Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 90 of 141
Found at i:25469069 original size:38 final size:39
Alignment explanation
Indices: 25469024--25469101 Score: 106
Period size: 38 Copynumber: 2.0 Consensus size: 39
25469014 TTAATTTACG
* *
25469024 TTTTTAAAATTTTAAAAATT-TTAAAAATA-TAAAATTTA
1 TTTTTAAAA-ATTAAAAATTATTAAAAATATTAAAAATTA
*
25469062 TTTTTAAAAATTAAAAATTATTAAAATTATTAAAAATTA
1 TTTTTAAAAATTAAAAATTATTAAAAATATTAAAAATTA
25469101 T
1 T
25469102 AAAATTATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
37 9 0.26
38 17 0.49
39 9 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (39 bp):
TTTTTAAAAATTAAAAATTATTAAAAATATTAAAAATTA
Found at i:25469070 original size:20 final size:20
Alignment explanation
Indices: 25469041--25469101 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
25469031 AATTTTAAAA
*
25469041 ATTTT-AAAAATATAAAATTT
1 ATTTTAAAAAAT-TAAAAATT
*
25469061 ATTTTTAAAAATTAAAAATT
1 ATTTTAAAAAATTAAAAATT
*
25469081 A--TTAAAATTATTAAAAATT
1 ATTTTAAAA-AATTAAAAATT
25469100 AT
1 AT
25469102 AAAATTATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 5 0.14
19 11 0.31
20 13 0.37
21 6 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTTAAAAAATTAAAAATT
Found at i:25469115 original size:10 final size:9
Alignment explanation
Indices: 25469029--25469114 Score: 63
Period size: 9 Copynumber: 9.4 Consensus size: 9
25469019 TTACGTTTTT
*
25469029 AAAATTTTA
1 AAAATTATA
*
25469038 AAAATTTTA
1 AAAATTATA
25469047 AAAA-TATA
1 AAAATTATA
*
25469055 AAATTTATTTTTA
1 AAA---A-TTATA
25469068 AAAA-T-TA
1 AAAATTATA
*
25469075 AAAATTATT
1 AAAATTATA
25469084 AAAATTATTA
1 AAAATTA-TA
25469094 AAAATTAT-
1 AAAATTATA
25469102 AAAATTATA
1 AAAATTATA
25469111 AAAA
1 AAAA
25469115 AAAATATTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
7 6 0.09
8 16 0.25
9 26 0.41
10 9 0.14
11 1 0.02
13 6 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAATTATA
Found at i:25469116 original size:19 final size:19
Alignment explanation
Indices: 25469027--25469115 Score: 71
Period size: 18 Copynumber: 4.8 Consensus size: 19
25469017 ATTTACGTTT
*
25469027 TTAAAATT-TTAAAAATT-
1 TTAAAATTATAAAAAATTA
* * *
25469044 TTAAAAATATAAAATTTATTT
1 TTAAAATTATAAAA--AATTA
*
25469065 TTAAAA--ATTAAAAATTA
1 TTAAAATTATAAAAAATTA
*
25469082 TTAAAATTATTAAAAATTA
1 TTAAAATTATAAAAAATTA
25469101 -TAAAATTATAAAAAA
1 TTAAAATTATAAAAAA
25469116 AAATATTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
17 16 0.27
18 18 0.31
19 16 0.27
20 3 0.05
21 6 0.10
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAAAATTATAAAAAATTA
Found at i:25469118 original size:47 final size:46
Alignment explanation
Indices: 25469029--25469119 Score: 105
Period size: 47 Copynumber: 2.0 Consensus size: 46
25469019 TTACGTTTTT
****
25469029 AAAATTTTAAAAATTTTAAAAATATAAAATTTATTTTTAAAAATTA
1 AAAATTTTAAAAATTTTAAAAATATAAAATTTATAAAAAAAAATTA
25469075 AAAATTATT-AAAATTATTAAAAATTATAAAA-TTATAAAAAAAAAT
1 AAAATT-TTAAAAATT-TTAAAAA-TATAAAATTTATAAAAAAAAAT
25469120 ATTTTTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
46 12 0.32
47 19 0.50
48 7 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (46 bp):
AAAATTTTAAAAATTTTAAAAATATAAAATTTATAAAAAAAAATTA
Found at i:25472330 original size:2 final size:2
Alignment explanation
Indices: 25472323--25472353 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
25472313 GTATGAATGA
25472323 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25472354 AAGGTTGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25472480 original size:28 final size:26
Alignment explanation
Indices: 25472448--25472512 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
25472438 AAAGAAGAAT
25472448 AATTATATTAAATAAAAATAATATAAA
1 AATTATATTAAATAAAAAT-ATATAAA
* *
25472475 ACATTATA-T-ATTAAAAATATATTAA
1 A-ATTATATTAAATAAAAATATATAAA
25472500 AATTA-ATTAAATA
1 AATTATATTAAATA
25472513 TAATATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
23 1 0.03
24 5 0.16
25 10 0.31
26 8 0.25
27 2 0.06
28 6 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
AATTATATTAAATAAAAATATATAAA
Found at i:25473322 original size:4 final size:4
Alignment explanation
Indices: 25473313--25473337 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
25473303 AAGCTTTGGC
25473313 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
25473338 AAAAATGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:25488046 original size:26 final size:25
Alignment explanation
Indices: 25488008--25488066 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
25487998 ATTAAATTAT
*
25488008 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
25488034 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
25488060 ATATTAT
1 ATATTAT
25488067 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:25488065 original size:15 final size:15
Alignment explanation
Indices: 25488021--25488076 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
25488011 TTTTTGTTAA
*
25488021 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
25488036 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
25488047 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
25488062 ATTATATATTATAAT
1 ATTATATTTTATAAT
25488077 TTTAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:25488092 original size:24 final size:22
Alignment explanation
Indices: 25488047--25488115 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
25488037 ATTATTTTAA
25488047 ATTATATTTTATAATATTATAT
1 ATTATATTTTATAATATTATAT
* *
25488069 ATTATAATTT-TAATA-AAT-T
1 ATTATATTTTATAATATTATAT
25488088 CA-TATATTTTATCAA-ATTATAT
1 -ATTATATTTTAT-AATATTATAT
25488110 ATTATA
1 ATTATA
25488116 AAAAAATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
19 8 0.22
20 5 0.14
21 10 0.27
22 14 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATATTTTATAATATTATAT
Found at i:25488094 original size:41 final size:40
Alignment explanation
Indices: 25487929--25488116 Score: 126
Period size: 41 Copynumber: 4.7 Consensus size: 40
25487919 TATTTTAGAT
* * *
25487929 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTATTAAATT-A
* * *
25487970 TATA----AGAATATT-TAATACTAAGAATTTTATTAAATTA
1 TATATTTTATAATATTAT-ATA-TTATAATTTTATTAAATTA
* *
25488007 TATATTTTTGTTAA-ATTATAT-TTAATAATAATTATTTTAAA-T-
1 TATA-TTTT-ATAATATTATATATT-ATAAT--TT-TATTAAATTA
*
25488049 TATATTTTATAATATTATATATTATAATTTTAATAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTATTAAATT-A
25488090 TATATTTTATCAA-ATTATATATTATAA
1 TATATTTTAT-AATATTATATATTATAA
25488117 AAAAATATAT
Statistics
Matches: 114, Mismatches: 14, Indels: 38
0.69 0.08 0.23
Matches are distributed among these distances:
36 1 0.01
37 14 0.12
38 19 0.17
39 3 0.03
40 4 0.04
41 48 0.42
42 13 0.11
43 6 0.05
44 6 0.05
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (40 bp):
TATATTTTATAATATTATATATTATAATTTTATTAAATTA
Found at i:25488111 original size:17 final size:17
Alignment explanation
Indices: 25487993--25488133 Score: 61
Period size: 17 Copynumber: 8.6 Consensus size: 17
25487983 AATACTAAGA
*
25487993 ATTTTATTAAATTATAT
1 ATTTTAATAAATTATAT
**
25488010 ATTTTTGTTAAA-T-TAT
1 A-TTTTAATAAATTATAT
*
25488026 A-TTTAAT-AATAAT-T
1 ATTTTAATAAATTATAT
* *
25488040 ATTTTAAATTATATTTTAT
1 ATTTT-AA-TAAATTATAT
* *
25488059 AATATT-ATATATTATA-
1 -ATTTTAATAAATTATAT
25488075 ATTTTAATAAATTCATAT
1 ATTTTAATAAATT-ATAT
25488093 ATTTT-ATCAAATTATAT
1 ATTTTAAT-AAATTATAT
* *
25488110 ATTATAA-AAA-AATAT
1 ATTTTAATAAATTATAT
25488125 A-TTTAATAA
1 ATTTTAATAA
25488134 TAATTATGTT
Statistics
Matches: 95, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
13 2 0.02
14 10 0.11
15 15 0.16
16 15 0.16
17 24 0.25
18 24 0.25
19 1 0.01
20 4 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (17 bp):
ATTTTAATAAATTATAT
Found at i:25488382 original size:16 final size:16
Alignment explanation
Indices: 25488361--25488396 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
25488351 GATTTGCTAT
25488361 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
25488377 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
25488393 TACA
1 TACA
25488397 ACGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:25497060 original size:18 final size:19
Alignment explanation
Indices: 25497026--25497061 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25497016 AGCCAAATTT
*
25497026 TAAAAAATTATTTTTATAC
1 TAAAAAATTATTATTATAC
25497045 TAAAAAATTA-TATTATA
1 TAAAAAATTATTATTATA
25497062 AACATGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAAAATTATTATTATAC
Found at i:25497221 original size:25 final size:25
Alignment explanation
Indices: 25497180--25497243 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
25497170 TTAAAAAGTT
*
25497180 TATTATAAAAA-A-T-TAATTTACA
1 TATTATAAAAATATTATAATATACA
**
25497202 TATTATAAAAATATTATAATATATT
1 TATTATAAAAATATTATAATATACA
25497227 TATTTATAAAAAT-TTAT
1 TA-TTATAAAAATATTAT
25497244 GGGTTAAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 11 0.31
23 1 0.03
24 1 0.03
25 12 0.34
26 10 0.29
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
TATTATAAAAATATTATAATATACA
Found at i:25497366 original size:20 final size:20
Alignment explanation
Indices: 25497343--25497397 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
25497333 TTTATCATAA
*
25497343 TTTATTTATAAAAATAACT-T
1 TTTATTTATAAAAA-AAATAT
*
25497363 TTTAAATTATAAAAAAAATAT
1 TTT-ATTTATAAAAAAAATAT
*
25497384 ATTATTTATAAAAA
1 TTTATTTATAAAAA
25497398 GTGTTATGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTATTTATAAAAAAAATAT
Found at i:25504774 original size:91 final size:87
Alignment explanation
Indices: 25504568--25504839 Score: 268
Period size: 87 Copynumber: 3.0 Consensus size: 87
25504558 TTGAGGGTGT
25504568 AAAAAGCCTTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTA-TTTTTTTGTTGCATTCAATTG
1 AAAAAGCCTTCAAAC-TTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTT-TT-CATTCAATT-
** *
25504632 GGTACTTGAACTTTCAATATGCAT-A
62 GGTACTTGAACTACCAAAATGCATCA
*****
25504657 AAAAAGACCTTTTTCAAA-AAAAAAAAAAGAAGCAATTAAGCCCCTACTTTTTTTTTCATTCAAT
1 AAAAAG-CC---TTCAAACTTTTCAAAAA-AAGCAATTAAGCCCCTACTTTTTTTTTCATTCAAT
*
25504721 TAGGTGCTTGAACTACCAAAATGCATCA
61 T-GGTACTTGAACTACCAAAATGCATCA
* *
25504749 AAAAATGCCCTCAAACTTTTCAAAAAAAGCAATTAAGCCCC--CTTTTTTTTGCACTT-AATTGG
1 AAAAA-GCCTTCAAACTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTTCA-TTCAATTGG
* *
25504811 ATACTTGAATTGCCAAAATGCATCA
64 -TACTTGAACTACCAAAATGCATCA
25504836 AAAA
1 AAAA
25504840 GGCTATGGGT
Statistics
Matches: 152, Mismatches: 20, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
86 2 0.01
87 40 0.26
88 2 0.01
89 26 0.17
90 7 0.05
91 34 0.22
92 27 0.18
93 14 0.09
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (87 bp):
AAAAAGCCTTCAAACTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTTCATTCAATTGGTA
CTTGAACTACCAAAATGCATCA
Found at i:25505212 original size:19 final size:17
Alignment explanation
Indices: 25505190--25505237 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
25505180 GTATGATAAG
25505190 TTTTATAATTTTTTACGAA
1 TTTTATAATTTTTTAC--A
25505209 TTTTAT-ATTTCTTTACA
1 TTTTATAATTT-TTTACA
*
25505226 TTTTTTAATTTT
1 TTTTATAATTTT
25505238 CTTATGACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 7 0.27
18 8 0.31
19 11 0.42
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTATAATTTTTTACA
Found at i:25505257 original size:29 final size:28
Alignment explanation
Indices: 25505225--25505328 Score: 113
Period size: 29 Copynumber: 3.6 Consensus size: 28
25505215 ATTTCTTTAC
*
25505225 ATTTTTTAATTTTCTTATGACTTTATAAA
1 ATTTTATAATTTT-TTATGACTTTATAAA
*
25505254 ATTTTATAATTTTTTTAT-ACATTTCTATAA
1 ATTTTATAA-TTTTTTATGAC-TTTATA-AA
*
25505284 ATTTTAT-ATTTTTTATGATTTTTATAAA
1 ATTTTATAATTTTTTATGA-CTTTATAAA
*
25505312 ATTTTACAATTTTTTAT
1 ATTTTATAATTTTTTAT
25505329 AATTTTTGTA
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
28 18 0.28
29 33 0.52
30 13 0.20
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
ATTTTATAATTTTTTATGACTTTATAAA
Found at i:25505346 original size:29 final size:29
Alignment explanation
Indices: 25505246--25505335 Score: 112
Period size: 28 Copynumber: 3.1 Consensus size: 29
25505236 TTCTTATGAC
*
25505246 TTTATAAAATTTTATAATTTTTTTATACATT
1 TTTATAAAATTTTACAA-TTTTTTATA-ATT
* * *
25505277 TCTAT-AAATTTTA-TATTTTTTATGATT
1 TTTATAAAATTTTACAATTTTTTATAATT
25505304 TTTATAAAATTTTACAATTTTTTATAATT
1 TTTATAAAATTTTACAATTTTTTATAATT
25505333 TTT
1 TTT
25505336 GTACTATTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
27 7 0.14
28 16 0.31
29 16 0.31
30 8 0.16
31 4 0.08
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (29 bp):
TTTATAAAATTTTACAATTTTTTATAATT
Found at i:25505360 original size:67 final size:67
Alignment explanation
Indices: 25505255--25505392 Score: 167
Period size: 67 Copynumber: 2.0 Consensus size: 67
25505245 CTTTATAAAA
* * *
25505255 TTTTATAATTTTTTTATACATTTCTATAAATTTTATATTTTTTATG-ATTTTTA-TAAAATTTTA
1 TTTTATAATTTTTGTATA-ATTTCTATAAAATTTATA-TTTTT-TGCATTTTTATTAAAATTTAA
25505318 CAATT
