Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 105 of 206
Found at i:31077409 original size:120 final size:119
Alignment explanation
Indices: 31077262--31077574 Score: 475
Period size: 120 Copynumber: 2.6 Consensus size: 119
31077252 ACATTATGTA
* * *
31077262 AAATTATGTAAAATTATTAAGTCCCAAAATTTTGTTAATGGTTAGTAAAACTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
* **
31077327 AAATTATGTAAAATTATTTAGCCCAAAAAATTTTAATTAAATTAGGTAAAATTATC
66 AAATTATGTAAAATTATTAAG--CAAAAAAAATTAATTAAATTAGGTAAAATTATC
***
31077383 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGGGT-TTTTTATCAAATTATG
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA--GTAAAATTATCAAATTATG
*
31077447 TAAAATTATGTAAAATTATTAAGTAAAAAAAATTAATTAAATTAGGTAAAATTATC
64 TAAAATTATGTAAAATTATTAAGCAAAAAAAATTAATTAAATTAGGTAAAATTATC
* *
31077503 AAATTAGGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTACTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
31077568 AAATTAT
66 AAATTAT
31077575 TAAGTCTAAG
Statistics
Matches: 174, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
118 1 0.01
119 22 0.13
120 73 0.42
121 42 0.24
122 34 0.20
123 2 0.01
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (119 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
AAATTATGTAAAATTATTAAGCAAAAAAAATTAATTAAATTAGGTAAAATTATC
Found at i:31077454 original size:10 final size:10
Alignment explanation
Indices: 31077439--31077465 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
31077429 GTTTTTTATC
31077439 AAATTATGTA
1 AAATTATGTA
31077449 AAATTATGTA
1 AAATTATGTA
31077459 AAATTAT
1 AAATTAT
31077466 TAAGTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Found at i:31077508 original size:18 final size:18
Alignment explanation
Indices: 31077475--31077519 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
31077465 TTAAGTAAAA
*
31077475 AAAATTAATTAAATTAGGT
1 AAAATT-ATCAAATTAGGT
31077494 AAAATTATCAAATTAGGT
1 AAAATTATCAAATTAGGT
31077512 AAAATTAT
1 AAAATTAT
31077520 TAAGTCCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (18 bp):
AAAATTATCAAATTAGGT
Found at i:31077659 original size:18 final size:18
Alignment explanation
Indices: 31077636--31077677 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
31077626 TTAGGTTAGG
31077636 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
31077654 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
31077672 ATTAGG
1 GTTAGG
31077678 TTAGGGTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:31077686 original size:29 final size:29
Alignment explanation
Indices: 31077654--31077770 Score: 180
Period size: 29 Copynumber: 3.8 Consensus size: 29
31077644 TTTTAATTAA
31077654 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
31077683 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTAGGGTTTTTAATT-AA--A--TTA-GGTTAGG
31077718 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
31077747 GTTAGGGTTTTTAATTAAATTAGG
1 GTTAGGGTTTTTAATTAAATTAGG
31077771 GTTTTTAATT
Statistics
Matches: 82, Mismatches: 0, Indels: 12
0.87 0.00 0.13
Matches are distributed among these distances:
29 47 0.57
30 5 0.06
32 2 0.02
34 5 0.06
35 23 0.28
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.44
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGG
Found at i:31077728 original size:64 final size:68
Alignment explanation
Indices: 31077654--31077831 Score: 247
Period size: 64 Copynumber: 2.6 Consensus size: 68
31077644 TTTTAATTAA
31077654 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA-GG-TT-AG-GGTT
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGGTTTAAGTGGTT
31077715 AGG
66 AGG
31077718 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGG----T--TTAA
31077783 GTTAGGTTAGG
60 G-T-GGTTAGG
*
31077794 GTTAGGATTTTTAATTAAATTAGGTTAGGGTTAGGGTT
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT
31077832 AGGGTTAGGG
Statistics
Matches: 101, Mismatches: 1, Indels: 12
0.89 0.01 0.11
Matches are distributed among these distances:
64 51 0.50
65 2 0.02
72 2 0.02
73 2 0.02
76 44 0.44
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.45
Consensus pattern (68 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGGTTTAAGTGGTT
AGG
Found at i:31077743 original size:111 final size:111
Alignment explanation
Indices: 31077623--31077837 Score: 403
Period size: 111 Copynumber: 1.9 Consensus size: 111
31077613 AAATTATGTA
*
31077623 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
*
31077688 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATT
66 GATTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATT
*
31077734 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
31077799 GATTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTT
66 GATTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTT
31077838 AGGGTTTTTT
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 101 1.00
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.44
Consensus pattern (111 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
GATTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATT
Found at i:31077773 original size:47 final size:47
Alignment explanation
Indices: 31077719--31077817 Score: 180
Period size: 47 Copynumber: 2.1 Consensus size: 47
31077709 AGGGTTAGGG
*
31077719 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAAA
*
31077766 TTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGATTTTTAATTAAA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAAA
31077813 TTAGG
1 TTAGG
31077818 TTAGGGTTAG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.46
Consensus pattern (47 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAAA
Found at i:31077790 original size:17 final size:18
Alignment explanation
Indices: 31077747--31077788 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
31077737 TTAGGTTAGG
31077747 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
31077765 ATTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
31077783 GTTAGG
1 GTTAGG
31077789 TTAGGGTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:31077798 original size:29 final size:29
Alignment explanation
Indices: 31077766--31077831 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
31077756 TTTAATTAAA
*
31077766 TTAGGGTTTTTAATTAAGTTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
31077795 TTAGGATTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
31077824 TTAGGGTT
1 TTAGGGTT
31077832 AGGGTTAGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (29 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGG
Found at i:31077827 original size:6 final size:6
Alignment explanation
Indices: 31077816--31077843 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
31077806 AATTAAATTA
31077816 GGTTAG GGTTAG GGTTAG GGTTAG GGTT
1 GGTTAG GGTTAG GGTTAG GGTTAG GGTT
31077844 TTTTTATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.50, T:0.36
Consensus pattern (6 bp):
GGTTAG
Found at i:31077834 original size:35 final size:35
Alignment explanation
Indices: 31077654--31077755 Score: 162
Period size: 35 Copynumber: 3.1 Consensus size: 35
31077644 TTTTAATTAA
31077654 GTTAGGGTTTTTAATT-AA--A--TTA-GGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
31077683 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
31077718 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
31077753 GTT
1 GTT
31077756 TTTAATTAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
29 16 0.24
30 2 0.03
32 1 0.01
34 3 0.04
35 45 0.67
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.44
Consensus pattern (35 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
Found at i:31077923 original size:18 final size:18
Alignment explanation
Indices: 31077900--31077934 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
31077890 AATTTTAATT
31077900 AAATTAGGTAAAATTATC
1 AAATTAGGTAAAATTATC
31077918 AAATTAGGTAAAATTAT
1 AAATTAGGTAAAATTAT
31077935 TAAGTCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.34
Consensus pattern (18 bp):
AAATTAGGTAAAATTATC
Found at i:31077941 original size:415 final size:403
Alignment explanation
Indices: 31077422--31078204 Score: 1237
Period size: 415 Copynumber: 1.9 Consensus size: 403
31077412 TTGTGTTAAT
* *
31077422 GGTTAGGGTTTTTTATCAAATTATGTAAAATTATGTAAAATTATTAAGTAAAAAAAATTAATTAA
1 GGTTAGGGTTTTTTATCAAATTACGTAAAATTATGTAAAATTATTAAGCAAAAAAAATTAATTAA
31077487 ATTAGGTAAAATTATCAAATTAGGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTACTAAA
66 ATTAGGTAAAATTATCAAATTAGGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTACTAAA
*
31077552 ATTATCAAATTATGTAAAATTATTAAGTCTAAGAATTGTATTAATGGTTAGTAAAATTATCAAAT
131 ATTATCAAATTATGTAAAATTATTAAGTCCAAGAATTGTATTAATGGTTAGTAAAATTATCAAAT
**
31077617 TATGTAAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAG
196 TATGTAAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAAAG--TTT--TT-AATTA----A-
31077682 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA-GG-GTTAGGGTTTTTAATTAAATTAGGTTA
251 -GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTGTTAGGGTTTTTAATTAAATTAGGTTA
* *
31077745 GGGTTAGGGTTTTTAATTAAATTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGATTTTTAATT
315 GGGTTAGGATTTTTAATTAAATTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATT
31077810 AAATTAGGTTAGGGTTAGGGTTAG
380 AAATTAGGTTAGGGTTAGGGTTAG
*
31077834 GGTTAGGGTTTTTTTATCAAATTACGTAAAATTATGTAAAATTATTAAGCCAAAAAAATTTTAAT
1 GGTTAGGG-TTTTTTATCAAATTACGTAAAATTATGTAAAATTATTAAG-CAAAAAAA-ATTAAT
*
31077899 TAAATTAGGTAAAATTATCAAATTAGGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGT
63 TAAATTAGGTAAAATTATCAAATTAGGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTACT
*
31077964 AAAATTATCAAATTATGTAAAATTATTAAGTCCAAGAATTGTGTTAATGGTTAGTAAAATTATCA
128 AAAATTATCAAATTATGTAAAATTATTAAGTCCAAGAATTGTATTAATGGTTAGTAAAATTATCA
31078029 AATTATGTAAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAAAGTTTTTAATTAAGTTAGGG
193 AATTATGTAAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAAAGTTTTTAATTAAGTTAGGG
31078094 TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGT
258 TTTTTAATTAAATTAGGTTAGGGTTAGGG--------T--GTTAGGGTTTTTAATTAAATTAGGT
*
31078159 TAGGGTTAGGATTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGG
313 TAGGGTTAGGATTTTTAATTAAATTAGGGTTTTTAATTAAATTAGG
31078205 GTTTTTATTA
Statistics
Matches: 345, Mismatches: 11, Indels: 26
0.90 0.03 0.07
Matches are distributed among these distances:
404 33 0.10
405 2 0.01
406 1 0.00
410 5 0.01
411 2 0.01
412 8 0.02
413 42 0.12
414 7 0.02
415 177 0.51
416 68 0.20
