Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 404 of 427
Found at i:117290048 original size:13 final size:14
Alignment explanation
Indices: 117290032--117290067 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
117290022 CAATCTCATA
117290032 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
117290045 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
117290058 TCTC-ATTTCA
1 TCTCAATTTCA
117290068 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:117290057 original size:18 final size:19
Alignment explanation
Indices: 117290019--117290059 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
117290009 TGGTTCATGT
117290019 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
117290038 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
117290056 TTTC
1 TTTC
117290060 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:117290241 original size:27 final size:28
Alignment explanation
Indices: 117290160--117290254 Score: 96
Period size: 23 Copynumber: 3.6 Consensus size: 28
117290150 ATACGCGGAT
*
117290160 TCCTCCCAAACACACCAGAATATC-CAA
1 TCCTCCCAAACACACCAGAATATCATAA
*
117290187 ----CCCAAACACACCAGAATATTATAAA
1 TCCTCCCAAACACACCAGAATATCAT-AA
*
117290212 TCCT-CCATAACACACCAGTATATCAT-A
1 TCCTCCCA-AACACACCAGAATATCATAA
117290239 TCCTCCCAAACACACC
1 TCCTCCCAAACACACC
117290255 TATAAGGCAT
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
23 19 0.34
25 2 0.04
27 13 0.23
28 6 0.11
29 16 0.29
ACGTcount: A:0.41, C:0.38, G:0.03, T:0.18
Consensus pattern (28 bp):
TCCTCCCAAACACACCAGAATATCATAA
Found at i:117290637 original size:15 final size:15
Alignment explanation
Indices: 117290598--117290644 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
117290588 CCTGTTTCTT
117290598 CTCTGTTTCGTTTCCA
1 CTCTGTTTC-TTTCCA
*
117290614 CATTCTGTTTCTTTTCA
1 C--TCTGTTTCTTTCCA
117290631 CTCTGTTTCTTTCC
1 CTCTGTTTCTTTCC
117290645 TTTATTTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 12 0.44
16 1 0.04
17 6 0.22
18 8 0.30
ACGTcount: A:0.06, C:0.30, G:0.09, T:0.55
Consensus pattern (15 bp):
CTCTGTTTCTTTCCA
Found at i:117290872 original size:21 final size:22
Alignment explanation
Indices: 117290819--117290873 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
117290809 CAATTTAAAT
*
117290819 AATAATAACAATAACAATAATA
1 AATAATAATAATAACAATAATA
* *
117290841 ATTAA-ATATAA-AACTATAATA
1 AATAATA-ATAATAACAATAATA
117290862 AATAATAATAAT
1 AATAATAATAAT
117290874 TTAATATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAATAATAATAACAATAATA
Found at i:117291316 original size:47 final size:46
Alignment explanation
Indices: 117291246--117291369 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 46
117291236 AAGTGATTTC
* *
117291246 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
117291292 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * * *
117291339 CGTGTAAGACCATAGCTAGGCTATGGCATCG
1 CGTATAAGACCATATCTGGGATATGGCATCG
117291370 ATATATGAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 26 0.39
47 41 0.61
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:117292683 original size:2 final size:2
Alignment explanation
Indices: 117292666--117292715 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
117292656 TAAATTGAAT
* *
117292666 TA TA TA T- TA TA AA TA TA TA AA 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
117292707 TA TA TA TA T
1 TA TA TA TA T
117292716 GTGTGTGTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:117292910 original size:15 final size:15
Alignment explanation
Indices: 117292892--117292948 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
117292882 TATCTGTTTT
117292892 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* * *
117292907 ATTGAAATTATTTTA
1 ATTGAATTTATATTG
117292922 ATTGAATTTATATTG
1 ATTGAATTTATATTG
117292937 ATTGAA-TTATAT
1 ATTGAATTTATAT
117292949 AATATATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:117292927 original size:30 final size:28
Alignment explanation
Indices: 117292888--117292946 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
117292878 TGAATATCTG
117292888 TTTTATTGAATTTATATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
117292917 TTTTAATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
117292946 T
1 T
117292947 ATAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:117293274 original size:23 final size:23
Alignment explanation
Indices: 117293248--117293322 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
117293238 AGGCACTTTA
*
117293248 TGTGTAGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
117293271 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* **
117293292 TGTGTCGT-TTT-AGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
117293313 TGTGTCGTAT
1 TGTGTCGTAT
117293323 ACTGATCAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
21 35 0.78
22 2 0.04
23 8 0.18
ACGTcount: A:0.15, C:0.20, G:0.27, T:0.39
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:117293505 original size:18 final size:19
Alignment explanation
Indices: 117293484--117293524 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
117293474 AAGGAAATGA
117293484 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
117293502 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
117293521 GAAA
1 GAAA
117293525 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:117296181 original size:9 final size:9
Alignment explanation
Indices: 117296156--117296194 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
117296146 GAATTTAGAA
117296156 GAATTT-GT
1 GAATTTGGT
117296164 GAA-TTGGT
1 GAATTTGGT
117296172 GAATTTGGT
1 GAATTTGGT
117296181 GAATTTGGT
1 GAATTTGGT
117296190 GAATT
1 GAATT
117296195 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 2 0.07
8 8 0.28
9 19 0.66
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (9 bp):
GAATTTGGT
Found at i:117297548 original size:53 final size:53
Alignment explanation
Indices: 117297407--117297557 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
117297397 ATAAGTGCGC
* **
117297407 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
117297460 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
117297513 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
117297558 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:117302988 original size:38 final size:40
Alignment explanation
Indices: 117302934--117303100 Score: 194
Period size: 46 Copynumber: 3.9 Consensus size: 40
117302924 TCTGATATGA
117302934 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
117302974 -A-GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
*
117303017 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 -AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
117303058 ATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 A-ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
117303101 ATGACAGAAA
Statistics
Matches: 111, Mismatches: 2, Indels: 22
0.82 0.01 0.16
Matches are distributed among these distances:
38 35 0.32
39 1 0.01
40 1 0.01
41 5 0.05
43 2 0.02
44 2 0.02
45 1 0.01
46 64 0.58
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (40 bp):
AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:117303042 original size:46 final size:46
Alignment explanation
Indices: 117302977--117303149 Score: 240
Period size: 46 Copynumber: 3.8 Consensus size: 46
117302967 CAACCTGAGT
* *
117302977 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
*
117303023 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
** *
117303069 ACAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGA
* * * *
117303115 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATG
117303150 TCAAAGATAA
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 113 0.99
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
Found at i:117308515 original size:53 final size:53
Alignment explanation
Indices: 117308374--117308524 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
117308364 ATAAGTGCGC
* **
117308374 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
117308427 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
117308480 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
117308525 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:117314548 original size:5 final size:5
Alignment explanation
Indices: 117314529--117314614 Score: 75
Period size: 5 Copynumber: 15.8 Consensus size: 5
117314519 CAACCCAATC
*
117314529 TTTATT TTTATT TTTATT TTTATT TATTAT TTTCT TTTAT TTTAT TTTATT
1 TTTA-T TTTA-T TTTA-T TTTA-T T-TTAT TTTAT TTTAT TTTAT TTTA-T
*
117314580 ATTTAT TATT-T ATTAT TTTAT TTTAT TTTAT TTTA
1 -TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTA
117314615 GTTAAACATT
Statistics
Matches: 71, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