63 CAATT
*
25505323 TTTTATAATTTTTGTACT-ATTT-TAATAAAATTTATATTTTTTGCATTTTTATTAAAATTTAAT
1 TTTTATAATTTTTGTA-TAATTTCT-ATAAAATTTATATTTTTTGCATTTTTATTAAAATTTAAC
25505386 AATT
64 AATT
25505390 TTT
1 TTT
25505393 ATTTATTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
65 2 0.03
66 13 0.21
67 31 0.50
68 15 0.24
69 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (67 bp):
TTTTATAATTTTTGTATAATTTCTATAAAATTTATATTTTTTGCATTTTTATTAAAATTTAACAA
TT
Found at i:25505364 original size:58 final size:58
Alignment explanation
Indices: 25505246--25505363 Score: 134
Period size: 58 Copynumber: 2.1 Consensus size: 58
25505236 TTCTTATGAC
* ***
25505246 TTTATAAAATTTTATAATTTTTTTATACATTTCTATAAATTTTATATTTTTTATGATT
1 TTTATAAAATTTTACAATTTTTTTATACATTTCTATAAATTTTATAAAATTTATGATT
* * *
25505304 TTTATAAAATTTTACAA-TTTTTTATA-ATTTTTGTACTATTTTAATAAAATTTAT-ATT
1 TTTATAAAATTTTACAATTTTTTTATACATTTCTATA-AATTTT-ATAAAATTTATGATT
25505361 TTT
1 TTT
25505364 TGCATTTTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
56 7 0.14
57 20 0.39
58 24 0.47
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (58 bp):
TTTATAAAATTTTACAATTTTTTTATACATTTCTATAAATTTTATAAAATTTATGATT
Found at i:25505372 original size:27 final size:29
Alignment explanation
Indices: 25505324--25505392 Score: 88
Period size: 27 Copynumber: 2.4 Consensus size: 29
25505314 TTTACAATTT
*
25505324 TTTATAATTTTTGTACTATTTTAATAAAA
1 TTTATAATTTTTGCACTATTTTAATAAAA
* *
25505353 TTTATATTTTTTGCA-T-TTTTATTAAAA
1 TTTATAATTTTTGCACTATTTTAATAAAA
25505380 TTTAATAATTTTT
1 TTT-ATAATTTTT
25505393 ATTTATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 13 0.37
28 9 0.26
29 13 0.37
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (29 bp):
TTTATAATTTTTGCACTATTTTAATAAAA
Found at i:25505429 original size:12 final size:12
Alignment explanation
Indices: 25505414--25505441 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
25505404 ATCATTTTTT
25505414 GTCACATGTCAC
1 GTCACATGTCAC
25505426 GTCACATGTCAC
1 GTCACATGTCAC
25505438 GTCA
1 GTCA
25505442 TGATTGTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (12 bp):
GTCACATGTCAC
Found at i:25505521 original size:20 final size:20
Alignment explanation
Indices: 25505492--25505542 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
25505482 GCAACTAACT
*
25505492 TTAATAGTCAACCGTTAAAG
1 TTAATGGTCAACCGTTAAAG
*
25505512 TTAATGGTCAACTGTTAAAG
1 TTAATGGTCAACCGTTAAAG
*
25505532 TTAACGGTCAA
1 TTAATGGTCAA
25505543 AGGGTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (20 bp):
TTAATGGTCAACCGTTAAAG
Found at i:25508540 original size:153 final size:153
Alignment explanation
Indices: 25508251--25508715 Score: 494
Period size: 153 Copynumber: 3.0 Consensus size: 153
25508241 TTAGGTGCTA
* * *
25508251 GCCTGTCAATGGCCGGCACCAGCAATACAAAATTTTTTTTTTTGGGTGT-TGACCTGTCAATGGC
1 GCCTATCAATGGTCGGCACCA-CAATACAAAA-TTTTTTTTTTGGGT-TCTGGCCTGTCAATGGC
* ** * *
25508315 CAGCACCAGTAGTACG---AAATTTTTTTTTTGGGTGCTGGCTTGTCAATGGTCGGCACCACCAG
63 CGGCACCAGTAGTACGAAAAAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAG
25508377 TACGAAA-TTTTTTTTTTGGGTGATG
128 TACGAAATTTTTTTTTTTGGGTGATG
* *
25508402 GCCTATTAATGGTCGGCATCACCAATACAAAATTTTTTTTTTGGGTTCTGGCCTGTCAATGGCCG
1 GCCTATCAATGGTCGGCACCA-CAATACAAAATTTTTTTTTTGGGTTCTGGCCTGTCAATGGCCG
* * * *
25508467 GTACCAGTA-TACGAAAAAAAAGTTTTTTTTGGGTGCTGGCCTGTTAATGGCCTGCACCAGCAGT
65 GCACCAGTAGTACGAAAAAAAA-TTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGT
* * *
25508531 ACGGAATTTTTTTTTTTGGGTGCTT
129 ACGAAATTTTTTTTTTTGGGTGATG
* * * ** *
25508556 GCTTGTCAATGGTCAGCACCAGTATACGAAAA-TTTTTTTTTGGGTTCTGGCCTGTGAATGGCCG
1 GCCTATCAATGGTCGGCACCACAATAC-AAAATTTTTTTTTTGGGTTCTGGCCTGTCAATGGCCG
* * * * * * *
25508620 ACACGAGCAGTACGAAAAAAAATAATTTTTTAGGGTGCTGGCCTGTCAATGGCCGGTAACTCCAG
65 GCACCAGTAGTACGAAAAAAAAT--TTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAG
* * * *
25508685 TACAAAAAATTTTTTTTTTGGGAGCTG
128 TAC-GAAATTTTTTTTTTTGGGTGATG
25508712 GCCT
1 GCCT
25508716 GTTAATGGCT
Statistics
Matches: 260, Mismatches: 43, Indels: 17
0.81 0.13 0.05
Matches are distributed among these distances:
149 5 0.02
150 37 0.14
151 27 0.10
152 3 0.01
153 83 0.32
154 48 0.18
155 36 0.14
156 21 0.08
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (153 bp):
GCCTATCAATGGTCGGCACCACAATACAAAATTTTTTTTTTGGGTTCTGGCCTGTCAATGGCCGG
CACCAGTAGTACGAAAAAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTAC
GAAATTTTTTTTTTTGGGTGATG
Found at i:25508713 original size:107 final size:106
Alignment explanation
Indices: 25508584--25508779 Score: 279
Period size: 107 Copynumber: 1.8 Consensus size: 106
25508574 CCAGTATACG
** * *
25508584 AAAATTTTTTTTTGGGTTCTGGCCTGTGAATGGCCGA-CACGAGCAGTACG-AAAAAAAATAATT
1 AAAATTTTTTTTTGGGAGCTGGCCTGTGAATGG-CGAGCACCACCAGTACGAAAAAAAAATAATT
25508647 TTTTAGGGTGCTGGCCTGTCAATGGCCGGTAACTCCAGTACAA
65 TTTTA-GGTGCTGGCCTGTCAATGGCCGGTAACTCCAGTACAA
* * *
25508690 AAAATTTTTTTTTTGGGAGCTGGCCTGTTAATGGCTAGCACCACCAGTACGAAAAAAAAATTATT
1 AAAA-TTTTTTTTTGGGAGCTGGCCTGTGAATGGCGAGCACCACCAGTACGAAAAAAAAATAATT
*
25508755 TTTTAGGTGCTGGCTTGTCAATGGC
65 TTTTAGGTGCTGGCCTGTCAATGGC
25508780 TGACACCACC
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
106 6 0.08
107 56 0.71
108 17 0.22
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (106 bp):
AAAATTTTTTTTTGGGAGCTGGCCTGTGAATGGCGAGCACCACCAGTACGAAAAAAAAATAATTT
TTTAGGTGCTGGCCTGTCAATGGCCGGTAACTCCAGTACAA
Found at i:25508887 original size:50 final size:50
Alignment explanation
Indices: 25508238--25508897 Score: 507
Period size: 50 Copynumber: 12.9 Consensus size: 50
25508228 ACAAAAAAAA
* * * * *
25508238 TTTTTAGGTGCTAGCCTGTCAATGGCCGGCACCAGCAATACAAAATTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA-TTTTT
* * * **
25508289 TTTTTGGGTGTTGACCTGTCAATGGCCAGCACCAGTAGTACGAAATTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAATTTTT
* *
25508339 TTTTTGGGTGCTGGCTTGTCAATGGTCGGCACCACCAGTACGAAATTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAATTTTT
* * * * * * *
25508389 TTTTTGGGTGATGGCCTATTAATGGTCGGCATCACCAATACAAAATTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAATTTTT
* * ** **
25508439 TTTTTGGGTTCTGGCCTGTCAATGGCCGGTACCAGTA-TACGAAAAAAAAGTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACG----AAATTTTT
* * * *
25508492 TTTTTGGGTGCTGGCCTGTTAATGGCCTGCACCAGCAGTACGGAATTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTAC-GAAATTTTT
* * * * ** *
25508543 TTTTTGGGTGCTTGCTTGTCAATGGTCAGCACCAGTA-TACGAAAATTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAATTTTT
* * * * * **
25508592 TTTTTGGGTTCTGGCCTGTGAATGGCCGACACGAGCAGTACGAAAAAAAATAATT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACG-----AAATTTTT
* * * * *
25508647 TTTTAGGGTGCTGGCCTGTCAATGGCCGGTAACTCCAGTACAAAAAATTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTAC--GAAATTTTT
* * ** * *
25508699 TTTTTGGGAGCTGGCCTGTTAATGGCTAGCACCACCAGTACGAAAAAAAAATTAT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACG-----AAATTTTT
* * * *
25508754 TTTTTAGGTGCTGGCTTGTCAATGGCTGACACCACCAGTACGAAA-TTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAATTTTT
* * * * * * * * *
25508803 TTTTTAGGTGTTGGCTTGTCAATGACTGGTACCACCGGTATGAAAGTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAATTTTT
* **
25508853 TTTTTGGGTGCTGGCTTGTCAATGGCCGGCACCACTTGTACGAAA
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
25508898 AAAAAATTTT
Statistics
Matches: 483, Mismatches: 106, Indels: 41
0.77 0.17 0.07
Matches are distributed among these distances:
49 80 0.17
50 170 0.35
51 73 0.15
52 39 0.08
53 38 0.08
54 3 0.01
55 80 0.17
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (50 bp):
TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAATTTTT
Found at i:25508923 original size:50 final size:52
Alignment explanation
Indices: 25508853--25508967 Score: 137
Period size: 50 Copynumber: 2.2 Consensus size: 52
25508843 TGAAAGTTTT
* * * *
25508853 TTTTTGGGTGCTGGCTTGTCAATGGCCGGCACCACTTGTA-CG-AAAAAAA-AA
1 TTTTT-GGTGTTGGCCTGTCAATGGCCGGCACCA-GTGTATAGAAAAAAAATAA
*
25508904 TTTTTGGTGTTGGCCTGTCAATGGCTGGCACCAGTGTATAGAAAAAAAATAA
1 TTTTTGGTGTTGGCCTGTCAATGGCCGGCACCAGTGTATAGAAAAAAAATAA
*
25508956 TTTTAGGTGTTG
1 TTTTTGGTGTTG
25508968 ACCTTCTAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
49 4 0.07
50 26 0.47
51 12 0.22
52 13 0.24
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (52 bp):
TTTTTGGTGTTGGCCTGTCAATGGCCGGCACCAGTGTATAGAAAAAAAATAA
Found at i:25509982 original size:31 final size:31
Alignment explanation
Indices: 25509918--25509985 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
25509908 TATTAAAAAT
* *
25509918 AGAAAATTTTAAAAATAAAAGAAATATTTAC
1 AGAAAATTTTAAAAATAAAAGAAAAATTAAC
25509949 AGAATAATTTT-AAAAT-AAAGTAAAAATTAAC
1 AGAA-AATTTTAAAAATAAAAG-AAAAATTAAC
25509980 AGAAAA
1 AGAAAA
25509986 AAATTCAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 6 0.18
31 21 0.64
32 6 0.18
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.26
Consensus pattern (31 bp):
AGAAAATTTTAAAAATAAAAGAAAAATTAAC
Found at i:25514303 original size:48 final size:48
Alignment explanation
Indices: 25514228--25514466 Score: 241
Period size: 48 Copynumber: 5.0 Consensus size: 48
25514218 TTGATAAATT
*
25514228 TGGTGTCAGCCATTGACAGGCCAGCA-CCAAAATTTTTTTTCGTACTGC
1 TGGTGCCAGCCATTGACAGGCCAGCACCCAAAATTTTTTTTCGTA-TGC
** * *
25514276 TGGTGCTGGCCATTGACAGGTCC-GCACCCAAATTTTTTTTTCGTATCC
1 TGGTGCCAGCCATTGACAGG-CCAGCACCCAAAATTTTTTTTCGTATGC
* * * **
25514324 TGGTGCCAACTATTGACAGGCCAACACCCAAAATTTTTTTTCGTATAT
1 TGGTGCCAGCCATTGACAGGCCAGCACCCAAAATTTTTTTTCGTATGC
*** * * * *
25514372 TGGTGATTGCCATTGATAGGCCGGCACCCAAAGTTTTTTTT-GTACTGG
1 TGGTGCCAGCCATTGACAGGCCAGCACCCAAAATTTTTTTTCGTA-TGC
* **
25514420 TGGTGCCAACCATTGACAGGCCAGCACCCAATTTTTTTTTTTCGTAT
1 TGGTGCCAGCCATTGACAGGCCAGCACCCAA-AATTTTTTTTCGTAT
25514467 TTCTTTTTTT
Statistics
Matches: 153, Mismatches: 32, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
47 5 0.03
48 117 0.76
49 28 0.18
50 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (48 bp):
TGGTGCCAGCCATTGACAGGCCAGCACCCAAAATTTTTTTTCGTATGC
Found at i:25514399 original size:96 final size:96
Alignment explanation
Indices: 25514228--25514466 Score: 295
Period size: 96 Copynumber: 2.5 Consensus size: 96
25514218 TTGATAAATT
* * * *
25514228 TGGTGTCAGCCATTGACAGGCCAGCA-CCAAAATTTTTTTTCGTACTGCTGGTGCTGGCCATTGA
1 TGGTGCCAACCATTGACAGGCCAGCACCCAAAATTTTTTTTCGTA-TACTGGTGATGGCCATTGA
*
25514292 CAGGTCCGCACCCAAATTTTTTTTTCGTA-TCC
65 CAGGTCCGCACCCAAAGTTTTTTTT-GTACTCC
* * * * *
25514324 TGGTGCCAACTATTGACAGGCCAACACCCAAAATTTTTTTTCGTATATTGGTGATTGCCATTGAT
1 TGGTGCCAACCATTGACAGGCCAGCACCCAAAATTTTTTTTCGTATACTGGTGATGGCCATTGAC
**
25514389 AGG-CCGGCACCCAAAGTTTTTTTTGTACTGG
66 AGGTCC-GCACCCAAAGTTTTTTTTGTACTCC
**
25514420 TGGTGCCAACCATTGACAGGCCAGCACCCAATTTTTTTTTTTCGTAT
1 TGGTGCCAACCATTGACAGGCCAGCACCCAA-AATTTTTTTTCGTAT
25514467 TTCTTTTTTT
Statistics
Matches: 123, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
95 5 0.04
96 87 0.71
97 31 0.25
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (96 bp):
TGGTGCCAACCATTGACAGGCCAGCACCCAAAATTTTTTTTCGTATACTGGTGATGGCCATTGAC
AGGTCCGCACCCAAAGTTTTTTTTGTACTCC
Found at i:25514487 original size:18 final size:18
Alignment explanation
Indices: 25514452--25514487 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25514442 AGCACCCAAT
*
25514452 TTTTTTTTTTCGTATTTC
1 TTTTTTTTTTCCTATTTC
*
25514470 TTTTTTTTTTCCTTTTTC
1 TTTTTTTTTTCCTATTTC
25514488 GTATACCATT
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:0.03, C:0.14, G:0.03, T:0.81
Consensus pattern (18 bp):
TTTTTTTTTTCCTATTTC
Found at i:25514573 original size:50 final size:50
Alignment explanation
Indices: 25514493--25514615 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 50
25514483 TTTTCGTATA
* * *** *
25514493 CCATTTACAGGCCAGTACCCAAATTGTTTATTTCATACTGGTGGTGCCGG
1 CCATTAACAGGCCAGCACCCAAAAAATTTATTTCATACTGGTGGTACCGG
* *
25514543 CCATTGACAGGCCAAG-ACCCAAAAAATTTATTTCATGCTGGTGGTACCGG
1 CCATTAACAGGCC-AGCACCCAAAAAATTTATTTCATACTGGTGGTACCGG
*
25514593 CCATTAACAAGCCAGCACCCAAA
1 CCATTAACAGGCCAGCACCCAAA
25514616 TTTTTTTTCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
49 2 0.03
50 59 0.94
51 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (50 bp):
CCATTAACAGGCCAGCACCCAAAAAATTTATTTCATACTGGTGGTACCGG
Found at i:25514685 original size:49 final size:50
Alignment explanation
Indices: 25514492--25514738 Score: 150
Period size: 49 Copynumber: 4.9 Consensus size: 50
25514482 TTTTTCGTAT
* * ** * *
25514492 ACCATTTACAGGCCAGTACCC-AAATTGTTTATTTCATACTGGTGGTG-CCG
1 ACCATTGACAGGCCAGCACCCAAAATT-TTT-TTTTGTACTGCTGGTGTCAG
* ** * * *
25514542 GCCATTGACAGGCCAAG-ACCCAAAAAATTTATTT-CA-TGCTGGTGGTACCG
1 ACCATTGACAGGCC-AGCACCCAAAATTTTTTTTTGTACTGCTGGT-GT-CAG
* * * * *
25514592 GCCATTAACAAGCCAGCACCC-AAATTTTTTTTCGTATTGCTGGTGTC-G
1 ACCATTGACAGGCCAGCACCCAAAATTTTTTTTTGTACTGCTGGTGTCAG
* *
25514640 ACCATTGACAGGCTAGCACCCAAAATTTTTTTTTGTACTACTGGTG-CAG
1 ACCATTGACAGGCCAGCACCCAAAATTTTTTTTTGTACTGCTGGTGTCAG