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (403 bp):
GGTTAGGGTTTTTTATCAAATTACGTAAAATTATGTAAAATTATTAAGCAAAAAAAATTAATTAA
ATTAGGTAAAATTATCAAATTAGGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTACTAAA
ATTATCAAATTATGTAAAATTATTAAGTCCAAGAATTGTATTAATGGTTAGTAAAATTATCAAAT
TATGTAAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAAAGTTTTTAATTAAGTTAGGGTTT
TTAATTAAATTAGGTTAGGGTTAGGGTGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATT
TTTAATTAAATTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAAATTAGGTTA
GGGTTAGGGTTAG
Found at i:31077971 original size:55 final size:55
Alignment explanation
Indices: 31077862--31078043 Score: 262
Period size: 55 Copynumber: 3.3 Consensus size: 55
31077852 AAATTACGTA
* **
31077862 AAATTATGTAAAATTATTAAG-CCAAAAAAAT-T-TTAATTAAATTAGGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCC-AAAAATTGTGTTAA-T-GGTTA-GTAAAATTATC
*
31077918 AAATTAGGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
31077973 AAATTATGTAAAATTATTAAGTCCAAGAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
31078028 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
31078044 GGTTAGGGTT
Statistics
Matches: 117, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
55 80 0.68
56 29 0.25
57 4 0.03
58 4 0.03
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.37
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:31078109 original size:18 final size:18
Alignment explanation
Indices: 31078051--31078211 Score: 134
Period size: 18 Copynumber: 9.7 Consensus size: 18
31078041 TTAGGTTAGG
31078051 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**
31078069 GTTAAAGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
31078087 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* **
31078105 ATTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
31078116 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
31078134 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* **
31078152 ATTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
*
31078163 GTTAGGATTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
31078181 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
31078199 ATTAGGGTTTTTA
1 GTTAGGGTTTTTA
31078212 TTACATCAAA
Statistics
Matches: 110, Mismatches: 19, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
11 6 0.05
12 3 0.03
13 2 0.02
14 4 0.04
15 4 0.04
16 2 0.02
17 4 0.04
18 85 0.77
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:31078129 original size:47 final size:47
Alignment explanation
Indices: 31078075--31078204 Score: 251
Period size: 47 Copynumber: 2.8 Consensus size: 47
31078065 TTAAGTTAAA
31078075 GTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
31078122 GTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
*
31078169 ATTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGG
1 GTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGG
31078205 GTTTTTATTA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 82 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (47 bp):
GTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
Found at i:31078259 original size:25 final size:26
Alignment explanation
Indices: 31078207--31078270 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 26
31078197 AAATTAGGGT
*
31078207 TTTTATTACATCAAATTGAACTTCTA
1 TTTTATTACATCAAATTAAACTTCTA
* *
31078233 TTTTATTATATTAAA-TAAACTTCTA
1 TTTTATTACATCAAATTAAACTTCTA
31078258 TTTTATTACATCA
1 TTTTATTACATCA
31078271 GATAATAAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 20 0.61
26 13 0.39
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (26 bp):
TTTTATTACATCAAATTAAACTTCTA
Found at i:31078311 original size:71 final size:71
Alignment explanation
Indices: 31078229--31078375 Score: 276
Period size: 71 Copynumber: 2.1 Consensus size: 71
31078219 AAATTGAACT
*
31078229 TCTATTTTATTATATTAAATAAACTTCTATTTTATTACATCAGATAATAAGTTTAAATACGGCAA
1 TCTATTTTATTATATTAAATAAACTTCTATTTTATTACATCAGATAATAAATTTAAATACGGCAA
31078294 TCAATG
66 TCAATG
*
31078300 TCTATTTTATTATATTAAATAAACTTCTATTTTGTTACATCAGATAATAAATTTAAATACGGCAA
1 TCTATTTTATTATATTAAATAAACTTCTATTTTATTACATCAGATAATAAATTTAAATACGGCAA
31078365 TCAATG
66 TCAATG
31078371 TCTAT
1 TCTAT
31078376 GCCCGGGGGA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.43
Consensus pattern (71 bp):
TCTATTTTATTATATTAAATAAACTTCTATTTTATTACATCAGATAATAAATTTAAATACGGCAA
TCAATG
Found at i:31079446 original size:7 final size:7
Alignment explanation
Indices: 31079436--31079460 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31079426 TTATATACAT
31079436 AATACTA
1 AATACTA
31079443 AATACTA
1 AATACTA
31079450 AATACTA
1 AATACTA
31079457 AATA
1 AATA
31079461 TCAATAGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:31080604 original size:29 final size:31
Alignment explanation
Indices: 31080540--31080603 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
31080530 ACCATTGATG
31080540 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
*
31080571 AAAATAT-AAAAAATTTAAATTTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
31080601 AAA
1 AAA
31080604 TGAAATTGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 25 0.78
31 7 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (31 bp):
AAAATATAAAAAAATTTAAAATTATTTTAAA
Found at i:31080660 original size:29 final size:29
Alignment explanation
Indices: 31080628--31080711 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 29
31080618 AATTGAAATT
31080628 AAATATGGATTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
* * **
31080657 AAAT-T-GA---GAG-GAA-ATTGAAATT
1 AAATATGGATTTGAGAGAATTTTGGAAGG
*
31080679 AAATATGGGTTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
31080708 AAAT
1 AAAT
31080712 TGAGAGGATT
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
22 9 0.23
23 4 0.10
24 4 0.10
27 5 0.13
28 4 0.10
29 13 0.33
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.30
Consensus pattern (29 bp):
AAATATGGATTTGAGAGAATTTTGGAAGG
Found at i:31080661 original size:51 final size:51
Alignment explanation
Indices: 31080605--31080719 Score: 212
Period size: 51 Copynumber: 2.3 Consensus size: 51
31080595 TTTAAAAAAT
*
31080605 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
*
31080656 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
31080707 GAAATTGAGAGGA
1 GAAATTGAGAGGA
31080720 TTAGAGAGGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:31080986 original size:28 final size:28
Alignment explanation
Indices: 31080928--31080988 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
31080918 CGATTTCCCG
* *
31080928 AAAAATGGCCTATTCCGGTAAATAATCA
1 AAAAATGGCCCATTCCGGTAAATAATAA
* *
31080956 AAAAATCGGCCCATTTCGGTAAAT-TTAA
1 AAAAAT-GGCCCATTCCGGTAAATAATAA
31080984 AAAAA
1 AAAAA
31080989 ACCGGCTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (28 bp):
AAAAATGGCCCATTCCGGTAAATAATAA
Found at i:31088365 original size:24 final size:25
Alignment explanation
Indices: 31088338--31088391 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 25
31088328 CACACCACAA
*
31088338 CTCGTGTGACCTTACCGATT-TTAG
1 CTCGTGAGACCTTACCGATTCTTAG
*
31088362 CTCGTGAGAGCTTACCGATTCTTAG
1 CTCGTGAGACCTTACCGATTCTTAG
31088387 CTCGT
1 CTCGT
31088392 ATTAGCTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 18 0.67
25 9 0.33
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (25 bp):
CTCGTGAGACCTTACCGATTCTTAG
Found at i:31088398 original size:25 final size:24
Alignment explanation
Indices: 31088338--31088441 Score: 93
Period size: 25 Copynumber: 4.2 Consensus size: 24
31088328 CACACCACAA
* *
31088338 CTCGTGTGACCTTACCGATTTTAG
1 CTCGTGAGAGCTTACCGATTTTAG
31088362 CTCGTGAGAGCTTACCGATTCTTAG
1 CTCGTGAGAGCTTACCGATT-TTAG
* * *
31088387 CTCGT-ATTAGCTTACCAATTTCCAG
1 CTCGTGA-GAGCTTACCGATTT-TAG
* * *
31088412 CTCGTGAGAGCATACTGATTCATAG
1 CTCGTGAGAGCTTACCGATT-TTAG
31088437 CTCGT
1 CTCGT
31088442 ATGAGTATAC
Statistics
Matches: 64, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
24 20 0.31
25 43 0.67
26 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (24 bp):
CTCGTGAGAGCTTACCGATTTTAG
Found at i:31112863 original size:20 final size:20
Alignment explanation
Indices: 31112840--31112971 Score: 74
Period size: 20 Copynumber: 6.6 Consensus size: 20
31112830 TAGGGCCATG
31112840 AAAGTGCAATCAGGGGTAAC
1 AAAGTGCAATCAGGGGTAAC
* * **
31112860 AAAGTACAAAT-AGGGGCATG
1 AAAGTGC-AATCAGGGGTAAC
* *
31112880 TAAGTGCAATCAGGGGTACC
1 AAAGTGCAATCAGGGGTAAC
* *
31112900 AAAGTACACAT-AGGGG-CAC
1 AAAGTGCA-ATCAGGGGTAAC
* * *
31112919 GTAAGTGCAATCAGGCGTACC
1 -AAAGTGCAATCAGGGGTAAC
* * *
31112940 AAAGTACAAACAGGGG-CAC
1 AAAGTGCAATCAGGGGTAAC
31112959 AAGAGTGCAATCA
1 AA-AGTGCAATCA
31112972 TCCAATAATT
Statistics
Matches: 79, Mismatches: 26, Indels: 14
0.66 0.22 0.12
Matches are distributed among these distances:
19 9 0.11
20 64 0.81
21 6 0.08
ACGTcount: A:0.39, C:0.18, G:0.28, T:0.14
Consensus pattern (20 bp):
AAAGTGCAATCAGGGGTAAC
Found at i:31112885 original size:40 final size:40
Alignment explanation
Indices: 31112830--31112957 Score: 193
Period size: 40 Copynumber: 3.2 Consensus size: 40
31112820 GGAGTATAAC
* * *
31112830 TAGGGCCATGAAAGTGCAATCAGGGGTAACAAAGTACAAA
1 TAGGGGCATGTAAGTGCAATCAGGGGTACCAAAGTACAAA
*
31112870 TAGGGGCATGTAAGTGCAATCAGGGGTACCAAAGTACACA
1 TAGGGGCATGTAAGTGCAATCAGGGGTACCAAAGTACAAA
* *
31112910 TAGGGGCACGTAAGTGCAATCAGGCGTACCAAAGTACAAA
1 TAGGGGCATGTAAGTGCAATCAGGGGTACCAAAGTACAAA
*
31112950 CAGGGGCA
1 TAGGGGCA
31112958 CAAGAGTGCA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.38, C:0.18, G:0.30, T:0.15
Consensus pattern (40 bp):
TAGGGGCATGTAAGTGCAATCAGGGGTACCAAAGTACAAA
Found at i:31112958 original size:40 final size:40
Alignment explanation
Indices: 31112841--31112971 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
31112831 AGGGCCATGA
* *
31112841 AAGTGCAATCAGGGGTAACAAAGTACAAATAGGGGCATGT
1 AAGTGCAATCAGGGGTACCAAAGTACAAATAGGGGCACGT
*
31112881 AAGTGCAATCAGGGGTACCAAAGTACACATAGGGGCACGT
1 AAGTGCAATCAGGGGTACCAAAGTACAAATAGGGGCACGT
* * *
31112921 AAGTGCAATCAGGCGTACCAAAGTACAAACAGGGGCAC-A
1 AAGTGCAATCAGGGGTACCAAAGTACAAATAGGGGCACGT
31112960 AGAGTGCAATCA
1 A-AGTGCAATCA
31112972 TCCAATAATT
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 82 0.99
ACGTcount: A:0.39, C:0.18, G:0.28, T:0.15
Consensus pattern (40 bp):
AAGTGCAATCAGGGGTACCAAAGTACAAATAGGGGCACGT
Found at i:31129892 original size:25 final size:24
Alignment explanation
Indices: 31129864--31129945 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 24
31129854 CAAGCTATAC