4 2 0.03
5 37 0.52
6 25 0.35
7 7 0.10
ACGTcount: A:0.21, C:0.01, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:117314570 original size:23 final size:23
Alignment explanation
Indices: 117314540--117314606 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 23
117314530 TTATTTTTAT
117314540 TTTTATTTT-TATTTATTATTTTC
1 TTTTATTTTAT-TTTATTATTTTC
*
117314563 TTTTATTTTATTTTATTATTTATTAT
1 TTTTATTTTATTTTATTA-TT-TT-C
117314589 TTATTATTTTATTTTATT
1 TT-TTATTTTATTTTATT
117314607 TTATTTTAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
23 16 0.42
24 3 0.08
25 2 0.05
26 2 0.05
27 15 0.39
ACGTcount: A:0.21, C:0.01, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTATTTTATTTTATTATTTTC
Found at i:117314598 original size:37 final size:36
Alignment explanation
Indices: 117314529--117314614 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 36
117314519 CAACCCAATC
*
117314529 TTTATTTT-TATTT-TTATTTTTATTTATTATTTTCT
1 TTTATTTTAT-TTTATTATTTTTATTTATTATTTTAT
117314564 TTTATTTTATTTTATTATTTATTATTTATTATTTTAT
1 TTTATTTTATTTTATTATTT-TTATTTATTATTTTAT
117314601 TTTATTTTATTTTA
1 TTTATTTTATTTTA
117314615 GTTAAACATT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
35 11 0.23
36 7 0.15
37 29 0.62
ACGTcount: A:0.21, C:0.01, G:0.00, T:0.78
Consensus pattern (36 bp):
TTTATTTTATTTTATTATTTTTATTTATTATTTTAT
Found at i:117315827 original size:9 final size:9
Alignment explanation
Indices: 117315815--117315841 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
117315805 TAAAATTTAA
117315815 AAAAAAAAG
1 AAAAAAAAG
117315824 AAAAAAAAG
1 AAAAAAAAG
117315833 AAAAAAAAG
1 AAAAAAAAG
117315842 TACTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:117322669 original size:53 final size:53
Alignment explanation
Indices: 117322588--117322738 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
117322578 CTTACACGGT
* *
117322588 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
* *
117322643 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCATATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
117322696 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
117322739 GCGCACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:117323226 original size:23 final size:23
Alignment explanation
Indices: 117323198--117323249 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
117323188 AACACTTGAG
117323198 CTATTTAATCCTTTTAGCAAAAT
1 CTATTTAATCCTTTTAGCAAAAT
117323221 CTATTTAATCCTTTTAGCAAAAT
1 CTATTTAATCCTTTTAGCAAAAT
*
117323244 TTATTT
1 CTATTT
117323250 TTATTACAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.48
Consensus pattern (23 bp):
CTATTTAATCCTTTTAGCAAAAT
Found at i:117331648 original size:22 final size:23
Alignment explanation
Indices: 117331609--117331672 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 23
117331599 ATATTTTAAA
117331609 TAAAAATAAAAAATTATAATGTTT
1 TAAAAATAAAAAATTATAAT-TTT
117331633 TAAAAAT-AAAAATATATAATTTT
1 TAAAAATAAAAAAT-TATAATTTT
*
117331656 AAAAAATAAAAAATTAT
1 TAAAAATAAAAAATTAT
117331673 TAAAAAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
23 18 0.49
24 19 0.51
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
TAAAAATAAAAAATTATAATTTT
Found at i:117331662 original size:17 final size:18
Alignment explanation
Indices: 117331640--117331679 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
117331630 TTTTAAAAAT
* *
117331640 AAAAATATATAATT-TTA
1 AAAAATAAAAAATTATTA
117331657 AAAAATAAAAAATTATTA
1 AAAAATAAAAAATTATTA
117331675 AAAAA
1 AAAAA
117331680 ACTCTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAATAAAAAATTATTA
Found at i:117331949 original size:14 final size:15
Alignment explanation
Indices: 117331932--117331960 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
117331922 ATAAATTATA
117331932 AAAAATTA-AAAAAT
1 AAAAATTATAAAAAT
117331946 AAAAATTATAAAAAT
1 AAAAATTATAAAAAT
117331961 CGGTTCAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAATTATAAAAAT
Found at i:117332382 original size:32 final size:34
Alignment explanation
Indices: 117332315--117332383 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 34
117332305 TTAAATATCA
* **
117332315 TTTTTATTTTTAAAAATTTTAATGTTTTTTCATT
1 TTTTTATTTTTAAAAATTATAATGTTTTTAAATT
*
117332349 TTTTTATTTTT-AAAA-TATAAT-TTTTTAAAAT
1 TTTTTATTTTTAAAAATTATAATGTTTTTAAATT
117332380 TTTT
1 TTTT
117332384 ATGTCAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 11 0.35
32 5 0.16
33 4 0.13
34 11 0.35
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (34 bp):
TTTTTATTTTTAAAAATTATAATGTTTTTAAATT
Found at i:117339756 original size:85 final size:87
Alignment explanation
Indices: 117339656--117339818 Score: 249
Period size: 88 Copynumber: 1.9 Consensus size: 87
117339646 GATTATAACG
*
117339656 AGTTGTATTTGATCAATTTTGCAAGT-A-TTTTTTTGGTTTTCGTTATAGAATAAATAAAACAGG
1 AGTTGTATTTGATCAATTTTGCAAGTAATTTTTTTTGGTTTTCGTTACAGAATAAATAAAACAGG
117339719 TAAAATATTTATTATAATAATA
66 TAAAATATTTATTATAATAATA
* * * * *
117339741 AGTTGTATTTTATCAATTTTGTAAGTAATTTTTTTTTGGTTTTCTTTACAGAATATATGAAACAG
1 AGTTGTATTTGATCAATTTTGCAAGTAA-TTTTTTTTGGTTTTCGTTACAGAATAAATAAAACAG
117339806 GTAAAATATTTAT
65 GTAAAATATTTAT
117339819 GAAAATAGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
85 24 0.35
86 1 0.01
88 44 0.64
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (87 bp):
AGTTGTATTTGATCAATTTTGCAAGTAATTTTTTTTGGTTTTCGTTACAGAATAAATAAAACAGG
TAAAATATTTATTATAATAATA
Found at i:117352442 original size:96 final size:95
Alignment explanation
Indices: 117352239--117352529 Score: 485
Period size: 95 Copynumber: 3.1 Consensus size: 95
117352229 CTAAATTCAA
* * *
117352239 AAAAAGTAGAATTAAACAAATC-GGGGTTAAAGAGGAGAGCAAGAGATGTTGGCTTACCTCACCA
1 AAAACGTAGAATTGAATAAA-CGGGGGTTAAAGAGGAGAGCAAGAGATGTTGGCTTACCTCACCA
117352303 AATCGAGACCCACAATCTTGTTTATTGCCAC
65 AATCGAGACCCACAATCTTGTTTATTGCCAC
117352334 AAAACGTAGAATTGAATAAACGGGGGTTAAAGAGGAGAGCAAGAGATGTTGGCTTACCTCACCAA
1 AAAACGTAGAATTGAATAAACGGGGGTTAAAGAGGAGAGCAAGAGATGTTGGCTTACCTCACC-A
117352399 AATCGAGACCCACAATCTTGTTTATTGCCAC
65 AATCGAGACCCACAATCTTGTTTATTGCCAC
* * * * *
117352430 GAAACGTAGAATTGAATAAATGGCGGTTAAAGAGGAGAGAAAAAGATGTTGGCTTACCTCACCAA
1 AAAACGTAGAATTGAATAAACGGGGGTTAAAGAGGAGAGCAAGAGATGTTGGCTTACCTCACCAA
117352495 ATCGAGACCCACAATCTTGTTTATTGCCAC
66 ATCGAGACCCACAATCTTGTTTATTGCCAC
117352525 AAAAC
1 AAAAC
117352530 ACCCAAGAGT
Statistics
Matches: 185, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
94 1 0.01
95 94 0.51
96 90 0.49
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (95 bp):
AAAACGTAGAATTGAATAAACGGGGGTTAAAGAGGAGAGCAAGAGATGTTGGCTTACCTCACCAA
ATCGAGACCCACAATCTTGTTTATTGCCAC
Found at i:117362555 original size:3 final size:3
Alignment explanation
Indices: 117362547--117362590 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
117362537 AGTGTTGATA
117362547 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
117362591 AATGAGTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:117364545 original size:24 final size:24
Alignment explanation
Indices: 117364518--117364566 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
117364508 ACTATTTTCC
117364518 TTTTATTTCTTTCGGCCATTAACA
1 TTTTATTTCTTTCGGCCATTAACA
117364542 TTTTATTTCTTTCGGCCATTAACA
1 TTTTATTTCTTTCGGCCATTAACA
117364566 T
1 T
117364567 CATAAACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.51
Consensus pattern (24 bp):
TTTTATTTCTTTCGGCCATTAACA
Found at i:117371762 original size:19 final size:18
Alignment explanation
Indices: 117371726--117371760 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
117371716 TCATTACGTT
117371726 AAATATATTTTATTTTTA
1 AAATATATTTTATTTTTA
117371744 AAATATCA-TTTATTTTT
1 AAATAT-ATTTTATTTTT
117371761 TATATATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
AAATATATTTTATTTTTA
Found at i:117372032 original size:30 final size:31
Alignment explanation
Indices: 117371977--117372048 Score: 94
Period size: 32 Copynumber: 2.4 Consensus size: 31
117371967 TTGAAGCAAT
* * *
117371977 TATTTGAAATTTTTCACATATAAAAATATTGG
1 TATTTGAAATATTTCACA-ATAAAAATAATGA
117372009 TATTTGAAATATTTCAC-ATAAAAATAATGA
1 TATTTGAAATATTTCACAATAAAAATAATGA
117372039 TA-TTGAAATA
1 TATTTGAAATA
117372049 ATTATTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.22
30 13 0.35
32 16 0.43
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (31 bp):
TATTTGAAATATTTCACAATAAAAATAATGA
Found at i:117372150 original size:42 final size:43
Alignment explanation
Indices: 117372099--117372181 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 43
117372089 AAAATAATTA
*
117372099 TATTTAAAATAATTAATTAATTTTAT-ATATTAGATTTTACTT
1 TATTTAAAATAATTAATTAATTTTATAATATTAGAATTTACTT
* *
117372141 TATTTAAAATAATTATTTTATTTTATAATATTAGAATTTAC
1 TATTTAAAATAATTAATTAATTTTATAATATTAGAATTTAC
