Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 219 of 259
Found at i:69440488 original size:16 final size:16
Alignment explanation
Indices: 69440456--69440488 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
69440446 ATTATCTATC
*
69440456 TTATTTTATTTTATTT
1 TTATTTTATTATATTT
69440472 TTATTTTATTA-ATTT
1 TTATTTTATTATATTT
69440487 TT
1 TT
69440489 GAAGATTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTTTATTATATTT
Found at i:69446827 original size:11 final size:11
Alignment explanation
Indices: 69446811--69446844 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
69446801 CAAATTCCAC
69446811 AAAATCCTCTT
1 AAAATCCTCTT
*
69446822 AAAATCCTCCT
1 AAAATCCTCTT
69446833 AAAATCCCTCTT
1 AAAAT-CCTCTT
69446845 CCATTATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATCCTCTT
Found at i:69448918 original size:15 final size:16
Alignment explanation
Indices: 69448887--69448920 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
69448877 AATTTCTTTG
69448887 TTCAAAAACAAATTTTA
1 TTCAAAAAC-AATTTTA
69448904 TTCAAAAAC-ATTTTA
1 TTCAAAAACAATTTTA
69448919 TT
1 TT
69448921 TGTCATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (16 bp):
TTCAAAAACAATTTTA
Found at i:69451198 original size:16 final size:16
Alignment explanation
Indices: 69451146--69451200 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
69451136 TTTATGTAAG
69451146 TTTATTTAATATTAGTT
1 TTTATTTAAT-TTAGTT
* **
69451163 GTTAATTTAATTTAAAT
1 -TTTATTTAATTTAGTT
*
69451180 TTTATTTTATTTAGTT
1 TTTATTTAATTTAGTT
69451196 TTTAT
1 TTTAT
69451201 CATAATGTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
16 17 0.57
17 4 0.13
18 9 0.30
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.65
Consensus pattern (16 bp):
TTTATTTAATTTAGTT
Found at i:69453723 original size:2 final size:2
Alignment explanation
Indices: 69453716--69453746 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
69453706 CCTTTCCTAT
69453716 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
69453747 TTTTATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:69472188 original size:4 final size:4
Alignment explanation
Indices: 69472179--69472205 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
69472169 GCGTTTGAAT
69472179 ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATA
69472206 TAGAAGAACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.22, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:69477197 original size:21 final size:21
Alignment explanation
Indices: 69477171--69477211 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
69477161 TTGTATGTCT
* *
69477171 ACAATTTCATTCTCGTTAGGC
1 ACAATTTCATCCTCCTTAGGC
69477192 ACAATTTCATCCTCCTTAGG
1 ACAATTTCATCCTCCTTAGG
69477212 AAAAATACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (21 bp):
ACAATTTCATCCTCCTTAGGC
Found at i:69481681 original size:20 final size:20
Alignment explanation
Indices: 69481656--69481723 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
69481646 TGTAGTTTCA
*
69481656 AACTTTACTATTTTATGCTC
1 AACTTTACTAATTTATGCTC
* * *
69481676 AACTTT-CCAAATTATAGTTTC
1 AACTTTACTAATTTAT-G-CTC
*
69481697 AAACTTTACTAGTTTATGCTC
1 -AACTTTACTAATTTATGCTC
69481718 AACTTT
1 AACTTT
69481724 CCAAATTTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
19 6 0.17
20 13 0.36
21 4 0.11
22 7 0.19
23 6 0.17
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (20 bp):
AACTTTACTAATTTATGCTC
Found at i:69481695 original size:42 final size:42
Alignment explanation
Indices: 69481648--69481730 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
69481638 TTTAACCCTG
*
69481648 TAGTTTCAAACTTTACTATTTTATGCTCAACTTTCCAAATTA
1 TAGTTTCAAACTTTACTAGTTTATGCTCAACTTTCCAAATTA
69481690 TAGTTTCAAACTTTACTAGTTTATGCTCAACTTTCCAAATT
1 TAGTTTCAAACTTTACTAGTTTATGCTCAACTTTCCAAATT
69481731 TTCATATTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (42 bp):
TAGTTTCAAACTTTACTAGTTTATGCTCAACTTTCCAAATTA
Found at i:69503539 original size:17 final size:17
Alignment explanation
Indices: 69503517--69503567 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
69503507 GAATTACCTA
69503517 AAATTTTATATATTTTT
1 AAATTTTATATATTTTT
*
69503534 AAA-TTTAAATTATTTTT
1 AAATTTTATA-TATTTTT
* *
69503551 AGTATTTTTTATATTTT
1 A-AATTTTATATATTTT
69503568 GATATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 5 0.19
17 11 0.41
18 7 0.26
19 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
AAATTTTATATATTTTT
Found at i:69506410 original size:3 final size:3
Alignment explanation
Indices: 69506404--69506439 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
69506394 TTATCACTTC
69506404 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
69506440 ATTTTACTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:69506833 original size:22 final size:21
Alignment explanation
Indices: 69506794--69506892 Score: 76
Period size: 22 Copynumber: 4.5 Consensus size: 21
69506784 TTTTCTTTTA
69506794 ATATTTTATATATTATTATGTAC
1 ATATTTT-TATA-TATTATGTAC
* *
69506817 ATATTTTGATATCATTA-GTTAT
1 ATATTTTTATAT-ATTATG-TAC
*
69506839 ATATTTTTATATATTATGTAT
1 ATATTTTTATATATTATGTAC
* *
69506860 ATTTCTTTTACTAT-TTCATGTAT
1 ATAT-TTTTA-TATATT-ATGTAC
69506883 ATATTTTTAT
1 ATATTTTTAT
69506893 TTCATCTCAT
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
21 13 0.20
22 33 0.51
23 19 0.29
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (21 bp):
ATATTTTTATATATTATGTAC
Found at i:69506942 original size:23 final size:24
Alignment explanation
Indices: 69506904--69506957 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
69506894 TCATCTCATG
* * *
69506904 TATAAATTTTTGAATACTATGTTA
1 TATATATTTTTGAATACCATCTTA
69506928 TATATATTTTT-AATACCATCTTA
1 TATATATTTTTGAATACCATCTTA
*
69506951 TGTATAT
1 TATATAT
69506958 ATTATTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.52
Consensus pattern (24 bp):
TATATATTTTTGAATACCATCTTA
Found at i:69507183 original size:23 final size:23
Alignment explanation
Indices: 69507157--69507202 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
69507147 CGTATGCATA
69507157 TTATTAT-TAT-TATTAGTATATGT
1 TTATTATATATGTA-TA-TATATGT
69507180 TTATTATATATGTATATATATGT
1 TTATTATATATGTATATATATGT
69507203 ATATATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 14 0.67
24 5 0.24
25 2 0.10
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (23 bp):
TTATTATATATGTATATATATGT
Found at i:69507199 original size:10 final size:10
Alignment explanation
Indices: 69507184--69507208 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
69507174 ATATGTTTAT
69507184 TATATATGTA
1 TATATATGTA
69507194 TATATATGTA
1 TATATATGTA
69507204 TATAT
1 TATAT
69507209 TTTAATAACT
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (10 bp):
TATATATGTA
Found at i:69507226 original size:25 final size:26
Alignment explanation
Indices: 69507192--69507288 Score: 89
Period size: 25 Copynumber: 3.9 Consensus size: 26
69507182 ATTATATATG
69507192 TATATATATGTATATA-TTTTAATAAC
1 TATAT-TATGTATATACTTTTAATAAC
* * *
69507218 TATATTATGTATGTATTTTTAA-CAC
1 TATATTATGTATATACTTTTAATAAC
* *
69507243 TATTTTATGTATACACTTTTAAT-A-
1 TATATTATGTATATACTTTTAATAAC
*
69507267 T-TATTATGTATTTA-TTTTAATA
1 TATATTATGTATATACTTTTAATA
69507289 CATATGTACA
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
22 7 0.12
23 10 0.17
24 1 0.02
25 30 0.51
26 11 0.19
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (26 bp):
TATATTATGTATATACTTTTAATAAC
Found at i:69507363 original size:31 final size:30
Alignment explanation
Indices: 69507298--69507364 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 30
69507288 ACATATGTAC
69507298 ATAT-TTATGTAGTATTATTAATATATTTT
1 ATATGTTATGTAGTATTATTAATATATTTT
*
69507327 TTATGTTAT-TAGTATT-TCTAATATATATTGT
1 ATATGTTATGTAGTATTAT-TAATATAT-TT-T
69507358 ATATGTT
1 ATATGTT
69507365 CATTTTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 1 0.03
29 18 0.56
30 6 0.19
31 7 0.22
ACGTcount: A:0.31, C:0.01, G:0.09, T:0.58
Consensus pattern (30 bp):
ATATGTTATGTAGTATTATTAATATATTTT
Found at i:69510492 original size:21 final size:21
Alignment explanation
Indices: 69510467--69510506 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
69510457 TTCCATACTT
*
69510467 AATTTTAATTATTAATTAATG
1 AATTTAAATTATTAATTAATG
69510488 AATTTAAATTATTAATTAA
1 AATTTAAATTATTAATTAA
69510507 ATTTAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
AATTTAAATTATTAATTAATG
Found at i:69510509 original size:18 final size:20
Alignment explanation
Indices: 69510467--69510514 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
69510457 TTCCATACTT
*
69510467 AATTTTAATTATTAATTAATG
1 AATTTAAATTATTAATTAA-G
69510488 AATTTAAATTATTAATT-A-
1 AATTTAAATTATTAATTAAG
69510506 AATTTAAAT
1 AATTTAAAT
69510515 ATCATGAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 9 0.35
20 1 0.04
21 16 0.62
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
AATTTAAATTATTAATTAAG
Found at i:69514585 original size:2 final size:2
Alignment explanation
Indices: 69514580--69514608 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
69514570 AAGAGAATAA
69514580 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
69514609 AAAAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:69524323 original size:7 final size:7
Alignment explanation
Indices: 69524311--69524337 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
69524301 GGCAGGAAAG
69524311 TGAAAAC
1 TGAAAAC
69524318 TGAAAAC
1 TGAAAAC
69524325 TGAAAAC
1 TGAAAAC
69524332 TGAAAA
1 TGAAAA
