Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 8 of 47
Found at i:1042535 original size:33 final size:33
Alignment explanation
Indices: 1042493--1042559 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1042483 AGTAGCTTAA
1042493 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1042526 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1042559 A
1 A
1042560 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1042638 original size:21 final size:21
Alignment explanation
Indices: 1042597--1042638 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1042587 GTTGGGACCT
*
1042597 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
1042618 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
1042639 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:1043639 original size:20 final size:21
Alignment explanation
Indices: 1043614--1043671 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 21
1043604 TAAAACCCAG
1043614 AATGTATCGATACAATGAATA
1 AATGTATCGATACAATGAATA
1043635 ATGTATGTATCGATACAATGAAT-
1 A---ATGTATCGATACAATGAATA
1043658 AATGTATCGATACA
1 AATGTATCGATACA
1043672 TCTAGGTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
20 13 0.38
21 1 0.03
23 1 0.03
24 19 0.56
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (21 bp):
AATGTATCGATACAATGAATA
Found at i:1043647 original size:24 final size:24
Alignment explanation
Indices: 1043615--1043664 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
1043605 AAAACCCAGA
1043615 ATGTATCGATACAATGAATAATGT
1 ATGTATCGATACAATGAATAATGT
1043639 ATGTATCGATACAATGAATAATGT
1 ATGTATCGATACAATGAATAATGT
1043663 AT
1 AT
1043665 CGATACATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (24 bp):
ATGTATCGATACAATGAATAATGT
Found at i:1043681 original size:74 final size:73
Alignment explanation
Indices: 1043566--1043714 Score: 228
Period size: 74 Copynumber: 2.0 Consensus size: 73
1043556 AAAGGCCTGA
* *
1043566 ATGTATCGATACATTGAGAAATTATCGATACATATGGGTAAAACCCAGAATGTATCGATACAATG
1 ATGTATCGATACAATGAGAAATTATCGATACATATAGGTAAAACCCAGAATGTATCGATACAATG
*
1043631 AATAATGT
66 AAGAATGT
* *
1043639 ATGTATCGATACAATGA-ATAATGTATCGATACATCTAGGTAAAACCCAGAATGTATTGATACAA
1 ATGTATCGATACAATGAGA-AAT-TATCGATACATATAGGTAAAACCCAGAATGTATCGATACAA
1043703 TGAAGAATGT
64 TGAAGAATGT
1043713 AT
1 AT
1043715 CGATACAAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
72 1 0.01
73 19 0.28
74 49 0.71
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (73 bp):
ATGTATCGATACAATGAGAAATTATCGATACATATAGGTAAAACCCAGAATGTATCGATACAATG
AAGAATGT
Found at i:1044847 original size:34 final size:34
Alignment explanation
Indices: 1044808--1044901 Score: 107
Period size: 37 Copynumber: 2.7 Consensus size: 34
1044798 ATCTTTATTA
* *
1044808 AGTGTGTTAGGTAAATATATTAGGTATATTAGGT
1 AGTGTGTTAGGTAAATATATTAAGTATACTAGGT
* * *
1044842 GGTGTGTTAGGTGAGTAATATATTAAGTGTGCTAGGT
1 AGTGTGTTAGGT-A--AATATATTAAGTATACTAGGT
*
1044879 AGTGTGTTAGGTAAACATATTAA
1 AGTGTGTTAGGTAAATATATTAA
1044902 ATATGTTAGG
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
34 20 0.40
35 1 0.02
36 1 0.02
37 28 0.56
ACGTcount: A:0.31, C:0.02, G:0.29, T:0.38
Consensus pattern (34 bp):
AGTGTGTTAGGTAAATATATTAAGTATACTAGGT
Found at i:1044912 original size:34 final size:34
Alignment explanation
Indices: 1044808--1044913 Score: 122
Period size: 34 Copynumber: 3.0 Consensus size: 34
1044798 ATCTTTATTA
* *
1044808 AGTGTGTTAGGTAAATATATTAGGTATATTAGGT
1 AGTGTGTTAGGTAAATATATTAAGTATGTTAGGT
* * *
1044842 GGTGTGTTAGGTGAGTAATATATTAAGTGTGCTAGGT
1 AGTGTGTTAGGT-A--AATATATTAAGTATGTTAGGT
* *
1044879 AGTGTGTTAGGTAAACATATTAAATATGTTAGGT
1 AGTGTGTTAGGTAAATATATTAAGTATGTTAGGT
1044913 A
1 A
1044914 AACATATCTT
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
34 29 0.49
35 1 0.02
36 1 0.02
37 28 0.47
ACGTcount: A:0.31, C:0.02, G:0.28, T:0.39
Consensus pattern (34 bp):
AGTGTGTTAGGTAAATATATTAAGTATGTTAGGT
Found at i:1051304 original size:2 final size:2
Alignment explanation
Indices: 1051297--1051327 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1051287 TTCATTAATC
1051297 TA 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 T
1051328 GTAAACTTCC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1051838 original size:2 final size:2
Alignment explanation
Indices: 1051831--1051895 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
1051821 TCTTTAGTGT
1051831 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1051873 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
1051896 TAGTTGAAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1053754 original size:5 final size:5
Alignment explanation
Indices: 1053744--1053776 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
1053734 ATGTAAGAAT
1053744 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA
1053777 TTTGCAGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:1056271 original size:3 final size:3
Alignment explanation
Indices: 1056263--1056293 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
1056253 ATTTGGAGAT
1056263 GAA GAA GAA GAA GAA GAA GAA GAGA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GA-A GAA GAA
1056294 AGAGAAGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:1056500 original size:3 final size:3
Alignment explanation
Indices: 1056492--1056522 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1056482 AGCAGAACCC
*
1056492 ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1056523 AATGAACATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:1057372 original size:17 final size:17
Alignment explanation
Indices: 1057346--1057379 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1057336 AAAATAAATT
*
1057346 ATTTTTTTATATTTAAA
1 ATTTTATTATATTTAAA
*
1057363 ATTTTATTATTTTTAAA
1 ATTTTATTATATTTAAA
1057380 TAAAATAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTATTATATTTAAA
Found at i:1057691 original size:20 final size:21
Alignment explanation
Indices: 1057662--1057704 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
1057652 TTTTTTTAAT
*
1057662 TATTAATCTATTTAA-AAAAA
1 TATTAATCTATTAAATAAAAA
*
1057682 TATTACTCTATTAAATAAAAA
1 TATTAATCTATTAAATAAAAA
1057703 TA
1 TA
1057705 CTTATATTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (21 bp):
TATTAATCTATTAAATAAAAA
Found at i:1061284 original size:18 final size:17
Alignment explanation
Indices: 1061263--1061297 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1061253 CTTAAAATTT
1061263 ATATAATAAAAATTATTA
1 ATAT-ATAAAAATTATTA
*
1061281 ATATATTAAAATTATTA
1 ATATATAAAAATTATTA
1061298 TAAATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATATAAAAATTATTA
Found at i:1061306 original size:17 final size:17
Alignment explanation
Indices: 1061271--1061309 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1061261 TTATATAATA
*
1061271 AAAATTATTAATATATT
1 AAAATTATTAAAATATT
1061288 AAAATTATTATAAAT-TT
1 AAAATTATTA-AAATATT
1061305 AAAAT
1 AAAAT
1061310 ACTTTTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTATTAAAATATT
Found at i:1061469 original size:12 final size:13
Alignment explanation
Indices: 1061447--1061477 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
1061437 CAAAATAGGT
1061447 TTTTTTAAAAATA
1 TTTTTTAAAAATA
1061460 TTTTTT-AAAATA
1 TTTTTTAAAAATA
1061472 TTTTTT
1 TTTTTT
1061478 TACGAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTTTAAAAATA
Found at i:1061486 original size:14 final size:13
Alignment explanation
Indices: 1061446--1061479 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
1061436 TCAAAATAGG
1061446 TTTTTTTAAAA-A
1 TTTTTTTAAAATA
1061458 TATTTTTTAAAATA
1 T-TTTTTTAAAATA
1061472 TTTTTTTA
1 TTTTTTTA
1061480 CGAATATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.05
13 17 0.85
14 2 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTTTTAAAATA
Found at i:1061811 original size:16 final size:13
Alignment explanation
Indices: 1061774--1061801 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1061764 GATATTTGTT
1061774 AAATAATTTTATC
1 AAATAATTTTATC
1061787 AAATAATTTTATC
1 AAATAATTTTATC
1061800 AA
1 AA
1061802 GTTATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
AAATAATTTTATC
Found at i:1061928 original size:23 final size:23
Alignment explanation
Indices: 1061878--1061928 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
1061868 TAAACTTATA
*
1061878 AATTTGTTTTTATTTTAAGATAT
1 AATTTATTTTTATTTTAAGATAT
*
1061901 GATTTATTTTTATTTGTAAGAT-T
1 AATTTATTTTTATTT-TAAGATAT
1061924 AATTT
1 AATTT
1061929 GATTAAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (23 bp):
AATTTATTTTTATTTTAAGATAT