117372182 CGTGCTCACA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 24 0.65
43 13 0.35
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (43 bp):
TATTTAAAATAATTAATTAATTTTATAATATTAGAATTTACTT
Found at i:117375031 original size:47 final size:47
Alignment explanation
Indices: 117374967--117375077 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
117374957 GACATTGAGT
*
117374967 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
117375014 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
117375061 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
117375078 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:117376726 original size:29 final size:26
Alignment explanation
Indices: 117376693--117376779 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 26
117376683 TTAGATTTTA
117376693 ATTATAATATATATATATTAGTAATAAAT
1 ATTATAA-ATATATATATTA-TAAT-AAT
*
117376722 ATTATTAAAT-TAATATATTATAATTAT
1 ATTA-TAAATAT-ATATATTATAATAAT
* *
117376749 ATTATAAGATATTTATATGATAAATAA-
1 ATTATAA-ATATATATATTAT-AATAAT
117376776 ATTA
1 ATTA
117376780 GTATAAAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
26 3 0.06
27 19 0.39
28 10 0.20
29 14 0.29
30 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (26 bp):
ATTATAAATATATATATTATAATAAT
Found at i:117376740 original size:13 final size:14
Alignment explanation
Indices: 117376693--117376747 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
117376683 TTAGATTTTA
117376693 ATTATAATATATATAT
1 ATTATAAT-TA-ATAT
*
117376709 ATTAGTAATAAATATT
1 ATTA-TAATTAATA-T
117376725 ATTA-AATTAATAT
1 ATTATAATTAATAT
117376738 ATTATAATTA
1 ATTATAATTA
117376748 TATTATAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 5 0.15
14 12 0.35
15 3 0.09
16 10 0.29
17 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
ATTATAATTAATAT
Found at i:117379433 original size:51 final size:51
Alignment explanation
Indices: 117379372--117379481 Score: 193
Period size: 51 Copynumber: 2.2 Consensus size: 51
117379362 ACTTCTGATC
*
117379372 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
* *
117379423 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
117379474 AGTGATAA
1 AGTGATAA
117379482 ATGTGATCAG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (51 bp):
AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
Found at i:117386122 original size:51 final size:51
Alignment explanation
Indices: 117386044--117386255 Score: 361
Period size: 51 Copynumber: 4.2 Consensus size: 51
117386034 ACTTCTGATC
*
117386044 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
* *
117386095 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
* *
117386146 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGATA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
* *
117386197 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
117386248 AGTGATAA
1 AGTGATAA
117386256 ATGTGATCAG
Statistics
Matches: 150, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 150 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (51 bp):
AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
Found at i:117386206 original size:102 final size:102
Alignment explanation
Indices: 117386044--117386258 Score: 403
Period size: 102 Copynumber: 2.1 Consensus size: 102
117386034 ACTTCTGATC
* *
117386044 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
117386109 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
66 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
*
117386146 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGATAAGTGATAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
117386211 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
66 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
117386248 AGTGATAAATG
1 AGTGATAAATG
117386259 TGATCAGTGT
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 110 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (102 bp):
AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
Found at i:117387677 original size:54 final size:54
Alignment explanation
Indices: 117387604--117387740 Score: 274
Period size: 54 Copynumber: 2.5 Consensus size: 54
117387594 ATTGTCGTTG
117387604 CAGGGGATTTAGCCTGGACTGGTAATCCCGATAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGATAATACTCTATGAGTTTATATTA
117387658 CAGGGGATTTAGCCTGGACTGGTAATCCCGATAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGATAATACTCTATGAGTTTATATTA
117387712 CAGGGGATTTAGCCTGGACTGGTAATCCC
1 CAGGGGATTTAGCCTGGACTGGTAATCCC
117387741 ACTGTAAGGA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 83 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (54 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGATAATACTCTATGAGTTTATATTA
Found at i:117387831 original size:46 final size:46
Alignment explanation
Indices: 117387774--117388002 Score: 210
Period size: 46 Copynumber: 5.0 Consensus size: 46
117387764 AGTGTGCTCT
* *
117387774 CTGAAATGAAATGTGTAAGATCATGGTTGAAAGATACCATGACAAC
1 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
117387820 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACTATGGCAAC
1 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
117387866 GT-AACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGAA-ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ****
117387912 ATGACGGGAAAACAAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGAAATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * * *
117387959 ATGACA-GAAAACTAGTAAAACCATAGTTGAAAGATACTATGGCA
1 CTGAAATGAAATGT-GTAAGACCATGGTTGAAAGATACCATGGCA
117388003 TCATGTCGAA
Statistics
Matches: 154, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
45 4 0.03
46 108 0.70
47 42 0.27
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.21
Consensus pattern (46 bp):
CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:117387982 original size:93 final size:93
Alignment explanation
Indices: 117387835--117388007 Score: 233
Period size: 93 Copynumber: 1.9 Consensus size: 93
117387825 ATGAAATGTG
* * * *
117387835 TAAGACCATAGTTGAAAGATACTATGGCAACGTAACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGATACCATGGCAACATAACATGAAATGAATAAAACCATAGTTGAAAGA
117387900 TACCATGGCAACATGACGGGAAAACAAA
66 TACCATGGCAACATGACGGGAAAACAAA
* * *
117387928 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAACT-AGTAAAACCATAGTTGAAA
1 TAAGACCATAGTTGAAAGATACCATGGCAACATAACATG-AAA-TGAATAAAACCATAGTTGAAA
* *
117387991 GATACTATGGCATCATG
64 GATACCATGGCAACATG
117388008 TCGAAGATAA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 1 0.01
93 67 0.97
94 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.20
Consensus pattern (93 bp):
TAAGACCATAGTTGAAAGATACCATGGCAACATAACATGAAATGAATAAAACCATAGTTGAAAGA
TACCATGGCAACATGACGGGAAAACAAA
Found at i:117412489 original size:2 final size:2
Alignment explanation
Indices: 117412482--117412508 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
117412472 AATGCTATAT
117412482 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 T
117412509 TTTTTGCATA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:117419715 original size:21 final size:21
Alignment explanation
Indices: 117419690--117419740 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
117419680 ATGGTTTATT
* *
117419690 AATCCAAT-TGTGCATATTACA
1 AATCCAATGAGTGAATATT-CA
117419711 AATCCAATGAGTGAATATTCA
1 AATCCAATGAGTGAATATTCA
117419732 AATCTCAAT
1 AATC-CAAT
117419741 ATTTACATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (21 bp):
AATCCAATGAGTGAATATTCA
Found at i:117422592 original size:26 final size:26
Alignment explanation
Indices: 117422540--117422593 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
117422530 ATTAATTTGA
* **
117422540 AAAATATTTTATCGAACAAAATTAAT
1 AAAATATTTTATCGAAAAAAAAGAAT
117422566 AAAATATTTTAT-GAAAATAAAAGAAT
1 AAAATATTTTATCGAAAA-AAAAGAAT
117422592 AA
1 AA
117422594 TTTTACGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (26 bp):
AAAATATTTTATCGAAAAAAAAGAAT
Found at i:117429014 original size:28 final size:28
Alignment explanation
Indices: 117428982--117429039 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
117428972 TTACCAAGTA
117428982 TTGAATACAGGGTATAATGATGAAACTC
1 TTGAATACAGGGTATAATGATGAAACTC
117429010 TTGAATACAGGGTATAATGATGAAACTC
1 TTGAATACAGGGTATAATGATGAAACTC
117429038 TT
1 TT
117429040 TCTCTTGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (28 bp):
TTGAATACAGGGTATAATGATGAAACTC
Found at i:117435413 original size:29 final size:29
Alignment explanation
Indices: 117435361--117435442 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
117435351 GTATTGTTCC
*
117435361 GAAAGAAATAAATTTGACAAGATGGGATAT
1 GAAA-AAATAAATTTGACGAGATGGGATAT
* * * *
117435391 GAAAAAATAAATTTGACGTGATGTGTTCT
1 GAAAAAATAAATTTGACGAGATGGGATAT
* * *