69524338 GGCTGTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.15, T:0.15
Consensus pattern (7 bp):
TGAAAAC
Found at i:69527642 original size:31 final size:31
Alignment explanation
Indices: 69527600--69527668 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
69527590 TTTAATAGCC
* **
69527600 TAATGATTTAAATAAAAACTTTCGGATAGTT
1 TAATGACTTAAATAAAAACTTTCAAATAGTT
*
69527631 TAGTGACTTAAATAAAAACTTTCAAATAGTT
1 TAATGACTTAAATAAAAACTTTCAAATAGTT
69527662 TAATGAC
1 TAATGAC
69527669 CATTTTGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (31 bp):
TAATGACTTAAATAAAAACTTTCAAATAGTT
Found at i:69528573 original size:22 final size:22
Alignment explanation
Indices: 69528526--69528573 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
69528516 TATTTAAGTT
* *
69528526 AATAATTAAATTAGTGATTTAT
1 AATAATTAAATTAGTGAATTAA
69528548 AATAATTAAA-TAGTGCAATTAA
1 AATAATTAAATTAGTG-AATTAA
69528570 AATA
1 AATA
69528574 GTGATCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (22 bp):
AATAATTAAATTAGTGAATTAA
Found at i:69529280 original size:17 final size:17
Alignment explanation
Indices: 69529258--69529299 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
69529248 AGTATGGGAA
69529258 GTAATCTTCAAAGATAT
1 GTAATCTTCAAAGATAT
*
69529275 GTAATCTTCGAAGATAT
1 GTAATCTTCAAAGATAT
*
69529292 GCAATCTT
1 GTAATCTT
69529300 AGAAGATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (17 bp):
GTAATCTTCAAAGATAT
Found at i:69529304 original size:17 final size:17
Alignment explanation
Indices: 69529268--69529306 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
69529258 GTAATCTTCA
* *
69529268 AAGATATGTAATCTTCG
1 AAGATATGCAATCTTAG
69529285 AAGATATGCAATCTTAG
1 AAGATATGCAATCTTAG
69529302 AAGAT
1 AAGAT
69529307 TTGATTCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (17 bp):
AAGATATGCAATCTTAG
Found at i:69536439 original size:14 final size:14
Alignment explanation
Indices: 69536420--69536449 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
69536410 AATGTAAGTA
69536420 ATCCATTTTAAATG
1 ATCCATTTTAAATG
*
69536434 ATCCATTTTAAGTG
1 ATCCATTTTAAATG
69536448 AT
1 AT
69536450 TTGAGAGTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (14 bp):
ATCCATTTTAAATG
Found at i:69543191 original size:28 final size:27
Alignment explanation
Indices: 69543154--69543302 Score: 87
Period size: 27 Copynumber: 5.4 Consensus size: 27
69543144 AAATAATATA
*
69543154 TAAAA-AAATAAAGTAAATAAAAAGATT
1 TAAAATAAATAAA-TAAATAAAAAGACT
*
69543181 TAAAATAAAT-AATAAATGAAACA-ACT
1 TAAAATAAATAAATAAAT-AAAAAGACT
* * *
69543207 TAAAGTAAATAATATATTAAAAAAAAG-TT
1 TAAAATAAATAA-ATA--AATAAAAAGACT
* ** *
69543236 TCAAATAAAT-AATGTATGAAAAAAACT
1 TAAAATAAATAAATAAAT-AAAAAGACT
69543263 TAAAATAAAT-AATAATAATAAAACAG-CT
1 TAAAATAAATAAAT-A-AATAAAA-AGACT
69543291 TAAAATAAATAA
1 TAAAATAAATAA
69543303 TATGAAATTT
Statistics
Matches: 92, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
25 1 0.01
26 21 0.23
27 27 0.29
28 24 0.26
29 17 0.18
30 2 0.02
ACGTcount: A:0.65, C:0.04, G:0.05, T:0.26
Consensus pattern (27 bp):
TAAAATAAATAAATAAATAAAAAGACT
Found at i:69543196 original size:26 final size:26
Alignment explanation
Indices: 69543154--69543482 Score: 151
Period size: 26 Copynumber: 12.5 Consensus size: 26
69543144 AAATAATATA
69543154 TAAAA-AAATAAAGTAAATAAAAAGATT
1 TAAAATAAAT-AA-TAAATAAAAAGATT
* *
69543181 TAAAATAAATAATAAATGAAACA-ACT
1 TAAAATAAATAATAAAT-AAAAAGATT
* * *
69543207 TAAAGTAAATAATATATTAAAAAAAAGTT
1 TAAAATAAATAATA-AAT-AAAAAGA-TT
* ** * *
69543236 TCAAATAAATAATGTATGAAAAAAACT
1 TAAAATAAATAATAAAT-AAAAAGATT
*
69543263 TAAAATAAATAATAATAATAAAACAG-CT
1 TAAAATAAATAAT-A-AATAAAA-AGATT
* **
69543291 TAAAATAAATAAT--AT-GAAATTTT
1 TAAAATAAATAATAAATAAAAAGATT
* *
69543314 TAAAATGAATAATAGATAAAACA-ATT
1 TAAAATAAATAATAAATAAAA-AGATT
* * **
69543340 TAAATTGAATATTATACGT-AAAA-ATT
1 TAAAAT-AA-ATAATAAATAAAAAGATT
* * *
69543366 TTAAATAGATAATATATAAAATAG-TT
1 TAAAATAAATAATAAATAAAA-AGATT
*
69543392 TAAAATAAATAATATTATAAATAATG-TT
1 TAAAATAAATAATA-AATAAA-AA-GATT
* *
69543420 TAAAATAACTAATAAATAAAAA-TTT
1 TAAAATAAATAATAAATAAAAAGATT
* * *
69543445 TAAAATAAACAATATATGAAAAGATT
1 TAAAATAAATAATAAATAAAAAGATT
*
69543471 TTAAATAAATAA
1 TAAAATAAATAA
69543483 GATAAGCAAG
Statistics
Matches: 233, Mismatches: 46, Indels: 47
0.71 0.14 0.14
Matches are distributed among these distances:
22 1 0.00
23 15 0.06
24 8 0.03
25 26 0.11
26 66 0.28
27 47 0.20
28 55 0.24
29 15 0.06
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (26 bp):
TAAAATAAATAATAAATAAAAAGATT
Found at i:69543272 original size:56 final size:53
Alignment explanation
Indices: 69543154--69543482 Score: 176
Period size: 55 Copynumber: 6.2 Consensus size: 53
69543144 AAATAATATA
* *
69543154 TAAAA-AAATAA-AGTAAATAAAAAGATTTAAAATAAATAATAAATGAAACAACT
1 TAAAATAAATAATAATAAA-AAAAAG-TTTAAAATAAATAATAAATGAAAAAACT
* * **
69543207 TAAAGTAAATAATATATTAAAAAAAAGTTTCAAATAAATAATGTATGAAAAAAACT
1 TAAAATAAATAATA-A-TAAAAAAAAGTTTAAAATAAATAATAAATG-AAAAAACT
* * ***
69543263 TAAAATAAATAATAATAATAAAACAGCTTAAAATAAATAAT--ATG-AAATTTT
1 TAAAATAAATAATAATAA-AAAAAAGTTTAAAATAAATAATAAATGAAAAAACT
* * * * * * * * *
69543314 TAAAATGAATAATAGAT-AAAACAA-TTTAAATTGAATATTATACGTAAAAATT
1 TAAAATAAATAATA-ATAAAAAAAAGTTTAAAATAAATAATAAATGAAAAAACT
* * * * * **
69543366 TTAAATAGATAAT-ATATAAAATAGTTTAAAATAAATAATATTAT-AAATAATGTT
1 TAAAATAAATAATAATAAAAAAAAGTTTAAAATAAATAATA-AATGAAA-AA-ACT
* * * * * * *
69543420 TAAAATAACTAAT-A-AATAAAAATTTTAAAATAAACAATATATGAAAAGATT
1 TAAAATAAATAATAATAAAAAAAAGTTTAAAATAAATAATAAATGAAAAAACT
*
69543471 TTAAATAAATAA
1 TAAAATAAATAA
69543483 GATAAGCAAG
Statistics
Matches: 213, Mismatches: 47, Indels: 34
0.72 0.16 0.12
Matches are distributed among these distances:
49 11 0.05
50 6 0.03
51 36 0.17
52 36 0.17
53 34 0.16
54 22 0.10
55 38 0.18
56 26 0.12
57 4 0.02
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (53 bp):
TAAAATAAATAATAATAAAAAAAAGTTTAAAATAAATAATAAATGAAAAAACT
Found at i:69543303 original size:28 final size:27
Alignment explanation
Indices: 69543180--69543304 Score: 112
Period size: 29 Copynumber: 4.6 Consensus size: 27
69543170 ATAAAAAGAT
** *
69543180 TTAAAATAAATAATAA-ATGAAACAAC
1 TTAAAATAAATAATAATAAAAAACAGC
* * *
69543206 TTAAAGTAAATAATATATTAAAAAAAAGT
1 TTAAAATAAATAATA-A-TAAAAAACAGC
* *
69543235 TTCAAATAAATAATGTATGAAAAAA-A-C
1 TTAAAATAAATAAT-AAT-AAAAAACAGC
69543262 TTAAAATAAATAATAATAATAAAACAGC
1 TTAAAATAAATAATAATAA-AAAACAGC
69543290 TTAAAATAAATAATA
1 TTAAAATAAATAATA
69543305 TGAAATTTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
25 2 0.03
26 20 0.25
27 15 0.19
28 18 0.23
29 24 0.30
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (27 bp):
TTAAAATAAATAATAATAAAAAACAGC
Found at i:69547062 original size:58 final size:57
Alignment explanation
Indices: 69546994--69547177 Score: 162
Period size: 58 Copynumber: 3.2 Consensus size: 57
69546984 GGGTGCTAGT
69546994 CTTCTAATGGCCAGCACTAGTACAAAAATATCAGGAATTTTTTTTTTTTGCTGCTGGC
1 CTTCTAATGGCCAGCACTAGTACAAAAATATCAGGAATTTTTTTTTTTTG-TGCTGGC
* * * * ** *
69547052 CTTCTAATGGCCGACACCACTGTAGTAAAAAAAAATTCA--AA---ATTTTTTGAGTGCTGGT
1 CTTCTAATGG-C--CAGCAC--TAGTACAAAAATA-TCAGGAATTTTTTTTTTTTGTGCTGGC
* * *
69547110 CTTTTAATGGCCGGCACCAGTACAAAAATATCAAGGAATTTTTTTTTTTTGGTGCTGGC
1 CTTCTAATGGCCAGCACTAGTACAAAAATATC-AGGAATTTTTTTTTTTT-GTGCTGGC
69547169 CTTCTAATG
1 CTTCTAATG
69547178 AACAGGCAAA
Statistics
Matches: 95, Mismatches: 18, Indels: 25
0.69 0.13 0.18
Matches are distributed among these distances:
52 2 0.02
53 11 0.12
55 6 0.06
57 1 0.01
58 31 0.33
59 23 0.24
61 5 0.05
62 2 0.02
63 11 0.12
64 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (57 bp):
CTTCTAATGGCCAGCACTAGTACAAAAATATCAGGAATTTTTTTTTTTTGTGCTGGC
Found at i:69547135 original size:116 final size:118
Alignment explanation
Indices: 69546921--69547177 Score: 419
Period size: 116 Copynumber: 2.2 Consensus size: 118
69546911 AAAAAAATAA
* *
69546921 TTTTGGTGCTGGCCTTCTAATGGCCGGCACCACTCTAGTAAAAAAAAATTTTCAAAATTTTTTGG
1 TTTTGGTGCTGGCCTTCTAATGGCCGACACCACTCTAGTAAAAAAAAA-TTTCAAAATTTTTTGA
*
69546986 GTGCTAGTCTTCTAATGGCCAGCACTAGTACAAAAATATC-AGGAATTTTTTTT
65 GTGCTAGTCTTCTAATGGCCAGCACCAGTACAAAAATATCAAGGAATTTTTTTT
* *
69547039 TTTTGCTGCTGGCCTTCTAATGGCCGACACCACTGTAGTAAAAAAAAA-TTCAAAATTTTTTGAG
1 TTTTGGTGCTGGCCTTCTAATGGCCGACACCACTCTAGTAAAAAAAAATTTCAAAATTTTTTGAG
* * *
69547103 TGCTGGTCTTTTAATGGCCGGCACCAGTACAAAAATATCAAGGAATTTTTTTT
66 TGCTAGTCTTCTAATGGCCAGCACCAGTACAAAAATATCAAGGAATTTTTTTT
69547156 TTTTGGTGCTGGCCTTCTAATG
1 TTTTGGTGCTGGCCTTCTAATG
69547178 AACAGGCAAA
Statistics
Matches: 129, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
116 50 0.39
117 34 0.26
118 45 0.35
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (118 bp):
TTTTGGTGCTGGCCTTCTAATGGCCGACACCACTCTAGTAAAAAAAAATTTCAAAATTTTTTGAG
TGCTAGTCTTCTAATGGCCAGCACCAGTACAAAAATATCAAGGAATTTTTTTT
Found at i:69557495 original size:17 final size:17
Alignment explanation
Indices: 69557473--69557533 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
69557463 ACAATAATAT
69557473 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
69557490 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
69557507 ATAATATAGT-TA--TA-
1 AAAATATA-TATATGTAC
69557521 AAAATATATATAT
1 AAAATATATATAT
69557534 TAAATTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 9 0.24
15 2 0.05
17 23 0.61
18 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:69558306 original size:16 final size:14
Alignment explanation