Found at i:1062030 original size:10 final size:10
Alignment explanation
Indices: 1062015--1062039 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1062005 TGAAGATATA
1062015 ATTTATTTTT
1 ATTTATTTTT
1062025 ATTTATTTTT
1 ATTTATTTTT
1062035 ATTTA
1 ATTTA
1062040 ATTATTTGAG
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:1062158 original size:73 final size:72
Alignment explanation
Indices: 1062047--1063414 Score: 1229
Period size: 72 Copynumber: 18.7 Consensus size: 72
1062037 TTAATTATTT
* * * *
1062047 GAGTTTAAATTTTTATAGTATAATTTATTATGATTTGTAAAAGTTTAAATATATTTTTAGGTATG
1 GAGTTTAAATTTTTATGGTATAATTTATTTTTATTTGTAGAAGTTTAAATATATTTTTAGGTATG
1062112 ATTATAC
66 ATTATAC
* * * * * *
1062119 GATTTTAAATTTTTGATGGTGTAATTTATTTTTATTTGTAGAAATTTAAAATTGTTTTTTTAGTT
1 GAGTTTAAATTTTT-ATGGTATAATTTATTTTTATTTGTAGAAGTTT-AAA-TATATTTTTAGGT
* *
1062184 TTGATTATAT
63 ATGATTATAC
* * * * * * *
1062194 AAGTTTAAATTTTTA-GGATATTATTTATCTTTATTTATAAAAGTTTAAATTTATTTTT-GAGCA
1 GAGTTTAAATTTTTATGG-TATAATTTATTTTTATTTGTAGAAGTTTAAATATATTTTTAG-GTA
1062257 TGATTATAC
64 TGATTATAC
* * * * * *
1062266 GAGTTTAAATTTTTAAGATTTAATTTATTTTTATTTATAGAAGTTTAAATATGTTTTTTGGGTAT
1 GAGTTTAAATTTTTATGGTATAATTTATTTTTATTTGTAGAAGTTTAAATAT-ATTTTTAGGTAT
*
1062331 AATTATAC
65 GATTATAC
* * *
1062339 AAGTTTAAATTTTTGATGGTATAATTTA-TTTTATTTTATAGAAATTTAAATATATTTTTTAGGT
1 GAGTTTAAATTTTT-ATGGTATAATTTATTTTTA-TTTGTAGAAGTTTAAATATA-TTTTTAGGT
1062403 ATGATTATAC
63 ATGATTATAC
* * * *
1062413 GAGTTTATATATTTGATGGTATAATTTATTTTTATTTGTAAAAGTTTAAATATGTTTTTTA-GT-
1 GAGTTTAAAT-TTTTATGGTATAATTTATTTTTATTTGTAGAAGTTTAAATAT-ATTTTTAGGTA
*
1062476 TGATTATAT
64 TGATTATAC
* * * * *
1062485 GAGTTTACATTTTTATGGTATTATTTATCTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATG
1 GAGTTTAAATTTTTATGGTATAATTTATTTTTATTTGTAGAAGTTTAAATATATTTTTAGGTATG
*
1062550 ATTATAT
66 ATTATAC
** * * * *
1062557 GAGTTTAAATTTTTAAAG-AGTAATTTATTTTTATTTGTAGAAGCTTAAATGTGTTTTTTGAGTA
1 GAGTTTAAATTTTTATGGTA-TAATTTATTTTTATTTGTAGAAGTTTAAATATATTTTTAG-GTA
*
1062621 TGATTATAT
64 TGATTATAC
* * * * *
1062630 GAGTTTATATTTTTATGGTATAATTTATTTTCATTTGTAGAAATTTAAATTTGTTTTTTAGGT-T
1 GAGTTTAAATTTTTATGGTATAATTTATTTTTATTTGTAGAAGTTTAAATAT-ATTTTTAGGTAT
1062694 GATTATAC
65 GATTATAC
* * * * * * * * *
1062702 AAGTTTAAAAGTTTTA-GATATTATTTATCTGTATTTGTAGATGTTTAAATTTATTTTTTTTGAG
1 GAGTTT-AAATTTTTATGGTATAATTTATTTTTATTTGTAGAAGTTTAAA--TATATTTTTAG-G
*
1062766 TATTATTATAC
62 TATGATTATAC
* * * *
1062777 GAGTTTAAATTTTTAGGGTATAATTTATTTTTATTTGTAGAAGTTT--ATATGTGTCTTGGGTAT
1 GAGTTTAAATTTTTATGGTATAATTTATTTTTATTTGTAGAAGTTTAAATATAT-TTTTAGGTAT
1062840 GATTATAC
65 GATTATAC
* * * * *
1062848 AAGTTTAAATTTTTAATGATATAATTTATTTTTATTTGTAGAAGTTTAAATGTGCTTTTTTAAGT
1 GAGTTTAAATTTTT-ATGGTATAATTTATTTTTATTTGTAGAAGTTTAAATAT--ATTTTTAGGT
*
1062913 AGGATTATAC
63 ATGATTATAC
* * * *
1062923 GAGTTTATA-TTTTATGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTACTTTTTGGGT-T
1 GAGTTTAAATTTTTATGGTATAATTTATTTTTATTTGTAGAAGTTTAAATATA-TTTTTAGGTAT
*
1062986 GATTACA-
65 GATTATAC
* * ** * * * *
1062993 GAAGTTTAAATTTTTAGGGTTTTGTTTATCTTTATTTATAGAAGTTTAAATTTATTTTTTGAGTA
1 G-AGTTTAAATTTTTATGGTATAATTTATTTTTATTTGTAGAAGTTTAAATATATTTTTAG-GTA
* *
1063058 TAATTATCC
64 TGATTATAC
* * * * *
1063067 CAATTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTTTGGT
1 GAGTTTAAATTTTTATGGTATAATTTATTTTTATTTGTAGAAGTTTAAA--TA-TATTTTTAGGT
1063132 ATGATTATAC
63 ATGATTATAC
* * * * * * *
1063142 AAATTTTAAAATTTTGATGGTATAAATTATTTCTATTTGT-GAAAGTTTAAATGTATTTTTTAAG
1 -GAGTTT-AAATTTTTATGGTATAATTTATTTTTATTTGTAG-AAGTTTAAATATA-TTTTTAGG
*
1063206 TATGATTGTAC
62 TATGATTATAC
* * * * *
1063217 GAATTTAAATTTTTGCTGGTATAATTTATTTCTATTTGTAAAAGTTTAAATGTATTTTTTAGGTA
1 GAGTTTAAATTTTT-ATGGTATAATTTATTTTTATTTGTAGAAGTTTAAATATA-TTTTTAGGTA
*
1063282 TGATTGTAC
64 TGATTATAC
* * * * *
1063291 G-GATTCATATTTTTTATGGTATAATTTTTTTTTCATTTGTAGAAGTTTAAATTTATTTTTTGGG
1 GAG-TTTA-AATTTTTATGGTATAATTTATTTTT-ATTTGTAGAAGTTTAAATATA-TTTTTAGG
** *
1063355 T-TGATTGCAT
62 TATGATTATAC
** *
1063365 GAGTTTAAATTTTTCGGGTATTATTTATTTTTATTTGTAGAAGTTTAAAT
1 GAGTTTAAATTTTTATGGTATAATTTATTTTTATTTGTAGAAGTTTAAAT
1063415 TTTTATTTAA
Statistics
Matches: 1065, Mismatches: 180, Indels: 102
0.79 0.13 0.08
Matches are distributed among these distances:
70 6 0.01
71 88 0.08
72 283 0.27
73 247 0.23
74 230 0.22
75 160 0.15
76 14 0.01
77 37 0.03
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.54
Consensus pattern (72 bp):
GAGTTTAAATTTTTATGGTATAATTTATTTTTATTTGTAGAAGTTTAAATATATTTTTAGGTATG
ATTATAC
Found at i:1062625 original size:145 final size:144
Alignment explanation
Indices: 1062047--1063416 Score: 1275
Period size: 145 Copynumber: 9.4 Consensus size: 144
1062037 TTAATTATTT
* * * * *
1062047 GAGTTTAAATTTTTATAGTATAATTTATTATGATTTGTAAAAGTTTAAATATATTTTTAGGTATG
1 GAGTTTAAATTTTTATGGTATAATTTATT-TTATTTGTAGAAGTTTAAATTTATTTTTTGGTATG
* * * *
1062112 ATTATACGATTTTAAATTTTTGATGGTGTAATTTATTTTTATTTGTAGAAATTTAAA-ATTGTTT
65 ATTATACGAGTTTAAATTTTTAAT-GAGTAATTTATTTTTATTTGTAGAAGTTTAAATA-TGTTT
* * *
1062176 TTTTAGTTTTGATTATAT
128 TTTGAG-TATGATTATAC
* * * * *
1062194 AAGTTTAAATTTTTA-GGATATTATTTATCTTTATTTATAAAAGTTTAAATTTA-TTTTTGAGCA
1 GAGTTTAAATTTTTATGG-TATAATTTAT-TTTATTTGTAGAAGTTTAAATTTATTTTTTG-GTA
* *
1062257 TGATTATACGAGTTTAAATTTTTAA-GATTTAATTTATTTTTATTTATAGAAGTTTAAATATGTT
63 TGATTATACGAGTTTAAATTTTTAATGA-GTAATTTATTTTTATTTGTAGAAGTTTAAATATGTT
* *
1062321 TTTTGGGTATAATTATAC
127 TTTTGAGTATGATTATAC
* * * *
1062339 AAGTTTAAATTTTTGATGGTATAATTTATTTTATTTTATAGAAATTTAAATATATTTTTTAGGTA
1 GAGTTTAAATTTTT-ATGGTATAATTTATTTTA-TTTGTAGAAGTTTAAATTTATTTTTT-GGTA
* * * *
1062404 TGATTATACGAGTTTATATATTTGATG-GTATAATTTATTTTTATTTGTAAAAGTTTAAATATGT
63 TGATTATACGAGTTTAAATTTTTAATGAG--TAATTTATTTTTATTTGTAGAAGTTTAAATATGT
*
1062468 TTTTT-AGT-TGATTATAT
126 TTTTTGAGTATGATTATAC
* *
1062485 GAGTTTACATTTTTATGGTATTATTTATCTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATG
1 GAGTTTAAATTTTTATGGTATAATTTAT-TTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATG
* * * *
1062550 ATTATATGAGTTTAAATTTTTAAAGAGTAATTTATTTTTATTTGTAGAAGCTTAAATGTGTTTTT
65 ATTATACGAGTTTAAATTTTTAATGAGTAATTTATTTTTATTTGTAGAAGTTTAAATATGTTTTT
*
1062615 TGAGTATGATTATAT
130 TGAGTATGATTATAC
* * *
1062630 GAGTTTATATTTTTATGGTATAATTTATTTTCATTTGTAGAAATTTAAATTTGTTTTTTAGGT-T
1 GAGTTTAAATTTTTATGGTATAATTTATTTT-ATTTGTAGAAGTTTAAATTTATTTTTT-GGTAT
* * * * * * *
1062694 GATTATACAAGTTTAAAAGTTTTAGAT-A-TTATTTATCTGTATTTGTAGATGTTTAAATTTATT
64 GATTATACGAGTTT-AAATTTTTA-ATGAGTAATTTATTTTTATTTGTAGAAGTTTAAA--TATG
*
1062757 TTTTTTGAGTATTATTATAC
125 TTTTTTGAGTATGATTATAC
* * * * * *
1062777 GAGTTTAAATTTTTAGGGTATAATTTATTTTTATTTGTAGAAGTTTATATGT-GTCTTGGGTATG
1 GAGTTTAAATTTTTATGGTATAATTTA-TTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATG
* * *
1062841 ATTATACAAGTTTAAATTTTTAATGATATAATTTATTTTTATTTGTAGAAGTTTAAATGTGCTTT
65 ATTATACGAGTTTAAATTTTTAATGA-GTAATTTATTTTTATTTGTAGAAGTTTAAATATG-TTT
* *
1062906 TTTAAGTAGGATTATAC
128 TTTGAGTATGATTATAC
* * *
1062923 GAGTTTATA-TTTTATGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTACTTTTTGGGT-T
1 GAGTTTAAATTTTTATGGTATAATTTA-TTTTATTTGTAGAAGTTTAAATTTA-TTTTTTGGTAT
* ** ** ** * * * *
1062986 GATTACA-GAAGTTTAAATTTTTAGGGTTTTGTTTATCTTTATTTATAGAAGTTTAAATTTATTT
64 GATTATACG-AGTTTAAATTTTTAATGAGTAATTTATTTTTATTTGTAGAAGTTTAAATATGTTT
* *
1063050 TTTGAGTATAATTATCC
128 TTTGAGTATGATTATAC
* * *
1063067 CAATTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTTTGGT
1 GAGTTTAAATTTTTATGGTATAATTTA-TTTTATTTGTAGAAGTTTAAATTTA---TTTTTTGGT
* * * * * * *
1063132 ATGATTATACAAATTTTAAAATTTTGATG-GTATAAATTATTTCTATTTGT-GAAAGTTTAAATG
62 ATGATTATAC-GAGTTTAAATTTTTAATGAG--TAATTTATTTTTATTTGTAG-AAGTTTAAATA
* * *
1063195 TATTTTTTAAGTATGATTGTAC
123 TGTTTTTTGAGTATGATTATAC
* * * *
1063217 GAATTTAAATTTTTGCTGGTATAATTTATTTCTATTTGTAAAAGTTTAAATGTATTTTTTAGGTA
1 GAGTTTAAATTTTT-ATGGTATAATTTATTT-TATTTGTAGAAGTTTAAATTTATTTTTT-GGTA
* * * * * *
1063282 TGATTGTACG-GATTCATATTTTTTATG-GTATAATTTTTTTTTCATTTGTAGAAGTTTAAATTT
63 TGATTATACGAG-TTTAAATTTTTAATGAG--TAATTTATTTTT-ATTTGTAGAAGTTTAAATAT
* * ** *
1063345 ATTTTTTGGGT-TGATTGCAT
124 GTTTTTTGAGTATGATTATAC
** *
1063365 GAGTTTAAATTTTTCGGGTATTATTTATTTTTATTTGTAGAAGTTTAAATTT
1 GAGTTTAAATTTTTATGGTATAATTTA-TTTTATTTGTAGAAGTTTAAATTT
1063417 TTATTTAAAG
Statistics
Matches: 1019, Mismatches: 156, Indels: 96
0.80 0.12 0.08
Matches are distributed among these distances:
143 36 0.04
144 56 0.05
145 281 0.28
146 169 0.17
147 235 0.23
148 103 0.10
149 51 0.05
150 57 0.06
151 31 0.03
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.54
Consensus pattern (144 bp):