117435420 GAAAAAATTATTTTGACGGGATG
1 GAAAAAATAAATTTGACGAGATG
117435443 AATTTTATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 40 0.91
30 4 0.09
ACGTcount: A:0.43, C:0.05, G:0.23, T:0.29
Consensus pattern (29 bp):
GAAAAAATAAATTTGACGAGATGGGATAT
Found at i:117435806 original size:158 final size:156
Alignment explanation
Indices: 117435513--117435808 Score: 403
Period size: 158 Copynumber: 1.9 Consensus size: 156
117435503 CAGCTGGACA
* * *
117435513 TTTTTTTGTACAGTTGATTATGAAAAATAATTTTAGAAGATAATTCTAAAAAAATATCCCAGGAT
1 TTTTTTTGTACAGCTAATTATGAAAAATAATTTTAAAAGATAATTCTAAAAAAATATCCCAGGAT
* * * *
117435578 TCTCAAGAAATCTAAAAGTTGTGGTTGAAAAACGCTTCAAGTAGGATGCACTGTTAGCAAAAGCA
66 TCACAAGAAATATAAAAGTTGGGGTTGAAAAACGCTTCAAGTAGGATGCACTGTCAGCAAAAGCA
117435643 CTGAAAAAAACTCCTAGCTGGACCTC
131 CTGAAAAAAACTCCTAGCTGGACCTC
* * ** * *
117435669 TTTTTTTGTACAGCTAATTCTGAGAAAATGATTTTGAAAAGATGGTTCTGAAAAAATATCCCGGG
1 TTTTTTTGTACAGCTAATTATGA-AAAATAATTTT-AAAAGATAATTCTAAAAAAATATCCCAGG
** * *
117435734 ATTCACGGGAAATATGATAGTTGGGGTTGAAAAACGCTTCAAGTAGGATGCACTGTCAGCAAAAG
64 ATTCACAAGAAATATAAAAGTTGGGGTTGAAAAACGCTTCAAGTAGGATGCACTGTCAGCAAAAG
* *
117435799 TATTGAAAAA
129 CACTGAAAAA
117435809 GCTTCCACAT
Statistics
Matches: 119, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
156 20 0.17
157 10 0.08
158 89 0.75
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (156 bp):
TTTTTTTGTACAGCTAATTATGAAAAATAATTTTAAAAGATAATTCTAAAAAAATATCCCAGGAT
TCACAAGAAATATAAAAGTTGGGGTTGAAAAACGCTTCAAGTAGGATGCACTGTCAGCAAAAGCA
CTGAAAAAAACTCCTAGCTGGACCTC
Found at i:117437081 original size:13 final size:13
Alignment explanation
Indices: 117437063--117437101 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
117437053 AAATCTGCTC
*
117437063 TTTTTTATTTTTA
1 TTTTTTATTGTTA
*
117437076 TTTTTTAATGTTA
1 TTTTTTATTGTTA
117437089 TTTTCTTATTGTT
1 TTTT-TTATTGTT
117437102 TTCTCCCTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (13 bp):
TTTTTTATTGTTA
Found at i:117437247 original size:30 final size:30
Alignment explanation
Indices: 117437184--117437248 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
117437174 ACTTATTTTA
* *
117437184 TTGTTAAATTTGTTATTATTTTAAAGGCAT
1 TTGTTAAATTTGTTATCATTTTAAAGCCAT
* * *
117437214 TTGTTAATTTTGTTATCATTTTAGAGCCGT
1 TTGTTAAATTTGTTATCATTTTAAAGCCAT
117437244 TTGTT
1 TTGTT
117437249 TGTTAAGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.06, G:0.15, T:0.55
Consensus pattern (30 bp):
TTGTTAAATTTGTTATCATTTTAAAGCCAT
Found at i:117438303 original size:28 final size:28
Alignment explanation
Indices: 117438263--117438318 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
117438253 TAGGTCATAT
*
117438263 AATGCGAACATTTCAAAATTGAAGTAAC
1 AATGCGAACATTTCAAAATCGAAGTAAC
117438291 AATGCGAACATTTCAAAATCGAAGTAAC
1 AATGCGAACATTTCAAAATCGAAGTAAC
117438319 TCTTAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.23
Consensus pattern (28 bp):
AATGCGAACATTTCAAAATCGAAGTAAC
Found at i:117438428 original size:59 final size:59
Alignment explanation
Indices: 117438325--117438545 Score: 250
Period size: 59 Copynumber: 3.7 Consensus size: 59
117438315 TAACTCTTAA
*** * * * *
117438325 TTTATTAAATGAAACAATGA-AAAAATAATTTGT-ATTTTCTTATTCAAAAGAATTTATAT
1 TTTATTAAATGAAACAAT-ATAAAAATAATTTGTAAAAAT-ATATTCAAAACAACTTCTAT
* * * *
117438384 TTCATTAAACGAAACAATATAAAAATAATTTGTACAAATATATTCAAAATAACTTCTAT
1 TTTATTAAATGAAACAATATAAAAATAATTTGTAAAAATATATTCAAAACAACTTCTAT
* * *
117438443 TTTATTAAATGAAATAATATAAAAATAATTTGTATAAAA-ATATTCAAAACAACATCTGT
1 TTTATTAAATGAAACAATATAAAAATAATTTGTA-AAAATATATTCAAAACAACTTCTAT
* *
117438502 TTTATTAAATGAAACAATATAAAAACAGTTTGTAAAAATATATT
1 TTTATTAAATGAAACAATATAAAAATAATTTGTAAAAATATATT
117438546 ATAAAACATT
Statistics
Matches: 138, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
58 5 0.04
59 129 0.93
60 4 0.03
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.37
Consensus pattern (59 bp):
TTTATTAAATGAAACAATATAAAAATAATTTGTAAAAATATATTCAAAACAACTTCTAT
Found at i:117438523 original size:118 final size:118
Alignment explanation
Indices: 117438325--117438545 Score: 282
Period size: 118 Copynumber: 1.9 Consensus size: 118
117438315 TAACTCTTAA
***** * **
117438325 TTTATTAAATGAAACAATGAAAAAATAATTTGTATTTTCTTATTCAAAAGAATTTATATTTCATT
1 TTTATTAAATGAAACAATGAAAAAATAATTTGTATAAAAATATTCAAAACAACATATATTTCATT
* *
117438390 AAACGAAACAATATAAAAATAATTTGTACAAATATATTCAAAATAACTTCTAT
66 AAACGAAACAATATAAAAACAATTTGTAAAAATATATTCAAAATAACTTCTAT
* * * *
117438443 TTTATTAAATGAAATAAT-ATAAAAATAATTTGTATAAAAATATTCAAAACAACATCTGTTTTAT
1 TTTATTAAATGAAACAATGA-AAAAATAATTTGTATAAAAATATTCAAAACAACATATATTTCAT
* *
117438507 TAAATGAAACAATATAAAAACAGTTTGTAAAAATATATT
65 TAAACGAAACAATATAAAAACAATTTGTAAAAATATATT
117438546 ATAAAACATT
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
117 1 0.01
118 85 0.99
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.37
Consensus pattern (118 bp):
TTTATTAAATGAAACAATGAAAAAATAATTTGTATAAAAATATTCAAAACAACATATATTTCATT
AAACGAAACAATATAAAAACAATTTGTAAAAATATATTCAAAATAACTTCTAT
Found at i:117440549 original size:12 final size:12
Alignment explanation
Indices: 117440534--117440564 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
117440524 TTCTCTTTTA
117440534 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
117440546 TTTTTCTTTCTC
1 TTTTTCTTTCCC
117440558 TTTTTCT
1 TTTTTCT
117440565 CTCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:117440665 original size:16 final size:16
Alignment explanation
Indices: 117440644--117440674 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
117440634 TTTATTATTT
117440644 TATTAACATAATATAA
1 TATTAACATAATATAA
*
117440660 TATTAATATAATATA
1 TATTAACATAATATA
117440675 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:117443290 original size:93 final size:93
Alignment explanation
Indices: 117443184--117443355 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
117443174 GCCCATAAGT
* * *
117443184 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
117443249 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
117443277 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
117443342 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
117443356 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:117443351 original size:46 final size:46
Alignment explanation
Indices: 117443176--117443351 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
117443166 TGTAACCCGC
* * * *
117443176 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTAGCAT
*
117443222 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTAG---CAT
* * *
117443272 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTAGCAT
117443315 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
117443352 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTAGCAT
Found at i:117443370 original size:46 final size:45
Alignment explanation
Indices: 117443227--117443370 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
117443217 TGCATCCATA
* *
117443227 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
117443275 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
117443320 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
117443366 AGTGA
1 AGTGA
117443371 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:117445044 original size:27 final size:27
Alignment explanation
Indices: 117445007--117445058 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
117444997 ATGTTATTTA
117445007 TATATAGTTCAAAATAGAATAAATACT
1 TATATAGTTCAAAATAGAATAAATACT
117445034 TATATAGTTCAAAATAGAATAAATA
1 TATATAGTTCAAAATAGAATAAATA
117445059 TTTACATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.33
Consensus pattern (27 bp):
TATATAGTTCAAAATAGAATAAATACT
Found at i:117446221 original size:31 final size:32
Alignment explanation
Indices: 117446186--117446254 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
117446176 GTTTATATAT
* *
117446186 ATTTTTC-TTGACCGTTGGGCCGAACGGTCAA
1 ATTTTTCAATGACCGTTGGGCCCAACGGTCAA
* *
117446217 ATTTTTCAATGACCGTTGGGCCCAATGTTCAA
1 ATTTTTCAATGACCGTTGGGCCCAACGGTCAA
117446249 ATTTTT
1 ATTTTT
117446255 AAATAATAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 7 0.21
32 26 0.79
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (32 bp):
ATTTTTCAATGACCGTTGGGCCCAACGGTCAA
Found at i:117465367 original size:20 final size:20
Alignment explanation
Indices: 117465344--117465381 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
117465334 CATAATATTT
**
117465344 TTATAATATTTAATTATTAA
1 TTATAATAAATAATTATTAA
117465364 TTATAATAAATAATTATT
1 TTATAATAAATAATTATT
117465382 GACCACATTA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATAATAAATAATTATTAA
Found at i:117475086 original size:31 final size:29
Alignment explanation
Indices: 117475016--117475120 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 29
