Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 285 of 362
Found at i:95925543 original size:5 final size:5
Alignment explanation
Indices: 95925533--95925570 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
95925523 AATTTGTGTG
*
95925533 TTATT TTATT TTTTCT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TT
95925571 TTCACATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:95925675 original size:22 final size:23
Alignment explanation
Indices: 95925630--95925675 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
95925620 TAAATTTTGA
*
95925630 ATTTTTTAGTATTTAAATAATAT
1 ATTTTTTAGTATTTAAACAATAT
* *
95925653 ATTTTTTA-TATTTTAACATTAT
1 ATTTTTTAGTATTTAAACAATAT
95925675 A
1 A
95925676 AAATACACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
ATTTTTTAGTATTTAAACAATAT
Found at i:95926299 original size:5 final size:6
Alignment explanation
Indices: 95926281--95926310 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
95926271 TATGGTTACT
95926281 AATAAA AATAAA AATAAAA AATAAA AATAA
1 AATAAA AATAAA AAT-AAA AATAAA AATAA
95926311 TCATATGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:95926302 original size:13 final size:13
Alignment explanation
Indices: 95926284--95926310 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
95926274 GGTTACTAAT
95926284 AAAAATAAAAATA
1 AAAAATAAAAATA
95926297 AAAAATAAAAATA
1 AAAAATAAAAATA
95926310 A
1 A
95926311 TCATATGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:95928295 original size:141 final size:141
Alignment explanation
Indices: 95928031--95928288 Score: 338
Period size: 141 Copynumber: 1.8 Consensus size: 141
95928021 TATTAAATTA
** * * *
95928031 TTGCTATTACTGGCTTAAACAATGAGGAAGAGAAGTTGCACGATAATGTAACAGTTAAGTAGATT
1 TTGCTATTACTAACTTAAACAATGAGGAAGAGAAGTTGCACCATAATCTAACAATTAAGTAGATT
* * * *
95928096 GAACCTTTTATTTTTGCAAATAACTATTACTAACAACACTAAAACCACAATTACACAAAAATCAA
66 GAACCTTATATTTTTGCAAACAACTAATACCAACAACACTAAAACCACAATTACACAAAAATCAA
95928161 ACCTTATATTG
131 ACCTTATATTG
* * *
95928172 TTGCTATTACTAACTTAAGCAATGAGGAAGATAAGTTGTACCATAATCTAACAATTACA-TAGAT
1 TTGCTATTACTAACTTAAACAATGAGGAAGAGAAGTTGCACCATAATCTAACAATTA-AGTAGAT
*** * * *
95928236 TGAACCTTATATTTTTGTGGACAACTAATACCAACAATATTAAAACCGCAATT
65 TGAACCTTATATTTTTGCAAACAACTAATACCAACAACACTAAAACCACAATT
95928289 TTACAAATTG
Statistics
Matches: 98, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
141 97 0.99
142 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (141 bp):
TTGCTATTACTAACTTAAACAATGAGGAAGAGAAGTTGCACCATAATCTAACAATTAAGTAGATT
GAACCTTATATTTTTGCAAACAACTAATACCAACAACACTAAAACCACAATTACACAAAAATCAA
ACCTTATATTG
Found at i:95928349 original size:22 final size:22
Alignment explanation
Indices: 95928306--95928349 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
95928296 TTGAAAGTAC
* *
95928306 AAAAGAATATTTTATGTTTGTG
1 AAAAAAATATTTTATGTGTGTG
95928328 AAAAAAATATTTCTAT-TGTGTG
1 AAAAAAATATTT-TATGTGTGTG
95928350 GACAAGTCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (22 bp):
AAAAAAATATTTTATGTGTGTG
Found at i:95930068 original size:17 final size:17
Alignment explanation
Indices: 95930046--95930078 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
95930036 TGAAAGATCC
*
95930046 TCTTTTTTTTTCTTTTT
1 TCTTTTTTTGTCTTTTT
95930063 TCTTTTTTTGTCTTTT
1 TCTTTTTTTGTCTTTT
95930079 AATCTTATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (17 bp):
TCTTTTTTTGTCTTTTT
Found at i:95931333 original size:23 final size:23
Alignment explanation
Indices: 95931305--95931398 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
95931295 ATGTGTGTAT
* *
95931305 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
95931328 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
95931351 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
95931374 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
95931397 CT
1 CT
95931399 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:95933493 original size:23 final size:23
Alignment explanation
Indices: 95933465--95933558 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
95933455 ATGTGTGTAT
* *
95933465 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
95933488 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
95933511 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
95933534 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
95933557 CT
1 CT
95933559 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:95944829 original size:12 final size:11
Alignment explanation
Indices: 95944812--95944851 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
95944802 TTTATAAAAA
95944812 TTTTAATATATT
1 TTTTAATA-ATT
95944824 TTTTAATAATT
1 TTTTAATAATT
95944835 TTTT-ATGAATT
1 TTTTAAT-AATT
95944846 TTTTAA
1 TTTTAA
95944852 GAGTACCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 2 0.08
11 15 0.58
12 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (11 bp):
TTTTAATAATT
Found at i:95955761 original size:17 final size:17
Alignment explanation
Indices: 95955741--95955774 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
95955731 AGGTTTAGGT
95955741 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
95955758 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
95955775 AAATCTATTT
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:95955971 original size:31 final size:29
Alignment explanation
Indices: 95955902--95955975 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
95955892 ACAAAATAGT
**
95955902 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGACA
*
95955931 AACATAAGTGACTAAAACGTAACCTGAGACA
1 AACATAAGTGACTAAAACGTAACAT--GACA
*
95955962 AACAAAAGTGACTA
1 AACATAAGTGACTA
95955976 TTTTTGTAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.18, G:0.14, T:0.19
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGACA
Found at i:95963495 original size:5 final size:5
Alignment explanation
Indices: 95963485--95963512 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
95963475 TTGTCGGAGG
95963485 CTTTT CTTTT CTTTT CTTTT CTTTT CTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTT
95963513 GGTTTCGTGT
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:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
CTTTT
Found at i:95966279 original size:26 final size:25
Alignment explanation
Indices: 95966249--95966307 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 25
95966239 GCATGTCAAG
*
95966249 AAAAAGTAAAAAAAAATAAAGTCATT
1 AAAAA-TAAAAAAAAATAAACTCATT
*
95966275 TAAAATAAAAATAAAAATAAACTCATT
1 AAAAAT-AAAA-AAAAATAAACTCATT
95966302 AAAAAT
1 AAAAAT
95966308 CTAAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 1 0.04
26 8 0.29
27 19 0.68
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.22
Consensus pattern (25 bp):
AAAAATAAAAAAAAATAAACTCATT
Found at i:95966290 original size:27 final size:26
Alignment explanation
Indices: 95966256--95966307 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
95966246 AAGAAAAAGT
* *
95966256 AAAAAAAAATAAAGTCATTTAAAATA
1 AAAAAAAAATAAACTCATTAAAAATA
95966282 AAAATAAAAATAAACTCATTAAAAAT
1 AAAA-AAAAATAAACTCATTAAAAAT
95966308 CTAAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (26 bp):
AAAAAAAAATAAACTCATTAAAAATA
Found at i:95966344 original size:8 final size:8
Alignment explanation
Indices: 95966333--95966368 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
95966323 AAAAATTAAA
95966333 AAAATTAT
1 AAAATTAT
95966341 AAAATTAT
1 AAAATTAT
95966349 AAAATTAT
1 AAAATTAT
95966357 AAAATTAT
1 AAAATTAT
95966365 AAAA
1 AAAA
95966369 AAAACTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAATTAT
Found at i:95966777 original size:19 final size:20
Alignment explanation
Indices: 95966749--95966793 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
95966739 TGAGTTTTGA
*
95966749 GATTTATTTA-TTTATTTAT
1 GATTTTTTTAGTTTATTTAT
*
95966768 GATTTTTTTAGTTTTTTTAT
1 GATTTTTTTAGTTTATTTAT
95966788 -ATTTTT
1 GATTTTT
95966794 AAAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (20 bp):
GATTTTTTTAGTTTATTTAT
Found at i:95968188 original size:17 final size:17
Alignment explanation
Indices: 95968166--95968217 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
95968156 CACTTGTTCA
95968166 TTTTATATTTCTTTTAG
1 TTTTATATTTCTTTTAG
95968183 TTTTATA-TTC----A-
1 TTTTATATTTCTTTTAG
*
95968194 TTCTATATTTCTTTTAG
1 TTTTATATTTCTTTTAG
95968211 TTTTATA
1 TTTTATA
95968218 ACATGTTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
11 6 0.22
12 4 0.15
16 4 0.15
17 13 0.48
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.67
Consensus pattern (17 bp):
TTTTATATTTCTTTTAG
Found at i:95968194 original size:28 final size:28
Alignment explanation
Indices: 95968162--95968217 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
95968152 TTCTCACTTG
*
95968162 TTCATTTTATATTTCTTTTAGTTTTATA
1 TTCATTCTATATTTCTTTTAGTTTTATA
95968190 TTCATTCTATATTTCTTTTAGTTTTATA
1 TTCATTCTATATTTCTTTTAGTTTTATA
95968218 ACATGTTATC
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:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (28 bp):
TTCATTCTATATTTCTTTTAGTTTTATA
Found at i:95972604 original size:27 final size:27
Alignment explanation
Indices: 95972574--95972637 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
95972564 GTTTGCTAGG
*
95972574 ACACTAAGCACGTGACAGTCT-TCTGGA
1 ACACTAAGCACGGGACAGTCTGTC-GGA
* *
95972601 ACACTAAACACGGGATAGTCTGTCGGA
1 ACACTAAGCACGGGACAGTCTGTCGGA
95972628 ACACTAAGCA
1 ACACTAAGCA
95972638 GGGGTGTAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.19
Consensus pattern (27 bp):
ACACTAAGCACGGGACAGTCTGTCGGA
Found at i:95975134 original size:25 final size:24
Alignment explanation
Indices: 95975102--95975164 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 24
95975092 TTCTTTTTGT
* *
95975102 ATTAATTTAACTTTATTTATTTTA
1 ATTAATTTAAATTTATTCATTTTA
95975126 ATTATATTTAAATTTATTCATTTTA
1 ATTA-ATTTAAATTTATTCATTTTA
*
95975151 ATTAGATTTTAATT
1 ATTA-ATTTAAATT
95975165 AAGGGGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 4 0.12
25 30 0.88
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTAATTTAAATTTATTCATTTTA
Found at i:95986196 original size:93 final size:94
Alignment explanation
Indices: 95986069--95986239 Score: 240
Period size: 93 Copynumber: 1.8 Consensus size: 94
95986059 TGGTAAGGTT
*
95986069 CCGATGTCATGTCCCAGACACGGTCTTACACTGGCTCACATATC-AAGTCGATGCCACGTCCCAA
1 CCGATGTCATGTCCCAGACACGGTCTTACACTGGCTCACATATCGAAGCCGATG-CACGTCCCAA
95986133 ACATGGTCTTACACTGATAATCACCTCGTAG
65 ACAT-GTCTTACACTGATAATCACCTCGTAG
* * * * * *
95986164 CCGATG-CATGTCCCAGACA-TGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCTAAA
1 CCGATGTCATGTCCCAGACACGGTCTTACACTGGCTCACATATCGAAGCCGATGCACGTCCCAAA
95986227 CATGTCTTACACT
66 CATGTCTTACACT
95986240 AGCACTTGTC
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
92 10 0.15
93 32 0.47
94 20 0.29
95 6 0.09
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (94 bp):
CCGATGTCATGTCCCAGACACGGTCTTACACTGGCTCACATATCGAAGCCGATGCACGTCCCAAA
CATGTCTTACACTGATAATCACCTCGTAG
Found at i:95986213 original size:46 final size:46
Alignment explanation
Indices: 95986069--95986239 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 46
95986059 TGGTAAGGTT
* * * * * *
95986069 CCGATGTCATGTCCCAGACACGGTCTTACACTGGCTCACATATCAAG
1 CCGATGCCATGTCCCAAACA-TGTCTTACACTGGCTAACATCTCGAG
* * * *
95986116 TCGATGCCACGTCCCAAACATGGTCTTACACT-GATAATCACCTCGTAG
1 CCGATGCCATGTCCCAAACAT-GTCTTACACTGGCTAA-CATCTCG-AG
* *
95986164 CCGATG-CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGG
1 CCGATGCCATGTCCCAAACATGTCTTACACTGGCTAACATCTCGA-G
