Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 218 of 279
Found at i:71281547 original size:39 final size:40
Alignment explanation
Indices: 71281343--71281565 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
71281333 TTGAATGCTG
* * * * * *
71281343 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
71281383 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
**
71281423 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
71281463 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
71281503 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
71281542 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
71281566 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 36 0.22
40 117 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:71281585 original size:79 final size:80
Alignment explanation
Indices: 71281417--71281600 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
71281407 TGTGCGAGAT
** * *
71281417 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
** *
71281482 GCATTCGTGCGAGTT
66 GCATTCGAACGAGTG
* * * *
71281497 ATTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
*
71281561 GCATTTGAACGAG-G
66 GCATTCGAACGAGTG
* *
71281575 AGCTATATCC-GGTTAAATCCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
71281601 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 15 0.17
79 44 0.51
80 28 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
GCATTCGAACGAGTG
Found at i:71288811 original size:40 final size:40
Alignment explanation
Indices: 71288685--71288910 Score: 201
Period size: 40 Copynumber: 5.7 Consensus size: 40
71288675 TTGAATGCTG
* * * *
71288685 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
** *
71288725 TCCGGACTAAGAT-CCGAAGGCATTTGAGCGAAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCG-AGATACTAAA
* *
71288765 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
71288806 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * * *
71288846 TCCGGGTTATGTCCCAAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
71288885 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
71288911 AACGAGGAGC
Statistics
Matches: 155, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
39 33 0.21
40 84 0.54
41 35 0.23
42 2 0.01
43 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:71291417 original size:16 final size:15
Alignment explanation
Indices: 71291396--71291435 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
71291386 TCCTCCTATT
71291396 TTTTTATTAAGTTTTA
1 TTTTTATTAA-TTTTA
*
71291412 TTTTTATTTTATTTTA
1 TTTTTA-TTAATTTTA
71291428 TTTTTATT
1 TTTTTATT
71291436 TTTCTTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 17 0.77
17 3 0.14
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (15 bp):
TTTTTATTAATTTTA
Found at i:71291421 original size:5 final size:5
Alignment explanation
Indices: 71291407--71291480 Score: 53
Period size: 6 Copynumber: 13.8 Consensus size: 5
71291397 TTTTATTAAG
*
71291407 TTTTA TTTTTA TTTTA TTTTA TTTTTA TTTTTC TTTTGA TTTTTA TTTTTA
1 TTTTA -TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTT-A -TTTTA -TTTTA
*
71291458 TTTCAA TTTTA --TTA TTTTA TTTT
1 TTT-TA TTTTA TTTTA TTTTA TTTT
71291481 GAAAGACATA
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
3 3 0.05
5 25 0.43
6 26 0.45
7 4 0.07
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:71291421 original size:11 final size:11
Alignment explanation
Indices: 71291407--71291480 Score: 69
Period size: 11 Copynumber: 6.4 Consensus size: 11
71291397 TTTTATTAAG
71291407 TTTTATTTTTA
1 TTTTATTTTTA
71291418 TTTTA-TTTTA
1 TTTTATTTTTA
*
71291428 TTTTTATTTTTC
1 -TTTTATTTTTA
71291440 TTTTGATTTTTA
1 TTTT-ATTTTTA
**
71291452 TTTTTATTTCAA
1 -TTTTATTTTTA
71291464 TTTTATTATTTTA
1 TTTTA-T-TTTTA
71291477 TTTT
1 TTTT
71291481 GAAAGACATA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
10 5 0.10
11 19 0.37
12 16 0.31
13 11 0.22
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:71291450 original size:7 final size:6
Alignment explanation
Indices: 71291407--71291460 Score: 76
Period size: 6 Copynumber: 9.3 Consensus size: 6
71291397 TTTTATTAAG
* *
71291407 TTTTAT TTTTA- TTTTA- TTTTAT TTTTAT TTTTCT TTTGAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
71291453 TTTTAT TT
1 TTTTAT TT
71291461 CAATTTTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 10 0.23
6 33 0.77
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:71291466 original size:18 final size:17
Alignment explanation
Indices: 71291411--71291467 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
71291401 ATTAAGTTTT
*
71291411 ATTTTTA-TTTTATTTT
1 ATTTTTATTTTTATTTA
* *
71291427 ATTTTTATTTTTCTTTTG
1 ATTTTTATTTTT-ATTTA
71291445 ATTTTTATTTTTATTTCA
1 ATTTTTATTTTTATTT-A
71291463 ATTTT
1 ATTTT
71291468 ATTATTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
16 7 0.21
17 7 0.21
18 20 0.59
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.77
Consensus pattern (17 bp):
ATTTTTATTTTTATTTA
Found at i:71299054 original size:48 final size:48
Alignment explanation
Indices: 71298992--71299128 Score: 229
Period size: 48 Copynumber: 2.9 Consensus size: 48
71298982 TATATATGTG
* * *
71298992 TGTGATAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGATATGTATA
*
71299040 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGATATGTATG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGATATGTATA
*
71299088 TGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
71299129 GTGTGTATAT
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 84 1.00
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGATATGTATA
Found at i:71300430 original size:15 final size:15
Alignment explanation
Indices: 71300410--71300439 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
71300400 TGGTACGGTA
71300410 TTGTATATTGGATTT
1 TTGTATATTGGATTT
*
71300425 TTGTATCTTGGATTT
1 TTGTATATTGGATTT
71300440 CTCCATCTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.03, G:0.20, T:0.60
Consensus pattern (15 bp):
TTGTATATTGGATTT
Found at i:71303356 original size:43 final size:42
Alignment explanation
Indices: 71303309--71303392 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
71303299 TGAGTTCGTG
* * *
71303309 ATATATGTGAGAATCTGAACTTGTTGAGTGGTCCAAGTTCATT
1 ATATATGTG-CAATCCGAACTTGTTGAGAGGTCCAAGTTCATT
* * *
71303352 ATATATGTGCCATCCGAGCTTGTTGAGAGGTCCGAGTTCAT
1 ATATATGTGCAATCCGAACTTGTTGAGAGGTCCAAGTTCAT
71303393 AATGGATGCG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
42 26 0.74
43 9 0.26
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (42 bp):
ATATATGTGCAATCCGAACTTGTTGAGAGGTCCAAGTTCATT
Found at i:71315405 original size:40 final size:40
Alignment explanation
Indices: 71315361--71315514 Score: 254
Period size: 40 Copynumber: 3.9 Consensus size: 40
71315351 GAATACACAT
* * * *
71315361 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
* *
71315401 CACCAGCACGAATGCTCTTTGGGACTTAGCCTGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
71315441 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
71315481 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
71315515 CTATATAACT
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.20
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
Found at i:71322004 original size:27 final size:27
Alignment explanation
Indices: 71321973--71322150 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
71321963 TAAATTGTAC
71321973 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
71322000 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71322026 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
71322054 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
71322082 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71322109 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
71322136 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71322151 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:71322087 original size:82 final size:81
Alignment explanation
Indices: 71321974--71322129 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
71321964 AAATTGTACA
* *
71321974 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
71322038 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
71322055 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
71322120 TGCGAGTTGA
65 TGCGAATTGA
71322130 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:71322141 original size:82 final size:81
Alignment explanation
Indices: 71321970--71322150 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
71321960 GATTAAATTG
* *
71321970 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
71322035 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
71322051 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
71322115 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
71322133 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
71322151 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:71330098 original size:27 final size:27
Alignment explanation
Indices: 71330067--71330217 Score: 151
Period size: 27 Copynumber: 5.6 Consensus size: 27
71330057 TAAATTGTAC
*
71330067 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
71330094 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
71330120 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* * * *
71330148 GGCACTAAGTGTGCGAGTTTGATTACGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
71330176 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
71330203 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71330218 GACTCAATAT
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
27 81 0.79
28 21 0.21
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:71330128 original size:54 final size:55
Alignment explanation
Indices: 71330067--71330217 Score: 162
Period size: 55 Copynumber: 2.8 Consensus size: 55
71330057 TAAATTGTAC
* * *
71330067 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-AATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGAATGAATACGT
* ** ** *
71330120 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGATTACGT
1 A-GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGAATGAATACGT
* * * *
71330176 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
71330218 GACTCAATAT
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 38 0.47
55 40 0.50
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGAATGAATACGT
Found at i:71330186 original size:82 final size:81
Alignment explanation
Indices: 71330068--71330217 Score: 212
Period size: 82 Copynumber: 1.8 Consensus size: 81
71330058 AAATTGTACA
