGGTTA
4167550 GTTT-GG
1 GTTTAGG
4167556 GTTCTA-G
1 GTT-TAGG
4167563 GTTTA-G
1 GTTTAGG
4167569 GTTTAGG
1 GTTTAGG
4167576 G-TTAGG
1 GTTTAGG
*
4167582 TTTTAGG
1 GTTTAGG
4167589 GTTTAGG
1 GTTTAGG
4167596 G-TTAGG
1 GTTTAGG
*
4167602 GCTTA-G
1 GTTTAGG
**
4167608 ACTTAGG
1 GTTTAGG
*
4167615 G-TTATG
1 GTTTAGG
*
4167621 G-ATAGG
1 GTTTAGG
*
4167627 G-TTAAG
1 GTTTAGG
* *
4167633 TTTTAGT
1 GTTTAGG
4167640 G-TTAGG
1 GTTTAGG
4167646 GTTTTAGG
1 G-TTTAGG
4167654 GTTTA-G
1 GTTTAGG
*
4167660 ATTTAGG
1 GTTTAGG
*
4167667 GTTT-GAA
1 GTTTAG-G
* *
4167674 ATTTAGA
1 GTTTAGG
4167681 GTTTAGG
1 GTTTAGG
4167688 GTTTAGG
1 GTTTAGG
*
4167695 GTTTAAG
1 GTTTAGG
4167702 GTTTAGG
1 GTTTAGG
4167709 G-TT--G
1 GTTTAGG
*
4167713 GTTAAGG
1 GTTTAGG
4167720 GTTTAGG
1 GTTTAGG
4167727 GTTTAGG
1 GTTTAGG
4167734 ATAAAGGTTT
Statistics
Matches: 139, Mismatches: 24, Indels: 29
0.72 0.12 0.15
Matches are distributed among these distances:
4 2 0.01
5 1 0.01
6 52 0.37
7 77 0.55
8 7 0.05
ACGTcount: A:0.19, C:0.02, G:0.37, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:4167602 original size:6 final size:6
Alignment explanation
Indices: 4167560--4167630 Score: 52
Period size: 6 Copynumber: 11.3 Consensus size: 6
4167550 GTTTGGGTTC
* * * **
4167560 TAGGTT TAGGTT TAGGGT TAGGTTT TAGGGTT TAGGGT TAGGGCT TAGACT
1 TAGGGT TAGGGT TAGGGT TAGG-GT TAGGG-T TAGGGT TAGGG-T TAGGGT
* *
4167611 TAGGGT TATGGA TAGGGT TA
1 TAGGGT TAGGGT TAGGGT TA
4167631 AGTTTTAGTG
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
6 36 0.71
7 15 0.29
ACGTcount: A:0.20, C:0.03, G:0.38, T:0.39
Consensus pattern (6 bp):
TAGGGT
Found at i:4167729 original size:14 final size:14
Alignment explanation
Indices: 4167550--4167733 Score: 101
Period size: 13 Copynumber: 14.0 Consensus size: 14
4167540 TTGAAGGTTA
4167550 GTTT-GGGTTCTA-G
1 GTTTAGGGTT-TAGG
4167563 GTTTA-GGTTTAGG
1 GTTTAGGGTTTAGG
*
4167576 G-TTAGGTTTTAGG
1 GTTTAGGGTTTAGG
4167589 GTTTAGGG-TTAGG
1 GTTTAGGGTTTAGG
* **
4167602 GCTTA-GACTTAGG
1 GTTTAGGGTTTAGG
* *
4167615 G-TTATGG-ATAGG
1 GTTTAGGGTTTAGG
* * *
4167627 G-TTAAGTTTTAGT
1 GTTTAGGGTTTAGG
4167640 G-TTAGGGTTTTAGG
1 GTTTAGGG-TTTAGG
*
4167654 GTTTA-GATTTAGG
1 GTTTAGGGTTTAGG
** *
4167667 GTTT-GAAATTTAGA
1 GTTTAG-GGTTTAGG
4167681 GTTTAGGGTTTAGG
1 GTTTAGGGTTTAGG
*
4167695 GTTTAAGGTTTAGG
1 GTTTAGGGTTTAGG
*
4167709 G-TT--GGTTAAGG
1 GTTTAGGGTTTAGG
4167720 GTTTAGGGTTTAGG
1 GTTTAGGGTTTAGG
4167734 ATAAAGGTTT
Statistics
Matches: 134, Mismatches: 22, Indels: 29
0.72 0.12 0.16
Matches are distributed among these distances:
11 8 0.06
12 20 0.15
13 54 0.40
14 48 0.36
15 4 0.03
ACGTcount: A:0.19, C:0.02, G:0.37, T:0.42
Consensus pattern (14 bp):
GTTTAGGGTTTAGG
Found at i:4170120 original size:48 final size:48
Alignment explanation
Indices: 4170023--4170149 Score: 148
Period size: 48 Copynumber: 2.6 Consensus size: 48
4170013 AGAAGAGCTT
* * *
4170023 CTATAAACATAAGCAGGTAACTTTAAAAATCAATTTTGGAAAAGACTC
1 CTATAAACATAGGCAGGTAACTTTAAAAATTAATTTTGCAAAAGACTC
* *
4170071 CTATAAACATAGGTAGGTAACTTTAAAAATTAATTTT-CAAAAGGGCTC
1 CTATAAACATAGGCAGGTAACTTTAAAAATTAATTTTGCAAAA-GACTC
* * ***
4170119 CTATGAAGATAGGCAACAAACTTTAAAAATT
1 CTATAAACATAGGCAGGTAACTTTAAAAATT
4170150 CTCTTGAAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
47 4 0.06
48 63 0.94
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.28
Consensus pattern (48 bp):
CTATAAACATAGGCAGGTAACTTTAAAAATTAATTTTGCAAAAGACTC
Found at i:4170231 original size:47 final size:47
Alignment explanation
Indices: 4170109--4170315 Score: 251
Period size: 47 Copynumber: 4.4 Consensus size: 47
4170099 ATTAATTTTC
* * ** *
4170109 AAAAGGGCTCCTATGAAGATAGGCAACAAACTTTAAAAATTCTCTTG
1 AAAAAGGCTCCTATGAAAATAGGCAATGAACTTTAAAAATTCTCTAG
*
4170156 AAAAATGGCTCATATGAAAATAGGCAATGAACTTTAAAAA-TCTTCCTAG