117475006 ATGATTAAAT
*
117475016 TAAATTAAAATTTTAAATATATATTTGAA
1 TAAATTAAAATTTTAAATATATAATTGAA
* *
117475045 TCATAA-TAAAAGTTTTACATATATAATTGCAC
1 T-A-AATTAAAA-TTTTAAATATATAATTG-AA
* *
117475077 TAAATTAAAA-TTTATATATATAATTATACA
1 TAAATTAAAATTTTAAATATATAATT-GA-A
117475107 TTAAATTAAAATTT
1 -TAAATTAAAATTT
117475121 ATATATAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
29 16 0.26
30 8 0.13
31 33 0.54
32 4 0.07
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (29 bp):
TAAATTAAAATTTTAAATATATAATTGAA
Found at i:117475090 original size:29 final size:28
Alignment explanation
Indices: 117475058--117475130 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
117475048 TAATAAAAGT
*
117475058 TTTACATATATAATTGCACTAAATTAAAA
1 TTTA-ATATATAATTACACTAAATTAAAA
*
117475087 TTTATATATATAATTATACATTAAATTAAAA
1 TTTA-ATATATAA-T-TACACTAAATTAAAA
117475118 TTT-ATATATAATT
1 TTTAATATATAATT
117475131 TTGAGATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
27 1 0.03
28 1 0.03
29 20 0.51
30 1 0.03
31 16 0.41
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (28 bp):
TTTAATATATAATTACACTAAATTAAAA
Found at i:117475319 original size:29 final size:29
Alignment explanation
Indices: 117475237--117475359 Score: 117
Period size: 31 Copynumber: 4.1 Consensus size: 29
117475227 AATGTGTATG
117475237 ATTAAATTAAAATTAAAATTTTAAATATATA
1 ATTAAATT-AAATTAAAATTTT-AATATATA
* *
117475268 TTTAAATAATAATTAAAATTTTAAGTATATA
1 ATTAAATTA-AATTAAAATTTTAA-TATATA
* *
117475299 ATTATATTAAATTAAAA-TTTATATATATC
1 ATTAAATTAAATTAAAATTTTA-ATATATA
*
117475328 ATTATATATTAAACTAAAA-TTT-ATATATA
1 ATTA-A-ATTAAATTAAAATTTTAATATATA
117475357 ATT
1 ATT
117475360 TTGAGATTTA
Statistics
Matches: 78, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
29 22 0.28
30 12 0.15
31 44 0.56
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.46
Consensus pattern (29 bp):
ATTAAATTAAATTAAAATTTTAATATATA
Found at i:117475348 original size:229 final size:229
Alignment explanation
Indices: 117474939--117475369 Score: 645
Period size: 229 Copynumber: 1.9 Consensus size: 229
117474929 ATATGATGAT
* * *
117474939 TTGTCATGAAATAATAGGTGCCAAATTACACTATAATAATTGTATGTATTTATTTTTTAAAATAT
1 TTGTCACGAAATAATAGGTGCCAAATTACACTATAAAAATTATATGTATTTATTTTTTAAAATAT
* *
117475004 CTATGATTAAATTAAATTAAAATTTTAAATATATATTTGAATCATAATAAAAGTTTTACATATAT
66 CTATGATTAAATTAAATTAAAATTTTAAATATATATTTAAATAATAATAAAAGTTTTACATATAT
* *
117475069 AATTGCACTAAATTAAAATTTATATATATAATTATACATTAAATTAAAATTTATATATAATTTTG
131 AATTACACTAAATTAAAATTTATATATATAATTATACATTAAACTAAAATTTATATATAATTTTG
117475134 AGATTTAGTTTTTGTCGGTCATAAAATCGAGTGG
196 AGATTTAGTTTTTGTCGGTCATAAAATCGAGTGG
** * * *
117475168 TTGTCACGAAATAATAGG-GTTAAATTGCATTATAAAAATTATATGTATTTATTTCTTT-AAATG
1 TTGTCACGAAATAATAGGTGCCAAATTACACTATAAAAATTATATGTATTTATTT-TTTAAAATA
*
117475231 TGTATGATTAAATTAAAATTAAAATTTTAAATATATATTTAAATAATAATTAAAA-TTTTA-AGT
65 TCTATGATTAAATT-AAATTAAAATTTTAAATATATATTTAAATAATAA-TAAAAGTTTTACA-T
* * * *
117475294 ATATAATTATATTAAATTAAAATTTATATATATCATTATATATTAAACTAAAATTTATATATAAT
127 ATATAATTACACTAAATTAAAATTTATATATATAATTATACATTAAACTAAAATTTATATATAAT
117475359 TTTGAGATTTA
192 TTTGAGATTTA
117475370 TATTTTTTTC
Statistics
Matches: 181, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
228 48 0.27
229 128 0.71
230 5 0.03
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (229 bp):
TTGTCACGAAATAATAGGTGCCAAATTACACTATAAAAATTATATGTATTTATTTTTTAAAATAT
CTATGATTAAATTAAATTAAAATTTTAAATATATATTTAAATAATAATAAAAGTTTTACATATAT
AATTACACTAAATTAAAATTTATATATATAATTATACATTAAACTAAAATTTATATATAATTTTG
AGATTTAGTTTTTGTCGGTCATAAAATCGAGTGG
Found at i:117475562 original size:95 final size:96
Alignment explanation
Indices: 117475407--117475580 Score: 314
Period size: 95 Copynumber: 1.8 Consensus size: 96
117475397 GTTGTTGGAG
*
117475407 AATTAAAAAGGTGAGGTATTGAAACATTGGAGTTGTAAAAAATACTACAGTGAATCAACTATTTT
1 AATTAAAAAGGTGAAGTATTGAAACATTGGAGTTGTAAAAAATACTACAGTGAATCAACTATTTT
117475472 TGTTTTATTTATTGTATGCACGAGGGTAAAT
66 TGTTTTATTTATTGTATGCACGAGGGTAAAT
* *
117475503 AATTAAAAAGGTGAATTATTGAAACATT-GAGTTGTCAAAAATACTACAGTGAATCAACTATTTT
1 AATTAAAAAGGTGAAGTATTGAAACATTGGAGTTGTAAAAAATACTACAGTGAATCAACTATTTT
117475567 TGTTTTATTTATTG
66 TGTTTTATTTATTG
117475581 GATTTAATAC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
95 49 0.65
96 26 0.35
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.37
Consensus pattern (96 bp):
AATTAAAAAGGTGAAGTATTGAAACATTGGAGTTGTAAAAAATACTACAGTGAATCAACTATTTT
TGTTTTATTTATTGTATGCACGAGGGTAAAT
Found at i:117478473 original size:35 final size:35
Alignment explanation
Indices: 117478429--117478595 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
117478419 TCCTCATTGA
** *
117478429 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
117478464 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
117478504 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
117478539 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
117478574 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
117478596 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:117478512 original size:75 final size:73
Alignment explanation
Indices: 117478424--117478595 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
117478414 GGTTTTCCTC
** * * **
117478424 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
117478488 TCAGTATGG
65 TCAGTATGG
*
117478497 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
117478562 CTCAGTATGG
64 CTCAGTATGG
117478572 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
117478596 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:117486038 original size:35 final size:36
Alignment explanation
Indices: 117485910--117486041 Score: 151
Period size: 35 Copynumber: 3.6 Consensus size: 36
117485900 TCCTCATTGA
** *
117485910 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
* **
117485945 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTATGG----GAT
*
117485985 AATACCATACCTACATTTCACAGCTCAGTAT-GGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
117486020 AATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
117486042 CTTTGCCATG
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
35 54 0.64
39 3 0.04
40 27 0.32
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (36 bp):
AATACCATACCTACATTTCACAACTCAGTATGGGAT
Found at i:117490144 original size:75 final size:75
Alignment explanation
Indices: 117490021--117490222 Score: 350
Period size: 75 Copynumber: 2.7 Consensus size: 75
117490011 TTTCTCAAAC
*
117490021 CCAACAATATTTGCACCCAGTACTAGTCGGATATACCGACGATAATAATTGTGAGCCCAACTCTA
1 CCAACAATATTTGCACCCAGTGCTAGTCGGATATACCGACGATAATAATTGTGAGCCCAACTCTA
117490086 GTTGGATAAA
66 GTTGGATAAA
* * * *
117490096 CCAACAATATTTGCACCCAGTGCTACTCTGATATACTGACGATAATAATTGTGAGCCCAGCTCTA
1 CCAACAATATTTGCACCCAGTGCTAGTCGGATATACCGACGATAATAATTGTGAGCCCAACTCTA
117490161 GTTGGATAAA
66 GTTGGATAAA
*
117490171 CCAAAAATATTTGCACCCAGTGCTAGTCGGATATACCGACGATAATAATTGT
1 CCAACAATATTTGCACCCAGTGCTAGTCGGATATACCGACGATAATAATTGT
117490223 TTACTTCTAC
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 118 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (75 bp):
CCAACAATATTTGCACCCAGTGCTAGTCGGATATACCGACGATAATAATTGTGAGCCCAACTCTA
GTTGGATAAA
Found at i:117490197 original size:35 final size:35
Alignment explanation
Indices: 117490083--117490203 Score: 95
Period size: 35 Copynumber: 3.3 Consensus size: 35
117490073 GAGCCCAACT
*
117490083 CTAGTTGGATAAACCAACAATATTTGCACCCAGTG
1 CTAGTTGGATAAACCAAAAATATTTGCACCCAGTG
* * * *
117490118 CTACTCT-GATATACTGACGATAATAATTGTG-AGCCCAGCT-
1 CTAGT-TGGATAAAC---CAAAAAT-ATT-TGCA-CCCAG-TG
117490158 CTAGTTGGATAAACCAAAAATATTTGCACCCAGTG
1 CTAGTTGGATAAACCAAAAATATTTGCACCCAGTG
*
117490193 CTAGTCGGATA
1 CTAGTTGGATA
117490204 TACCGACGAT
Statistics
Matches: 66, Mismatches: 9, Indels: 22
0.68 0.09 0.23
Matches are distributed among these distances:
34 1 0.02
35 27 0.41
36 5 0.08
37 5 0.08
38 5 0.08
39 5 0.08
40 17 0.26
41 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (35 bp):
CTAGTTGGATAAACCAAAAATATTTGCACCCAGTG
Found at i:117493353 original size:53 final size:53
Alignment explanation
Indices: 117493212--117493362 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
117493202 ATAAGTGCGC
* **
117493212 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
117493265 CCGTATAAGACCATAGCTGGGCTATGACATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
117493318 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
117493363 ACCGTGTAAG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:117495343 original size:2 final size:2
Alignment explanation
Indices: 117495336--117495360 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
117495326 CTTTTAAATT