* *
71330068 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGTG
71330132 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** * *
71330149 GCACTAAGTGTGCGAGTTTGATTACGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 GCACTAAGTGTGCGA-TTTGACTACGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
71330214 TGCG
65 TGCG
71330218 GACTCAATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 17 0.28
82 43 0.72
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:71334011 original size:40 final size:40
Alignment explanation
Indices: 71333956--71334170 Score: 355
Period size: 40 Copynumber: 5.4 Consensus size: 40
71333946 GATGATAACT
71333956 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
71333996 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
71334036 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
71334076 GGGCTAAGTCCAGAAGGCATTTGTACGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
71334116 GGGCTAAGTCCCGAAGGCATTTGAGCGA--TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
*
71334155 -GGCTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
71334171 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
38 17 0.10
39 8 0.05
40 141 0.85
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:71336301 original size:28 final size:29
Alignment explanation
Indices: 71336265--71336324 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
71336255 AAAGTAATTT
* *
71336265 TTGACAAAAATGTCAATT-AGGGATTTAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
* * *
71336293 TTGATAAAAGTGTAAATTGAGGGGTTAAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
71336322 TTG
1 TTG
71336325 TGAAATAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.33
Consensus pattern (29 bp):
TTGACAAAAATGTAAATTGAGGGATTAAA
Found at i:71336867 original size:43 final size:41
Alignment explanation
Indices: 71336761--71336914 Score: 132
Period size: 43 Copynumber: 3.6 Consensus size: 41
71336751 ATCGAGATGT
* * * *
71336761 GATTACATGTAAGACCATGTCTAGAACATTGGCATTGTATTAA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCA-T-CATTAA
71336804 GATTACGT-TAAGACCATGTCTGGGACATTGGCATCATTAA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCATTAA
* * **
71336844 TTGATTTCGTGTAAGACCCTGTCTGGGACAGTT-GCATCGATATGT
1 --GATTACGTGTAAGACCATGTCTGGGACA-TTGGCATC-AT-TAA
* * *
71336889 GATAACATGTAAGACCATATCTGGGA
1 GATTACGTGTAAGACCATGTCTGGGA
71336915 TATGGTATTG
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
40 5 0.05
41 1 0.01
42 30 0.33
43 51 0.55
44 4 0.04
45 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (41 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCATTAA
Found at i:71341286 original size:19 final size:19
Alignment explanation
Indices: 71341236--71341300 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
71341226 TAAATCATTC
* * *
71341236 TATAACAGCAACTCATCCT
1 TATAACAGTAATTCATCCA
* *
71341255 TTTGAACAATAATTCATCCA
1 TAT-AACAGTAATTCATCCA
71341275 TATAACAGTAATTCATCCA
1 TATAACAGTAATTCATCCA
71341294 TATAACA
1 TATAACA
71341301 CATAGATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 24 0.63
20 14 0.37
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.31
Consensus pattern (19 bp):
TATAACAGTAATTCATCCA
Found at i:71341499 original size:23 final size:24
Alignment explanation
Indices: 71341469--71341527 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
71341459 GAGCTGATAG
71341469 ATAGTAAGCTCT-ATTGAGTTGA-A
1 ATAGTAAGCTCTGA-TGAGTTGAGA
*
71341492 ATAGTAAGCTTTGATGAGTTGAGA
1 ATAGTAAGCTCTGATGAGTTGAGA
*
71341516 ACAGTAAGCTCT
1 ATAGTAAGCTCT
71341528 TACGAGCTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.61
24 12 0.39
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (24 bp):
ATAGTAAGCTCTGATGAGTTGAGA
Found at i:71344409 original size:34 final size:33
Alignment explanation
Indices: 71344344--71344409 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 33
71344334 AGTCCAGGAA
*
71344344 CAGTTGGGCCTTAGCCCAATACAGTATCAGTAT
1 CAGTTGGGCCTTAGCCCAATACAGTAACAGTAT
**
71344377 CAGTATGGGCCTTAGCCCAATTTAGTAACAGTA
1 CAGT-TGGGCCTTAGCCCAATACAGTAACAGTA
71344410 ACAAAAATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 4 0.14
34 25 0.86
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (33 bp):
CAGTTGGGCCTTAGCCCAATACAGTAACAGTAT
Found at i:71346420 original size:11 final size:10
Alignment explanation
Indices: 71346394--71346427 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
71346384 GGAGAGCACC
*
71346394 AAGAGTCAAA
1 AAGAGCCAAA
71346404 AAGAGCCAAA
1 AAGAGCCAAA
71346414 AACGAGCCAAA
1 AA-GAGCCAAA
71346425 AAG
1 AAG
71346428 GGACAAAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.59, C:0.18, G:0.21, T:0.03
Consensus pattern (10 bp):
AAGAGCCAAA
Found at i:71354397 original size:14 final size:14
Alignment explanation
Indices: 71354378--71354404 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
71354368 ACTTGTTCTT
71354378 AAAAAAAACTATGC
1 AAAAAAAACTATGC
71354392 AAAAAAAACTATG
1 AAAAAAAACTATG
71354405 TATACATATC
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:0.67, C:0.11, G:0.07, T:0.15
Consensus pattern (14 bp):
AAAAAAAACTATGC
Found at i:71356565 original size:150 final size:150
Alignment explanation
Indices: 71356294--71356593 Score: 573
Period size: 150 Copynumber: 2.0 Consensus size: 150
71356284 TATTTAGTCT
71356294 AGGTTTGATCTTCATTATAAATATTTATTACTTGTTACAAATCACACGATCACCAAGCAACAGAG
1 AGGTTTGATCTTCATTATAAATATTTATTACTTGTTACAAATCACACGATCACCAAGCAACAGAG
* **
71356359 TTCCACTGACACGCAACCTCTCACATGGAAACATGCAAAATTAAACTTCCCTTGCGCGCAGCACA
66 TTCCACTGACACGCAACCTCTCACATGGAAACATGCAAAATAAAACACCCCTTGCGCGCAGCACA
71356424 ACTCGAACTCAAGCCTCTTA
131 ACTCGAACTCAAGCCTCTTA
71356444 AGGTTTGATCTTCATTATAAATATTTATTACTTGTTACAAATCACACGATCACCAAGCAACAGAG
1 AGGTTTGATCTTCATTATAAATATTTATTACTTGTTACAAATCACACGATCACCAAGCAACAGAG
71356509 TTCCACTGACACGCAACCTCTCACATGGAAACATGCAAAATAAAACACCCCTTGCGCGCAGCACA
66 TTCCACTGACACGCAACCTCTCACATGGAAACATGCAAAATAAAACACCCCTTGCGCGCAGCACA
71356574 ACTCGAACTCAAGCCTCTTA
131 ACTCGAACTCAAGCCTCTTA
71356594 GTAGCAGTTA
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
150 147 1.00
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.25
Consensus pattern (150 bp):
AGGTTTGATCTTCATTATAAATATTTATTACTTGTTACAAATCACACGATCACCAAGCAACAGAG
TTCCACTGACACGCAACCTCTCACATGGAAACATGCAAAATAAAACACCCCTTGCGCGCAGCACA
ACTCGAACTCAAGCCTCTTA
Found at i:71360035 original size:16 final size:16
Alignment explanation
Indices: 71360014--71360045 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
71360004 ACAGAATATT
*
71360014 TCAGTATAGTCTACTA
1 TCAGTACAGTCTACTA
71360030 TCAGTACAGTCTACTA
1 TCAGTACAGTCTACTA
71360046 CCTATAGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (16 bp):
TCAGTACAGTCTACTA
Found at i:71368513 original size:40 final size:40
Alignment explanation
Indices: 71368467--71368611 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
71368457 CTCGCACAAG
* * * * *
71368467 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
71368507 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
71368547 GCCTTC-GAATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
71368588 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
71368612 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.02
40 59 0.66
41 27 0.30
42 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:71369842 original size:38 final size:38
Alignment explanation
Indices: 71369800--71369875 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
71369790 CAAGAACTCC
*
71369800 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTGTCGGCCAAAAGAAATGAA
71369838 TTCCTCCTTCCTTAGAATTGTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTGTCGGCCAAAAGAAATGAA
71369876 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTGTCGGCCAAAAGAAATGAA
Found at i:71383334 original size:24 final size:25
Alignment explanation
Indices: 71383306--71383352 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
71383296 TCCGACCCAA
*
71383306 TTTTAATGAAATATG-AATGGAAGC
1 TTTTAATGAAATAAGTAATGGAAGC
* *
71383330 TTTTAGTGGAATAAGTAATGGAA
1 TTTTAATGAAATAAGTAATGGAA
71383353 CTTGGAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.34
Consensus pattern (25 bp):
TTTTAATGAAATAAGTAATGGAAGC
Found at i:71383809 original size:15 final size:15
Alignment explanation
Indices: 71383789--71383818 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
71383779 ATGAGTCTTT
71383789 TCATTACTTCAAGAA
1 TCATTACTTCAAGAA
*
71383804 TCATTACTTCGAGAA
1 TCATTACTTCAAGAA
71383819 GTTAAGGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (15 bp):
TCATTACTTCAAGAA
Found at i:71386635 original size:23 final size:22
Alignment explanation
Indices: 71386594--71386684 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 22
71386584 AGGTTGATGG
*
71386594 ACAGTAAGCTCTATTGAGCTGAA
1 ACAGTAAGCTCTA-CGAGCTGAA
*
71386617 ACGGTAAGCTCTGACGAGCTGAA
1 ACAGTAAGCTCT-ACGAGCTGAA
* * *
71386640 TCAATAAGATCATACGAGCTGAGA
1 ACAGTAAGCTC-TACGAGCTGA-A
71386664 ACAGTAAGCTCTTACGAGCTG
1 ACAGTAAGCTC-TACGAGCTG
71386685 CGGTGAGTCC
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
23 35 0.64
24 20 0.36
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (22 bp):
ACAGTAAGCTCTACGAGCTGAA
Found at i:71388419 original size:25 final size:23
Alignment explanation
Indices: 71388385--71388437 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 23
71388375 TTGAACCCAA
*
71388385 TTTTATTGAAATATG-AATGGAAGC
1 TTTTATTG-AATAAGTAATGGAA-C
71388409 TTTTAGTTGAATAAGTAATGGAAC
1 TTTTA-TTGAATAAGTAATGGAAC
71388433 TTTTA
1 TTTTA
71388438 AAATGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.42
Consensus pattern (23 bp):
TTTTATTGAATAAGTAATGGAAC
Found at i:71393843 original size:27 final size:26
Alignment explanation
Indices: 71393805--71393890 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
71393795 CAGCATGGCT
* *
71393805 ACCAGAACAGATAATGTGACATAGTC
1 ACCAGAACAGATAATGTGGCATAGCC
* *
71393831 ACCAGATACAGATATTTGTGGCAGAGCC
1 ACCAGA-ACAGATA-ATGTGGCATAGCC
71393859 ACCAGAACAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAA-TGTGGCATAGCC
71393886 ACCAG
1 ACCAG
71393891 GACGTTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.12
27 30 0.59
28 15 0.29
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCATAGCC
Found at i:71396085 original size:75 final size:75
Alignment explanation
Indices: 71395962--71396111 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
71395952 GCAATCGGCA
71395962 CGACATGAGTAGGGTCAGAATGATAACGCCTTAACATGGAGACGTGAAAAACATCATGAATCCTG
1 CGACATGAGTAGGGTCAGAATGATAACGCCTTAACATGGAGACGTGAAAAACATCATGAATCCTG
*