GAGTTTAAATTTTTATGGTATAATTTATTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGA
TTATACGAGTTTAAATTTTTAATGAGTAATTTATTTTTATTTGTAGAAGTTTAAATATGTTTTTT
GAGTATGATTATAC
Found at i:1066178 original size:74 final size:73
Alignment explanation
Indices: 1066023--1066296 Score: 349
Period size: 74 Copynumber: 3.8 Consensus size: 73
1066013 AAATTTAATG
* * *
1066023 TTTACAAATAAAAATAAATAATACCTTAAAAATTTAAATTTGTATAATTA-A--TAAAAAATAAA
1 TTTACAAATAAAAATAAATAATACCTTAAAAATTTAAACTCGTATAATTATACCCAAAAAATAAA
1066085 TTTAAACT
66 TTTAAACT
* * * * * *
1066093 TTTACAAATAAAAATAAATTATACCATTAAAAATATAAACTCATATAATCATACCCAAAAAACAC
1 TTTACAAATAAAAATAAATAATACC-TTAAAAATTTAAACTCGTATAATTATACCCAAAAAATAA
* *
1066158 AGTTAAAAT
65 ATTTAAACT
* * * *
1066167 TTTACAAATAAAAATAAATTATACCCTAAAAATTTAAACTCGTATAATTATATCGAAAAAATAAA
1 TTTACAAATAAAAATAAATAATACCTTAAAAATTTAAACTCGTATAATTATACCCAAAAAATAAA
1066232 TTTAAACT
66 TTTAAACT
* *
1066240 TTTACAAATAAAGATAAATAATATCCTAAAAAATTTAAACTCGTATAATTA-ACCCAA
1 TTTACAAATAAAAATAAATAATA-CCTTAAAAATTTAAACTCGTATAATTATACCCAA
1066297 TACCATAAAA
Statistics
Matches: 172, Mismatches: 27, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
70 24 0.14
71 20 0.12
72 1 0.01
73 63 0.37
74 64 0.37
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.31
Consensus pattern (73 bp):
TTTACAAATAAAAATAAATAATACCTTAAAAATTTAAACTCGTATAATTATACCCAAAAAATAAA
TTTAAACT
Found at i:1066214 original size:73 final size:73
Alignment explanation
Indices: 1066023--1066296 Score: 340
Period size: 73 Copynumber: 3.8 Consensus size: 73
1066013 AAATTTAATG
* * * *
1066023 TTTACAAATAAAAATAAATAATACCTTAAAAATTTAAATTTGTATAATTA-A--TAAAAAATAAA
1 TTTACAAATAAAAATAAATAATACCCTAAAAATTTAAACTCGTATAATTATACCCAAAAAATAAA
1066085 TTTAAACT
66 TTTAAACT
* * * * * * *
1066093 TTTACAAATAAAAATAAATTATACCATTAAAAATATAAACTCATATAATCATACCCAAAAAACAC
1 TTTACAAATAAAAATAAATAATACC-CTAAAAATTTAAACTCGTATAATTATACCCAAAAAATAA
* *
1066158 AGTTAAAAT
65 ATTTAAACT
* * *
1066167 TTTACAAATAAAAATAAATTATACCCTAAAAATTTAAACTCGTATAATTATATCGAAAAAATAAA
1 TTTACAAATAAAAATAAATAATACCCTAAAAATTTAAACTCGTATAATTATACCCAAAAAATAAA
1066232 TTTAAACT
66 TTTAAACT
* *
1066240 TTTACAAATAAAGATAAATAATATCCTAAAAAATTTAAACTCGTATAATTA-ACCCAA
1 TTTACAAATAAAAATAAATAATACCCT-AAAAATTTAAACTCGTATAATTATACCCAA
1066297 TACCATAAAA
Statistics
Matches: 173, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
70 24 0.14
71 20 0.12
72 1 0.01
73 66 0.38
74 62 0.36
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.31
Consensus pattern (73 bp):
TTTACAAATAAAAATAAATAATACCCTAAAAATTTAAACTCGTATAATTATACCCAAAAAATAAA
TTTAAACT
Found at i:1066287 original size:147 final size:143
Alignment explanation
Indices: 1066023--1066296 Score: 406
Period size: 147 Copynumber: 1.9 Consensus size: 143
1066013 AAATTTAATG
* * *
1066023 TTTACAAATAAAAATAAATAATACCTTAAAAATTTAAATTTGTATAATTAATAAAAAATAAATTT
1 TTTACAAATAAAAATAAATAATACCCTAAAAATTTAAACTCGTATAATTAATAAAAAATAAATTT
* *
1066088 AAACTTTTACAAATAAAAATAAATTATACCATTAAAAATATAAACTCATATAATCATACCCAAAA
66 AAACTTTTACAAATAAAAATAAATAATACCATAAAAAATATAAACTCATATAATCA-ACCCAAAA
1066153 AACACAGTTAAAAT
130 AACACAGTTAAAAT
*
1066167 TTTACAAATAAAAATAAATTATACCCTAAAAATTTAAACTCGTATAATTATATCGAAAAAATAAA
1 TTTACAAATAAAAATAAATAATACCCTAAAAATTTAAACTCGTATAATTA-AT--AAAAAATAAA
* * * *
1066232 TTTAAACTTTTACAAATAAAGATAAATAATATCC-TAAAAAATTTAAACTCGTATAATTAACCCA
63 TTTAAACTTTTACAAATAAAAATAAATAATA-CCATAAAAAATATAAACTCATATAATCAACCCA
1066296 A
127 A
1066297 TACCATAAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
144 46 0.40
145 2 0.02
146 6 0.05
147 60 0.52
148 2 0.02
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.31
Consensus pattern (143 bp):
TTTACAAATAAAAATAAATAATACCCTAAAAATTTAAACTCGTATAATTAATAAAAAATAAATTT
AAACTTTTACAAATAAAAATAAATAATACCATAAAAAATATAAACTCATATAATCAACCCAAAAA
ACACAGTTAAAAT
Found at i:1066409 original size:73 final size:72
Alignment explanation
Indices: 1066315--1066508 Score: 264
Period size: 73 Copynumber: 2.7 Consensus size: 72
1066305 AAAAATAAGC
* * *
1066315 TTATATAATCATACATAAAAAACT-CATTTAAACTTCTACAAATTAAAATAAATTATACCATCAA
1 TTATATAATCATAC-TAAAAAA-TACATTTAAACTTCTACAAATAAAAATAAATTAAAAC-TCAA
* *
1066379 CAATTTAAAT
63 AAATTTAAAA
* * *
1066389 TTATATAATCATACTAAAAAATACATTTAAAATTCTAAAAATAAAAATAAATTAAAACTTAAAAA
1 TTATATAATCATACTAAAAAATACATTTAAACTTCTACAAATAAAAATAAATTAAAACTCAAAAA
1066454 TTTAAAA
66 TTTAAAA
*
1066461 TTATATAATCATACCTAAAAAATAAATTTAAACTTCTACAAATAAAAA
1 TTATATAATCATA-CTAAAAAATACATTTAAACTTCTACAAATAAAAA
1066509 ATAATATCTT
Statistics
Matches: 107, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
72 25 0.23
73 68 0.64
74 14 0.13
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.32
Consensus pattern (72 bp):
TTATATAATCATACTAAAAAATACATTTAAACTTCTACAAATAAAAATAAATTAAAACTCAAAAA
TTTAAAA
Found at i:1066461 original size:25 final size:26
Alignment explanation
Indices: 1066405--1066454 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
1066395 AATCATACTA
* *
1066405 AAAAATACATTTAAAATTCTAAAAAT
1 AAAAATACAATTAAAACTCTAAAAAT
1066431 AAAAATA-AATTAAAACT-TAAAAAT
1 AAAAATACAATTAAAACTCTAAAAAT
1066455 TTAAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 8 0.36
26 7 0.32
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (26 bp):
AAAAATACAATTAAAACTCTAAAAAT
Found at i:1066573 original size:69 final size:70
Alignment explanation
Indices: 1066315--1066577 Score: 219
Period size: 73 Copynumber: 3.7 Consensus size: 70
1066305 AAAAATAAGC
* * * * *
1066315 TTATATAATCATACATAAAAAACT-CATTTAAACTTCTACAAATTAAAATAAATTATACCATCAA
1 TTATATAATCATAAATAAAAAA-TAAATTTAAACTTCTACAAA-T-AAA-AAATAATATC-TTAA
* *
1066379 CAATTTAAAT
61 AAATTTAAAA
* * * * *
1066389 TTATATAATCAT-ACTAAAAAATACATTTAAAATTCTAAAAAT-AAAAATAAATTAAAACTTAAA
1 TTATATAATCATAAATAAAAAATAAATTTAAACTTCTACAAATAAAAAAT-AA-T--ATCTTAAA
1066452 AATTTAAAA
62 AATTTAAAA
**
1066461 TTATATAATCATACCTAAAAAATAAATTTAAACTTCTACAAATAAAAAATAATATCTTAAAAATT
1 TTATATAATCATAAATAAAAAATAAATTTAAACTTCTACAAATAAAAAATAATATCTTAAAAATT
*
1066526 TAAAT
66 TAAAA
* * ** * * *
1066531 TTGTATAATTA-AAATAAAATTTAAATTTAAATTTTTATAAATAAAAA
1 TTATATAATCATAAATAAAAAATAAATTTAAACTTCTACAAATAAAAA
1066578 TAAATCATAC
Statistics
Matches: 158, Mismatches: 24, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
69 33 0.21
70 27 0.17
71 1 0.01
72 26 0.16
73 53 0.34
74 18 0.11
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (70 bp):
TTATATAATCATAAATAAAAAATAAATTTAAACTTCTACAAATAAAAAATAATATCTTAAAAATT
TAAAA
Found at i:1066592 original size:142 final size:146
Alignment explanation
Indices: 1066315--1066594 Score: 345
Period size: 142 Copynumber: 1.9 Consensus size: 146
1066305 AAAAATAAGC
* * *
1066315 TTATATAATCATACATAAAAAACTCATTTAAACTTCTACAAATTAAAATAAATTATACCATCAAC
1 TTATATAATCATACATAAAAAACTAATTTAAACTTCTACAAATTAAAATAAATAATACCATCAAA
* * * *
1066380 AATTTAAATTTATATAATCATACTAAAAAATACATTTAAAATTCTAAAAATAAAAATAAATTAAA
66 AATTTAAATTTATATAATCAAAATAAAAAATAAATTTAAAATTCTAAAAATAAAAATAAATCAAA
1066445 ACTTAAAAATTTAAAA
131 ACTTAAAAATTTAAAA
* * *
1066461 TTATATAATCATACCTAAAAAA-TAAATTTAAACTTCTACAAA-T-AAA-AAATAATATC-TTAA
1 TTATATAATCATACATAAAAAACT-AATTTAAACTTCTACAAATTAAAATAAATAATACCATCAA
* * ** * * * *
1066521 AAATTTAAATTTGTATAATTAAAATAAAATTTAAATTTAAATTTTTATAAATAAAAATAAATCAT
65 AAATTTAAATTTATATAATCAAAATAAAAAATAAATTTAAAATTCTAAAAATAAAAATAAATCAA
*
1066586 ACCTTAAAA
130 AACTTAAAA
1066595 TAAAAATATT
Statistics
Matches: 114, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
142 63 0.55
143 8 0.07
144 3 0.03
145 2 0.02
146 38 0.33
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (146 bp):
TTATATAATCATACATAAAAAACTAATTTAAACTTCTACAAATTAAAATAAATAATACCATCAAA
AATTTAAATTTATATAATCAAAATAAAAAATAAATTTAAAATTCTAAAAATAAAAATAAATCAAA
ACTTAAAAATTTAAAA
Found at i:1066710 original size:13 final size:13
Alignment explanation
Indices: 1066676--1066718 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
1066666 AAAATAAATT
*
1066676 TTATTTAAAAAAA
1 TTATTTAATAAAA
1066689 TTATTTAATAAAA
1 TTATTTAATAAAA
1066702 TTATTTAATAAATA
1 TTATTTAATAAA-A
1066716 TTA
1 TTA
1066719 AAATTTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 24 0.86
14 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTATTTAATAAAA
Found at i:1067013 original size:75 final size:76
Alignment explanation
Indices: 1066855--1067027 Score: 219
Period size: 75 Copynumber: 2.3 Consensus size: 76
1066845 CTTTTTAAAA
* * * *
1066855 TTTT-ATTTTAATTTAAAATGAATAATTAATAATTTAATTTTTTAATATAAATTTTTTAAATTTT
1 TTTTAATTTT-ATTAAAAATTAATAATTAACAATTTAA-TTTTTAATATAAATATTTTAAATTTT
*
1066919 AATTAAAATTTAT
64 AATTAAAATTAAT
*