117495336 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 T
117495361 GTATGTGTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:117496201 original size:130 final size:130
Alignment explanation
Indices: 117496007--117496338 Score: 442
Period size: 130 Copynumber: 2.6 Consensus size: 130
117495997 TAATTATTCG
* * **
117496007 TTTAAAAATTCTTT-AAATCGAAGGCAATGTTCAATGTTTAGGAATTCGGTTAATCGTGCCCTAT
1 TTTAAAAATTCTTTAAAAT-GAAGGTAATGTTCAATGTTTAGAAATTCGGGGAATCGTGCCCTAT
*
117496071 CGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATCTCACTCATG
65 CGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATCTCACTCATG
117496136 T
130 T
** *
117496137 TTTAAAAATTCTTTAAAATGAAGGTAATGTTTGATATTT-GAAAATTCGGGGAATCGTGCCCTAT
1 TTTAAAAATTCTTTAAAATGAAGGTAATGTTCAATGTTTAG-AAATTCGGGGAATCGTGCCCTAT
* *
117496201 CGTGCTGGGTTGCAATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATG
65 CGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATCTCACTCATG
117496266 T
130 T
* ** * * * *
117496267 CTTCTAAATTC--TAAAA-CAAGGTAATGTTCAATGTCTAGAAATTCGAGGAATCGTGTCCTA-C
1 TTTAAAAATTCTTTAAAATGAAGGTAATGTTCAATGTTTAGAAATTCGGGGAATCGTGCCCTATC
117496328 TGTGCTGGGTT
66 -GTGCTGGGTT
117496339 TCAGTTTTTT
Statistics
Matches: 178, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
126 1 0.01
127 45 0.25
128 6 0.03
129 1 0.01
130 121 0.68
131 4 0.02
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (130 bp):
TTTAAAAATTCTTTAAAATGAAGGTAATGTTCAATGTTTAGAAATTCGGGGAATCGTGCCCTATC
GTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATCTCACTCATGT
Found at i:117499163 original size:15 final size:16
Alignment explanation
Indices: 117499143--117499172 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
117499133 AAATATATTG
117499143 TTTTTAATTT-TTTTA
1 TTTTTAATTTATTTTA
117499158 TTTTTAATTTATTTT
1 TTTTTAATTTATTTT
117499173 TTTAATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTAATTTATTTTA
Found at i:117499191 original size:17 final size:17
Alignment explanation
Indices: 117499172--117499204 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
117499162 TAATTTATTT
117499172 TTTTAATTA-ATAAATA
1 TTTTAATTATATAAATA
*
117499188 TTTTATTTATATAAATA
1 TTTTAATTATATAAATA
117499205 AAATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTAATTATATAAATA
Found at i:117499206 original size:21 final size:19
Alignment explanation
Indices: 117499167--117499206 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
117499157 ATTTTTAATT
*
117499167 TATTTTTTTAATTAATAAA
1 TATTTTTTTAATAAATAAA
117499186 TATTTTATTTATATAAATAAA
1 TATTTT-TTTA-ATAAATAAA
117499207 ATAAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTTTTTTAATAAATAAA
Found at i:117499335 original size:20 final size:21
Alignment explanation
Indices: 117499310--117499348 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
117499300 AGAAAAATCG
117499310 TTTTAAC-TGGTTCAATTAAT
1 TTTTAACTTGGTTCAATTAAT
117499330 TTTTAACTTGGTTCAATTA
1 TTTTAACTTGGTTCAATTA
117499349 TTGTATTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (21 bp):
TTTTAACTTGGTTCAATTAAT
Found at i:117500423 original size:6 final size:6
Alignment explanation
Indices: 117500399--117500442 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
117500389 AACCTAAAAT
* * *
117500399 CCAAAC TCAAAC TCAAAC CCGAAC CCAAAC CCAAAC CCTAAAC C
1 CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC CC-AAAC C
117500443 TCAGGGTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.45, C:0.45, G:0.02, T:0.07
Consensus pattern (6 bp):
CCAAAC
Found at i:117501244 original size:26 final size:25
Alignment explanation
Indices: 117501215--117501282 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 25
117501205 GTTTTTTATT
117501215 AAAATAATATAAAAAATTTAATTACG
1 AAAATAATATAAAAAA-TTAATTACG
*
117501241 AAAATAATATAAGATGTAAATTAATTATG
1 AAAATAATATAA-A---AAATTAATTACG
117501270 AAAAT-ATATAAAA
1 AAAATAATATAAAA
117501283 GATATAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
24 1 0.03
26 12 0.32
27 2 0.05
28 6 0.16
29 13 0.35
30 3 0.08
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (25 bp):
AAAATAATATAAAAAATTAATTACG
Found at i:117501265 original size:29 final size:30
Alignment explanation
Indices: 117501232--117501290 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
117501222 TATAAAAAAT
* *
117501232 TTAATTACGAAAATA-ATATAAGATGTAAA
1 TTAATTACGAAAATATATAAAAGATATAAA
*
117501261 TTAATTATGAAAATATATAAAAGATATAAA
1 TTAATTACGAAAATATATAAAAGATATAAA
117501291 ATGAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (30 bp):
TTAATTACGAAAATATATAAAAGATATAAA
Found at i:117511475 original size:21 final size:21
Alignment explanation
Indices: 117511449--117511489 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
117511439 AGACAAGCGA
* *
117511449 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
117511470 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
117511490 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:117517661 original size:12 final size:12
Alignment explanation
Indices: 117517644--117517682 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
117517634 ATTTTAATTT
117517644 TATTTATTTATA
1 TATTTATTTATA
* *
117517656 TATTTATTAAAA
1 TATTTATTTATA
117517668 TATTT-TTTATA
1 TATTTATTTATA
117517679 TATT
1 TATT
117517683 CTAAAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TATTTATTTATA
Found at i:117517690 original size:23 final size:24
Alignment explanation
Indices: 117517644--117517692 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
117517634 ATTTTAATTT
*
117517644 TATTTATTTATATATTTATTAAAA
1 TATTTATTTATATATTTATAAAAA
117517668 TATTT-TTTATATATTCTA-AAAAA
1 TATTTATTTATATATT-TATAAAAA
117517691 TA
1 TA
117517693 CCAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TATTTATTTATATATTTATAAAAA
Found at i:117517799 original size:14 final size:14
Alignment explanation
Indices: 117517780--117517806 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
117517770 AATCAACTAC
117517780 ACATAATATTTTCG
1 ACATAATATTTTCG
117517794 ACATAATATTTTC
1 ACATAATATTTTC
117517807 TAGCTTCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (14 bp):
ACATAATATTTTCG
Found at i:117519137 original size:18 final size:20
Alignment explanation
Indices: 117519110--117519150 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
117519100 TTAATAACGA
*
117519110 AAAAATTTAA-TTAAAATTT
1 AAAAATTTAATTTAAAATAT
117519129 AAAAA-TTAATTTAAAATAT
1 AAAAATTTAATTTAAAATAT
117519148 AAA
1 AAA
117519151 TCATAGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAATTTAATTTAAAATAT
Found at i:117520251 original size:14 final size:15
Alignment explanation
Indices: 117520232--117520261 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
117520222 CTTTTTTCAA
117520232 ATTTTTAATT-ATTT
1 ATTTTTAATTGATTT
117520246 ATTTTTAATTGATTT
1 ATTTTTAATTGATTT
117520261 A
1 A
117520262 ATTAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
ATTTTTAATTGATTT
Found at i:117520589 original size:9 final size:9
Alignment explanation
Indices: 117520544--117520589 Score: 51
Period size: 8 Copynumber: 5.2 Consensus size: 9
117520534 ATGTTTGTTA
117520544 TTAAAAT-T
1 TTAAAATAT
*
117520552 TTAAAA-AA
1 TTAAAATAT
*
117520560 TTAAAAAAT
1 TTAAAATAT
117520569 TTAAAATGAT
1 TTAAAAT-AT
117520579 TTAAAATAT
1 TTAAAATAT
117520588 TT
1 TT
117520590 TTAAAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
8 12 0.38
9 11 0.34
10 9 0.28
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (9 bp):
TTAAAATAT
Found at i:117521229 original size:17 final size:17
Alignment explanation
Indices: 117521209--117521242 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
117521199 CACTGCTCTT
117521209 ATTAAAAATTAGAAAAA
1 ATTAAAAATTAGAAAAA
*
117521226 ATTAAAATTTAGAAAAA
1 ATTAAAAATTAGAAAAA
117521243 TTATTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (17 bp):
ATTAAAAATTAGAAAAA
Found at i:117521287 original size:16 final size:17
Alignment explanation
Indices: 117521222--117521295 Score: 71
Period size: 16 Copynumber: 4.3 Consensus size: 17
117521212 AAAAATTAGA
* *
117521222 AAAAATTAAAATTTA-G
1 AAAAATTTAAATTTATT
117521238 AAAAATTATTAAATTTTATT
1 AAAAA-T-TTAAA-TTTATT
117521258 AAAAATTTAAATTTATT
1 AAAAATTTAAATTTATT
* *
117521275 AAAAA-TTATATTTTTT
1 AAAAATTTAAATTTATT
117521291 AAAAA
1 AAAAA
117521296 AATTGTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
16 19 0.38
17 12 0.24
18 9 0.18
19 5 0.10
20 5 0.10
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (17 bp):
AAAAATTTAAATTTATT
Found at i:117521291 original size:36 final size:35
Alignment explanation
Indices: 117521207--117521304 Score: 90
Period size: 36 Copynumber: 2.7 Consensus size: 35
117521197 GCCACTGCTC
** *
117521207 TTATTAAAAATTAGAAAAAATTAAAATTTAGAAAAA
1 TTATTAAATTTTA-AAAAAATTTAAATTTAGAAAAA
* *