*
95986210 CCGATG-CATGTCCTAAACATGTCTTACACT
1 CCGATGCCATGTCCCAAACATGTCTTACACT
95986240 AGCACTTGTC
Statistics
Matches: 101, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 48 0.48
47 45 0.45
48 7 0.07
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
CCGATGCCATGTCCCAAACATGTCTTACACTGGCTAACATCTCGAG
Found at i:95996101 original size:38 final size:38
Alignment explanation
Indices: 95996058--95996134 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
95996048 AACAGTGACC
*
95996058 AAAAGTAGGCAAAGACTATTAAATTGGTCAAAAAATTT
1 AAAAGTAGGCAAAGACCATTAAATTGGTCAAAAAATTT
* * *
95996096 AAAAGTAGGCAGAGACCATTAAATTGGTTAAAAATTTT
1 AAAAGTAGGCAAAGACCATTAAATTGGTCAAAAAATTT
95996134 A
1 A
95996135 CTTTTTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.48, C:0.08, G:0.17, T:0.27
Consensus pattern (38 bp):
AAAAGTAGGCAAAGACCATTAAATTGGTCAAAAAATTT
Found at i:95998297 original size:14 final size:13
Alignment explanation
Indices: 95998274--95998305 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
95998264 GGAATATCAA
95998274 AACAATAATTAAG
1 AACAATAATTAAG
95998287 AACACATAATTAAG
1 AACA-ATAATTAAG
95998301 AACAA
1 AACAA
95998306 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:96007970 original size:29 final size:29
Alignment explanation
Indices: 96007938--96008045 Score: 114
Period size: 29 Copynumber: 3.7 Consensus size: 29
96007928 TGCATGTTGT
96007938 TTGGGCCTAATGGGCCATATGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
* * * *
96007967 TTGGGCCTGATGGGCTATACGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
* *
96007996 TTTAGGCCTAATGGGTCATATG-A-ATGAGA
1 -TTGGGCCTAATGGGCCATATGAATATGA-A
96008025 TTGGGCC-AAGTGGGCCATATG
1 TTGGGCCTAA-TGGGCCATATG
96008046 CATGTATGTA
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
27 2 0.03
28 19 0.30
29 27 0.42
30 16 0.25
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATATGAA
Found at i:96013527 original size:29 final size:29
Alignment explanation
Indices: 96013495--96013599 Score: 126
Period size: 29 Copynumber: 3.7 Consensus size: 29
96013485 CATGTGATTG
96013495 GGGCCTAATGGGCCATATGAATATGAATT
1 GGGCCTAATGGGCCATATGAATATGAATT
* * * *
96013524 GGGCCTGATGGGCTATACGAATGTGAATT
1 GGGCCTAATGGGCCATATGAATATGAATT
*
96013553 GGGCCTGATGGGCCATATG-A-ATGAGATT
1 GGGCCTAATGGGCCATATGAATATGA-ATT
96013581 GGGCC-AAGTGGGCCATATG
1 GGGCCTAA-TGGGCCATATG
96013600 CATGTATGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
27 4 0.06
28 20 0.30
29 42 0.64
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.25
Consensus pattern (29 bp):
GGGCCTAATGGGCCATATGAATATGAATT
Found at i:96014999 original size:21 final size:21
Alignment explanation
Indices: 96014974--96015016 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
96014964 GTTATTGAGA
96014974 AGGAAGTAGTTGCT-ACAGAAG
1 AGGAAGTAGTTGCTGA-AGAAG
*
96014995 AGGAAGTTGTTGCTGAAGAAG
1 AGGAAGTAGTTGCTGAAGAAG
96015016 A
1 A
96015017 AGAAAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (21 bp):
AGGAAGTAGTTGCTGAAGAAG
Found at i:96015027 original size:21 final size:20
Alignment explanation
Indices: 96015003--96015041 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
96014993 AGAGGAAGTT
*
96015003 GTTGCTGAAGAAGAAGAAAAA
1 GTTGCTGAAAAAG-AGAAAAA
*
96015024 GTTGTTGAAAAAGAGAAA
1 GTTGCTGAAAAAGAGAAA
96015042 GAAAAAGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.51, C:0.03, G:0.28, T:0.18
Consensus pattern (20 bp):
GTTGCTGAAAAAGAGAAAAA
Found at i:96018837 original size:28 final size:28
Alignment explanation
Indices: 96018797--96018851 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
96018787 TCTCACTCGC
*
96018797 TCATACTATATTTGTTTTAGTTTTATAT
1 TCATACTATATTTCTTTTAGTTTTATAT
*
96018825 TCATATTATATTTCTTTTAGTTTTATA
1 TCATACTATATTTCTTTTAGTTTTATA
96018852 ACAAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.62
Consensus pattern (28 bp):
TCATACTATATTTCTTTTAGTTTTATAT
Found at i:96020531 original size:12 final size:12
Alignment explanation
Indices: 96020514--96020539 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
96020504 GAAAACAGAC
96020514 TTTTAGCGGCAT
1 TTTTAGCGGCAT
96020526 TTTTAGCGGCAT
1 TTTTAGCGGCAT
96020538 TT
1 TT
96020540 GGCCAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCAT
Found at i:96021838 original size:15 final size:15
Alignment explanation
Indices: 96021820--96021851 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
96021810 TTTAATTTAG
96021820 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
96021835 AAGATAAATATATAT
1 AAGATAAATATAAAT
96021850 AA
1 AA
96021852 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:96022684 original size:37 final size:37
Alignment explanation
Indices: 96022632--96022748 Score: 171
Period size: 37 Copynumber: 3.2 Consensus size: 37
96022622 AATCTCCCTG
* * *
96022632 TGCATTGCAACCCATCTCCTCTATCGCCTTCTCCCCA
1 TGCATCGCAACCCATCTCCTCCATCGCCTTCGCCCCA
* * *
96022669 TGCATCGCAAACCATCCCCTCCATCGCCTTCGCCCCG
1 TGCATCGCAACCCATCTCCTCCATCGCCTTCGCCCCA
*
96022706 TGCATCGCAACCCATCTCCTCCATTGCCTTCGCCCCA
1 TGCATCGCAACCCATCTCCTCCATCGCCTTCGCCCCA
96022743 TGCATC
1 TGCATC
96022749 TGCTACATAG
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.16, C:0.48, G:0.11, T:0.25
Consensus pattern (37 bp):
TGCATCGCAACCCATCTCCTCCATCGCCTTCGCCCCA
Found at i:96024096 original size:14 final size:14
Alignment explanation
Indices: 96024077--96024105 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
96024067 CTATAATAAT
96024077 TATATGAAGTAAAA
1 TATATGAAGTAAAA
96024091 TATATGAAGTAAAA
1 TATATGAAGTAAAA
96024105 T
1 T
96024106 TATACTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (14 bp):
TATATGAAGTAAAA
Found at i:96025099 original size:20 final size:20
Alignment explanation
Indices: 96025074--96025117 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
96025064 TCTATCACAA
96025074 AATTCAATCAAATCCTAAAC
1 AATTCAATCAAATCCTAAAC
96025094 AATTCAATCAAATCCTAAAC
1 AATTCAATCAAATCCTAAAC
96025114 AATT
1 AATT
96025118 TATAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (20 bp):
AATTCAATCAAATCCTAAAC
Found at i:96025539 original size:15 final size:17
Alignment explanation
Indices: 96025505--96025538 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
96025495 AATGTTTCTA
96025505 ATTCAAAAGTAATATAT
1 ATTCAAAAGTAATATAT
96025522 ATTCAAAAGTAATATAT
1 ATTCAAAAGTAATATAT
96025539 TTTTTTCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (17 bp):
ATTCAAAAGTAATATAT
Found at i:96025577 original size:9 final size:9
Alignment explanation
Indices: 96025563--96025833 Score: 82
Period size: 9 Copynumber: 30.8 Consensus size: 9
96025553 CCAGCAACTC
96025563 ACATAATTT
1 ACATAATTT
96025572 ACATAA--T
1 ACATAATTT
*
96025579 ACATAACTT
1 ACATAATTT
96025588 ACATAATTT
1 ACATAATTT
*
96025597 --A-AAGTT
1 ACATAATTT
96025603 -CA-AATTT
1 ACATAATTT
*
96025610 -CATAACTT
1 ACATAATTT
96025618 ACATAATTT
1 ACATAATTT
* *
96025627 ACTTAACTT
1 ACATAATTT
96025636 ACATAA--T
1 ACATAATTT
*
96025643 ACATAACTT
1 ACATAATTT
*
96025652 ATATAATTT
1 ACATAATTT
*
96025661 AAAGATCAAATTT
1 --ACAT--AATTT
*
96025674 -CATAACTT
1 ACATAATTT
*
96025682 ACATGA--T
1 ACATAATTT
*
96025689 ACATAACTT
1 ACATAATTT
96025698 ACATAATTT
1 ACATAATTT
96025707 AAAGACCA-AATTT
1 ----A-CATAATTT
*
96025720 -CATAAGTT
1 ACATAATTT
96025728 ACATAATTT
1 ACATAATTT
*
96025737 ACATAACTT
1 ACATAATTT
96025746 ACATAATAATT
1 ACATAAT--TT
* *
96025757 -TA-AAGTT
1 ACATAATTT
96025764 -CA-AATTT
1 ACATAATTT
*
96025771 -CATAACTT
1 ACATAATTT
96025779 ACATAATTT
1 ACATAATTT
96025788 AAAGACCA-AATTT
1 ----A-CATAATTT
*
96025801 -CATAAGTT
1 ACATAATTT
96025809 ACATAATTT
1 ACATAATTT
*
96025818 ACATAACTT
1 ACATAATTT
96025827 ACATAAT
1 ACATAAT
96025834 AATTTAAAGT
Statistics
Matches: 200, Mismatches: 30, Indels: 64
0.68 0.10 0.22
Matches are distributed among these distances:
6 4 0.02
7 41 0.20
8 20 0.10
9 106 0.53
10 3 0.01
11 5 0.03
13 17 0.09
14 4 0.02
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (9 bp):
ACATAATTT
Found at i:96025584 original size:16 final size:16
Alignment explanation
Indices: 96025563--96025704 Score: 89
Period size: 16 Copynumber: 9.0 Consensus size: 16
96025553 CCAGCAACTC
*
96025563 ACATAATTTACATAAT
1 ACATAACTTACATAAT
96025579 ACATAACTTACATAAT
1 ACATAACTTACATAAT
** *
96025595 TTA-AAGTT-CA-AATT
1 ACATAACTTACATAA-T
*
96025609 TCATAACTTACATAATTT
1 ACATAACTTACATAA--T
*
96025627 ACTTAACTTACATAAT
1 ACATAACTTACATAAT
*
96025643 ACATAACTTATATAAT
1 ACATAACTTACATAAT
** **
96025659 TTA-AAGAT-CA-AATT
1 ACATAACTTACATAA-T
* *
96025673 TCATAACTTACATGAT
1 ACATAACTTACATAAT
96025689 ACATAACTTACATAAT
1 ACATAACTTACATAAT
96025705 TTAAAGACCA
Statistics
Matches: 96, Mismatches: 21, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
13 4 0.04
14 9 0.09
15 14 0.15
16 51 0.53
17 3 0.03
18 15 0.16
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (16 bp):
ACATAACTTACATAAT
Found at i:96025616 original size:30 final size:30
Alignment explanation
Indices: 96025580--96025896 Score: 223
Period size: 30 Copynumber: 10.5 Consensus size: 30
96025570 TTACATAATA
96025580 CATAACTTACATAATTTAAAGTTCAAATTT
1 CATAACTTACATAATTTAAAGTTCAAATTT
* *
96025610 CATAACTTACATAATTTACTTAACTTACATAA-TA
1 CATAACTTACATAATTTA---AAGTT-CA-AATTT
* *
96025644 CATAACTTATATAATTTAAAGATCAAATTT
1 CATAACTTACATAATTTAAAGTTCAAATTT
* ** *
96025674 CATAACTTACATGATACATAACTTACATAATTT
1 CATAACTTACATAATTTA-AAGTT-CA-AATTT
*
96025707 -A-AA--GACCA-AATTTCATAAGTTACATAATTT
1 CATAACTTA-CATAATTT-A-AAGTT-CA-AATTT
96025737 ACATAACTTACATAATAATTTAAAGTTCAAATTT
1 -CATAACTTAC---ATAATTTAAAGTTCAAATTT
**
96025771 CATAACTTACATAATTTAAAGACCAAATTT
1 CATAACTTACATAATTTAAAGTTCAAATTT
* *
96025801 CATAAGTTACATAATTTACA--T--AA---
1 CATAACTTACATAATTTAAAGTTCAAATTT
* *
96025824 C-TTACATA-ATAATTTAAAGTTCAAATTT
1 CATAACTTACATAATTTAAAGTTCAAATTT
* *
96025852 CATAACTTACCTAATTTAAAGATCAAATTT
1 CATAACTTACATAATTTAAAGTTCAAATTT
96025882 CATAACTTACATAAT
1 CATAACTTACATAAT
96025897 ACATAACTTA
Statistics
Matches: 226, Mismatches: 32, Indels: 58
0.72 0.10 0.18
Matches are distributed among these distances:
21 9 0.04
22 4 0.02
23 2 0.01
25 2 0.01
26 2 0.01
28 1 0.00
29 10 0.04
30 120 0.53
31 8 0.04
32 4 0.02
33 21 0.09
34 26 0.12
35 5 0.02
36 5 0.02
37 2 0.01
38 5 0.02
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (30 bp):
CATAACTTACATAATTTAAAGTTCAAATTT
Found at i:96025691 original size:46 final size:46
Alignment explanation
Indices: 96025630--96025785 Score: 222
Period size: 46 Copynumber: 3.3 Consensus size: 46
96025620 ATAATTTACT
96025630 TAACTTACATAATACATAACTTATATAATTTAAAGATCAAATTTCA
1 TAACTTACATAATACATAACTTATATAATTTAAAGATCAAATTTCA
* * *
96025676 TAACTTACATGATACATAACTTACATAATTTAAAGACCAAATTTCA
1 TAACTTACATAATACATAACTTATATAATTTAAAGATCAAATTTCA
* *
96025722 TAAGTTACATAATTTACATAACTTACATAATAATTTAAAGTTCAAATTTCA
1 TAACTTACATAA--TACATAACTT--AT-ATAATTTAAAGATCAAATTTCA
96025773 TAACTTACATAAT
1 TAACTTACATAAT
96025786 TTAAAGACCA
Statistics
Matches: 96, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
46 53 0.55
48 10 0.10
49 1 0.01
50 1 0.01
51 31 0.32
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (46 bp):
TAACTTACATAATACATAACTTATATAATTTAAAGATCAAATTTCA
Found at i:96025770 original size:110 final size:110
Alignment explanation
Indices: 96025564--96025978 Score: 401
Period size: 110 Copynumber: 3.9 Consensus size: 110
96025554 CAGCAACTCA
* **
96025564 CATAATTTACATAATACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACATAATTTAC
1 CATAACTTACATAATACATAACTTACATAATTTAAAGACCAAATTTCATAACTTACATAATTTAC
* *
96025629 TTAACTTACATAATACATAACTTATATAATTTAAAGATCAAATTT