1 AAAAA-GGCTCCTATGAAAATAGGCAATGAACTTTAAAAATTC-T-CTAG
* *
4170205 AAAAA-GCTCCTATAAAAATAAGCAATGAACTTTAAAAATTCTCTA-
1 AAAAAGGCTCCTATGAAAATAGGCAATGAACTTTAAAAATTCTCTAG
*
4170250 AAAAATGGCTCCTATGAAAATAGGCAATGAACTTTAAAAATCTTTCTAG
1 AAAAA-GGCTCCTATGAAAATAGGCAATGAACTTTAAAAAT-TCTCTAG
4170299 AAAAA-GCTCCTAATGAA
1 AAAAAGGCTCCT-ATGAA
4170316 CTTTAAAAAA
Statistics
Matches: 139, Mismatches: 12, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
45 5 0.04
46 3 0.02
47 75 0.54
48 43 0.31
49 13 0.09
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.26
Consensus pattern (47 bp):
AAAAAGGCTCCTATGAAAATAGGCAATGAACTTTAAAAATTCTCTAG
Found at i:4170275 original size:94 final size:95
Alignment explanation
Indices: 4170137--4170310 Score: 314
Period size: 94 Copynumber: 1.8 Consensus size: 95
4170127 ATAGGCAACA
*
4170137 AACTTTAAAAATTCTCTTGAAAAATGGCTCATATGAAAATAGGCAATGAACTTTAAAAATCTTCC
1 AACTTTAAAAATTCTCTTAAAAAATGGCTCATATGAAAATAGGCAATGAACTTTAAAAATCTTCC
4170202 TAGAAAAAGCTCCTATAAAAATAAGCAATG
66 TAGAAAAAGCTCCTATAAAAATAAGCAATG
* *
4170232 AACTTTAAAAATTCTC-TAAAAAATGGCTCCTATGAAAATAGGCAATGAACTTTAAAAATCTTTC
1 AACTTTAAAAATTCTCTTAAAAAATGGCTCATATGAAAATAGGCAATGAACTTTAAAAATCTTCC
4170296 TAGAAAAAGCTCCTA
66 TAGAAAAAGCTCCTA
4170311 ATGAACTTTA
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
94 60 0.79
95 16 0.21
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (95 bp):
AACTTTAAAAATTCTCTTAAAAAATGGCTCATATGAAAATAGGCAATGAACTTTAAAAATCTTCC
TAGAAAAAGCTCCTATAAAAATAAGCAATG
Found at i:4170387 original size:84 final size:82
Alignment explanation
Indices: 4170228--4170380 Score: 191
Period size: 84 Copynumber: 1.8 Consensus size: 82
4170218 AAAAATAAGC
* * * **
4170228 AATGAACTTTAAAAATTCTCTAAAAAATGGCTCCTATGAAAATAGGCAATGAACTTTAAAAATCT
1 AATGAACTTTAAAAATTCTCTAAAAAATGGCTCCTACGAAAATAGGCAACGAACTTAAAAAAAAT
*
4170293 TTCTAGAAAAAGCTCCT
66 CTCTAGAAAAAGCTCCT
* * *
4170310 AATGAACTTTAAAAAATTTGTCTAGCAAAA-GGTTCCTACGAAAATAGGCAACGAACTTAAAAAA
1 AATGAACTTT-AAAAA-TTCTCTA-AAAAATGGCTCCTACGAAAATAGGCAACGAACTTAAAAAA
4170374 AATCTCT
63 AATCTCT
4170381 TTAAAAAAGG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
82 10 0.17
83 5 0.08
84 40 0.68
85 4 0.07
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (82 bp):
AATGAACTTTAAAAATTCTCTAAAAAATGGCTCCTACGAAAATAGGCAACGAACTTAAAAAAAAT
CTCTAGAAAAAGCTCCT
Found at i:4171071 original size:21 final size:22
Alignment explanation
Indices: 4171039--4171099 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 22
4171029 TGTTTTTCTC
4171039 ATTC-ATCAATCATCATTTCTTT
1 ATTCAATC-ATCATCATTTCTTT
* * *
4171061 CTT-TATCATCATTA-TTCTTT
1 ATTCAATCATCATCATTTCTTT
4171081 ATTCAATCATCATTCATTT
1 ATTCAATCATCA-TCATTT
4171100 TCCCATTCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
20 8 0.27
21 13 0.43
22 7 0.23
23 2 0.07
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTCAATCATCATCATTTCTTT
Found at i:4175648 original size:3 final size:3
Alignment explanation
Indices: 4175596--4175629 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4175586 CATTTTATAT
4175596 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
4175630 TTTTTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4175671 original size:16 final size:16
Alignment explanation
Indices: 4175633--4175671 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
4175623 TAATAATTTT
*
4175633 TTAAAATATATAATAA
1 TTAAAAAATATAATAA
4175649 TTAAAAAAT-TAATTAA
1 TTAAAAAATATAA-TAA
4175665 TTAAAAA
1 TTAAAAA
4175672 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAAAAAATATAATAA
Found at i:4176737 original size:18 final size:17
Alignment explanation
Indices: 4176705--4176739 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
4176695 TTTTAAAAAT