31129864 ATCGGTAAGTTAATACAAGTTGAGA
1 ATCGGTAAGTT-ATACAAGTTGAGA
** * *
31129889 ATCGGTAAACTCTCACAAGTTG-TA
1 ATCGGTAAGTTAT-ACAAGTTGAGA
*
31129913 ATCGGTAAGTTTATACGA-TCTGAGA
1 ATCGGTAAG-TTATACAAGT-TGAGA
31129938 ATCGGTAA
1 ATCGGTAA
31129946 TCCCTAATGA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
23 1 0.02
24 15 0.34
25 28 0.64
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.29
Consensus pattern (24 bp):
ATCGGTAAGTTATACAAGTTGAGA
Found at i:31129937 original size:49 final size:50
Alignment explanation
Indices: 31129848--31129945 Score: 137
Period size: 49 Copynumber: 2.0 Consensus size: 50
31129838 AATCGATATG
31129848 CTCTCACAAGCTATACATCGGTAAGTTAATACAAGTTGAGAATCGGTAAA
1 CTCTCACAAGCTATACATCGGTAAGTTAATACAAGTTGAGAATCGGTAAA
* * * *
31129898 CTCTCACAAGTTGTA-ATCGGTAAGTTTATACGA-TCTGAGAATCGGTAA
1 CTCTCACAAGCTATACATCGGTAAGTTAATACAAGT-TGAGAATCGGTAA
31129946 TCCCTAATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
48 1 0.02
49 29 0.67
50 13 0.30
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (50 bp):
CTCTCACAAGCTATACATCGGTAAGTTAATACAAGTTGAGAATCGGTAAA
Found at i:31148567 original size:20 final size:20
Alignment explanation
Indices: 31148503--31148567 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
31148493 TACTTCGGTA
*
31148503 CCCCTGAACGCACTTATGTG
1 CCCCTGATCGCACTTATGTG
* * * ** *
31148523 CCCCTG-TTGTACATCGGTT
1 CCCCTGATCGCACTTATGTG
31148542 CCCCTGATCGCACTTATGTG
1 CCCCTGATCGCACTTATGTG
31148562 CCCCTG
1 CCCCTG
31148568 TTGTACTTTA
Statistics
Matches: 31, Mismatches: 13, Indels: 2
0.67 0.28 0.04
Matches are distributed among these distances:
19 12 0.39
20 19 0.61
ACGTcount: A:0.14, C:0.37, G:0.20, T:0.29
Consensus pattern (20 bp):
CCCCTGATCGCACTTATGTG
Found at i:31148642 original size:20 final size:20
Alignment explanation
Indices: 31148436--31148691 Score: 126
Period size: 19 Copynumber: 13.2 Consensus size: 20
31148426 CCCTGAACGC
31148436 ACTTACGTGCCCCTG-TTGT
1 ACTTACGTGCCCCTGATTGT
* ****
31148455 ACTT-CGATACCCCTGAACAC
1 ACTTACG-TGCCCCTGATTGT
*
31148475 ACTTACGTTCCCCT-ATTGT
1 ACTTACGTGCCCCTGATTGT
* ** *
31148494 ACTT-CGGTACCCCTGAACGC
1 ACTTAC-GTGCCCCTGATTGT
*
31148514 ACTTATGTGCCCCTG-TTGT
1 ACTTACGTGCCCCTGATTGT
* * * *
31148533 ACAT-CGGTTCCCCTGATCGC
1 ACTTAC-GTGCCCCTGATTGT
*
31148553 ACTTATGTGCCCCTG-TTGT
1 ACTTACGTGCCCCTGATTGT
* * *
31148572 ACTTTA-GTACCCC-GATCGC
1 AC-TTACGTGCCCCTGATTGT
* * *
31148591 ACTTACATGCCACTG-TTAT
1 ACTTACGTGCCCCTGATTGT
* * *
31148610 ACTT-CGGTACCCCTGACTGC
1 ACTTAC-GTGCCCCTGATTGT
31148630 ACTTACGTGCCCCTG-TTGT
1 ACTTACGTGCCCCTGATTGT
*
31148649 ACTT-CGGTACCCCTGATTGT
1 ACTTAC-GTGCCCCTGATTGT
31148669 ACTTACGTGCCCCTG-TTGT
1 ACTTACGTGCCCCTGATTGT
31148688 ACTT
1 ACTT
31148692 CGGTACTCCT
Statistics
Matches: 169, Mismatches: 49, Indels: 38
0.66 0.19 0.15
Matches are distributed among these distances:
18 9 0.05
19 86 0.51
20 70 0.41
21 4 0.02
ACGTcount: A:0.16, C:0.33, G:0.18, T:0.33
Consensus pattern (20 bp):
ACTTACGTGCCCCTGATTGT
Found at i:31148646 original size:116 final size:118
Alignment explanation
Indices: 31148426--31148691 Score: 360
Period size: 116 Copynumber: 2.3 Consensus size: 118
31148416 GTAAATTATG
* * * * *
31148426 CCCTGAACGCACTTACGTGCCCCTGTTGTAC-TTCGATACCCCTGAACACACTTACGTTCCCCTA
1 CCCTGATCGCACTTACGTGCCCCTGTTGTACTTTAGATACCCCTGAACACACTTACATGCCACTA
* * *
31148490 TTGTACTTCGGTACCCCTGAACGCACTTATGTGCCCCTGTTGTACATCGGTTC
66 TTATACTTCGGTACCCCTGAACGCACTTACGTGCCCCTGTTGTACATCGGTAC
* * * *
31148543 CCCTGATCGCACTTATGTGCCCCTGTTGTACTTTAG-TACCCC-GATCGCACTTACATGCCACTG
1 CCCTGATCGCACTTACGTGCCCCTGTTGTACTTTAGATACCCCTGAACACACTTACATGCCACTA
*
31148606 TTATACTTCGGTACCCCTG-ACTGCACTTACGTGCCCCTGTTGTACTTCGGTAC
66 TTATACTTCGGTACCCCTGAAC-GCACTTACGTGCCCCTGTTGTACATCGGTAC
* *
31148659 CCCTGATTGTACTTACGTGCCCCTGTTGTACTT
1 CCCTGATCGCACTTACGTGCCCCTGTTGTACTT
31148692 CGGTACTCCT
Statistics
Matches: 131, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
115 2 0.02
116 91 0.69
117 35 0.27
118 3 0.02
ACGTcount: A:0.17, C:0.34, G:0.18, T:0.32
Consensus pattern (118 bp):
CCCTGATCGCACTTACGTGCCCCTGTTGTACTTTAGATACCCCTGAACACACTTACATGCCACTA
TTATACTTCGGTACCCCTGAACGCACTTACGTGCCCCTGTTGTACATCGGTAC
Found at i:31148702 original size:19 final size:19
Alignment explanation
Indices: 31148603--31148702 Score: 96
Period size: 19 Copynumber: 5.2 Consensus size: 19
31148593 TTACATGCCA
*
31148603 CTGTTATACTTCGGTACCC
1 CTGTTGTACTTCGGTACCC
* * *
31148622 CTGACTGCACTTAC-GTGCCC
1 CTG-TTGTACTT-CGGTACCC
31148642 CTGTTGTACTTCGGTACCC
1 CTGTTGTACTTCGGTACCC
*
31148661 CTGATTGTACTTAC-GTGCCC
1 CTG-TTGTACTT-CGGTACCC
*
31148681 CTGTTGTACTTCGGTACTC
1 CTGTTGTACTTCGGTACCC
31148700 CTG
1 CTG
31148703 ATAACACTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
18 2 0.03
19 32 0.49
20 29 0.45
21 2 0.03
ACGTcount: A:0.13, C:0.32, G:0.20, T:0.35
Consensus pattern (19 bp):
CTGTTGTACTTCGGTACCC
Found at i:31148704 original size:39 final size:39
Alignment explanation
Indices: 31148426--31148704 Score: 364
Period size: 39 Copynumber: 7.2 Consensus size: 39
31148416 GTAAATTATG
* *
31148426 CCCTGAACGCACTTACGTGCCCCTGTTGTACTTCGATAC
1 CCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGGTAC
* * * *
31148465 CCCTGAACACACTTACGTTCCCCTATTGTACTTCGGTAC
1 CCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGGTAC
* * * *
31148504 CCCTGAACGCACTTATGTGCCCCTGTTGTACATCGGTTC
1 CCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGGTAC
* **
31148543 CCCTGATCGCACTTATGTGCCCCTGTTGTACTTTAGTAC
1 CCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGGTAC
* * *
31148582 CCC-GATCGCACTTACATGCCACTGTTATACTTCGGTAC
1 CCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGGTAC
31148620 CCCTGA-CTGCACTTACGTGCCCCTGTTGTACTTCGGTAC
1 CCCTGATC-GCACTTACGTGCCCCTGTTGTACTTCGGTAC
* *
31148659 CCCTGATTGTACTTACGTGCCCCTGTTGTACTTCGGTAC
1 CCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGGTAC
*
31148698 TCCTGAT
1 CCCTGAT
31148705 AACACTTTTG
Statistics
Matches: 210, Mismatches: 27, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
38 33 0.16
39 177 0.84
ACGTcount: A:0.16, C:0.34, G:0.18, T:0.32
Consensus pattern (39 bp):
CCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGGTAC
Found at i:31157808 original size:222 final size:222
Alignment explanation
Indices: 31157422--31157848 Score: 579
Period size: 222 Copynumber: 1.9 Consensus size: 222
31157412 ACATCCCAGC
* * * *
31157422 TAAGATCTGTTAGGGTAATGATTTTCCAGCAATGCCTATCACATACGCAATGGAAAAGGATTTGT
1 TAAGATCTATTAGGGTAATGATGTGCCAGCAATGCCTATCACATACGCAATGGAAAAGGAATTGT
* * * * *
31157487 CTGTACACCGTAGGAAAGCATTATCCAATAAGTATCAAAAAGTAGTGATGCAAAGAGGCTAAATA
66 CCGTACACCGCAGGAAAGCATTATCCAATAAGTATCAAAAACTAGTGATGCAAAGAGCCTAAACA
* * * * *
31157552 TGTATCACCCTATACCCGGCATGGTCATCAAGCCCGAATACGGGATGCCACACCACCATCTCATG
131 TGTAACACCCTATACCCGACATGGTCACCAAGCCCAAATAAGGGATGCCACACCACCATCTCATG
31157617 TAATGTACAACAAGTAAAGGTCCTAGT
196 TAATGTACAACAAGTAAAGGTCCTAGT
* * *
31157644 TAAGATCTATTGGGGTAATGATGTGCCAGCAATTCCTATCACATAGGCAA-GGAAAAAGGAATTG
1 TAAGATCTATTAGGGTAATGATGTGCCAGCAATGCCTATCACATACGCAATGG-AAAAGGAATTG
* * * * * * **
31157708 TCCGTAGACCGCAGGAAAGGATTTTCCAATAAGTATCAACAACTAGTGATTCCAAGAAGCCT-GG
65 TCCGTACACCGCAGGAAAGCATTATCCAATAAGTATCAAAAACTAGTGATGCAAAG-AGCCTAAA
*
31157772 CATGTAACACCCTATACTCGACATGGTCACCAAGCCCAAATAAGGGATGCCACACCACCATCTCA
129 CATGTAACACCCTATACCCGACATGGTCACCAAGCCCAAATAAGGGATGCCACACCACCATCTCA
*
31157837 TGTCATGTACAA
194 TGTAATGTACAA
31157849 TAAGACACGG
Statistics
Matches: 176, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
221 2 0.01
222 170 0.97
223 4 0.02
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (222 bp):
TAAGATCTATTAGGGTAATGATGTGCCAGCAATGCCTATCACATACGCAATGGAAAAGGAATTGT
CCGTACACCGCAGGAAAGCATTATCCAATAAGTATCAAAAACTAGTGATGCAAAGAGCCTAAACA
TGTAACACCCTATACCCGACATGGTCACCAAGCCCAAATAAGGGATGCCACACCACCATCTCATG
TAATGTACAACAAGTAAAGGTCCTAGT
Found at i:31165411 original size:14 final size:14
Alignment explanation
Indices: 31165371--31165400 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
31165361 TGATTAGTGC
31165371 TTAA-TTAACTTAA
1 TTAATTTAACTTAA
31165384 TTAATTTAACTTAA
1 TTAATTTAACTTAA
31165398 TTA
1 TTA
31165401 TGTTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAATTTAACTTAA
Found at i:31175730 original size:25 final size:27
Alignment explanation
Indices: 31175675--31175730 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 27
31175665 TAAACATTAC
* *
31175675 ATTAAATTTAATATTAAGATAATCACT
1 ATTAAAATTAATATTAAGAAAATCACT
*
31175702 -TTAAAATTAA-ATTAATAAAAT-ACT
1 ATTAAAATTAATATTAAGAAAATCACT
31175726 ATTAA
1 ATTAA
31175731 GGTAAGTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 3 0.12
25 13 0.52
26 9 0.36
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (27 bp):
ATTAAAATTAATATTAAGAAAATCACT
Found at i:31184304 original size:44 final size:45
Alignment explanation
Indices: 31184135--31184310 Score: 221
Period size: 45 Copynumber: 4.0 Consensus size: 45
31184125 GTGTACTGAG
* * **
31184135 TATCATTGATTATAAAAGTGGTTGCTATGTGTTGATTCCACCGGG
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAA
* * *
31184180 TACCATTGATTATAAAGGTGGTTACTATGTGCTGACTCCACCGAA
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAA
* ** *
31184225 GATCATTGAAAATAAAGGTGGTTGCTATGTGCTGATTCCAGCGAA
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAA
* *
31184270 TATAATTGATTATAAGGGTGG-TGCTATGTGCTGA-TCCACCG
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
31184311 TGTAACGGTT
Statistics
Matches: 111, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 6 0.05
44 13 0.12
45 92 0.83
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (45 bp):
TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAA
Found at i:31191630 original size:457 final size:457
Alignment explanation
Indices: 31190776--31191636 Score: 1668
Period size: 457 Copynumber: 1.9 Consensus size: 457
31190766 GAGAAGTTAG
31190776 ATTTGGTGACAACTTTACAAAACAAATGGAAGGAATAGGCTCTATTGGTAAAAATTCTTCTATCA
1 ATTTGGTGACAACTTTACAAAACAAATGGAAGGAATAGGCTCTATTGGTAAAAATTCTTCTATCA
31190841 TTATTGAAAATGTCTTGCATGTCAACGATCTTAAGCATATTCTTCTAATAATTAGTCAATTATGT
66 TTATTGAAAATGTCTTGCATGTCAACGATCTTAAGCATATTCTTCTAATAATTAGTCAATTATGT
*
31190906 GATAAAGGTTTCAATGTCATATTTGAGTCTAAATGTTGTAAAGCTATTGACATTGCTTTTAATAA
131 GATAAAGGTTTCAATGTCATATTTGAGTCTAAATGTTGTAAAGCTATTGACATTGCTTCTAATAA
31190971 GATTATGCTTGTAGGACATAGGATAGAAAATATATATTTGGTGCATTTAGATGATATGCATAACT
196 GATTATGCTTGTAGGACATAGGATAGAAAATATATATTTGGTGCATTTAGATGATATGCATAACT