66 ATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTT
* *
96025674 CATAACTTACATGATACATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTAC
1 CATAACTTACATAATACATAACTTACATAATTTAAAGACCAAATTTCATAACTTACATAATTTAC
*
96025739 AT-A---AC-T--TAC---A--TA-ATAATTTAAAGTTCAAATTT
66 ATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTT
* **
96025771 CATAACTTACATAAT--TTAA-AGACCA-AATTTCATAAGTTA-CATAATTTACATAACTTACAT
1 CATAACTTACATAATACATAACTTA-CATAATTT-A-AAG--ACCA-AATTT-CATAACTTACAT
* * * *
96025831 AATAATT-TA-AAGTT-CA-AATTTCATAACTTACCTAATTTAAAGATCAAATTT
59 AAT--TTACATAACTTACATAA-TACATAACTTACATAATTTAAAGATCAAATTT
* *
96025882 CATAACTTACATAATACATAACTTACATAATTTAAAGATCAAAATTCATAACTTACATAA--TAC
1 CATAACTTACATAATACATAACTTACATAATTTAAAGACCAAATTTCATAACTTACATAATTTAC
* *
96025945 ATAACTTACATAATACATTACTTACATAACTTAA
66 ATAACTTACATAATACATAACTTACATAATTTAA
96025979 TTATACATAT
Statistics
Matches: 247, Mismatches: 26, Indels: 66
0.73 0.08 0.19
Matches are distributed among these distances:
94 6 0.02
95 6 0.02
96 3 0.01
97 35 0.14
98 8 0.03
99 14 0.06
100 3 0.01
101 2 0.01
102 1 0.00
103 3 0.01
105 4 0.02
106 3 0.01
107 4 0.02
108 20 0.08
109 17 0.07
110 68 0.28
111 35 0.14
112 3 0.01
113 6 0.02
114 6 0.02
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (110 bp):
CATAACTTACATAATACATAACTTACATAATTTAAAGACCAAATTTCATAACTTACATAATTTAC
ATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTT
Found at i:96025787 original size:81 final size:81
Alignment explanation
Indices: 96025690--96025942 Score: 426
Period size: 81 Copynumber: 3.2 Consensus size: 81
96025680 TTACATGATA
96025690 CATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
1 CATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
96025755 TTTAAAGTTCAAATTT
66 TTTAAAGTTCAAATTT
96025771 CATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
1 CATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
96025836 TTTAAAGTTCAAATTT
66 TTTAAAGTTCAAATTT
* * *
96025852 CATAACTTACCTAATTTAAAGATCAAATTTCATAACTTACATAA--TACATAACTTAC---ATAA
1 CATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
* *
96025912 TTTAAAGATCAAAATT
66 TTTAAAGTTCAAATTT
96025928 CATAACTTACATAAT
1 CATAACTTACATAAT
96025943 ACATAACTTA
Statistics
Matches: 166, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
76 32 0.19
79 12 0.07
81 122 0.73
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (81 bp):
CATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
TTTAAAGTTCAAATTT
Found at i:96025903 original size:16 final size:16
Alignment explanation
Indices: 96025882--96025973 Score: 107
Period size: 16 Copynumber: 5.9 Consensus size: 16
96025872 GATCAAATTT
96025882 CATAACTTACATAATA
1 CATAACTTACATAATA
*
96025898 CATAACTTACATAATT
1 CATAACTTACATAATA
* ** * *
96025914 TA-AAGAT-CAAAATT
1 CATAACTTACATAATA
96025928 CATAACTTACATAATA
1 CATAACTTACATAATA
96025944 CATAACTTACATAATA
1 CATAACTTACATAATA
*
96025960 CATTACTTACATAA
1 CATAACTTACATAA
96025974 CTTAATTATA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
14 7 0.11
15 6 0.10
16 50 0.79
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:96025905 original size:46 final size:46
Alignment explanation
Indices: 96025852--96025958 Score: 196
Period size: 46 Copynumber: 2.3 Consensus size: 46
96025842 GTTCAAATTT
* *
96025852 CATAACTTACCTAATTTAAAGATCAAATTTCATAACTTACATAATA
1 CATAACTTACATAATTTAAAGATCAAAATTCATAACTTACATAATA
96025898 CATAACTTACATAATTTAAAGATCAAAATTCATAACTTACATAATA
1 CATAACTTACATAATTTAAAGATCAAAATTCATAACTTACATAATA
96025944 CATAACTTACATAAT
1 CATAACTTACATAAT
96025959 ACATTACTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.34
Consensus pattern (46 bp):
CATAACTTACATAATTTAAAGATCAAAATTCATAACTTACATAATA
Found at i:96027610 original size:13 final size:14
Alignment explanation
Indices: 96027594--96027622 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
96027584 TTCTAAATAT
96027594 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
96027607 TTATAATTGTTTAA
1 TTATAATTGTTTAA
96027621 TT
1 TT
96027623 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:96028455 original size:43 final size:43
Alignment explanation
Indices: 96028408--96028501 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 43
96028398 TCTACTAAAA
96028408 TTAGCGGC-GTTTGTGGAAAAAACACCGCTAAAAGCCATGACTT
1 TTAGCGGCGGTTT-TGGAAAAAACACCGCTAAAAGCCATGACTT
* *** * * * *
96028451 TTAGCAGCGGTTTTTTTACAAACGCCGCTAAAAGTCATGGCTT
1 TTAGCGGCGGTTTTGGAAAAAACACCGCTAAAAGCCATGACTT
96028494 TTAGCGGC
1 TTAGCGGC
96028502 ATTTTTTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
43 37 0.90
44 4 0.10
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
TTAGCGGCGGTTTTGGAAAAAACACCGCTAAAAGCCATGACTT
Found at i:96028508 original size:43 final size:43
Alignment explanation
Indices: 96028427--96028508 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
96028417 TTTGTGGAAA
*
96028427 AAACACCGCTAAAAGCCATGACTTTTAGCAGCGGTTTTTTTAC
1 AAACACCGCTAAAAGCCATGACTTTTAGCAGCAGTTTTTTTAC
* * * *
96028470 AAACGCCGCTAAAAGTCATGGCTTTTAGCGGCA-TTTTTT
1 AAACACCGCTAAAAGCCATGACTTTTAGCAGCAGTTTTTT
96028509 AAAATAAACG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 6 0.18
43 28 0.82
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (43 bp):
AAACACCGCTAAAAGCCATGACTTTTAGCAGCAGTTTTTTTAC
Found at i:96034308 original size:20 final size:19
Alignment explanation
Indices: 96034283--96034324 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
96034273 GATTAGTTTG
*
96034283 GTAATAGGACAGTAATAATA
1 GTAATAAGACAGTAATAA-A
*
96034303 GTAATAATACAGTAATAAA
1 GTAATAAGACAGTAATAAA
96034322 GTA
1 GTA
96034325 GAAAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.52, C:0.05, G:0.17, T:0.26
Consensus pattern (19 bp):
GTAATAAGACAGTAATAAA
Found at i:96034331 original size:20 final size:20
Alignment explanation
Indices: 96034291--96034331 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
96034281 TGGTAATAGG
*
96034291 ACAGTAATAATAGTAATAAT
1 ACAGTAATAATAGTAAAAAT
96034311 ACAGTAATAA-AGTAGAAAAT
1 ACAGTAATAATAGTA-AAAAT
96034331 A
1 A
96034332 ATAATGGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.59, C:0.05, G:0.12, T:0.24
Consensus pattern (20 bp):
ACAGTAATAATAGTAAAAAT
Found at i:96034404 original size:3 final size:3
Alignment explanation
Indices: 96034390--96034482 Score: 54
Period size: 3 Copynumber: 32.0 Consensus size: 3
96034380 AATGATATGT
* * * *
96034390 TAA TAA TGA TAA TAA -AA TAA -AA TAA -AA TAA CAC T-A TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
96034434 AAA TAA TAA TAA TAG TAA TAA AAA GGTGAA -AA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA --T-AA TAA TAA TAA TAA TAA TAA
96034480 TAA
1 TAA
96034483 AAACACTATT
Statistics
Matches: 67, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
2 11 0.16
3 54 0.81
6 2 0.03
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:96034549 original size:21 final size:21
Alignment explanation
Indices: 96034525--96034573 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
96034515 AAATGAAAAC
*
96034525 AGTAATAGTA-TATAGAATAAT
1 AGTAATAGTAGTA-AAAATAAT
*
96034546 AGTAAAAGTAGTAAAAATAAT
1 AGTAATAGTAGTAAAAATAAT
*
96034567 AATAATA
1 AGTAATA
96034574 ATAATATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (21 bp):
AGTAATAGTAGTAAAAATAAT
Found at i:96034963 original size:13 final size:13
Alignment explanation
Indices: 96034945--96035025 Score: 65
Period size: 13 Copynumber: 6.0 Consensus size: 13
96034935 AGTGATGGAG
96034945 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
*
96034958 TTAGTGGGGTGTT
1 TTAGTGGGGTGGT
** *
96034971 TTAGT-GGCCGAT
1 TTAGTGGGGTGGT
*
96034983 TTAGTGGGGTGTTGGAG
1 TTAGT-GGG-G-TGG-T
*
96035000 TTAATGGGGTGGT
1 TTAGTGGGGTGGT
96035013 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
96035026 ATTTGGGTTG
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
12 9 0.17
13 29 0.56
14 5 0.10
15 1 0.02
16 4 0.08
17 4 0.08
ACGTcount: A:0.11, C:0.02, G:0.48, T:0.38
Consensus pattern (13 bp):
TTAGTGGGGTGGT
Found at i:96035018 original size:30 final size:30
Alignment explanation
Indices: 96034930--96035023 Score: 99
Period size: 30 Copynumber: 3.3 Consensus size: 30
96034920 TTTGCAGGCA
* *
96034930 AGTGGAGTGATGGAGTTAGTGGGGTGGTTT
1 AGTGGGGTGTTGGAGTTAGTGGGGTGGTTT
** *
96034960 AGTGGGGTGTT----TTAGT-GGCCGATTT
1 AGTGGGGTGTTGGAGTTAGTGGGGTGGTTT
*
96034985 AGTGGGGTGTTGGAGTTAATGGGGTGGTTT
1 AGTGGGGTGTTGGAGTTAGTGGGGTGGTTT
96035015 AGTGGGGTG
1 AGTGGGGTG
96035024 GTATTTGGGT
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
25 17 0.34
26 5 0.10
29 4 0.08
30 24 0.48
ACGTcount: A:0.14, C:0.02, G:0.49, T:0.35
Consensus pattern (30 bp):
AGTGGGGTGTTGGAGTTAGTGGGGTGGTTT
Found at i:96035485 original size:88 final size:88
Alignment explanation
Indices: 96035262--96036126 Score: 1098
Period size: 88 Copynumber: 9.9 Consensus size: 88
96035252 TTTTGTTTTA
* * * *
96035262 ATCTACTCCACTACTGCTTAGGGAGATATGATTTGTAATATT-CAGCCCGTTTCCCTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAGCCTGTTTCCCTACTGCTTA
* * **
96035326 -GAGATATAAGGCT-A--GTCTTTA
65 GGGGGT-TAAGGCTCACCGTCTTCG
* * * * * *
96035347 ATCTACTCCGCTACAGTTTAAGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
* *
96035412 GGGGATAAGGCTCACCGTCTTCA
66 GGGGTTAAGGCTCACCGTCTTCG
* * * *
96035435 ATCTGCTCCACTACTTCTCAGGGAGATAAGATCTATAATCTT-CAGTCTGTTTCCCTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAGCCTGTTTCCCTACTGCTTA
* * *
96035499 GGGGGATAAGGCTCACTGTCTTTG
65 GGGGGTTAAGGCTCACCGTCTTCG
* * * * *
96035523 -TCCTGCTCCACTACTACTTAGAGAGATAAGATCTATAATTTCCAGGCTGTTTCCCTACTACTTA
1 AT-CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTA
*
96035587 GGGGGTTAAAGCTCACCGTCTTCG
65 GGGGGTTAAGGCTCACCGTCTTCG
* * * * **
96035611 ATCTGCTCCACTATTGTTTAGGGAGATAAGATCTGTAGTTTCCAGCCTATTTTTCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
*
96035676 GGGGTTAAGGCTCACTGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* * * *
96035699 ATTTGCTCCACTACTGCTTAGGGAGATAACATCTGTAATTTCTAGCCTGTTTCCCTACTACTTA-
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
* *
96035763 AGGGTTAAGGCTCATCGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* * *
96035786 ATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTATTTCCCTACTGATTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
*
96035851 GGGGTTAAGGCTCACCGTCTTTG
66 GGGGTTAAGGCTCACCGTCTTCG
* * * *
96035874 ATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCCTATTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
96035939 GGGGTTAAGGCTCACCGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
** * *
96035962 ATCCACTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTCCAGCCTGTTTCCCTACTACTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
*
96036027 GGGGTTAAGGTTCACCGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* * * * *
96036050 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGCAATTTTCAGCTTGTTTCCCTACTACTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
96036115 GGGGTTAAGGCT
66 GGGGTTAAGGCT
96036127 AGTGAATTCA
Statistics
Matches: 683, Mismatches: 87, Indels: 17
0.87 0.11 0.02
Matches are distributed among these distances:
84 2 0.00
85 60 0.09
86 3 0.00
87 82 0.12
88 533 0.78
89 3 0.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (88 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
GGGGTTAAGGCTCACCGTCTTCG
Found at i:96035493 original size:44 final size:44
Alignment explanation
Indices: 96035368--96035508 Score: 110
Period size: 44 Copynumber: 3.2 Consensus size: 44
96035358 TACAGTTTAA
* *
96035368 GGAGATAAGATCTGTAAT-TTCCAGCCTGTTTCCCTACTGCTTC-G
1 GGAGATAAGATCTATAATCTT-CAGTCTGTTTCCCTACTGC-TCAG