*** * *
25514689 GTTATTGACAGGCCAACACCTAAAAGTTTTTTTTTTGGTACTGCTGGTGT
1 ACCATTGACAGGCCAGCACCCAAAA--TTTTTTTTT-GTACTGCTGGTGT
25514739 AATTTTTTTT
Statistics
Matches: 154, Mismatches: 29, Indels: 25
0.74 0.14 0.12
Matches are distributed among these distances:
47 6 0.04
48 21 0.14
49 54 0.35
50 41 0.27
51 21 0.14
52 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (50 bp):
ACCATTGACAGGCCAGCACCCAAAATTTTTTTTTGTACTGCTGGTGTCAG
Found at i:25515538 original size:21 final size:21
Alignment explanation
Indices: 25515500--25515589 Score: 139
Period size: 21 Copynumber: 4.4 Consensus size: 21
25515490 AGGATATAAG
*
25515500 ATCTTAAATATG--ATATGCA
1 ATCTTAGATATGATATATGCA
25515519 ATCTTAGATATGATATATGCA
1 ATCTTAGATATGATATATGCA
*
25515540 ATCCTAGATATGATATATGCA
1 ATCTTAGATATGATATATGCA
*
25515561 ATCTTAGATATGATATATACA
1 ATCTTAGATATGATATATGCA
25515582 ATCTTAGA
1 ATCTTAGA
25515590 AGATATGATT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
19 11 0.17
21 54 0.83
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (21 bp):
ATCTTAGATATGATATATGCA
Found at i:25515743 original size:14 final size:14
Alignment explanation
Indices: 25515720--25515752 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25515710 TTCAATGTCG
25515720 AAAAAAAAGAA-AA
1 AAAAAAAAGAATAA
25515733 AAAAGAAAAGAATAA
1 AAAA-AAAAGAATAA
25515748 AAAAA
1 AAAAA
25515753 GGGAGAACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 8 0.44
15 6 0.33
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (14 bp):
AAAAAAAAGAATAA
Found at i:25515777 original size:53 final size:52
Alignment explanation
Indices: 25515720--25515824 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
25515710 TTCAATGTCG
25515720 AAAAAAAAGAAAAAAAAGAAAAGAATAAAAAAAGGGAGAACGATTGACAGTTTA
1 AAAAAAAAGAAAAAAAA-AAAAGAAT-AAAAAAGGGAGAACGATTGACAGTTTA
* *
25515774 AAAAAAAAGAAAAGAAAAAAAGAATAAAAAAGGGAGAACGATTGGCAGTTT
1 AAAAAAAAGAAAAAAAAAAAAGAATAAAAAAGGGAGAACGATTGACAGTTT
25515825 TTTAAAGGTG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 25 0.51
53 8 0.16
54 16 0.33
ACGTcount: A:0.65, C:0.04, G:0.20, T:0.11
Consensus pattern (52 bp):
AAAAAAAAGAAAAAAAAAAAAGAATAAAAAAGGGAGAACGATTGACAGTTTA
Found at i:25515804 original size:13 final size:13
Alignment explanation
Indices: 25515772--25515804 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
25515762 ATTGACAGTT
25515772 TAAAAAAAAAGAA
1 TAAAAAAAAAGAA
25515785 -AAGAAAAAAAGAA
1 TAA-AAAAAAAGAA
25515798 TAAAAAA
1 TAAAAAA
25515805 GGGAGAACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
12 2 0.11
13 14 0.78
14 2 0.11
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (13 bp):
TAAAAAAAAAGAA
Found at i:25516104 original size:3 final size:3
Alignment explanation
Indices: 25516096--25516132 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
25516086 ATTAATTTTG
25516096 TTA TTA TTA TTA -TA TTA TATA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
25516133 ACCTACATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:25517756 original size:108 final size:108
Alignment explanation
Indices: 25517567--25517996 Score: 578
Period size: 108 Copynumber: 3.9 Consensus size: 108
25517557 ATTAAAATTC
* * *
25517567 AAAAGGATATTTGGCAATTTGGAT-AAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCT
1 AAAAGGATATTTAGCTATTTGG-TCGAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCT
* *
25517631 CAAATTTCCAAACGCAAAACATTGCCTTACTTTGAAAAGTTTTT
65 CGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAAGTTTTT
* *
25517675 AAAAGGATATTTAGCTATTTGGTCGAACGAGGAATCGAAACCCAGTACCTTAGGGCACGTTCCTC
1 AAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTC
* *
25517740 GAATTTTCAAACGCAAAATATTGCCTTATTTTGAAAA-TTTTT
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAAGTTTTT
* * * *
25517782 GAAAAGGATATTAAG-TCATTTGGTGGAACGAGAAATCGAAACCCAGTACCTTAGGACACGTTCC
1 -AAAAGGATATTTAGCT-ATTTGGTCGAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCC
* *
25517846 TCGAATTTTCAAACGCAAAACATTACCTTATTTTTGAAAAGTTTTT
64 TCGAATTTCCAAACGCAAAACATTGCCTTA-TTTTGAAAAGTTTTT
* * *
25517892 AAAAGGATATTTAGCTATTTGGTCGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTT
1 AAAAGGATATTTAGCTATTTGGTCGAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTC
* * *
25517957 CTCGAATTTCCCAAACGCAAAATATTGCCTCAATTTGAAA
63 CTCGAATTT-CCAAACGCAAAACATTGCCTTATTTTGAAA
25517997 TATTTTCCTT
Statistics
Matches: 285, Mismatches: 27, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
107 7 0.02
108 176 0.62
109 36 0.13
110 6 0.02
111 24 0.08
112 18 0.06
113 18 0.06
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (108 bp):
AAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTC
GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAAGTTTTT
Found at i:25518264 original size:2 final size:2
Alignment explanation
Indices: 25518257--25518295 Score: 53
Period size: 2 Copynumber: 19.5 Consensus size: 2
25518247 TAAATAAAAG
*
25518257 AT AT AT AT AT AT AT AT AT AT AT AT AT GA- AT AT AG AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT A
25518296 AATTAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 31 0.94
3 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (2 bp):
AT
Found at i:25518357 original size:10 final size:11
Alignment explanation
Indices: 25518326--25518368 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
25518316 CGTGAATTAC
*
25518326 AAAATATTTAT
1 AAAATATATAT
25518337 AAAATATATAT
1 AAAATATATAT
*
25518348 AAAAATATATTTT
1 -AAAATATA-TAT
25518361 AAAATATA
1 AAAATATA
25518369 AAGGATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 10 0.36
12 16 0.57
13 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAAATATATAT
Found at i:25518624 original size:5 final size:5
Alignment explanation
Indices: 25518589--25518641 Score: 54
Period size: 5 Copynumber: 10.6 Consensus size: 5
25518579 TATGTGAATT
* * * *
25518589 ATAAA A-AAA ATAAA GTAAG ATAAAA ATAAC ATAAC ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA AT-AAA ATAAA ATAAA ATAAA ATAAA ATAAA
25518639 ATA
1 ATA
25518642 TATATAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
4 4 0.10
5 32 0.80
6 4 0.10
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:25518823 original size:3 final size:3
Alignment explanation
Indices: 25518815--25518908 Score: 61
Period size: 3 Copynumber: 31.3 Consensus size: 3
25518805 AAGCTATTAT
* *
25518815 ATA ATA ATA ATA AT- ATG ATA AGTA ATA ATG AT- ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA AT-A ATA ATA ATA
* * * * *
25518860 ATA ATA ATA AAA GATG ATA AT- ATA TTA AAA ATA ATGA AGA A-A ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
25518905 ATA A
1 ATA A
25518909 AAATGCTAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
2 8 0.11
3 56 0.78
4 8 0.11
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:25524626 original size:190 final size:190
Alignment explanation
Indices: 25524271--25524651 Score: 566
Period size: 190 Copynumber: 2.0 Consensus size: 190
25524261 AAACTAAGGT
25524271 CATAAGAAATCATTACGATATTTCTTTAGTGTATGAGATTAGTGGCAATTAGGCATAAGTTTTCA
1 CATAAGAAATCATTACGATATTTCTTTAGTGTATGAGATTAGTGGCAATTAGGCATAAGTTTTCA
* *
25524336 AGTTGTTCTTACATGTAATTGAATTAATTATGAATGCATAATAAAATTAAATAGGTTCTTGTAGC
66 AGTTGTTCTGACATGTAATTGAATTAATTATGAATGCATAATAAAATTAAACAGGTTCTTGTAGC
* * ** * * *
25524401 ATCCAGTACTCTGACTCAGGGATCGAGTTGGGTATGGGGTGTTACAATTCCGCTTAGTAA
131 ATCCAGTACTCAGACCCAACGATCGAGTCGGGTATGGGGCGTTACAATTCCACTTAGTAA
* * * *
25524461 CATAAGAAATCATTACGGTCTTTCTTTAGTGTATGAGATTAGTGGCAATTAGGCCTATGTTTTCA
1 CATAAGAAATCATTACGATATTTCTTTAGTGTATGAGATTAGTGGCAATTAGGCATAAGTTTTCA
* * *
25524526 AGTTGTTCTGACATGTAATTGAATTAATTATGAATGTATAGTAAAATTAAACGGGTTCTTGTAGC
66 AGTTGTTCTGACATGTAATTGAATTAATTATGAATGCATAATAAAATTAAACAGGTTCTTGTAGC
* * * *
25524591 ATTCGGTACGT-AGACCCAACGATTGGGTCGGGTATGGGGCGTTACAATTCCACTTAGTAA
131 ATCCAGTAC-TCAGACCCAACGATCGAGTCGGGTATGGGGCGTTACAATTCCACTTAGTAA
25524651 C
1 C
25524652 CACAATATAA
Statistics
Matches: 170, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
190 169 0.99
191 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (190 bp):
CATAAGAAATCATTACGATATTTCTTTAGTGTATGAGATTAGTGGCAATTAGGCATAAGTTTTCA
AGTTGTTCTGACATGTAATTGAATTAATTATGAATGCATAATAAAATTAAACAGGTTCTTGTAGC
ATCCAGTACTCAGACCCAACGATCGAGTCGGGTATGGGGCGTTACAATTCCACTTAGTAA
Found at i:25527146 original size:18 final size:19
Alignment explanation
Indices: 25527117--25527152 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
25527107 AATACAATAG
25527117 TTATTATTGGGTTAAATTA
1 TTATTATTGGGTTAAATTA
*
25527136 TTATT-TTGGGTTGAATT
1 TTATTATTGGGTTAAATT
25527153 TGAATACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (19 bp):
TTATTATTGGGTTAAATTA
Found at i:25528828 original size:31 final size:30
Alignment explanation
Indices: 25528793--25528857 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
25528783 AACATCCAAA
25528793 TGACTCAAACAAAAACTTTTAAATAGTTCAG
1 TGACTCAAA-AAAAACTTTTAAATAGTTCAG
* * *
25528824 TGACTTAAAAACAACTTTTGAATAGTTCAG
1 TGACTCAAAAAAAACTTTTAAATAGTTCAG
25528854 TGAC
1 TGAC
25528858 CTTTTTGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (30 bp):
TGACTCAAAAAAAACTTTTAAATAGTTCAG
Found at i:25532377 original size:16 final size:17
Alignment explanation
Indices: 25532349--25532383 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
25532339 TTACAATTTG
25532349 ATTTTATAATTAAAGTT
1 ATTTTATAATTAAAGTT
*
25532366 ATTTTA-AATTAAATTT
1 ATTTTATAATTAAAGTT
25532382 AT
1 AT
25532384 ATAACTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTTATAATTAAAGTT
Found at i:25533494 original size:29 final size:31
Alignment explanation
Indices: 25533417--25533496 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 31
25533407 TTAAATATAA
25533417 ATTGGTACTTGAACTTTTTCATTTCTCCTAG
1 ATTGGTACTTGAACTTTTTCATTTCTCCTAG
* * *
25533448 ATTGGTA-TTTAAGATTTTT--TTTGT-CTCAG
1 ATTGGTACTTGAA-CTTTTTCATTTCTCCT-AG
25533477 ATTGGTACTTGAACTTTTTC
1 ATTGGTACTTGAACTTTTTC
25533497 TCCGTCAACT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
28 2 0.05
29 18 0.45
30 8 0.20
31 12 0.30
ACGTcount: A:0.20, C:0.14, G:0.15, T:0.51
Consensus pattern (31 bp):
ATTGGTACTTGAACTTTTTCATTTCTCCTAG
Found at i:25534138 original size:18 final size:18
Alignment explanation
Indices: 25534115--25534157 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
25534105 CAAGGACACG
*
25534115 ATCAATAGCGTCACTAGC
1 ATCAATAGCGTCACAAGC
* *
25534133 ATCAATATCGTCACAATC
1 ATCAATAGCGTCACAAGC
25534151 ATCAATA
1 ATCAATA
25534158 CCGATATCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.26
Consensus pattern (18 bp):
ATCAATAGCGTCACAAGC
Found at i:25534530 original size:40 final size:40
Alignment explanation
Indices: 25534486--25534564 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
25534476 TGCGTGGACA
25534486 CAAAGCGCGCTGAC-GAGGACGCGTTTTGCTGCCACGTAGG
1 CAAAGCGCGCT-ACTGAGGACGCGTTTTGCTGCCACGTAGG
* * * *
25534526 CAAAGCGCGCTTCTGGGGATGCGTTTTGTTGCCACGTAG
1 CAAAGCGCGCTACTGAGGACGCGTTTTGCTGCCACGTAG
25534565 TGCGTCCCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.18, C:0.25, G:0.34, T:0.23
Consensus pattern (40 bp):
CAAAGCGCGCTACTGAGGACGCGTTTTGCTGCCACGTAGG
Found at i:25534724 original size:11 final size:11
Alignment explanation
Indices: 25534694--25534759 Score: 69
Period size: 11 Copynumber: 5.9 Consensus size: 11
25534684 AAACTAATCC
*
25534694 TCTCTCAATTTT
1 TCTCTCAA-ATT
* *
25534706 TTTCTCAAGTT
1 TCTCTCAAATT
25534717 TCTCTCAAATT
1 TCTCTCAAATT
*
25534728 GCTCTCAAATT
1 TCTCTCAAATT
* *
25534739 CCTTTCAAATT
1 TCTCTCAAATT
25534750 TCTCTCAAAT
1 TCTCTCAAAT
25534760 CCATATTTAA
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
11 38 0.84
12 7 0.16
ACGTcount: A:0.24, C:0.26, G:0.03, T:0.47
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:25536340 original size:229 final size:229
Alignment explanation
Indices: 25535939--25536396 Score: 916
Period size: 229 Copynumber: 2.0 Consensus size: 229
25535929 AATTTATATT
25535939 TTCATAATGAGCTAGTCGATTGATATTTAGTATTTAGTATTATGTATATAACTAATATTTCTATC
1 TTCATAATGAGCTAGTCGATTGATATTTAGTATTTAGTATTATGTATATAACTAATATTTCTATC
25536004 ATGTTCATATAGTTTCAATGGACACCATACGAGGATCCGGCAATTCGGGCAGTAATTCTGGATGA
66 ATGTTCATATAGTTTCAATGGACACCATACGAGGATCCGGCAATTCGGGCAGTAATTCTGGATGA
25536069 GTTCTTACAAAATCCAAACGCTTGGCACGCGAAAGTCGCGTTGAACAACTATGCGACCGTGGAGA
131 GTTCTTACAAAATCCAAACGCTTGGCACGCGAAAGTCGCGTTGAACAACTATGCGACCGTGGAGA
25536134 TGCACCAGTCAGACAGAGTGTTACGGTAATTTGG
196 TGCACCAGTCAGACAGAGTGTTACGGTAATTTGG
25536168 TTCATAATGAGCTAGTCGATTGATATTTAGTATTTAGTATTATGTATATAACTAATATTTCTATC
1 TTCATAATGAGCTAGTCGATTGATATTTAGTATTTAGTATTATGTATATAACTAATATTTCTATC
25536233 ATGTTCATATAGTTTCAATGGACACCATACGAGGATCCGGCAATTCGGGCAGTAATTCTGGATGA
66 ATGTTCATATAGTTTCAATGGACACCATACGAGGATCCGGCAATTCGGGCAGTAATTCTGGATGA
25536298 GTTCTTACAAAATCCAAACGCTTGGCACGCGAAAGTCGCGTTGAACAACTATGCGACCGTGGAGA
131 GTTCTTACAAAATCCAAACGCTTGGCACGCGAAAGTCGCGTTGAACAACTATGCGACCGTGGAGA
25536363 TGCACCAGTCAGACAGAGTGTTACGGTAATTTGG
196 TGCACCAGTCAGACAGAGTGTTACGGTAATTTGG
25536397 ATGTAGACAA