1066932 TTTTAATTTTATTAAAAATTAATAATTAACACTTTAA-TTTTAATATAAATATTTTAAA-TTTAA
1 TTTTAATTTTATTAAAAATTAATAATTAACAATTTAATTTTTAATATAAATATTTTAAATTTTAA
1066995 TT-AAATTAAATT
66 TTAAAATT-AA-T
*
1067007 TTTTAATTTTATCAAAAATTA
1 TTTTAATTTTATTAAAAATTA
1067028 TCATATAAGG
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
73 5 0.06
74 8 0.09
75 41 0.48
77 27 0.31
78 5 0.06
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.53
Consensus pattern (76 bp):
TTTTAATTTTATTAAAAATTAATAATTAACAATTTAATTTTTAATATAAATATTTTAAATTTTAA
TTAAAATTAAT
Found at i:1067179 original size:3 final size:3
Alignment explanation
Indices: 1067171--1067197 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1067161 ATTAAAAATA
1067171 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1067198 AAAAATTCGC
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1068639 original size:2 final size:2
Alignment explanation
Indices: 1068632--1068673 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1068622 AAATAGTTAC
1068632 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1068674 TATCATTGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1069430 original size:5 final size:5
Alignment explanation
Indices: 1069420--1069490 Score: 52
Period size: 5 Copynumber: 13.4 Consensus size: 5
1069410 ATTGTCTGTC
* * * *
1069420 ATTTA ATTTA AATTG ATTTA ATTTA ATTTAA ATTATT ATTTA ATTAAA
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTT-A ATT-TA ATTTA ATT-TA
* *
1069468 ATTTT ATTTAA ATTTA ATATA AT
1 ATTTA ATTT-A ATTTA ATTTA AT
1069491 ATATTAATAA
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
5 35 0.69
6 15 0.29
7 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (5 bp):
ATTTA
Found at i:1069474 original size:16 final size:16
Alignment explanation
Indices: 1069435--1069478 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
1069425 ATTTAAATTG
* *
1069435 ATTTAATTTAATTTAA
1 ATTTTATTTAATTAAA
1069451 ATTATTATTTAATTAAA
1 ATT-TTATTTAATTAAA
1069468 ATTTTATTTAA
1 ATTTTATTTAA
1069479 ATTTAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTATTTAATTAAA
Found at i:1069496 original size:39 final size:37
Alignment explanation
Indices: 1069420--1069506 Score: 95
Period size: 39 Copynumber: 2.3 Consensus size: 37
1069410 ATTGTCTGTC
* *
1069420 ATTTAATTTAAATTGATTTAATTTAATTTAAATTATT
1 ATTTAATTAAAATTGATTTAATTTAATATAAATTATT
*
1069457 ATTTAATTAAAATTTTATTTAAATTTAATAT-AATATATT
1 ATTTAATTAAAA-TTGATTT-AATTTAATATAAAT-TATT
* *
1069496 AATAAATTAAA
1 ATTTAATTAAA
1069507 TTAATATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
37 11 0.26
38 9 0.21
39 22 0.52
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (37 bp):
ATTTAATTAAAATTGATTTAATTTAATATAAATTATT
Found at i:1069499 original size:13 final size:13
Alignment explanation
Indices: 1069481--1069522 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
1069471 TTATTTAAAT
1069481 TTAATATAATATA
1 TTAATATAATATA
*
1069494 TTAATA-AATTAAA
1 TTAATATAA-TATA
1069507 TTAATATAA-ATA
1 TTAATATAATATA
1069519 TTAA
1 TTAA
1069523 ATTTTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 8 0.32
13 15 0.60
14 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TTAATATAATATA
Found at i:1069523 original size:22 final size:22
Alignment explanation
Indices: 1069475--1069525 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
1069465 AAAATTTTAT
* *
1069475 TTAAATTTAATATAATATATTA
1 TTAAATTAAATATAATATAATA
*
1069497 ATAAATTAAAT-TAATATAAATA
1 TTAAATTAAATATAATAT-AATA
1069519 TTAAATT
1 TTAAATT
1069526 TTTTATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAAATTAAATATAATATAATA
Found at i:1069839 original size:17 final size:18
Alignment explanation
Indices: 1069808--1069845 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
1069798 TATTACCAAT
*
1069808 ATAAATTAAAATAATTTA
1 ATAAATTAAAATAATATA
*
1069826 ATAAA-TAAATTAATATA
1 ATAAATTAAAATAATATA
1069843 ATA
1 ATA
1069846 TATATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAAATTAAAATAATATA
Found at i:1070171 original size:5 final size:5
Alignment explanation
Indices: 1070161--1070188 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
1070151 GTCTTAATCA
1070161 ATTAT ATTAT ATTAT ATTAT ATTAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATT
1070189 TTAGTATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTAT
Found at i:1071057 original size:21 final size:21
Alignment explanation
Indices: 1071033--1071084 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
1071023 TTGAAAACAT
*
1071033 AATATTTTATATAAATTAAA-A
1 AATA-TTTATATAAAATAAATA
*
1071054 AATATTAATATAAAATAAATA
1 AATATTTATATAAAATAAATA
1071075 AATAATTTAT
1 AAT-ATTTAT
1071085 TCATTATCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 13 0.50
21 8 0.31
22 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATATTTATATAAAATAAATA
Found at i:1072202 original size:24 final size:24
Alignment explanation
Indices: 1072167--1072221 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
1072157 AAATTTTTGC
*
1072167 TCTTTTGCTTTTGCTTTA-TTTAT
1 TCTTTTTCTTTTGCTTTATTTTAT
*
1072190 TCTTTTTCTTTTTTCTTTATTTTAT
1 TCTTTTTC-TTTTGCTTTATTTTAT
*
1072215 TTTTTTT
1 TCTTTTT
1072222 TTAAACTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 7 0.26
24 9 0.33
25 11 0.41
ACGTcount: A:0.07, C:0.11, G:0.04, T:0.78
Consensus pattern (24 bp):
TCTTTTTCTTTTGCTTTATTTTAT
Found at i:1072223 original size:20 final size:20
Alignment explanation
Indices: 1072185--1072222 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1072175 TTTTGCTTTA
1072185 TTTATTCTTTTTCTTTTTTC
1 TTTATTCTTTTTCTTTTTTC
1072205 TTTATT-TTATTT-TTTTTT
1 TTTATTCTT-TTTCTTTTTT
1072223 TAAACTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTATTCTTTTTCTTTTTTC
Found at i:1072311 original size:2 final size:2
Alignment explanation
Indices: 1072304--1072328 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1072294 AAGGAAATTA
1072304 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 A
1072329 CATGAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1077965 original size:17 final size:17
Alignment explanation
Indices: 1077943--1077985 Score: 79
Period size: 16 Copynumber: 2.6 Consensus size: 17
1077933 TTTTTATAAT
1077943 TAAATTTAAATAAAATA
1 TAAATTTAAATAAAATA
1077960 TAAATTT-AATAAAATA
1 TAAATTTAAATAAAATA
1077976 TAAATTTAAA
1 TAAATTTAAA
1077986 ATATCATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAATTTAAATAAAATA
Found at i:1077994 original size:16 final size:15
Alignment explanation
Indices: 1077943--1078003 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 15
1077933 TTTTTATAAT
*
1077943 TAAATTTAAATAAAATA
1 TAAATTT-AA-AATATA
*
1077960 TAAATTTAATAAAATA
1 TAAATTTAA-AATATA
1077976 TAAATTTAAAATATCA
1 TAAATTTAAAATAT-A
*
1077992 TAATTTTAAAAT
1 TAAATTTAAAAT
1078004 CAATTAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
15 4 0.10
16 30 0.73
17 7 0.17
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAATTTAAAATATA
Found at i:1079666 original size:19 final size:21
Alignment explanation
Indices: 1079628--1079673 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
1079618 CATATTTTCT
1079628 AATATATATTAAATAAATAAA
1 AATATATATTAAATAAATAAA
1079649 AATA-ATATTAAA-AAATAAA
1 AATATATATTAAATAAATAAA
1079668 ACATAT
1 A-ATAT
1079674 GGTAGTATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.35
20 11 0.48
21 4 0.17
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AATATATATTAAATAAATAAA
Found at i:1081078 original size:4 final size:4
Alignment explanation
Indices: 1081069--1081094 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1081059 TAATTCTATT
1081069 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
1081095 GTCACACACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:1081589 original size:2 final size:2
Alignment explanation
Indices: 1081584--1081609 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1081574 TGGCAAAAAC
1081584 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1081610 TAATATGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1084673 original size:20 final size:21
Alignment explanation
Indices: 1084634--1084673 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1084624 ATATATTATA
* *
1084634 TAATTTTTTTGAAGAGTAAAG
1 TAATTTTTTTGAAAAATAAAG
1084655 TAATTTTTTT-AAAAATAAA
1 TAATTTTTTTGAAAAATAAA
1084674 AAAATATATG
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:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (21 bp):
TAATTTTTTTGAAAAATAAAG
Found at i:1084858 original size:40 final size:39
Alignment explanation
Indices: 1084812--1084905 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 39