* * *** * * *
96035412 GGGGATAAG-GCTCACCGTCTTCAATCTG-CTCCACTACTTCTCAG
1 GGAGATAAGATCT-ATAATCTTCAGTCTGTTTCC-CTACTGCTCAG
*
96035456 GGAGATAAGATCTATAATCTTCAGTCTGTTTCCCTACTGCTTAG
1 GGAGATAAGATCTATAATCTTCAGTCTGTTTCCCTACTGCTCAG
*
96035500 GGGGATAAG
1 GGAGATAAG
96035509 GCTCACTGTC
Statistics
Matches: 71, Mismatches: 20, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
43 7 0.10
44 57 0.80
45 7 0.10
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (44 bp):
GGAGATAAGATCTATAATCTTCAGTCTGTTTCCCTACTGCTCAG
Found at i:96035980 original size:44 final size:44
Alignment explanation
Indices: 96035840--96036071 Score: 120
Period size: 44 Copynumber: 5.3 Consensus size: 44
96035830 GCCTATTTCC
* * *
96035840 CTACTGATTAGGGGGTTAAGGCTCACCGTCTTTGATCCGCTCCA
1 CTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTCCA
* * * * * * * *
96035884 CTACTGCTTAGGGAGATAAGATCTGTA--ATTTTC-AGCCTATTTCC-
1 CTACTGCTTAGGGGGTTAAG-GCT-CACCGTCTTCGATCC-A-CTCCA
*
96035928 CTATTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTCCA
1 CTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTCCA
* * * * * * **
96035972 CTACTGCTTAGGGAGATAAGATCTGCA--AT-TTCCAGCCTGTTTCC-
1 CTACTGCTTAGGGGGTTAAG-GCT-CACCGTCTTCGATCC--ACTCCA
* * **
96036016 CTACTACTTAGGGGGTTAAGGTTCACCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTCCA
96036060 CTACTGCTTAGG
1 CTACTGCTTAGG
96036072 AAGATAAGAT
Statistics
Matches: 131, Mismatches: 41, Indels: 32
0.64 0.20 0.16
Matches are distributed among these distances:
42 3 0.02
43 18 0.14
44 89 0.68
45 18 0.14
46 3 0.02
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (44 bp):
CTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTCCA
Found at i:96036060 original size:351 final size:350
Alignment explanation
Indices: 96035266--96036126 Score: 1115
Period size: 351 Copynumber: 2.5 Consensus size: 350
96035256 GTTTTAATCT
* * * *
96035266 ACTCCACTACTGCTTAGGGAGATATGATTTGTAATATT-CAGCCCGTTTCCCTACTGCTTA-GAG
1 ACTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAGCCTGTTTCCCTACTGCTTAGGGG
* ** * * * * * *
96035329 ATATAAGGCT-A-GTCTTTAATCTACTCCGCTACAGTTTAAGGAGATAAGATCTGTAATTTCCAG
65 GT-TAAGGCTCACGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAG
* * * *
96035392 CCTGTTTCCCTACTGCTTCGGGGGATAAGGCTCACCGTCTTCAATCTGCTCCACTACTTCTCAGG
129 CCTGTTTCCCTACTACTT-AGGGGTTAAGGCTCACCGTCTTCAATCTGCTCCACTACTGCTCAGG
* * * *
96035457 GAGATAAGATCTATAATCTTCAGTCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACTGTCTTT
193 GAGATAAGATCTATAATCTTCAGCCTATTTCCCTACTGATTAGGGGGATAAGGCTCACCGTCTTT
* *
96035522 GTCCTGCTCCACTACTACTTAGAGAGATAAGATCTATAATTTCCAGGCTGTTTCCCTACTACTTA
258 GTCCTGCTCCACTACTACTTAGAGAGATAAGATCTATAATTTCCAGCCTATTTCCCTACTACTTA
*
96035587 GGGGGTTAAAGCTCACCGTCTTCGATCT
323 GGGGGTTAAAGCTCACCGTCTTCGATCC
* * * * * **
96035615 GCTCCACTATTGTTTAGGGAGATAAGATCTGTAGTTTCCAGCCTATTTTTCTACTGCTTAGGGGG
1 ACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGG
* *
96035680 TTAAGGCTCACTGTCTTCGATTTGCTCCACTACTGCTTAGGGAGATAACATCTGTAATTTCTAGC
66 TTAAGGCTCAC-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGC
* * * * *
96035745 CTGTTTCCCTACTACTTAAGGGTTAAGGCTCATCGTCTTCGATTTGCTCCACTACTGCTTAGGGA
130 CTGTTTCCCTACTACTTAGGGGTTAAGGCTCACCGTCTTCAATCTGCTCCACTACTGCTCAGGGA
* *
96035810 GATAAGATCTGTAAT-TTCCAGCCTATTTCCCTACTGATTAGGGGGTTAAGGCTCACCGTCTTTG
195 GATAAGATCTATAATCTT-CAGCCTATTTCCCTACTGATTAGGGGGATAAGGCTCACCGTCTTTG
* * * * * *
96035874 ATCC-GCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCCTATTGCTTA
259 -TCCTGCTCCACTACTACTTAGAGAGATAAGATCTATAATTTCCAGCCTATTTCCCTACTACTTA
*
96035938 GGGGGTTAAGGCTCACCGTCTTCGATCC
323 GGGGGTTAAAGCTCACCGTCTTCGATCC
* *
96035966 ACTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTCCAGCCTGTTTCCCTACTACTTAGGGGG
1 ACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGG
* * *
96036031 TTAAGGTTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGCAATTT-TCAG
66 TTAAGGCTCA-CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCT-AG
*
96036095 CTTGTTTCCCTACTACTTAGGGGGTTAAGGCT
129 CCTGTTTCCCTACTACTTA-GGGGTTAAGGCT
96036127 AGTGAATTCA
Statistics
Matches: 439, Mismatches: 63, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
348 2 0.00
349 54 0.12
350 7 0.02
351 302 0.69
352 74 0.17
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (350 bp):
ACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGG
TTAAGGCTCACGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCC
TGTTTCCCTACTACTTAGGGGTTAAGGCTCACCGTCTTCAATCTGCTCCACTACTGCTCAGGGAG
ATAAGATCTATAATCTTCAGCCTATTTCCCTACTGATTAGGGGGATAAGGCTCACCGTCTTTGTC
CTGCTCCACTACTACTTAGAGAGATAAGATCTATAATTTCCAGCCTATTTCCCTACTACTTAGGG
GGTTAAAGCTCACCGTCTTCGATCC
Found at i:96036114 original size:44 final size:44
Alignment explanation
Indices: 96035972--96036116 Score: 118
Period size: 44 Copynumber: 3.3 Consensus size: 44
96035962 ATCCACTCCA
* * *
96035972 CTACTGCTTAGGGAGATAAGATCTGCAATTTCCAGCCTGTTTCC
1 CTACTACTTAGGGAGATAAGATCTGCAATTTTCAGCTTGTTTCC
* * * * * * *
96036016 CTACTACTTAGGGGGTTAAGGT-T-CACCGTCTTC-GATCTG-CTCC
1 CTACTACTTAGGGAGATAAGATCTGCA--ATTTTCAGCT-TGTTTCC
* *
96036059 ACTACTGCTTAGGAAGATAAGATCTGCAATTTTCAGCTTGTTTCC
1 -CTACTACTTAGGGAGATAAGATCTGCAATTTTCAGCTTGTTTCC
96036104 CTACTACTTAGGG
1 CTACTACTTAGGG
96036117 GGTTAAGGCT
Statistics
Matches: 72, Mismatches: 21, Indels: 16
0.66 0.19 0.15
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
44 57 0.79
45 6 0.08
46 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (44 bp):
CTACTACTTAGGGAGATAAGATCTGCAATTTTCAGCTTGTTTCC
Found at i:96036307 original size:64 final size:64
Alignment explanation
Indices: 96036198--96036322 Score: 187
Period size: 64 Copynumber: 2.0 Consensus size: 64
96036188 TGTATCTATA
*
96036198 CTTATGCCAAATAATTAGGATAATATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGATG
1 CTTATGCCAAAGAATTAGGATAATATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGATG
* * ** * *
96036262 CTTATGTCAAAGAGTTAGGATGCTATGATCGAAATGCATCCAATGCTCCTAACTAGATGTG
1 CTTATGCCAAAGAATTAGGATAATATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
96036323 TTATGAATGA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (64 bp):
CTTATGCCAAAGAATTAGGATAATATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGATG
Found at i:96042921 original size:20 final size:19
Alignment explanation
Indices: 96042898--96042940 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
96042888 AATTAGTTTG
96042898 GTAATAAGACAGTAATAATA
1 GTAATAAGACAGTAATAA-A
*
96042918 GTAATAATACAGTAATAAA
1 GTAATAAGACAGTAATAAA
96042937 GTAA
1 GTAA
96042941 AAAATAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.56, C:0.05, G:0.14, T:0.26
Consensus pattern (19 bp):
GTAATAAGACAGTAATAAA
Found at i:96043019 original size:3 final size:3
Alignment explanation
Indices: 96043005--96043210 Score: 72
Period size: 3 Copynumber: 69.0 Consensus size: 3
96042995 AATGATATGT
* * * * *
96043005 TAA TAA TGA TAA TAA -AA TAA -AA GAA -AA TAA CAC T-A TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
96043049 TAA TAA TAA TAA TAA TAA TAG TAA TAA AAA GGTGAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA --T-AA TAA TAA TAA TAA
* * * * * * *
96043096 -AA TAA TAA AAA TAC TAT TACGT TAC TAC TAA TAA TAA TAA AAA TGAA
1 TAA TAA TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA TAA T-AA
* * * * *
96043143 -AA TAG TAA -AA GT-A TATA GAA TAA TAG TAA -AA GTAG TAA AAA TAA
1 TAA TAA TAA TAA -TAA TA-A TAA TAA TAA TAA TAA -TAA TAA TAA TAA
* *
96043187 TAA TAA TAA TAA TAT TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
96043211 CACTCTCCCC
Statistics
Matches: 150, Mismatches: 34, Indels: 38
0.68 0.15 0.17
Matches are distributed among these distances:
2 18 0.12
3 122 0.81
4 5 0.03
5 3 0.02
6 2 0.01
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:96043608 original size:13 final size:13
Alignment explanation
Indices: 96043590--96043670 Score: 85
Period size: 13 Copynumber: 6.0 Consensus size: 13
96043580 AATGATGGAG
96043590 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
*
96043603 TTAGTGGGGTGTT
1 TTAGTGGGGTGGT
96043616 TTAGT--GGTCGGT
1 TTAGTGGGGT-GGT
*
96043628 TTAGTGGGGTGTTGGAG
1 TTAGT-GGG-G-TGG-T
96043645 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
96043658 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
96043671 ATTTGGGTTG
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
11 3 0.05
12 7 0.12
13 30 0.53
14 3 0.05
15 2 0.04
16 6 0.11
17 6 0.11
ACGTcount: A:0.09, C:0.01, G:0.51, T:0.40
Consensus pattern (13 bp):
TTAGTGGGGTGGT
Found at i:96043677 original size:25 final size:25
Alignment explanation
Indices: 96043594--96043677 Score: 73
Period size: 25 Copynumber: 3.2 Consensus size: 25
96043584 ATGGAGTTAG
96043594 TGGGGTGGTTTAGTGGGGT-GT-TT
1 TGGGGTGGTTTAGTGGGGTGGTATT
* *
96043617 TAGTGGTCGGTTTAGTGGGGTGTTGGAGTT
1 T-GGGGT-GGTTTAGTGGGGTG--GTA-TT
96043647 AGTGGGGTGGTTTAGTGGGGTGGTATT
1 --TGGGGTGGTTTAGTGGGGTGGTATT
96043674 TGGG
1 TGGG
96043678 TTGTAAATGA
Statistics
Matches: 48, Mismatches: 4, Indels: 16
0.71 0.06 0.24
Matches are distributed among these distances:
23 1 0.02
24 4 0.08
25 17 0.35
27 2 0.04
28 3 0.06
30 16 0.33
31 4 0.08
32 1 0.02
ACGTcount: A:0.08, C:0.01, G:0.51, T:0.39
Consensus pattern (25 bp):
TGGGGTGGTTTAGTGGGGTGGTATT
Found at i:96043891 original size:57 final size:57
Alignment explanation
Indices: 96043803--96043916 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
96043793 AAAAAGGCTA
*
96043803 ATTTTGCCCGGTCTTGCTGAGTCTTGACTTCTTGACGCTCTCTTTCTTTAGGTAGCC
1 ATTTTGCCCGGTCTTGCTGAGTCTTGACTTCTTGACGCTCCCTTTCTTTAGGTAGCC
*
96043860 ATTTTGCCTGGTCTTGCTGAGTCTTGACTTCTTGACGCTCCCTTTCTTTAGGTAGCC
1 ATTTTGCCCGGTCTTGCTGAGTCTTGACTTCTTGACGCTCCCTTTCTTTAGGTAGCC
96043917 TCGCTTTAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.11, C:0.26, G:0.21, T:0.42
Consensus pattern (57 bp):
ATTTTGCCCGGTCTTGCTGAGTCTTGACTTCTTGACGCTCCCTTTCTTTAGGTAGCC
Found at i:96044151 original size:44 final size:44
Alignment explanation
Indices: 96044103--96045837 Score: 191
Period size: 44 Copynumber: 39.5 Consensus size: 44
96044093 GCCTGTTTCC
* *
96044103 CTACTGCTTAGGGGGATAAGGCTCACCATCTTCGATTTGCTCTA
1 CTACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCTCTA
* * * ** * *
96044147 CTACTTCTCAGGGAGATAA-GATCTATAATCTTC-AGTCTG-TTTCC
1 CTACTGCTTAGGGAGATAAGGCTC-ACCATCTTCGA-TCTGCTCT-A
* *
96044191 CTACTGCTTAGAGG-GATAAGGCTCACCGTCTTCGATCTGCTCCA
1 CTACTGCTTAG-GGAGATAAGGCTCACCATCTTCGATCTGCTCTA
* * * * ** * *
96044235 CTACTGCTTAGGGAGATAAGATCTGTA--AT-TTCCAGCCTATTTTC
1 CTACTGCTTAGGGAGATAAG-GCT-CACCATCTTCGA-TCTGCTCTA
* * * * * *
96044279 CTACTGCTTAAGGG-GTTAAAGCTCACCGTCTTCAATCTACTCCA
1 CTACTGCTT-AGGGAGATAAGGCTCACCATCTTCGATCTGCTCTA
* ** **** * * * *
96044323 CTACTGCTTAGGGAAATAA-TATTTGTAGT-TTCTAGCCTG-TTTC
1 CTACTGCTTAGGGAGATAAGGCTCACCA-TCTTCGA-TCTGCTCTA
* * * *
96044366 CTTACTGCTTAGGG-GTTAAGGCTCACCGTCTTCGATCCGCTCCA
1 C-TACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCTCTA
* * * * * *
96044410 CTACTGCTTAGGGAGATAAGATCTGTA--AT-TTCTAGCCTG-TTTCC
1 CTACTGCTTAGGGAGATAAG-GCT-CACCATCTTCGA-TCTGCTCT-A
* * *
96044454 CTACTGCTTAGGG-GATTAAGGCTCACCGTCTTCGATTTGCTCCA
1 CTACTGCTTAGGGAGA-TAAGGCTCACCATCTTCGATCTGCTCTA
* * * * * * *
96044498 CTACTGCTTAGGGAGATAA-GATCTACAATTTTC-AGCCT-ATTTT
1 CTACTGCTTAGGGAGATAAGGCTC-ACCATCTTCGA-TCTGCTCTA
* * * * * *
96044541 CTTACTGCTTAGGGGGTTAAAGCTCACCGTCTTCGATCCGCTCCA
1 C-TACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCTCTA
* * * * * *
96044586 CTACTGCTTAGGGAGATAAGATCTGTA--AT-TTCTAGCCTG-TTTCC
1 CTACTGCTTAGGGAGATAAG-GCT-CACCATCTTCGA-TCTGCTCT-A
* * *