Indices: 69558285--69558321 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 14
69558275 TTTTGTTGTT
69558285 TTTTTTTGCTAGAAAA
1 TTTTTTTGCT-G-AAA
69558301 TTTTTTTGCTGAAA
1 TTTTTTTGCTGAAA
69558315 TTTTTTT
1 TTTTTTT
69558322 TTGCTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.48
15 1 0.05
16 10 0.48
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (14 bp):
TTTTTTTGCTGAAA
Found at i:69558322 original size:15 final size:16
Alignment explanation
Indices: 69558284--69558322 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
69558274 TTTTTGTTGT
69558284 TTTTTTTTGCTAGAAA
1 TTTTTTTTGCTAGAAA
*
69558300 ATTTTTTTGCT-GAAA
1 TTTTTTTTGCTAGAAA
69558315 TTTTTTTT
1 TTTTTTTT
69558323 TGCTCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.21, C:0.05, G:0.10, T:0.64
Consensus pattern (16 bp):
TTTTTTTTGCTAGAAA
Found at i:69558322 original size:16 final size:17
Alignment explanation
Indices: 69558283--69558326 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
69558273 TTTTTTGTTG
69558283 TTTTTTTTTGCTAGAAA
1 TTTTTTTTTGCTAGAAA
*
69558300 -ATTTTTTTGCT-GAAA
1 TTTTTTTTTGCTAGAAA
69558315 TTTTTTTTTGCT
1 TTTTTTTTTGCT
69558327 CTTTTTTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.18, C:0.07, G:0.11, T:0.64
Consensus pattern (17 bp):
TTTTTTTTTGCTAGAAA
Found at i:69558605 original size:30 final size:30
Alignment explanation
Indices: 69558570--69558664 Score: 129
Period size: 30 Copynumber: 3.2 Consensus size: 30
69558560 GTTAAAATAC
* *
69558570 AATTTAAGGAAAGTTTAGGGGTCTAAGTGA
1 AATTTAAGGAAAGTTTAGGGGTCAAAATGA
* *
69558600 AATTTAAAGAAAGTTTAAGGGTCAAAATGA
1 AATTTAAGGAAAGTTTAGGGGTCAAAATGA
*
69558630 AATTT-AGGAAAAGTTTAGGGGTCAAAATGC
1 AATTTAAGG-AAAGTTTAGGGGTCAAAATGA
69558660 AATTT
1 AATTT
69558665 TTATTTTTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 2 0.04
30 55 0.96
ACGTcount: A:0.42, C:0.04, G:0.24, T:0.29
Consensus pattern (30 bp):
AATTTAAGGAAAGTTTAGGGGTCAAAATGA
Found at i:69558688 original size:24 final size:24
Alignment explanation
Indices: 69558661--69558706 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
69558651 TCAAAATGCA
*
69558661 ATTTTTATTTTTTGAAATTTTTTT
1 ATTTTTATTTTTTGAAAATTTTTT
*
69558685 ATTTTTATTTTTTTAAAATTTT
1 ATTTTTATTTTTTGAAAATTTT
69558707 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (24 bp):
ATTTTTATTTTTTGAAAATTTTTT
Found at i:69559065 original size:75 final size:74
Alignment explanation
Indices: 69558892--69559174 Score: 300
Period size: 78 Copynumber: 3.7 Consensus size: 74
69558882 AACCCGAAGT
* *
69558892 TCAACTCACCTCTCG-AATTATGAGTTGATCTTTTGAAAAAGCAAAAAATTGAAAATACCTCAGC
1 TCAACTCACCTCTCGCAA-TATGAGTTGATTTTTTGAAAAA-C-AGAAATTGAAAATACCTCA--
* *
69558956 GTGTGACCTGGGGC
61 GTGTGTCCTGAGGC
* * *
69558970 TTAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAATGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAGTGT
*
69559035 GTCTTGAGGC
65 GTCCTGAGGC
** * * * *
69559045 TCAACTCATTTCTCGCAATATGAGTTGACTTTTTTTTTTAAAAAAAGGAATTGAAATTACCTCAG
1 TCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTGAAAAACAGAAATTGAAAATACCTCAG
*
69559110 TGTGTCCCGAGGC
62 TGTGTCCTGAGGC
* * *
69559123 TCAACTCACCTCTCGTAATATGAATTGA-TTTTTGAAAAACATAAATTGAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAA
69559175 ACGAAAATCG
Statistics
Matches: 172, Mismatches: 28, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
73 19 0.11
75 35 0.20
77 18 0.10
78 88 0.51
79 12 0.07
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (74 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAGTGTG
TCCTGAGGC
Found at i:69559212 original size:165 final size:165
Alignment explanation
Indices: 69559010--69559489 Score: 476
Period size: 172 Copynumber: 2.8 Consensus size: 165
69559000 TTTTTGAAAG
* * **
69559010 ACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGACT
1 ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
* * * * *
69559075 TTTT-T-T-TT-TAAAAAA-AGGAATTGAAATTACCTCAGTGTGTCCC-GAGGCTCAACTCACCT
65 TTTTATATATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTG-CCCTAAGGCTCAACTCACCT
*
69559134 CTCGTAATATGAATTGATTTTTGAAAAACA-TAAATTGAAAA
129 CTCGCAATATGAATTGA--TTT-AAAAACAGT-AATT-AAAA
* *
69559175 AC-GAAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGTTGAT
1 ACAG-AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
69559239 TTTTGAAAAATATAGATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAAC
65 TTTT-----ATAT--ATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAAC
* * *
69559304 TCACCTCTCGCAATATGAGTTGATTTAAAAACAGTCATTAAGA
123 TCACCTCTCGCAATATGAATTGATTTAAAAACAGTAATTAAAA
* * ** *
69559347 ACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCATAATATGAATTGATT
1 ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * *
69559412 TTTGCAAAATATAAATT-G-AAAAACATAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACT
66 TTT-----ATAT--ATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACT
*
69559475 CACCTCTTGCAATAT
124 CACCTCTCGCAATAT
69559490 AAGTCGACTT
Statistics
Matches: 271, Mismatches: 28, Indels: 27
0.83 0.09 0.08
Matches are distributed among these distances:
164 6 0.02
165 55 0.20
170 57 0.21
171 2 0.01
172 74 0.27
173 11 0.04
174 6 0.02
175 9 0.03
176 51 0.19
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (165 bp):
ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTATATATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCT
CGCAATATGAATTGATTTAAAAACAGTAATTAAAA
Found at i:69559230 original size:87 final size:87
Alignment explanation
Indices: 69559084--69559489 Score: 500
Period size: 87 Copynumber: 4.7 Consensus size: 87
69559074 TTTTTTTTTT
* * * * * *
69559084 AAAAAAAGGAATTGAAATTACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
69559149 GATTTTTGAAAAACATAAATTG
66 GATTTTTGAAAAACATAAATTG
* * * *
69559171 AAAAAC-GAAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAAT
* *
69559235 TGATTTTTGAAAAATATAGATTGG
65 TGATTTTTGAAAAACATAAATT-G
* * *
69559259 AAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
1 -AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAAT
*
69559324 TGA--TTT-AAAAACAGT-CATT-
65 TGATTTTTGAAAAACA-TAAATTG
* * **
69559343 AAGAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCATAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
* *
69559408 GATTTTTGCAAAATATAAATTG
66 GATTTTTGAAAAACATAAATTG
* * * *
69559430 AAAAACATAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTTGCAATAT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
69559490 AAGTCGACTT
Statistics
Matches: 272, Mismatches: 37, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
83 60 0.22
85 4 0.01
86 18 0.07
87 128 0.47
88 1 0.00
89 60 0.22
90 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
GATTTTTGAAAAACATAAATTG
Found at i:69559412 original size:172 final size:174
Alignment explanation
Indices: 69559084--69559489 Score: 531
Period size: 172 Copynumber: 2.4 Consensus size: 174
69559074 TTTTTTTTTT
* * * *
69559084 AAAAAA-AGGAATTGAAATTACCTCAGTGTGTCCC-GAGGCTCAACTCACCTCTCGTAATATGAA
1 AAAAAACAGAAATTGAAATTACCTCAGCGTG-CCCTAAGGCTCAACTCACCTCTCGCAATATGAA
*
69559147 TTGATTTTTGAAAAACATAAATTGAAAAACGAAAATCGAAAATACCTCAACGTGTCCTGAGGCTC
65 TTGA-TTTTGAAAAACATAAATTGAAAAACGAAAATCAAAAATACCTCAACGTGTCCTGAGGCTC
* * * *
69559212 AATTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAGATTGG
129 AACTCACCTCTCACAATATGAATTGATTTTTGAAAAATATAAATT-G
* *
69559259 AAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAAACAGAAATTGAAATTACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGAAT
* * * *
69559324 TGA-TTT-AAAAACAGT-CATT-AAGAAC-AGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTC
66 TGATTTTGAAAAACA-TAAATTGAAAAACGA-AAATCAAAAATACCTCAACGTGTCCTGAGGCTC
* *
69559384 AACTCACCTCTCATAATATGAATTGATTTTTGCAAAATATAAATTG
129 AACTCACCTCTCACAATATGAATTGATTTTTGAAAAATATAAATTG
* * *
69559430 -AAAAACATAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTTGCAATAT
1 AAAAAACAGAAATTGAAATTACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATAT
69559490 AAGTCGACTT
Statistics
Matches: 206, Mismatches: 21, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
170 56 0.27
171 2 0.01
172 74 0.36
173 10 0.05
174 4 0.02
175 9 0.04
176 51 0.25
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (174 bp):
AAAAAACAGAAATTGAAATTACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGAAT
TGATTTTGAAAAACATAAATTGAAAAACGAAAATCAAAAATACCTCAACGTGTCCTGAGGCTCAA
CTCACCTCTCACAATATGAATTGATTTTTGAAAAATATAAATTG
Found at i:69559439 original size:14 final size:14
Alignment explanation
Indices: 69559417--69559446 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
69559407 TGATTTTTGC
*
69559417 AAAATATAAATTGA
1 AAAACATAAATTGA
69559431 AAAACATAAATTGA
1 AAAACATAAATTGA
69559445 AA
1 AA
69559447 TTACCTCAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAACATAAATTGA
Found at i:69562662 original size:5 final size:5
Alignment explanation
Indices: 69562652--69562714 Score: 126
Period size: 5 Copynumber: 12.6 Consensus size: 5
69562642 TTTAGTATAT
69562652 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
69562702 TATTA TATTA TAT
1 TATTA TATTA TAT
69562715 AAACTAAAGA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 58 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:69564005 original size:15 final size:15
Alignment explanation
Indices: 69563985--69564041 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
69563975 CGATGAATTT
69563985 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
69564000 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