31191036 CTAGATTATCCCTTATTGCTAAAAATAAGAATAGCTCTTTATTATGGCATAGAAAACTAGGACAA
261 CTAGATTATCCCTTATTGCTAAAAATAAGAATAGCTCTTTATTATGGCATAGAAAACTAGGACAA
31191101 GGTAGCATGAGCGTATTGCATAAATTAGTTAAAAATGACTTAGCAAGAGGATTACCTAAAATTGA
326 GGTAGCATGAGCGTATTGCATAAATTAGTTAAAAATGACTTAGCAAGAGGATTACCTAAAATTGA
31191166 CTTTGATGTGAATTATATTTGTGATGCTTGTATTAAGGGTAAACATAAAAAAGTGTCTTGTAAAA
391 CTTTGATGTGAATTATATTTGTGATGCTTGTATTAAGGGTAAACATAAAAAAGTGTCTTGTAAAA
31191231 AC
456 AC
31191233 ATTTGGTGACAACTTTACAAAACAAATGGAAGGAATAGGCTCTATTGGTAAAAATTCTTCTATCA
1 ATTTGGTGACAACTTTACAAAACAAATGGAAGGAATAGGCTCTATTGGTAAAAATTCTTCTATCA
*
31191298 TTATTGAAAATGTCTTGCATGTCAACGGTCTTAAGCATATTCTTCTAATAATTAGTCAATTATGT
66 TTATTGAAAATGTCTTGCATGTCAACGATCTTAAGCATATTCTTCTAATAATTAGTCAATTATGT
* *
31191363 GATAAAGGTTTCAATGTTATATTTGAGTCTAAATGTTGTAAAGTTATTGACATTGCTTCTAATAA
131 GATAAAGGTTTCAATGTCATATTTGAGTCTAAATGTTGTAAAGCTATTGACATTGCTTCTAATAA
31191428 GATTATGCTTGTAGGACATAGGATAGAAAATATATATTTGGTGCATTTAGATGATATGCATAACT
196 GATTATGCTTGTAGGACATAGGATAGAAAATATATATTTGGTGCATTTAGATGATATGCATAACT
* *
31191493 CTAGCTTTTCCCTTATTGCTAAAAATAAGAATAGCTCTTTATTATGGCATAGAAAACTAGGACAA
261 CTAGATTATCCCTTATTGCTAAAAATAAGAATAGCTCTTTATTATGGCATAGAAAACTAGGACAA
31191558 GGTAGCATGAGCGTATTGCATAAATTAGTTAAAAATGACTTAGCAAGAGGATTACCTAAAATTGA
326 GGTAGCATGAGCGTATTGCATAAATTAGTTAAAAATGACTTAGCAAGAGGATTACCTAAAATTGA
31191623 CTTTGATGTGAATT
391 CTTTGATGTGAATT
31191637 CTTTTAAACC
Statistics
Matches: 398, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
457 398 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (457 bp):
ATTTGGTGACAACTTTACAAAACAAATGGAAGGAATAGGCTCTATTGGTAAAAATTCTTCTATCA
TTATTGAAAATGTCTTGCATGTCAACGATCTTAAGCATATTCTTCTAATAATTAGTCAATTATGT
GATAAAGGTTTCAATGTCATATTTGAGTCTAAATGTTGTAAAGCTATTGACATTGCTTCTAATAA
GATTATGCTTGTAGGACATAGGATAGAAAATATATATTTGGTGCATTTAGATGATATGCATAACT
CTAGATTATCCCTTATTGCTAAAAATAAGAATAGCTCTTTATTATGGCATAGAAAACTAGGACAA
GGTAGCATGAGCGTATTGCATAAATTAGTTAAAAATGACTTAGCAAGAGGATTACCTAAAATTGA
CTTTGATGTGAATTATATTTGTGATGCTTGTATTAAGGGTAAACATAAAAAAGTGTCTTGTAAAA
AC
Found at i:31204044 original size:50 final size:50
Alignment explanation
Indices: 31203927--31204165 Score: 221
Period size: 50 Copynumber: 4.7 Consensus size: 50
31203917 AAAGAGATCT
* *
31203927 CATGTAAGACCATGTCTGGGACATGGAATTGGCATCATTGAGATTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCC
* * *
31203983 TATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** * * **
31204033 CCGGTAAGACCATGTCTGGGACATGGCATAGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * * * * ** *
31204083 CATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAGAAACATCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTCC
*
31204132 CATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
31204166 TGTTATTATC
Statistics
Matches: 154, Mismatches: 28, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 38 0.25
50 81 0.53
53 3 0.02
55 1 0.01
56 30 0.19
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:31205745 original size:439 final size:439
Alignment explanation
Indices: 31204927--31205782 Score: 1703
Period size: 439 Copynumber: 1.9 Consensus size: 439
31204917 TCATAGAAAA
31204927 ATAACGGTGTAGAAAATGGAATTTTATATTCAGAGATATGTGGATTTTAATTAGATATGGTCAGA
1 ATAACGGTGTAGAAAATGGAATTTTATATTCAGAGATATGTGGATTTTAATTAGATATGGTCAGA
31204992 ACTGTTTTTGGAGTTCCCTGTTATGACTTTAGAAAATAATTAAAAATTGTAAAAAAATATTTATG
66 ACTGTTTTTGGAGTTCCCTGTTATGACTTTAGAAAATAATTAAAAATTGTAAAAAAATATTTATG
31205057 AGTTTTACTTCATATTTCTAGATTCCTTAGTGAGTCTTTTTTCTGTATAAACAAGTGAGAACACC
131 AGTTTTACTTCATATTTCTAGATTCCTTAGTGAGTCTTTTTTCTGTATAAACAAGTGAGAACACC
31205122 ATATTAAAATCATACAATGATAAATTTTAATTTTAGTGACGAGAGGTCAAGACAGTCAAACAGTG
196 ATATTAAAATCATACAATGATAAATTTTAATTTTAGTGACGAGAGGTCAAGACAGTCAAACAGTG
31205187 AAATAGTGGAGACTTTAACTAATAAACTGTACTAATTTACCACCCCAAAAATTCTGAAAATTTTA
261 AAATAGTGGAGACTTTAACTAATAAACTGTACTAATTTACCACCCCAAAAATTCTGAAAATTTTA
31205252 TGGTACGAAGATATATGAGTCTAGTTTTGGGGAAAACTTACGAATCTAAATTTTGAGTTTTGTAG
326 TGGTACGAAGATATATGAGTCTAGTTTTGGGGAAAACTTACGAATCTAAATTTTGAGTTTTGTAG
31205317 CTCGAGTTATAATTAATTTAGTAACTAGATATGTGGATTTTAATTAGTT
391 CTCGAGTTATAATTAATTTAGTAACTAGATATGTGGATTTTAATTAGTT
*
31205366 ATAACGGTGTAGAAAATGGAATTTTATATTTAGAGATATGTGGATTTTAATTAGATATGGTCAGA
1 ATAACGGTGTAGAAAATGGAATTTTATATTCAGAGATATGTGGATTTTAATTAGATATGGTCAGA
31205431 ACTGTTTTTGGAGTTCCCTGTTATGACTTTAGAAAATAATTAAAAATTGTAAAAAAATATTTATG
66 ACTGTTTTTGGAGTTCCCTGTTATGACTTTAGAAAATAATTAAAAATTGTAAAAAAATATTTATG
31205496 AGTTTTACTTCATATTTCTAGATTCCTTAGTGAGTCTTTTTTCTGTATAAACAAGTGAGAACACC
131 AGTTTTACTTCATATTTCTAGATTCCTTAGTGAGTCTTTTTTCTGTATAAACAAGTGAGAACACC
31205561 ATATTAAAATCATACAATGATAAATTTTAATTTTAGTGACGAGAGGTCAAGACAGTCAAACAGTG
196 ATATTAAAATCATACAATGATAAATTTTAATTTTAGTGACGAGAGGTCAAGACAGTCAAACAGTG
31205626 AAATAGTGGAGACTTTAACTAATAAACTGTACTAATTTACCACCCCAAAAATTCTGAAAATTTTA
261 AAATAGTGGAGACTTTAACTAATAAACTGTACTAATTTACCACCCCAAAAATTCTGAAAATTTTA
31205691 TGGTACGAAGATATATGAGTCTAGTTTTGGGGAAAACTTACGAATCTAAATTTTGAGTTTTGTAG
326 TGGTACGAAGATATATGAGTCTAGTTTTGGGGAAAACTTACGAATCTAAATTTTGAGTTTTGTAG
31205756 CTCGAGTTATAATTAATTTAGTAACTA
391 CTCGAGTTATAATTAATTTAGTAACTA
31205783 CTGCGCAGGT
Statistics
Matches: 416, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
439 416 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (439 bp):
ATAACGGTGTAGAAAATGGAATTTTATATTCAGAGATATGTGGATTTTAATTAGATATGGTCAGA
ACTGTTTTTGGAGTTCCCTGTTATGACTTTAGAAAATAATTAAAAATTGTAAAAAAATATTTATG
AGTTTTACTTCATATTTCTAGATTCCTTAGTGAGTCTTTTTTCTGTATAAACAAGTGAGAACACC
ATATTAAAATCATACAATGATAAATTTTAATTTTAGTGACGAGAGGTCAAGACAGTCAAACAGTG
AAATAGTGGAGACTTTAACTAATAAACTGTACTAATTTACCACCCCAAAAATTCTGAAAATTTTA
TGGTACGAAGATATATGAGTCTAGTTTTGGGGAAAACTTACGAATCTAAATTTTGAGTTTTGTAG
CTCGAGTTATAATTAATTTAGTAACTAGATATGTGGATTTTAATTAGTT
Found at i:31210444 original size:50 final size:50
Alignment explanation
Indices: 31210310--31210502 Score: 145
Period size: 50 Copynumber: 3.7 Consensus size: 50
31210300 ATTTGGGTAA
* * * *
31210310 AGAGATCCCATGTAAGATC-ATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCACGTAAGA-CAATGTCTGGGACATGGCATGGGCA-C--CGAG---ATG
* * * * *
31210366 AGAGGTCCTATGTAAGACAATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCACGTAAGACAATGTCTGGGACATGGCATGGGCACCGAGATG
* * *
31210416 AGAGGTCCCCCGTAAGACTATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCACGTAAGACAATGTCTGGGACATGGCATGGGCACCGAGATG
** * * * * *
31210466 AGAACTCTCATGTAAGACCATATCTGGGATATGGCAT
1 AGAGGTCCCACGTAAGACAATGTCTGGGACATGGCAT
31210503 TGGAAGTACA
Statistics
Matches: 115, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
50 74 0.64
53 3 0.03
55 2 0.02
56 36 0.31
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (50 bp):
AGAGGTCCCACGTAAGACAATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:31212232 original size:26 final size:28
Alignment explanation
Indices: 31212189--31212248 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
31212179 ATTTCGTATG
*
31212189 ACCATTTCATCTAAACATTTCAC-CAT-
1 ACCATTTCATCTAAACATTTAACTCATA
* **
31212215 ACCATTTCATTTGCACATTTAACTCATA
1 ACCATTTCATCTAAACATTTAACTCATA
31212243 ACCATT
1 ACCATT
31212249 CTGTATATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 19 0.68
27 3 0.11
28 6 0.21
ACGTcount: A:0.33, C:0.28, G:0.02, T:0.37
Consensus pattern (28 bp):
ACCATTTCATCTAAACATTTAACTCATA
Found at i:31212611 original size:20 final size:20
Alignment explanation
Indices: 31212568--31212665 Score: 79
Period size: 20 Copynumber: 4.9 Consensus size: 20
31212558 GATGCGTAAC
* * * *
31212568 AGAGGCATCGAAGTGCAGAC
1 AGAGGCACCAAAGTGCAAAT
* ** *
31212588 AGAGGCACTACTGTGCAATT
1 AGAGGCACCAAAGTGCAAAT
31212608 AGAGGCACCAAAGTGCAAAT
1 AGAGGCACCAAAGTGCAAAT
* * *
31212628 AGAGGCACCGAAGTGTAAAC
1 AGAGGCACCAAAGTGCAAAT
* *
31212648 AAAGGCACTAAAGTGCAA
1 AGAGGCACCAAAGTGCAA
31212666 TCCCGTACAA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.40, C:0.19, G:0.28, T:0.13
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAAT
Found at i:31214434 original size:14 final size:14
Alignment explanation
Indices: 31214415--31214445 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
31214405 TCTTGAGTTA
31214415 TAATATCCCATAAT
1 TAATATCCCATAAT
31214429 TAATATCCCATAAT
1 TAATATCCCATAAT
31214443 TAA
1 TAA
31214446 GTGGTGTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.35
Consensus pattern (14 bp):
TAATATCCCATAAT
Found at i:31216733 original size:16 final size:17
Alignment explanation
Indices: 31216712--31216775 Score: 87
Period size: 16 Copynumber: 3.7 Consensus size: 17
31216702 TATGAACCAC
31216712 TCCATTTACTTAT-CAT
1 TCCATTTACTTATCCAT
31216728 TCCATTTACTTACTTTCCAT
1 TCCATTTACTTA---TCCAT
31216748 TCCATTTACTT-TCCAT
1 TCCATTTACTTATCCAT
31216764 TCCATTTACTTA
1 TCCATTTACTTA
31216776 GCATAAGCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
16 28 0.65
19 1 0.02
20 14 0.33
ACGTcount: A:0.22, C:0.28, G:0.00, T:0.50
Consensus pattern (17 bp):
TCCATTTACTTATCCAT
Found at i:31227847 original size:28 final size:28
Alignment explanation
Indices: 31227806--31227866 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
31227796 ATTGTACTGT
*
31227806 ACTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTGTTACTATATTGGGCTAAGGCCCAC
31227834 ACTGTTACTATATTGGGCTAAGGCCCAC
1 ACTGTTACTATATTGGGCTAAGGCCCAC
31227862 ACTGT
1 ACTGT
31227867 ACTGTTACTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (28 bp):
ACTGTTACTATATTGGGCTAAGGCCCAC
Found at i:31227885 original size:33 final size:31
Alignment explanation
Indices: 31227801--31227885 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 31
31227791 GCATTATTGT
*
31227801 ACTGTACTGTTACTGTATTGGGCTAAGGCCC
1 ACTGTACTGTTACTGAATTGGGCTAAGGCCC
31227832 AC---ACTGTTACT-ATATTGGGCTAAGGCCCAC
1 ACTGTACTGTTACTGA-ATTGGGCTAAGG-CC-C
*
31227862 ACTGTACTGTTACTGAATAGGGCT
1 ACTGTACTGTTACTGAATTGGGCT
31227886 CAAGCCTAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
28 21 0.47
29 2 0.04
30 3 0.07
31 2 0.04
33 16 0.36
34 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (31 bp):
ACTGTACTGTTACTGAATTGGGCTAAGGCCC
Found at i:31233519 original size:20 final size:20
Alignment explanation
Indices: 31233476--31233526 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
31233466 TTGCACTGCA
*
31233476 GTGCCTCTGCTTGCACAATC
1 GTGCCTCTGTTTGCACAATC
** *
31233496 GTGCCTCTGTTTGCACTTTG
1 GTGCCTCTGTTTGCACAATC
31233516 GTGCCTCTGTT
1 GTGCCTCTGTT
31233527 ATTATCTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.08, C:0.29, G:0.24, T:0.39
Consensus pattern (20 bp):
GTGCCTCTGTTTGCACAATC
Found at i:31234559 original size:28 final size:28