Statistics
Matches: 229, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 229 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (229 bp):
TTCATAATGAGCTAGTCGATTGATATTTAGTATTTAGTATTATGTATATAACTAATATTTCTATC
ATGTTCATATAGTTTCAATGGACACCATACGAGGATCCGGCAATTCGGGCAGTAATTCTGGATGA
GTTCTTACAAAATCCAAACGCTTGGCACGCGAAAGTCGCGTTGAACAACTATGCGACCGTGGAGA
TGCACCAGTCAGACAGAGTGTTACGGTAATTTGG
Found at i:25536865 original size:17 final size:19
Alignment explanation
Indices: 25536833--25536875 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
25536823 TGCCAGGTGC
*
25536833 GTATCCTAGCCCCTTA-AT
1 GTATCCTAGACCCTTATAT
25536851 GTATCCTA-ACCCTTATAT
1 GTATCCTAGACCCTTATAT
*
25536869 GTTTCCT
1 GTATCCT
25536876 TTTTCGAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.21, C:0.30, G:0.09, T:0.40
Consensus pattern (19 bp):
GTATCCTAGACCCTTATAT
Found at i:25537383 original size:12 final size:12
Alignment explanation
Indices: 25537366--25537393 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
25537356 AAAATTTATA
25537366 AATTTATAATTT
1 AATTTATAATTT
25537378 AATTTATAATTT
1 AATTTATAATTT
25537390 AATT
1 AATT
25537394 GACAAACCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATTTATAATTT
Found at i:25537539 original size:114 final size:116
Alignment explanation
Indices: 25537357--25537567 Score: 338
Period size: 114 Copynumber: 1.8 Consensus size: 116
25537347 AATTTATTAA
* *
25537357 AAATTTATAAATTTATAATTTAATTTATAATTTAATTGACAAACCCTAACAAAAACCCTAACCTT
1 AAATTTATAAATTTATAATTAAATTTATAATTTAATTGACAAACCCTAACAAAAACCCTAACCCT
*
25537422 AACCTTAAC-CCTTAACCTAAAAACCCTAAACTAATTTATTAAAAATTTAT
66 AACCCTAACACCTTAACCTAAAAACCCTAAACTAATTTATTAAAAATTTAT
*
25537472 AAATTTATAAA-TTATAATTAAATTT-TGATATTAATTGACAAACCCTAACAAAAACCCTAACCC
1 AAATTTATAAATTTATAATTAAATTTATAAT-TTAATTGACAAACCCTAACAAAAACCCTAACCC
* *
25537535 TAACCCTAACACTTTAACTTAAAAACCCTAAAC
65 TAACCCTAACACCTTAACCTAAAAACCCTAAAC
25537568 CCTTAACTTA
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
113 3 0.03
114 54 0.61
115 31 0.35
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.32
Consensus pattern (116 bp):
AAATTTATAAATTTATAATTAAATTTATAATTTAATTGACAAACCCTAACAAAAACCCTAACCCT
AACCCTAACACCTTAACCTAAAAACCCTAAACTAATTTATTAAAAATTTAT
Found at i:25537564 original size:22 final size:22
Alignment explanation
Indices: 25537536--25537608 Score: 105
Period size: 22 Copynumber: 3.4 Consensus size: 22
25537526 CCCTAACCCT
*
25537536 AACCCTAACACTTTAACTTAAA
1 AACCCTAACACCTTAACTTAAA
25537558 AACCCTAA-ACCCTTAACTTAAA
1 AACCCTAACA-CCTTAACTTAAA
*
25537580 AACCTTAAC-CCTTAACTTAAA
1 AACCCTAACACCTTAACTTAAA
25537601 AACCCTAA
1 AACCCTAA
25537609 AATAATTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
21 20 0.43
22 26 0.57
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (22 bp):
AACCCTAACACCTTAACTTAAA
Found at i:25537589 original size:21 final size:21
Alignment explanation
Indices: 25537548--25537609 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
25537538 CCCTAACACT
25537548 TTAACTTAAAAACCCTAAACCC
1 TTAACTTAAAAA-CCTAAACCC
*
25537570 TTAACTTAAAAACCTTAACCC
1 TTAACTTAAAAACCTAAACCC
25537591 TTAACTTAAAAACCCTAAA
1 TTAACTTAAAAA-CCTAAA
25537610 ATAATTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 20 0.54
22 17 0.46
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.26
Consensus pattern (21 bp):
TTAACTTAAAAACCTAAACCC
Found at i:25538898 original size:125 final size:125
Alignment explanation
Indices: 25538582--25539006 Score: 704
Period size: 125 Copynumber: 3.5 Consensus size: 125
25538572 CATGCTACTG
* * * *
25538582 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTGATAAAGCATCCTGCTTGAAG
1 TAGCAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTACTTGAAG
* ** *
25538647 CGTTTTTTATATTATTCGCTCAGAAACGTCAACTCGAAATTA-TTTTTTCAGGACCAGTTG
66 CG-TTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTTCAGGACCAACTA
*
25538707 TAGCAAAAGCGCGTCCACGT-GG-GCG----C-GAAATTCTTCTGATAAAGCATCCTACTTGAAG
1 TAGCAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTACTTGAAG
25538765 CGTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTTCAGGACCAACTA
66 CGTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTTCAGGACCAACTA
25538825 TAGCAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTACTTGAAG
1 TAGCAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTACTTGAAG
25538890 CGTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTTCAGGACCAACTA
66 CGTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTTCAGGACCAACTA
25538950 TAGCAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCT
1 TAGCAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCT
25539007 GCTTTGATTT
Statistics
Matches: 284, Mismatches: 8, Indels: 16
0.92 0.03 0.05
Matches are distributed among these distances:
117 38 0.13
118 66 0.23
119 3 0.01
120 3 0.01
123 3 0.01
124 3 0.01
125 168 0.59
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (125 bp):
TAGCAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTACTTGAAG
CGTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTTCAGGACCAACTA
Found at i:25540677 original size:11 final size:11
Alignment explanation
Indices: 25540661--25540695 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
25540651 ATCTTAAAAG
25540661 AAAATATCTAA
1 AAAATATCTAA
25540672 AAAATATCTAA
1 AAAATATCTAA
25540683 AAAATATCTAA
1 AAAATATCTAA
25540694 AA
1 AA
25540696 TTTTAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAATATCTAA
Found at i:25541308 original size:6 final size:6
Alignment explanation
Indices: 25541297--25541323 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
25541287 TTTTGAGTAA
25541297 AAAATG AAAATG AAAATG AAAATG AAA
1 AAAATG AAAATG AAAATG AAAATG AAA
25541324 TTTTATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:25544620 original size:12 final size:12
Alignment explanation
Indices: 25544595--25544671 Score: 70
Period size: 12 Copynumber: 6.2 Consensus size: 12
25544585 ATTAATATCC
*
25544595 AAATAAGTAAT-
1 AAATAAATAATA
*
25544606 AAATAATAAAATA
1 AAATAA-ATAATA
25544619 AAATAAAGTAAT-
1 AAATAAA-TAATA
25544631 AAATAAAGTAAATA
1 AAATAAA-T-AATA
25544645 AAATAAATAA-A
1 AAATAAATAATA
25544656 TAAATAAATAATA
1 -AAATAAATAATA
25544669 AAA
1 AAA
25544672 ATTGGGTTGC
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
11 7 0.12
12 28 0.50
13 14 0.25
14 7 0.12
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:25544637 original size:4 final size:4
Alignment explanation
Indices: 25544603--25544670 Score: 70
Period size: 4 Copynumber: 16.5 Consensus size: 4
25544593 CCAAATAAGT
25544603 AATA AAT- AATAA AATAA AATA AAGT- AATA AATA AAGTA AATAA AATA
1 AATA AATA AAT-A AAT-A AATA AA-TA AATA AATA AA-TA AAT-A AATA
25544650 AATA AATA AATA AAT- AATA AA
1 AATA AATA AATA AATA AATA AA
25544671 AATTGGGTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
3 7 0.12
4 33 0.58
5 17 0.30
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:25545709 original size:121 final size:121
Alignment explanation
Indices: 25545535--25545777 Score: 414
Period size: 121 Copynumber: 2.0 Consensus size: 121
25545525 ACACATAGCC
* * *
25545535 TTCTTAATTCCCAGATGGCCTATTTTGCATGGTATTGCAAATATGCCCTTATCCTTGCATTTTGT
1 TTCTTAATTCCCAGATGGCCTATTTTGCATGGTATTGCAAACATGCCCCTATCCTTGCATTTTGC
* * *
25545600 TGGCATTTTTCGCTGTAACACTGCGAATACATTCTCACCAACATTCACCCTTTCAT
66 CGGCATTTTCCGCTATAACACTGCGAATACATTCTCACCAACATTCACCCTTTCAT
*
25545656 TTCTTAATTGCCAGATGGCCTATTTTGCATGGTATTGCAAACATGCCCCTATCCTTGCATTTTGC
1 TTCTTAATTCCCAGATGGCCTATTTTGCATGGTATTGCAAACATGCCCCTATCCTTGCATTTTGC
*
25545721 CGGCATTTTCCGCTATAACACTGCGGATACATTCTCACCAACATTCACCCTTTCAT
66 CGGCATTTTCCGCTATAACACTGCGAATACATTCTCACCAACATTCACCCTTTCAT
25545777 T
1 T
25545778 ATCTATTAAT
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
121 114 1.00
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.37
Consensus pattern (121 bp):
TTCTTAATTCCCAGATGGCCTATTTTGCATGGTATTGCAAACATGCCCCTATCCTTGCATTTTGC
CGGCATTTTCCGCTATAACACTGCGAATACATTCTCACCAACATTCACCCTTTCAT
Found at i:25550152 original size:12 final size:12
Alignment explanation
Indices: 25550120--25550144 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25550110 TTATTTGACT
25550120 ATTATTATTATC
1 ATTATTATTATC
25550132 ATTATTATTATC
1 ATTATTATTATC
25550144 A
1 A
25550145 GTTTTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:25550165 original size:15 final size:15
Alignment explanation
Indices: 25550119--25550165 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
25550109 TTTATTTGAC
*
25550119 TATTATTATTATCAT
1 TATTATTATTATCTT
*
25550134 TATTATTATCAGT-TT
1 TATTATTATTA-TCTT
*
25550149 TATTTTTATTATCTT
1 TATTATTATTATCTT
25550164 TA
1 TA
25550166 GAATAATGCG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 1 0.04
15 24 0.92
16 1 0.04
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (15 bp):
TATTATTATTATCTT
Found at i:25554395 original size:6 final size:6
Alignment explanation
Indices: 25554384--25554484 Score: 152
Period size: 6 Copynumber: 17.0 Consensus size: 6
25554374 AAATAAGTCT
*
25554384 ATAAAA ATAAAA ATAAACA A-AAAC ATAAAA ATAAAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAA-A ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
* *
25554432 ATAAAA ATGAAA ATGAAA AT-AAA ATAAAA ATAAAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
25554479 ATAAAA
1 ATAAAA
25554485 CAAATAAGCT
Statistics
Matches: 89, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
5 6 0.07
6 81 0.91
7 2 0.02
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:25556024 original size:26 final size:23
Alignment explanation
Indices: 25555974--25556025 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 23
25555964 AATAATAAGA
*
25555974 AATGAAACATTAAAACAAATAAT
1 AATGAAACATTAAAAAAAATAAT
25555997 AATGAGAACATTAAGAAGAAAATAAT
1 AATGA-AACATTAA-AA-AAAATAAT
25556023 AAT
1 AAT
25556026 AAGTATATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 5 0.20
24 8 0.32
25 2 0.08
26 10 0.40
ACGTcount: A:0.63, C:0.06, G:0.10, T:0.21
Consensus pattern (23 bp):
AATGAAACATTAAAAAAAATAAT
Found at i:25556038 original size:26 final size:26
Alignment explanation
Indices: 25555990--25556039 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
25555980 ACATTAAAAC
* *
25555990 AAATAATAATGAGAACATTAAGAAGA
1 AAATAATAATAAGAACATGAAGAAGA
* *
25556016 AAATAATAATAAGTATATGAAGAA
1 AAATAATAATAAGAACATGAAGAA
25556040 AATAGGACAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.14, T:0.22
Consensus pattern (26 bp):
AAATAATAATAAGAACATGAAGAAGA
Found at i:25556152 original size:20 final size:18
Alignment explanation
Indices: 25556110--25556154 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
25556100 AACAGATACT
*
25556110 AGAAAAAGAAACAAAATA
1 AGAAAAAGAAAAAAAATA
*
25556128 AGAAAAATAAAAAGAAATAA
1 AGAAAAAGAAAAA-AAAT-A
25556148 AGAAAAA
1 AGAAAAA
25556155 ATATAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 11 0.48
19 4 0.17
20 8 0.35
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.07
Consensus pattern (18 bp):
AGAAAAAGAAAAAAAATA
Found at i:25565156 original size:51 final size:51
Alignment explanation
Indices: 25565092--25565201 Score: 211
Period size: 51 Copynumber: 2.1 Consensus size: 51
25565082 GAACCTTAGT
25565092 GAGGATGCCAATTCTTGTTGAGTTTGAGTTTCAAGTAATTATTGAGATAGGG
1 GAGG-TGCCAATTCTTGTTGAGTTTGAGTTTCAAGTAATTATTGAGATAGGG
25565144 GAGGTGCCAATTCTTGTTGAGTTTGAGTTTCAAGTAATTATTGAGATAGGG
1 GAGGTGCCAATTCTTGTTGAGTTTGAGTTTCAAGTAATTATTGAGATAGGG
25565195 GAGGTGC
1 GAGGTGC
25565202 ATATGTTTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 54 0.93
52 4 0.07
ACGTcount: A:0.25, C:0.08, G:0.31, T:0.35
Consensus pattern (51 bp):
GAGGTGCCAATTCTTGTTGAGTTTGAGTTTCAAGTAATTATTGAGATAGGG
Found at i:25565595 original size:29 final size:30
Alignment explanation
Indices: 25565563--25565624 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
25565553 TTAACTCTTA
*
25565563 AAGGTCAT-AAATTTTTTTT-ACCAACTTTT
1 AAGGACATAAAATTTTTTTTCA-CAACTTTT
*
25565592 AAGGACCTAAAATTTTTTTTCTACAACTTTT
1 AAGGACATAAAATTTTTTTTC-ACAACTTTT
25565623 AA
1 AA
25565625 AACCTTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 6 0.21
30 11 0.39
31 10 0.36
32 1 0.04
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (30 bp):
AAGGACATAAAATTTTTTTTCACAACTTTT
Found at i:25578005 original size:11 final size:11
Alignment explanation
Indices: 25577989--25578031 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
25577979 TAGAATATAC
25577989 CCCATACCTTG
1 CCCATACCTTG
*
25578000 CCCATACCTTT
1 CCCATACCTTG
*
25578011 CCCATACC-TA
1 CCCATACCTTG
25578021 CCCATACCTTG
1 CCCATACCTTG
25578032 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:25578026 original size:21 final size:22
Alignment explanation
Indices: 25577989--25578030 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
25577979 TAGAATATAC
*
25577989 CCCATACCTTGCCCATACCTTT
1 CCCATACCTTACCCATACCTTT
25578011 CCCATACC-TACCCATACCTT
1 CCCATACCTTACCCATACCTT
25578031 GGAAAGGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.21, C:0.48, G:0.02, T:0.29