71396027 TCTAGCTCTG
66 TCTAACTCTG
71396037 CGACATGAGTAGGGTCAGAATGATAACGCCTTAACATGGAGACGTGAAAAACATCATGAATCCTG
1 CGACATGAGTAGGGTCAGAATGATAACGCCTTAACATGGAGACGTGAAAAACATCATGAATCCTG
71396102 TCTAACTCTG
66 TCTAACTCTG
71396112 GAGGTAATTC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (75 bp):
CGACATGAGTAGGGTCAGAATGATAACGCCTTAACATGGAGACGTGAAAAACATCATGAATCCTG
TCTAACTCTG
Found at i:71401805 original size:27 final size:27
Alignment explanation
Indices: 71401693--71401805 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 27
71401683 CAGTATGGCT
* * *
71401693 ACCAGAACAGATAA-TGTGACATAGTC
1 ACCAGAACAGATAATTGTGGCAGAGCC
*
71401719 ACCAGATACAGATATTTGTGGCAGAGCC
1 ACCAGA-ACAGATAATTGTGGCAGAGCC
* *
71401747 ACCAAAACAGATATTTGTGGCAGAGCC
1 ACCAGAACAGATAATTGTGGCAGAGCC
* *
71401774 ACCAGAACAGATAATTATGGCATAGCC
1 ACCAGAACAGATAATTGTGGCAGAGCC
71401801 ACCAG
1 ACCAG
71401806 GACGTTTCCT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
26 6 0.08
27 56 0.74
28 14 0.18
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (27 bp):
ACCAGAACAGATAATTGTGGCAGAGCC
Found at i:71401929 original size:26 final size:26
Alignment explanation
Indices: 71401904--71401957 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
71401894 TTTTCAGTCA
71401904 AATTAAC-CCTAGGGGTATAACGGTC
1 AATTAACACCTAGGGGTATAACGGTC
* * *
71401929 ATTTTACACCTAGGGGTATAATGGT-
1 AATTAACACCTAGGGGTATAACGGTC
71401954 AATT
1 AATT
71401958 TTCCATACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (26 bp):
AATTAACACCTAGGGGTATAACGGTC
Found at i:71413560 original size:12 final size:12
Alignment explanation
Indices: 71413543--71413570 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
71413533 ATTTTAAATT
71413543 CTTAAAAATCAA
1 CTTAAAAATCAA
71413555 CTTAAAAATCAA
1 CTTAAAAATCAA
71413567 CTTA
1 CTTA
71413571 TCAATGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.29
Consensus pattern (12 bp):
CTTAAAAATCAA
Found at i:71416894 original size:100 final size:100
Alignment explanation
Indices: 71416717--71416900 Score: 244
Period size: 100 Copynumber: 1.8 Consensus size: 100
71416707 TCAAGTGTAT
* * * *
71416717 AGTACTAACTGCAGGCTACTACGTGTACCGGATTATTGGTCGCATGTGTAGTACTAAGTGTAGGC
1 AGTACTAACTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACTAAGTGTAGCC
*
71416782 TACTATGCGTACCCGATAACTTCAAAAACGACTGC
66 TACTACGCGTACCCGATAACTTCAAAAACGACTGC
* * * *
71416817 AGTACTAAGTGCAGGCT-CTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGTAGC
1 AGTACTAACTGCAGGCTACTACGTGTACCAGATGATT-GGTCACATGTGTAGTACTAAGTGTAGC
* * *
71416881 CTATTACGTGTACCGGATAA
65 CTACTACGCGTACCCGATAA
71416901 TTGGTCACAT
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 15 0.21
100 56 0.79
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (100 bp):
AGTACTAACTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACTAAGTGTAGCC
TACTACGCGTACCCGATAACTTCAAAAACGACTGC
Found at i:71416943 original size:49 final size:49
Alignment explanation
Indices: 71416716--71416948 Score: 202
Period size: 49 Copynumber: 4.7 Consensus size: 49
71416706 GTCAAGTGTA
* * * *
71416716 TAGTACTAACTGCAGGCTACTACGTGTACCGGATTATTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTG
* * * * * * *
71416765 TAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACT--TCAAAAACGACTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTC--ACATG--TG
* * ** *
71416816 CAGTACTAAGTGCAGGCT-CTACGTGTATCAGATGGTTAGGTCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTG
* * * *
71416865 TAGTACTAAGTGTAGCCTATTACGTGTACCGGATAATTGGTCACATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTG
* *
71416914 TAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
71416949 GCTTTGGCTA
Statistics
Matches: 139, Mismatches: 37, Indels: 16
0.72 0.19 0.08
Matches are distributed among these distances:
47 2 0.01
49 89 0.64
50 26 0.19
51 20 0.14
53 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTG
Found at i:71417318 original size:21 final size:21
Alignment explanation
Indices: 71417292--71417347 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
71417282 AACAACGGTG
*
71417292 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
71417313 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
71417334 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
71417348 AACAAGGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:71424263 original size:14 final size:14
Alignment explanation
Indices: 71424244--71424281 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
71424234 TTTTATTAGG
*
71424244 TTTTATAATTATTA
1 TTTTATAATTACTA
71424258 TTTTATAATTACTA
1 TTTTATAATTACTA
*
71424272 TTTTACAATT
1 TTTTATAATT
71424282 TTTAATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTATAATTACTA
Found at i:71430971 original size:66 final size:66
Alignment explanation
Indices: 71430865--71431143 Score: 558
Period size: 66 Copynumber: 4.2 Consensus size: 66
71430855 TGCTCCCATA
71430865 TTTAACTTTTAATTTATAAGTAATTTAATTTGGGTATTTGTTTATGTAATAAGGCCTCTTTAAAT
1 TTTAACTTTTAATTTATAAGTAATTTAATTTGGGTATTTGTTTATGTAATAAGGCCTCTTTAAAT
71430930 T
66 T
71430931 TTTAACTTTTAATTTATAAGTAATTTAATTTGGGTATTTGTTTATGTAATAAGGCCTCTTTAAAT
1 TTTAACTTTTAATTTATAAGTAATTTAATTTGGGTATTTGTTTATGTAATAAGGCCTCTTTAAAT
71430996 T
66 T
71430997 TTTAACTTTTAATTTATAAGTAATTTAATTTGGGTATTTGTTTATGTAATAAGGCCTCTTTAAAT
1 TTTAACTTTTAATTTATAAGTAATTTAATTTGGGTATTTGTTTATGTAATAAGGCCTCTTTAAAT
71431062 T
66 T
71431063 TTTAACTTTTAATTTATAAGTAATTTAATTTGGGTATTTGTTTATGTAATAAGGCCTCTTTAAAT
1 TTTAACTTTTAATTTATAAGTAATTTAATTTGGGTATTTGTTTATGTAATAAGGCCTCTTTAAAT
71431128 T
66 T
71431129 TTTAACTTTTAATTT
1 TTTAACTTTTAATTT
71431144 GGGGTTTTAT
Statistics
Matches: 213, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 213 1.00
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.52
Consensus pattern (66 bp):
TTTAACTTTTAATTTATAAGTAATTTAATTTGGGTATTTGTTTATGTAATAAGGCCTCTTTAAAT
T
Found at i:71436038 original size:41 final size:40
Alignment explanation
Indices: 71435957--71436045 Score: 106
Period size: 41 Copynumber: 2.2 Consensus size: 40
71435947 TCTGATATGC
* * * *
71435957 ATTCTGTATCTGATTGTGCTGAGGCCCTAATATATTTCTG
1 ATTCTGTATCTGACTGGGCTAAGGCCCTAATATATATCTG
* * *
71435997 ATTCTGTATCTGAGCTGGGCTAAGGCCTTAATTTGTATCTG
1 ATTCTGTATCTGA-CTGGGCTAAGGCCCTAATATATATCTG
71436038 ATTCTGTA
1 ATTCTGTA
71436046 ATGGGTTCAG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 13 0.32
41 28 0.68
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (40 bp):
ATTCTGTATCTGACTGGGCTAAGGCCCTAATATATATCTG
Found at i:71447637 original size:27 final size:27
Alignment explanation
Indices: 71447351--71447629 Score: 414
Period size: 27 Copynumber: 10.3 Consensus size: 27
71447341 CAATTTCTAA
*
71447351 AATTACCATTTTACCTTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
* * *
71447378 AATTACCGTTTTACCCTCAATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
71447405 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
71447432 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* * *
71447459 AATTACCATTTTACCTTTGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
71447486 AATTACCATTTTACCCTCAATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
71447513 AATTATCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* * *
71447540 AATTACCGTCTTACCCTTGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
71447567 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
71447594 AATTACCATTTTACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAG
71447621 AATTACCAT
1 AATTACCAT
71447630 AATACCCTTG
Statistics
Matches: 228, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 228 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:71447644 original size:27 final size:27
Alignment explanation
Indices: 71447349--71447690 Score: 207
Period size: 27 Copynumber: 12.7 Consensus size: 27
71447339 CTCAATTTCT
** *
71447349 AAAATTACCATTTTACCTTCGATTTAC
1 AAAATTACCATAATACCCTCGATTTAC
* * ** * *
71447376 AGAATTACCGTTTTACCCTCAATTTAT
1 AAAATTACCATAATACCCTCGATTTAC
* **
71447403 AGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCATAATACCCTCGATTTAC
* ** *
71447430 AGAATTACCATTTTACCCTCGATTTAT
1 AAAATTACCATAATACCCTCGATTTAC
* ** * * *
71447457 AGAATTACCATTTTACCTTTGATTTAT
1 AAAATTACCATAATACCCTCGATTTAC
* ** * *
71447484 AGAATTACCATTTTACCCTCAATTTAT
1 AAAATTACCATAATACCCTCGATTTAC
* * ** *
71447511 AGAATTATCATTTTACCCTCGATTTAT
1 AAAATTACCATAATACCCTCGATTTAC
* * ** *
71447538 AGAATTACCGTCTTACCCTTGATTTAC
1 AAAATTACCATAATACCCTCGATTTAC
* **
71447565 AGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCATAATACCCTCGATTTAC
* **
71447592 AGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCATAATACCCTCGATTTAC
* *
71447619 AAAATTACCATAATACCCTTGGTTTAC
1 AAAATTACCATAATACCCTCGATTTAC
* * * * ** *
71447646 AAATTTTCCAAAATACCCTCTATCAAT
1 AAAATTACCATAATACCCTCGATTTAC
*
71447673 AAAATTACCAAAATACCC
1 AAAATTACCATAATACCC
71447691 CTGATTTGTG
Statistics
Matches: 275, Mismatches: 40, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 275 1.00
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (27 bp):
AAAATTACCATAATACCCTCGATTTAC
Found at i:71447732 original size:27 final size:27
Alignment explanation
Indices: 71447708--71447978 Score: 319
Period size: 27 Copynumber: 10.0 Consensus size: 27
71447698 GTGAAATTGT
** *
71447708 CGAAATACCTTTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
** *
71447735 TAAAATACCCCTGTAGGGTAGAATAAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * * *
71447762 TGGAATACCCTTGCAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
71447789 CGAAATACCCCTGTATGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
71447816 CGAAATACCCCTGTAGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
71447843 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
71447870 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
71447897 CGAAATACCCTTATAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
71447924 CGAAATATCTCTGTAGGGTA-ACATTAC
1 CGAAATACCCCTGTAGGGTAGA-ATTAC
* * * *
71447951 CGAGATACCCTTGTCGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
71447978 C
1 C
71447979 ATTTTGCCCC
Statistics
Matches: 207, Mismatches: 35, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.00
27 205 0.99
28 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:71448262 original size:31 final size:32
Alignment explanation
Indices: 71448224--71448285 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
71448214 CTCGCTGCAA
* *
71448224 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACGATATATATATCTGT
*
71448255 TCTGGTGGCCTAGCCACGATATCTATATCTG
1 TCTGGTGGCCTAGCCACGATATATATATCTG