69564015 ATTGAATTTATATTG
1 ATTGAATTTATATTG
*
69564030 GTTGAA-TTATAT
1 ATTGAATTTATAT
69564042 AATATATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 6 0.16
15 31 0.84
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:69564472 original size:21 final size:21
Alignment explanation
Indices: 69564415--69564476 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
69564405 TTTATCGATC
69564415 AGGCACTTTATGTGTCGTATTTT
1 AGGCACTTTATGTGTCG--TTTT
* **
69564438 AGGCACCTCGTGTGTCGTTTT
1 AGGCACTTTATGTGTCGTTTT
69564459 AGGCACTTTATGTGTCGT
1 AGGCACTTTATGTGTCGT
69564477 ATACTGATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 19 0.58
23 14 0.42
ACGTcount: A:0.15, C:0.18, G:0.26, T:0.42
Consensus pattern (21 bp):
AGGCACTTTATGTGTCGTTTT
Found at i:69574956 original size:17 final size:17
Alignment explanation
Indices: 69574934--69574994 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
69574924 ACAATAATAT
69574934 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
69574951 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
69574968 ATAATATAGT-TA--TA-
1 AAAATATA-TATATGTAC
69574982 AAAATATATATAT
1 AAAATATATATAT
69574995 TAAATTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 9 0.24
15 2 0.05
17 23 0.61
18 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:69580369 original size:30 final size:30
Alignment explanation
Indices: 69580335--69580394 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
69580325 CAAATTATGA
*
69580335 TTGTTTATGTTCCTTTTTTTTTTGTGTGTG
1 TTGTTTATGTTCCCTTTTTTTTTGTGTGTG
69580365 TTGTTTATGTTCCCTTTTTTTTTGTGTGTG
1 TTGTTTATGTTCCCTTTTTTTTTGTGTGTG
69580395 ATAAAGCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.03, C:0.08, G:0.20, T:0.68
Consensus pattern (30 bp):
TTGTTTATGTTCCCTTTTTTTTTGTGTGTG
Found at i:69585549 original size:17 final size:17
Alignment explanation
Indices: 69585527--69585565 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
69585517 TCAGGACACT
69585527 AATTTGAGT-TAATCAAC
1 AATTTG-GTCTAATCAAC
69585544 AATTT-GTCTAATCAAC
1 AATTTGGTCTAATCAAC
69585560 AATTTG
1 AATTTG
69585566 TCAATATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.10
16 13 0.65
17 5 0.25
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (17 bp):
AATTTGGTCTAATCAAC
Found at i:69585557 original size:16 final size:16
Alignment explanation
Indices: 69585536--69585567 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
69585526 TAATTTGAGT
69585536 TAATCAACAATTTGTC
1 TAATCAACAATTTGTC
69585552 TAATCAACAATTTGTC
1 TAATCAACAATTTGTC
69585568 AATATTGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
TAATCAACAATTTGTC
Found at i:69594027 original size:21 final size:21
Alignment explanation
Indices: 69594001--69594220 Score: 176
Period size: 21 Copynumber: 10.5 Consensus size: 21
69593991 GCTTGTAAGC
*
69594001 TGAACAGAAACTCTTAAGAGT
1 TGAACAGAAACTCATAAGAGT
*
69594022 TGAACA-AAAGCTCATAAGAGC
1 TGAACAGAAA-CTCATAAGAGT
*
69594043 TGAACAAAAACTCATAAGAGT
1 TGAACAGAAACTCATAAGAGT
* * *
69594064 TGAA-AAAAAGCTCGTAAGAGC
1 TGAACAGAAA-CTCATAAGAGT
* * *
69594085 TAAACAGAAACTCGTATGAGT
1 TGAACAGAAACTCATAAGAGT
* * * *
69594106 TAAATAGAAGCTCATAAGAGC
1 TGAACAGAAACTCATAAGAGT
* *
69594127 TGAACAGAAACTCTTAAAAGT
1 TGAACAGAAACTCATAAGAGT
* **
69594148 TGAATAGAAGGTCA-ATAGAGT
1 TGAACAGAAACTCATA-AGAGT
*
69594169 TGAACGGAAACTCATAAGAGT
1 TGAACAGAAACTCATAAGAGT
* * * *
69594190 TAAATAGAAACTCGTAAGAGC
1 TGAACAGAAACTCATAAGAGT
*
69594211 TAAACAGAAA
1 TGAACAGAAA
69594221 GTAAAACACA
Statistics
Matches: 158, Mismatches: 35, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
20 9 0.06
21 141 0.89
22 8 0.05
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.20
Consensus pattern (21 bp):
TGAACAGAAACTCATAAGAGT
Found at i:69594046 original size:42 final size:42
Alignment explanation
Indices: 69593998--69594220 Score: 243
Period size: 42 Copynumber: 5.3 Consensus size: 42
69593988 GAAGCTTGTA
* *
69593998 AGCTGAACAGAAACTCTTAAGAGTTGAACAAAAGCTCATAAG
1 AGCTGAACAGAAACTCATAAGAGTTGAATAAAAGCTCATAAG
* * *
69594040 AGCTGAACAAAAACTCATAAGAGTTGAAAAAAAGCTCGTAAG
1 AGCTGAACAGAAACTCATAAGAGTTGAATAAAAGCTCATAAG
* * * * *
69594082 AGCTAAACAGAAACTCGTATGAGTTAAATAGAAGCTCATAAG
1 AGCTGAACAGAAACTCATAAGAGTTGAATAAAAGCTCATAAG
* * * *
69594124 AGCTGAACAGAAACTCTTAAAAGTTGAATAGAAGGTCA-ATAG
1 AGCTGAACAGAAACTCATAAGAGTTGAATAAAAGCTCATA-AG
* * * *
69594166 AGTTGAACGGAAACTCATAAGAGTTAAATAGAAA-CTCGTAAG
1 AGCTGAACAGAAACTCATAAGAGTTGAATA-AAAGCTCATAAG
*
69594208 AGCTAAACAGAAA
1 AGCTGAACAGAAA
69594221 GTAAAACACA
Statistics
Matches: 149, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
41 1 0.01
42 145 0.97
43 3 0.02
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (42 bp):
AGCTGAACAGAAACTCATAAGAGTTGAATAAAAGCTCATAAG
Found at i:69595479 original size:20 final size:21
Alignment explanation
Indices: 69595432--69595479 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
69595422 ATAATAAAAT
69595432 ATAAA-TAA-ATTTGATTTAA
1 ATAAACTAATATTTGATTTAA
69595451 ATAAACTAATATTT-ATTTAA
1 ATAAACTAATATTTGATTTAA
* *
69595471 TTAATCTAA
1 ATAAACTAA
69595480 AATATCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.20
20 16 0.64
21 4 0.16
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (21 bp):
ATAAACTAATATTTGATTTAA
Found at i:69596876 original size:3 final size:3
Alignment explanation
Indices: 69596870--69597139 Score: 118
Period size: 3 Copynumber: 88.3 Consensus size: 3
69596860 TGAATTTCTA
* * *
69596870 TAT TAT TAT TAT TAT TAT TGT TGT TACT TAT TAT TAT TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * *
69596916 GTACA TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT CAT TAT TAT
1 -TA-T TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* *
69596963 TAT TAT TA- TATT TAT TAT TAT TATT TAT AAA TAT TAGT GTA- TAT T-T
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TA-T -TAT TAT TAT
* *
69597009 TAT T-T TAA TAT CAT TA- TAT TAT GT-T TACT T-T T-T TGAAT T-T CTA-
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT T--AT TAT -TAT
* * * *
69597052 TAT TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAC TGT TAT GTACA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT -TA-T
* *
69597100 TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
69597140 TATAAATACT
Statistics
Matches: 205, Mismatches: 30, Indels: 64
0.69 0.10 0.21
Matches are distributed among these distances:
2 24 0.12
3 150 0.73
4 27 0.13
5 4 0.02
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:69596903 original size:22 final size:23
Alignment explanation
Indices: 69596875--69596927 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
69596865 TTCTATATTA
*
69596875 TTATTATTATTATTGTTGT-TAC
1 TTATTATTATTATTGTTATGTAC
69596897 TTATTATTATTATTGTTATGTAC
1 TTATTATTATTATTGTTATGTAC
*
69596920 ATATTATT
1 TTATTATT
69596928 TATACTATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.26, C:0.04, G:0.08, T:0.62
Consensus pattern (23 bp):
TTATTATTATTATTGTTATGTAC
Found at i:69602729 original size:50 final size:50
Alignment explanation
Indices: 69602605--69602853 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
69602595 GATAATAACA
* * ** * *
69602605 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
69602656 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
69602706 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
69602756 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
69602811 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
69602854 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:69602783 original size:100 final size:104
Alignment explanation
Indices: 69602604--69602853 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
69602594 TGATAATAAC
**
69602604 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
69602669 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
69602706 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
69602769 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
69602811 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
69602854 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:69602969 original size:13 final size:13
Alignment explanation
Indices: 69602948--69602979 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
69602938 GCTTGGATCA
*
69602948 TCATCAAATAAAT
1 TCATAAAATAAAT
69602961 TCATAAAATAAAT
1 TCATAAAATAAAT
69602974 TCATAA
1 TCATAA
69602980 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:69612251 original size:151 final size:146
Alignment explanation
Indices: 69611957--69612783 Score: 877
Period size: 151 Copynumber: 5.5 Consensus size: 146
69611947 TGATATTTTT
* * *
69611957 ATTTCTATTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACA-GTTGAGGT
1 ATTTCTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGT
* * * * *
69612021 AATTTT-TATTTCT-ATTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
66 -ATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGAC
*
69612083 ACGTTGAGGTAATTTCA
130 ACGCTGAGGTAATTTCA
* * * *
69612100 ATTTTTATTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTTAAGACATGCTGAGGT
1 ATTTCTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGT
* *
69612165 ATTTTGAATTTCTGTTTTTCAAAAACAACAATCGACTCATATTGCGAGAAGTGAGTTGAGCCTCA
66 ATTTTCAATTTCTGTTTTTC---AA-AA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA
69612230 GGACACGCTGAGGTAATTTCA
126 GGACACGCTGAGGTAATTTCA
* * * * * *
69612251 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGTAATGAGTTGAACCTCAAGACACGTTGAGGT