Alignment explanation
Indices: 31234527--31234581 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
31234517 AAAATGTCAA
*
31234527 CAATTACAAAACCATATATACATGCCAT
1 CAATTACAAAACCACATATACATGCCAT
*
31234555 CAATTATAAAACCACATATACATGCCA
1 CAATTACAAAACCACATATACATGCCA
31234582 ACATAACAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.47, C:0.25, G:0.04, T:0.24
Consensus pattern (28 bp):
CAATTACAAAACCACATATACATGCCAT
Found at i:31235677 original size:21 final size:19
Alignment explanation
Indices: 31235631--31235669 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
31235621 CTAAATGAAT
*
31235631 AAATTCAATTCATTCAATA
1 AAATTCTATTCATTCAATA
31235650 ATAATTCTATTCAATTCAAT
1 A-AATTCTATTC-ATTCAAT
31235670 CCAAATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 9 0.53
21 7 0.41
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATTCTATTCATTCAATA
Found at i:31244297 original size:17 final size:17
Alignment explanation
Indices: 31244266--31244309 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
31244256 TTAAATAATA
*
31244266 TATAAAATCTAATAAACTT
1 TATAAAAT-TTATAAA-TT
31244285 TA-AAAATTTATAAATT
1 TATAAAATTTATAAATT
31244301 TATAAAATT
1 TATAAAATT
31244310 AAAATAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 4 0.17
17 12 0.52
18 5 0.22
19 2 0.09
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAAAATTTATAAATT
Found at i:31249757 original size:18 final size:18
Alignment explanation
Indices: 31249730--31249767 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
31249720 TCCCGAATAT
31249730 CTATCCAACTCAAATTTA
1 CTATCCAACTCAAATTTA
* *
31249748 CTATCTAACTCAGATTTA
1 CTATCCAACTCAAATTTA
31249766 CT
1 CT
31249768 TTTCAAGCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (18 bp):
CTATCCAACTCAAATTTA
Found at i:31251261 original size:22 final size:22
Alignment explanation
Indices: 31251236--31251281 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
31251226 AAATTTTAAA
31251236 ATTTCAATATAATCAT-GCATAT
1 ATTTCAATATAAT-ATAGCATAT
*
31251258 ATTTCAATCTAATATAGCATAT
1 ATTTCAATATAATATAGCATAT
31251280 AT
1 AT
31251282 CGAAACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.41, C:0.13, G:0.04, T:0.41
Consensus pattern (22 bp):
ATTTCAATATAATATAGCATAT
Found at i:31254822 original size:29 final size:29
Alignment explanation
Indices: 31254779--31254834 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
31254769 CAGCCAAGCA
* * *
31254779 AATTAATTAATTTTTTTTAATTAAATATT
1 AATTAATTAAATTTTCTAAATTAAATATT
31254808 AATTAATTAAATTTTCTAAATTAAATA
1 AATTAATTAAATTTTCTAAATTAAATA
31254835 AAGGAAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
AATTAATTAAATTTTCTAAATTAAATATT
Found at i:31256110 original size:32 final size:32
Alignment explanation
Indices: 31256047--31256115 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
31256037 ATATTTACCA
*
31256047 ATATTGATGTGTTTATTTGTATCATTTTGAAT
1 ATATTGATGTGTTTATTTGTATCATTATGAAT
* *
31256079 TTATTGATGTTTTTATTT-TCA-CATATATGAAT
1 ATATTGATGTGTTTATTTGT-ATCAT-TATGAAT
31256111 ATATT
1 ATATT
31256116 TATAATCTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
31 4 0.13
32 27 0.87
ACGTcount: A:0.28, C:0.04, G:0.12, T:0.57
Consensus pattern (32 bp):
ATATTGATGTGTTTATTTGTATCATTATGAAT
Found at i:31260564 original size:24 final size:22
Alignment explanation
Indices: 31260531--31260578 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 22
31260521 TTATCAAATA
31260531 TAAAAGTAAAATAAGTTATATATT
1 TAAAAGTAAAATAA-TTATA-ATT
*
31260555 TAAAATTAAAATAATTATAATT
1 TAAAAGTAAAATAATTATAATT
31260577 TA
1 TA
31260579 TTTGAATCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.22
23 5 0.22
24 13 0.57
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
TAAAAGTAAAATAATTATAATT
Found at i:31264069 original size:4 final size:4
Alignment explanation
Indices: 31264060--31264085 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
31264050 GTTTAAGTAC
31264060 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
31264086 CTTTATGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:31266302 original size:20 final size:20
Alignment explanation
Indices: 31266277--31266329 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
31266267 TATTAGATTA
*
31266277 AAAAATTGTAAACA-TTTATT
1 AAAAATTGTAAA-AGTATATT
*
31266297 AAAAATCG-AAAAGTATATT
1 AAAAATTGTAAAAGTATATT
31266316 AAAAATTTGTAAAA
1 AAAAA-TTGTAAAA
31266330 AGAAAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 1 0.04
19 13 0.48
20 9 0.33
21 4 0.15
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.32
Consensus pattern (20 bp):
AAAAATTGTAAAAGTATATT
Found at i:31267483 original size:109 final size:109
Alignment explanation
Indices: 31267335--31267566 Score: 437
Period size: 109 Copynumber: 2.1 Consensus size: 109
31267325 AATTTCACAA
*
31267335 AAAAATTGAAAAAAAATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAAGC
1 AAAAA-TGATAAAAAATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAAGC
31267400 AAAAATTGTGCATAGTAGATTTCCCAGTAAAGTAAAATAAAGAAT
65 AAAAATTGTGCATAGTAGATTTCCCAGTAAAGTAAAATAAAGAAT
31267445 AAAAATGATAAAAAATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAAGCA
1 AAAAATGATAAAAAATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAAGCA
31267510 AAAATTGTGCATAGTAGATTTCCCAGTAAAGTAAAATAAAGAAT
66 AAAATTGTGCATAGTAGATTTCCCAGTAAAGTAAAATAAAGAAT
*
31267554 ATAAATGATAAAA
1 AAAAATGATAAAA
31267567 GAAAAGGTTG
Statistics
Matches: 120, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
109 115 0.96
110 5 0.04
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.25
Consensus pattern (109 bp):
AAAAATGATAAAAAATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAAGCA
AAAATTGTGCATAGTAGATTTCCCAGTAAAGTAAAATAAAGAAT
Found at i:31267986 original size:25 final size:25
Alignment explanation
Indices: 31267958--31268032 Score: 84
Period size: 25 Copynumber: 3.0 Consensus size: 25
31267948 ACCAAAAATT
31267958 TATTTTAAATTAAAAATATTTAAAA
1 TATTTTAAATTAAAAATATTTAAAA
31267983 TA-TTTATAATTAAAAAT-TTTAAAAA
1 TATTTTA-AATTAAAAATATTT-AAAA
* *
31268008 TTTTTTAAAATTAAAAA-ATTAAAAA
1 TATTTT-AAATTAAAAATATTTAAAA
31268033 AAGTATTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
24 7 0.16
25 21 0.49
26 14 0.33
27 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TATTTTAAATTAAAAATATTTAAAA
Found at i:31268045 original size:11 final size:11
Alignment explanation
Indices: 31268031--31268056 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
31268021 AAAAATTAAA
31268031 AAAAGTATTTT
1 AAAAGTATTTT
31268042 AAAAGTATTTT
1 AAAAGTATTTT
31268053 AAAA
1 AAAA
31268057 TAAAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:31271883 original size:5 final size:5
Alignment explanation
Indices: 31271873--31271897 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
31271863 TCCAAATATG
31271873 TGAAT TGAAT TGAAT TGAAT TGAAT
1 TGAAT TGAAT TGAAT TGAAT TGAAT
31271898 ATAAATTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
TGAAT
Found at i:31272465 original size:25 final size:27
Alignment explanation
Indices: 31272409--31272473 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 27
31272399 CCGGAGCTTT
* * *
31272409 CCGATTAAAGGCTCTTTCATGAGCTTC
1 CCGATTAATGGCTCTTCCATGAGCTAC
*
31272436 TCGATTAATGGCTC-TCCA-GAGCTAC
1 CCGATTAATGGCTCTTCCATGAGCTAC
*
31272461 CCGA-TATTGGCTC
1 CCGATTAATGGCTC
31272474 ACATGAGCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 8 0.25
25 9 0.28
26 3 0.09
27 12 0.38
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.31
Consensus pattern (27 bp):
CCGATTAATGGCTCTTCCATGAGCTAC
Found at i:31274282 original size:15 final size:16
Alignment explanation
Indices: 31274262--31274296 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
31274252 TTACATCGGT
31274262 TAATTCAGTT-AATGA
1 TAATTCAGTTCAATGA
*
31274277 TAATTCGGTTCAATGA
1 TAATTCAGTTCAATGA
31274293 TAAT
1 TAAT
31274297 CGAATTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (16 bp):
TAATTCAGTTCAATGA
Found at i:31286705 original size:48 final size:48
Alignment explanation
Indices: 31286634--31286728 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
31286624 TGCAGATCGA
31286634 TGAACTAGATGAATGGCGAATGAAAGTTGATGAGAAACCGAGAAAACT
1 TGAACTAGATGAATGGCGAATGAAAGTTGATGAGAAACCGAGAAAACT
* **
31286682 TGAACTAGATGAATGGCGAATGAAGGTTGATGAGAAATTGAGAAAAC
1 TGAACTAGATGAATGGCGAATGAAAGTTGATGAGAAACCGAGAAAAC
31286729 ACAAGGAAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.43, C:0.08, G:0.28, T:0.20
Consensus pattern (48 bp):
TGAACTAGATGAATGGCGAATGAAAGTTGATGAGAAACCGAGAAAACT
Found at i:31287903 original size:14 final size:14
Alignment explanation
Indices: 31287884--31287945 Score: 54
Period size: 14 Copynumber: 4.2 Consensus size: 14
31287874 ACTTCTCCCC
*
31287884 TTCTTTTTTTATTT
1 TTCTTTTATTATTT
31287898 TTCTTTTATTATTAT
1 TTCTTTTATTATT-T
31287913 TAT-TTATTATTATTAT
1 T-TCTT-TTATTATT-T
* *
31287929 TACTATTATTATTT
1 TTCTTTTATTATTT
31287943 TTC
1 TTC
31287946 CAAAAGTAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
14 15 0.38
15 12 0.30
16 13 0.32
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (14 bp):
TTCTTTTATTATTT
Found at i:31287909 original size:3 final size:3
Alignment explanation
Indices: 31287903--31287941 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
31287893 TATTTTTCTT
*
31287903 TTA TTA TTA TTA TTTA TTA TTA TTA TTA CTA TTA TTA TT
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
31287942 TTTCCAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:31292417 original size:45 final size:46
Alignment explanation
Indices: 31292353--31292610 Score: 277
Period size: 45 Copynumber: 5.7 Consensus size: 46
31292343 GAAGGAAACA
31292353 AATAAGACCATGGTTGAAAGACACTATGGCA-CTATACCG-GAACTG
1 AATAAGACCATGGTTGAAAGACACTATGGCATC-ATACCGAGAACTG
* *
31292398 AATAAGACCATAGTTGAAAGACACTATGGCATCATACCGAAAACATG
1 AATAAGACCATGGTTGAAAGACACTATGGCATCATACCGAGAAC-TG
* * ** * *
31292445 --TAAGACCATAGCTGAAAGACGTTATGGCATCATGAATC-AG-AC-A
1 AATAAGACCATGGTTGAAAGACACTATGGCATCAT--ACCGAGAACTG
*
31292488 AATAAGACCATGGTTGAAAGACACTATGGCATCA-AGGCGAGAA-TG
1 AATAAGACCATGGTTGAAAGACACTATGGCATCATA-CCGAGAACTG
* * *
31292533 TATAAGACCATGGTTGAAAGACACTATGGCATTA-AGACGAGAA-TG
1 AATAAGACCATGGTTGAAAGACACTATGGCATCATA-CCGAGAACTG
31292578 AATAAGACCATGGTTGAAAGACACTATGGCATC
1 AATAAGACCATGGTTGAAAGACACTATGGCATC
31292611 TTTCAGTCAT
Statistics
Matches: 183, Mismatches: 19, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 2 0.01
45 170 0.93
46 5 0.03
47 4 0.02
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.20