71448286 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACGATATATATATCTGT
Found at i:71448464 original size:6 final size:6
Alignment explanation
Indices: 71448455--71448550 Score: 56
Period size: 6 Copynumber: 15.7 Consensus size: 6
71448445 TACCTGATAT
* * *
71448455 TGATTC TGATTT TGATTC TG-TTAC CGAATAT- TGATTC TGATTC TGATTT
1 TGATTC TGATTC TGATTC TGATT-C TG-AT-TC TGATTC TGATTC TGATTC
* * *
71448504 TGATTT TG-TCACC TAATTC TGATTC TGATTC TGATTC T-AGTTC TGAT
1 TGATTC TGAT--TC TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
71448551 AATGTTTCTT
Statistics
Matches: 70, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
5 5 0.07
6 59 0.84
7 3 0.04
8 2 0.03
9 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.16, T:0.50
Consensus pattern (6 bp):
TGATTC
Found at i:71448476 original size:31 final size:31
Alignment explanation
Indices: 71448425--71448502 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
71448415 TTGCATTCAC
*
71448425 ATTCTGATTTTTTATTCTGTTACCTG-ATATTG
1 ATTCTGA-TTTTGATTCTGTTACC-GAATATTG
71448457 ATTCTGATTTTGATTCTGTTACCGAATATTG
1 ATTCTGATTTTGATTCTGTTACCGAATATTG
*
71448488 ATTCTGATTCTGATT
1 ATTCTGATTTTGATT
71448503 TTGATTTTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 1 0.02
31 35 0.81
32 7 0.16
ACGTcount: A:0.21, C:0.13, G:0.14, T:0.53
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCGAATATTG
Found at i:71448496 original size:37 final size:37
Alignment explanation
Indices: 71448455--71448539 Score: 127
Period size: 37 Copynumber: 2.3 Consensus size: 37
71448445 TACCTGATAT
*
71448455 TGATTCTGATTTTGATTCTGTTACCGAATAT-TGATTC
1 TGATTCTGATTTTGATTCTGTCACCGAAT-TCTGATTC
* *
71448492 TGATTCTGATTTTGATTTTGTCACCTAATTCTGATTC
1 TGATTCTGATTTTGATTCTGTCACCGAATTCTGATTC
71448529 TGATTCTGATT
1 TGATTCTGATT
71448540 CTAGTTCTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 1 0.02
37 43 0.98
ACGTcount: A:0.20, C:0.14, G:0.15, T:0.51
Consensus pattern (37 bp):
TGATTCTGATTTTGATTCTGTCACCGAATTCTGATTC
Found at i:71452225 original size:18 final size:18
Alignment explanation
Indices: 71452202--71452236 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
71452192 GTCGTGTTGG
71452202 CCACACAGGCATGTGGGC
1 CCACACAGGCATGTGGGC
71452220 CCACACAGGCATGTGGG
1 CCACACAGGCATGTGGG
71452237 ATTTTTGGGC
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:0.23, C:0.31, G:0.34, T:0.11
Consensus pattern (18 bp):
CCACACAGGCATGTGGGC
Found at i:71456214 original size:25 final size:26
Alignment explanation
Indices: 71456186--71456239 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
71456176 TAATTAGTAT
*
71456186 AAAATATT-AATAATTCAAT-AAATTG
1 AAAA-ATTAAATAATTAAATAAAATTG
71456211 AAAAATTAAATAATTAAATAAAATTG
1 AAAAATTAAATAATTAAATAAAATTG
71456237 AAA
1 AAA
71456240 TTTAGGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 3 0.12
25 14 0.54
26 9 0.35
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (26 bp):
AAAAATTAAATAATTAAATAAAATTG
Found at i:71460146 original size:22 final size:22
Alignment explanation
Indices: 71460120--71460163 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
71460110 GAAAATGATC
*
71460120 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
*
71460142 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
71460164 GTTAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:71468191 original size:15 final size:17
Alignment explanation
Indices: 71468161--71468192 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
71468151 TTGATACTTG
71468161 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
71468178 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
71468193 AATTATGCTA
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:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:71468257 original size:29 final size:29
Alignment explanation
Indices: 71468212--71468270 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
71468202 ATAGTAAATA
71468212 TGTTAAGTGTTACTAATGAGTGATATGAT
1 TGTTAAGTGTTACTAATGAGTGATATGAT
*
71468241 TGTTAAGTGTTAGTAATGAGTGATATGAT
1 TGTTAAGTGTTACTAATGAGTGATATGAT
71468270 T
1 T
71468271 TAGCCTCGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.02, G:0.25, T:0.42
Consensus pattern (29 bp):
TGTTAAGTGTTACTAATGAGTGATATGAT
Found at i:71481382 original size:28 final size:28
Alignment explanation
Indices: 71481338--71481461 Score: 119
Period size: 28 Copynumber: 4.4 Consensus size: 28
71481328 ACATACATGC
71481338 ATATGGCCCA-CTAGGCCCAATCTCATTT
1 ATATGGCCCATC-AGGCCCAATCTCATTT
*
71481366 ATATGGCCCATCCGGCCCAA--TCATGTT
1 ATATGGCCCATCAGGCCCAATCTCAT-TT
* *
71481393 CATATGGCCCATCAGGCCCAATTCACATTC
1 -ATATGGCCCATCAGGCCCAA-TCTCATTT
* * * * *
71481423 CTATGGCCTATTAGGCCCAATTTCCTTT
1 ATATGGCCCATCAGGCCCAATCTCATTT
71481451 ATATGGCCCAT
1 ATATGGCCCAT
71481462 TTAGCCCAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
26 4 0.05
27 2 0.03
28 49 0.64
29 18 0.23
30 1 0.01
31 3 0.04
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.29
Consensus pattern (28 bp):
ATATGGCCCATCAGGCCCAATCTCATTT
Found at i:71481480 original size:28 final size:28
Alignment explanation
Indices: 71481338--71481482 Score: 109
Period size: 28 Copynumber: 5.1 Consensus size: 28
71481328 ACATACATGC
* *
71481338 ATATGGCCCACTAGGCCC-AATCTCATTT
1 ATATGGCCCATTAGGCCCAAATCACA-TT
** **
71481366 ATATGGCCCATCCGGCCC-AATCATGTT
1 ATATGGCCCATTAGGCCCAAATCACATT
* *
71481393 CATATGGCCCATCAGGCCCAATTCACATT
1 -ATATGGCCCATTAGGCCCAAATCACATT
* * * *
71481422 CCTATGGCCTATTAGGCCCAATTTC-CTTT
1 -ATATGGCCCATTAGGCCCAA-ATCACATT
71481451 ATATGGCCCATTTA-GCCCAAATCACATT
1 ATATGGCCCA-TTAGGCCCAAATCACATT
71481479 ATAT
1 ATAT
71481483 TCATGTTCAC
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.04
28 57 0.61
29 30 0.32
30 3 0.03
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.30
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAAATCACATT
Found at i:71481587 original size:18 final size:19
Alignment explanation
Indices: 71481550--71481585 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
71481540 ATGGCCCAAC
71481550 AGCCCA-TCGGGCCCATTT
1 AGCCCATTCGGGCCCATTT
*
71481568 AGCCCATTCTGGCCCATT
1 AGCCCATTCGGGCCCATT
71481586 AGGCCATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.17, C:0.39, G:0.19, T:0.25
Consensus pattern (19 bp):
AGCCCATTCGGGCCCATTT
Found at i:71481734 original size:16 final size:16
Alignment explanation
Indices: 71481693--71481735 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
71481683 GTAGCCAAAC
71481693 TTTTGGCTTTTCGGCA
1 TTTTGGCTTTTCGGCA
* *
71481709 TTTCGACTTTTCGGCA
1 TTTTGGCTTTTCGGCA
71481725 TTTTGGCTTTT
1 TTTTGGCTTTT
71481736 GCCGATCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.07, C:0.19, G:0.21, T:0.53
Consensus pattern (16 bp):
TTTTGGCTTTTCGGCA
Found at i:71489313 original size:13 final size:13
Alignment explanation
Indices: 71489295--71489321 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
71489285 GCTCGGCAGG
71489295 GACACGCCCGTGT
1 GACACGCCCGTGT
71489308 GACACGCCCGTGT
1 GACACGCCCGTGT
71489321 G
1 G
71489322 CGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:71492334 original size:42 final size:42
Alignment explanation
Indices: 71492288--71492370 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
71492278 CATGAAGTAT
* * *
71492288 CATATCGA-CACCATGTCCCTGACATGGTCTTATATGAAATCA
1 CATATCGATC-CCATATCCCAGACATGGTCTTATACGAAATCA
*
71492330 CATATCGATCCCATATCCCAGATATGGTCTTATACGAAATC
1 CATATCGATCCCATATCCCAGACATGGTCTTATACGAAATC
71492371 TCAGTCATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 35 0.97
43 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (42 bp):
CATATCGATCCCATATCCCAGACATGGTCTTATACGAAATCA
Found at i:71494924 original size:46 final size:48
Alignment explanation
Indices: 71494721--71494990 Score: 189
Period size: 49 Copynumber: 5.7 Consensus size: 48
71494711 ATGCCGACGC
* * ** *
71494721 CATGTCCTAGACATGGTCTTACACTAGCAT-TCATATAGCGAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGC-TCTCATATCTCAAGGCCGATG
* * * * * * **
71494770 CTATGTCCCAGACAGGTCTTACACTGTCTCTCATCTATCGATGTTGATG
1 C-ATGTCCCAGACATGTCTTACACTGGCTCTCATATCTCAAGGCCGATG
* * * * * * *
71494819 TCATGTCCCAGACATGCCTTACACT-G---ACACACCACAA-GCTGACG
1 -CATGTCCCAGACATGTCTTACACTGGCTCTCATATCTCAAGGCCGATG
* *
71494863 CCATGTCCCAGACATGTCTTACACTAGCTCTCAT-T-TCAATGCCGATG
1 -CATGTCCCAGACATGTCTTACACTGGCTCTCATATCTCAAGGCCGATG
* * * *
71494910 CATGTCCCAAACATGTCTTACAATGGCT-TAAATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATATCTCAAGGCCGATG
71494958 CATGTCCCAGACATGTCTTACACTGGCTCTCAT
1 CATGTCCCAGACATGTCTTACACTGGCTCTCAT
71494991 GTTGTGGCTG
Statistics
Matches: 171, Mismatches: 38, Indels: 25
0.73 0.16 0.11
Matches are distributed among these distances:
44 28 0.16
45 6 0.04
46 30 0.18
47 6 0.04
48 41 0.24
49 48 0.28
50 12 0.07
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATATCTCAAGGCCGATG
Found at i:71496435 original size:43 final size:42
Alignment explanation
Indices: 71496388--71496482 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
71496378 CCCAAATGTA
* * * *
71496388 GTCTTACATGTAATCAAACATCGATGCCACTGTCCCAGACAGG
1 GTCTTACATGAAACCAAACAT-AATGCCAATGTCCCAGACAGG
* * * *
71496431 GTCTTACACGAAACCAGATATAATGCCAATGTCCCAGACATG
1 GTCTTACATGAAACCAAACATAATGCCAATGTCCCAGACAGG
71496473 GTCTTACATG
1 GTCTTACATG
71496483 CAAAATTGAT
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 27 0.63
43 16 0.37
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
GTCTTACATGAAACCAAACATAATGCCAATGTCCCAGACAGG
Found at i:71504517 original size:49 final size:49
Alignment explanation
Indices: 71504438--71504563 Score: 162
Period size: 49 Copynumber: 2.6 Consensus size: 49
71504428 AGATGTCGAC
*
71504438 GCCATGTCCTAGACATAGTCTTACACTGGCTATCATATAGCGAGGCTGAT
1 GCCATGTCCCAGACA-AGTCTTACACTGGCTATCATATAGCGAGGCTGAT
* * * * * *
71504488 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGGGTTGAT
1 GCCATGTCCCAGACAAGTCTTACACTGGCTATCATATAGCGAGGCTGAT
* *
71504537 GCCATGTCCCAAACAAATCTTACACTG
1 GCCATGTCCCAGACAAGTCTTACACTG
71504564 ACACACCACA
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 52 0.79
50 14 0.21
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAAGTCTTACACTGGCTATCATATAGCGAGGCTGAT
Found at i:71506272 original size:48 final size:46
Alignment explanation
Indices: 71506202--71506461 Score: 154
Period size: 48 Copynumber: 5.5 Consensus size: 46
71506192 AAGCTGACGC
* *
71506202 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCACGAGGCCGATG
1 CATGT-CCAAACATGTCTTACACTAGCTTG-ATATCACGAGGCCGATG
* * * *
71506250 CATATACCAAACATGTCTTACACTAGCTCTCG-TCTCA--ATGCTGATG
1 CATGT-CCAAACATGTCTTACACTAGCT-T-GATATCACGAGGCCGATG
* * * *