Consensus pattern (22 bp):
CCCATACCTTACCCATACCTTT
Found at i:25579217 original size:14 final size:15
Alignment explanation
Indices: 25579184--25579217 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25579174 ATGAGAATAT
25579184 AAAAATAGAAAAACC
1 AAAAATAGAAAAACC
**
25579199 AAAAATAGAGGAACC
1 AAAAATAGAAAAACC
25579214 AAAA
1 AAAA
25579218 CTAAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.12, G:0.12, T:0.06
Consensus pattern (15 bp):
AAAAATAGAAAAACC
Found at i:25584601 original size:11 final size:11
Alignment explanation
Indices: 25584574--25584616 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
25584564 TGACCTTTCC
25584574 AAGGTATGGG-
1 AAGGTATGGGA
*
25584584 TAGGTATGGGA
1 AAGGTATGGGA
*
25584595 AAGGTATGGGC
1 AAGGTATGGGA
25584606 AAGGTATGGGA
1 AAGGTATGGGA
25584617 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:25584613 original size:22 final size:21
Alignment explanation
Indices: 25584574--25584616 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
25584564 TGACCTTTCC
*
25584574 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
25584595 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
25584617 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:25587364 original size:18 final size:18
Alignment explanation
Indices: 25587341--25587451 Score: 186
Period size: 18 Copynumber: 6.2 Consensus size: 18
25587331 NNNNNNNNNN
*
25587341 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
25587359 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
25587377 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
25587395 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
25587413 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
25587431 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
25587449 GTA
1 GTA
25587452 AACGGTCGTA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 86 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:25587388 original size:36 final size:36
Alignment explanation
Indices: 25587341--25587451 Score: 213
Period size: 36 Copynumber: 3.1 Consensus size: 36
25587331 NNNNNNNNNN
*
25587341 GTATACGTGAATAGTGCCGTATACGTGAATAGTACT
1 GTATACGTGAATAGTGCCGTATACGTGAATAGTACC
25587377 GTATACGTGAATAGTGCCGTATACGTGAATAGTACC
1 GTATACGTGAATAGTGCCGTATACGTGAATAGTACC
25587413 GTATACGTGAATAGTGCCGTATACGTGAATAGTACC
1 GTATACGTGAATAGTGCCGTATACGTGAATAGTACC
25587449 GTA
1 GTA
25587452 AACGGTCGTA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 74 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (36 bp):
GTATACGTGAATAGTGCCGTATACGTGAATAGTACC
Found at i:25588011 original size:11 final size:11
Alignment explanation
Indices: 25587984--25588026 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
25587974 TGACCTTTCC
25587984 AAGGTATGGG-
1 AAGGTATGGGA
*
25587994 TAGGTATGGGA
1 AAGGTATGGGA
*
25588005 AAGGTATGGGC
1 AAGGTATGGGA
25588016 AAGGTATGGGA
1 AAGGTATGGGA
25588027 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:25588023 original size:22 final size:21
Alignment explanation
Indices: 25587984--25588026 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
25587974 TGACCTTTCC
*
25587984 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
25588005 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
25588027 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:25590491 original size:24 final size:24
Alignment explanation
Indices: 25590464--25590521 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
25590454 TGAGATACTG
*
25590464 ACCTTTTCGTTGATATCCTTTTCA
1 ACCTTTTCATTGATATCCTTTTCA
*
25590488 ACCTTTTCATTTATATCCTTTTCA
1 ACCTTTTCATTGATATCCTTTTCA
25590512 ACCTTCTTCA
1 ACCTT-TTCA
25590522 ATGGATTGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.19, C:0.28, G:0.03, T:0.50
Consensus pattern (24 bp):
ACCTTTTCATTGATATCCTTTTCA
Found at i:25590721 original size:40 final size:39
Alignment explanation
Indices: 25590676--25590886 Score: 141
Period size: 36 Copynumber: 5.5 Consensus size: 39
25590666 AATGTTTTGC
* * *
25590676 GCCCAACGCTAGTCGGATAAACTGACGATATCAAATGTGT
1 GCCCAACACTAGTCAGATAAACCGACGATATCAAAT-TGT
* ***
25590716 GCCCAACATTAGTCAGATAAACCGAC-A-AT-GTTTTGCT
1 GCCCAACACTAGTCAGATAAACCGACGATATCAAATTG-T
* ** * *
25590753 -CCCAGCGTTAGTCAGATAAATCGATGATATCAAATGTGT
1 GCCCAACACTAGTCAGATAAACCGACGATATCAAAT-TGT
* * * * **
25590792 ACCCAACACTAGTCGGATAAACCGAC-A-AT-GAGTTAC
1 GCCCAACACTAGTCAGATAAACCGACGATATCAAATTGT
* * *
25590828 GCCCAGCGCTAGTTAGATAAACCGACGATATCAAA-TGT
1 GCCCAACACTAGTCAGATAAACCGACGATATCAAATTGT
*
25590866 GCCCAACACTAGTCGGATAAA
1 GCCCAACACTAGTCAGATAAA
25590887 TCAACAATGA
Statistics
Matches: 125, Mismatches: 37, Indels: 20
0.69 0.20 0.11
Matches are distributed among these distances:
36 45 0.36
37 6 0.05
38 26 0.21
39 5 0.04
40 43 0.34
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (39 bp):
GCCCAACACTAGTCAGATAAACCGACGATATCAAATTGT
Found at i:25590765 original size:76 final size:76
Alignment explanation
Indices: 25590656--25590923 Score: 344
Period size: 76 Copynumber: 3.6 Consensus size: 76
25590646 CACCAGTTGA
* * *
25590656 ATAAACCGACAATGTTTTGCGCCCAACGCTAGTCGGATAAACTGACGATATCAAATGTGTGCCCA
1 ATAAACCGACAATGATTTGCGCCCAGCGCTAGTCAGATAAACTGACGATATCAAATGTGTGCCCA
* *
25590721 ACATTAGTCAG
66 ACACTAGTCGG
* * * * *
25590732 ATAAACCGACAATGTTTTGCTCCCAGCGTTAGTCAGATAAA-TCGATGATATCAAATGTGTACCC
1 ATAAACCGACAATGATTTGCGCCCAGCGCTAGTCAGATAAACT-GACGATATCAAATGTGTGCCC
25590796 AACACTAGTCGG
65 AACACTAGTCGG
* * * *
25590808 ATAAACCGACAATGAGTTACGCCCAGCGCTAGTTAGATAAACCGACGATATCAAA--TGTGCCCA
1 ATAAACCGACAATGATTTGCGCCCAGCGCTAGTCAGATAAACTGACGATATCAAATGTGTGCCCA
25590871 ACACTAGTCGG
66 ACACTAGTCGG
* * * *
25590882 ATAAATCAACAATGATTTGCGCCTAGCGCTAGTCGGATAAAC
1 ATAAACCGACAATGATTTGCGCCCAGCGCTAGTCAGATAAAC
25590924 CGAAAAATAC
Statistics
Matches: 166, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
74 53 0.32
75 1 0.01
76 112 0.67
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (76 bp):
ATAAACCGACAATGATTTGCGCCCAGCGCTAGTCAGATAAACTGACGATATCAAATGTGTGCCCA
ACACTAGTCGG
Found at i:25597948 original size:41 final size:41
Alignment explanation
Indices: 25597888--25597986 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 41
25597878 CTATATGATT
* *
25597888 AGCACTAAGTGTGCG-AATTAAATGATGAGGTTGAATAACG
1 AGCACTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACG
* *
25597928 AGCACTAAGTGTGCGAAATTAAATAATTATGTTAAATAACG
1 AGCACTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACG
* *
25597969 GGCACTAAATGTGCGAAA
1 AGCACTAAGTGTGCGAAA
25597987 CCGAGATCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 15 0.29
41 37 0.71
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.25
Consensus pattern (41 bp):
AGCACTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACG
Found at i:25605637 original size:41 final size:41
Alignment explanation
Indices: 25605619--25605809 Score: 337
Period size: 41 Copynumber: 4.6 Consensus size: 41
25605609 GACTTTAAGT
25605619 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
25605660 CTAGCAGGCTAAGTGCTGGTGATCTAAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
25605701 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
25605742 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
25605783 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
25605810 TTAAATTAAG
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
41 138 0.97
42 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:25614153 original size:18 final size:17
Alignment explanation
Indices: 25614126--25614166 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
25614116 TATATCAAGC
* *
25614126 TTATGGTTATGCTTGATT
1 TTATGCTTATGCTT-ATA
25614144 TTATGCTTATGCTTATA
1 TTATGCTTATGCTTATA
25614161 TTATGC
1 TTATGC
25614167 AATTGATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.20, C:0.10, G:0.17, T:0.54
Consensus pattern (17 bp):
TTATGCTTATGCTTATA
Found at i:25615925 original size:16 final size:16
Alignment explanation
Indices: 25615904--25615936 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25615894 TAAAAAAGAA
25615904 TCACATGCATGAGTGG
1 TCACATGCATGAGTGG
25615920 TCACATGCATGAGTGG
1 TCACATGCATGAGTGG
25615936 T
1 T
25615937 GTTTTGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (16 bp):
TCACATGCATGAGTGG
Found at i:25631040 original size:4 final size:4
Alignment explanation
Indices: 25631031--25631066 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
25631021 GGCCGACTTC
*
25631031 AAAG AAAG AAAG AAAG AAAG AAAAG CAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG -AAAG AAAG AAAG AAA
25631067 ATTTACCTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:25631060 original size:13 final size:13
Alignment explanation
Indices: 25631031--25631067 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
25631021 GGCCGACTTC
25631031 AAAGAAAG-AAAG
1 AAAGAAAGAAAAG
25631043 AAAGAAAGAAAAG
1 AAAGAAAGAAAAG
*
25631056 CAAGAAAGAAAA
1 AAAGAAAGAAAA
25631068 TTTACCTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.76, C:0.03, G:0.22, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAG
Found at i:25634100 original size:3 final size:3
Alignment explanation
Indices: 25634092--25634144 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
25634082 AAACTAACCA
25634092 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
25634140 TAT TA
1 TAT TA
25634145 CATTTTGAAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:25636879 original size:100 final size:100
Alignment explanation
Indices: 25636706--25637804 Score: 1069
Period size: 100 Copynumber: 11.1 Consensus size: 100
25636696 GAAACCATAG
* * * * * * **
25636706 ATTGCAATTAAAAAGACTGAGGCCACAACAGCAAATCTTACTTACC--AGGTGGTGCAGCAGAAC
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTT-CCTTA-GCGGTGCAGTGGAAC
* * * *
25636769 AGATTGAAGCTACAACGGTGAATCTTGCTCCCCCGAT
64 AGATTGAAGCTACAACGGCGAATCTTGTTTCCCCGAC
* *
25636806 ATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTAC-ACCTTTAGCGGTGCAGTGGAACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-TTAGCGGTGCAGTGGAACA
* * **
25636870 GATTGAAGCTACAACGACAAATCTTGTTTCCCTAAC
65 GATTGAAGCTACAACGGCGAATCTTGTTTCCCCGAC
* * * *
25636906 ATTGCAA-TTAAAAGATTGGAGCTACAACAGCGAATCTTACTCCCTTAGCGGTGCAGTGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTAGCGGTGCAGTGGAACAG
* * * **
25636970 ATTGAAGCTACAATGACAAATCTTGTTTCCCTAAC
66 ATTGAAGCTACAACGGCGAATCTTGTTTCCCCGAC
* ** * * *
25637005 ATTGCAA-TTAAAATATTGAAGCCACAACGATGAATCTTAC-TCC-CAGGCAGTGCAGTGGAACC
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTA-GCGGTGCAGTGGAACA
* *
25637067 GATTGAAGCTACAACGACGAATCTTGTTTCCTCGAC
65 GATTGAAGCTACAACGGCGAATCTTGTTTCCCCGAC
* * * * ** *
25637103 ATTGCAATTTAAAAGATTGAAGCCGCAACGACGAATCTTACTTCCCTGGTAGTGCAGTGGAGCAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTAGCGGTGCAGTGGAACAG
* * *
25637168 ATTAAAGCTACAACGGTGAATCTTGCTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTTGTTTCCCCGAC
* * *
25637203 ATTGCAATTTAAAAGATTGAAGCCA-AACGACGAATCTTACTTCC-TAGGCGATGCAGTGGATCA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTA-GCGGTGCAGTGGAACA
* * **
25637266 GATTGAAGCTACAACAGTGAATCTTG-TTCCCCGGT
65 GATTGAAGCTACAACGGCGAATCTTGTTTCCCCGAC
* ** * * * * * * *
25637301 ATTGCAATTAAAAAGATT-AA-CACTACAACGGTAAATATCACTT-CTCTGGCAGTACAGTTGAG
1 ATTGCAATTTAAAAGATTGAAGC-C-ACAACGGCGAATCTTACTTCCT-TAGCGGTGCAGTGGAA
* * ** *
25637363 CAGATTAAAGCTACGACGGCGAATCTTGTTTCCTTGAT
63 CAGATTGAAGCTACAACGGCGAATCTTGTTTCCCCGAC
* * * * * * *
25637401 ATTACAATTTAAAAGATTGAAGCCACAACAGCGAATCTTACTTCCTTGGTGATGTAGTGGATCAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTAGCGGTGCAGTGGAACAG
*
25637466 ATTGAAGCTACAACGGTGAATCTTG-TTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTTGTTTCCCCGAC
** ** *
25637500 ATCACAATTTAAAAGATTGAAGCTGCAACGGCAAATCTTACTTCCTTAGC-GTGCAGTGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTAGCGGTGCAGTGGAACAG
25637564 ATTGAAGCTACAACGGCGAATCTTGTTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTTGTTTCCCCGAC
** * * * * *
25637599 ATCACAATTTAAAAGATTGAAGTCGCAACGGCGAATCTTACTTCCTTGGCGATGCAATAGG-ACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTAGCGGTGCAGT-GGAACA
*** * *
25637663 GATTGAAGCCGTAACGACGAATCTTGTTTCCCTGAC
65 GATTGAAGCTACAACGGCGAATCTTGTTTCCCCGAC
* * * * * * *
25637699 ATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGAGGTGCAATGGGATAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTAGCGGTGCAGTGGAACAG
** * * *
25637764 ATTGAAGCTGTAACAGTGAATCTTGCTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTTGTTTCCCCGAC
25637799 ATTGCA
1 ATTGCA
25637805 GTTAATTAGA
Statistics
Matches: 843, Mismatches: 134, Indels: 44
0.83 0.13 0.04
Matches are distributed among these distances:
96 1 0.00
97 4 0.00
98 118 0.14
99 353 0.42
100 358 0.42
101 8 0.01
102 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (100 bp):
ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTAGCGGTGCAGTGGAACAG
ATTGAAGCTACAACGGCGAATCTTGTTTCCCCGAC