1084802 TGAGTATGTC
** *
1084812 AAATTATTTTTGATTAAAAAAATTTAATTATTTTAAATTT
1 AAATTATTTTAAATTAAAAAAATTTAATTA-TTTAAATAT
* * **
1084852 ATATTATTTTAAATTTAAAATTTTTAATTATTTAAATAT
1 AAATTATTTTAAATTAAAAAAATTTAATTATTTAAATAT
1084891 AAATTATTTTAAATT
1 AAATTATTTTAAATT
1084906 TAATTTATTA
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
39 22 0.48
40 24 0.52
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (39 bp):
AAATTATTTTAAATTAAAAAAATTTAATTATTTAAATAT
Found at i:1084859 original size:16 final size:15
Alignment explanation
Indices: 1084831--1084941 Score: 78
Period size: 16 Copynumber: 7.7 Consensus size: 15
1084821 TTGATTAAAA
1084831 AAATTTAATTATTTT
1 AAATTTAATTATTTT
1084846 AAATTTATATTATTTT
1 AAATTTA-ATTATTTT
*
1084862 AAATTTAA--A-ATT
1 AAATTTAATTATTTT
1084874 ---TTTAATTA-TTT
1 AAATTTAATTATTTT
*
1084885 AAATATAAATTATTTT
1 AAAT-TTAATTATTTT
*
1084901 AAATTTAATT-TATT
1 AAATTTAATTATTTT
*
1084915 AAATTATAAAATTAATTT
1 AAATT-T--AATTATTTT
1084933 -AATTTAATT
1 AAATTTAATT
1084942 GACTCTTTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 25
0.71 0.06 0.23
Matches are distributed among these distances:
9 5 0.06
11 3 0.04
12 2 0.03
13 1 0.01
14 13 0.17
15 20 0.26
16 23 0.30
17 8 0.10
18 2 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AAATTTAATTATTTT
Found at i:1084867 original size:23 final size:23
Alignment explanation
Indices: 1084841--1084893 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
1084831 AAATTTAATT
* *
1084841 ATTTTAAATTTATATTAT-TTTAA
1 ATTTAAAATTTATAAT-TATTTAA
*
1084864 ATTTAAAATTTTTAATTATTTAA
1 ATTTAAAATTTATAATTATTTAA
*
1084887 ATATAAA
1 ATTTAAA
1084894 TTATTTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTAAAATTTATAATTATTTAA
Found at i:1084900 original size:24 final size:24
Alignment explanation
Indices: 1084849--1084902 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
1084839 TTATTTTAAA
*
1084849 TTTATATTATTTTAAATTTAAAATT
1 TTTA-ATTATTTTAAATATAAAATT
*
1084874 TTTAATTA-TTTAAATATAAATTAT
1 TTTAATTATTTTAAATATAAAAT-T
1084898 TTTAA
1 TTTAA
1084903 ATTTAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 12 0.46
24 10 0.38
25 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTAATTATTTTAAATATAAAATT
Found at i:1084920 original size:39 final size:38
Alignment explanation
Indices: 1084834--1084921 Score: 115
Period size: 39 Copynumber: 2.2 Consensus size: 38
1084824 ATTAAAAAAA
* *
1084834 TTTAATTATTTTAAATTTATATTATTTTAAATTTAAAATT
1 TTTAATTA-TTTAAATATAAATTATTTTAAATTT-AAATT
1084874 TTTAATTATTTAAATATAAATTATTTTAAATTT-AATT
1 TTTAATTATTTAAATATAAATTATTTTAAATTTAAATT
1084911 TATTAAATTAT
1 T-TT-AATTAT
1084922 AAAATTAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
37 5 0.11
38 2 0.05
39 29 0.66
40 8 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (38 bp):
TTTAATTATTTAAATATAAATTATTTTAAATTTAAATT
Found at i:1084923 original size:31 final size:31
Alignment explanation
Indices: 1084874--1084941 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
1084864 ATTTAAAATT
*
1084874 TTTAA-TTATTTAAATAT-AAATTATTTTAAA
1 TTTAATTTATTTAAATATAAAATTAATTT-AA
1084904 TTTAATTTA-TTAAATTATAAAATTAATTTAA
1 TTTAATTTATTTAAA-TATAAAATTAATTTAA
1084935 TTTAATT
1 TTTAATT
1084942 GACTCTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
30 10 0.29
31 15 0.44
32 9 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
TTTAATTTATTTAAATATAAAATTAATTTAA
Found at i:1085467 original size:12 final size:12
Alignment explanation
Indices: 1085447--1085495 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
1085437 ATCGAATCGC
* *
1085447 TATCTATATTTA
1 TATCGATATATA
1085459 TATCGATATATA
1 TATCGATATATA
1085471 TAT--ATATATA
1 TATCGATATATA
1085481 TAT-GTATATATA
1 TATCG-ATATATA
1085493 TAT
1 TAT
1085496 GTTTGCACAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 10 0.30
12 23 0.70
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (12 bp):
TATCGATATATA
Found at i:1085471 original size:2 final size:2
Alignment explanation
Indices: 1085464--1085495 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1085454 ATTTATATCG
*
1085464 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1085496 GTTTGCACAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1087597 original size:11 final size:11
Alignment explanation
Indices: 1087583--1087614 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
1087573 GCATATTTTA
1087583 TTTTTAAAAAT
1 TTTTTAAAAAT
*
1087594 TTTTTAAAATT
1 TTTTTAAAAAT
1087605 TTTTTAAAAA
1 TTTTTAAAAA
1087615 ATTATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTTAAAAAT
Found at i:1091608 original size:13 final size:13
Alignment explanation
Indices: 1091590--1091622 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1091580 TATATATATA
*
1091590 TATTATTTTATTT
1 TATTATTTTAATT
1091603 TATTATTTTAATT
1 TATTATTTTAATT
1091616 T-TTATTT
1 TATTATTT
1091623 AAAATTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTATTTTAATT
Found at i:1097068 original size:2 final size:2
Alignment explanation
Indices: 1097061--1097100 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1097051 AAGGCCAAAA
1097061 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1097101 GTATCGTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1097661 original size:21 final size:19
Alignment explanation
Indices: 1097635--1097684 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
1097625 TTATTATTCA
*
1097635 TTATATTATTTAAATATTTAT
1 TTATATTA-ATAAATATTT-T
*
1097656 TTATATTAATATATATTTT
1 TTATATTAATAAATATTTT
1097675 TTATAATTAA
1 TTAT-ATTAA
1097685 ATATAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 5 0.19
20 13 0.50
21 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATATTAATAAATATTTT
Found at i:1097671 original size:20 final size:19
Alignment explanation
Indices: 1097644--1097689 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
1097634 ATTATATTAT
*
1097644 TTAAATAT-TTATTTAT-A
1 TTAAATATATTTTTTATAA
1097661 TTAATATATATTTTTTATAA
1 TTAA-ATATATTTTTTATAA
1097681 TTAAATATA
1 TTAAATATA
1097690 AATAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 4 0.16
18 4 0.16
19 12 0.48
20 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTAAATATATTTTTTATAA
Found at i:1097729 original size:30 final size:31
Alignment explanation
Indices: 1097661--1097729 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
1097651 TTTATTTATA
1097661 TTAATATATATTTTTTATAATTAAATATAAAT
1 TTAA-ATATATTTTTTATAATTAAATATAAAT
** *
1097693 AAAAATATA-TTTTTATTATTAAATA-ATAAT
1 TTAAATATATTTTTTATAATTAAATATA-AAT
1097723 TTAAATA
1 TTAAATA
1097730 AAATTAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
29 1 0.03
30 23 0.74
31 5 0.16
32 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (31 bp):
TTAAATATATTTTTTATAATTAAATATAAAT
Found at i:1098355 original size:11 final size:11
Alignment explanation
Indices: 1098341--1098365 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1098331 TAAATATTAA
1098341 AATAATAAAAT
1 AATAATAAAAT
1098352 AATAATAAAAT
1 AATAATAAAAT
1098363 AAT
1 AAT
1098366 TCACAATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:1098709 original size:87 final size:88
Alignment explanation
Indices: 1098547--1098722 Score: 291
Period size: 87 Copynumber: 2.0 Consensus size: 88
1098537 CCTAACCAAA
* * *
1098547 AAATAAAATATAATAAAAATAAATTTCAATTTTTTTTTCAAATAAAAAAAATACTCTTAGATTAA
1 AAATAAAATATAACAAAAATAAATTTCAA-TATTTTTTCAAATAAAAAAAATACTCCTAGATTAA
1098612 TTGTCAATTAGTTTGGTAATCCTT
65 TTGTCAATTAGTTTGGTAATCCTT
* *
1098636 AAATAAAATATAACAAAAATAAGTTTCAA-ATTTTTTCAAATAAAAAAAATACTCCTAGGTTAAT
1 AAATAAAATATAACAAAAATAAATTTCAATATTTTTTCAAATAAAAAAAATACTCCTAGATTAAT
1098700 TGTCAATTAGTTTGGTAATCCTT
66 TGTCAATTAGTTTGGTAATCCTT
1098723 GACTAATTCT
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
87 55 0.67
89 27 0.33
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (88 bp):
AAATAAAATATAACAAAAATAAATTTCAATATTTTTTCAAATAAAAAAAATACTCCTAGATTAAT
TGTCAATTAGTTTGGTAATCCTT
Found at i:1099158 original size:22 final size:22
Alignment explanation
Indices: 1099111--1099152 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1099101 TATGTCATTC
*
1099111 TTTTTCAACTATGTTGTCAAAG
1 TTTTTCAACTATGTTATCAAAG
*
1099133 TTTTTCACCTATGTTATCAA
1 TTTTTCAACTATGTTATCAA
1099153 TTTTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.48
Consensus pattern (22 bp):
TTTTTCAACTATGTTATCAAAG
Found at i:1100217 original size:2 final size:2
Alignment explanation
Indices: 1100212--1100240 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1100202 TCTCTCTCTC
1100212 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 T