Consensus pattern (46 bp):
AATAAGACCATGGTTGAAAGACACTATGGCATCATACCGAGAACTG
Found at i:31292596 original size:135 final size:135
Alignment explanation
Indices: 31292350--31292610 Score: 336
Period size: 135 Copynumber: 1.9 Consensus size: 135
31292340 CTTGAAGGAA
31292350 ACAAATAAGACCATGGTTGAAAGACACTATGGCACTATACCGGAACTGAATAAGACCATAGTTGA
1 ACAAATAAGACCATGGTTGAAAGACACTATGGCACTATACCGGAACTGAATAAGACCATAGTTGA
* **
31292415 AAGACACTATGGCATCATACCGAAAACATGTAAGACCATAGCTGAAAGACGTTATGGCATCATGA
66 AAGACACTATGGCATCATAACGAAAACATGTAAGACCATAGCTGAAAGACACTATGGCATCATGA
31292480 ATCAG
131 ATCAG
* * *
31292485 ACAAATAAGACCATGGTTGAAAGACACTATGGCA-TCA-AGGCGAGAA-TGTATAAGACCATGGT
1 ACAAATAAGACCATGGTTGAAAGACACTATGGCACT-ATA-CCG-GAACTGAATAAGACCATAGT
* * * *
31292547 TGAAAGACACTATGGCATTA-AGACG-AGA-ATGAATAAGACCATGGTTGAAAGACACTATGGCA
63 TGAAAGACACTATGGCATCATA-ACGAAAACATG--TAAGACCATAGCTGAAAGACACTATGGCA
31292609 TC
125 TC
31292611 TTTCAGTCAT
Statistics
Matches: 110, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
133 3 0.03
134 5 0.05
135 99 0.90
136 3 0.03
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.20
Consensus pattern (135 bp):
ACAAATAAGACCATGGTTGAAAGACACTATGGCACTATACCGGAACTGAATAAGACCATAGTTGA
AAGACACTATGGCATCATAACGAAAACATGTAAGACCATAGCTGAAAGACACTATGGCATCATGA
ATCAG
Found at i:31296803 original size:2 final size:2
Alignment explanation
Indices: 31296796--31296834 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
31296786 ATATGGTAAT
31296796 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31296835 TATTTAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:31301678 original size:11 final size:11
Alignment explanation
Indices: 31301635--31301660 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
31301625 AAAAATTAAA
31301635 AAAAATATTTT
1 AAAAATATTTT
31301646 AAAAATATTTT
1 AAAAATATTTT
31301657 AAAA
1 AAAA
31301661 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:31301686 original size:8 final size:8
Alignment explanation
Indices: 31301675--31301726 Score: 59
Period size: 8 Copynumber: 6.1 Consensus size: 8
31301665 AAAATATTTT
31301675 AAAATTAA
1 AAAATTAA
31301683 AAAATTAAA
1 AAAATT-AA
**
31301692 AAATATTTT
1 AAA-ATTAA
31301701 AAAATTAAA
1 AAAATT-AA
31301710 AAAATTAA
1 AAAATTAA
31301718 AAAATTAA
1 AAAATTAA
31301726 A
1 A
31301727 TATATTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
8 20 0.54
9 14 0.38
10 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
AAAATTAA
Found at i:31301693 original size:26 final size:26
Alignment explanation
Indices: 31301625--31301722 Score: 124
Period size: 26 Copynumber: 3.5 Consensus size: 26
31301615 AATTTATTTT
*
31301625 AAAAATTAAAAAAAATATTTTAAAAATATTT
1 AAAAATT--AAAAAATATTTT--AAA-ATTA
*
31301656 TAAAATTAAAAAATATTTTAAAATTA
1 AAAAATTAAAAAATATTTTAAAATTA
31301682 AAAAATTAAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAATATTTTAAAATT-A
31301709 AAAAATTAAAAAAT
1 AAAAATTAAAAAAT
31301723 TAAATATATT
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
26 27 0.43
27 18 0.29
29 12 0.19
31 6 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (26 bp):
AAAAATTAAAAAATATTTTAAAATTA
Found at i:31301712 original size:18 final size:18
Alignment explanation
Indices: 31301646--31301687 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
31301636 AAAATATTTT
31301646 AAAAATATTTTAAAATTA
1 AAAAATATTTTAAAATTA
31301664 AAAAATATTTTAAAATTA
1 AAAAATATTTTAAAATTA
31301682 AAAAAT
1 AAAAAT
31301688 TAAAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATATTTTAAAATTA
Found at i:31302165 original size:2 final size:2
Alignment explanation
Indices: 31302158--31302198 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
31302148 CTTCATGCAA
31302158 AT AT AT AT AT 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 AT AT AT AT AT A
31302199 ATTTAAACTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:31303268 original size:10 final size:10
Alignment explanation
Indices: 31303253--31303407 Score: 90
Period size: 10 Copynumber: 15.3 Consensus size: 10
31303243 AAAGGAGAGG
31303253 GAAAGAAGAA
1 GAAAGAAGAA
31303263 GAAAG-A-AA
1 GAAAGAAGAA
*
31303271 GAAAGAAAAA
1 GAAAGAAGAA
* *
31303281 GAGAGAAGAG
1 GAAAGAAGAA
* *
31303291 GAAAGGAGAG
1 GAAAGAAGAA
31303301 GAAAGAAAGAAA
1 GAAAG-AAG-AA
31303313 GAAA-AAGAA
1 GAAAGAAGAA
31303322 GGAAAGAA-AA
1 -GAAAGAAGAA
**
31303332 GGAAAGGGGAA
1 -GAAAGAAGAA
*
31303343 GAAAAAAGAAA
1 GAAAGAAG-AA
31303354 GAAA-AAGAA
1 GAAAGAAGAA
31303363 GGAAAGAA-AA
1 -GAAAGAAGAA
31303373 GGACAAG-AGAA
1 -GA-AAGAAGAA
* *
31303384 GAAAAATAAAA
1 GAAAGA-AGAA
31303395 GAAAGAAGAA
1 GAAAGAAGAA
31303405 GAA
1 GAA
31303408 GATGAGGGAA
Statistics
Matches: 115, Mismatches: 16, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
8 7 0.06
9 8 0.07
10 68 0.59
11 27 0.23
12 5 0.04
ACGTcount: A:0.68, C:0.01, G:0.30, T:0.01
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:31303305 original size:38 final size:40
Alignment explanation
Indices: 31303252--31303439 Score: 176
Period size: 41 Copynumber: 4.7 Consensus size: 40
31303242 AAAAGGAGAG
* *
31303252 GGAAAGAAGAAGAAAGAAAGAAAGAAAAAGA-G-AGAAGA
1 GGAAAGGAGAAGAAAGAAAGAAAGAAAAAGAGGAAGAAAA
*
31303290 GGAAAGGAGAGGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAA
1 GGAAAGGAGAAGAAAGAAAGAAAGAAAAAG-AGG-AAGAAAA
*
31303332 GGAAAGGGGAAGAAA-AAAGAAAGAAAAAGAAGGAAAGAAAA
1 GGAAAGGAGAAGAAAGAAAGAAAGAAAAAG-AGG-AAGAAAA
* **
31303373 GGACAA-GAGAAGAAA-AATA-AAAGAAAGAAGAAGAAGATGA
1 GGA-AAGGAGAAGAAAGAA-AGAAAGAAA-AAGAGGAAGAAAA
* *
31303413 GGGAA-G-GAAGAAAAAAAGAAAGAAAAA
1 GGAAAGGAGAAGAAAGAAAGAAAGAAAAA
31303440 AGGGTAATTT
Statistics
Matches: 131, Mismatches: 10, Indels: 18
0.82 0.06 0.11
Matches are distributed among these distances:
38 38 0.29
39 13 0.10
40 8 0.06
41 48 0.37
42 24 0.18
ACGTcount: A:0.68, C:0.01, G:0.31, T:0.01
Consensus pattern (40 bp):
GGAAAGGAGAAGAAAGAAAGAAAGAAAAAGAGGAAGAAAA
Found at i:31304137 original size:161 final size:151
Alignment explanation
Indices: 31303770--31304212 Score: 437
Period size: 161 Copynumber: 2.8 Consensus size: 151
31303760 AAAAATGATA
* *
31303770 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 TATTTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATA
* * **
31303835 AAATTAGAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGTTG
66 AAA-TAGAATAATGATATTTTTTAAAGTAATAAAATGCGAAGAAAAAAATACGAACAAATGGCAG
31303900 AAATAAGAGTGTTTTACTAAAT
130 AAATAAGAGTGTTTTACTAAAT
* * * * *
31303922 TA-TTTAGAAATTCAGA-AATAATTAATATAAATATTTCAAACAAAATGTACTGAAATAATATAA
1 TATTTTA-AAA-ACACACTA-AATT-A-AT-AA-ATTTCAAACATAATGTACTGAAATAATGTAA
* *
31303985 AATAATAAAATACGAAAATAAT-ATATTTTTATTGAAAGTAATAAAATTC-AAGAAAATAATACG
59 AATAATAAAATA-G--AATAATGATA-TTTT-TT-AAAGTAATAAAATGCGAAGAAAAAAATACG
* * * *
31304048 AGCAAA-GTGCAGGAATAAGGGTTTTTTTTTACACTAAAT
118 AACAAATG-GCAGAAATAAGAG---TGTTTT--ACTAAAT
* *
31304087 TAATTTTAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTAT
1 T-ATTTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAAT
* * * *
31304152 AAAATTAGAAATTATGATATTTTTTAAATTAATAAAATGCGGAGAAAAAACTACGAACAAA
65 AAAA-TAG-AATAATGATATTTTTTAAAGTAATAAAATGCGAAGAAAAAAATACGAACAAA
31304213 GGGCCTAGTT
Statistics
Matches: 235, Mismatches: 31, Indels: 43
0.76 0.10 0.14
Matches are distributed among these distances:
151 3 0.01
152 6 0.03
153 7 0.03
154 1 0.00
155 2 0.01
156 4 0.02
157 39 0.17
158 16 0.07
159 28 0.12
160 38 0.16
161 55 0.23
162 4 0.02
163 7 0.03
164 1 0.00
165 15 0.06
166 5 0.02
167 4 0.02
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (151 bp):
TATTTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATA
AAATAGAATAATGATATTTTTTAAAGTAATAAAATGCGAAGAAAAAAATACGAACAAATGGCAGA
AATAAGAGTGTTTTACTAAAT
Found at i:31304266 original size:21 final size:21
Alignment explanation
Indices: 31304240--31304282 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
31304230 TTTACTAAAT
*
31304240 TTTTTAAAAATTTAGAAATAA
1 TTTTTAAAAATTCAGAAATAA
31304261 TTTTTAAAAATTCAGAAATAA
1 TTTTTAAAAATTCAGAAATAA
31304282 T
1 T
31304283 ATATTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (21 bp):
TTTTTAAAAATTCAGAAATAA
Found at i:31304394 original size:13 final size:12
Alignment explanation
Indices: 31304378--31304424 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
31304368 AAAGATAATG
31304378 TAAAATAATATA
1 TAAAATAATATA
*
31304390 TTAAAATAATGTA
1 -TAAAATAATATA
31304403 CTAAAATAATA-A
1 -TAAAATAATATA
31304415 TAAAATAATA
1 TAAAATAATA
31304425 AAATACGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
11 10 0.32
12 1 0.03
13 20 0.65
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (12 bp):
TAAAATAATATA
Found at i:31307150 original size:5 final size:5
Alignment explanation
Indices: 31307123--31307190 Score: 81
Period size: 5 Copynumber: 14.2 Consensus size: 5
31307113 TTTTTATGTT
*
31307123 TTATA -TATA TTAT- TT-TA TTATA TAATA -TATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
*
31307169 TTATA TTATTT TTATA TTATA T
1 TTATA TTA-TA TTATA TTATA T
31307191 AAATTAAATA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
3 1 0.02
4 11 0.20
5 38 0.70
6 4 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:31307151 original size:24 final size:24
Alignment explanation
Indices: 31307124--31307192 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
31307114 TTTTATGTTT
31307124 TATATATATTATTTTATTATATAA
1 TATATATATTATTTTATTATATAA
*
31307148 TATATAT-TATATTATATTATAT--
1 TATATATAT-TATTTTATTATATAA
31307170 TATAT-TATT-TTTATATTATATAA
1 TATATATATTATTT-TATTATATAA
31307193 ATTAAATAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
20 2 0.05
21 10 0.26
22 6 0.16
23 1 0.03
24 19 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TATATATATTATTTTATTATATAA
Found at i:31312632 original size:10 final size:10
Alignment explanation
Indices: 31312604--31312640 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
31312594 AAATACATTT
31312604 TTTTTCTCTTC
1 TTTTTCTC-TC
*
31312615 TCTTTCTCTC
1 TTTTTCTCTC
31312625 TTTTTCTCTC
1 TTTTTCTCTC
31312635 TTTTTC
1 TTTTTC
31312641 CGGCAGCACC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:31313146 original size:46 final size:45
Alignment explanation
Indices: 31313060--31313148 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 45
31313050 ATTAAAATTT
* *
31313060 TTATTATTTATTTGAAAAATAATAATTTTAAGATATATTTTAAAG
1 TTATTATTTATTTGAAAAATAATAAATTTAAAATATATTTTAAAG
31313105 TTATTA-TTATTTGTACCAAAA-AATAAATTTAAAATATATTTTAA
1 TTATTATTTATTTG-A--AAAATAATAAATTTAAAATATATTTTAA