1 ATTTCTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGT
*
69612316 ATTTTCAATTTATG-TTTTC-AAAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTC-GGTT
66 ATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAGG--
* *
69612377 CACATGCTGAGGTATTTTCA
128 -ACACGCTGAGGTAATTTCA
* ** * * *
69612397 ATTTCTATCTTTCAAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTAAGCCTCAGGGCATGCT
1 ATTTCTAT-TTTC----AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCT
** * * *
69612462 GAGGTATTGGCAATTTTTGTTTCTTAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGA
61 GAGGTATTTTCAATTTCTGTTT-TTCA---A------AAAA-TCAACTCATATTGCGAGAAGTGA
* *
69612527 GTTGAGCCTCAAGACACGTTGAGGTAATTTCA
115 GTTGAGCCTCAGGACACGCTGAGGTAATTTCA
69612559 ATTTCTATTTTCAAAAAAATCAACTCATATTGC-AGAAATGAGTTGAGCCTCAAGACATGCTGAG
1 ATTTCTATTTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAG
* * *
69612623 GTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC--ATTGCGAG-AGGGAGTTGAGCCTCAGG
64 GTATTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG
*
69612685 ACGCGCTGAGGTAATTTCA
128 ACACGCTGAGGTAATTTCA
* ** * * *
69612704 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAAGGCACGCTGAGG
1 ATTTCT-ATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGG
69612769 TATTTTCAATTTCTG
65 TATTTTCAATTTCTG
69612784 CTTTCCAATT
Statistics
Matches: 580, Mismatches: 68, Indels: 70
0.81 0.09 0.10
Matches are distributed among these distances:
143 61 0.11
144 63 0.11
145 86 0.15
146 38 0.07
147 4 0.01
148 7 0.01
149 5 0.01
150 7 0.01
151 174 0.30
152 2 0.00
153 2 0.00
155 1 0.00
157 3 0.01
158 43 0.07
159 20 0.03
161 4 0.01
162 24 0.04
163 4 0.01
164 30 0.05
165 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (146 bp):
ATTTCTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGT
ATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTCA
Found at i:69612336 original size:223 final size:221
Alignment explanation
Indices: 69611969--69612780 Score: 1003
Period size: 223 Copynumber: 3.6 Consensus size: 221
69611959 TTCTATTTTC
* * * * * **
69611969 AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACA-GTTGAGGTAATTTTTATTTC
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
*
69612033 TATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
66 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
* * *
69612098 CAATTTTTATTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTTAAGACATGCTGAG
131 CAATTTATATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTAAGACATGCTGAG
* *
69612163 GTATTTTGAATTTCTGTTTTTCAAAA
196 GTATTTTCAATTTCTGTCTTTCAAAA
*
69612189 ACAACAATCGACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 A-AA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* * *
69612254 TCTGTTTTCAAAATTCAACTCATATTGCGAGTAATGAGTTGAACCTCAAGACACGTTGAGGTATT
64 TCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAAT
* * **
69612319 TTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGT-TCACATG
129 TTCAATTTATATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT---TAAGACATG
*
69612383 CTGAGGTATTTTCAATTTCTATCTTTCAAAA
191 CTGAGGTATTTTCAATTTCTGTCTTTCAAAA
* * * * *
69612414 AAAAATCAACTCATAATGCGAGAGGTGAGTTAAGCCTCAGGGCATGCTGAGGTATTGGCAATTTT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGG---T---AA----
*
69612479 TGTTTCTTAATTTATG-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
56 --TTTC--AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
*
69612543 CGTTGAGGTAATTTCAATTTCTATTTTCAAAAAAATCAACTCATATTGC-AGAAATGAGTTGAGC
117 CGTTGAGGTAATTTCAATTTATATTTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
* *
69612607 CTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTC--AA
180 CTTAAGACATGCTGAGGTATTTTCAATTTCTGTCTTTCAAAA
* *
69612647 AAAAATCAACTC--ATTGCGAG-AGGGAGTTGAGCCTCAGGACGCGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* ** * * * *
69612709 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAAGGCACGCTGAGGTATTT
66 TG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATT
69612774 TCAATTT
130 TCAATTT
69612781 CTGCTTTCCA
Statistics
Matches: 512, Mismatches: 55, Indels: 52
0.83 0.09 0.08
Matches are distributed among these distances:
216 7 0.01
218 65 0.13
220 1 0.00
221 2 0.00
222 36 0.07
223 167 0.33
224 4 0.01
225 34 0.07
226 2 0.00
227 1 0.00
229 2 0.00
230 23 0.04
231 7 0.01
233 14 0.03
235 34 0.07
236 71 0.14
237 23 0.04
238 19 0.04
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (221 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
CAATTTATATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTAAGACATGCTGAG
GTATTTTCAATTTCTGTCTTTCAAAA
Found at i:69612613 original size:73 final size:74
Alignment explanation
Indices: 69612499--69612782 Score: 364
Period size: 73 Copynumber: 3.9 Consensus size: 74
69612489 TTTATGTTTC
* *
69612499 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
69612564 TATTTTCAA
66 TATTTTCAA
* * *
69612573 AAAAATCAACTCATATTGC-AGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
*
69612637 TGTCTTTCAA
66 TAT-TTTCAA
** * *
69612647 AAAAATCAACTC--ATTGCGAG-AGGGAGTTGAGCCTCAGGACGCGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
*
69612709 TGTTTTTC--
66 T-ATTTTCAA
** * * *
69612717 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAAGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
69612782 T
66 T
69612783 GCTTTCCAAT
Statistics
Matches: 183, Mismatches: 21, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
70 12 0.07
72 53 0.29
73 82 0.45
74 36 0.20
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
TATTTTCAA
Found at i:69612783 original size:73 final size:74
Alignment explanation
Indices: 69611964--69612783 Score: 787
Period size: 72 Copynumber: 11.0 Consensus size: 74
69611954 TTTATTTCTA
* * * *
69611964 TTTTC-AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACA-GTTGAGGTAATTTT
1 TTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
* *
69612027 TATTTCT-A
66 AATTTCTGT
* *
69612035 TTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
1 TTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
69612099 AATTT-T-T
66 AATTTCTGT
* * * * *
69612106 ATTTTC-AAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTTAAGACATGCTGAGGTATTTT
1 -TTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTT
*
69612170 GAATTTCTGT
65 CAATTTCTGT
* * *
69612180 TTTTCAAAAACAACAATCGACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTA
1 TTTTC---AA-AA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTA
69612245 ATTTCAATTTCTG-
61 ATTTCAATTTCTGT
* * * * *
69612258 TTTTC-AAAATTCAACTCATATTGCGAGTAATGAGTTGAACCTCAAGACACGTTGAGGTATTTTC
1 TTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
*
69612322 AATTTATG-
66 AATTTCTGT
* * * *
69612330 TTTTC-AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGTTCACATGCTGAGGTATT
1 TTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGCTGAGGTAAT
*
69612393 TTCAATTTCTAT
63 TTCAATTTCTGT
* * ** * * * *
69612405 CTTTCAAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTAAGCCTCAGGGCATGCTGAGGT-AT
1 TTTTC---AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAAT
* *
69612469 TGGCAATTTTTGT
63 T-TCAATTTCTGT
* *
69612482 TTCTTAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TT-TTCA---A------AAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
*
69612547 GAGGTAATTTCAATTTCT-A
55 GAGGTAATTTCAATTTCTGT
* *
69612566 TTTTCAAAAAAATCAACTCATATTGC-AGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTT
1 TTTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTT
*
69612630 CAATTTTTGT
65 CAATTTCTGT
* ** * *
69612640 CTTTCAAAAAAATCAACTC--ATTGCGAG-AGGGAGTTGAGCCTCAGGACGCGCTGAGGTAATTT
1 TTTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTT
69612702 CAATTTCTGT
65 CAATTTCTGT
** * * *
69612712 TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAAGGCACGCTGAGGTATTTTC
1 TTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
69612776 AATTTCTG
66 AATTTCTG
69612784 CTTTCCAATT
Statistics
Matches: 630, Mismatches: 81, Indels: 74
0.80 0.10 0.09
Matches are distributed among these distances:
70 12 0.02
71 50 0.08
72 229 0.36
73 89 0.14
74 56 0.09
75 9 0.01
76 2 0.00
77 21 0.03
78 10 0.02
79 90 0.14
80 2 0.00
81 1 0.00
83 2 0.00
84 7 0.01
85 47 0.07
86 3 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (74 bp):
TTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
AATTTCTGT
Found at i:69612794 original size:14 final size:15
Alignment explanation
Indices: 69612775--69612803 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
69612765 GAGGTATTTT
69612775 CAATTTCTG-CTTTC
1 CAATTTCTGCCTTTC
69612789 CAATTTCTGCCTTTC
1 CAATTTCTGCCTTTC
69612804 AAAAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.14, C:0.31, G:0.07, T:0.48
Consensus pattern (15 bp):
CAATTTCTGCCTTTC
Found at i:69614852 original size:19 final size:19
Alignment explanation
Indices: 69614828--69614864 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
69614818 AATTTCTATA
*
69614828 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
69614847 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
69614865 TGTACATATT
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:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:69614898 original size:24 final size:24
Alignment explanation
Indices: 69614871--69614929 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
69614861 GTTATGTACA
*
69614871 TATTATTTATACTATACTTAATAT