96044630 CTACTGCTTAGGG-GCTTAAGGCTTACCGTCTTCGATCTGCTCTA
1 CTACTGCTTAGGGAG-ATAAGGCTCACCATCTTCGATCTGCTCTA
* * * * ** * * *
96044674 CTACTTCTCATGGAGATAA-GATCTATAATCTTC-AGCCTG-TTTCC
1 CTACTGCTTAGGGAGATAAGGCTC-ACCATCTTCGA-TCTGCTCT-A
* * * * *
96044718 CTATTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCTCTA
* * * * * *
96044762 CTACTGCTTAGGGAGATAAGATCTGTA--AT-TTCTAGCCTG-TTTCC
1 CTACTGCTTAGGGAGATAAG-GCT-CACCATCTTCGA-TCTGCTCT-A
* * * *
96044806 CTACTGCTTAGGG-GTTTAAGGCTCATCGTCTTCCATCTGCT-TCA
1 CTACTGCTTAGGGAG-ATAAGGCTCACCATCTTCGATCTGCTCT-A
** *** * * * * *
96044850 CTACTGCTTAGGGAGATAAGAAT-TGTAGT-TTCCAGCCT-ATTTCC
1 CTACTGCTTAGGGAGATAAGGCTCACCA-TCTTCGA-TCTGCTCT-A
* * * * * * ** *
96044894 CTACTACTTAGGGGGTTAAGGCTCAACGTCTTCGTTCCACTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCTCTA
** **** * * * *
96044938 CTACTGCTTAGGGAGATAAGATTTGTAAT-TTCCAGCCTG-TTTCC
1 CTACTGCTTAGGGAGATAAGGCTCACCATCTTCGA-TCTGCTCT-A
* * *
96044982 CTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCTA
1 CTACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCTCTA
* * ** ** ** * *
96045026 CTACTTCTCAAAGAGATAA-AATCTATAATCTTC-AGTCTG-TTTCC
1 CTACTGCTTAGGGAGATAAGGCTC-ACCATCTTCGA-TCTGCTCT-A
* * *
96045070 CTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCTCTA
* ** * * * *
96045114 CTACTGCTTAGGGAGATAA-GAT-ATGTAAT-TTCTAGCCTG-TTTCC
1 CTACTGCTTAGGGAGATAAGGCTCA--CCATCTTCGA-TCTGCTCT-A
* * * * * *
96045158 CTACTGCTTAGGGGGTTAAAGCTCGCCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCTCTA
** *** * * * *
96045202 CTACTGCTTAGGGAGATAAGAAT-TGTAGT-TTCCAGCCTG-TTTCC
1 CTACTGCTTAGGGAGATAAGGCTCACCA-TCTTCGA-TCTGCTCT-A
* * * * *
96045246 CTACTGCTTAGGGAGTTAAGGCTCAACGTCTTTGATCTGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCTCTA
* * * * * * *
96045290 CTACTGCTTAGGGAGATAAGATCTGTA--AT-TTCCAGCCTGTTTTC
1 CTACTGCTTAGGGAGATAAG-GCT-CACCATCTTCGA-TCTGCTCTA
* * * * * *
96045334 CTACTGCTTAGGGGGTTAAGGCTCACCGTGTTCGATTTGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCTCTA
* * * * * *
96045378 CTACTGTTTAGGGAGATAAGATCTGGA--AT-TTCCAGCATAT-TTC-C
1 CTACTGCTTAGGGAGATAAG-GCT-CACCATCTT-C-G-ATCTGCTCTA
* * * * * *
96045422 CTACTGCTTAGGGGGTTAAAGCTCACCGTCTTCGATCCGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCTCTA
* * * * *
96045466 CTACTGCTTAGGGAGATAAGATCTGTA--AT-TTCCAGCCTGTTTCCCTA
1 CTACTGCTTAGGGAGATAAG-GCT-CACCATCTTCGA-TCTG---CTCTA
* * * * *
96045513 CTAC--CTAAGGG-GTTAAGGCTCACCGTCTTCGATCCGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCTCTA
* * * * * *
96045554 CTACTGCTTAGGGAGATAAGATCTGCA--AT-TTCCAACCT-ATTTCC
1 CTACTGCTTAGGGAGATAAG-GCT-CACCATCTT-CGATCTGCTCT-A
* * *
96045598 CTACTGCTTAGGGGGTTAAGGCTCACCATCTTCGATCTGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCTCTA
* * * * * *
96045642 CTACTGCTTAGGGAGATAAGATCTGTA--AT-TTCCAGCCTG-TTTCC
1 CTACTGCTTAGGGAGATAAG-GCT-CACCATCTTCGA-TCTGCTCT-A
* *
96045686 CTACTGCTTAGTGG-GTTAAGGCTCACCGTCTTCGATCTGCTCTA
1 CTACTGCTTAG-GGAGATAAGGCTCACCATCTTCGATCTGCTCTA
* * * ** * *
96045730 CTACTTCTCAGGGAGATAA-GATCTATAATCTTC-AGTCTG-TTTCC
1 CTACTGCTTAGGGAGATAAGGCTC-ACCATCTTCGA-TCTGCTCT-A
* * * * *
96045774 CTACTGCTTAGGGGGATAAGGCTCACCGTCTTTGATTTGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCTCTA
*
96045818 CTACTGTTTAGGGAGATAAG
1 CTACTGCTTAGGGAGATAAG
96045838 ATCTGTAATT
Statistics
Matches: 1114, Mismatches: 430, Indels: 294
0.61 0.23 0.16
Matches are distributed among these distances:
41 7 0.01
42 14 0.01
43 150 0.13
44 799 0.72
45 124 0.11
46 13 0.01
47 7 0.01
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (44 bp):
CTACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCTCTA
Found at i:96044188 original size:88 final size:87
Alignment explanation
Indices: 96043964--96046412 Score: 3229
Period size: 88 Copynumber: 27.9 Consensus size: 87
96043954 TTTTGTTTCA
* * * * * * *
96043964 ATCTACTCCAGTACTGCTTAGGGAGATATGGTTTGTAATATTCAGCCCGTTTCCCTACTACTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAGCCTGTTTCCCTACTGCTTAG
* * **
96044029 GGAGATAAGGCT-A--GTCTTTA
65 GGGGTTAAGGCTCACCGTCTTCG
*
96044049 ATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AGCCTGTTTCCCTACTGCTTAG
* *
96044114 GGGGATAAGGCTCACCATCTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
* * * * * *
96044137 ATTTGCTCTACTACTTCTCAGGGAGATAAGATCTATAATCTTCAGTCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAGCCTGTTTCCCTACTGCTTAG
* *
96044202 AGGGATAAGGCTCACCGTCTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
* * *
96044225 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTATTTTCCTACTGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT-CAGCCTGTTTCCCTACTGCTTAG
* *
96044290 GGGGTTAAAGCTCACCGTCTTCA
65 GGGGTTAAGGCTCACCGTCTTCG
* * * * * *
96044313 ATCTACTCCACTACTGCTTAGGGAAATAATATTTGTAGTTTCTAGCCTGTTTCCTTACTGCTTA-
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AGCCTGTTTCCCTACTGCTTAG
96044377 GGGGTTAAGGCTCACCGTCTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
*
96044400 ATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AGCCTGTTTCCCTACTGCTTAG
*
96044465 GGGATTAAGGCTCACCGTCTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
* ** * * *
96044488 ATTTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAGCCTATTTTCTTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTCAGCCTGTTTCCCTACTGCTTAG
*
96044553 GGGGTTAAAGCTCACCGTCTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
*
96044576 ATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AGCCTGTTTCCCTACTGCTTAG
* *
96044641 GGGCTTAAGGCTTACCGTCTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
* * * * * *
96044664 ATCTGCTCTACTACTTCTCATGGAGATAAGATCTATAATCTTCAGCCTGTTTCCCTATTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAGCCTGTTTCCCTACTGCTTAG
96044729 GGGGTTAAGGCTCACCGTCTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
96044752 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AGCCTGTTTCCCTACTGCTTAG
* * *
96044817 GGGTTTAAGGCTCATCGTCTTCC
65 GGGGTTAAGGCTCACCGTCTTCG
* * * *
96044840 ATCTGCTTCACTACTGCTTAGGGAGATAAGAAT-TGTAGTTTCCAGCCTATTTCCCTACTACTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAG-ATCTGTAATTT-CAGCCTGTTTCCCTACTGCTTA
*
96044904 GGGGGTTAAGGCTCAACGTCTTCG
64 GGGGGTTAAGGCTCACCGTCTTCG
* ** *
96044928 TTCCACTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT-CAGCCTGTTTCCCTACTGCTTAG
96044993 GGGGTTAAGGCTCACCGTCTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
* * * ** * * *
96045016 ATCTGCTCTACTACTTCTCAAAGAGATAAAATCTATAATCTTCAGTCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAGCCTGTTTCCCTACTGCTTAG
*
96045081 GGGGATAAGGCTCACCGTCTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
*
96045104 ATCTGCTCCACTACTGCTTAGGGAGATAAGATATGTAATTTCTAGCCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AGCCTGTTTCCCTACTGCTTAG
* *
96045169 GGGGTTAAAGCTCGCCGTCTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
*
96045192 ATCTGCTCCACTACTGCTTAGGGAGATAAGAAT-TGTAGTTTCCAGCCTGTTTCCCTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAG-ATCTGTAATTT-CAGCCTGTTTCCCTACTGCTTA
* * *
96045256 GGGAGTTAAGGCTCAACGTCTTTG
64 GGGGGTTAAGGCTCACCGTCTTCG
*
96045280 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTTCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT-CAGCCTGTTTCCCTACTGCTTAG
*
96045345 GGGGTTAAGGCTCACCGTGTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
* * * * *
96045368 ATTTGCTCCACTACTGTTTAGGGAGATAAGATCTGGAATTTCCAGCATATTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT-CAGCCTGTTTCCCTACTGCTTAG
*
96045433 GGGGTTAAAGCTCACCGTCTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
* * * *
96045456 ATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTACCTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT-CAGCCTGTTTCCCTACTGCTTAG
96045521 GGGGTTAAGGCTCACCGTCTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
* * * *
96045544 ATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTCCAACCTATTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT-CAGCCTGTTTCCCTACTGCTTAG
*
96045609 GGGGTTAAGGCTCACCATCTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
96045632 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT-CAGCCTGTTTCCCTACTGCTTAG
*
96045697 TGGGTTAAGGCTCACCGTCTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
* * * * *
96045720 ATCTGCTCTACTACTTCTCAGGGAGATAAGATCTATAATCTTCAGTCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAGCCTGTTTCCCTACTGCTTAG
* *
96045785 GGGGATAAGGCTCACCGTCTTTG
65 GGGGTTAAGGCTCACCGTCTTCG
* * *
96045808 ATTTGCTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTCTAGCATGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AGCCTGTTTCCCTACTGCTTAG
* * * *
96045873 GAGGTTAAAGCCCACTGTCTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
* * *
96045896 ATTTGCTCCACTACTGCTTAGGGAGATAAGAAT-TGTAGTTTCCAGCCTGTTTCTCTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAG-ATCTGTAATTT-CAGCCTGTTTCCCTACTGCTTA
* * *
96045960 AGGGGTTAAGGCTCAACGTCTTTG
64 GGGGGTTAAGGCTCACCGTCTTCG
* * **
96045984 ATCCGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCAATCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT-CAGCCTGTTTCCCTACTGCTTAG
*
96046049 GGGGTTAAGGCTCACCGTCTTTG
65 GGGGTTAAGGCTCACCGTCTTCG
* * *
96046072 ATTTGCTCCACTACTGTTTAGGGAGATAAGATCTGGAATTTCCAGCCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT-CAGCCTGTTTCCCTACTGCTTAG
* *
96046137 GGGGTTAAAGCTCACCGTCTTCA
65 GGGGTTAAGGCTCACCGTCTTCG
* * * * *
96046160 ATCTGCTCTACTACTGCTTAGGGAGATAAAATCTGTAATTTTTAGCTTGTTTCCCTACTACTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTCAGCCTGTTTCCCTACTGCTTAG
** *
96046225 GATGTTAAAGCTCACCGTCTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
* * * * * * *
96046248 ATCCGCTCCACTACTGCTTGGGGATATAAGACCTGCAATTTCCAGCCTATTTCCCTACTGGTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT-CAGCCTGTTTCCCTACTGCTTAG
*
96046313 GGGGTTAAGGCTCACCATCTTCG
65 GGGGTTAAGGCTCACCGTCTTCG
* * * * *
96046336 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTTAGCCTGTTTTCCTACTGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTCAGCCTGTTTCCCTACTGCTTAG
*
96046401 GGGGCTAAGGCT
65 GGGGTTAAGGCT
96046413 AGTGAATTCA
Statistics
Matches: 2074, Mismatches: 262, Indels: 53
0.87 0.11 0.02
Matches are distributed among these distances:
84 3 0.00
85 64 0.03
86 1 0.00
87 103 0.05
88 1874 0.90
89 29 0.01
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (87 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAGCCTGTTTCCCTACTGCTTAGG
GGGTTAAGGCTCACCGTCTTCG
Found at i:96046585 original size:64 final size:64
Alignment explanation
Indices: 96046484--96046608 Score: 187
Period size: 64 Copynumber: 2.0 Consensus size: 64
96046474 TGTATCTATA
*
96046484 CTTATGCCAAATAATTAGGATAATATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGATG
1 CTTATGCCAAAGAATTAGGATAATATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGATG
* * ** * *
96046548 CTTATGTCAAAGAGTTAGGATGCTATGATCGAAATGAATCCAATGCTCCTAACTATATGTG
1 CTTATGCCAAAGAATTAGGATAATATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
96046609 TTATGAATGA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.30
Consensus pattern (64 bp):
CTTATGCCAAAGAATTAGGATAATATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGATG
Found at i:96047188 original size:13 final size:13
Alignment explanation
Indices: 96047170--96047218 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
96047160 AGTGATGGAG
*
96047170 TTAGTGAGGTGGT
1 TTAGTGGGGTGGT
*
96047183 TTAGTGGGGTGTT
1 TTAGTGGGGTGGT
96047196 TTAGT--GGTCGGT
1 TTAGTGGGGT-GGT
96047208 TTAGTGGGGTG
1 TTAGTGGGGTG
96047219 TTGGAGTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 3 0.10