71506296 CATGTTCAAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCGATG
1 CATGTCCAA-ACATGTCTTACACTAGCTT-GATATCACGAGGCCGATG
* * * * * * *
71506344 CATGTCCTAGACATGTCTTACACTGGCTCTCAT-GC-TGTGGCTGATG
1 CATGTCC-AAACATGTCTTACACTAGCT-TGATATCACGAGGCCGATG
* * * * **
71506390 CATGTCCCAGACATGTCTTACACTGGCTTAAATATTTA-GAGGCCGACA
1 CATGT-CCAAACATGTCTTACACTAGCTT-GATA-TCACGAGGCCGATG
71506438 CATGTCCCAAACATGTCTTACACT
1 CATGT-CCAAACATGTCTTACACT
71506462 GGCTCTCATG
Statistics
Matches: 168, Mismatches: 31, Indels: 26
0.75 0.14 0.12
Matches are distributed among these distances:
45 5 0.03
46 66 0.39
47 3 0.02
48 90 0.54
49 3 0.02
50 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCAAACATGTCTTACACTAGCTTGATATCACGAGGCCGATG
Found at i:71506312 original size:46 final size:45
Alignment explanation
Indices: 71506246--71506507 Score: 167
Period size: 46 Copynumber: 5.6 Consensus size: 45
71506236 TCACGAGGCC
* * *
71506246 GATGCATATACCAA-ACATGTCTTACACTAGCTCTCGTCTCAATGCT
1 GATGCATGT-CCAAGACATGTCTTACACTGGCTCTCATCTC-ATGCT
* * * *
71506292 GATGCATGTTCAAGACATGTCTTACACTGGCT-TAAATATCTCGAGGCC
1 GATGCATGTCCAAGACATGTCTTACACTGGCTCT---CATCTC-ATGCT
* *
71506340 GATGCATGTCCTAGACATGTCTTACACTGGCTCTCATGCT-GTGGCT
1 GATGCATGTCCAAGACATGTCTTACACTGGCTCTCAT-CTCAT-GCT
* * * * * *
71506386 GATGCATGTCCCAGACATGTCTTACACTGGCT-TAAATATTTAGAGGCC
1 GATGCATGTCCAAGACATGTCTTACACTGGCTCT---CATCT-CATGCT
**
71506434 GACACATGTCCCAA-ACATGTCTTACACTGGCTCTCATGCT-ATGGCT
1 GATGCATGT-CCAAGACATGTCTTACACTGGCTCTCAT-CTCAT-GCT
** *
71506480 GACACATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCAAGACATGTCTTACACT
71506508 AGCACACATA
Statistics
Matches: 171, Mismatches: 28, Indels: 34
0.73 0.12 0.15
Matches are distributed among these distances:
45 9 0.05
46 87 0.51
47 4 0.02
48 66 0.39
49 5 0.03
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCAAGACATGTCTTACACTGGCTCTCATCTCATGCT
Found at i:71506363 original size:94 final size:93
Alignment explanation
Indices: 71506202--71506507 Score: 391
Period size: 94 Copynumber: 3.3 Consensus size: 93
71506192 AAGCTGACGC
* * ** * *
71506202 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCACGAGGCCGATGCATATACCAAACATGTC
1 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCGATGCATGT-CCAAACATGTC
* *
71506267 TTACACTAGCTCTCGT-CTCAAT-GCTGATG
65 TTACACTGGCTCTCATGCT--ATGGCTGATG
* * *
71506296 CATGTTCAAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCGATGCATGTCCTAGACATGTC
1 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCGATGCATGTCC-AAACATGTC
*
71506361 TTACACTGGCTCTCATGCTGTGGCTGATG
65 TTACACTGGCTCTCATGCTATGGCTGATG
* * **
71506390 CATGTCCCAGACATGTCTTACACTGGCTTAAATATTTAGAGGCCGACACATGTCCCAAACATGTC
1 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCGATGCATGT-CCAAACATGTC
**
71506455 TTACACTGGCTCTCATGCTATGGCTGACA
65 TTACACTGGCTCTCATGCTATGGCTGATG
71506484 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
71506508 AGCACACATA
Statistics
Matches: 186, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
93 3 0.02
94 179 0.96
95 4 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCGATGCATGTCCAAACATGTCT
TACACTGGCTCTCATGCTATGGCTGATG
Found at i:71506462 original size:48 final size:47
Alignment explanation
Indices: 71506304--71506507 Score: 200
Period size: 46 Copynumber: 4.3 Consensus size: 47
71506294 TGCATGTTCA
* * ** *
71506304 AGACATGTCTTACACTGGCT-TAAATATCTCGAGGCCGATGCATGTCCT
1 AGACATGTCTTACACTGGCTCT-AAT-GCTAGAGGCCGACACATGTCCC
* * * **
71506352 AGACATGTCTTACACTGGCTCTCATGCT-GTGGCTGATGCATGTCCC
1 AGACATGTCTTACACTGGCTCTAATGCTAGAGGCCGACACATGTCCC
**
71506398 AGACATGTCTTACACTGGCT-TAAATATTTAGAGGCCGACACATGTCCC
1 AGACATGTCTTACACTGGCTCT-AAT-GCTAGAGGCCGACACATGTCCC
* * * *
71506446 AAACATGTCTTACACTGGCTCTCATGCTA-TGGCTGACACATGTCCC
1 AGACATGTCTTACACTGGCTCTAATGCTAGAGGCCGACACATGTCCC
71506492 AGACATGTCTTACACT
1 AGACATGTCTTACACT
71506508 AGCACACATA
Statistics
Matches: 132, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 67 0.51
47 5 0.04
48 57 0.43
49 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (47 bp):
AGACATGTCTTACACTGGCTCTAATGCTAGAGGCCGACACATGTCCC
Found at i:71506506 original size:22 final size:22
Alignment explanation
Indices: 71506435--71506506 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
71506425 TTAGAGGCCG
*
71506435 ACACATGTCCCAAACATGTCTT
1 ACACATGTCCCAGACATGTCTT
* * *
71506457 ACAC-TGGCTCTCATG-CTATGGCTG
1 ACACAT-G-TCCCA-GAC-ATGTCTT
71506481 ACACATGTCCCAGACATGTCTT
1 ACACATGTCCCAGACATGTCTT
71506503 ACAC
1 ACAC
71506507 TAGCACACAT
Statistics
Matches: 37, Mismatches: 7, Indels: 12
0.66 0.12 0.21
Matches are distributed among these distances:
21 1 0.03
22 15 0.41
23 10 0.27
24 10 0.27
25 1 0.03
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.26
Consensus pattern (22 bp):
ACACATGTCCCAGACATGTCTT
Found at i:71509506 original size:42 final size:42
Alignment explanation
Indices: 71509405--71509511 Score: 97
Period size: 42 Copynumber: 2.5 Consensus size: 42
71509395 ACATCGATGT
* * * * * **
71509405 CATATCCCAGATATGGTCTTATACGAAATTTCATTTCGATGC
1 CATATCCCAAATATGGTCTTATACAAAATCTCATATCAACAC
* * ** *
71509447 CATGTCCCATACGTGGTCTTATGCAAAATCTCATATCAACAC
1 CATATCCCAAATATGGTCTTATACAAAATCTCATATCAACAC
*
71509489 CATATCCCAAATATGGTCCTATA
1 CATATCCCAAATATGGTCTTATA
71509512 TGATAACACA
Statistics
Matches: 48, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (42 bp):
CATATCCCAAATATGGTCTTATACAAAATCTCATATCAACAC
Found at i:71512944 original size:16 final size:19
Alignment explanation
Indices: 71512907--71512943 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
71512897 TGAAACAAAC
71512907 ATATAT-AATATTTATATA
1 ATATATAAATATTTATATA
*
71512925 ATATATAAATATTTTTATA
1 ATATATAAATATTTATATA
71512944 TTTAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATATAAATATTTATATA
Found at i:71520043 original size:41 final size:40
Alignment explanation
Indices: 71519995--71520108 Score: 108
Period size: 40 Copynumber: 2.8 Consensus size: 40
71519985 TCACATTAAA
* * * *
71519995 CTGAAGCTATCTCAGTATCGTACACTTAGTGCCACATATAG
1 CTGAAGCTATCTCAAT-TAGCACACTAAGTGCCACATATAG
* *
71520036 CTGAAGCTAT-TCCAATTAGCACACTAAGTGCTATATATAG
1 CTGAAGCTATCT-CAATTAGCACACTAAGTGCCACATATAG
*
71520076 CCGAAGCTATCTCGAA--ACGCACACTAAGTGCCA
1 CTGAAGCTATCTC-AATTA-GCACACTAAGTGCCA
71520109 AACATAGTCA
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
39 1 0.02
40 44 0.72
41 16 0.26
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (40 bp):
CTGAAGCTATCTCAATTAGCACACTAAGTGCCACATATAG
Found at i:71520074 original size:40 final size:40
Alignment explanation
Indices: 71520016--71520108 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
71520006 TCAGTATCGT
* *
71520016 ACACTTAGTGCCACATATAGCTGAAGCTAT-TCCAATTA-GC
1 ACACTAAGTGCCACATATAGCCGAAGCTATCTCCAA--ACGC
* * *
71520056 ACACTAAGTGCTATATATAGCCGAAGCTATCTCGAAACGC
1 ACACTAAGTGCCACATATAGCCGAAGCTATCTCCAAACGC
71520096 ACACTAAGTGCCA
1 ACACTAAGTGCCA
71520109 AACATAGTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.02
40 40 0.89
41 4 0.09
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
ACACTAAGTGCCACATATAGCCGAAGCTATCTCCAAACGC
Found at i:71520582 original size:28 final size:29
Alignment explanation
Indices: 71520518--71520583 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
71520508 TTTTCATTTA
* * *
71520518 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAAATTAACCCCTCAATTGACACT
*
71520547 TTTCTCAAATTAATCCCT-AATTGACA-T
1 TTTCTCAAATTAACCCCTCAATTGACACT
71520574 TTTCGTCAAA
1 TTTC-TCAAA
71520584 AAACACTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.16
28 12 0.38
29 15 0.47
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (29 bp):
TTTCTCAAATTAACCCCTCAATTGACACT
Found at i:71523968 original size:30 final size:30
Alignment explanation
Indices: 71523934--71523994 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
71523924 TCCTTAACTC
71523934 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
71523964 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
71523994 A
1 A
71523995 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:71532867 original size:27 final size:27
Alignment explanation
Indices: 71532836--71533014 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
71532826 TAAATTGTAC
* *
71532836 AGCACTAAGTGTGCGATTTAACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
71532863 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
71532889 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
71532917 GGCACTAAGTGTGCGAGGTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
71532945 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
71532972 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
71532999 AGCACTGAGTGTGCGA
1 AGCACTAAGTGTGCGA
71533015 GCTCAATATA
Statistics
Matches: 128, Mismatches: 21, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:71532897 original size:54 final size:55
Alignment explanation
Indices: 71532836--71533014 Score: 211
Period size: 54 Copynumber: 3.3 Consensus size: 55
71532826 TAAATTGTAC
* * **
71532836 AGCACTAAGTGTGCGATTTAACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
71532891 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGA-GTTGAATATGAT
* * *
71532945 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
71532999 AGCACTGAGTGTGCGA
1 AGCACTAAGTGTGCGA
71533015 GCTCAATATA
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
54 62 0.59
55 43 0.41
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:71533004 original size:82 final size:82
Alignment explanation
Indices: 71532833--71533015 Score: 217
Period size: 82 Copynumber: 2.2 Consensus size: 82
71532823 GATTAAATTG
* * *
71532833 TACAGCACTAAGTGTGCGA-TTTAACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTA
1 TACAGCACTAAGTGTGCGAGGTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTA
71532897 AGTGTGCGAATTGACCA
66 AGTGTGCGAATTGACCA
* * * ** *
71532914 TGCGGCACTAAGTGTGCGAGGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGAGGTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
71532978 AAGTGTGCGAGTTGATTA
65 AAGTGTGCGAATTGACCA
* *
71532996 TATAGCACTGAGTGTGCGAG
1 TACAGCACTAAGTGTGCGAG
71533016 CTCAATATAC
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (82 bp):
TACAGCACTAAGTGTGCGAGGTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTA
AGTGTGCGAATTGACCA
Found at i:71536622 original size:46 final size:47
Alignment explanation
Indices: 71536516--71536631 Score: 144
Period size: 50 Copynumber: 2.4 Consensus size: 47
71536506 TGTCTTCGAC
** * *
71536516 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
71536566 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