1 TATTATTTATACTACACTTAATAT
* * *
69614895 TATTA-TTATTATTACATTTACTAT
1 TATTATTTA-TACTACACTTAATAT
69614919 TATTATTTATA
1 TATTATTTATA
69614930 AATATTAGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 3 0.10
24 23 0.79
25 3 0.10
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (24 bp):
TATTATTTATACTACACTTAATAT
Found at i:69614925 original size:3 final size:3
Alignment explanation
Indices: 69614826--69614908 Score: 53
Period size: 3 Copynumber: 26.7 Consensus size: 3
69614816 TGAATTTCTA
* * * *
69614826 TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T TAT
* *
69614874 TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT TA
1 TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA
69614909 CATTTACTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
2 3 0.05
3 50 0.81
4 9 0.15
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:69615019 original size:18 final size:17
Alignment explanation
Indices: 69614998--69615039 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
69614988 TTTAACATTA
*
69614998 TTATATTTACTATTATAT
1 TTATATTT-CTAATATAT
*
69615016 TTATATATCTAATATAT
1 TTATATTTCTAATATAT
69615033 TT-TATTT
1 TTATATTT
69615040 TATTTTCCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 4 0.19
17 10 0.48
18 7 0.33
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATATTTCTAATATAT
Found at i:69615103 original size:3 final size:3
Alignment explanation
Indices: 69615097--69615150 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
69615087 CTATTATTGC
* * *
69615097 TAT TAT TGT TGT TAT TAT TAT TAT TAT TAT TAT TA- TATT TAT ATAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT -TAT
69615143 TAT TAT TA
1 TAT TAT TA
69615151 ATAGGTACTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
2 2 0.05
3 38 0.86
4 4 0.09
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:69615103 original size:12 final size:12
Alignment explanation
Indices: 69615088--69615130 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
69615078 GTATTTTTAC
*
69615088 TATTATTGCTAT
1 TATTATTGTTAT
*
69615100 TATTGTTGTTAT
1 TATTATTGTTAT
*
69615112 TATTATTATTAT
1 TATTATTGTTAT
69615124 TATTATT
1 TATTATT
69615131 ATATTTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (12 bp):
TATTATTGTTAT
Found at i:69618591 original size:17 final size:17
Alignment explanation
Indices: 69618565--69618612 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
69618555 ACATTATTAG
*
69618565 AAAATTTAAAAATTAAT-
1 AAAATATAAAAATT-ATC
69618582 AAAATATAAAAATT-TC
1 AAAATATAAAAATTATC
69618598 AAAA-ATAAAAATTAT
1 AAAATATAAAAATTAT
69618613 TTAAAAGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 10 0.36
16 5 0.18
17 13 0.46
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATATAAAAATTATC
Found at i:69618618 original size:17 final size:18
Alignment explanation
Indices: 69618551--69618618 Score: 54
Period size: 17 Copynumber: 3.9 Consensus size: 18
69618541 TACAAATTTT
* *
69618551 TAAAACATTATTAGAAAATT
1 TAAAA-ATTATT-TAAAATA
*
69618571 TAAAAATTA-ATAAAATA
1 TAAAAATTATTTAAAATA
*
69618588 TAAAAA-T-TTCAAAA-A
1 TAAAAATTATTTAAAATA
69618603 TAAAAATTATTTAAAA
1 TAAAAATTATTTAAAA
69618619 GTTAAGTCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
15 7 0.18
16 6 0.15
17 17 0.44
19 4 0.10
20 5 0.13
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (18 bp):
TAAAAATTATTTAAAATA
Found at i:69619272 original size:18 final size:17
Alignment explanation
Indices: 69619249--69619299 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
69619239 TAAAAATTTA
69619249 TTTAATATTTTTATATAT
1 TTTAATATTTTTATA-AT
69619267 TTTAATAATGTTTTATAAT
1 TTTAAT-AT-TTTTATAAT
*
69619286 TTTATAAATTTTTA
1 TTTA-ATATTTTTA
69619300 AAGAAATGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 11 0.38
19 10 0.34
20 8 0.28
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTAATATTTTTATAAT
Found at i:69634760 original size:23 final size:23
Alignment explanation
Indices: 69634667--69634778 Score: 67
Period size: 23 Copynumber: 4.9 Consensus size: 23
69634657 AGTATTTGAG
*
69634667 AATATATACATAAGATGATAT-AA
1 AATATATACATAATAT-ATATAAA
* *
69634690 AATACATACATGGAATAGTATA-AGA
1 AATATATACAT--AATA-TATATAAA
**
69634715 AATATATA-ACTAATGGCAT-TAAA
1 AATATATACA-TAAT-ATATATAAA
69634738 AATATATACATAATATATAT-AA
1 AATATATACATAATATATATAAA
*
69634760 AATACAT--ATAATATATATA
1 AATATATACATAATATATATA
69634779 CGTATTAGAA
Statistics
Matches: 69, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
20 11 0.16
22 10 0.14
23 30 0.43
24 2 0.03
25 15 0.22
26 1 0.01
ACGTcount: A:0.55, C:0.06, G:0.07, T:0.31
Consensus pattern (23 bp):
AATATATACATAATATATATAAA
Found at i:69634763 original size:11 final size:11
Alignment explanation
Indices: 69634736--69634778 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
69634726 AATGGCATTA
*
69634736 AAAATATATAC
1 AAAATATATAT
*
69634747 ATAATATATAT
1 AAAATATATAT
*
69634758 AAAATACATAT
1 AAAATATATAT
*
69634769 AATATATATA
1 AAAATATATA
69634779 CGTATTAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATATATAT
Found at i:69635320 original size:11 final size:12
Alignment explanation
Indices: 69635306--69635341 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
69635296 AAAAAAAAAA
69635306 GAAGAGAG-AGG
1 GAAGAGAGAAGG
69635317 GAAGAGAGAAGG
1 GAAGAGAGAAGG
69635329 G-AGAGAGAAGG
1 GAAGAGAGAAGG
69635340 GA
1 GA
69635342 GGGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:69635450 original size:13 final size:13
Alignment explanation
Indices: 69635432--69635491 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
69635422 GAAAAGGTAA
*
69635432 ATTTTTTATTTTT
1 ATTTTTTATTTAT
69635445 ATTTTTTATATT-T
1 ATTTTTTAT-TTAT
* * *
69635458 GTTTTGTATATAT
1 ATTTTTTATTTAT
69635471 A-TTTTTA-TTAT
1 ATTTTTTATTTAT
69635482 ATTTTTTATT
1 ATTTTTTATT
69635492 ATGATGTATA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
11 4 0.11
12 12 0.32
13 19 0.51
14 2 0.05
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (13 bp):
ATTTTTTATTTAT
Found at i:69635560 original size:17 final size:17
Alignment explanation
Indices: 69635538--69635576 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
69635528 GGGAAAAATA
*
69635538 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
69635555 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
69635572 AAAAT
1 AAAAT
69635577 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:69637105 original size:21 final size:20
Alignment explanation
Indices: 69637076--69637114 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
69637066 TTAAAATAAT
69637076 AAATGAATTTCAAAATTCTA
1 AAATGAATTTCAAAATTCTA
69637096 AAATGTAATTTCAAAATTC
1 AAATG-AATTTCAAAATTC
69637115 AAGTTATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (20 bp):
AAATGAATTTCAAAATTCTA
Found at i:69644113 original size:15 final size:15
Alignment explanation
Indices: 69644093--69644126 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
69644083 ACCTCTATGG
69644093 CTGAGTTCCTTGAAT
1 CTGAGTTCCTTGAAT
69644108 CTGAGTTCCTTGAAT
1 CTGAGTTCCTTGAAT
69644123 CTGA
1 CTGA
69644127 ATTCAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (15 bp):
CTGAGTTCCTTGAAT
Found at i:69647101 original size:3 final size:3
Alignment explanation
Indices: 69647093--69647117 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
69647083 GAGGACATGG
69647093 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
69647118 TGAATGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:69647177 original size:12 final size:12
Alignment explanation
Indices: 69647155--69647191 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
69647145 AGATAAGAGG
69647155 AGGAG-GAGAAT
1 AGGAGAGAGAAT
69647166 AGGAGAGAGAAT
1 AGGAGAGAGAAT
69647178 AGGAGAGAGAAT
1 AGGAGAGAGAAT
69647190 AG
1 AG
69647192 AGATTTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.49, C:0.00, G:0.43, T:0.08
Consensus pattern (12 bp):
AGGAGAGAGAAT
Found at i:69649541 original size:35 final size:35
Alignment explanation
Indices: 69649479--69649564 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
69649469 TTTTATTTGT
*
69649479 TTTA-ATTATATAATTAATGATATTTAAA-TATAA
1 TTTATATTATATAATTAATGATAATTAAATTATAA
*
69649512 TTTATATTATATGAATTTATGATAATTAAATTATAA
1 TTTATATTATAT-AATTAATGATAATTAAATTATAA
* *
69649548 -TGATATTATATTATTAA
1 TTTATATTATATAATTAA
69649565 ATAAATTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.09
34 11 0.24
35 25 0.56
36 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (35 bp):
TTTATATTATATAATTAATGATAATTAAATTATAA
Found at i:69649550 original size:25 final size:23
Alignment explanation
Indices: 69649506--69649566 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
69649496 TGATATTTAA
*
69649506 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
69649530 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
69649555 ATATTATTAAAT
1 ATATAATTAAAT
69649567 AAATTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:69649943 original size:16 final size:15
Alignment explanation
Indices: 69649917--69649947 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
69649907 AACAGAGCAG
69649917 GAAAGAAAAAGGAAA
1 GAAAGAAAAAGGAAA
69649932 GAAAGAAGAAAGGAAA
1 GAAAGAA-AAAGGAAA
69649948 AATTCAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
GAAAGAAAAAGGAAA
Found at i:69649986 original size:13 final size:13
Alignment explanation
Indices: 69649968--69649999 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
69649958 TTAAAGCTTG
69649968 AAGTTTAATTGGT