4176705 TTTTTTTTATATTATTA
1 TTTTTTTTATATTATTA
4176722 TTTTTTTTAT-TT-TTA
1 TTTTTTTTATATTATTA
4176737 TTT
1 TTT
4176740 ATGCATGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 2 0.11
17 10 0.56
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTTTATATTATTA
Found at i:4188483 original size:17 final size:17
Alignment explanation
Indices: 4188444--4188486 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
4188434 ATTTTGCTTA
4188444 AAAAAATACAAAAAAAAT
1 AAAAAA-ACAAAAAAAAT
*
4188462 AAAAAAACAAAAAAAGT
1 AAAAAAACAAAAAAAAT
4188479 GAAAAAAA
1 -AAAAAAA
4188487 AATGAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.84, C:0.05, G:0.05, T:0.07
Consensus pattern (17 bp):
AAAAAAACAAAAAAAAT
Found at i:4189677 original size:73 final size:73
Alignment explanation
Indices: 4189528--4189807 Score: 334
Period size: 73 Copynumber: 3.8 Consensus size: 73
4189518 ACTAATTCCC
* * *
4189528 TGACTTACGGTTCAGTCCCAGTCATCTTT-ATCTTTGGCTCATGATTTAATCC-CAGTCATTTTA
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCATGGTTTAATCCTGA-TCATTTTA
* *
4189591 TTAATTCCC
65 TTAATTTCT
4189600 TGACTTGCGGTTCAGTCCCAGTCATCTTTAAAT-TTTGGCTCATGGTTTAATCCTGATCATTTTA
1 TGACTTGCGGTTCAGTCCCAGTCATCTTT-AATCTTTGGCTCATGGTTTAATCCTGATCATTTTA
4189664 TTAATTTCT
65 TTAATTTCT
* * * * * ** *
4189673 TGACTTGCGATTCAATTCCAGTCATTTTTAACCTTCAGCTCATGGTTTAAT-CTCGATCATTTCA
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCATGGTTTAATCCT-GATCATTTTA
*
4189737 TTAATTTTT
65 TTAATTTCT
* * * * *
4189746 TGACTTGCGGTTTAGTCCCAATCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTT
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCATGGTTTAATCCTGATCATTT
4189808 CTATAGTTTC
Statistics
Matches: 176, Mismatches: 26, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
72 32 0.18
73 140 0.80
74 4 0.02
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.44
Consensus pattern (73 bp):
TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCATGGTTTAATCCTGATCATTTTAT
TAATTTCT
Found at i:4189759 original size:38 final size:37
Alignment explanation
Indices: 4189716--4189808 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 37
4189706 TTCAGCTCAT
* * *
4189716 GGTTTAATCTCGATCATTTCATTAATTTTTTGACTTGC
1 GGTTTAATCCCGATCATTTCATTAA-TCTTTGACTCGC
* * * *
4189754 GGTTTAGTCCCAATCA--TCTTTAATCTTTGACTCGT
1 GGTTTAATCCCGATCATTTCATTAATCTTTGACTCGC
4189789 GGTTTAATCCCGATCATTTC
1 GGTTTAATCCCGATCATTTC
4189809 TATAGTTTCC
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
35 23 0.52
36 6 0.14
37 2 0.05
38 13 0.30
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (37 bp):
GGTTTAATCCCGATCATTTCATTAATCTTTGACTCGC
Found at i:4190317 original size:51 final size:50
Alignment explanation
Indices: 4190262--4190422 Score: 114
Period size: 51 Copynumber: 3.1 Consensus size: 50
4190252 TCATGGTTCA
*
4190262 ATCCTGATCTCTTTAATTCAAAGTCACAGTTTAATCTCGATTGTTGTTGTT
1 ATCCTGATCTCTTTAATTCAAAGT-ACAATTTAATCTCGATTGTTGTTGTT
* * ** * * * *
4190313 ATCCTCTGACTCACGGTTTAATCCTGA-T-C-TTTTATCTCTTCGATTCGTGGTT-TA
1 AT-C-CTGA-TCTC--TTTAATTCAAAGTACAATTTA-ATC-TCGATT-GTTGTTGTT
*
4190367 ATCCCGATCTCTTTAATTCAAAGTTACAATTTAATCTCGATTGTTGTTGTT
1 ATCCTGATCTCTTTAATTCAAAG-TACAATTTAATCTCGATTGTTGTTGTT
4190418 ATCCT
1 ATCCT
4190423 CTGACTCGTG
Statistics
Matches: 79, Mismatches: 18, Indels: 26
0.64 0.15 0.21
Matches are distributed among these distances:
49 8 0.10
50 5 0.06
51 17 0.22
52 11 0.14
53 12 0.15
54 12 0.15
55 6 0.08
56 8 0.10
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (50 bp):
ATCCTGATCTCTTTAATTCAAAGTACAATTTAATCTCGATTGTTGTTGTT
Found at i:4190332 original size:105 final size:104
Alignment explanation
Indices: 4190212--4190556 Score: 491
Period size: 105 Copynumber: 3.3 Consensus size: 104
4190202 AACATCATTT
* *