1100241 TTATGTGTTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1101176 original size:12 final size:12
Alignment explanation
Indices: 1101161--1101202 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
1101151 ATTTTTATTT
1101161 TTTAATTTAATA
1 TTTAATTTAATA
*
1101173 TTTAAATATAAT-
1 TTT-AATTTAATA
1101185 TATTAATTTAATA
1 T-TTAATTTAATA
1101198 TTTAA
1 TTTAA
1101203 AATTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTAATTTAATA
Found at i:1107883 original size:29 final size:29
Alignment explanation
Indices: 1107838--1107953 Score: 103
Period size: 27 Copynumber: 4.0 Consensus size: 29
1107828 TTATAATTAT
*
1107838 ATTTAAAATATTTTATATTTGTATATATAA
1 ATTTAAAA-ATTTTATATTTATATATATAA
1107868 ATTTAAAAATTTTATA-TT-TATATATAA
1 ATTTAAAAATTTTATATTTATATATATAA
* * * *
1107895 TTTTTAATATATTAATAATTTATATTATATAA
1 ATTTAAAAAT-TTTAT-ATTTATA-TATATAA
* * *
1107927 ATTTTAAAA-TATATATTTATATTTATA
1 ATTTAAAAATTTTATATTTATATATATA
1107954 GTATATTTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
27 16 0.22
28 11 0.15
29 16 0.22
30 13 0.18
31 2 0.03
32 14 0.19
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (29 bp):
ATTTAAAAATTTTATATTTATATATATAA
Found at i:1107898 original size:18 final size:17
Alignment explanation
Indices: 1107875--1107970 Score: 66
Period size: 18 Copynumber: 5.9 Consensus size: 17
1107865 TAAATTTAAA
1107875 AATTTTATATTTATATAT
1 AATTTTATA-TTATATAT
*
1107893 AATTTT-TAATATAT-T
1 AATTTTATATTATATAT
1107908 AATAATTTATATTATATA-
1 AAT--TTTATATTATATAT
*
1107926 AATTTTA-A-AATATAT
1 AATTTTATATTATATAT
1107941 -A-TTTATATT-TATAGT
1 AATTTTATATTATATA-T
1107956 ATATTTTA-ATTATAT
1 A-ATTTTATATTATAT
1107971 TATTTATATA
Statistics
Matches: 62, Mismatches: 4, Indels: 24
0.69 0.04 0.27
Matches are distributed among these distances:
13 4 0.06
14 11 0.18
15 6 0.10
16 9 0.15
17 9 0.15
18 23 0.37
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (17 bp):
AATTTTATATTATATAT
Found at i:1112358 original size:2 final size:2
Alignment explanation
Indices: 1112353--1112389 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1112343 CACACACACG
1112353 TA TA TA TA 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 TA T
1112390 GGATAAGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1112718 original size:20 final size:20
Alignment explanation
Indices: 1112695--1112735 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1112685 AATTTATTTA
1112695 TTTAATATAATATAATAAAT
1 TTTAATATAATATAATAAAT
* * *
1112715 TTTATTATTATATACTAAAT
1 TTTAATATAATATAATAAAT
1112735 T
1 T
1112736 AATAAAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAATATAATATAATAAAT
Found at i:1116844 original size:29 final size:27
Alignment explanation
Indices: 1116791--1116873 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 27
1116781 ATACCTAAAT
*
1116791 TTTTATATTTTTATTATATTTAAATAC
1 TTTTAAATTTTTATTATATTTAAATAC
*
1116818 TTTTAAATTTTTAATTTATATTTAAATAT
1 TTTTAAATTTTT-A-TTATATTTAAATAC
* * * *
1116847 TTTTTAACTTTAAATAGTATTTAAATA
1 TTTTAAATTTTTATTA-TATTTAAATA
1116874 TATCCAGATA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
27 13 0.28
28 12 0.26
29 22 0.47
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.59
Consensus pattern (27 bp):
TTTTAAATTTTTATTATATTTAAATAC
Found at i:1116859 original size:28 final size:28
Alignment explanation
Indices: 1116789--1116874 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 28
1116779 ATATACCTAA
* *
1116789 ATTTTTATAT-TTTTATTATATTTAAAT
1 ATTTTTAAATCTTTAATTATATTTAAAT
* *
1116816 ACTTTTAAATTTTTAATTTATATTTAAAT
1 ATTTTTAAATCTTTAA-TTATATTTAAAT
* *
1116845 ATTTTTTAA-CTTTAAATAGTATTTAAAT
1 ATTTTTAAATCTTTAATTA-TATTTAAAT
1116873 AT
1 AT
1116875 ATCCAGATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
27 10 0.20
28 20 0.41
29 19 0.39
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.59
Consensus pattern (28 bp):
ATTTTTAAATCTTTAATTATATTTAAAT
Found at i:1120739 original size:38 final size:38
Alignment explanation
Indices: 1120688--1120765 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
1120678 ATTCGAATAC
1120688 GTGTTGGGTATAGGCATTTCTTCTTGTTAACACAAAGG
1 GTGTTGGGTATAGGCATTTCTTCTTGTTAACACAAAGG
1120726 GTGTTGGGTATAGGCATTTCTTCTTGTTAACACAAAGG
1 GTGTTGGGTATAGGCATTTCTTCTTGTTAACACAAAGG
1120764 GT
1 GT
1120766 AATGATGGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (38 bp):
GTGTTGGGTATAGGCATTTCTTCTTGTTAACACAAAGG
Found at i:1120974 original size:24 final size:23
Alignment explanation
Indices: 1120925--1120975 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
1120915 ATTTAAATTA
* *
1120925 AAAATGACTTCCAGTTAAAGATT
1 AAAATGACTTCCAGTAAAAGAGT
1120948 AAAATGACTTCCAGCTAAGAAG-GT
1 AAAATGACTTCCAG-TAA-AAGAGT
1120972 AAAA
1 AAAA
1120976 AGTTAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 14 0.58
24 7 0.29
25 3 0.12
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.24
Consensus pattern (23 bp):
AAAATGACTTCCAGTAAAAGAGT
Found at i:1122381 original size:19 final size:19
Alignment explanation
Indices: 1122357--1122400 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
1122347 ATATATTTTT
1122357 ATATTATAATCATTT-TA-AA
1 ATATTAT-AT-ATTTATATAA
1122376 ATATTATATATTTATATAA
1 ATATTATATATTTATATAA
1122395 ATATTA
1 ATATTA
1122401 ATACATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.17
18 4 0.17
19 15 0.65
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATTATATATTTATATAA
Found at i:1122919 original size:32 final size:33
Alignment explanation
Indices: 1122864--1122936 Score: 105
Period size: 32 Copynumber: 2.2 Consensus size: 33
1122854 ATACTTAAAT
1122864 TATAATATATTTACATAAATTTTAATAT-ATTA
1 TATAATATATTTACATAAATTTTAATATAATTA
* *
1122896 -ATAATTTATTTCATATAAATTTTAATATAATTA
1 TATAATATATTT-ACATAAATTTTAATATAATTA
1122929 TATAATAT
1 TATAATAT
1122937 CTAAATTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 10 0.29
32 15 0.43
33 4 0.11
34 6 0.17
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (33 bp):
TATAATATATTTACATAAATTTTAATATAATTA
Found at i:1122931 original size:20 final size:20
Alignment explanation
Indices: 1122847--1122933 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 20
1122837 TTTTACATCT
*
1122847 TATAATTATACTTAAATTATAA
1 TATAATTATA--TAAATTTTAA
* *
1122869 TATATTTACATAAATTTTAA
1 TATAATTATATAAATTTTAA
1122889 TAT-ATTA-AT-AA-TTT-A
1 TATAATTATATAAATTTTAA
*
1122904 T-T--TCATATAAATTTTAA
1 TATAATTATATAAATTTTAA
1122921 TATAATTATATAA
1 TATAATTATATAA
1122934 TATCTAAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
13 2 0.04
14 3 0.06
15 4 0.08
16 6 0.12
17 4 0.08
18 3 0.06
19 3 0.06
20 19 0.37
22 8 0.15
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TATAATTATATAAATTTTAA
Found at i:1123355 original size:3 final size:3
Alignment explanation
Indices: 1123349--1123378 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
1123339 CACTACCTAA
*
1123349 AAG AAG AGG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1123379 CGGAAACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1128350 original size:33 final size:33
Alignment explanation
Indices: 1128308--1128431 Score: 144
Period size: 33 Copynumber: 3.8 Consensus size: 33
1128298 GGATGGGACA
** *
1128308 GATGAAAAGATCTTGGAAGTAGCTTCAAGGTCT
1 GATGAAAAGATCTCAGAAGTGGCTTCAAGGTCT
* *
1128341 GATGAAAAGATCTCAGAAGTGGCTTCGGAGG-CA
1 GATGAAAAGATCTCAGAAGTGGCTTC-AAGGTCT
* *
1128374 GATGAAAAGATCTCAGAAGTGACTTCAGATGT-T
1 GATGAAAAGATCTCAGAAGTGGCTTCA-AGGTCT
*
1128407 GATGAAAAGATCTCGGAAGTGGCTT
1 GATGAAAAGATCTCAGAAGTGGCTT
1128432 TAGAAGCCGA
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
33 74 0.96
34 3 0.04
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (33 bp):
GATGAAAAGATCTCAGAAGTGGCTTCAAGGTCT
Found at i:1128412 original size:66 final size:66
Alignment explanation
Indices: 1128306--1128431 Score: 184
Period size: 66 Copynumber: 1.9 Consensus size: 66
1128296 GCGGATGGGA
**
1128306 CAGATGAAAAGATCTTGGAAGTAGCTTCAAGGTCTGATGAAAAGATCTCAGAAGTGGCTTCGGAG
1 CAGATGAAAAGATCTCAGAAGTAGCTTCAAGGTCTGATGAAAAGATCTCAGAAGTGGCTTCGGAG
1128371 G
66 G
* *
1128372 CAGATGAAAAGATCTCAGAAGT-GACTTCAGATGT-TGATGAAAAGATCTCGGAAGTGGCTT
1 CAGATGAAAAGATCTCAGAAGTAG-CTTCA-AGGTCTGATGAAAAGATCTCAGAAGTGGCTT
1128432 TAGAAGCCGA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
65 1 0.02
66 50 0.93
67 3 0.06
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (66 bp):
CAGATGAAAAGATCTCAGAAGTAGCTTCAAGGTCTGATGAAAAGATCTCAGAAGTGGCTTCGGAG
G
Found at i:1131738 original size:23 final size:20
Alignment explanation
Indices: 1131711--1131762 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 20