31313149 TTTTAATTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
44 7 0.18
45 7 0.18
46 21 0.54
47 4 0.10
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (45 bp):
TTATTATTTATTTGAAAAATAATAAATTTAAAATATATTTTAAAG
Found at i:31313179 original size:26 final size:25
Alignment explanation
Indices: 31313150--31313214 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 25
31313140 ATATTTTAAT
31313150 TTTAATTATTTAATTATTGAGATTTA
1 TTTAATTATTTAATTATTGA-ATTTA
*
31313176 TTT-ATCATTT-ATT-TTGAATTTA
1 TTTAATTATTTAATTATTGAATTTA
* *
31313198 TTGAATTA-TGAATTATT
1 TTTAATTATTTAATTATT
31313215 ATATGCAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
22 8 0.25
23 10 0.31
24 5 0.16
25 6 0.19
26 3 0.09
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (25 bp):
TTTAATTATTTAATTATTGAATTTA
Found at i:31314056 original size:9 final size:9
Alignment explanation
Indices: 31314042--31314075 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
31314032 TTTAAAATTC
31314042 AAAAATTAA
1 AAAAATTAA
31314051 AAAAATTAA
1 AAAAATTAA
31314060 AAAAATTAA
1 AAAAATTAA
31314069 AAAAATT
1 AAAAATT
31314076 TTCAAACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAATTAA
Found at i:31315994 original size:15 final size:17
Alignment explanation
Indices: 31315964--31315995 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
31315954 ATTAATATGG
31315964 TAAAATAATATTAAAAA
1 TAAAATAATATTAAAAA
31315981 TAAAA-AAT-TTAAAAA
1 TAAAATAATATTAAAAA
31315996 AATTCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAATAATATTAAAAA
Found at i:31316112 original size:8 final size:8
Alignment explanation
Indices: 31316099--31316127 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
31316089 AATATTGTAA
31316099 AAAATATT
1 AAAATATT
31316107 AAAATATT
1 AAAATATT
31316115 AAAATATT
1 AAAATATT
31316123 AAAAT
1 AAAAT
31316128 GAAAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAAATATT
Found at i:31316134 original size:16 final size:15
Alignment explanation
Indices: 31316096--31316141 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
31316086 CCAAATATTG
31316096 TAAAAAATATTAAAA
1 TAAAAAATATTAAAA
*
31316111 TATTAAAATATTAAAA
1 TA-AAAAATATTAAAA
31316127 TGAAAAAATA-TAAAA
1 T-AAAAAATATTAAAA
31316142 CAATTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 7 0.26
16 19 0.70
17 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (15 bp):
TAAAAAATATTAAAA
Found at i:31316809 original size:18 final size:18
Alignment explanation
Indices: 31316788--31316843 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
31316778 ATTTATGATA
*
31316788 TTTATAATTTTTACCATT
1 TTTATAATTTTTACAATT
*
31316806 TTTAATATTTTTTACAATT
1 TTT-ATAATTTTTACAATT
* * *
31316825 CTTATAATATTTAAAATT
1 TTTATAATTTTTACAATT
31316843 T
1 T
31316844 ATGTCTGGAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTATAATTTTTACAATT
Found at i:31316819 original size:19 final size:21
Alignment explanation
Indices: 31316795--31316836 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
31316785 ATATTTATAA
*
31316795 TTTTTACCATT-TT-TAATAT
1 TTTTTACAATTCTTATAATAT
31316814 TTTTTACAATTCTTATAATAT
1 TTTTTACAATTCTTATAATAT
31316835 TT
1 TT
31316837 AAAATTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 2 0.10
21 8 0.40
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTACAATTCTTATAATAT
Found at i:31319771 original size:4 final size:4
Alignment explanation
Indices: 31319762--31319787 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
31319752 TATTTTAGAT
31319762 TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TA
31319788 TTAGTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:31322991 original size:35 final size:35
Alignment explanation
Indices: 31322944--31323069 Score: 164
Period size: 35 Copynumber: 3.6 Consensus size: 35
31322934 ACTCTCTATT
31322944 TTGGTGTGTTTCGGATGGATTAGCTCT-TATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCT-TGTATGAGCA
* * *
31322979 ATGGTGTATTTCGGATGGTTTAGCTTGTATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTTGTATGAGCA
* * *
31323014 TTGGTGTGTTTCAGATGGTTTAGTTTGTATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTTGTATGAGCA
* *
31323049 TTGGTGTGTTTTGGTTGGATT
1 TTGGTGTGTTTCGGATGGATT
31323070 GTCGATGTAA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
34 1 0.01
35 78 0.99
ACGTcount: A:0.16, C:0.07, G:0.33, T:0.44
Consensus pattern (35 bp):
TTGGTGTGTTTCGGATGGATTAGCTTGTATGAGCA
Found at i:31327550 original size:20 final size:20
Alignment explanation
Indices: 31327525--31327585 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
31327515 AATTAGGTTT
31327525 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATATTAA
* *
31327545 ATTTAAATTAAAAATA-AAA
1 ATTTAAAATAAAAATATTAA
* *
31327564 ATTTATAATATTAAATATTAA
1 ATTTAAAATA-AAAATATTAA
31327585 A
1 A
31327586 AACCCACTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
19 10 0.30
20 20 0.61
21 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTTAAAATAAAAATATTAA
Found at i:31330818 original size:20 final size:20
Alignment explanation
Indices: 31330779--31330819 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
31330769 TTAAATTATT
* * *
31330779 ATTATTATTTGTTATTATAA
1 ATTATAATTTGTGATCATAA
31330799 ATTATAATTTGTGATCATAA
1 ATTATAATTTGTGATCATAA
31330819 A
1 A
31330820 ATCTACAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (20 bp):
ATTATAATTTGTGATCATAA
Found at i:31332381 original size:12 final size:12
Alignment explanation
Indices: 31332366--31332394 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
31332356 AATTTAAATT
31332366 TTATTGTTAAGA
1 TTATTGTTAAGA
31332378 TTATTGTTAAGA
1 TTATTGTTAAGA
31332390 TTATT
1 TTATT
31332395 ATGATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (12 bp):
TTATTGTTAAGA
Found at i:31335569 original size:176 final size:176
Alignment explanation
Indices: 31335275--31335631 Score: 678
Period size: 176 Copynumber: 2.0 Consensus size: 176
31335265 GACATTTATC
*
31335275 TAAAATCAATTTAACAATACGGGCAGAGGGATGACCAAGTCGGTAGTGCCATAGTGCAAAAATGT
1 TAAAATCAATTTAACAATACGGGCAGAGGGATGACCAAGTCGGCAGTGCCATAGTGCAAAAATGT
*
31335340 CATAGGTGTTGGAGCAAGTTTGAAGTCTTGTGTTATGAACAGAAGAGAAAACACCCTTTGACTAG
66 CATAGGTGTTGGAGCAAGTTTGAAGTCTTATGTTATGAACAGAAGAGAAAACACCCTTTGACTAG
31335405 TAGCAACCGGTGAAAAATGATAGAGCCCATCACGAGTGTGACCTAG
131 TAGCAACCGGTGAAAAATGATAGAGCCCATCACGAGTGTGACCTAG
*
31335451 TAAAATCGATTTAACAATACGGGCAGAGGGATGACCAAGTCGGCAGTGCCATAGTGCAAAAATGT
1 TAAAATCAATTTAACAATACGGGCAGAGGGATGACCAAGTCGGCAGTGCCATAGTGCAAAAATGT
31335516 CATAGGTGTTGGAGCAAGTTTGAAGTCTTATGTTATGAACAGAAGAGAAAACACCCTTTGACTAG
66 CATAGGTGTTGGAGCAAGTTTGAAGTCTTATGTTATGAACAGAAGAGAAAACACCCTTTGACTAG
*
31335581 TAGCAACTGGTGAAAAATGATAGAGCCCATCACGAGTGTGACCTAG
131 TAGCAACCGGTGAAAAATGATAGAGCCCATCACGAGTGTGACCTAG
31335627 TAAAA
1 TAAAA
31335632 AAATTTCTCG
Statistics
Matches: 177, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
176 177 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (176 bp):
TAAAATCAATTTAACAATACGGGCAGAGGGATGACCAAGTCGGCAGTGCCATAGTGCAAAAATGT
CATAGGTGTTGGAGCAAGTTTGAAGTCTTATGTTATGAACAGAAGAGAAAACACCCTTTGACTAG
TAGCAACCGGTGAAAAATGATAGAGCCCATCACGAGTGTGACCTAG
Found at i:31338396 original size:43 final size:43
Alignment explanation
Indices: 31338349--31338435 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
31338339 TCATATCTCA
* *
31338349 TTTCTCATATCATAATCATTTCTCATATTTTCCATTTCAATAT
1 TTTCTCATATCATAATCATTTATCATATTTACCATTTCAATAT
* *
31338392 TTTCTCATATCATAGTCATTTATCATCTTTACCATTTCAATAT
1 TTTCTCATATCATAATCATTTATCATATTTACCATTTCAATAT
31338435 T
1 T
31338436 AATCACATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.28, C:0.21, G:0.01, T:0.51
Consensus pattern (43 bp):
TTTCTCATATCATAATCATTTATCATATTTACCATTTCAATAT
Found at i:31347269 original size:37 final size:37
Alignment explanation
Indices: 31347221--31347439 Score: 262
Period size: 37 Copynumber: 5.9 Consensus size: 37
31347211 CCGTATATCC
* * *
31347221 GTAGATTTTGCTCGTTTAAACTTCATTCAGTATAACA
1 GTAGAATTTGCTCGTTTGAGCTTCATTCAGTATAACA
* * * * *
31347258 GTAGAAATTGCTTGTTTAACCTTCATTCAGTATAATA
1 GTAGAATTTGCTCGTTTGAGCTTCATTCAGTATAACA
* *
31347295 GT-GAAATTTGCTCGTTTGAGCTTCATTTAGTATAATA
1 GTAG-AATTTGCTCGTTTGAGCTTCATTCAGTATAACA
*
31347332 GTAGAATTTGCTCGCTTGAGCTTCATTCAGTATAACA
1 GTAGAATTTGCTCGTTTGAGCTTCATTCAGTATAACA
* *
31347369 GTAGAATTTGCTCATTTGAGCTTCATTTAGTATAAC-
1 GTAGAATTTGCTCGTTTGAGCTTCATTCAGTATAACA
* * *
31347405 GATAGAATTTGCTCATTTTAGCTCCATTCAGTATA
1 G-TAGAATTTGCTCGTTTGAGCTTCATTCAGTATA
31347440 CAACATCATA
Statistics
Matches: 160, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
36 2 0.01
37 157 0.98
38 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (37 bp):
GTAGAATTTGCTCGTTTGAGCTTCATTCAGTATAACA
Found at i:31349523 original size:38 final size:38
Alignment explanation
Indices: 31349480--31349561 Score: 96
Period size: 38 Copynumber: 2.1 Consensus size: 38
31349470 GGTCCGGCCC
31349480 AAATATATAATAAATATA-TTTTTTTATTTTTAT-TTTTA
1 AAATAT-TAATAAA-ATACTTTTTTTATTTTTATATTTTA
** *
31349518 AAATATTTTTAAAATACTTTTTTTTATTTTTTTATTTTA
1 AAATATTAATAAAATAC-TTTTTTTATTTTTATATTTTA
31349557 AAATA
1 AAATA
31349562 AATTTTTGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
36 3 0.08
37 5 0.13
38 20 0.53
39 10 0.26
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (38 bp):
AAATATTAATAAAATACTTTTTTTATTTTTATATTTTA
Found at i:31349524 original size:11 final size:11
Alignment explanation
Indices: 31349510--31349539 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
31349500 TTTTTATTTT
31349510 TATTTTTAAAA
1 TATTTTTAAAA
31349521 TATTTTTAAAA
1 TATTTTTAAAA
31349532 TACTTTTT
1 TA-TTTTT
31349540 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:31352485 original size:100 final size:101
Alignment explanation
Indices: 31352379--31352592 Score: 288
Period size: 100 Copynumber: 2.1 Consensus size: 101
31352369 GTAAAAATTA
* * *
31352379 TGGATGAACCACTGATATTTTTAGTAAAAAGTTTGTAGAAAAGCTACTAGTAGGATATGGAAGCA
1 TGGATGAACCACAGA-ATTTTCAGTAAAAAATTTGTAGAAAAGCTACTAGTAGGATATGGAAGCA
* *
31352444 GAACA-TTTTTGT-AGATAAAAGCTGCTAGTAATTTG
65 CAACATTTTTTGTAAAATAAAAGCTGCTAGTAATTTG
* * * * *
31352479 TGGATGAACCACCAGAATTTTCAGTAAAAAATTTGTAGACAAGCTGCTAGTAGGTTGTGGATGCA
1 TGGATGAACCA-CAGAATTTTCAGTAAAAAATTTGTAGAAAAGCTACTAGTAGGATATGGAAGCA
*
31352544 CAACATTTTTTTTAAAATAAAAGCTGCTAGTAATTTG
65 CAACATTTTTTGTAAAATAAAAGCTGCTAGTAATTTG
*
31352581 TGAATGAACCAC
1 TGGATGAACCAC
31352593 CAGTGTTGCA
Statistics
Matches: 99, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
100 57 0.58
101 10 0.10
102 32 0.32