4190212 TCTGACTTGTGGTTTAATCCTGATCTTTTATCTTTTCGATTCATGGTTCAATCCTGATCTCTTTA
1 TCTGACTCGTGGTTTAATCCTGATCTTTTATCTCTTCGATTCATGGTTCAATCC-GATCTCTTTA
*
4190277 ATTCAAAGTCACAGTTTAATCTCGATTGTTGTTGTTATCC
65 ATTCAAAGTTACAGTTTAATCTCGATTGTTGTTGTTATCC
** * *
4190317 TCTGACTCACGGTTTAATCCTGATCTTTTATCTCTTCGATTCGTGGTTTAATCCCGATCTCTTTA
1 TCTGACTCGTGGTTTAATCCTGATCTTTTATCTCTTCGATTCATGGTTCAAT-CCGATCTCTTTA
*
4190382 ATTCAAAGTTACAATTTAATCTCGATTGTTGTTGTTATCC
65 ATTCAAAGTTACAGTTTAATCTCGATTGTTGTTGTTATCC
* * *
4190422 TCTGACTCGTGATTTAATCCCGATCTTTTATCTCTCCGATT-ATGGTTCAATCCGATCTCTTTAA
1 TCTGACTCGTGGTTTAATCCTGATCTTTTATCTCTTCGATTCATGGTTCAATCCGATCTCTTTAA
* * *
4190486 TTCAAAATTATAGTTTAATCTCGA---TTGTTATTATCC
66 TTCAAAGTTACAGTTTAATCTCGATTGTTGTTGTTATCC
*
4190522 TCTGACTCGTGGTTTAATCCTCGATCACTTTATCT
1 TCTGACTCGTGGTTTAATCCT-GATC-TTTTATCT
4190557 TTCTTACTTG
Statistics
Matches: 215, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
100 30 0.14
101 4 0.02
102 7 0.03
103 34 0.16
104 8 0.04
105 130 0.60
106 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (104 bp):
TCTGACTCGTGGTTTAATCCTGATCTTTTATCTCTTCGATTCATGGTTCAATCCGATCTCTTTAA
TTCAAAGTTACAGTTTAATCTCGATTGTTGTTGTTATCC
Found at i:4190661 original size:27 final size:28
Alignment explanation
Indices: 4190612--4190667 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
4190602 CAGTTTAATC
* * *
4190612 TCAATCTTTTATCTCTCTGATTCACAGT
1 TCAATCTTTGATCTCTCTAATTCAAAGT
*
4190640 TCAATC-TTGATCTCTTTAATTCAAAGT
1 TCAATCTTTGATCTCTCTAATTCAAAGT
4190667 T
1 T
4190668 GCAGTTTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.25, C:0.21, G:0.07, T:0.46
Consensus pattern (28 bp):
TCAATCTTTGATCTCTCTAATTCAAAGT
Found at i:4190695 original size:381 final size:382
Alignment explanation
Indices: 4189953--4190764 Score: 1124
Period size: 381 Copynumber: 2.1 Consensus size: 382
4189943 ATTTATCTCG
* * * * *
4189953 CGATCTTTTATCTCTTCTGATTCATAGTTCAAGTCTTGAATCTCTTTAATTCAAAGGTTGCAGTT
1 CGATCTTTTATCTCTTCTGATTCGTGGTTCAA-TCTCG-ATCTCTTTAATTCAAAGGTTACAATT
* *
4190018 TAATTCTAATTGGTTGTTGTCATCCTCTGACTCACGGTTTAATCTCGATCTTTTATCTCTCCGAT
64 TAATTCTAATTGGTTGTTGTCATCCTCTGACTCACGATTTAATCCCGATCTTTTATCTCTCCGAT
* * * *
4190083 TGCGTTCAATCCCAATCTCTTTAATTCAAAGTCGTAGTTTAATCTCGATTGTTGTTATCCTTTGA
129 TGCGTTCAATCCCAATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTATTATCCTCTGA
* * *
4190148 CTCGTGGTTTAATCTCGGTCTCTTTATTTTTTTACTTGTGATTCAATCTAAGTTAACATCATTTT
194 CTCGTGGTTTAATCTCGATCACTTTATTTTCTTACTTGTGATTCAATCTAAGTTAACATCATTTT
* ** * * **
4190213 CTGACTTGTGGTTTAATCCTGATCTTTTATCTTTTCGATTCATGGTTCAATCCTGATCTCTTTAA
259 CTGACTCGCAGTTTAATCCTAATCTTTTATCTTCTCGATTCACAGTTCAATCCTGATCTCTTTAA
* *
4190278 TTCAAAGTCACAGTTTAATCTCGATTGTTGTTGTTATCCTCTGACTCACGGTTTAATC-
324 TTCAAAGTCACAGTTTAATCTCAATTGTTGTTGTTATCCTCTGACTAACGGTTTAATCT
* *
4190336 CTGATCTTTTATCTCTTC-GATTCGTGGTTTAATCCCGATCTCTTTAATTCAAA-GTTACAATTT
1 C-GATCTTTTATCTCTTCTGATTCGTGGTTCAATCTCGATCTCTTTAATTCAAAGGTTACAATTT
* * **
4190399 AA-TCTCGATT-GTTGTTGTTATCCTCTGACTCGTGATTTAATCCCGATCTTTTATCTCTCCGAT
65 AATTCT-AATTGGTTGTTGTCATCCTCTGACTCACGATTTAATCCCGATCTTTTATCTCTCCGA-
* *
4190462 TATG-GTTCAAT-CCGATCTCTTTAATTCAAAATTATAGTTTAATCTCGATTGTTATTATCCTCT
128 T-TGCGTTCAATCCCAATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTATTATCCTCT
*
4190525 GACTCGTGGTTTAATCCTCGATCACTTTATCTTTCTTACTTGTGATTCAATCTAAGTTAACGTCA
192 GACTCGTGGTTTAAT-CTCGATCACTTTAT-TTTCTTACTTGTGATTCAATCTAAGTTAACATCA
* *
4190590 TTTTTTGACTCGCAGTTTAAT-CTCAATCTTTTATC-TCTCTGATTCACAGTTCAATCTTGATCT
255 TTTTCTGACTCGCAGTTTAATCCT-AATCTTTTATCTTCTC-GATTCACAGTTCAATCCTGATCT
**
4190653 CTTTAATTCAAAGTTGCAGTTTAATCTCAATTGTTGTTGTTATCCTCTGACTAACGGTTTAATCT
318 CTTTAATTCAAAGTCACAGTTTAATCTCAATTGTTGTTGTTATCCTCTGACTAACGGTTTAATCT
*