1 AAGTTTAATTGGT
69649981 AAGTTTAATTGGT
1 AAGTTTAATTGGT
69649994 AAGTTT
1 AAGTTT
69650000 CATCAAGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (13 bp):
AAGTTTAATTGGT
Found at i:69650708 original size:40 final size:40
Alignment explanation
Indices: 69650658--69650744 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 40
69650648 AATTATGGAA
* * * *
69650658 TACTGAATATTGTTTTGAGCATTAAATTGAATTGTGAAGT
1 TACTAAATATTGTTATGAGCATTAAATTGAACTGTGAAAT
* * **
69650698 TACTAAATATTGTTATGTGTATTGCATTGAACTGTGAAAT
1 TACTAAATATTGTTATGAGCATTAAATTGAACTGTGAAAT
69650738 TACTAAA
1 TACTAAA
69650745 GTAATGAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (40 bp):
TACTAAATATTGTTATGAGCATTAAATTGAACTGTGAAAT
Found at i:69657021 original size:13 final size:13
Alignment explanation
Indices: 69657005--69657070 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
69656995 CTTAAACCAA
*
69657005 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
* *
69657018 ACTTCTCAAAATC
1 ACTTTTCAAAAGC
*
69657031 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
*
69657044 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
*
69657057 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
69657070 A
1 A
69657071 ATGCTAAACT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
12 3 0.07
13 35 0.83
14 4 0.10
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:69660041 original size:43 final size:44
Alignment explanation
Indices: 69659992--69660138 Score: 192
Period size: 43 Copynumber: 3.4 Consensus size: 44
69659982 GATTACCGAG
* * *
69659992 ATGTGATTACATGTAAGAACATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
*
69660036 -TGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
* * * *
69660078 ATGTGATTTCGTGTAAGACCCTGTCTAGGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
*
69660121 ATGTGATAACATGTAAGA
1 ATGTGATTACATGTAAGA
69660139 TCATATTTGG
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.01
43 90 0.99
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
Found at i:69664048 original size:20 final size:20
Alignment explanation
Indices: 69664020--69664058 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
69664010 CTGGTTACAA
*
69664020 ATTTTTAAAATAACATATTG
1 ATTTATAAAATAACATATTG
* *
69664040 ATTTATAAATTAATATATT
1 ATTTATAAAATAACATATT
69664059 TTATTAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
ATTTATAAAATAACATATTG
Found at i:69668629 original size:30 final size:30
Alignment explanation
Indices: 69668594--69668690 Score: 149
Period size: 30 Copynumber: 3.1 Consensus size: 30
69668584 ACTTATTTTA
*
69668594 TTGTTAATTTTATTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
69668624 TTGTTAATTTTGTTATTATTTTAGAGGCATTT
1 TTGTTAATTTTGTTATTATTTTAGAGGCA--T
69668656 GCTTGTTAATTTTGTTATTATTTTAGAGGCAT
1 --TTGTTAATTTTGTTATTATTTTAGAGGCAT
69668688 TTG
1 TTG
69668691 CTTGTTAAGT
Statistics
Matches: 62, Mismatches: 1, Indels: 8
0.87 0.01 0.11
Matches are distributed among these distances:
30 31 0.50
32 2 0.03
34 29 0.47
ACGTcount: A:0.23, C:0.04, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGGCAT
Found at i:69668667 original size:34 final size:34
Alignment explanation
Indices: 69668594--69668698 Score: 173
Period size: 34 Copynumber: 3.2 Consensus size: 34
69668584 ACTTATTTTA
*
69668594 TTGTTAATTTTATTATTATTTTAGAGGCA--T--
1 TTGTTAATTTTGTTATTATTTTAGAGGCATTTGC
69668624 TTGTTAATTTTGTTATTATTTTAGAGGCATTTGC
1 TTGTTAATTTTGTTATTATTTTAGAGGCATTTGC
69668658 TTGTTAATTTTGTTATTATTTTAGAGGCATTTGC
1 TTGTTAATTTTGTTATTATTTTAGAGGCATTTGC
69668692 TTGTTAA
1 TTGTTAA
69668699 GTTGCATCTA
Statistics
Matches: 70, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
30 28 0.40
32 1 0.01
34 41 0.59
ACGTcount: A:0.23, C:0.05, G:0.16, T:0.56
Consensus pattern (34 bp):
TTGTTAATTTTGTTATTATTTTAGAGGCATTTGC
Found at i:69669054 original size:20 final size:20
Alignment explanation
Indices: 69669031--69669069 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
69669021 ATAATAGTCA
69669031 AAATTTTTATAATCTATAAT
1 AAATTTTTATAATCTATAAT
* *
69669051 AAATTTTTTTAATTTATAA
1 AAATTTTTATAATCTATAA
69669070 CAACCATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
AAATTTTTATAATCTATAAT
Found at i:69669959 original size:20 final size:21
Alignment explanation
Indices: 69669934--69669975 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
69669924 AAAATAACAT
*
69669934 TTAC-GGGCCTTAAAAAGAGC
1 TTACGGGGCCCTAAAAAGAGC
*
69669954 TTACGGGGCCCTAAAAATAGC
1 TTACGGGGCCCTAAAAAGAGC
69669975 T
1 T
69669976 CGGGAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (21 bp):
TTACGGGGCCCTAAAAAGAGC
Found at i:69675924 original size:19 final size:18
Alignment explanation
Indices: 69675877--69675926 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
69675867 TTGAGTGAGC
* *
69675877 GTATTTTTTTTTCTTTTT
1 GTATTTTTTTTTCATTAT
*
69675895 GTATTCATTTTTTCATTAT
1 GTATT-TTTTTTTCATTAT
*
69675914 GTAATTTTTTTTC
1 GTATTTTTTTTTC
69675927 TCTTTTAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.14, C:0.08, G:0.06, T:0.72
Consensus pattern (18 bp):
GTATTTTTTTTTCATTAT
Found at i:69676391 original size:21 final size:21
Alignment explanation
Indices: 69676362--69676401 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
69676352 TAATGCCACA
*
69676362 TCAACATTTTCATCTTGAATT
1 TCAACATTTTCATCGTGAATT
*
69676383 TCAAGATTTTCATCGTGAA
1 TCAACATTTTCATCGTGAA
69676402 AAAAAATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (21 bp):
TCAACATTTTCATCGTGAATT
Found at i:69679874 original size:12 final size:13
Alignment explanation
Indices: 69679845--69679878 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
69679835 AAATATTTTG
69679845 ATTTAA-TAATTA
1 ATTTAATTAATTA
69679857 ATTTAATTAATTA
1 ATTTAATTAATTA
69679870 A-TTAATTAA
1 ATTTAATTAA
69679879 AAACAAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 14 0.67
13 7 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTTAATTAATTA
Found at i:69682535 original size:26 final size:26
Alignment explanation
Indices: 69682506--69682566 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
69682496 TATCCCAAGC
** *
69682506 TCCTGATTAAAGGTTCTTCGTGAGCT
1 TCCTGATTAAAAATTCTTCGTGAACT
*
69682532 TCCTGATTAAAAATTCTTTGTGAACT
1 TCCTGATTAAAAATTCTTCGTGAACT
69682558 TCCTGATTA
1 TCCTGATTA
69682567 TGGCTCTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (26 bp):
TCCTGATTAAAAATTCTTCGTGAACT
Found at i:69688939 original size:53 final size:51
Alignment explanation
Indices: 69688791--69689004 Score: 171
Period size: 52 Copynumber: 4.3 Consensus size: 51
69688781 TGACTGAAAA
* *
69688791 GATGTGATATGTGCTTTCGTATAAGACCATAGT-TGGGCTATGGCATCG-GT
1 GATGTGATATGTGATTCCGTATAAGACCATA-TCTGGGCTATGGCATCGTGT
* * *
69688841 ACAATGTGATTCATGT--TCCCGTATAAGACCATAGCTGGGCTATGGCATCAGTGT
1 --GATGTGA-T-ATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATC-GTGT
* *
69688895 GATGTGATAATGTGATTCCGTATAAGACCATATCTGAGATATGGCATCG-GT
1 GATGTGAT-ATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGTGT
* ** * *
69688946 -ATGT--TATGTGA-TCCGTGTAAGACCATGGCAGGGCTATGGCTTCG-GT
1 GATGTGATATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGTGT
*
69688992 G-TGTGATGTGTGA
1 GATGTGATATGTGA
69689005 CAATATGAAA
Statistics
Matches: 134, Mismatches: 18, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
46 31 0.23
47 6 0.04
48 7 0.05
50 4 0.03
51 7 0.05
52 42 0.31
53 31 0.23
54 6 0.04
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (51 bp):
GATGTGATATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGTGT
Found at i:69688984 original size:46 final size:47
Alignment explanation
Indices: 69688798--69689001 Score: 160
Period size: 46 Copynumber: 4.1 Consensus size: 47
69688788 AAAGATGTGA
* * *
69688798 TATGTGCTTTCGTATAAGACCATAGTTGGGCTATGGCATCGGTACAATGT
1 TATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT---ATGT
* *
69688848 GAT-TCATGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCAGTGTGATGT
1 TATGTGA--TT-CCGTATAAGACCATAGCTGGGCTATGGCATC-G-GT-ATGT
* * *
69688900 GATAATGTGATTCCGTATAAGACCATATCTGAGATATGGCATCGGTATGT
1 --T-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATGT
* * * * *
69688950 TATGTGA-TCCGTGTAAGACCATGGCAGGGCTATGGCTTCGGTGTGT
1 TATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATGT
*
69688996 GATGTG
1 TATGTG
69689002 TGACAATATG
Statistics
Matches: 125, Mismatches: 20, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
46 36 0.29
47 6 0.05
48 1 0.01
49 1 0.01
50 6 0.05
51 4 0.03
52 34 0.27
53 29 0.23
54 4 0.03
55 2 0.02
56 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (47 bp):
TATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATGT
Found at i:69693778 original size:33 final size:33
Alignment explanation
Indices: 69693736--69693800 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
69693726 TCCCTGACAA
69693736 GATTAAATCATAAAAGCACTTAATTAGCAAGGG
1 GATTAAATCATAAAAGCACTTAATTAGCAAGGG
*
69693769 GATTAAATCATAAAAGCACTTAATTAGTAAGG
1 GATTAAATCATAAAAGCACTTAATTAGCAAGG
69693801 TTCAGTTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (33 bp):
GATTAAATCATAAAAGCACTTAATTAGCAAGGG
Found at i:69700134 original size:23 final size:22
Alignment explanation
Indices: 69700108--69700166 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 22
69700098 TCAAATTTTG
69700108 AGTTAATTGAATCAAGTTA-TTTA
1 AGTTAATTGAAT-AAG-TAGTTTA
* *
69700131 AGTTAAATTAAATAAGTAGTTTG
1 AGTT-AATTGAATAAGTAGTTTA
69700154 AGTTAAGTTGAAT
1 AGTTAA-TTGAAT