71536612 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
71536632 TTTGTCTTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 29 0.49
50 30 0.51
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:71539000 original size:38 final size:38
Alignment explanation
Indices: 71538922--71539184 Score: 287
Period size: 38 Copynumber: 6.8 Consensus size: 38
71538912 ATTTGATGTG
* *
71538922 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGAATTA
* * * *
71538962 TATCCGGGTTAAATCCCCCAAGCTTTGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
*
71539000 TATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
71539038 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* *
71539076 TATCCGGGTTAAATCCTGCAGGCTTCATGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
** * * * *
71539114 TATCCGGGTTAAATCCCATAGGCCTAGTGTTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * * *
71539152 TATCTGAGCTTAAAGTCTCGCAGGCTTAGTGCT
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCT
71539185 AGTGACTGGA
Statistics
Matches: 190, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
37 3 0.02
38 154 0.81
39 12 0.06
40 21 0.11
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
Found at i:71539144 original size:114 final size:114
Alignment explanation
Indices: 71538922--71539184 Score: 330
Period size: 114 Copynumber: 2.3 Consensus size: 114
71538912 ATTTGATGTG
* *
71538922 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCCCCCAAGCTT
1 TATCCGGG-TTAAAGTCCCGCAGGCT-TGTGCTGGAATTATATCCGGGTTAAATCCCCCAAGCTT
** * * * *
71538987 TGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAATA
64 CATGCTGGAATTATATCCGGGTTAAATCCCACAGGCCTAGTGTTGGTAATA
** *
71539038 TATCCGGGTTAAA-TCCCGCAGGCTTCGTGCTGGAATTATATCCGGGTTAAATCCTGCAGGCTTC
1 TATCCGGGTTAAAGTCCCGCAGGCTT-GTGCTGGAATTATATCCGGGTTAAATCCCCCAAGCTTC
* *
71539102 ATGCTGGAATTATATCCGGGTTAAATCCCATAGGCCTAGTGTTGGTATTA
65 ATGCTGGAATTATATCCGGGTTAAATCCCACAGGCCTAGTGTTGGTAATA
* * *
71539152 TATCTGAGCTTAAAGTCTCGCAGGCTTAGTGCT
1 TATCCG-GGTTAAAGTCCCGCAGGCTT-GTGCT
71539185 AGTGACTGGA
Statistics
Matches: 127, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
113 1 0.01
114 91 0.72
115 11 0.09
116 24 0.19
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (114 bp):
TATCCGGGTTAAAGTCCCGCAGGCTTGTGCTGGAATTATATCCGGGTTAAATCCCCCAAGCTTCA
TGCTGGAATTATATCCGGGTTAAATCCCACAGGCCTAGTGTTGGTAATA
Found at i:71539317 original size:19 final size:20
Alignment explanation
Indices: 71539292--71539336 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
71539282 TGTATGATAC
71539292 ATTATGATGGCCAGGTACGT
1 ATTATGATGGCCAGGTACGT
71539312 -TTATGATGGCCAGGTACGT
1 ATTATGATGGCCAGGTACGT
71539331 ATTATG
1 ATTATG
71539337 TACTCGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.33
Consensus pattern (20 bp):
ATTATGATGGCCAGGTACGT
Found at i:71541206 original size:46 final size:45
Alignment explanation
Indices: 71541110--71541258 Score: 153
Period size: 44 Copynumber: 3.4 Consensus size: 45
71541100 ACTCAGAAAA
* * * *
71541110 CTCGCACACTTAGTGCCAAATA-A-ATATCTTAAGCTATAC-CAAT
1 CTCGCACACTAAGTGCCAAATATATATAGCTGAAGCTAT-CTCGAT
* *
71541153 CTTGCACACTAAGTGCCAATATATATATAGCCGAAGCTATCTCGAT
1 CTCGCACACTAAGTGCCAA-ATATATATAGCTGAAGCTATCTCGAT
* * *
71541199 CTCGCACACTAAGTG-TAAATATATATAGATGAAGCTATCTTGAT
1 CTCGCACACTAAGTGCCAAATATATATAGCTGAAGCTATCTCGAT
* *
71541243 TTTGCACACTAAGTGC
1 CTCGCACACTAAGTGC
71541259 ACATAATTAG
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
43 17 0.19
44 39 0.44
45 4 0.05
46 28 0.32
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (45 bp):
CTCGCACACTAAGTGCCAAATATATATAGCTGAAGCTATCTCGAT
Found at i:71556544 original size:44 final size:44
Alignment explanation
Indices: 71556418--71556567 Score: 169
Period size: 44 Copynumber: 3.4 Consensus size: 44
71556408 ACTCAAAAAA
* * * *
71556418 CTCGCACACTTAGTGCGAAATA-A-ATATCTGAAGCTATATCAAT
1 CTCGCACACTAAGTGC-AAATATATATAGCTGAAGCTATCTCGAT
* * *
71556461 CTCACACACCAAGTGCCAATATATATATAGCCGAAGCTATCTCGAT
1 CTCGCACACTAAGTG-CAA-ATATATATAGCTGAAGCTATCTCGAT
* *
71556507 CTCGCACACTAAGTGCAAATATATATAGCTAAAGCTATCTTGAT
1 CTCGCACACTAAGTGCAAATATATATAGCTGAAGCTATCTCGAT
*
71556551 TTCGCACACTAAGTGCA
1 CTCGCACACTAAGTGCA
71556568 CATAATTAGC
Statistics
Matches: 90, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
43 14 0.16
44 43 0.48
45 4 0.04
46 29 0.32
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (44 bp):
CTCGCACACTAAGTGCAAATATATATAGCTGAAGCTATCTCGAT
Found at i:71560456 original size:41 final size:41
Alignment explanation
Indices: 71560410--71560542 Score: 169
Period size: 41 Copynumber: 3.2 Consensus size: 41
71560400 AGTATATTGG
* *
71560410 TTGCATGTAAGCATGTCACTGATTGTAACCGTACATACTGA
1 TTGCATGTAAGCATGCCACTAATTGTAACCGTACATACTGA
* *
71560451 TTGCATGTAAACATGCCATTAATTGTTAA-CGTACATACTGA
1 TTGCATGTAAGCATGCCACTAATTG-TAACCGTACATACTGA
* * * * *
71560492 TTGCATATAAGCATGCCACTAATTGTTACCATATATTCTGA
1 TTGCATGTAAGCATGCCACTAATTGTAACCGTACATACTGA
71560533 TTGCATGTAA
1 TTGCATGTAA
71560543 AGTATGACAC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 2 0.03
41 73 0.94
42 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (41 bp):
TTGCATGTAAGCATGCCACTAATTGTAACCGTACATACTGA
Found at i:71561408 original size:20 final size:21
Alignment explanation
Indices: 71561365--71561408 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
71561355 CAAATTGATG
*
71561365 AAATCAACTAATTTTTTTGACA
1 AAATCAACT-ATTTTTTTCACA
*
71561387 AAATCAACT-TTTTTTTCTCA
1 AAATCAACTATTTTTTTCACA
71561407 AA
1 AA
71561409 TGTCTTGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
22 9 0.45
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (21 bp):
AAATCAACTATTTTTTTCACA
Found at i:71572841 original size:34 final size:34
Alignment explanation
Indices: 71572802--71572867 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
71572792 CACCCTTCAA
71572802 CTCTCCTTTCTTCTTCC-CTTTTCCACCTTCCCTT
1 CTCTCCTTTCTTCTTCCTCTTTTCC-CCTTCCCTT
*
71572836 CTCTCCTTTCTTTTTCCTTCTTTTCCCCTTCC
1 CTCTCCTTTCTTCTTCC-TCTTTTCCCCTTCC
71572868 ACCACAGCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 16 0.55
35 6 0.21
36 7 0.24
ACGTcount: A:0.02, C:0.45, G:0.00, T:0.53
Consensus pattern (34 bp):
CTCTCCTTTCTTCTTCCTCTTTTCCCCTTCCCTT
Found at i:71575401 original size:40 final size:40
Alignment explanation
Indices: 71575346--71575534 Score: 306
Period size: 40 Copynumber: 4.7 Consensus size: 40
71575336 TGAGCATTGG
71575346 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71575386 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
71575426 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
71575466 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
71575506 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
71575535 ATGTGTTTGC
Statistics
Matches: 139, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:71579520 original size:46 final size:47
Alignment explanation
Indices: 71579414--71579529 Score: 144
Period size: 50 Copynumber: 2.4 Consensus size: 47
71579404 TGTCTTCGAC
** * *
71579414 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
71579464 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
71579510 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
71579530 TTTGTCTTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 29 0.49
50 30 0.51
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:71581898 original size:38 final size:38
Alignment explanation
Indices: 71581820--71582196 Score: 490
Period size: 38 Copynumber: 9.8 Consensus size: 38
71581810 ATTTGATGTG
* *
71581820 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGAATTA
* * * *
71581860 TATCCGGGTTAAATCCCCCAAGCTTTGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
71581898 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
*
71581936 TATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
*
71581974 TATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
71582012 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
71582050 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* *
71582088 TATCCGGGTTAAATCCTGCAGGCTTCATGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
** * * * *
71582126 TATCCGGGTTAAATCCCATAGGCCTAGTGTTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * * *
71582164 TATCTGAGCTTAAAGTCTCGCAGGCTTAGTGCT
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCT
71582197 AGTGACTGGA
Statistics
Matches: 304, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
37 3 0.01
38 267 0.88
39 13 0.04
40 21 0.07
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
Found at i:71582329 original size:19 final size:20
Alignment explanation
Indices: 71582304--71582348 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
71582294 TGTATGATAC
71582304 ATTATGATGGCCAGGTACGT
1 ATTATGATGGCCAGGTACGT
71582324 -TTATGATGGCCAGGTACGT
1 ATTATGATGGCCAGGTACGT
71582343 ATTATG
1 ATTATG
71582349 TACTCGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.33
Consensus pattern (20 bp):
ATTATGATGGCCAGGTACGT
Found at i:71584218 original size:46 final size:45
Alignment explanation
Indices: 71584122--71584270 Score: 153
Period size: 44 Copynumber: 3.4 Consensus size: 45
71584112 ACTCAGAAAA
* * * *
71584122 CTCGCACACTTAGTGCCAAATA-A-ATATCTTAAGCTATAC-CAAT
1 CTCGCACACTAAGTGCCAAATATATATAGCTGAAGCTAT-CTCGAT
* *
71584165 CTTGCACACTAAGTGCCAATATATATATAGCCGAAGCTATCTCGAT
1 CTCGCACACTAAGTGCCAA-ATATATATAGCTGAAGCTATCTCGAT
* * *
71584211 CTCGCACACTAAGTG-TAAATATATATAGATGAAGCTATCTTGAT
1 CTCGCACACTAAGTGCCAAATATATATAGCTGAAGCTATCTCGAT
* *
71584255 TTTGCACACTAAGTGC
1 CTCGCACACTAAGTGC
71584271 ACATAATTAG
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
43 17 0.19
44 39 0.44
45 4 0.05
46 28 0.32
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (45 bp):
CTCGCACACTAAGTGCCAAATATATATAGCTGAAGCTATCTCGAT
Found at i:71599584 original size:44 final size:44
Alignment explanation
Indices: 71599458--71599607 Score: 169
Period size: 44 Copynumber: 3.4 Consensus size: 44
71599448 ACTCAAAAAA
* * * *
71599458 CTCGCACACTTAGTGCGAAATA-A-ATATCTGAAGCTATATCAAT
1 CTCGCACACTAAGTGC-AAATATATATAGCTGAAGCTATCTCGAT
* * *
71599501 CTCACACACCAAGTGCCAATATATATATAGCCGAAGCTATCTCGAT
1 CTCGCACACTAAGTG-CAA-ATATATATAGCTGAAGCTATCTCGAT
* *
71599547 CTCGCACACTAAGTGCAAATATATATAGCTAAAGCTATCTTGAT
1 CTCGCACACTAAGTGCAAATATATATAGCTGAAGCTATCTCGAT
*
71599591 TTCGCACACTAAGTGCA
1 CTCGCACACTAAGTGCA
71599608 CATAATTAGC
Statistics
Matches: 90, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
43 14 0.16
44 43 0.48
45 4 0.04
46 29 0.32
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (44 bp):