4190718 CGATCTTTTATCTC-TCTGATT-GCGGTTCAATCTCGATCTCTTTAATT
1 CGATCTTTTATCTCTTCTGATTCGTGGTTCAATCTCGATCTCTTTAATT
4190765 TGTTCTCGAT
Statistics
Matches: 380, Mismatches: 39, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
379 111 0.29
380 63 0.17
381 174 0.46
382 4 0.01
383 12 0.03
384 16 0.04
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.45
Consensus pattern (382 bp):
CGATCTTTTATCTCTTCTGATTCGTGGTTCAATCTCGATCTCTTTAATTCAAAGGTTACAATTTA
ATTCTAATTGGTTGTTGTCATCCTCTGACTCACGATTTAATCCCGATCTTTTATCTCTCCGATTG
CGTTCAATCCCAATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTATTATCCTCTGACT
CGTGGTTTAATCTCGATCACTTTATTTTCTTACTTGTGATTCAATCTAAGTTAACATCATTTTCT
GACTCGCAGTTTAATCCTAATCTTTTATCTTCTCGATTCACAGTTCAATCCTGATCTCTTTAATT
CAAAGTCACAGTTTAATCTCAATTGTTGTTGTTATCCTCTGACTAACGGTTTAATCT
Found at i:4190749 original size:173 final size:170
Alignment explanation
Indices: 4190434--4191028 Score: 563
Period size: 173 Copynumber: 3.5 Consensus size: 170
4190424 TGACTCGTGA
* * **
4190434 TTTAATCCCGATCTTTTATCTCTCCGATTATGGTTCAATC-CGATCTCTTTAATTCAAAATTATA
1 TTTAATCCCGATCTTTTATCTCTCCGATTACGGTTCAATCTCGATCTCTTTAATTCAAAGTTGCA
* * *
4190498 GTTTAATCTCGA---TTGTTATTATCCTCTGACTCGTGGTTTAATCCTCGATCACTTTATCTTTC
66 GTTTAATCTCGATTGTTGTTGTTATCCTCTGACTAGTGGTTTAAT-CTCGATC-TTTTATC-TTC
4190560 TTACTTGTGATTCAATCTAAGTTAACGTCATTTTTTGACTCGCAG
128 TTACTTGTGATTCAATCTAAGTTAACGTCATTTTTTGAC-C-CAG
* * * * *
4190605 TTTAATCTCAATCTTTTATCTCTCTGATTCACAGTTCAATCTTGATCTCTTTAATTCAAAGTTGC
1 TTTAATCCCGATCTTTTATCTCTCCGATT-ACGGTTCAATCTCGATCTCTTTAATTCAAAGTTGC
* **
4190670 AGTTTAATCTCAATTGTTGTTGTTATCCTCTGACTAACGGTTTAATCTCGATCTTTTATCTCTCT
65 AGTTTAATCTCGATTGTTGTTGTTATCCTCTGACTAGTGGTTTAATCTCGATCTTTTATCT-TCT
* * * * *
4190735 GA-TTGCGGTTCAATCT-CG---A--TC--TCTTT-A---A-
129 TACTTGTGATTCAATCTAAGTTAACGTCATTTTTTGACCCAG
** * * * *
4190763 TTTGTTCTCGATCTTTTATCTTCTCTGATGTGCGGTTCAA-CTCGATCTCTTTTAATTTAAAAGT
1 TTTAATCCCGATCTTTTATC-TCTCCGAT-TACGGTTCAATCTCGATCTC-TTTAA-TTCAAAGT
* *
4190827 TGCAG-TT-ATCTCGATTGTTG--GCTTATCCTCTGAACTTGTGGTTTAATCCCGCATCTCCTTT
62 TGCAGTTTAATCTCGATTGTTGTTG-TTATCCTCTG-ACTAGTGGTTTAATCTCG-ATCT--TTT
*
4190888 AT-TTCTTACTTGTGATTCAATCTAAGTTAACGTCATTTTTTGACACACG
122 ATCTTCTTACTTGTGATTCAATCTAAGTTAACGTCATTTTTTGACCCA-G
* *
4190937 ATTTAATCCCGATCTTTTATCTCTCCGATTCACGGTTCAATCCCGATCTCTTTAATTCAAAGTCG
1 -TTTAATCCCGATCTTTTATCTCTCCGATT-ACGGTTCAATCTCGATCTCTTTAATTCAAAGTTG
*
4191002 TAGTTTAATCTCGATTGTTGTTGTTAT
64 CAGTTTAATCTCGATTGTTGTTGTTAT
4191029 TTTTTGACTC
Statistics
Matches: 341, Mismatches: 46, Indels: 69
0.75 0.10 0.15
Matches are distributed among these distances:
156 1 0.00
157 10 0.03
158 51 0.15
159 31 0.09
160 26 0.08
161 6 0.02
164 2 0.01
165 4 0.01
166 2 0.01
167 2 0.01
168 4 0.01
169 2 0.01
171 26 0.08
172 11 0.03
173 55 0.16
174 32 0.09
175 45 0.13
176 30 0.09
177 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.45
Consensus pattern (170 bp):
TTTAATCCCGATCTTTTATCTCTCCGATTACGGTTCAATCTCGATCTCTTTAATTCAAAGTTGCA
GTTTAATCTCGATTGTTGTTGTTATCCTCTGACTAGTGGTTTAATCTCGATCTTTTATCTTCTTA
CTTGTGATTCAATCTAAGTTAACGTCATTTTTTGACCCAG
Found at i:4190773 original size:53 final size:55
Alignment explanation
Indices: 4190715--4190820 Score: 182
Period size: 55 Copynumber: 2.0 Consensus size: 55
4190705 AACGGTTTAA
4190715 TCTCGATCTTTTATC-TCTCTGAT-TGCGGTTCAATCTCGATCTC-TTTAATTTGT
1 TCTCGATCTTTTATCTTCTCTGATGTGCGGTTCAA-CTCGATCTCTTTTAATTTGT
4190768 TCTCGATCTTTTATCTTCTCTGATGTGCGGTTCAACTCGATCTCTTTTAATTT
1 TCTCGATCTTTTATCTTCTCTGATGTGCGGTTCAACTCGATCTCTTTTAATTT
4190821 AAAAGTTGCA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
53 15 0.30
54 17 0.34
55 18 0.36
ACGTcount: A:0.15, C:0.23, G:0.13, T:0.49
Consensus pattern (55 bp):
TCTCGATCTTTTATCTTCTCTGATGTGCGGTTCAACTCGATCTCTTTTAATTTGT