Found at i:25636965 original size:99 final size:100
Alignment explanation
Indices: 25636706--25637804 Score: 1003
Period size: 99 Copynumber: 11.1 Consensus size: 100
25636696 GAAACCATAG
* * * * * * * **
25636706 ATTGCAATTAAAAAGACTGAGGCCACAACAGCAAATCTTACTTACC--AGGTGGTGCAGCAGAAC
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTAC-TCCCTTA-GCGGTGCAGTGGAAC
** * * *
25636769 AGATTGAAGCTACAACGGTGAATCTTGCTCCCCCGAT
64 AGATTGAAGCTACAACGACGAATCTTGTTTCCCCGAC
* * *
25636806 ATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACACCTTTAGCGGTGCAGTGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTCCCTTAGCGGTGCAGTGGAACAG
* **
25636871 ATTGAAGCTACAACGACAAATCTTGTTTCCCTAAC
66 ATTGAAGCTACAACGACGAATCTTGTTTCCCCGAC
* * *
25636906 ATTGCAA-TTAAAAGATTGGAGCTACAACAGCGAATCTTACTCCCTTAGCGGTGCAGTGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTCCCTTAGCGGTGCAGTGGAACAG
* * **
25636970 ATTGAAGCTACAATGACAAATCTTGTTTCCCTAAC
66 ATTGAAGCTACAACGACGAATCTTGTTTCCCCGAC
* ** * *
25637005 ATTGCAA-TTAAAATATTGAAGCCACAACGATGAATCTTACTCCC--AGGCAGTGCAGTGGAACC
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTCCCTTA-GCGGTGCAGTGGAACA
*
25637067 GATTGAAGCTACAACGACGAATCTTGTTTCCTCGAC
65 GATTGAAGCTACAACGACGAATCTTGTTTCCCCGAC
* * * ** *
25637103 ATTGCAATTTAAAAGATTGAAGCCGCAACGACGAATCTTACTTCCC-TGGTAGTGCAGTGGAGCA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTAC-TCCCTTAGCGGTGCAGTGGAACA
* ** *
25637167 GATTAAAGCTACAACGGTGAATCTTGCTTCCCCGAC
65 GATTGAAGCTACAACGACGAATCTTGTTTCCCCGAC
* * * *
25637203 ATTGCAATTTAAAAGATTGAAGCCA-AACGACGAATCTTACTTCC-TAGGCGATGCAGTGGATCA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTCCCTTA-GCGGTGCAGTGGAACA
* **
25637266 GATTGAAGCTACAAC-AGTGAATCTTG-TTCCCCGGT
65 GATTGAAGCTACAACGA-CGAATCTTGTTTCCCCGAC
* ** * * * * * * * *
25637301 ATTGCAATTAAAAAGATT-AA-CACTACAACGGTAAATATCACT-TCTCTGGCAGTACAGTTGAG
1 ATTGCAATTTAAAAGATTGAAGC-C-ACAACGGCGAATCTTACTCCCT-TAGCGGTGCAGTGGAA
* * * ** *
25637363 CAGATTAAAGCTACGACGGCGAATCTTGTTTCCTTGAT
63 CAGATTGAAGCTACAACGACGAATCTTGTTTCCCCGAC
* * * * * * * *
25637401 ATTACAATTTAAAAGATTGAAGCCACAACAGCGAATCTTACTTCCTTGGTGATGTAGTGGATCAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTCCCTTAGCGGTGCAGTGGAACAG
**
25637466 ATTGAAGCTACAACGGTGAATCTTG-TTCCCCGAC
66 ATTGAAGCTACAACGACGAATCTTGTTTCCCCGAC
** ** * *
25637500 ATCACAATTTAAAAGATTGAAGCTGCAACGGCAAATCTTACTTCCTTAGC-GTGCAGTGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTCCCTTAGCGGTGCAGTGGAACAG
*
25637564 ATTGAAGCTACAACGGCGAATCTTGTTTCCCCGAC
66 ATTGAAGCTACAACGACGAATCTTGTTTCCCCGAC
** * * * * * *
25637599 ATCACAATTTAAAAGATTGAAGTCGCAACGGCGAATCTTACTTCCTTGGCGATGCAATAGG-ACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTCCCTTAGCGGTGCAGT-GGAACA
*** *
25637663 GATTGAAGCCGTAACGACGAATCTTGTTTCCCTGAC
65 GATTGAAGCTACAACGACGAATCTTGTTTCCCCGAC
* * * * * *
25637699 ATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCC-TGGAGGTGCAATGGGATA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTAC-TCCCTTAGCGGTGCAGTGGAACA
** * *
25637763 GATTGAAGCTGTAAC-AGTGAATCTTGCTTCCCCGAC
65 GATTGAAGCTACAACGA-CGAATCTTGTTTCCCCGAC
25637799 ATTGCA
1 ATTGCA
25637805 GTTAATTAGA
Statistics
Matches: 840, Mismatches: 135, Indels: 48
0.82 0.13 0.05
Matches are distributed among these distances:
96 1 0.00
97 4 0.00
98 117 0.14
99 354 0.42
100 352 0.42
101 11 0.01
102 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (100 bp):
ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTCCCTTAGCGGTGCAGTGGAACAG
ATTGAAGCTACAACGACGAATCTTGTTTCCCCGAC
Found at i:25637744 original size:50 final size:50
Alignment explanation
Indices: 25636769--25637804 Score: 470
Period size: 50 Copynumber: 20.9 Consensus size: 50
25636759 GCAGCAGAAC
* * * * * *
25636769 AGATTGAAGCTACAACGGTGAATCTTGCTCCCCCGATATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
* * * * ** * * *
25636819 AGATTGAAGCCACAACGGCGAATCTTAC-ACCTTTAGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGA-CATTGCAATTGAAA
* * ** *
25636869 AGATTGAAGCTACAACGACAAATCTTGTTTCCCTAACATTGCAATT-AAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
* * * ** * * *
25636918 AGATTGGAGCTACAACAGCGAATCTTAC-TCCCTTAGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGA-CATTGCAATTGAAA
* * * ** *
25636968 AGATTGAAGCTACAATGACAAATCTTGTTTCCCTAACATTGCAATT-AAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
* * ** * * * * * *
25637017 ATATTGAAGCCACAACGATGAATCTTAC-TCCCAGGCAGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
* * * * *
25637066 CGATTGAAGCTACAACGACGAATCTT-GTTTCCTCGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCT-GACATTGCAATTGAAA
** * ** * * * **
25637116 AGATTGAAGCCGCAACGACGAATCTTACTTCCCTGGTAGTGCAGTGGAGC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
* * * * *
25637166 AGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
* * * * * **
25637216 AGATTGAAGCCA-AACGACGAATCTTACTT-CCTAGGCGA-TGCAGTGGATC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCT-GAC-ATTGCAATTGAAA
* * * * ** *
25637265 AGATTGAAGCTACAACAGTGAATCTT-GTTCCCCGGTATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
* ** * * * * * * * **
25637314 AGATT-AACACTACAACGGTAAATATCACTTCTCTGGCAGTACAGTTGAGC
1 AGATTGAA-GCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
* * ** * * * *
25637364 AGATTAAAGCTACGACGGCGAATCTTGTTTCCTTGATATTACAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
* * * ** * * * **
25637414 AGATTGAAGCCACAACAGCGAATCTTACTTCCTTGGTGA-TGTAGTGGATC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCT-GACATTGCAATTGAAA
* * * ** *
25637464 AGATTGAAGCTACAACGGTGAATCTT-GTTCCCCGACATCACAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
* * * * * * *
25637513 AGATTGAAGCTGCAACGGCAAATCTTACTT-CCTTAGC-GTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGA-CATTGCAATTGAAA
** * ** *
25637562 AGATTGAAGCTACAACGGCGAATCTTGTTTCCCCGACATCACAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
* * * * * *
25637612 AGATTGAAG-TCGCAACGGCGAATCTTACTTCCTTGGCGA-TGCAATAGGAC
1 AGATTGAAGCT-ACAACGGCGAATCTTACTTCCCTGAC-ATTGCAATTGAAA
*** * ** *
25637662 AGATTGAAGCCGTAACGACGAATCTTGTTTCCCTGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
** ** * * *
25637712 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGA-GGTGCAATGGGAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCT-GACATTGCAATTGAAA
** * * * *
25637762 AGATTGAAGCTGTAACAGTGAATCTTGCTTCCCCGACATTGCA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCA
25637805 GTTAATTAGA
Statistics
Matches: 696, Mismatches: 261, Indels: 58
0.69 0.26 0.06
Matches are distributed among these distances:
48 24 0.03
49 213 0.31
50 437 0.63
51 22 0.03
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
Found at i:25637976 original size:84 final size:84
Alignment explanation
Indices: 25637881--25638486 Score: 1203
Period size: 84 Copynumber: 7.2 Consensus size: 84
25637871 TCTTATCTCT
25637881 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAATAGAGCAGACGAA
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAATAGAGCAGACGAA
25637946 AGAAATCAATCCTAACTCC
66 AGAAATCAATCCTAACTCC
25637965 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAATAGAGCAGACGAA
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAATAGAGCAGACGAA
25638030 AGAAATCAATCCTAACTCC
66 AGAAATCAATCCTAACTCC
25638049 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAATAGAGCAGACGAA
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAATAGAGCAGACGAA
25638114 AGAAATCAATCCTAACTCC
66 AGAAATCAATCCTAACTCC
25638133 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAATAGAGCAGACGAA
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAATAGAGCAGACGAA
25638198 AGAAATCAATCCTAACTCC
66 AGAAATCAATCCTAACTCC
25638217 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAATAGAGCAGACGAA
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAATAGAGCAGACGAA
25638282 AGAAATCAATCCTAACTCC
66 AGAAATCAATCCTAACTCC
25638301 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAATAGAGCAGACGAA
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAATAGAGCAGACGAA
25638366 AGAAATCAATCCTAACTCC
66 AGAAATCAATCCTAACTCC
25638385 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAATAGAGCAGACGAA
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAATAGAGCAGACGAA
25638450 AGAAATCAATCCTAACTCC
66 AGAAATCAATCCTAACTCC
*
25638469 CTGAAGTTGCAGTGGAGC
1 CTGAAGTTGCAGTAGAGC
25638487 GGATTACAAC
Statistics
Matches: 521, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 521 1.00
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (84 bp):
CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAATAGAGCAGACGAA
AGAAATCAATCCTAACTCC
Found at i:25638401 original size:128 final size:128
Alignment explanation
Indices: 25638301--25640107 Score: 2483
Period size: 128 Copynumber: 14.1 Consensus size: 128
25638291 TCCTAACTCC
* *
25638301 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAATAGAGCAGACGAA
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAA
* * * *** * *
25638366 AGAAATCAATCCTAACTCCCTGAAGTTGCAGTAGAGCAGA-TCGCATC-CAG-TCTTATCTCC
66 AGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
** * * * * * * ** *
25638426 CT-AAGCAGTAATAGAGCAGA-CGAAAGAAAT-CAATCCTAACTCCCTGAAGTTGCAGTGGAGC-
1 CTGAAGTTGCAGTAGAGCAGATC----G-CATCCAGTCTTATCTCCCT-AAGCAGTAGTGGAGCA
* * * * *
25638487 G--GATTACAACTACAGATCTTATCTCCCTGAAGTTGCAGCGGAGCGGATTAAAACCACAGATCT
60 GACGA-AAGAAAT-CA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
25638550 TATCTCT
122 TATCTCT
* ** * * * *
25638557 CTGAAGTTGTAGTAGAGCAGATCATATCAAGTTTTATCTCCCTAAGTAGTAGTGGAGTAGAC-AG
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGA-
* * * * * *
25638621 AAGAGACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAGCCATAGATCTTATCTCT
65 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
* *
25638685 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGTAAACGAA
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAA
* * *
25638750 AGAAATCAATCCTATCTTCCTGAAGTTGCAGTGGAACGGATTAAAACCACATATCTTATCTCT
66 AGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
* * * *
25638813 TTGAAGTTACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTAGAGTAGACGAA
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAA
* *
25638878 AGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCACATATCTTATCTCT
66 AGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
*
25638941 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGAAGCAGACGAA
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAA
* * *
25639006 AGAAATCAATCCCATCTCCCTGAAGTTGCAATGGAGCGGATTAAAACCATAGATCTTATCTCT
66 AGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
*
25639069 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAACAGACGAA
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAA
* * *
25639134 AGAAATCAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAAAACCACAGATCTTATCTCT
66 AGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
*
25639197 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAACAGACGAA
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAA
* * *
25639262 AGAAATCAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAAAACCACAGATCTTATCTCT
66 AGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
* * * *
25639325 CTGAAGTTACAGTAGAGCAGATCACATCAAGTCTTATCTCCCTAAGTAGTAGTGGAGCAGAC-AG
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGA-
* * * * * *
25639389 AAGAGACCAATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAGCCATAGATCTTATCTCT
65 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
* * * *
25639453 CTGAAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCTTAAGCAGTAGTGGAGTAAACGAA
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAA
* *
25639518 AGAAATCAATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTAAAACCACATATCTTATCTCT
66 AGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
* *
25639581 CTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTAAGCAGTAGTAGAGCAGACGAA
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAA
*
25639646 AGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCACAGATCTTATCTCT
66 AGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
* * * * *
25639709 CTGAAGTTGCAGTAGAGCAAATCGCATCAAGTCTTATCTACCTAAGCAATAGTGGAACAGAC-AG
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGA-
*
25639773 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCT
65 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
* * * * *
25639837 CTGAAGTTGCAGTAGAGCAAATCGCATCAAGTCTTATCTACCTAAGCAATAGTGGAACAGAC-AG
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGA-
*
25639901 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCT
65 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
* * * * *
25639965 CTGAAGTTGCAGTAGAGCAAATCGCATCAAGTCTTATCTACCTAAGCAATAGTGGAACAGAC-AG
1 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGA-
*
25640029 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATGC-CT
65 AAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTAT-CTCT
25640093 CTGAAGTTGCAGTAG