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (101 bp):
TGGATGAACCACAGAATTTTCAGTAAAAAATTTGTAGAAAAGCTACTAGTAGGATATGGAAGCAC
AACATTTTTTGTAAAATAAAAGCTGCTAGTAATTTG
Found at i:31358147 original size:56 final size:57
Alignment explanation
Indices: 31358053--31358222 Score: 240
Period size: 56 Copynumber: 3.0 Consensus size: 57
31358043 TCAAATTTGA
* *
31358053 AAATAAAATAAAATCTTGTT-AGACAGTGGGAATAAATCCTGAAACAGATTTTATTT
1 AAATCAAATAAAATCTTGTTAAGACAGTGGGAATAAATCCCGAAACAGATTTTATTT
* *
31358109 AAATCAAATAAAATCTTGTTAAGA-GGTGGGAATCAATCCCGAAACAGATTTTATTT
1 AAATCAAATAAAATCTTGTTAAGACAGTGGGAATAAATCCCGAAACAGATTTTATTT
** *
31358165 AAATCAAATAAAATCTTGTTAA-ACA-TCGAAAATAAATCCCGAAATAGATTTTATTT
1 AAATCAAATAAAATCTTGTTAAGACAGT-GGGAATAAATCCCGAAACAGATTTTATTT
31358221 AA
1 AA
31358223 TTCTATTATA
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
55 2 0.02
56 97 0.95
57 3 0.03
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.31
Consensus pattern (57 bp):
AAATCAAATAAAATCTTGTTAAGACAGTGGGAATAAATCCCGAAACAGATTTTATTT
Found at i:31359750 original size:14 final size:14
Alignment explanation
Indices: 31359731--31359757 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31359721 CATTTCTTGA
31359731 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
31359745 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
31359758 ACTGGATCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:31364601 original size:56 final size:56
Alignment explanation
Indices: 31364511--31364624 Score: 156
Period size: 56 Copynumber: 2.0 Consensus size: 56
31364501 AAACAAAATA
* * * * * * *
31364511 AAATCAAATAAAATTTTGTTAAGCGGTGGGAATAAATCCCGAAATAGATTTTATTT
1 AAATAAAATAAAATCTTGTTAAACGATGGCAATAAATCCCAAAACAGATTTTATTT
*
31364567 AAATAAAATAAAATCTTGTTAAACGATGGCAATAAGTCCCAAAACAGATTTTATTT
1 AAATAAAATAAAATCTTGTTAAACGATGGCAATAAATCCCAAAACAGATTTTATTT
31364623 AA
1 AA
31364625 TTCTATTCTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (56 bp):
AAATAAAATAAAATCTTGTTAAACGATGGCAATAAATCCCAAAACAGATTTTATTT
Found at i:31364856 original size:87 final size:87
Alignment explanation
Indices: 31364567--31364913 Score: 349
Period size: 84 Copynumber: 4.0 Consensus size: 87
31364557 GATTTTATTT
* * * * * *
31364567 AAATAAAATAAAATCTTGTTAAACGATG-GCAATAAGTCCCAAAACAGATTTTATTTAATTCT-A
1 AAATCAAATAAAATCTTGTTAAAAGGTGTG-AATAAATCCCGAAATAGATTTTATTTAATT-TAA
* **
31364630 -TTCT-A-ATTTGAAAACAAAATA
64 TTTCTCATTTTTGGCAACAAAATA
*
31364651 AAATCAAATAAAATCTTGTTAAACAGTTG-GAATAAATCCCGAAATAGATTTTATTTAATTCT-A
1 AAATCAAATAAAATCTTGTTAAA-AGGTGTGAATAAATCCCGAAATAGATTTTATTTAATT-TAA
* * *
31364714 -TTCT-A-ATTTGGGAACAAGATA
64 TTTCTCATTTTTGGCAACAAAATA
* ** * *
31364735 AAATCAAATAAAATCTTGGTAAACAGCAGT-AATAAATCCCGAAACAGATTTTATTTTATTTAAT
1 AAATCAAATAAAATCTTGTTAAA-AGGTGTGAATAAATCCCGAAATAGATTTTATTTAATTTAAT
*
31364799 TTCTCATTTTTGGCAACAAAATC
65 TTCTCATTTTTGGCAACAAAATA
* *
31364822 AAATCAAAT-AAATCTTTATTAAATGGTGTGAATAAATCCCGAAATAGATTTTATTTAATTTAAT
1 AAATCAAATAAAATC-TTGTTAAAAGGTGTGAATAAATCCCGAAATAGATTTTATTTAATTTAAT
*
31364886 TTCTCATTTTTAGCAACAAAATCA
65 TTCTCATTTTTGGCAACAAAAT-A
31364910 AAAT
1 AAAT
31364914 GTAATAAATT
Statistics
Matches: 227, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
83 1 0.00
84 125 0.55
85 8 0.04
86 9 0.04
87 80 0.35
88 4 0.02
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (87 bp):
AAATCAAATAAAATCTTGTTAAAAGGTGTGAATAAATCCCGAAATAGATTTTATTTAATTTAATT
TCTCATTTTTGGCAACAAAATA
Found at i:31364858 original size:171 final size:167
Alignment explanation
Indices: 31364567--31364881 Score: 404
Period size: 171 Copynumber: 1.9 Consensus size: 167
31364557 GATTTTATTT
* *
31364567 AAATAAAATAAAATCTTGTTAAACGATGGCAATAAGTCCCAAAACAGATTTTATTTAATTCTATT
1 AAATAAAATAAAATCTTGGTAAACGA-GGCAATAAATCCCAAAACAGATTTTATTTAATTCTATT
*
31364632 CTAATTTGAAAACAAAATAAAATCAAATAAAATCTTGTTAAACAGTTGGAATAAATCCCGAAATA
65 CTAATTTGAAAACAAAATAAAATCAAATAAAATCTTATTAAACAGTTGGAATAAATCCCGAAATA
31364697 GATTTTATTTAATTCTATTCTAATTTGGGAACAAGATA
130 GATTTTATTTAATTCTATTCTAATTTGGGAACAAGATA
* * * *
31364735 AAATCAAATAAAATCTTGGTAAAC-AGCAGTAATAAATCCCGAAACAGATTTTATTTTATT-TAA
1 AAATAAAATAAAATCTTGGTAAACGAG--GCAATAAATCCCAAAACAGATTTTATTTAATTCT-A
* ** * * *
31364798 TTTCTCATTTTTGGCAACAAAATCAAATCAAAT-AAATCTTTATTAAA-TGGTGTGAATAAATCC
63 -TTCT-A-ATTTGAAAACAAAATAAAATCAAATAAAATC-TTATTAAACAGTTG-GAATAAATCC
31364861 CGAAATAGATTTTATTTAATT
123 CGAAATAGATTTTATTTAATT
31364882 TAATTTCTCA
Statistics
Matches: 126, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
166 1 0.01
167 2 0.02
168 51 0.40
169 4 0.03
170 9 0.07
171 59 0.47
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.35
Consensus pattern (167 bp):
AAATAAAATAAAATCTTGGTAAACGAGGCAATAAATCCCAAAACAGATTTTATTTAATTCTATTC
TAATTTGAAAACAAAATAAAATCAAATAAAATCTTATTAAACAGTTGGAATAAATCCCGAAATAG
ATTTTATTTAATTCTATTCTAATTTGGGAACAAGATA
Found at i:31365052 original size:79 final size:79
Alignment explanation
Indices: 31364916--31365121 Score: 295
Period size: 79 Copynumber: 2.6 Consensus size: 79
31364906 ATCAAAATGT
* * * *
31364916 AATAAATTCGTTGAACAGCGAGAATCAATCCCAAAATGGATTTTATTTTACTCGTTTTTGGAAAT
1 AATAAAATCGTTGAACGGCGAGAATCAATCCCGAAACGGATTTTATTTTACTCGTTTTTGGAAAT
*
31364981 AAAACAAAATTTGG
66 AAAACAAAATTTAG
* * *
31364995 AATAAAATCATTGAACGGCGAAAATCAATCCCGAAACGGATTTTATTTTACTTGTTTTTGGAAAT
1 AATAAAATCGTTGAACGGCGAGAATCAATCCCGAAACGGATTTTATTTTACTCGTTTTTGGAAAT
31365060 AAAACAAAATTTAG
66 AAAACAAAATTTAG
* * * * *
31365074 AATAAAATCGTTAAACGGTGGGAATAAATCCCGAAACCGATTTTATTT
1 AATAAAATCGTTGAACGGCGAGAATCAATCCCGAAACGGATTTTATTT
31365122 ACCTTTAATT
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 112 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (79 bp):
AATAAAATCGTTGAACGGCGAGAATCAATCCCGAAACGGATTTTATTTTACTCGTTTTTGGAAAT
AAAACAAAATTTAG
Found at i:31367384 original size:25 final size:27
Alignment explanation
Indices: 31367337--31367393 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 27
31367327 TAAAAAATGG
31367337 AATTTTTAGAATTTTTGCTTTTT-T-T
1 AATTTTTAGAATTTTTGCTTTTTATAT
31367362 AATTTTT-GAATTATTT-CTATTTTATAT
1 AATTTTTAGAATT-TTTGCT-TTTTATAT
31367389 AATTT
1 AATTT
31367394 ATATTATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 7 0.25
25 14 0.50
26 1 0.04
27 6 0.21
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.65
Consensus pattern (27 bp):
AATTTTTAGAATTTTTGCTTTTTATAT
Found at i:31367469 original size:27 final size:27
Alignment explanation
Indices: 31367439--31367506 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
31367429 TTAATTTAAT
* *
31367439 ATTTTTATATTTTATATAATTTTTAGG
1 ATTTTTATATTTTAAATAATTTTTAGA
* * *
31367466 ATTTATATATTATAAATAATTTTTATA
1 ATTTTTATATTTTAAATAATTTTTAGA
31367493 ATTTTATATATTTT
1 ATTTT-TATATTTT
31367507 TAAAATTATA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
27 26 0.79
28 7 0.21
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
ATTTTTATATTTTAAATAATTTTTAGA
Found at i:31367507 original size:18 final size:18
Alignment explanation
Indices: 31367439--31367524 Score: 61
Period size: 18 Copynumber: 4.8 Consensus size: 18
31367429 TTAATTTAAT
31367439 ATTTT-TATATTTTATATA
1 ATTTTATATATTTT-TATA
* *
31367457 ATTTT-TAGGATTTATAT-
1 ATTTTATA-TATTTTTATA
* *
31367474 ATTATAAATAATTTTTATA
1 ATTTTATAT-ATTTTTATA
*
31367493 ATTTTATATATTTTTAAA
1 ATTTTATATATTTTTATA
* *
31367511 ATTATACATATTTT
1 ATTTTATATATTTT
31367525 AAAGTTTCAC
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
17 4 0.08
18 38 0.72
19 11 0.21
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (18 bp):
ATTTTATATATTTTTATA
Found at i:31367522 original size:46 final size:45
Alignment explanation
Indices: 31367439--31367527 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 45
31367429 TTAATTTAAT
** *
31367439 ATTTTTATATTTTATATAATTTTTAGGATTTATATATTATAAATA
1 ATTTTTATATTTTATATAATTTTTAAAATTTACATATTATAAATA
*
31367484 ATTTTTATAATTTTATAT-ATTTTTAAAATTATACATATTTTAAA
1 ATTTTTAT-ATTTTATATAATTTTTAAAATT-TACATATTATAAA
31367528 GTTTCACAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 18 0.47
46 20 0.53
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.57
Consensus pattern (45 bp):
ATTTTTATATTTTATATAATTTTTAAAATTTACATATTATAAATA
Found at i:31368843 original size:25 final size:25
Alignment explanation
Indices: 31368791--31368878 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 25
31368781 TTACCGATTC
*
31368791 CAGCTCTTATGAGCTTA-CTTATACT
1 CAGCTCGTATGAGCTTACCTTATA-T
31368816 CAGCTCGTATGAGCTTACCGTTAT-T
1 CAGCTCGTATGAGCTTACC-TTATAT
* * *
31368841 CAGCTTGGAGGAGCTTACCATT-TAT
1 CAGCTCGTATGAGCTTACC-TTATAT
*
31368866 C-TCTCGTATGAGC
1 CAGCTCGTATGAGC
31368879 ATACATGTAC
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
24 9 0.18
25 37 0.73
26 1 0.02
27 4 0.08
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCTTATAT
Found at i:31370685 original size:16 final size:16
Alignment explanation
Indices: 31370664--31370732 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
31370654 GCGTTTTCGC
31370664 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
31370680 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
31370696 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
31370713 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
31370729 TGTA
1 TGTA
31370733 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:31370710 original size:33 final size:32
Alignment explanation
Indices: 31370664--31370732 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
31370654 GCGTTTTCGC
31370664 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
31370696 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
31370729 TGTA
1 TGTA
31370733 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:31370797 original size:44 final size:45
Alignment explanation
Indices: 31370713--31370803 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
31370703 GGATTAGAGG
* * *
31370713 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
31370758 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
31370802 TG
1 TG
31370804 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:31370985 original size:16 final size:16
Alignment explanation
Indices: 31370948--31371002 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
31370938 TTAATCATAT
*
31370948 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
31370964 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
31370979 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
31370997 -TAAAAT
1 TTAAAAT
31371003 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Done.