12 7 0.23
13 17 0.57
14 3 0.10
ACGTcount: A:0.10, C:0.02, G:0.47, T:0.41
Consensus pattern (13 bp):
TTAGTGGGGTGGT
Found at i:96052491 original size:50 final size:50
Alignment explanation
Indices: 96052437--96052536 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
96052427 TCTCCTTCGC
96052437 TTTCCTATTACCTTTTTCCATTCTTCCTTTCATTGACTAATCAGGTGGCT
1 TTTCCTATTACCTTTTTCCATTCTTCCTTTCATTGACTAATCAGGTGGCT
96052487 TTTCCTATTACCTTTTTCCATTCTTCCTTTCATTGACTAATCAGGTGGCT
1 TTTCCTATTACCTTTTTCCATTCTTCCTTTCATTGACTAATCAGGTGGCT
96052537 GTTCATACTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.16, C:0.26, G:0.10, T:0.48
Consensus pattern (50 bp):
TTTCCTATTACCTTTTTCCATTCTTCCTTTCATTGACTAATCAGGTGGCT
Found at i:96055988 original size:59 final size:59
Alignment explanation
Indices: 96055925--96056037 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 59
96055915 ATTTTAAAAA
* * * * *
96055925 TTTTTAGAGTTAGGACTAAATTGATAAATTTTGTAAATGTTGAAGGCCAAATTTATTATT
1 TTTTTAGA-ATAGAACTAAAATGAAAAATTTTGTAAATATTGAAGGCCAAATTTATTATT
* * *
96055985 TTTTTATAATAGAACTAAAATGAAAAATTTTGTAAATATTGAGGGCTAAATTT
1 TTTTTAGAATAGAACTAAAATGAAAAATTTTGTAAATATTGAAGGCCAAATTT
96056038 GTTGAATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
59 38 0.84
60 7 0.16
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (59 bp):
TTTTTAGAATAGAACTAAAATGAAAAATTTTGTAAATATTGAAGGCCAAATTTATTATT
Found at i:96059628 original size:51 final size:51
Alignment explanation
Indices: 96059530--96059628 Score: 180
Period size: 51 Copynumber: 1.9 Consensus size: 51
96059520 ATTAAGAGCA
*
96059530 CAATTTCCAGATTATGCAATAAAAACTATTCGTCTTAATAGTACTGGTAAG
1 CAATTTCCAGATTATGCAATAAAAACTATTCGTCTTAATAATACTGGTAAG
*
96059581 CAATTTCCAGATTATGCAATAAAAACTATTCGTCTTAATAATGCTGGT
1 CAATTTCCAGATTATGCAATAAAAACTATTCGTCTTAATAATACTGGT
96059629 GAGTTTACAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34
Consensus pattern (51 bp):
CAATTTCCAGATTATGCAATAAAAACTATTCGTCTTAATAATACTGGTAAG
Found at i:96060722 original size:21 final size:22
Alignment explanation
Indices: 96060696--96060736 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
96060686 CACTAGACAC
96060696 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
96060717 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
96060737 ACCAAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.29, G:0.44, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:96062158 original size:47 final size:46
Alignment explanation
Indices: 96062015--96062180 Score: 137
Period size: 47 Copynumber: 3.6 Consensus size: 46
96062005 GTGCCAATTC
* * * *
96062015 CATGTCCCAGACATGGTCTTATACTA--ACACATCATGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGTAGCCGATG
* * * *
96062060 CATGTCCCAAACATGTCTTACACTGGCTCTTGTC-TCAA--TA-CCAATTC
1 CATGTCCCAGACATGTCTTACACTAGCTC---TCAT-AATGTAGCCGA-TG
*
96062107 CATGTCCCAGACATGGTCTTACAGTAGCTCTCATAATGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGTAGCCGATG
*
96062154 CATGTCTCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
96062181 ACACAAACAT
Statistics
Matches: 94, Mismatches: 15, Indels: 23
0.71 0.11 0.17
Matches are distributed among these distances:
44 9 0.10
45 17 0.18
46 17 0.18
47 32 0.34
48 17 0.18
49 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTAGCCGATG
Found at i:96062158 original size:94 final size:96
Alignment explanation
Indices: 96061917--96062177 Score: 300
Period size: 94 Copynumber: 2.8 Consensus size: 96
96061907 AATGACGATG
* * *
96061917 CCATGTCCCAAACATGGTCTTACACTAGCTCTCA-CAT-TAAGTCGATGCCATGTCCCGAACATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATCATGT-AGCCGATG-CATGTCCCAAACAT-
** *
96061980 GTCTTACACTGACTTCCACGTATCCGTGCCAATT
63 GTCTTACACTGACTTCCACGTATCAATACCAATT
* * *
96062014 CCATGTCCCAGACATGGTCTTATACTA--ACACATCATGTAGCCGATGCATGTCCCAAACATGTC
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATCATGTAGCCGATGCATGTCCCAAACATGTC
* ** *
96062077 TTACACTGGC-T-CTTGTCTCAATACCAATT
66 TTACACTGACTTCCACGTATCAATACCAATT
* * * *
96062106 CCATGTCCCAGACATGGTCTTACAGTAGCTCTCATAATGTAGCCGATGCATGTCTCAGACATGTC
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATCATGTAGCCGATGCATGTCCCAAACATGTC
96062171 TTACACT
66 TTACACT
96062178 AGCACACAAA
Statistics
Matches: 140, Mismatches: 20, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
92 37 0.26
93 1 0.01
94 50 0.36
95 16 0.11
96 10 0.07
97 26 0.19
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.29
Consensus pattern (96 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCATCATGTAGCCGATGCATGTCCCAAACATGTC
TTACACTGACTTCCACGTATCAATACCAATT
Found at i:96065010 original size:18 final size:18
Alignment explanation
Indices: 96064987--96065022 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
96064977 TGCCTAGTTG
96064987 ATAATCAATTACCAACTC
1 ATAATCAATTACCAACTC
* *
96065005 ATAATCATTTATCAACTC
1 ATAATCAATTACCAACTC
96065023 TAGCCATCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAATCAATTACCAACTC
Found at i:96069782 original size:47 final size:44
Alignment explanation
Indices: 96069713--96069841 Score: 161
Period size: 47 Copynumber: 2.8 Consensus size: 44
96069703 ACACATCATG
96069713 TAGCCGATGCATGTCACAGACATGTCTTACACTAGCTCTCATCTCAA
1 TAGCCGATGCATGTCACAGACATGTCTTACACTAGCTCTCA--T-AA
* *
96069760 TA-CCGATGCCGTGTCCCAGACATGGTCTTACACTAGCTCTCATAA
1 TAGCCGATG-CATGTCACAGACAT-GTCTTACACTAGCTCTCATAA
*
96069805 TATGGCCGATGCATGTCTCAGACATGTCTTACACTAG
1 TA--GCCGATGCATGTCACAGACATGTCTTACACTAG
96069842 AACACAAACA
Statistics
Matches: 73, Mismatches: 4, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
45 4 0.05
46 19 0.26
47 26 0.36
48 24 0.33
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (44 bp):
TAGCCGATGCATGTCACAGACATGTCTTACACTAGCTCTCATAA
Found at i:96069833 original size:94 final size:92
Alignment explanation
Indices: 96069673--96069841 Score: 248
Period size: 94 Copynumber: 1.8 Consensus size: 92
96069663 CGTTAAGTCA
* * *
96069673 ATGCCATGTCCCAGACATGGTCTTATACTGACACATCATGTAGCCGATGCATGTCACAGACATGT
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATAATATAGCCGATGCATGTCACAGACATGT
96069738 CTTACACTAGCTCTCATCTCAATACCG
66 CTTACACTAGCTCTCATCTCAATACCG
* * * * *
96069765 ATGCCGTGTCCCAGACATGGTCTTACACTAGCTCTCATAATATGGCCGATGCATGTCTCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATAATATAGCCGATGCATGTCACAGACAT
96069830 GTCTTACACTAG
64 GTCTTACACTAG
96069842 AACACAAACA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 27 0.40
93 1 0.01
94 39 0.58
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (92 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACATAATATAGCCGATGCATGTCACAGACATGT
CTTACACTAGCTCTCATCTCAATACCG
Found at i:96076966 original size:23 final size:23
Alignment explanation
Indices: 96076940--96076990 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
96076930 TGATTTTTAA
* *
96076940 ATTTTGAATTATTTAATGATAAT
1 ATTTAGAATTATTTAATGACAAT
*
96076963 ATTTAGAATTATTTAGTGACAAT
1 ATTTAGAATTATTTAATGACAAT
96076986 ATTTA
1 ATTTA
96076991 AAAAATGTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (23 bp):
ATTTAGAATTATTTAATGACAAT
Found at i:96077445 original size:10 final size:10
Alignment explanation
Indices: 96077430--96077479 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
96077420 TAATTTTAAG
96077430 ATTTAT-TTT
1 ATTTATCTTT
96077439 CATTTATCTTT
1 -ATTTATCTTT
*
96077450 AATTATCTTT
1 ATTTATCTTT
96077460 ATTTAT-TTGT
1 ATTTATCTT-T
96077470 ATTTATCTTT
1 ATTTATCTTT
96077480 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:96078228 original size:40 final size:39
Alignment explanation
Indices: 96078184--96078274 Score: 96
Period size: 39 Copynumber: 2.3 Consensus size: 39
96078174 TTATTTCTAT
*
96078184 TATTTTTAATTTTCAAAATCTC-A-ATCAAAATTTTTAATTC
1 TATTTTT-ATTTT--AAATCTCTAGATCAAAACTTTTAATTC
** *
96078224 TATTTTTATTTTATTTTTCTAGATCAAAACTTTTAATTC
1 TATTTTTATTTTAAATCTCTAGATCAAAACTTTTAATTC
96078263 TATTTTTTATTT
1 TA-TTTTTATTT
96078275 CTTTTCCCGG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
37 4 0.09
38 1 0.02
39 23 0.52
40 16 0.36
ACGTcount: A:0.31, C:0.10, G:0.01, T:0.58
Consensus pattern (39 bp):
TATTTTTATTTTAAATCTCTAGATCAAAACTTTTAATTC
Found at i:96081098 original size:3 final size:3
Alignment explanation
Indices: 96081090--96081138 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
96081080 AGGAGAATTT
*
96081090 TTA TTA TTA TTCT TTA TT- TTA TTA TT- TTA TTA TTTA TTA TT- TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
96081134 TTA TT
1 TTA TT
96081139 TGGATATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 6 0.15
3 28 0.72
4 5 0.13
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:96081113 original size:15 final size:15
Alignment explanation
Indices: 96081093--96081139 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
96081083 AGAATTTTTA
96081093 TTATTATTCT-TTATT
1 TTATTATTCTATTA-T
*
96081108 TTATTATTTTATTAT
1 TTATTATTCTATTAT
*
96081123 TTATTATTTTATTAT
1 TTATTATTCTATTAT
96081138 TT
1 TT
96081140 GGATATTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 27 0.90
16 3 0.10
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTATTCTATTAT
Found at i:96081116 original size:8 final size:8
Alignment explanation
Indices: 96081093--96081139 Score: 71
Period size: 8 Copynumber: 6.1 Consensus size: 8
96081083 AGAATTTTTA
96081093 TTATTATT
1 TTATTATT
*
96081101 CT-TTATT
1 TTATTATT
96081108 TTATTATT
1 TTATTATT
96081116 TTATTA-T
1 TTATTATT
96081123 TTATTATT
1 TTATTATT
96081131 TTATTATT
1 TTATTATT
96081139 T
1 T
96081140 GGATATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 13 0.37
8 22 0.63
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTATT
Found at i:96081123 original size:23 final size:23
Alignment explanation
Indices: 96081093--96081139 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
96081083 AGAATTTTTA
96081093 TTATTATTCT-TTATTTTATTATT
1 TTATTATT-TATTATTTTATTATT
96081116 TTATTATTTATTATTTTATTATT
1 TTATTATTTATTATTTTATTATT
96081139 T
1 T
96081140 GGATATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (23 bp):
TTATTATTTATTATTTTATTATT
Found at i:96082415 original size:96 final size:97
Alignment explanation
Indices: 96082244--96082425 Score: 276
Period size: 96 Copynumber: 1.9 Consensus size: 97
96082234 TTTAAGAATG
* * * *
96082244 TGTTGGACTGAGTAACCGAGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCGAT
1 TGTTGGACTGAGTAACCGAGGTGAAGTGCTTGACTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
* *
96082309 ATGTTTTTAAG-AAAAATAAAAATTAGGAGTA
66 ATATTCTTAAGCAAAAATAAAAATTAGGAGTA
* *
96082340 TGTTGGGCTGAGTAACCGGGGTGAAGTGCTTGACTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
1 TGTTGGACTGAGTAACCGAGGTGAAGTGCTTGACTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
*
96082405 ATATTCTTAAGCAACAATAAA
66 ATATTCTTAAGCAAAAATAAA
96082426 TAAATAAATA
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
96 68 0.89
97 8 0.11
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (97 bp):
TGTTGGACTGAGTAACCGAGGTGAAGTGCTTGACTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
ATATTCTTAAGCAAAAATAAAAATTAGGAGTA
Found at i:96082466 original size:15 final size:15
Alignment explanation
Indices: 96082442--96082472 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
96082432 AATAAATTTA
*
96082442 AAAAATAAAAAAAAT
1 AAAAAGAAAAAAAAT
96082457 AAAAAGAAAAAAAAT
1 AAAAAGAAAAAAAAT
96082472 A
1 A
96082473 GATGTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (15 bp):
AAAAAGAAAAAAAAT
Found at i:96083107 original size:10 final size:10
Alignment explanation