CTCGCACACTAAGTGCAAATATATATAGCTGAAGCTATCTCGAT
Found at i:71603496 original size:41 final size:41
Alignment explanation
Indices: 71603450--71603582 Score: 169
Period size: 41 Copynumber: 3.2 Consensus size: 41
71603440 AGTATATTGG
* *
71603450 TTGCATGTAAGCATGTCACTGATTGTAACCGTACATACTGA
1 TTGCATGTAAGCATGCCACTAATTGTAACCGTACATACTGA
* *
71603491 TTGCATGTAAACATGCCATTAATTGTTAA-CGTACATACTGA
1 TTGCATGTAAGCATGCCACTAATTG-TAACCGTACATACTGA
* * * * *
71603532 TTGCATATAAGCATGCCACTAATTGTTACCATATATTCTGA
1 TTGCATGTAAGCATGCCACTAATTGTAACCGTACATACTGA
71603573 TTGCATGTAA
1 TTGCATGTAA
71603583 AGTATGACAC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 2 0.03
41 73 0.94
42 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (41 bp):
TTGCATGTAAGCATGCCACTAATTGTAACCGTACATACTGA
Found at i:71604448 original size:20 final size:21
Alignment explanation
Indices: 71604405--71604448 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
71604395 CAAATTGATG
*
71604405 AAATCAACTAATTTTTTTGACA
1 AAATCAACT-ATTTTTTTCACA
*
71604427 AAATCAACT-TTTTTTTCTCA
1 AAATCAACTATTTTTTTCACA
71604447 AA
1 AA
71604449 TGTCTTGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
22 9 0.45
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (21 bp):
AAATCAACTATTTTTTTCACA
Found at i:71608957 original size:50 final size:50
Alignment explanation
Indices: 71608902--71609004 Score: 188
Period size: 50 Copynumber: 2.1 Consensus size: 50
71608892 AGCATCATTC
*
71608902 AAAATTGATTAAAAACTTCATTCATTTAACAACTTAATGTTCATGTATCA
1 AAAATTGATTAAAAACTTCATTCATTTAACAACATAATGTTCATGTATCA
*
71608952 AAAATTGATTAAAAACTTCATTCGTTTAACAACATAATGTTCATGTATCA
1 AAAATTGATTAAAAACTTCATTCATTTAACAACATAATGTTCATGTATCA
71609002 AAA
1 AAA
71609005 TATCATATAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.36
Consensus pattern (50 bp):
AAAATTGATTAAAAACTTCATTCATTTAACAACATAATGTTCATGTATCA
Found at i:71623369 original size:34 final size:34
Alignment explanation
Indices: 71623330--71623395 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
71623320 CACCCTTCAA
71623330 CTCTCCTTTCTTCTTCC-CTTTTCCACCTTCCCTT
1 CTCTCCTTTCTTCTTCCTCTTTTCC-CCTTCCCTT
*
71623364 CTCTCCTTTCTTTTTCCTTCTTTTCCCCTTCC
1 CTCTCCTTTCTTCTTCC-TCTTTTCCCCTTCC
71623396 ACCACAGCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 16 0.55
35 6 0.21
36 7 0.24
ACGTcount: A:0.02, C:0.45, G:0.00, T:0.53
Consensus pattern (34 bp):
CTCTCCTTTCTTCTTCCTCTTTTCCCCTTCCCTT
Found at i:71625924 original size:40 final size:40
Alignment explanation
Indices: 71625869--71626937 Score: 2057
Period size: 40 Copynumber: 26.7 Consensus size: 40
71625859 TGAGCATTGG
71625869 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71625909 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71625949 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71625989 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626029 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626069 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626109 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626149 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626189 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626229 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626269 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626309 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626349 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626389 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626429 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626469 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626509 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626549 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626589 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626629 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626669 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626709 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
71626749 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
71626789 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
71626829 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
71626869 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
71626909 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
71626938 ATGTGTTTGC
Statistics
Matches: 1017, Mismatches: 12, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 1017 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:71628322 original size:6 final size:6
Alignment explanation
Indices: 71628313--71628353 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
71628303 GGGGTGTTAC
* *
71628313 ATTTTT ATTTATT ATTTTT ATTTTT ACTTTT ATCTTT ATTT
1 ATTTTT ATTT-TT ATTTTT ATTTTT ATTTTT ATTTTT ATTT
71628354 ATCTTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:71633804 original size:407 final size:407
Alignment explanation
Indices: 71633049--71633862 Score: 1628
Period size: 407 Copynumber: 2.0 Consensus size: 407
71633039 TCTCTGACCT
71633049 GGCTCTAATAGCACTAAATGTAACACCCCAAACCTGGCCTGGACGTTATGGCCGAATCTGGCAAT
1 GGCTCTAATAGCACTAAATGTAACACCCCAAACCTGGCCTGGACGTTATGGCCGAATCTGGCAAT
71633114 GTCACATGAGAGGGTTTTTTGAAACTGTATTGACCTTAAAACCGTACCAATTATTAACTAGTACT
66 GTCACATGAGAGGGTTTTTTGAAACTGTATTGACCTTAAAACCGTACCAATTATTAACTAGTACT
71633179 TAGTCTGGGCAAACGCGTCCTAATTGTTCTAATTTAAAGCAATGCTTTTACGCGGAATCTTTTAA
131 TAGTCTGGGCAAACGCGTCCTAATTGTTCTAATTTAAAGCAATGCTTTTACGCGGAATCTTTTAA
71633244 AACCATTTTCGTATGCGTGGTAGTTTTGTAAAACATTCGGTTCTTTTGATAACTCGAGTTTTGCT
196 AACCATTTTCGTATGCGTGGTAGTTTTGTAAAACATTCGGTTCTTTTGATAACTCGAGTTTTGCT
71633309 ACTACTAGCAGTAAAAACTGTAAAACATTTCAAAATCCCAAATTAAGAAAAAAATCTATAAAGGC
261 ACTACTAGCAGTAAAAACTGTAAAACATTTCAAAATCCCAAATTAAGAAAAAAATCTATAAAGGC
71633374 CTTAATAACAACAAAATTTCCCCAAATATAAATTAAATCATAAGTAACTAGAAAAAAGTCCAAGT
326 CTTAATAACAACAAAATTTCCCCAAATATAAATTAAATCATAAGTAACTAGAAAAAAGTCCAAGT
71633439 AGAAAACCGTGTAGCCA
391 AGAAAACCGTGTAGCCA
71633456 GGCTCTAATAGCACTAAATGTAACACCCCAAACCTGGCCTGGACGTTATGGCCGAATCTGGCAAT
1 GGCTCTAATAGCACTAAATGTAACACCCCAAACCTGGCCTGGACGTTATGGCCGAATCTGGCAAT
71633521 GTCACATGAGAGGGTTTTTTGAAACTGTATTGACCTTAAAACCGTACCAATTATTAACTAGTACT
66 GTCACATGAGAGGGTTTTTTGAAACTGTATTGACCTTAAAACCGTACCAATTATTAACTAGTACT
71633586 TAGTCTGGGCAAACGCGTCCTAATTGTTCTAATTTAAAGCAATGCTTTTACGCGGAATCTTTTAA
131 TAGTCTGGGCAAACGCGTCCTAATTGTTCTAATTTAAAGCAATGCTTTTACGCGGAATCTTTTAA
71633651 AACCATTTTCGTATGCGTGGTAGTTTTGTAAAACATTCGGTTCTTTTGATAACTCGAGTTTTGCT
196 AACCATTTTCGTATGCGTGGTAGTTTTGTAAAACATTCGGTTCTTTTGATAACTCGAGTTTTGCT
71633716 ACTACTAGCAGTAAAAACTGTAAAACATTTCAAAATCCCAAATTAAGAAAAAAATCTATAAAGGC
261 ACTACTAGCAGTAAAAACTGTAAAACATTTCAAAATCCCAAATTAAGAAAAAAATCTATAAAGGC
71633781 CTTAATAACAACAAAATTTCCCCAAATATAAATTAAATCATAAGTAACTAGAAAAAAGTCCAAGT
326 CTTAATAACAACAAAATTTCCCCAAATATAAATTAAATCATAAGTAACTAGAAAAAAGTCCAAGT
71633846 AGAAAACCGTGTAGCCA
391 AGAAAACCGTGTAGCCA
71633863 TCGCCGACAG
Statistics
Matches: 407, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
407 407 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (407 bp):
GGCTCTAATAGCACTAAATGTAACACCCCAAACCTGGCCTGGACGTTATGGCCGAATCTGGCAAT
GTCACATGAGAGGGTTTTTTGAAACTGTATTGACCTTAAAACCGTACCAATTATTAACTAGTACT
TAGTCTGGGCAAACGCGTCCTAATTGTTCTAATTTAAAGCAATGCTTTTACGCGGAATCTTTTAA
AACCATTTTCGTATGCGTGGTAGTTTTGTAAAACATTCGGTTCTTTTGATAACTCGAGTTTTGCT
ACTACTAGCAGTAAAAACTGTAAAACATTTCAAAATCCCAAATTAAGAAAAAAATCTATAAAGGC
CTTAATAACAACAAAATTTCCCCAAATATAAATTAAATCATAAGTAACTAGAAAAAAGTCCAAGT
AGAAAACCGTGTAGCCA
Found at i:71633922 original size:13 final size:13
Alignment explanation
Indices: 71633904--71633928 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71633894 TTTTCGCAAA
71633904 CTACACAGATTAC
1 CTACACAGATTAC
71633917 CTACACAGATTA
1 CTACACAGATTA
71633929 AGCAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
CTACACAGATTAC
Found at i:71641074 original size:22 final size:23
Alignment explanation
Indices: 71641044--71641123 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 23
71641034 GAGCTAATGG
71641044 ACAGTAAGCTCAT-TGAGCTGAA
1 ACAGTAAGCTCATATGAGCTGAA
* *
71641066 ACGGTAAGCT-TTGATGAGCTGAA
1 ACAGTAAGCTCAT-ATGAGCTGAA
* *
71641089 ACAGTAAGCTCATACGAGCTAAGA
1 ACAGTAAGCTCATATGAGCTGA-A
*
71641113 ACAATAAGCTC
1 ACAGTAAGCTC
71641124 TTACCATCTG
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.02
22 9 0.19
23 25 0.53
24 12 0.26
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (23 bp):
ACAGTAAGCTCATATGAGCTGAA
Found at i:71641107 original size:23 final size:24
Alignment explanation
Indices: 71641044--71641159 Score: 69
Period size: 23 Copynumber: 4.9 Consensus size: 24
71641034 GAGCTAATGG
*
71641044 ACAGTAAGCTCAT-TGAGCTGA-A
1 ACAGTAAGCTCATACGAGCTGAGA
* * *
71641066 ACGGTAAGCT-TTGATGAGCTGA-A
1 ACAGTAAGCTCAT-ACGAGCTGAGA
*
71641089 ACAGTAAGCTCATACGAGCTAAGA
1 ACAGTAAGCTCATACGAGCTGAGA
* * * * *
71641113 ACAATAAGCTCTTACCATCTGATA
1 ACAGTAAGCTCATACGAGCTGAGA
**
71641137 TATTGGTAAGCTCATACGAGCTG
1 -A-CAGTAAGCTCATACGAGCTG
71641160 TGGTGAGTTT
Statistics
Matches: 70, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
21 1 0.01
22 9 0.13
23 25 0.36
24 20 0.29
25 1 0.01
26 14 0.20
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (24 bp):
ACAGTAAGCTCATACGAGCTGAGA
Found at i:71647762 original size:30 final size:30
Alignment explanation
Indices: 71647728--71647788 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
71647718 TCATTAACTC
71647728 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
71647758 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
71647788 A
1 A
71647789 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:71656235 original size:14 final size:14
Alignment explanation
Indices: 71656216--71656250 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
71656206 TACTGGTGAA
71656216 TACAGATTATAACT
1 TACAGATTATAACT
71656230 TACAGATTATAACT
1 TACAGATTATAACT
*
71656244 TGCAGAT
1 TACAGAT
71656251 AGTGAGATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (14 bp):
TACAGATTATAACT
Found at i:71663605 original size:560 final size:560
Alignment explanation
Indices: 71662886--71664296 Score: 1526
Period size: 560 Copynumber: 2.5 Consensus size: 560
71662876 TTTTTAAAAA
* * * *
71662886 ATAATTTAAAATTATTAAATATAATATTTATATAAATATTTGTTGGTTAATAGAT---AAAATAA
1 ATAATTTAAAATTATTAAATATAATATTTATGTAAATATTTTTTGATTAATAGATAAAAAAATTA
* ** *
71662948 AGTATTATATCAAATGATATTTCATTTTCATTTTCTTACAATCTATGTAATTATTTTTTTAATTA
66 AGTATTATATAAAATGATATTTTGTATTCATTTTCTTACAAT-TATG----TA-TTTTTTAATTA
* * *
71663013 ATAAAAATGAACAAATCCTTGAAATAAATAAACCTTTGAGCCAAACATAGTAAAGCAAAAATGCA
125 ATAAAAATTAACAAATCCTTGAAATAAATAAACCTTTGAGCCAAACGTA-CAAAGCAAAAATG-A