Found at i:4191049 original size:105 final size:101
Alignment explanation
Indices: 4190938--4191151 Score: 288
Period size: 105 Copynumber: 2.1 Consensus size: 101
4190928 TGACACACGA
* *
4190938 TTTAATCCCGATC-TTTTATCTCTCCGATTCACGGTTCAATCCCGATCTCTTTAATTCA-AAGTC
1 TTTAATCCCGATCTTTTTAT-TCTCCGATTCACGATTCAATCCCAATCTCTTTAATT-ATAA-TC
* *
4191001 GTAGTTTAATCTCGATTGTTGTTGTTATTTTTTGACTCATTG
63 GTAGTTTAATCTCGA---TTGTTGTTATTTTCTGACTCATGG
* * *
4191043 TTTAATCCTGATCTTTTTATTCTTCGATTCGCGATTCAATCCCAATCTCTTTAATTATAATCGTA
1 TTTAATCCCGATCTTTTTATTCTCCGATTCACGATTCAATCCCAATCTCTTTAATTATAATCGTA
*
4191108 GTTTAATCTCGATTGTTGTTATTTTCTGACTCGTGG
66 GTTTAATCTCGATTGTTGTTATTTTCTGACTCATGG
4191144 TTTAATCC
1 TTTAATCC
4191152 TAATCCTTAG
Statistics
Matches: 99, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
101 29 0.29
104 18 0.18
105 46 0.46
106 6 0.06
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.47
Consensus pattern (101 bp):
TTTAATCCCGATCTTTTTATTCTCCGATTCACGATTCAATCCCAATCTCTTTAATTATAATCGTA
GTTTAATCTCGATTGTTGTTATTTTCTGACTCATGG
Found at i:4191512 original size:3 final size:3
Alignment explanation
Indices: 4191504--4191530 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4191494 CATTTTATAT
4191504 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
4191531 AATTTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4191557 original size:16 final size:16
Alignment explanation
Indices: 4191536--4191576 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
4191526 AATAAAATTT
*
4191536 TTAAAATATATAA-TAA
1 TTAAAAAAT-TAATTAA
4191552 TTAAAAAATTAATTAA
1 TTAAAAAATTAATTAA
4191568 TTAAAAAAT
1 TTAAAAAAT
4191577 AAAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.13
16 20 0.87
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAAAAATTAATTAA
Found at i:4200627 original size:24 final size:24
Alignment explanation
Indices: 4200599--4200652 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4200589 GTGAGCTTGC
* *
4200599 AAAAAAAAAAAAAGAAAAAGTTGTG
1 AAAAAAAGAAAAA-AAAAAGTGGTG
*
4200624 AAAAAAAGCAAAAAAAAAGTGGTG
1 AAAAAAAGAAAAAAAAAAGTGGTG
4200648 AAAAA
1 AAAAA
4200653 GCAAATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.72, C:0.02, G:0.17, T:0.09
Consensus pattern (24 bp):
AAAAAAAGAAAAAAAAAAGTGGTG
Found at i:4201167 original size:24 final size:24
Alignment explanation
Indices: 4201140--4201187 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
4201130 AGGCATTGAA
4201140 AGTGTAGTATGATTCCTGCTCAAT
1 AGTGTAGTATGATTCCTGCTCAAT
4201164 AGTGTAGTATGATTCCTGCTCAAT
1 AGTGTAGTATGATTCCTGCTCAAT
4201188 CTTATTTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (24 bp):
AGTGTAGTATGATTCCTGCTCAAT
Found at i:4201607 original size:7 final size:7
Alignment explanation
Indices: 4201592--4201622 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
4201582 AGAAGAACAT
4201592 TGGTGCA
1 TGGTGCA
*
4201599 TGTTGCA
1 TGGTGCA
4201606 TGGTGCA
1 TGGTGCA
4201613 TGGTGCA
1 TGGTGCA
4201620 TGG
1 TGG
4201623 AAGGAATACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.13, C:0.13, G:0.42, T:0.32
Consensus pattern (7 bp):
TGGTGCA
Found at i:4202774 original size:19 final size:19
Alignment explanation
Indices: 4202750--4202786 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4202740 TTTATGCAAT
*
4202750 TTCTTTTTAGTTTTTTATA
1 TTCTTTTTAGTTTCTTATA
4202769 TTCTTTTTAGTTTCTTAT
1 TTCTTTTTAGTTTCTTAT
4202787 GTTGTTCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.08, G:0.05, T:0.73
Consensus pattern (19 bp):
TTCTTTTTAGTTTCTTATA
Found at i:4202797 original size:19 final size:19
Alignment explanation
Indices: 4202750--4202799 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
4202740 TTTATGCAAT
* *
4202750 TTCTTTTTAGTTTTTTATA
1 TTCTTCTTAGTTTCTTATA
* *