Indices: 96083092--96083141 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
96083082 TAATTTTAAG
96083092 ATTTAT-TTT
1 ATTTATCTTT
96083101 CATTTATCTTT
1 -ATTTATCTTT
*
96083112 AATTATCTTT
1 ATTTATCTTT
96083122 ATTTAT-TTGT
1 ATTTATCTT-T
96083132 ATTTATCTTT
1 ATTTATCTTT
96083142 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:96083940 original size:40 final size:39
Alignment explanation
Indices: 96083865--96083942 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
96083855 AGAAATCCCA
*
96083865 ATCAAAACTTTTAATTCTGTTTTTATTTTATTTTTCCAT
1 ATCAAAACTTTTAATTCTGTTTTTATTTTACTTTTCCAT
* *
96083904 ATCAAAACTTTTAATTCTGTTTTTTTTATTGCTTTTCCA
1 ATCAAAACTTTTAATTCTGTTTTTATT-TTACTTTTCCA
96083943 GGTATGCAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 26 0.74
40 9 0.26
ACGTcount: A:0.24, C:0.14, G:0.04, T:0.58
Consensus pattern (39 bp):
ATCAAAACTTTTAATTCTGTTTTTATTTTACTTTTCCAT
Found at i:96084261 original size:38 final size:38
Alignment explanation
Indices: 96084194--96084271 Score: 111
Period size: 38 Copynumber: 2.1 Consensus size: 38
96084184 TACCAAGACC
* *
96084194 TTCCTCTTCCCACTTTCCACAATTCCATTTAATCCATT
1 TTCCACTTCCCACTTTCCACAATTCCATTTAAACCATT
* * *
96084232 TTCCACTTTCCACTTTCCACTATTTCATTTAAACCATT
1 TTCCACTTCCCACTTTCCACAATTCCATTTAAACCATT
96084270 TT
1 TT
96084272 ATGTTCAAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.45
Consensus pattern (38 bp):
TTCCACTTCCCACTTTCCACAATTCCATTTAAACCATT
Found at i:96087556 original size:25 final size:25
Alignment explanation
Indices: 96087522--96087587 Score: 132
Period size: 25 Copynumber: 2.6 Consensus size: 25
96087512 TAGGCCTATT
96087522 TTCACAGCTCGTGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
96087547 TTCACAGCTCGTGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
96087572 TTCACAGCTCGTGTGA
1 TTCACAGCTCGTGTGA
96087588 ACATACATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATTCTGA
Found at i:96121450 original size:29 final size:29
Alignment explanation
Indices: 96121418--96121479 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
96121408 AAATTAGAAA
*
96121418 AAAATTTATAAAAAATCGTAA-AAAATTGT
1 AAAATTT-TAAAAAATCGTAAGAAAATTAT
* *
96121447 AAAATTTTATAAATTCGTAAGAAAATTAT
1 AAAATTTTAAAAAATCGTAAGAAAATTAT
96121476 AAAA
1 AAAA
96121480 ATATAAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (29 bp):
AAAATTTTAAAAAATCGTAAGAAAATTAT
Found at i:96122004 original size:16 final size:16
Alignment explanation
Indices: 96121983--96122014 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
96121973 TTTATAATAT
96121983 TTTTTACTATTTTATA
1 TTTTTACTATTTTATA
96121999 TTTTTACTATTTTATA
1 TTTTTACTATTTTATA
96122015 AAAAATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTACTATTTTATA
Found at i:96122067 original size:9 final size:9
Alignment explanation
Indices: 96121961--96122060 Score: 51
Period size: 10 Copynumber: 10.8 Consensus size: 9
96121951 CTTCTACTTG
*
96121961 ATTTTATAA
1 ATTTTATAT
96121970 ATTTTTATAAT
1 A-TTTTAT-AT
*
96121981 ATTTTTTACT
1 ATTTTATA-T
96121991 ATTTTATAT
1 ATTTTATAT
*
96122000 -TTTTA-CT
1 ATTTTATAT
*
96122007 ATTTTATAAA
1 ATTTTAT-AT
**
96122017 AAATTATAT
1 ATTTTATAT
* *
96122026 TTTTTCTAT
1 ATTTTATAT
**
96122035 AGTACTATAT
1 A-TTTTATAT
96122045 ATTTTATAT
1 ATTTTATAT
96122054 ATTTTAT
1 ATTTTAT
96122061 GATTTTTCTA
Statistics
Matches: 65, Mismatches: 19, Indels: 14
0.66 0.19 0.14
Matches are distributed among these distances:
7 1 0.02
8 10 0.15
9 22 0.34
10 30 0.46
11 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (9 bp):
ATTTTATAT
Found at i:96122143 original size:19 final size:18
Alignment explanation
Indices: 96122080--96122152 Score: 67
Period size: 19 Copynumber: 3.9 Consensus size: 18
96122070 AAAAAAATTG
* *
96122080 ATTTTTTATAAATTCTTT
1 ATTTTTTATAATTTTTTT
*
96122098 ACTTTTTTATAATTTTTGTG
1 A-TTTTTTATAATTTTT-TT
*
96122118 A-TATTTATAATTTTTTCT
1 ATTTTTTATAATTTTTT-T
96122136 ATTTTTTAATAATTTTT
1 ATTTTTT-ATAATTTTT
96122153 AAATATTTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
17 1 0.02
18 15 0.34
19 17 0.39
20 11 0.25
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (18 bp):
ATTTTTTATAATTTTTTT
Found at i:96122917 original size:44 final size:43
Alignment explanation
Indices: 96122832--96122920 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 43
96122822 TATCAGTACA
*** ** *
96122832 ATCTTGCTCAAAGTGATAGTTCCTTTTATCGGTGATTAAATTT
1 ATCTTGCTCAAAGTGATAAAACCTTTTATCGACGATCAAATTT
96122875 ATCTTGCTCAAAGTGATAAAAACCTTTTATCGACGATCAAATTT
1 ATCTTGCTCAAAGTGAT-AAAACCTTTTATCGACGATCAAATTT
96122919 AT
1 AT
96122921 TCTCCATGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 17 0.44
44 22 0.56
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.39
Consensus pattern (43 bp):
ATCTTGCTCAAAGTGATAAAACCTTTTATCGACGATCAAATTT
Found at i:96126587 original size:20 final size:19
Alignment explanation
Indices: 96126549--96126590 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
96126539 TTATTTTTAC
96126549 TATAAATATTATGTATATA
1 TATAAATATTATGTATATA
96126568 TATAAATGATTTAT-TATATA
1 TATAAAT-A-TTATGTATATA
96126588 TAT
1 TAT
96126591 TATTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 10 0.48
21 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
TATAAATATTATGTATATA
Found at i:96126668 original size:20 final size:21
Alignment explanation
Indices: 96126643--96126686 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
96126633 TTTTATTTAT
96126643 ATTTTA-TA-ATATATTATATC
1 ATTTTACTATATATATTAT-TC
96126663 ATTTTACTATATATATTATTC
1 ATTTTACTATATATATTATTC
96126684 ATT
1 ATT
96126687 ATATTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 7 0.32
22 9 0.41
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTACTATATATATTATTC
Found at i:96126700 original size:9 final size:10
Alignment explanation
Indices: 96126614--96126709 Score: 56
Period size: 10 Copynumber: 9.4 Consensus size: 10
96126604 GCGCTGTTTA
96126614 TTATTAT-TAT
1 TTATTATAT-T
*
96126624 TTATCTATGTT
1 TTAT-TATATT
96126635 TTATTTATATT
1 TTA-TTATATT
* *
96126646 TTATAATATA
1 TTATTATATT
96126656 TTA-TATCATT
1 TTATTAT-ATT
*
96126666 TTACTATATATA
1 TTA-T-TATATT
*
96126678 TTATT-CATT
1 TTATTATATT
*
96126687 ATATTAT-TT
1 TTATTATATT
96126696 TTATTATATT
1 TTATTATATT
96126706 TTAT
1 TTAT
96126710 ATTACTTCAA
Statistics
Matches: 66, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
9 16 0.24
10 24 0.36
11 16 0.24
12 7 0.11
13 3 0.05
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (10 bp):
TTATTATATT
Found at i:96126701 original size:14 final size:14
Alignment explanation
Indices: 96126654--96126705 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
96126644 TTTTATAATA
*
96126654 TATTATATCA-TTT
1 TATTATATTATTTT
*
96126667 TACTATATATATTATT
1 TATTATAT-TATT-TT
*
96126683 CATTATATTATTTT
1 TATTATATTATTTT
96126697 TATTATATT
1 TATTATATT
96126706 TTATATTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.23
14 11 0.35
15 5 0.16
16 8 0.26
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTATATTATTTT
Found at i:96126727 original size:33 final size:35
Alignment explanation
Indices: 96126674--96126743 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 35
96126664 TTTTACTATA
* *
96126674 TATATTATTCATTATATTATTTTTAT-TAT-ATTT
1 TATATTATTCAATATATTATTATTATGTATAATTT
96126707 TATATTACTTCAATAT-TTATTATTATGTATAATTT
1 TATATTA-TTCAATATATTATTATTATGTATAATTT
96126742 TA
1 TA
96126744 AAAATTTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 16 0.50
34 10 0.31
35 6 0.19
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (35 bp):
TATATTATTCAATATATTATTATTATGTATAATTT
Found at i:96138890 original size:44 final size:44
Alignment explanation
Indices: 96138838--96139862 Score: 1103
Period size: 44 Copynumber: 23.5 Consensus size: 44
96138828 AGCAGATCGA
* * * *
96138838 AGATTTGGCGTCTCTGTATTAGACGGGGAACAAATCGAAGA-AGC
1 AGATTTGGCGTCTCTGTATT-GACAGAGAGCAGATCGAAGATAGC
* * *
96138882 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCAAAGAAAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* * * *
96138926 ACATCTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAGA
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* ** * **
96138970 AGATTTGGCGTCTCTATATTAGATGGGGAGCAGATTAAAGA-AGC
1 AGATTTGGCGTCTCTGTATT-GACAGAGAGCAGATCGAAGATAGC
* * * *
96139014 AGATTTCGCATCTCTGTATTGGCAGAGAGCAGATCGGAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* * * *
96139058 AGATTTGGCGTCTTTGTATTGATAGAGAGCAGATTGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* * * *
96139102 AGATGTGTCGTCTCTGTATTGACAGAGAACAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* * *
96139146 AAATTTGGCTTTTCTGTATTGACAGAGAGCAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAG-C
* * * *
96139190 AGATTTGGCGTCTTTGTATTGACAAAGAGCAGATTGAAGATGAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAT-AGC
*
96139235 AGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAG-C
* * *
96139279 AGATTTGGCTTCTCTGTATGGTCAGAGAGCAGATCGAAGATAGTC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAG-C
* * * ** * *
96139324 -GATTCGACATCTCTGTATTGTTAAAGAGAAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* *
96139367 AGATTTGGTGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* *
96139411 AGATTT-G-G---C---ATTGGCAGAGAGTAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* *
96139447 AGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* * * *
96139491 AGATTTGGCATTTCTGTATTGACAGAGAGCAGATCAAAGATATC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* * * * *
96139535 AGATTTGACATCTCTGTATTGGCAAAGAGCAGATCGAAGTTAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* *
96139579 AGATTTGGCGTCTCTGTATTGACAGAGAGCTA-ATCAAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGC-AGATCGAAGATAGC
* * * *
96139623 AGATTTGTCGTCTTTGTATTGACAAAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
** * *
96139667 AGATTTATCGTCTCTGTATTGACAAAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* * *
96139711 AGATTTGGCGTCTCTGTATTGACAGAGGGTAGATTGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAG-C
** *
96139755 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATTAAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
*
96139799 AGATTTGGTGTCTCTGTATTGACAGAG-GACAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAG-CAGATCGAAGATAG-C
* * *
96139843 AGATTCGGCTTCTCCGTATT
1 AGATTTGGCGTCTCTGTATT
96139863 AGGCAAGGAG
Statistics
Matches: 826, Mismatches: 132, Indels: 46
0.82 0.13 0.05
Matches are distributed among these distances:
36 32 0.04
37 1 0.00
38 1 0.00
39 1 0.00
41 1 0.00
42 1 0.00
43 33 0.04
44 700 0.85
45 56 0.07
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
Found at i:96139431 original size:36 final size:36
Alignment explanation
Indices: 96139384--96139502 Score: 139
Period size: 36 Copynumber: 3.1 Consensus size: 36
96139374 GTGTCTCTGT
96139384 ATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGC
1 ATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGC
*
96139420 ATTGGCAGAGAGTAGATCGAAGATAGCAGATTTGGCGTCTC
1 ATTGGCAGAGAGCAGATCGAAGATAGCAGATTT-G-G---C
* *
96139461 TGTATTGTCAAAGAGCAGATCGAAGATAGCAGATTTGGC
1 ---ATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGC
96139500 ATT
1 ATT
96139503 TCTGTATTGA
Statistics
Matches: 71, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
36 35 0.49
37 1 0.01
38 1 0.01
39 1 0.01
41 1 0.01
42 1 0.01
43 1 0.01
44 30 0.42
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.24
Consensus pattern (36 bp):
ATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGC
Found at i:96140218 original size:27 final size:29
Alignment explanation