117521243 TTATTAAATTTTATTAAAAATTTAAATTTATTAAAAA
1 TTATTAAATTTTA-AAAAAATTTAAATTTA-GAAAAA
**
117521280 TTA-TATTTTTTAAAAAAATTGTAAA
1 TTATTAAATTTTAAAAAAATT-TAAA
117521305 AAAATAAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
35 7 0.14
36 36 0.71
37 8 0.16
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (35 bp):
TTATTAAATTTTAAAAAAATTTAAATTTAGAAAAA
Found at i:117521506 original size:20 final size:19
Alignment explanation
Indices: 117521481--117521545 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
117521471 TACAATAATT
117521481 TTTATAATTTTTTTACGAAA
1 TTTATAATTTTTTTAC-AAA
* **
117521501 TTTAT-ATTTCTTTACATT
1 TTTATAATTTTTTTACAAA
*
117521519 TTGTATAATTTTCTTACAAA
1 TT-TATAATTTTTTTACAAA
117521539 TTTATAA
1 TTTATAA
117521546 AATTTTACAA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
18 3 0.08
19 17 0.47
20 16 0.44
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTATAATTTTTTTACAAA
Found at i:117521553 original size:38 final size:38
Alignment explanation
Indices: 117521478--117521554 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
117521468 TGGTACAATA
* **
117521478 ATTTTTATAATTTTTTTACGAAATTTATATTTCTTTAC
1 ATTTTTATAATTTTCTTACGAAATTTATAAATCTTTAC
117521516 ATTTTGTATAATTTTCTTAC-AAATTTATAAAAT-TTTAC
1 ATTTT-TATAATTTTCTTACGAAATTTAT-AAATCTTTAC
117521554 A
1 A
117521555 AAATTTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 19 0.56
39 15 0.44
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.56
Consensus pattern (38 bp):
ATTTTTATAATTTTCTTACGAAATTTATAAATCTTTAC
Found at i:117521615 original size:27 final size:26
Alignment explanation
Indices: 117521585--117521641 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
117521575 TTTTATAAAA
* *
117521585 TTTT-ACAAATTTTATATTATTTCTAAT
1 TTTTAACAAATTTT-TAATATTT-GAAT
*
117521612 TTTTAATAAATTTTTAATATTTGAAT
1 TTTTAACAAATTTTTAATATTTGAAT
117521638 TTTT
1 TTTT
117521642 TATTAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 7 0.27
27 11 0.42
28 8 0.31
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTTAACAAATTTTTAATATTTGAAT
Found at i:117521670 original size:29 final size:27
Alignment explanation
Indices: 117521595--117521674 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
117521585 TTTTACAAAT
* * *
117521595 TTTATATTATTTCTAATTTTTAATAAA
1 TTTATAATATTTATAATTTTTATTAAA
* *
117521622 TTTTTAATATTTGA-ATTTTTTATTAAAA
1 TTTATAATATTT-ATAATTTTTATT-AAA
*
117521650 TTTAATAATATTTATAGTTTTTATT
1 TTT-ATAATATTTATAATTTTTATT
117521675 GATTTTAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
27 18 0.43
28 7 0.17
29 17 0.40
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (27 bp):
TTTATAATATTTATAATTTTTATTAAA
Found at i:117521814 original size:91 final size:91
Alignment explanation
Indices: 117521717--117521882 Score: 210
Period size: 91 Copynumber: 1.8 Consensus size: 91
117521707 GGGGCTTAAT
* * * * *
117521717 TTTTTTTGAAAAAG-TTTGAGAA-ACTTTTTGATGTATTTTTAAAGTTTAAATACCTAATTGAGT
1 TTTTTTTGAAAAAGATTTGA-AAGACTTTTTAATATATTTTGAAAGCTTAAATACC-AAATGAGT
*
117521780 GCAAAAAAAAAATGTGAGGGTTTAATTG
64 GAAAAAAAAAAATGTGAGGGTTTAATTG
** **
117521808 TTTTTTTTTAAAAGATTTGAAAGTTTTTTTAATATATTTTGAAAGCTTAAATACCAAATGAGTGA
1 TTTTTTTGAAAAAGATTTGAAAGACTTTTTAATATATTTTGAAAGCTTAAATACCAAATGAGTGA
117521873 AAAAAAAAAA
66 AAAAAAAAAA
117521883 AGACTTAATT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
91 32 0.51
92 31 0.49
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.40
Consensus pattern (91 bp):
TTTTTTTGAAAAAGATTTGAAAGACTTTTTAATATATTTTGAAAGCTTAAATACCAAATGAGTGA
AAAAAAAAAATGTGAGGGTTTAATTG
Found at i:117521814 original size:92 final size:91
Alignment explanation
Indices: 117521716--117521882 Score: 212
Period size: 92 Copynumber: 1.8 Consensus size: 91
117521706 AGGGGCTTAA
* * * * *
117521716 TTTTTTTTGAAAAAG-TTTGAGAA-ACTTTTTGATGTATTTTTAAAGTTTAAATACCTAATTGAG
1 TTTTTTTT-AAAAAGATTTGA-AAGACTTTTTAATATATTTTGAAAGCTTAAATACC-AAATGAG
*
117521779 TGCAAAAAAAAAATGTGAGGGTTTAATTG
63 TGAAAAAAAAAAATGTGAGGGTTTAATTG
* **
117521808 TTTTTTTTTAAAAGATTTGAAAGTTTTTTTAATATATTTTGAAAGCTTAAATACCAAATGAGTGA
1 TTTTTTTTAAAAAGATTTGAAAGACTTTTTAATATATTTTGAAAGCTTAAATACCAAATGAGTGA
117521873 AAAAAAAAAA
66 AAAAAAAAAA
117521883 AGACTTAATT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
91 25 0.39
92 39 0.61
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (91 bp):
TTTTTTTTAAAAAGATTTGAAAGACTTTTTAATATATTTTGAAAGCTTAAATACCAAATGAGTGA
AAAAAAAAAATGTGAGGGTTTAATTG
Found at i:117521846 original size:21 final size:22
Alignment explanation
Indices: 117521810--117521852 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
117521800 TTTAATTGTT
117521810 TTTTTTTAAAAGA-TTTGAAAG
1 TTTTTTTAAAAGATTTTGAAAG
* *
117521831 TTTTTTTAATATATTTTGAAAG
1 TTTTTTTAAAAGATTTTGAAAG
117521853 CTTAAATACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TTTTTTTAAAAGATTTTGAAAG
Found at i:117534178 original size:24 final size:24
Alignment explanation
Indices: 117534150--117534198 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
117534140 ATTGTTAATT
117534150 AAATTTTAAAATATAAAAAATAAA
1 AAATTTTAAAATATAAAAAATAAA
* * *
117534174 AAATTTTACATTATTAAAAATAAA
1 AAATTTTAAAATATAAAAAATAAA
117534198 A
1 A
117534199 GTAGAAAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATTTTAAAATATAAAAAATAAA
Found at i:117536713 original size:27 final size:29
Alignment explanation
Indices: 117536678--117536738 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
117536668 CATTAAAAAC
*
117536678 AATAGAAAATATAAATT-T-TAAA-AATAT
1 AATATAAAATA-AAATTATATAAATAATAT
*
117536705 AATATAAAATAAAATTATATAAATAATTT
1 AATATAAAATAAAATTATATAAATAATAT
117536734 AATAT
1 AATAT
117536739 TTCTAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 5 0.17
27 11 0.38
28 4 0.14
29 9 0.31
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (29 bp):
AATATAAAATAAAATTATATAAATAATAT
Found at i:117549215 original size:30 final size:29
Alignment explanation
Indices: 117549165--117549228 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
117549155 GTTTAATATG
* *
117549165 TAATTATATACATGAATTTTGATTTTATA
1 TAATTATATACATAAATTTTGATTTGATA
* *
117549194 TAATTTTATACATAAAATTTTGATTTGATT
1 TAATTATATACAT-AAATTTTGATTTGATA
117549224 TAATT
1 TAATT
117549229 CTTGTAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 12 0.40
30 18 0.60
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (29 bp):
TAATTATATACATAAATTTTGATTTGATA
Found at i:117559856 original size:33 final size:33
Alignment explanation
Indices: 117559783--117559859 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
117559773 AAAATCCTTG
**
117559783 CCGCCTCCACCTCCAAAAACCATGCAGACTCTG
1 CCGCCTCCACCTCCAAAAACCATGCAGACTCCA
* * * * *
117559816 CCACCTCCGCCTTCAAAAACCATGCTGCCTCCA
1 CCGCCTCCACCTCCAAAAACCATGCAGACTCCA
117559849 CCGCCTCCACC
1 CCGCCTCCACC
117559860 CAAGTTCACA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.23, C:0.51, G:0.10, T:0.16
Consensus pattern (33 bp):
CCGCCTCCACCTCCAAAAACCATGCAGACTCCA
Found at i:117564208 original size:22 final size:22
Alignment explanation
Indices: 117564183--117564229 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
117564173 ATTTTATCAT
** *
117564183 TTTTGCCCCTATTTTTTTACCG
1 TTTTGCCCCTACATTTCTACCG
*
117564205 TTTTGTCCCTACATTTCTACCG
1 TTTTGCCCCTACATTTCTACCG
117564227 TTT
1 TTT
117564230 CACTTCTTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.28, G:0.09, T:0.53
Consensus pattern (22 bp):
TTTTGCCCCTACATTTCTACCG
Found at i:117568758 original size:21 final size:19
Alignment explanation
Indices: 117568716--117568758 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
117568706 GTGGAGAAAA
*
117568716 TCTATTTTGCATTTTCCCT
1 TCTATTTTGCATCTTCCCT
*
117568735 TCTATTTTGTATACTTCACCT
1 TCTATTTTGCAT-CTTC-CCT
117568756 TCT
1 TCT
117568759 GGTAAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 3 0.15
21 6 0.30
ACGTcount: A:0.14, C:0.26, G:0.05, T:0.56
Consensus pattern (19 bp):
TCTATTTTGCATCTTCCCT
Found at i:117574690 original size:30 final size:30
Alignment explanation
Indices: 117574656--117574715 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
117574646 CCTTAATACG
117574656 AACTTTGGCAAAATTAC-CATTTTACCCCTA
1 AACTTTGGCAAAATTACAC-TTTTACCCCTA
* * *
117574686 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTACCCCTA
117574716 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTACCCCTA
Found at i:117579408 original size:12 final size:12
Alignment explanation
Indices: 117579378--117579410 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
117579368 TATATATTTT
117579378 AAAATTAA-ATA
1 AAAATTAATATA
117579389 AAAA-TAATATA
1 AAAATTAATATA
117579400 AAAATTAATAT
1 AAAATTAATAT
117579411 GAGAGGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 3 0.15
11 11 0.55
12 6 0.30