4202769 TTCTTTTTAGTTTCTTATG
1 TTCTTCTTAGTTTCTTATA
*
4202788 TTGTTCTTAGTT
1 TTCTTCTTAGTT
4202800 GAACTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.12, C:0.08, G:0.10, T:0.70
Consensus pattern (19 bp):
TTCTTCTTAGTTTCTTATA
Found at i:4207712 original size:10 final size:10
Alignment explanation
Indices: 4207699--4207743 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
4207689 TTTACCATTG
*
4207699 TTGACCAATT
1 TTGACCAAGT
4207709 TTGACCAAGT
1 TTGACCAAGT
*
4207719 TTGACAAAGT
1 TTGACCAAGT
* *
4207729 TTGGCCAGGT
1 TTGACCAAGT
4207739 TTGAC
1 TTGAC
4207744 TAGATTTGAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (10 bp):
TTGACCAAGT
Found at i:4208092 original size:109 final size:108
Alignment explanation
Indices: 4207901--4208111 Score: 307
Period size: 109 Copynumber: 1.9 Consensus size: 108
4207891 AAACATCAAC
4207901 AAATCTAAAAAATACTAAACAAATTAAAAAAACAGAGTTAAATACATATTTCGCCCTTAAACTTT
1 AAATCTAAAAAATACTAAACAAATTAAAAAAACAGAGTTAAATACATATTTCGCCCTTAAACTTT
*
4207966 ATACTTTCTATCACATTAGTACTTAAAAGAATTATAACTACGAT
66 ATACTTTCTATCACATTAATACTT-AAAGAATTATAACTACGAT
* * * * * * *
4208010 AAATCTCAAGAATACTAAACAAATTAGAAAAATAGAGTTAAATTCATATTTTGTCCC-TCAACTT
1 AAATCTAAAAAATACTAAACAAATTAAAAAAACAGAGTTAAATACATATTTCG-CCCTTAAACTT
* *
4208074 TATACTTTCTGTCACATTAATACTTAATGAATTATAAC
65 TATACTTTCTATCACATTAATACTTAAAGAATTATAAC
4208112 CACCATATTA
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
108 12 0.13
109 76 0.84
110 3 0.03
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (108 bp):
AAATCTAAAAAATACTAAACAAATTAAAAAAACAGAGTTAAATACATATTTCGCCCTTAAACTTT
ATACTTTCTATCACATTAATACTTAAAGAATTATAACTACGAT
Found at i:4208437 original size:10 final size:10
Alignment explanation
Indices: 4208363--4208552 Score: 58
Period size: 10 Copynumber: 19.3 Consensus size: 10
4208353 TAAAACTTCG
4208363 AAAAATTATA
1 AAAAATTATA
* *
4208373 AAATACTTTTA
1 AAA-AATTATA
4208384 AAAAATT-TA
1 AAAAATTATA
*
4208393 AAAATTTCA-A
1 AAAAATT-ATA
* *
4208403 AAAAATTTTC
1 AAAAATTATA
* * *
4208413 AAAACTTTTT
1 AAAAATTATA
*
4208423 GAAAATTATA
1 AAAAATTATA
4208433 AAAAATTA-A
1 AAAAATTATA
4208442 AAAAATTA-A
1 AAAAATTATA
* * *
4208451 AATAGTT-TT
1 AAAAATTATA
*
4208460 AAAAATT-TT
1 AAAAATTATA
*
4208469 TAAAATTA-A
1 AAAAATTATA
* *
4208478 AAACATTAATG
1 AAAAATT-ATA
*
4208489 AAAAATCT-TT
1 AAAAAT-TATA
*
4208499 AAAAATTCTA
1 AAAAATTATA
*
4208509 TAAAATT-TCA
1 AAAAATTAT-A
4208519 AAAAGATTATA
1 AAAA-ATTATA
* *
4208530 CAAAATTTTA
1 AAAAATTATA
4208540 AAAACATT-TA
1 AAAA-ATTATA
4208550 AAA
1 AAA
4208553 TTTTTTAAAA
Statistics
Matches: 134, Mismatches: 32, Indels: 28
0.69 0.16 0.14
Matches are distributed among these distances:
9 43 0.32
10 66 0.49
11 23 0.17
12 2 0.01
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (10 bp):
AAAAATTATA
Found at i:4208468 original size:9 final size:9
Alignment explanation
Indices: 4208323--4208650 Score: 97
Period size: 9 Copynumber: 34.0 Consensus size: 9
4208313 TCTAAACAGT
4208323 TTTTAAAAA
1 TTTTAAAAA
*
4208332 TTATAAAAA
1 TTTTAAAAA
* ***
4208341 TATTAATTT
1 TTTTAAAAA
*
4208350 TTTTAAAAC
1 TTTTAAAAA
**
4208359 TTCGAAAAA
1 TTTTAAAAA
*
4208368 TTATAAAATA
1 TTTTAAAA-A
4208378 CTTTTAAAAA
1 -TTTTAAAAA
*
4208388 ATTTAAAAA
1 TTTTAAAAA
*
4208397 TTTCAAAAAAA
1 TTT--TAAAAA
*
4208408 TTTTCAAAACT
1 TTTT-AAAA-A
*
4208419 TTTTGAAAA
1 TTTTAAAAA
*
4208428 TTATAAAAA
1 TTTTAAAAA
*
4208437 -ATTAAAAA
1 TTTTAAAAA
**
4208445 AATTAAAATA
1 TTTTAAAA-A
4208455 GTTTTAAAAA
1 -TTTTAAAAA
*
4208465 TTTTTAAAA
1 TTTTAAAAA
*
4208474 -TTAAAAACA
1 TTTTAAAA-A
*
4208483 TTAATGAAAAA
1 TT--TTAAAAA
4208494 TCTTTAAAAA
1 T-TTTAAAAA
*
4208504 TTCTATAAAA
1 TTTTA-AAAA
*
4208514 TTTCAAAAAGA
1 TTT-TAAAA-A
*
4208525 TTATACAAAA
1 TTTTA-AAAA
4208535 TTTTAAAAA
1 TTTTAAAAA
* *