Indices: 96140169--96140227 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 29
96140159 ATAAATTAAT
*
96140169 AAAAGTTTTATAGTCCATTTACAAAACCC
1 AAAAGTTTTATAGCCCATTTACAAAACCC
* *
96140198 AAAA-TTTT-TAGCCCATTTACATAGCCC
1 AAAAGTTTTATAGCCCATTTACAAAACCC
96140225 AAA
1 AAA
96140228 GGACCCATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 19 0.70
28 4 0.15
29 4 0.15
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.31
Consensus pattern (29 bp):
AAAAGTTTTATAGCCCATTTACAAAACCC
Found at i:96141210 original size:25 final size:24
Alignment explanation
Indices: 96141148--96141211 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
96141138 TTATCTATGT
*
96141148 TTATTTATATTTTATAATATTATA
1 TTATTTATATTATATAATATTATA
* *
96141172 TCATTTACTA-TATATATTCATTATA
1 TTATTTA-TATTATATAAT-ATTATA
*
96141197 TTATTTTTATTATAT
1 TTATTTATATTATAT
96141212 TTTGTAGTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 14 0.44
25 18 0.56
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (24 bp):
TTATTTATATTATATAATATTATA
Found at i:96142032 original size:160 final size:158
Alignment explanation
Indices: 96141757--96142076 Score: 622
Period size: 160 Copynumber: 2.0 Consensus size: 158
96141747 GCATGAAATG
96141757 TTAATGTATATTGTGTAATTTATGTCGTATTTATCATTTTCTATATTTATTTGCATGAAATGTTA
1 TTAATGTATATTGTGTAATTTATGTCGTATTTATCATTTTCTATATTTATTTGCATGAAATGTTA
96141822 AGTATGTAGTTTAATTAGTTTAATATTGATCTTTTAATAGGTTAAACGCATCATCGCTTTTAAAG
66 AGTATGTAGTTTAATTAGTTTAATATTGATCTTTTAATAGGTTAAACGCATCATCGCTTTTAAAG
96141887 TTTTATATTTCATTTAATCCAAAGGAAT
131 TTTTATATTTCATTTAATCCAAAGGAAT
96141915 TTAATGTATATTGTGTAATTTATGTCGTATTTATCATTTTCTATATTATATTTGCATGAAATGTT
1 TTAATGTATATTGTGTAATTTATGTCGTATTTATCATTTTCTATATT-TATTTGCATGAAATGTT
96141980 AAAGTATGTAGTTTAATTAGTTTAATATTGATCTTTTAATAGGTTAAACGCATCATCGCTTTTAA
65 -AAGTATGTAGTTTAATTAGTTTAATATTGATCTTTTAATAGGTTAAACGCATCATCGCTTTTAA
96142045 AGTTTTATATTTCATTTAATCCAAAGGAAT
129 AGTTTTATATTTCATTTAATCCAAAGGAAT
96142075 TT
1 TT
96142077 TAAAAAACGA
Statistics
Matches: 160, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
158 47 0.29
159 17 0.11
160 96 0.60
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.48
Consensus pattern (158 bp):
TTAATGTATATTGTGTAATTTATGTCGTATTTATCATTTTCTATATTTATTTGCATGAAATGTTA
AGTATGTAGTTTAATTAGTTTAATATTGATCTTTTAATAGGTTAAACGCATCATCGCTTTTAAAG
TTTTATATTTCATTTAATCCAAAGGAAT
Found at i:96147237 original size:26 final size:25
Alignment explanation
Indices: 96147208--96147265 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
96147198 CAAAGCTATC
* *
96147208 TATTTAAATTTAAAATTATTTTTGAA
1 TATTTAAATTTAAAATCACTTTT-AA
96147234 TATTTAAATTTAAAATCACTTTTAA
1 TATTTAAATTTAAAATCACTTTTAA
96147259 T-TTTAAA
1 TATTTAAA
96147266 AGTTATATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 6 0.20
25 3 0.10
26 21 0.70
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (25 bp):
TATTTAAATTTAAAATCACTTTTAA
Found at i:96147763 original size:26 final size:25
Alignment explanation
Indices: 96147720--96147796 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 25
96147710 TATAAATCTT
* *
96147720 AAATATTTTTTAAGTAATTAATATA
1 AAATATTTTTAAAATAATTAATATA
* *
96147745 AATTATTTTTAAAATTAATGTTATA-A
1 AAATATTTTTAAAA-TAAT-TAATATA
96147771 AAATATTTTTAAAA-AATTGAATATA
1 AAATATTTTTAAAATAATT-AATATA
96147796 A
1 A
96147797 TCATAAATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
23 1 0.02
24 6 0.14
25 13 0.31
26 18 0.43
27 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (25 bp):
AAATATTTTTAAAATAATTAATATA
Found at i:96147814 original size:31 final size:31
Alignment explanation
Indices: 96147778--96147863 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
96147768 TAAAAATATT
* *
96147778 TTTAAAAAATTGAATATAATCATAAATGAG-A
1 TTTAAATAATTTAATATAATCATAAATG-GTA
*
96147809 TTTAAATAATTTAATATAATGATAAATGGTA
1 TTTAAATAATTTAATATAATCATAAATGGTA
96147840 TTTAAATAATTTAATATAATCATA
1 TTTAAATAATTTAATATAATCATA
96147864 TATAAAATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 1 0.02
31 49 0.98
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (31 bp):
TTTAAATAATTTAATATAATCATAAATGGTA
Found at i:96148940 original size:126 final size:126
Alignment explanation
Indices: 96148723--96149261 Score: 819
Period size: 126 Copynumber: 4.3 Consensus size: 126
96148713 AAAAGCTTCT
* *
96148723 ACGTGGACACTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
*
96148788 ATAGTGTCAAAAATGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * *
96148849 ACGTGGACGCTCTTTTGCTATAGTAGTATCTGAAAGAATAATTTTGAGAAGATGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * * *
96148914 ATAGTGTAAAAAACGCTTCAACCAGGATGCATTGTTAGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
96148975 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
96149040 ATAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * **
96149101 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAAAAGACATGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * * *
96149166 ATAGTGTCAAAAACGCTTCAAGCAGGATGAATTTTCAGTAAAAGTACTGAAAGAAGCTCCT
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
96149227 ACGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
96149262 TAACTTGGGC
Statistics
Matches: 375, Mismatches: 36, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
125 2 0.01
126 371 0.99
127 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:96152398 original size:116 final size:116
Alignment explanation
Indices: 96152222--96152836 Score: 1090
Period size: 116 Copynumber: 5.3 Consensus size: 116
96152212 TTTATATTTT
* *
96152222 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTT-TCATTTTATT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCT-ATTTTATT
* * *
96152286 AAAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
65 AAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
96152338 ATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCTATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCTATTTTATTA
*
96152403 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
96152454 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTT-TCATTTTATT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCT-ATTTTATT
96152518 AAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
65 AAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
96152570 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCTATTTTATTA
*
96152635 AAAATATAAAAGTAAATTAGAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
96152686 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCTATTTTATTA
*
96152751 AAAATATAAAAGTAAATTACAATTATTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
96152802 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
96152837 TGTACAAATA
Statistics
Matches: 484, Mismatches: 12, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
115 1 0.00
116 482 1.00
117 1 0.00
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCTATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:96153889 original size:7 final size:7
Alignment explanation
Indices: 96153879--96153905 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
96153869 GTTAAATAAA
96153879 AAATACT
1 AAATACT
96153886 AAATACT
1 AAATACT
96153893 AAATACT
1 AAATACT
96153900 AAATAC
1 AAATAC
96153906 GAATCCACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATACT
Found at i:96153890 original size:14 final size:14
Alignment explanation
Indices: 96153871--96153904 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
96153861 AAATATTAGT
96153871 TAAATAAAAAATAC
1 TAAATAAAAAATAC
**
96153885 TAAATACTAAATAC
1 TAAATAAAAAATAC
96153899 TAAATA
1 TAAATA
96153905 CGAATCCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAC
Found at i:96155027 original size:15 final size:15
Alignment explanation
Indices: 96155007--96155037 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
96154997 TTTTTATTTT
*
96155007 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
96155022 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
96155037 A
1 A
96155038 GCTTTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:96155077 original size:22 final size:22
Alignment explanation
Indices: 96155065--96155114 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 22
96155055 TAACGAGAGT
96155065 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
*
96155087 TTTGAGA-G-ATTTGAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
96155107 TTTGAGAG
1 TTTGAGAG
96155115 AATATTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 18 0.69
21 1 0.04
22 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:96155088 original size:11 final size:11
Alignment explanation
Indices: 96155065--96155116 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
96155055 TAACGAGAGT
*
96155065 TTTGAGAGGAA
1 TTTGAGAGAAA
*
96155076 TTTAAGAGAAA
1 TTTGAGAGAAA
96155087 TTTGAGAG--A
1 TTTGAGAGAAA
96155096 TTTGAGAGAAA
1 TTTGAGAGAAA
96155107 TTTGAGAGAA
1 TTTGAGAGAA
96155117 TATTGAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:96155128 original size:31 final size:31
Alignment explanation
Indices: 96155065--96155128 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
96155055 TAACGAGAGT
* *
96155065 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
*
96155096 TTTGAGAGAAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
96155127 TT
1 TT
96155129 GAAGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:96170222 original size:15 final size:15
Alignment explanation
Indices: 96170202--96170233 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
96170192 TATTTCAGTA
*
96170202 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
96170217 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
96170232 TT
1 TT
96170234 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:96171888 original size:37 final size:35
Alignment explanation
Indices: 96171835--96171906 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 35
96171825 ATTTAAAAAA
*
96171835 TTAATATTATTTTAATAGT-TTAATATTAAATTTAAT
1 TTAATATTATCTTAATAGTATT-ATATT-AATTTAAT
*
96171871 TTAATACTTATCTTAATAGTATTTTATTAATTTAAT
1 TTAATA-TTATCTTAATAGTATTATATTAATTTAAT
96171907 ATGAAAGTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 14 0.44
37 16 0.50
38 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (35 bp):
TTAATATTATCTTAATAGTATTATATTAATTTAAT
Found at i:96179230 original size:41 final size:41
Alignment explanation
Indices: 96179160--96179238 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
96179150 CTGGGGCAGC
*
96179160 AGAATATCCTCTTACATCCCTGGGCCTCTTGAACCTAAAGT
1 AGAAGATCCTCTTACATCCCTGGGCCTCTTGAACCTAAAGT
* *
96179201 AGAAGATCCTCTTACATCCTTGGGTCTCTTGAACCTAA
1 AGAAGATCCTCTTACATCCCTGGGCCTCTTGAACCTAA
96179239 CTTTAGAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (41 bp):
AGAAGATCCTCTTACATCCCTGGGCCTCTTGAACCTAAAGT
Found at i:96181241 original size:46 final size:44
Alignment explanation
Indices: 96181160--96181278 Score: 132
Period size: 46 Copynumber: 2.7 Consensus size: 44
96181150 CGAGAGCTAG
* * *
96181160 TGTAAGACGTGTCTGAGACATGCATTGGCCTCGAGATGTAAGACAC
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGT--GACAC
* * *
96181206 TGTAAGACATGTCTGGGACATGCATCGG-TTACGAGATGTGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTGACAC
* *
96181250 TGCAAGACATGTCTGGGATATGCATCGGC
1 TGTAAGACATGTCTGGGACATGCATCGGC
96181279 GCGTATATGC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
44 29 0.46
45 1 0.02
46 33 0.52
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (44 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTGACAC
Done.