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:117585798 original size:20 final size:19
Alignment explanation
Indices: 117585754--117585799 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
117585744 ATAATTTCTC
* *
117585754 AAAATTTTAAAAGATCAAT
1 AAAATTTTAAAAAATAAAT
117585773 AAAATTTTAAAAAATAAAT
1 AAAATTTTAAAAAATAAAT
117585792 AATAATTT
1 AA-AATTT
117585800 CTCAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATTTTAAAAAATAAAT
Found at i:117588192 original size:31 final size:31
Alignment explanation
Indices: 117588157--117588216 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
117588147 ACAACCCAAT
117588157 GACTTAAATAAAAACTTTAAAATAATTCAAC
1 GACTTAAATAAAAACTTTAAAATAATTCAAC
* * *
117588188 GACTTAAATGAAAACTTTCAAATAGTTCA
1 GACTTAAATAAAAACTTTAAAATAATTCA
117588217 GTGATCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (31 bp):
GACTTAAATAAAAACTTTAAAATAATTCAAC
Found at i:117590792 original size:22 final size:24
Alignment explanation
Indices: 117590762--117590825 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 24
117590752 TAAAATGTTG
* *
117590762 TTTTATTATTTTAGATT-AATCAA
1 TTTTATTATTATAAATTAAATCAA
117590785 TTTT-TTATTATAAATTAAATCAAA
1 TTTTATTATTATAAATTAAATC-AA
* * *
117590809 ATATATTTTTATAAATT
1 TTTTATTATTATAAATT
117590826 GTAAACATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 10 0.30
23 8 0.24
24 4 0.12
25 11 0.33
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTTATTATTATAAATTAAATCAA
Found at i:117595435 original size:18 final size:20
Alignment explanation
Indices: 117595402--117595441 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
117595392 TTTTTTTAAC
117595402 TTTAAAAGAGAAATAA-AAT
1 TTTAAAAGAGAAATAATAAT
*
117595421 TTTAAAA-ATAAATAATAAT
1 TTTAAAAGAGAAATAATAAT
117595440 TT
1 TT
117595442 CTCAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
TTTAAAAGAGAAATAATAAT
Found at i:117595697 original size:22 final size:19
Alignment explanation
Indices: 117595671--117595712 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
117595661 TTAATTAAGT
117595671 TAAAATTTAATTAATAAATAAA
1 TAAAATTT--TTAATAAA-AAA
117595693 TAAAATTTTTAATAAAAAA
1 TAAAATTTTTAATAAAAAA
117595712 T
1 T
117595713 TTTAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 8 0.40
22 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAATTTTTAATAAAAAA
Found at i:117596731 original size:41 final size:41
Alignment explanation
Indices: 117596674--117596753 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
117596664 CATATTCGAT
* *
117596674 ATTTATTGATAATTTAATCTTTTGAATAGGCCTATTTTAAC
1 ATTTATTGATAATTTAATCTCTTCAATAGGCCTATTTTAAC
*
117596715 ATTTATTGGTAATTTAATCTCTTCAATAGGCCTATTTTA
1 ATTTATTGATAATTTAATCTCTTCAATAGGCCTATTTTA
117596754 TTTTATATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.49
Consensus pattern (41 bp):
ATTTATTGATAATTTAATCTCTTCAATAGGCCTATTTTAAC
Found at i:117597062 original size:14 final size:15
Alignment explanation
Indices: 117597043--117597075 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
117597033 TTTTAATTTA
117597043 ATTTCAGTTCA-ATT
1 ATTTCAGTTCATATT
*
117597057 ATTTCATTTCATATT
1 ATTTCAGTTCATATT
117597072 ATTT
1 ATTT
117597076 TTTCAACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.27, C:0.12, G:0.03, T:0.58
Consensus pattern (15 bp):
ATTTCAGTTCATATT
Found at i:117597130 original size:14 final size:14
Alignment explanation
Indices: 117597086--117597131 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
117597076 TTTCAACTCA
*
117597086 TTTCATTTTATTTT
1 TTTCATATTATTTT
*
117597100 TCTCATATTATTTTT
1 TTTCATATTA-TTTT
117597115 TTTCATATTATTTT
1 TTTCATATTATTTT
117597129 TTT
1 TTT
117597132 TTCAATTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 15 0.54
15 13 0.46
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTCATATTATTTT
Found at i:117597135 original size:16 final size:15
Alignment explanation
Indices: 117597086--117597132 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
117597076 TTTCAACTCA
*
117597086 TTTCATTTTA-TTTT
1 TTTCATATTATTTTT
*
117597100 TCTCATATTATTTTT
1 TTTCATATTATTTTT
117597115 TTTCATATTATTTTT
1 TTTCATATTATTTTT
117597130 TTT
1 TTT
117597133 TCAATTCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 8 0.28
15 21 0.72
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTCATATTATTTTT
Found at i:117597471 original size:27 final size:27
Alignment explanation
Indices: 117597453--117597648 Score: 93
Period size: 27 Copynumber: 7.6 Consensus size: 27
117597443 ATGAAATGGT
*
117597453 AGAAAATTTAAATGAAAATTAAAAGAA
1 AGAAAATTTAAATGAAAATGAAAAGAA
* *
117597480 AGATAATTTAAATG-AAATG--AGGAA
1 AGAAAATTTAAATGAAAATGAAAAGAA
* * *
117597504 A-AAAAATTCATTG-AAATGAAATGAGAA
1 AGAAAATTTAAATGAAAATGAAA--AGAA
* *
117597531 A-AAAA-TTAAATTAAATTTG-AAAGAA
1 AGAAAATTTAAATGAAA-ATGAAAAGAA
*
117597556 AGATAAATTTAAATG-AAATG--AGGAA
1 AGA-AAATTTAAATGAAAATGAAAAGAA
* * *
117597581 A-AAAA-TTCATTG-AAATGAAATGAGA
1 AGAAAATTTAAATGAAAATGAAAAGA-A
*
117597606 A-AAAA-TTAAATTAAAATTG-AAAGAA
1 AGAAAATTTAAATGAAAA-TGAAAAGAA
117597631 AGATAAATTTAAATGAAA
1 AGA-AAATTTAAATGAAA
117597649 TGAGAGAAAC
Statistics
Matches: 129, Mismatches: 23, Indels: 33
0.70 0.12 0.18
Matches are distributed among these distances:
22 10 0.08
23 16 0.12
24 9 0.07
25 23 0.18
26 19 0.15
27 35 0.27
28 17 0.13
ACGTcount: A:0.61, C:0.01, G:0.14, T:0.24
Consensus pattern (27 bp):
AGAAAATTTAAATGAAAATGAAAAGAA
Found at i:117597619 original size:75 final size:76
Alignment explanation
Indices: 117597408--117597692 Score: 371
Period size: 76 Copynumber: 3.8 Consensus size: 76
117597398 AAAGGTTGAT
* ** * * *
117597408 AATTTAAATGAAATGAGAAAAAAAATTTGTTTGAAATGAAATG-GTAGAAAATTTAAATGAAAAT
1 AATTTAAATGAAATGAGGAAAAAAA-TTCATTGAAATGAAATGAG-AAAAAAATTAAATTAAAAT
*
117597472 TAAAAGAAAGAT-
64 TGAAAGAAAGATA
*
117597484 AATTTAAATGAAATGAGGAAAAAAAATTCATTGAAATGAAATGAGAAAAAAATTAAATTAAATTT
1 AATTTAAATGAAATGAGG-AAAAAAATTCATTGAAATGAAATGAGAAAAAAATTAAATTAAAATT
117597549 GAAAGAAAGATA
65 GAAAGAAAGATA
117597561 AATTTAAATGAAATGAGGAAAAAAATTCATTGAAATGAAATGAG-AAAAAATTAAATTAAAATTG
1 AATTTAAATGAAATGAGGAAAAAAATTCATTGAAATGAAATGAGAAAAAAATTAAATTAAAATTG
117597625 AAAGAAAGATA
66 AAAGAAAGATA
*** * * * *
117597636 AATTTAAATGAAATGA-GAGAAACTTTTAATTTAAATAAAATGAGAAAAAAACTAAAT
1 AATTTAAATGAAATGAGGA-AAAAAATTCATTGAAATGAAATGAGAAAAAAATTAAAT
117597693 GGAAAGATAG
Statistics
Matches: 188, Mismatches: 16, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
74 2 0.01
75 65 0.35
76 95 0.51
77 26 0.14
ACGTcount: A:0.59, C:0.01, G:0.14, T:0.26
Consensus pattern (76 bp):
AATTTAAATGAAATGAGGAAAAAAATTCATTGAAATGAAATGAGAAAAAAATTAAATTAAAATTG
AAAGAAAGATA
Found at i:117597649 original size:27 final size:24
Alignment explanation
Indices: 117597408--117597657 Score: 141
Period size: 26 Copynumber: 9.9 Consensus size: 24
117597398 AAAGGTTGAT
*
117597408 AATTTAAATGAAATGAGA-AAAAA
1 AATTTAAATGAAATGAAAGAAAAA
*** * *
117597431 AATTTGTTTGAAATGAAATGGTAGAA
1 AATTTAAATGAAATGAAA--GAAAAA
* *
117597457 AATTTAAATGAAAATTAAAAGAAAGAT
1 AATTTAAATG-AAA-TGAAAGAAA-AA
*
117597484 AATTTAAATGAAATG-AGGAAAAA
1 AATTTAAATGAAATGAAAGAAAAA
* * *
117597507 AAATTCATTGAAATGAAATGAGAAAA
1 AATTTAAATGAAATGAAA-GA-AAAA
* *
117597533 AAATTAAATTAAATTTGAAAGAAAGATA
1 AATTTAAATGAAA--TGAAAGAAA-A-A
*
117597561 AATTTAAATGAAATG-AGGAAAAA
1 AATTTAAATGAAATGAAAGAAAAA
* *
117597584 AA-TTCATTGAAATGAAATGAGAAAA
1 AATTTAAATGAAATGAAA-GA-AAAA
*
117597609 AA-TTAAATTAAAATTGAAAGAAAGATA
1 AATTTAAA-TGAAA-TGAAAGAAA-A-A
*
117597636 AATTTAAATGAAATGAGAGAAA
1 AATTTAAATGAAATGAAAGAAA
117597658 CTTTTAATTT
Statistics
Matches: 172, Mismatches: 34, Indels: 39
0.70 0.14 0.16
Matches are distributed among these distances:
22 10 0.06
23 31 0.18
24 9 0.05
25 19 0.11
26 48 0.28
27 29 0.17
28 26 0.15
ACGTcount: A:0.59, C:0.01, G:0.15, T:0.25
Consensus pattern (24 bp):
AATTTAAATGAAATGAAAGAAAAA
Found at i:117597825 original size:20 final size:20
Alignment explanation
Indices: 117597800--117597847 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
117597790 TAAAACTAAT
*
117597800 ATAAATGAATTGAGAAAAAA
1 ATAAATAAATTGAGAAAAAA
*
117597820 ATAAATTTAAATTGAGAAAAAT
1 ATAAA--TAAATTGAGAAAAAA
117597842 ATAAAT
1 ATAAAT
117597848 TTAAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.25
22 18 0.75
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.27
Consensus pattern (20 bp):
ATAAATAAATTGAGAAAAAA
Found at i:117597832 original size:22 final size:22
Alignment explanation
Indices: 117597807--117597854 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
117597797 AATATAAATG
117597807 AATTGAGAAAAAAATAAATTTA
1 AATTGAGAAAAAAATAAATTTA
*
117597829 AATTGAGAAAAATATAAATTTA
1 AATTGAGAAAAAAATAAATTTA
117597851 AATT
1 AATT
117597855 AAAATAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.31
Consensus pattern (22 bp):
AATTGAGAAAAAAATAAATTTA
Done.