1 CTGAAGTTGCAGTAG
25640108 GTCGGATTAA
Statistics
Matches: 1521, Mismatches: 138, Indels: 43
0.89 0.08 0.03
Matches are distributed among these distances:
123 1 0.00
124 14 0.01
125 4 0.00
126 4 0.00
127 18 0.01
128 1428 0.94
129 19 0.01
130 6 0.00
131 11 0.01
132 15 0.01
133 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (128 bp):
CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAA
AGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
Found at i:25639807 original size:44 final size:43
Alignment explanation
Indices: 25637824--25640065 Score: 573
Period size: 44 Copynumber: 52.7 Consensus size: 43
25637814 ACAGAAAAAC
* * * * *
25637824 CAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTACA-AC-T
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* *
25637866 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC---G-CAT
1 -CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* ** * * * *
25637908 CCAGTCTTATCTCCCT-AAGCAGTAATAGAGCAGACGAAAGAAAT
1 -CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGACAT
* * *
25637952 CAATCCTAACTCCCTGAAGTTGCAGTAGAGCAGATC---G-CAT
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* ** * * * *
25637992 CCAGTCTTATCTCCCT-AAGCAGTAATAGAGCAGACGAAAGAAAT
1 -CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGACAT
* * *
25638036 CAATCCTAACTCCCTGAAGTTGCAGTAGAGCAGATC---G-CAT
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* ** * * * *
25638076 CCAGTCTTATCTCCCT-AAGCAGTAATAGAGCAGACGAAAGAAAT
1 -CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGACAT
* * *
25638120 CAATCCTAACTCCCTGAAGTTGCAGTAGAGCAGATC---G-CAT
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* ** * * * *
25638160 CCAGTCTTATCTCCCT-AAGCAGTAATAGAGCAGACGAAAGAAAT
1 -CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGACAT
* * *
25638204 CAATCCTAACTCCCTGAAGTTGCAGTAGAGCAGATC---G-CAT
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* ** * * * *
25638244 CCAGTCTTATCTCCCT-AAGCAGTAATAGAGCAGACGAAAGAAAT
1 -CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGACAT
* * *
25638288 CAATCCTAACTCCCTGAAGTTGCAGTAGAGCAGATC---G-CAT
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* ** * * * *
25638328 CCAGTCTTATCTCCCT-AAGCAGTAATAGAGCAGACGAAAGAAAT
1 -CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGACAT
* * *
25638372 CAATCCTAACTCCCTGAAGTTGCAGTAGAGCAGATC---G-CAT
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* ** * * * *
25638412 CCAGTCTTATCTCCCT-AAGCAGTAATAGAGCAGACGAAAGAAAT
1 -CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGACAT
* * * * *
25638456 CAATCCTAACTCCCTGAAGTTGCAGTGGAGCGGATTACA-AC-T
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* * *
25638498 ACAGATCTTATCTCCCTGAAGTTGCAGCGGAGCGGATTAAA-ACCA-
1 -CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGA-CAT
* * * *
25638543 CAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATC----ATAT
1 CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* * * * * *
25638584 CAAGTTTTATCTCCCT-AAGTAGTAGTGGAGTAGACAGAAGAGAC
1 CAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA-AAGACAT
* * * * * *
25638628 CAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAGCCAT
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* *
25638672 -AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC---G-CAT
1 CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* ** * * * *
25638712 CCAGTCTTATCTCCCT-AAGCAGTAGTGGAGTAAACGAAAGAAAT
1 -CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGACAT
* * * * *
25638756 CAATCCTATCTTCCTGAAGTTGCAGTGGAACGGATTAAA-ACCA-
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGA-CAT
** * *
25638799 CATATCTTATCTCTTTGAAGTTACAGTAGAGCAGATC---G-CAT
1 CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* ** * * * *
25638840 CCAGTCTTATCTCCCT-AAGCAGTAGTAGAGTAGACGAAAGAAAT
1 -CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGACAT
* * * *
25638884 CAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAA-ACCA-
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGA-CAT
* *
25638927 CATATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC---G-CAT
1 CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* ** * * *
25638968 CCAGTCTTATCTCCCT-AAGCAGTAGTGAAGCAGACGAAAGAAAT
1 -CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGACAT
** * * *
25639012 CAATCCCATCTCCCTGAAGTTGCAATGGAGCGGATTAAA-ACCAT
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGA-CAT
* *
25639056 -AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC---G-CAT
1 CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* ** * * *
25639096 CCAGTCTTATCTCCCT-AAGCAGTAGTGGAACAGACGAAAGAAAT
1 -CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGACAT
* * * ** *
25639140 CAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAAA-ACCA-
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGA-CAT
* *
25639183 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC---G-CAT
1 CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* ** * * *
25639224 CCAGTCTTATCTCCCT-AAGCAGTAGTGGAACAGACGAAAGAAAT
1 -CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGACAT
* * * ** *
25639268 CAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAAA-ACCA-
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGA-CAT
* * *
25639311 CAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATC----ACAT
1 CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* * * *
25639352 CAAGTCTTATCTCCCT-AAGTAGTAGTGGAGCAGACAGAAGAGAC
1 CAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA-AAGACAT
* * * * * *
25639396 CAATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAGCCAT
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* * *
25639440 -AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC---G-TAT
1 CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
* * ** * * * *
25639480 CCAGTCTTATCT-CCTTAAGCAGTAGTGGAGTAAACGAAAGAAAT
1 -CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGACAT
* * * *
25639524 CAATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTAAA-ACCA-
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGA-CAT
* *
25639567 CATATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC---G-CAT
1 CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGACAT
** * * *
25639608 CCAATCTTATCTCCCT-AAGCAGTAGTAGAGCAGACGAAAGAAAT
1 -CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGACAT
* *
25639652 CAATCCTATCTCCCTGAAGTTGCAGTGGAGC-GA-ATTAAAACCA-
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA--AAGA-CAT
* * **
25639695 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA-A-ATCG-CAT
1 CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAGACAT
* **** * *
25639736 CAAGTCTTATCTACCT-AAGCAATAGTGGAACAGACAGAAGAAAT
1 CAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA-AAGACAT
* ** *
25639780 CAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAA-ACCA-
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGA-CAT
* * **
25639823 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA-A-ATCG-CAT
1 CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAGACAT
* **** * *
25639864 CAAGTCTTATCTACCT-AAGCAATAGTGGAACAGACAGAAGAAAT
1 CAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA-AAGACAT
* ** *
25639908 CAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAA-ACCA-
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGA-CAT
* * **
25639951 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA-A-ATCG-CAT
1 CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAGACAT
* **** * *
25639992 CAAGTCTTATCTACCT-AAGCAATAGTGGAACAGACAGAAGAAAT
1 CAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA-AAGACAT
*
25640036 CAATCCTATCTCCCTGAAGTTGCAGTGGAG
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAG
25640066 TGGATTAAAA
Statistics
Matches: 1568, Mismatches: 436, Indels: 389
0.66 0.18 0.16
Matches are distributed among these distances:
39 16 0.01
40 292 0.19
41 235 0.15
42 18 0.01
43 276 0.18
44 720 0.46
45 11 0.01
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (43 bp):
CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAGACAT
Found at i:25641558 original size:3 final size:3
Alignment explanation
Indices: 25641540--25641598 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
25641530 TATTTTGTTC
* *
25641540 ATT ATT -TT AAT ATT ATT ATC ATT -TT CATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
25641584 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
25641599 GTCATTACTA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.08
3 43 0.88
4 2 0.04
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:25641605 original size:12 final size:12
Alignment explanation
Indices: 25641554--25641605 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
25641544 TTTTAATATT
* *
25641554 ATTATCATTTTC
1 ATTATTATTATC
*
25641566 ATTATTATTATT
1 ATTATTATTATC
*
25641578 ATTATTATTATT
1 ATTATTATTATC
*
25641590 ATTATTATTGTC
1 ATTATTATTATC
25641602 ATTA
1 ATTA
25641606 CTAGTAATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:25641780 original size:18 final size:18
Alignment explanation
Indices: 25641757--25641795 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
25641747 ACGTTTTTTT
*
25641757 TATACTT-TATAATATTCA
1 TATACTTATAT-ATATACA
25641775 TATACTTATATATATACA
1 TATACTTATATATATACA
25641793 TAT
1 TAT
25641796 TTTAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (18 bp):
TATACTTATATATATACA
Found at i:25643345 original size:179 final size:180
Alignment explanation
Indices: 25643045--25643407 Score: 647
Period size: 179 Copynumber: 2.0 Consensus size: 180
25643035 ACTGATGTGC
25643045 AAACAGGGGCAGCGAAGTGTGTACATAAATAATTGCAATTCATATGGTTATATAAATAACCAAAA
1 AAACAGGGGCAGCGAAGTGTGTACATAAATAATTGCAATTCATATGGTTATATAAATAACCAAAA
* * *
25643110 TAATTTCACATTTATATCTATATCAATTAACTATAAATCAATAATCTAAAACACAAATAAATTAC
66 TAATTTCACATTTATATATAAATCAATTAACTAGAAATCAATAATCTAAAACACAAATAAATTAC
* *
25643175 AAATCTAAAG-AAAAAGATTCTAATCTTACCTACGATCCATTCCCAATTA
131 AAATCTAAAGAAAAAACATTATAATCTTACCTACGATCCATTCCCAATTA
25643224 AAACAGGGGCAGCGAAGTGTGTACATAAATAATTGCAATTCATATGGTTATATAAATAACCAAAA
1 AAACAGGGGCAGCGAAGTGTGTACATAAATAATTGCAATTCATATGGTTATATAAATAACCAAAA
*
25643289 TAATTTCACATTTATATATAAATCAATTAACTAGAAATCAGTAATCTAAAACACAAATAAATTAC
66 TAATTTCACATTTATATATAAATCAATTAACTAGAAATCAATAATCTAAAACACAAATAAATTAC
* *
25643354 AAATCTAAAGAAAAAACATTATAATCTTACCTACGATCCATTCCGAATTC
131 AAATCTAAAGAAAAAACATTATAATCTTACCTACGATCCATTCCCAATTA
25643404 AAAC
1 AAAC
25643408 GCAAGGACTA
Statistics
Matches: 175, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
179 136 0.78
180 39 0.22
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.29
Consensus pattern (180 bp):
AAACAGGGGCAGCGAAGTGTGTACATAAATAATTGCAATTCATATGGTTATATAAATAACCAAAA
TAATTTCACATTTATATATAAATCAATTAACTAGAAATCAATAATCTAAAACACAAATAAATTAC
AAATCTAAAGAAAAAACATTATAATCTTACCTACGATCCATTCCCAATTA
Found at i:25646257 original size:44 final size:44
Alignment explanation
Indices: 25646209--25646296 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
25646199 AACCATGGTA
*
25646209 TTTTCCGTCAATTCTTTCTTAATTGCCATGTTATAAACATGGAC
1 TTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAACATGGAC
25646253 TTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAACATGGAC
1 TTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAACATGGAC
25646297 CTTGAGATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (44 bp):
TTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAACATGGAC
Found at i:25653882 original size:20 final size:20
Alignment explanation
Indices: 25653859--25653896 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25653849 TCTTGCGTTT
*
25653859 CTTTTTTGTTTATTTTCTTC
1 CTTTTTTATTTATTTTCTTC
25653879 CTTTTTTATTTATTTTCT
1 CTTTTTTATTTATTTTCT
25653897 ATAACTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.76
Consensus pattern (20 bp):
CTTTTTTATTTATTTTCTTC
Found at i:25664219 original size:16 final size:17
Alignment explanation
Indices: 25664193--25664225 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
25664183 TATATATATA
25664193 AAAACATTCAAAAAAAT
1 AAAACATTCAAAAAAAT
*
25664210 AAAA-ATTCAAGAAAAT
1 AAAACATTCAAAAAAAT
25664226 GAAATTTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.70, C:0.09, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAACATTCAAAAAAAT
Found at i:25664404 original size:33 final size:32
Alignment explanation
Indices: 25664328--25664404 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 32
25664318 TTAAAATAAT
* * * *
25664328 AATTTAATTCTTTTTTTAAAATATTGACGATGA
1 AATTTAATT-TTTTTTTAAAAAAATGACAATCA
25664361 AA-TTAGATTTTTTTTTAAAAAAAATGACAATCA
1 AATTTA-ATTTTTTTTT-AAAAAAATGACAATCA
25664394 AATTTAATTTT
1 AATTTAATTTT
25664405 AAAAAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
32 10 0.27
33 24 0.65
34 3 0.08
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (32 bp):
AATTTAATTTTTTTTTAAAAAAATGACAATCA
Found at i:25667554 original size:52 final size:52