1131701 TTTATTTAAA
*
1131711 TTAAAAATTGAATTTGATCTAAT
1 TTAAAAATTGAAATT-AT-T-AT
*
1131734 TTAAAAATTTAAATTATTAT
1 TTAAAAATTGAAATTATTAT
1131754 TTAAAAATT
1 TTAAAAATT
1131763 AAAAATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 1 0.04
22 2 0.07
23 13 0.48
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (20 bp):
TTAAAAATTGAAATTATTAT
Found at i:1131934 original size:3 final size:3
Alignment explanation
Indices: 1131926--1131974 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
1131916 GAAAATAGCT
1131926 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1131974 A
1 A
1131975 ACTTCTCAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1134522 original size:2 final size:2
Alignment explanation
Indices: 1134515--1134578 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
1134505 TGGAGTTGGC
*
1134515 AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1134557 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
1134579 TTGAGTTGTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1135169 original size:13 final size:13
Alignment explanation
Indices: 1135153--1135186 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
1135143 TATTTTAGTG
*
1135153 AAATATTTTTTTA
1 AAATATTTTTATA
1135166 AAATTATTTTTATA
1 AAA-TATTTTTATA
1135180 AAATATT
1 AAATATT
1135187 ATTGAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AAATATTTTTATA
Found at i:1135451 original size:53 final size:53
Alignment explanation
Indices: 1135389--1135498 Score: 211
Period size: 53 Copynumber: 2.1 Consensus size: 53
1135379 TAGAGTAATT
1135389 TTTTTCAATTGAGTTAGTGATGAGTTAACTTAATATACTAATTTGATCACTTC
1 TTTTTCAATTGAGTTAGTGATGAGTTAACTTAATATACTAATTTGATCACTTC
*
1135442 TTTTTCAATTGAGTTAGTGTTGAGTTAACTTAATATACTAATTTGATCACTTC
1 TTTTTCAATTGAGTTAGTGATGAGTTAACTTAATATACTAATTTGATCACTTC
1135495 TTTT
1 TTTT
1135499 ATAATAGTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (53 bp):
TTTTTCAATTGAGTTAGTGATGAGTTAACTTAATATACTAATTTGATCACTTC
Found at i:1142212 original size:2 final size:2
Alignment explanation
Indices: 1142207--1142239 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1142197 AGAGTTTTAA
*
1142207 AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1142240 AAGAATATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1147361 original size:17 final size:18
Alignment explanation
Indices: 1147339--1147374 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1147329 CGATATGAAT
1147339 ATATTTAATAT-TTTAAA
1 ATATTTAATATATTTAAA
*
1147356 ATATTTTATATATTTAAA
1 ATATTTAATATATTTAAA
1147374 A
1 A
1147375 AGCTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATTTAATATATTTAAA
Found at i:1147375 original size:19 final size:19
Alignment explanation
Indices: 1147336--1147375 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1147326 GTTCGATATG
*
1147336 AATATATTTAATATTTTAA
1 AATATATTTAATATTTAAA
1147355 AATAT-TTTATATATTTAAA
1 AATATATTTA-ATATTTAAA
1147374 AA
1 AA
1147376 GCTTTTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATATATTTAATATTTAAA
Found at i:1152341 original size:22 final size:22
Alignment explanation
Indices: 1152284--1152348 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
1152274 GATTTTTACA
1152284 TTAATTTA-TAAAATATTATTTATT
1 TTAATTTATTAAAAT-TTA-TT-TT
*
1152308 TTAATTTATTAAATTTTATTTT
1 TTAATTTATTAAAATTTATTTT
* *
1152330 TTATTTTTTTAAAATTTAT
1 TTAATTTATTAAAATTTAT
1152349 AAATTAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 18 0.50
23 2 0.06
24 11 0.31
25 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTAATTTATTAAAATTTATTTT
Found at i:1152656 original size:18 final size:16
Alignment explanation
Indices: 1152623--1152659 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
1152613 TTAAAAAAAT
1152623 TAAAATATAAATATAA
1 TAAAATATAAATATAA
*
1152639 TAAAATATATA-ATAA
1 TAAAATATAAATATAA
1152654 TAAAAT
1 TAAAAT
1152660 TACCTTGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAAATATAAATATAA
Found at i:1153091 original size:15 final size:15
Alignment explanation
Indices: 1153011--1153085 Score: 59
Period size: 14 Copynumber: 5.2 Consensus size: 15
1153001 TTTAAAAATA
*
1153011 TAAAATAATTACATT
1 TAAAATAATTATATT
**
1153026 T-AAATTTTTA-ATT
1 TAAAATAATTATATT
**
1153039 TAATTTAATTA-ATT
1 TAAAATAATTATATT
*
1153053 T-ATATAATTATATT
1 TAAAATAATTATATT
1153067 TAAAATAATTAATATT
1 TAAAATAATT-ATATT
1153083 TAA
1 TAA
1153086 TAAATTTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
13 12 0.25
14 20 0.42
15 8 0.17
16 8 0.17
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (15 bp):
TAAAATAATTATATT
Found at i:1153094 original size:16 final size:16
Alignment explanation
Indices: 1153056--1153085 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1153046 ATTAATTTAT
1153056 ATAATT-ATATTTAAA
1 ATAATTAATATTTAAA
1153071 ATAATTAATATTTAA
1 ATAATTAATATTTAA
1153086 TAAATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATAATTAATATTTAAA
Found at i:1154588 original size:2 final size:2
Alignment explanation
Indices: 1154581--1154607 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1154571 TGGATAATTC
1154581 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 A
1154608 AAATAAGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1155972 original size:14 final size:14
Alignment explanation
Indices: 1155929--1155975 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
1155919 ATATAAATCA
1155929 TAAATTTTTAATTACAT
1 TAAATTTTT-ATT--AT
*
1155946 TAAA-TTATATTAT
1 TAAATTTTTATTAT
1155959 TAAATTTTTATTAT
1 TAAATTTTTATTAT
1155973 TAA
1 TAA
1155976 TAAATTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 6 0.22
14 11 0.41
15 3 0.11
16 3 0.11
17 4 0.15
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (14 bp):
TAAATTTTTATTAT
Found at i:1155980 original size:30 final size:29
Alignment explanation
Indices: 1155929--1155986 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
1155919 ATATAAATCA
1155929 TAAATTTTTAATTACATTAAATTATATTAT
1 TAAATTTTTAATTACATTAAATTA-ATTAT
1155959 TAAATTTTTATTATTA-A-TAAATTAATTA
1 TAAATTTTTA--ATTACATTAAATTAATTA
1155987 CTTACACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 4 0.15
30 17 0.65
31 1 0.04
32 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (29 bp):
TAAATTTTTAATTACATTAAATTAATTAT
Found at i:1156121 original size:16 final size:15
Alignment explanation
Indices: 1156100--1156153 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
1156090 ATTTTTATTA
1156100 AAATTACTTAATAATT
1 AAATTA-TTAATAATT
*
1156116 AAATTA--AATAAAT
1 AAATTATTAATAATT
*
1156129 AAATTTATTAATAATA
1 AAA-TTATTAATAATT
1156145 AAATT-TTAA
1 AAATTATTAA
1156154 AGATATAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 2 0.06
16 14 0.44
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATTATTAATAATT
Found at i:1156804 original size:2 final size:2
Alignment explanation
Indices: 1156797--1156828 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1156787 GCTTTTGATT
1156797 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1156829 TTGTGTTCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1158185 original size:15 final size:15
Alignment explanation
Indices: 1158165--1158194 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1158155 AGACCACCAC
1158165 CCACCGGCACATACA
1 CCACCGGCACATACA
1158180 CCACCGGCACATACA
1 CCACCGGCACATACA
1158195 TCAGTTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.47, G:0.13, T:0.07
Consensus pattern (15 bp):
CCACCGGCACATACA
Found at i:1161871 original size:26 final size:25
Alignment explanation
Indices: 1161819--1161896 Score: 90
Period size: 26 Copynumber: 3.2 Consensus size: 25
1161809 AAATAAAAAA
* *
1161819 TAAATTTAATTTTTATATTTTATTT
1 TAAATTTAATTTTTATATTTAAATT
1161844 TAAATTTAATTATTTATATTTAAATT
1 TAAATTTAATT-TTTATATTTAAATT
*
1161870 TAAA--TAATTTTT-TAATTATAATT
1 TAAATTTAATTTTTATATTTA-AATT
1161893 TAAA
1 TAAA
1161897 AAATATTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
22 5 0.10
23 11 0.23
24 5 0.10
25 11 0.23
26 16 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TAAATTTAATTTTTATATTTAAATT
Found at i:1161879 original size:21 final size:19
Alignment explanation
Indices: 1161823--1161879 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
1161813 AAAAAATAAA
* * *
1161823 TTTAATTTTTATATTTTAT
1 TTTAAATTTAATAATTTAT
*
1161842 TTTAAATTTAATTATTTAT
1 TTTAAATTTAATAATTTAT
1161861 ATTTAAATTTAAATAATTT
1 -TTTAAATTT-AATAATTT
1161880 TTTAATTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.48
20 9 0.29
21 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTAAATTTAATAATTTAT
Found at i:1166646 original size:17 final size:16
Alignment explanation
Indices: 1166601--1166661 Score: 61
Period size: 15 Copynumber: 3.7 Consensus size: 16
1166591 TATTTTTTTA
1166601 AAATTTAATAAAAAATATT
1 AAATTTAA-AAAAAA-A-T
**
1166620 AAATTTAAAAAATTAT
1 AAATTTAAAAAAAAAT
*
1166636 -ATTTTAAAAAAAAAT
1 AAATTTAAAAAAAAAT
1166651 AAATTTAAAAA
1 AAATTTAAAAA
1166662 GTAAAATATG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
15 12 0.34
16 10 0.29
17 1 0.03
18 4 0.11
19 8 0.23
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATTTAAAAAAAAAT
Found at i:1167160 original size:18 final size:16
Alignment explanation
Indices: 1167125--1167168 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
1167115 TTTTAATAAA
1167125 TTTAAAATTTAAATTT
1 TTTAAAATTTAAATTT
*
1167141 TTTAAAATATATATATTT
1 TTTAAAAT-T-TAAATTT
*
1167159 TTTCAAATTT
1 TTTAAAATTT
1167169 CAAACTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 9 0.38
17 2 0.08
18 13 0.54
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAAAATTTAAATTT
Found at i:1168626 original size:4 final size:4
Alignment explanation
Indices: 1168617--1168651 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
1168607 ATGACTCTTT
1168617 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
1168652 TTTATTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:1169133 original size:18 final size:17
Alignment explanation
Indices: 1169110--1169143 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1169100 TATGTTATGT
*
1169110 TTATATTGTATAATTATA
1 TTATATT-TAAAATTATA
1169128 TTATATTTAAAATTAT
1 TTATATTTAAAATTAT
1169144 CAATTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTATATTTAAAATTATA
Found at i:1169249 original size:136 final size:136
Alignment explanation
Indices: 1169109--1169387 Score: 531
Period size: 136 Copynumber: 2.1 Consensus size: 136
1169099 TTATGTTATG
1169109 TTTATATTGTATAATTATATTATATTTAAAATTATCAATTTTAATTGATACTATTCAAATAACTC
1 TTTATATTGTATAATTATATTATATTTAAAATTATCAATTTTAATTGATACTATTCAAATAACTC
*
1169174 TTAATTTTGTATCTAATATTATTATATTTGTCTTGTTTTTTGTATCATAATTAAATTTAAGTTAT
66 TTAATTTTGTATCTAATATTATTATATTTGTCTTATTTTTTGTATCATAATTAAATTTAAGTTAT
1169239 TACATA
131 TACATA
* *
1169245 TTTATATTGTATAATTATATTATATTTAAAATTGTCAATTTTAATTGATACTATTTAAATAACTC
1 TTTATATTGTATAATTATATTATATTTAAAATTATCAATTTTAATTGATACTATTCAAATAACTC
1169310 TTAATTTTGTATCTAATATTATTATATTTGTCTTATTTTTTGTATCATAATTAAATTTAAGTTAT
66 TTAATTTTGTATCTAATATTATTATATTTGTCTTATTTTTTGTATCATAATTAAATTTAAGTTAT
1169375 TACATA
131 TACATA
1169381 TTTATAT
1 TTTATAT
1169388 AATTTTTGAT
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
136 140 1.00
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (136 bp):
TTTATATTGTATAATTATATTATATTTAAAATTATCAATTTTAATTGATACTATTCAAATAACTC
TTAATTTTGTATCTAATATTATTATATTTGTCTTATTTTTTGTATCATAATTAAATTTAAGTTAT
TACATA
Found at i:1170435 original size:13 final size:12
Alignment explanation
Indices: 1170412--1170442 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
1170402 TTTTACTGTT
1170412 TTTATTTGTTTA
1 TTTATTTGTTTA
1170424 TTTATATTGTTTA
1 TTTAT-TTGTTTA
1170437 TTTATT
1 TTTATT
1170443 ATTTGTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (12 bp):
TTTATTTGTTTA
Found at i:1170965 original size:2 final size:2
Alignment explanation
Indices: 1170954--1170987 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
1170944 ATACGTGTTG
*
1170954 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AG AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1170988 CGTCGAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1171147 original size:15 final size:15
Alignment explanation
Indices: 1171113--1171147 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1171103 TTAATTTTAA
1171113 TTAAAATTTTAAAAT
1 TTAAAATTTTAAAAT
* *
1171128 ATAAAATTTTAAATT
1 TTAAAATTTTAAAAT
1171143 TTAAA
1 TTAAA
1171148 TTAAAAATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TTAAAATTTTAAAAT
Found at i:1171155 original size:14 final size:14
Alignment explanation
Indices: 1171105--1171163 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
1171095 TAAATAATTT
1171105 AATTTT-AATT-AA
1 AATTTTAAATTAAA
*
1171117 AATTTTAAAATATAA
1 AATTTTAAATTA-AA
**
1171132 AATTTTAAATTTTA
1 AATTTTAAATTAAA
**
1171146 AATTAAAAATTAAA
1 AATTTTAAATTAAA
1171160 AATT
1 AATT
1171164 ATTTATATAT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
12 6 0.17
13 3 0.08
14 15 0.42
15 12 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AATTTTAAATTAAA
Found at i:1171163 original size:21 final size:21
Alignment explanation
Indices: 1171111--1171160 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
1171101 ATTTAATTTT
1171111 AATTAAAATTTTAAAATATAA
1 AATTAAAATTTTAAAATATAA
* *
1171132 AATTTTAAATTTTAAATTA-AA
1 AA-TTAAAATTTTAAAATATAA
1171153 AATTAAAA
1 AATTAAAA
1171161 ATTATTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 5 0.20
21 6 0.24
22 14 0.56
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTAAAATTTTAAAATATAA
Found at i:1171710 original size:24 final size:25
Alignment explanation
Indices: 1171682--1171728 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
1171672 TTTAAAAATA
1171682 TAAAAAATA-AAAATGAATAAAAAG
1 TAAAAAATAGAAAATGAATAAAAAG
* *
1171706 -AAAAAGTAGAAAATGATTAAAAA
1 TAAAAAATAGAAAATGAATAAAAA
1171729 ACTAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (25 bp):
TAAAAAATAGAAAATGAATAAAAAG
Found at i:1173479 original size:18 final size:18
Alignment explanation
Indices: 1173458--1173506 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
1173448 ATAAATATTT
*
1173458 TAAATATAATATAAAATA
1 TAAATATAATATAAAAAA
1173476 TAAA-ATAATATTAAAAAA
1 TAAATATAATA-TAAAAAA
1173494 T-AATATAAATATA
1 TAAATAT-AATATA
1173507 TTAACTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 8 0.30
18 15 0.56
19 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAATATAATATAAAAAA
Found at i:1178464 original size:20 final size:20
Alignment explanation
Indices: 1178441--1178478 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1178431 TATATCCGCT
*
1178441 AATATATCTTTTACATCTCC
1 AATATACCTTTTACATCTCC
*
1178461 AATATCCCTTTTACATCT
1 AATATACCTTTTACATCT
1178479 TCATCATTGT
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:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (20 bp):
AATATACCTTTTACATCTCC
Found at i:1182441 original size:12 final size:13
Alignment explanation
Indices: 1182424--1182468 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 13
1182414 ATGATCGGGT
1182424 AATAAATAA-AAA
1 AATAAATAATAAA
1182436 AATAAATAATTGAATA
1 AATAAATAA-T-AA-A
1182452 AATAAATAATAAA
1 AATAAATAATAAA
1182465 AATA
1 AATA
1182469 TTCACATGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 9 0.31
13 5 0.17
14 2 0.07
15 3 0.10
16 10 0.34
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
AATAAATAATAAA
Found at i:1186959 original size:88 final size:86
Alignment explanation
Indices: 1186809--1186974 Score: 201
Period size: 88 Copynumber: 1.9 Consensus size: 86
1186799 TTTACAATCA
* * * *
1186809 ATAATCAATTCTTTTTTTTTCTATCAAAAGGAATCCAATTCTTAAAAATAATCAATAAATTA-GT
1 ATAATCAATTCTTTTTTTTTCTACCAAAAGAAATACAATTCTAAAAAATAATCAATAAATTAGGT
*
1186873 CTAATCTTTGTAGTTTACATTT
66 -TAATCTTTATAGTTTACATTT
* * **
1186895 ATAATCAA-TCTTTTTTTCCTTTCTACCAAAAGAAATATAATTCTAAAAAATAATCTATGTATTA
1 ATAATCAATTC-TTTTTT--TTTCTACCAAAAGAAATACAATTCTAAAAAATAATCAATAAATTA
1186959 GGTTAATCTTTATAGT
63 GGTTAATCTTTATAGT
1186975 CTAATATTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
85 2 0.03
86 14 0.21
88 49 0.73
89 2 0.03
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (86 bp):
ATAATCAATTCTTTTTTTTTCTACCAAAAGAAATACAATTCTAAAAAATAATCAATAAATTAGGT
TAATCTTTATAGTTTACATTT
Found at i:1187216 original size:39 final size:38
Alignment explanation
Indices: 1187071--1187228 Score: 111
Period size: 39 Copynumber: 4.0 Consensus size: 38
1187061 CATCCATTCA
* * * *
1187071 AAAAAATTCTTGCATTAGTCTCATCTTTTAAATTCTAAT
1 AAAAAA-TCATGCATTAATCACATCTTTTAAATTTTAAT
* * *
1187110 AAAAAAATTTTATGTATTAATCACATCTTTTATATTTTAAT
1 -AAAAAA--TCATGCATTAATCACATCTTTTAAATTTTAAT
* * * * *
1187151 AAATAATTCATACATTACAT-ATATCTTTCAGATTTTAAT
1 AAA-AAATCATGCATTA-ATCACATCTTTTAAATTTTAAT
* **
1187190 AAAAAATCAATGCATTAGTCACATCTTTTTTATTTTAAT
1 AAAAAATC-ATGCATTAATCACATCTTTTAAATTTTAAT
1187229 TAACCCAAAA
Statistics
Matches: 92, Mismatches: 21, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
38 5 0.05
39 48 0.52
40 11 0.12
41 28 0.30
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (38 bp):
AAAAAATCATGCATTAATCACATCTTTTAAATTTTAAT
Done.