69700167 TTTACAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 4 0.13
23 19 0.63
24 7 0.23
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.41
Consensus pattern (22 bp):
AGTTAATTGAATAAGTAGTTTA
Found at i:69700292 original size:19 final size:19
Alignment explanation
Indices: 69700250--69700306 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
69700240 TTGTCTCTAA
*
69700250 AAAAATTCAATATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
*
69700269 CAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
69700288 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
69700306 A
1 A
69700307 TTTTTTTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 11 0.33
19 22 0.67
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:69700345 original size:18 final size:18
Alignment explanation
Indices: 69700324--69700367 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
69700314 TGAAAGATAT
* * *
69700324 AATTTTTTTTAATTTTAA
1 AATTTTTATAAATTTAAA
*
69700342 AATTTATATAAATTTAAA
1 AATTTTTATAAATTTAAA
69700360 AATTTTTA
1 AATTTTTA
69700368 AAAAATAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTTTTATAAATTTAAA
Found at i:69702919 original size:18 final size:18
Alignment explanation
Indices: 69702896--69702933 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
69702886 TCGAAATTTT
69702896 ATTTTAATATTT-TTATGC
1 ATTTTAAT-TTTATTATGC
69702914 ATTTTAATTTTATTATGC
1 ATTTTAATTTTATTATGC
69702932 AT
1 AT
69702934 AATTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (18 bp):
ATTTTAATTTTATTATGC
Found at i:69703215 original size:18 final size:18
Alignment explanation
Indices: 69703169--69703228 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
69703159 CACCTCTATA
69703169 TTTTAAGTATAT-ATAA-T
1 TTTTAA-TATATAATAATT
*
69703186 TTTTACA-CTATAATAATT
1 TTTTA-ATATATAATAATT
*
69703204 TTTTAATATATAATTATT
1 TTTTAATATATAATAATT
69703222 ATTTTAA
1 -TTTTAA
69703229 AAGAATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 3 0.09
17 10 0.29
18 16 0.46
19 6 0.17
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (18 bp):
TTTTAATATATAATAATT
Found at i:69711089 original size:39 final size:38
Alignment explanation
Indices: 69711022--69711095 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 38
69711012 CATATTAATT
*
69711022 TTTTATTTTTAATTTTTAAACTTATTTTGATAAAATAAG
1 TTTTATTTTTAACTTTTAAACTTATTTTGA-AAAATAAG
69711061 TTTTATTTTATAACTTTTAAA--TATTTTTGAAAAAT
1 TTTTATTTT-TAACTTTTAAACTTA-TTTTGAAAAAT
69711096 TTTCAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
38 7 0.22
39 15 0.47
40 10 0.31
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (38 bp):
TTTTATTTTTAACTTTTAAACTTATTTTGAAAAATAAG
Found at i:69727281 original size:21 final size:20
Alignment explanation
Indices: 69727256--69727297 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
69727246 ATTTAAAATT
69727256 TTAATTTTAATTAAATAATAG
1 TTAA-TTTAATTAAATAATAG
* *
69727277 TTAATTTCATTAAATTATAG
1 TTAATTTAATTAAATAATAG
69727297 T
1 T
69727298 ATTTCTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (20 bp):
TTAATTTAATTAAATAATAG
Found at i:69741221 original size:20 final size:20
Alignment explanation
Indices: 69741196--69741235 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
69741186 ACATGGCTGA
*
69741196 TTTGATGCTTATGTGATCCC
1 TTTGATGCTTATATGATCCC
69741216 TTTGATGCTTATATGATCCC
1 TTTGATGCTTATATGATCCC
69741236 CTGCAAGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.45
Consensus pattern (20 bp):
TTTGATGCTTATATGATCCC
Found at i:69743989 original size:2 final size:2
Alignment explanation
Indices: 69743982--69744011 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
69743972 TATGAAAGGA
69743982 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
69744012 GTTGGAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:69746991 original size:17 final size:17
Alignment explanation
Indices: 69746969--69747004 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
69746959 CACTTAATTT
*
69746969 ACATATATTACTGAAAC
1 ACATATATCACTGAAAC
*
69746986 ACATATATCACTGTAAC
1 ACATATATCACTGAAAC
69747003 AC
1 AC
69747005 TTTCATCACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (17 bp):
ACATATATCACTGAAAC
Found at i:69747012 original size:17 final size:17
Alignment explanation
Indices: 69746992--69747029 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
69746982 AAACACATAT
* *
69746992 ATCACTGTAACACTTTC
1 ATCACTATAACACTTGC
69747009 ATCACTATAACACTTGC
1 ATCACTATAACACTTGC
69747026 ATCA
1 ATCA
69747030 GTGAAGCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (17 bp):
ATCACTATAACACTTGC
Found at i:69748689 original size:43 final size:43
Alignment explanation
Indices: 69748641--69748722 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
69748631 AAGATCATGA
* * *
69748641 CTTTTAGCGGCGTTTGTGGGATAAGCACCGCTAAAAGTCCTAG
1 CTTTTAACGGCATTTGTGGGATAAACACCGCTAAAAGTCCTAG
*
69748684 CTTTTAACGGCATTTGTGGGATAAACGCCGCTAAAAGTC
1 CTTTTAACGGCATTTGTGGGATAAACACCGCTAAAAGTC
69748723 ATGAGCGGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (43 bp):
CTTTTAACGGCATTTGTGGGATAAACACCGCTAAAAGTCCTAG
Found at i:69751463 original size:15 final size:15
Alignment explanation
Indices: 69751439--69751472 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
69751429 AATTTTAATC
69751439 ATTTTTTTAAAT-TT
1 ATTTTTTTAAATATT
69751453 ATTTATTTTAAATATT
1 ATTT-TTTTAAATATT
69751469 ATTT
1 ATTT
69751473 GTTATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 8 0.44
16 6 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTTTAAATATT
Found at i:69751525 original size:24 final size:22
Alignment explanation
Indices: 69751451--69751527 Score: 57
Period size: 24 Copynumber: 3.3 Consensus size: 22
69751441 TTTTTTAAAT
*
69751451 TTATTTATTTTAAATATTATTTG
1 TTATTTATTTTAATTATT-TTTG
***
69751474 TTATTTATTTATACATATAAAATT-
1 TTATTTATTT-TA-AT-TATTTTTG
69751498 TTATTTATTTGTATATTATTTTTG
1 TTATTTATTT-TA-ATTATTTTTG
69751522 TTATTT
1 TTATTT
69751528 TCAAGTATAT
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
23 14 0.34
24 22 0.54
25 3 0.07
26 2 0.05
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (22 bp):
TTATTTATTTTAATTATTTTTG
Found at i:69751550 original size:7 final size:7
Alignment explanation
Indices: 69751533--69751609 Score: 56
Period size: 7 Copynumber: 11.4 Consensus size: 7
69751523 TATTTTCAAG
69751533 TATAT-T
1 TATATAT
69751539 TATATAT
1 TATATAT
69751546 TATATTAT
1 TATA-TAT
*
69751554 T-TATTAA
1 TATA-TAT
69751561 TATATAT
1 TATATAT
69751568 TAT-T-T
1 TATATAT
*
69751573 TATATTT
1 TATATAT
*
69751580 TA-AAAT
1 TATATAT
*
69751586 TATACAT
1 TATATAT
69751593 TATATAT
1 TATATAT
*
69751600 TACATAT
1 TATATAT
69751607 TAT
1 TAT
69751610 CATGTATAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
5 4 0.07
6 11 0.19
7 36 0.63
8 6 0.11
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (7 bp):
TATATAT
Found at i:69751578 original size:20 final size:22
Alignment explanation
Indices: 69751539--69751606 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
69751529 CAAGTATATT
*
69751539 TATATATTATATTATTTATTAA
1 TATATATTATATTATATATTAA
* *
69751561 TATATATTATTTTATATTTTAA
1 TATATATTATATTATATATTAA
* *
69751583 AAT-TA-TACATTATATATTACA
1 TATATATTATATTATATATTA-A
69751604 TAT
1 TAT
69751607 TATCATGTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
20 11 0.30
21 5 0.14
22 21 0.57
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (22 bp):
TATATATTATATTATATATTAA
Found at i:69751742 original size:22 final size:22
Alignment explanation
Indices: 69751708--69751768 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
69751698 ATTACATTAT
*
69751708 TTTATTCTT-TTATAT-TTTATA
1 TTTATT-TTATTATATATATATA
69751729 TGTTATTTTATTATATATATATA
1 T-TTATTTTATTATATATATATA
*
69751752 TTTATATTATTA-ATATA
1 TTTATTTTATTATATATA
69751769 GTATTACACT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 8 0.23
22 21 0.60
23 6 0.17
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTATTTTATTATATATATATA
Found at i:69751747 original size:19 final size:19
Alignment explanation
Indices: 69751716--69751761 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
69751706 ATTTTATTCT
* *
69751716 TTTATATTTTATATGT-TA
1 TTTATATTATATATATATA
69751734 TTT-TATTATATATATATA
1 TTTATATTATATATATATA
69751752 TTTATATTAT
1 TTTATATTAT
69751762 TAATATAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.42
18 8 0.33
19 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTATATTATATATATATA
Found at i:69751761 original size:27 final size:25
Alignment explanation
Indices: 69751703--69751762 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 25
69751693 TTATCATTAC
* *
69751703 ATTATTTTATTCTTTTATATTTTAT
1 ATTATTTTATTATTATATATTTTAT
69751728 ATGTTATTTTATTATATATATATATTTAT
1 A--TTATTTTATTAT-TATATAT-TTTAT
69751757 ATTATT
1 ATTATT
69751763 AATATAGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
25 1 0.03
27 16 0.55
28 6 0.21
29 6 0.21
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
ATTATTTTATTATTATATATTTTAT
Found at i:69751767 original size:19 final size:19
Alignment explanation
Indices: 69751732--69751773 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
69751722 TTTTATATGT
69751732 TATTTTATTATATATATA-
1 TATTTTATTATATATATAG
69751750 TATTTATATTAT-TAATATAG
1 TATTT-TATTATAT-ATATAG
69751770 TATT
1 TATT
69751774 ACACTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.29
19 11 0.52
20 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TATTTTATTATATATATAG
Done.