4208544 CATTTAAAATT
1 -TTTTAAAA-A
*
4208555 TTTTAAAAT
1 TTTTAAAAA
*
4208564 TTTTAAAAC
1 TTTTAAAAA
4208573 TTTCTAAAAAA
1 TTT-T-AAAAA
*
4208584 TTTTTTTAAAA
1 --TTTTAAAAA
*
4208595 TTCT-AAAA
1 TTTTAAAAA
*
4208603 TAATTAAGGAAA
1 T-TTTAA--AAA
*
4208615 CTTATAAAAA
1 -TTTTAAAAA
4208625 TTTTAAAAA
1 TTTTAAAAA
*
4208634 TCTT-AAAA
1 TTTTAAAAA
*
4208642 TTTCAAAAA
1 TTTTAAAAA
4208651 AAAAAAAAGA
Statistics
Matches: 234, Mismatches: 55, Indels: 60
0.67 0.16 0.17
Matches are distributed among these distances:
8 22 0.09
9 100 0.43
10 53 0.23
11 42 0.18
12 13 0.06
13 4 0.02
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.38
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:4208562 original size:19 final size:18
Alignment explanation
Indices: 4208363--4208586 Score: 64
Period size: 21 Copynumber: 11.4 Consensus size: 18
4208353 TAAAACTTCG
4208363 AAAAATTATAAAATACTTTTA
1 AAAAATT-TAAAAT--TTTTA
**
4208384 AAAAATTTAAAAATTTCAA
1 AAAAATTT-AAAATTTTTA
4208403 AAAAATTTTCAAAACTTTTT-
1 AAAAA-TTT-AAAA-TTTTTA
* **
4208423 GAAAATTATAAAA-AATTA
1 AAAAATT-TAAAATTTTTA
*
4208441 AAAAAATTAAAATAGTTTTA
1 AAAAATTTAAAAT--TTTTA
*
4208461 AAAATTTTTAAAA---TTA
1 AAAA-ATTTAAAATTTTTA
*
4208477 AAAACATTAATGAAAAATCTTT-
1 AAAA-ATT--T--AAAATTTTTA
* *
4208499 AAAAATTCTATAAAATTTCA
1 AAAAATT-TA-AAATTTTTA
*
4208519 AAAAGATTATACAAAATTTTA
1 AAAA-ATT-TA-AAATTTTTA
4208540 AAAACATTTAAAATTTTTTA
1 AAAA-ATTTAAAA-TTTTTA
** *
4208560 AAATTTTTAAAACTTTCTA
1 AAAAATTTAAAA-TTTTTA
4208579 AAAAATTT
1 AAAAATTT
4208587 TTTTAAAATT
Statistics
Matches: 152, Mismatches: 31, Indels: 42
0.68 0.14 0.19
Matches are distributed among these distances:
16 9 0.06
17 7 0.05
18 7 0.05
19 40 0.26
20 39 0.26
21 44 0.29
22 4 0.03
23 2 0.01
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (18 bp):
AAAAATTTAAAATTTTTA
Found at i:4208598 original size:21 final size:23
Alignment explanation
Indices: 4208563--4208607 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
4208553 TTTTTTAAAA
4208563 TTTTTAAAACTTTCTAAAA-AATT
1 TTTTTAAAAC-TTCTAAAATAATT
4208586 TTTTTAAAA-TTCTAAAATAATT
1 TTTTTAAAACTTCTAAAATAATT
4208608 AAGGAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 4 0.19
23 9 0.43
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTTTAAAACTTCTAAAATAATT
Found at i:4208805 original size:32 final size:30
Alignment explanation
Indices: 4208750--4208811 Score: 97
Period size: 32 Copynumber: 2.0 Consensus size: 30
4208740 AATAGTTAAA
*
4208750 ATAAAAAATCAAATATTTTTTTCAAAAAAT
1 ATAAAAAATCAAAAATTTTTTTCAAAAAAT
4208780 ATAAAAAATTCTAAAAATTTTTTTCAAAAAAT
1 ATAAAAAA-TC-AAAAATTTTTTTCAAAAAAT
4208812 TTGAAACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 8 0.28
31 2 0.07
32 19 0.66
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.37
Consensus pattern (30 bp):
ATAAAAAATCAAAAATTTTTTTCAAAAAAT
Found at i:4208911 original size:19 final size:16
Alignment explanation
Indices: 4208879--4208931 Score: 52
Period size: 16 Copynumber: 3.0 Consensus size: 16
4208869 AATTTTTAAA
4208879 ATTTTTTTACAAATTTTT
1 ATTTTTTT--AAATTTTT
4208897 GGATTTTTCTTAAATTTTT
1 --ATTTTT-TTAAATTTTT
*
4208916 ATTTTTTTATATTTTT
1 ATTTTTTTAAATTTTT
4208932 TAATGTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 9 0.29
17 6 0.19
19 8 0.26
20 6 0.19
21 2 0.06
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (16 bp):
ATTTTTTTAAATTTTT
Found at i:4209127 original size:18 final size:17
Alignment explanation
Indices: 4209094--4209132 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
4209084 TTTATTAACA
4209094 TTTTCAGAATTTTTAAT
1 TTTTCAGAATTTTTAAT
4209111 TTTTCA-AATTATGTTAAT
1 TTTTCAGAATT-T-TTAAT
4209129 TTTT
1 TTTT
4209133 ATAATTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (17 bp):
TTTTCAGAATTTTTAAT
Done.