Alignment explanation
Indices: 25667475--25667697 Score: 383
Period size: 52 Copynumber: 4.2 Consensus size: 52
25667465 TACTTCTGAT
25667475 CAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
25667528 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
25667580 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* * * *
25667632 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
*
25667684 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
25667698 GCTACACTTA
Statistics
Matches: 163, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
52 146 0.90
53 17 0.10
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.26
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
Found at i:25667710 original size:37 final size:37
Alignment explanation
Indices: 25667660--25667769 Score: 163
Period size: 37 Copynumber: 3.0 Consensus size: 37
25667650 TAATAGCTTC
*
25667660 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
25667697 GGCTACACTTATCTGATCAAGAAACAAAGTGAT-AGTT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAG-T
*
25667734 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
25667769 G
1 G
25667770 ATCATACGTA
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
35 9 0.13
36 8 0.12
37 50 0.75
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.26
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:25670192 original size:114 final size:114
Alignment explanation
Indices: 25669657--25670220 Score: 623
Period size: 114 Copynumber: 5.0 Consensus size: 114
25669647 AAAATAAGCA
** * *
25669657 TTAGCGGCGTTTTCCAGAAAGCGCCGC-AAAATACCTAAGCCCAACGATGCTGTTTT-TCGAGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCT-GAGCT
* * * * * *
25669720 TTCGGGGATTCAGCGGTGTTTTTAAGAAAGCGCTGCTAATGCTCAGGGCT
65 TTCGGGGATTTAGTGGTGTTTTTAAGTAAGCGCCGCTAATGCTCAAGGAT
* * * ** ** * **
25669770 TTAGTGGCGTTTTTAAAAAAGTACCATAAAAAAACCTAAGCCCAACGACATCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* **
25669835 TCGGGGATTCAGTGGTGTTTTTAAGT-A--GCCGCTAATGCTC-AGGGC
66 TCGGGGATTTAGTGGTGTTTTTAAGTAAGCGCCGCTAATGCTCAAGGAT
* * * *
25669880 TT-G-GTG-TTTTTTG-GGAAGCGCCGCAAAAATACCTAAGCCTAACGACGCCGTTTCCTGAGCT
1 TTAGCG-GCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* *
25669941 TTCGGGGAATTAGTGGTGTTTTTAAGTATGCGCCGCTAATAG-TC-AGGACT
65 TTCGGGGATTTAGTGGTGTTTTTAAGTAAGCGCCGCTAAT-GCTCAAGGA-T
* * * * **
25669991 TTAGCGGCGTTTTTGTGAAAGCGCC-AAAAAAAACCTAAGTCCAACGACATCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
25670055 TCGGGGATTTAGTGGCGTTTTTAAGCAAGCGCCGCTAATGCTCAAGGAT
66 TCGGGGATTTAGTGGTGTTTTTAAGTAAGCGCCGCTAATGCTCAAGGAT
*
25670104 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCAAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
** * *
25670169 TCGGGGATTTAGTGGCATTTTTAAGTATGCGCCGCTAATGCTCAGGGAT
66 TCGGGGATTTAGTGGTGTTTTTAAGTAAGCGCCGCTAATGCTCAAGGAT
25670218 TTA
1 TTA
25670221 ATATAATTTA
Statistics
Matches: 375, Mismatches: 61, Indels: 29
0.81 0.13 0.06
Matches are distributed among these distances:
107 62 0.17
108 6 0.02
109 2 0.01
110 18 0.05
111 15 0.04
112 3 0.01
113 121 0.32
114 147 0.39
115 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGTGGTGTTTTTAAGTAAGCGCCGCTAATGCTCAAGGAT
Found at i:25670491 original size:14 final size:15
Alignment explanation
Indices: 25670465--25670497 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
25670455 AAGTTTTATA
25670465 GATTATGGAATTAGG
1 GATTATGGAATTAGG
25670480 GATTAT-GAATTAGG
1 GATTATGGAATTAGG
25670494 GATT
1 GATT
25670498 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:25670547 original size:14 final size:13
Alignment explanation
Indices: 25670520--25670576 Score: 62
Period size: 14 Copynumber: 4.3 Consensus size: 13
25670510 TTAATGTGAT
*
25670520 TTAAGGTTATGGG
1 TTAAGGTTAGGGG
25670533 TTAAGGGTTAGGGG
1 TTAA-GGTTAGGGG
* *
25670547 TTAGGGATTATGGG
1 TTAAGG-TTAGGGG
25670561 TT-AGGTTAGGGG
1 TTAAGGTTAGGGG
25670573 TTAA
1 TTAA
25670577 ATGTTAAGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
12 8 0.22
13 9 0.25
14 19 0.53
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (13 bp):
TTAAGGTTAGGGG
Found at i:25670561 original size:21 final size:21
Alignment explanation
Indices: 25670524--25670565 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
25670514 TGTGATTTAA
25670524 GGTTATGGGTTAAGGGTTAGG
1 GGTTATGGGTTAAGGGTTAGG
*
25670545 GGTTA-GGGATTATGGGTTAGG
1 GGTTATGGG-TTAAGGGTTAGG
25670566 TTAGGGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.33
Consensus pattern (21 bp):
GGTTATGGGTTAAGGGTTAGG
Found at i:25670695 original size:14 final size:14
Alignment explanation
Indices: 25670670--25670708 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
25670660 ATATATTAAA
*
25670670 TAAGGTTTAGGGGT
1 TAAGGGTTAGGGGT
*
25670684 TAGGGGTTAGGGGT
1 TAAGGGTTAGGGGT
25670698 TAAGGG-TAGGG
1 TAAGGGTTAGGG
25670709 ATTTAGGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.21, C:0.00, G:0.51, T:0.28
Consensus pattern (14 bp):
TAAGGGTTAGGGGT
Found at i:25670703 original size:8 final size:7
Alignment explanation
Indices: 25670676--25670708 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
25670666 TAAATAAGGT
25670676 TTAGGGG
1 TTAGGGG
25670683 TTAGGGG
1 TTAGGGG
25670690 TTAGGGG
1 TTAGGGG
*
25670697 TTAAGGG
1 TTAGGGG
25670704 -TAGGG
1 TTAGGG
25670709 ATTTAGGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.18, C:0.00, G:0.55, T:0.27
Consensus pattern (7 bp):
TTAGGGG
Found at i:25670879 original size:196 final size:196
Alignment explanation
Indices: 25670627--25671174 Score: 970
Period size: 196 Copynumber: 2.8 Consensus size: 196
25670617 TAGATTAGAG
*
25670627 TTTAGGGTTTAGATTAATTAGTGTGTTTTAATTATATATTAAATAAGGTTTAGGGGTTAGGGGTT
1 TTTAGGATTTAGATTAATTAGTGTGTTTTAATTATATATTAAATAAGGTTTAGGGGTTAGGGGTT
25670692 AGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAGATTTAGGATTTAGATTAATTAGTGTTTTTT
66 AGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAGATTTAGGATTTAGATTAATTAGTGTTTTTT
25670757 AATTTATATATTAAATAAAGTTTAGGGGTTAGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAG
131 AATTTATATATTAAATAAAGTTTAGGGGTTAGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAG
25670822 A
196 A
25670823 TTTAGGATTTAGATTAATTAGTGTGTTTTAATTATATATTAAATAAGG--T-----TTAGGGGTT
1 TTTAGGATTTAGATTAATTAGTGTGTTTTAATTATATATTAAATAAGGTTTAGGGGTTAGGGGTT
*
25670881 AGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAGATTTAGGATTTAGATTAATTAGTGTGTTTT
66 AGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAGATTTAGGATTTAGATTAATTAGTGTTTTTT
*
25670946 AA-TTATATATTAAATAAGGTTTAGGGGTTAGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAG
131 AATTTATATATTAAATAAAGTTTAGGGGTTAGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAG
25671010 A
196 A
* *
25671011 TTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGGTTAGGGGT
1 TTTAGGATTTAGATTAATTAGTGTGTTTTAA-TTATATATTAAATAAGGTTTAGGGGTTAGGGGT
*
25671076 TAGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAGATTTAGGGTTTAGATTAATTAGTGTTTTT
65 TAGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAGATTTAGGATTTAGATTAATTAGTGTTTTT
25671141 TAATTTATATATTAAATAAAGTTTA-GGGTTAGGG
130 TAATTTATATATTAAATAAAGTTTAGGGGTTAGGG
25671175 ATTCGGGGTC
Statistics
Matches: 335, Mismatches: 8, Indels: 18
0.93 0.02 0.05
Matches are distributed among these distances:
188 92 0.27
189 91 0.27
191 1 0.00
194 1 0.00
196 130 0.39
197 20 0.06
ACGTcount: A:0.30, C:0.00, G:0.29, T:0.42
Consensus pattern (196 bp):
TTTAGGATTTAGATTAATTAGTGTGTTTTAATTATATATTAAATAAGGTTTAGGGGTTAGGGGTT
AGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAGATTTAGGATTTAGATTAATTAGTGTTTTTT
AATTTATATATTAAATAAAGTTTAGGGGTTAGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAG
A
Found at i:25670921 original size:94 final size:95
Alignment explanation
Indices: 25670627--25671174 Score: 870
Period size: 94 Copynumber: 5.7 Consensus size: 95
25670617 TAGATTAGAG
*
25670627 TTTAGGGTTTAGATTAATTAGTGTGTTTTAA-TTATATATTAAATAAGGTTTAGGGGTTAGGGGT
1 TTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGG--T-----TTAGGGGT
25670691 TAGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAGA
59 TAGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAGA
* *
25670728 TTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGGTTAGGGGT
1 TTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGGGGT
25670793 TAAGGGTAGGGATTTAGGATTGGGTTAAGA
66 TAAGGGTAGGGATTTAGGATTGGGTTAAGA
25670823 TTTAGGATTTAGATTAATTAGTGTGTTTTAA-TTATATATTAAATAAGGTTTAGGGGTTAGGGGT
1 TTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGGGGT
25670887 TAAGGGTAGGGATTTAGGATTGGGTTAAGA
66 TAAGGGTAGGGATTTAGGATTGGGTTAAGA
25670917 TTTAGGATTTAGATTAATTAGTGTGTTTTAA-TTATATATTAAATAAGGTTTAGGGGTTAGGGGT
1 TTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGGGGT
25670981 TAAGGGTAGGGATTTAGGATTGGGTTAAGA
66 TAAGGGTAGGGATTTAGGATTGGGTTAAGA
* *
25671011 TTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGGTTAGGGGT
1 TTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAAT--A----A-GGTTTAGGGGT
25671076 TAGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAGA
59 TAGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAGA
* * *
25671113 TTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTA-GGGTTAGGG
1 TTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGGG
25671175 ATTCGGGGTC
Statistics
Matches: 428, Mismatches: 10, Indels: 25
0.92 0.02 0.05
Matches are distributed among these distances:
94 195 0.46
95 92 0.21
96 1 0.00
97 1 0.00
100 2 0.00
101 30 0.07
102 107 0.25
ACGTcount: A:0.30, C:0.00, G:0.29, T:0.42
Consensus pattern (95 bp):
TTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGGGGT
TAAGGGTAGGGATTTAGGATTGGGTTAAGA
Found at i:25670960 original size:290 final size:285
Alignment explanation
Indices: 25670627--25671174 Score: 922
Period size: 290 Copynumber: 1.9 Consensus size: 285
25670617 TAGATTAGAG
*
25670627 TTTAGGGTTTAGATTAATTAGTGTGTTTTAATTATATATTAAATAAGGTTTAGGGGTTAGGGGTT
1 TTTAGGATTTAGATTAATTAGTGTGTTTTAATTATATATTAAATAAGG--T-----TTAGGGGTT
25670692 AGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAGATTTAGGATTTAGATTAATTAGTGTTTTTT
59 AGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAGATTTAGGATTTAGATTAATTAGTGTTTTTT
25670757 AATTTATATATTAAATAAAG-T-TTAGGGGTTAGGGGTTAAGGGTAGGGATTTAGGATTGGGTTA
124 AATTTATATATTAAATAAAGTTGTTAGGGGTTAGGGGTTAAGGGTAGGGATTTAGGATTGGGTTA
*
25670820 AGATTTAGGATTTAGATTAATTAGTGTGTTTTAA-TTATATATTAAATAAGGTTTAGGGGTTAGG
189 AGATTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAAGTTTA-GGGTTAGG
25670884 GGTTAAGGGTAGGGATTTAGGATTGGGTTAAGA
253 GGTTAAGGGTAGGGATTTAGGATTGGGTTAAGA
25670917 TTTAGGATTTAGATTAATTAGTGTGTTTTAATTATATATTAAATAAGGTTTAGGGGTTAGGGGTT
1 TTTAGGATTTAGATTAATTAGTGTGTTTTAATTATATATTAAATAAGGTTTAGGGGTTAGGGGTT
25670982 AAGGGTAGGGATTTAGGATTGGGTTAAGATTTAGGATTTAGATTAATTAGTGTTTTTTAATTTAT
66 AAGGGTAGGGATTTAGGATTGGGTTAAGATTTAGGATTTAGATTAATTAGTGTTTTTTAATTTAT
25671047 ATATTAAATAAAGTTTAGGGGTTAGGGGTTAGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAG
131 ATATTAAATAAAG-TT----GTTAGGGGTTAGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAG
* *
25671112 ATTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGTTAGGG
191 ATTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAAGTTTAGGGTTAGGG
25671175 ATTCGGGGTC
Statistics
Matches: 246, Mismatches: 4, Indels: 16
0.92 0.02 0.06
Matches are distributed among these distances:
283 94 0.38
285 1 0.00
288 1 0.00
290 130 0.53
291 20 0.08
ACGTcount: A:0.30, C:0.00, G:0.29, T:0.42
Consensus pattern (285 bp):
TTTAGGATTTAGATTAATTAGTGTGTTTTAATTATATATTAAATAAGGTTTAGGGGTTAGGGGTT
AAGGGTAGGGATTTAGGATTGGGTTAAGATTTAGGATTTAGATTAATTAGTGTTTTTTAATTTAT
ATATTAAATAAAGTTGTTAGGGGTTAGGGGTTAAGGGTAGGGATTTAGGATTGGGTTAAGATTTA
GGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAAGTTTAGGGTTAGGGGTTAAGG
GTAGGGATTTAGGATTGGGTTAAGA
Found at i:25671073 original size:7 final size:7
Alignment explanation
Indices: 25671061--25671093 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
25671051 TAAATAAAGT
25671061 TTAGGGG
1 TTAGGGG
25671068 TTAGGGG
1 TTAGGGG
25671075 TTAGGGG
1 TTAGGGG
*
25671082 TTAAGGG
1 TTAGGGG
25671089 -TAGGG
1 TTAGGG
25671094 ATTTAGGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.18, C:0.00, G:0.55, T:0.27
Consensus pattern (7 bp):
TTAGGGG
Found at i:25671338 original size:7 final size:7
Alignment explanation
Indices: 25671300--25671380 Score: 63
Period size: 7 Copynumber: 11.6 Consensus size: 7
25671290 ATCATTTTAT
*
25671300 TTTAAGT
1 TTTAAGG
*
25671307 TTTACGG
1 TTTAAGG
**
25671314 TTTAAAA
1 TTTAAGG
*
25671321 TTTAAGA
1 TTTAAGG
*
25671328 TTTAATG
1 TTTAAGG
*
25671335 TTTACGG
1 TTTAAGG
*
25671342 TTTAGGG
1 TTTAAGG
25671349 TTTAAGG
1 TTTAAGG
25671356 TTTAAGG
1 TTTAAGG
*
25671363 TTTATGG
1 TTTAAGG
* *
25671370 TATAATG
1 TTTAAGG
25671377 TTTA
1 TTTA
25671381 TTAATTTGGG
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
7 57 1.00
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.48
Consensus pattern (7 bp):
TTTAAGG
Done.