* * *
71663078 AGTTAACAATTGTTGATATAAGTTTTGGTGTTAAGAGGTTTAAGACAGATCATACGCGATGTTGA
188 AGTTAATAATTGTTGATATAAGTTTTGGTGTTAAGAGGTTTAAGACAGATCACACGAGATGTTGA
* * * *
71663143 GAGCTATTAATGGTGGTGTGAG-ATGTTTGAAGAGGTATGAAGATAGTTTGACTGACAGTTTTGG
253 GAGCCATTAATGGTGGTGTGAGAATGTTTGAAGAGGTACGAAGATACTTTGAC--AAAGTTTTGG
* * * *
71663207 TAATCTTTAGATTGCTTGGCTGTTATTGGAGATGCAAGGGTTTTACATATAGTAT-TCACGTC-A
316 TAATCCTTAGATTGCTTCGCTCTTATTGGAGATGC-A------T--ATATAGTATCT-ACATCAA
* * *
71663270 ATTTT-T-TT-ATTTTTAAGTATAAATATTAAAATA-TCTTCAAAAAATATAATTTATTTTGATT
371 ATTTTCTATTGATTTTTAAGTAAAAAGATTAAAATATTC-TCAAAAAATATAATTTATTTTAATT
* * * *
71663331 ATGAAATGATATTTTTGTAATTTCTTTAATTGAGTTGGTATTC-AA-T-TG-ATTCCTGA-AA-T
435 ACGAAATGATATTTTCGTAATTTCTTTAACTGAATTGGTATTCTAACTATGAATTCC-GATAACT
* **
71663390 -T-AATTTAA-TTAGGGACTT-AATTAATAATATAGATATGTATATAACAATTGTTT-A-A-TT
499 GTGAATTTAACTCA-GGACTTGAA-TAATAATATAGATACATATATAACAATTGTTTAATATTT
*
71663447 -TAATTTAAAATTATTAAATATAATATTTATGTAAATGTTCTTTTGATTAATAGATAAAAAGAAT
1 ATAATTTAAAATTATTAAATATAATATTTATGTAAATATT-TTTTGATTAATAGATAAAAA-AAT
*
71663511 TAAGTATTATATAAAATTATATTTTGTATTCATTTTCTTACAACTTATGTATTTTTTAATTAATA
64 TAAGTATTATATAAAATGATATTTTGTATTCATTTTCTTACAA-TTATGTATTTTTTAATTAATA
* * * * *
71663576 AAAATTAATAACTCCTTGAATTAAATAAACCTTGGAGCCAAACGTACCAAGCAAAAATGAAGGTT
128 AAAATTAACAAATCCTTGAAATAAATAAACCTTTGAGCCAAACGTACAAAGCAAAAATGAA-GTT
* * * * *
71663641 AATAATTGTTGATACAAGTTTTGGTGTTAAAAGGTTTAAGACA-ATTCACATGAGACGCTGAGAG
192 AATAATTGTTGATATAAGTTTTGGTGTTAAGAGGTTTAAGACAGA-TCACACGAGATGTTGAGAG
** *
71663705 CCATTAACCGTGGTGTGAGAATGTTTGGAGAGGTACGAAGATACTTTGACAAAGTTTTGGTAATC
256 CCATTAATGGTGGTGTGAGAATGTTTGAAGAGGTACGAAGATACTTTGACAAAGTTTTGGTAATC
* *
71663770 CTTAGATTGCTTCGCTCTTCTTGGAGATGCATATATAGTATCTACATCAAATTTTCTATTGTTTT
321 CTTAGATTGCTTCGCTCTTATTGGAGATGCATATATAGTATCTACATCAAATTTTCTATTGATTT
* * *
71663835 TTAAGTAAAAAGATTGAAATATTCTCAAATAATATAATTTATTTTAATTACGGAATGATATTTTC
386 TTAAGTAAAAAGATTAAAATATTCTCAAAAAATATAATTTATTTTAATTACGAAATGATATTTTC
* * * *
71663900 GTAATTTTTTTAACTGAATTGGTGTTCGATTAACTTATGACATTTCGATTAACTTGTGATTTTAA
451 GTAATTTCTTTAACTGAATTGGTATTC---TAAC-TATGA-ATTCCGA-TAAC-TGTGAATTTAA
*
71663965 CTCAGGACTTGAATAATAATATAGATACATATATAATAATTGTTTAAATTTTTTATTTTT
509 CTCAGGACTTGAATAATAATATAGATACATATATAACAATTGTTT-AA-----TA--TTT
*
71664025 AAATAATTTAAAATTATTAAATATAATATTTATGTAAATATTTTTTGTTTAATAGATAAAAAAAT
1 --ATAATTTAAAATTATTAAATATAATATTTATGTAAATATTTTTTGATTAATAGATAAAAAAA-
*
71664090 TTAAGTATTATATAAAATGATATTTTTGTATTCATTTTCTTACAATTTATATAATATTTTTAATT
63 TTAAGTATTATATAAAATGATA-TTTTGTATTCATTTTCTTACAA-TTATGT-AT-TTTTTAATT
* * * * *
71664155 AATAAAAATTAACAAATCCTTAAAATAAATAAAGCTTTGAGCCAAATGTAACAAAGTAAAAACGA
124 AATAAAAATTAACAAATCCTTGAAATAAATAAACCTTTGAGCCAAACGT-ACAAAGCAAAAATGA
** * * *
71664220 AGTTAATAATTGTCAAT-TCAAGTTTTCGTGTTAAGAGGTTTAAGATAGTTCACACGAGATGTTG
188 AGTTAATAATTGTTGATAT-AAGTTTTGGTGTTAAGAGGTTTAAGACAGATCACACGAGATGTTG
71664284 -GATGCCATTAATG
252 AGA-GCCATTAATG
71664297 CTGGCCCACA
Statistics
Matches: 712, Mismatches: 84, Indels: 86
0.81 0.10 0.10
Matches are distributed among these distances:
549 13 0.02
550 7 0.01
551 2 0.00
552 2 0.00
553 80 0.11
554 2 0.00
557 3 0.00
558 43 0.06
559 85 0.12
560 120 0.17
561 17 0.02
562 4 0.01
563 2 0.00
564 2 0.00
565 45 0.06
566 2 0.00
567 41 0.06
568 4 0.01
569 1 0.00
575 1 0.00
578 2 0.00
579 2 0.00
580 40 0.06
581 65 0.09
582 4 0.01
583 110 0.15
584 13 0.02
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (560 bp):
ATAATTTAAAATTATTAAATATAATATTTATGTAAATATTTTTTGATTAATAGATAAAAAAATTA
AGTATTATATAAAATGATATTTTGTATTCATTTTCTTACAATTATGTATTTTTTAATTAATAAAA
ATTAACAAATCCTTGAAATAAATAAACCTTTGAGCCAAACGTACAAAGCAAAAATGAAGTTAATA
ATTGTTGATATAAGTTTTGGTGTTAAGAGGTTTAAGACAGATCACACGAGATGTTGAGAGCCATT
AATGGTGGTGTGAGAATGTTTGAAGAGGTACGAAGATACTTTGACAAAGTTTTGGTAATCCTTAG
ATTGCTTCGCTCTTATTGGAGATGCATATATAGTATCTACATCAAATTTTCTATTGATTTTTAAG
TAAAAAGATTAAAATATTCTCAAAAAATATAATTTATTTTAATTACGAAATGATATTTTCGTAAT
TTCTTTAACTGAATTGGTATTCTAACTATGAATTCCGATAACTGTGAATTTAACTCAGGACTTGA
ATAATAATATAGATACATATATAACAATTGTTTAATATTT
Found at i:71666241 original size:9 final size:10
Alignment explanation
Indices: 71666227--71666266 Score: 59
Period size: 9 Copynumber: 4.3 Consensus size: 10
71666217 TGATCTGTTT
71666227 TTAG-TTAAA
1 TTAGTTTAAA
71666236 TTAG-TTAAA
1 TTAGTTTAAA
71666245 TTAGTTTAAA
1 TTAGTTTAAA
71666255 TT-GTTTAAA
1 TTAGTTTAAA
71666264 TTA
1 TTA
71666267 ATTACTAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (10 bp):
TTAGTTTAAA
Found at i:71666255 original size:19 final size:18
Alignment explanation
Indices: 71666227--71666266 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
71666217 TGATCTGTTT
71666227 TTAG-TTAAATTAGTTAAA
1 TTAGTTTAAATT-GTTAAA
71666245 TTAGTTTAAATTGTTTAAA
1 TTAGTTTAAATTG-TTAAA
71666264 TTA
1 TTA
71666267 ATTACTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (18 bp):
TTAGTTTAAATTGTTAAA
Found at i:71668888 original size:18 final size:18
Alignment explanation
Indices: 71668851--71668920 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
71668841 AGAAAAGAAA
*
71668851 GAAAAAGAAAAA-GACTAT
1 GAAAAAGAAAAAGGA-GAT
*
71668869 GAAAAAGAAAAAGGGGAT
1 GAAAAAGAAAAAGGAGAT
* *
71668887 GAGAAAAATAAAAATGAGATT
1 --GAAAAAGAAAAAGGAGA-T
71668908 GAAAAAGAAAAAG
1 GAAAAAGAAAAAG
71668921 AACTTGGTCA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
18 14 0.34
19 12 0.29
20 14 0.34
21 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.23, T:0.10
Consensus pattern (18 bp):
GAAAAAGAAAAAGGAGAT
Found at i:71668894 original size:20 final size:19
Alignment explanation
Indices: 71668850--71668920 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
71668840 AAGAAAAGAA
*
71668850 AGAAAAAGAAAAA-GA-CT
1 AGAAAAAGAAAAAGGAGAT
*
71668867 ATGAAAAAGAAAAAGGGGAT
1 A-GAAAAAGAAAAAGGAGAT
* *
71668887 GAGAAAAATAAAAATGAGAT
1 -AGAAAAAGAAAAAGGAGAT
*
71668907 TGAAAAAGAAAAAG
1 AGAAAAAGAAAAAG
71668921 AACTTGGTCA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
17 1 0.02
18 12 0.29
19 12 0.29
20 16 0.38
21 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.23, T:0.10
Consensus pattern (19 bp):
AGAAAAAGAAAAAGGAGAT
Found at i:71671403 original size:44 final size:44
Alignment explanation
Indices: 71671338--71671424 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
71671328 TTGATATCTC
* *
71671338 AAAGTCCATGGTTGTACCATGGCAATTAAAGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGGCAATTAAAGAAGAATTGACGGA
* * *
71671382 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGACGG
1 AAAGTCCATGGTT-ATAACATGGCAATTAAAGAAGAATTGACGG
71671425 TTAAGGATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 3 0.08
44 34 0.92
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATTAAAGAAGAATTGACGGA
Found at i:71671476 original size:47 final size:47
Alignment explanation
Indices: 71671426--71671605 Score: 141
Period size: 47 Copynumber: 3.8 Consensus size: 47
71671416 AATTGACGGT
*
71671426 TAAGGATACCATGTAAGACCATGTCAAGACATGGCA-TCGACATTGA
1 TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTCGACATAGA
* ** ** * * *
71671472 TTAAGGACT-CCATGTTAGACCACATCAAGATGTGGCATTGGCCCTAAGA
1 -TAAGGA-TACCATGTAAGACCATGTCAAGACATGGCATTCGACAT-AGA
* ** * **
71671521 CAAGGATACCATGTAAGACCATGTTTAGAACATGGCATTTGGTA-AGA
1 TAAGGATACCATGTAAGACCATGTCAAG-ACATGGCATTCGACATAGA
* * *
71671568 TAAGGATATCATGTAAGACCATGCCAAGGCATGGCATT
1 TAAGGATACCATGTAAGACCATGTCAAGACATGGCATT
71671606 GATGAGTTTT
Statistics
Matches: 101, Mismatches: 27, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
46 9 0.09
47 56 0.55
48 25 0.25
49 11 0.11
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (47 bp):
TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTCGACATAGA
Found at i:71671633 original size:54 final size:53
Alignment explanation
Indices: 71671569--71671762 Score: 196
Period size: 54 Copynumber: 3.7 Consensus size: 53
71671559 TTGGTAAGAT
*
71671569 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTTTATAAGGA
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAG-TTTATAAGGA
* * ** * *
71671623 AAGGAAATCATGTAAGACCGTGTTAAGACATGGCATTGATGAG-TTACAAGTCA
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTTATAAG-GA
* * * *
71671676 AAGG-T-CCTATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGA
1 AAGGATATC-ATGTAAGACCATGCCAAGACATGGCATTGATGAGTTTATAAGGA
** * * *
71671728 AACTATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCA
71671763 ATGGTAAGTT
Statistics
Matches: 113, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
51 1 0.01
52 38 0.34
53 34 0.30
54 40 0.35
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTTATAAGGA
Found at i:71671760 original size:53 final size:52
Alignment explanation
Indices: 71671572--71671762 Score: 179
Period size: 52 Copynumber: 3.6 Consensus size: 52
71671562 GTAAGATAAG
* * *
71671572 GATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTTTATAAGGAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAG-TTCATAAGGAAA
* * * ** * *
71671625 GGAAATCATGTAAGACCGTGTTAAGACATGGCATTGATGAGTT-ACAAGTCAAA
1 -GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCATAAG-GAAA
* * *
71671678 GGT-CCTATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGAAA
1 GATACC-ATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCATAAGGAAA
* * *
71671730 CTATACCACGTAAGACCATGTCAAGACATGGCA
1 -GATACCATGTAAGACCATGCCAAGACATGGCA
71671763 ATGGTAAGTT
Statistics
Matches: 110, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
51 1 0.01
52 39 0.35
53 33 0.30
54 37 0.34
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.24
Consensus pattern (52 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCATAAGGAAA
Found at i:71676756 original size:30 final size:31
Alignment explanation
Indices: 71676675--71676746 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
71676665 TCAATCTCAA
* *
71676675 CATAT-ACTAGGCCGAAGCCTT-TGCATTATT
1 CATATCACTGGGCCAAAGCCTTAT-CATTATT
*
71676705 CATGTCACTGGGCCAAAGCCTTATCATTA-T
1 CATATCACTGGGCCAAAGCCTTATCATTATT
71676735 CATATCACTGGG
1 CATATCACTGGG
71676747 TCGATGCCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 16 0.44
31 19 0.53
32 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTATCATTATT
Found at i:71676992 original size:24 final size:24
Alignment explanation
Indices: 71676965--71677047 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
71676955 CTGGAGGCCT
*
71676965 AGCCTCTTTTAAT-AATTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
71676989 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTAATAAACTGGGGCAA
** *
71677014 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTGGGGCAA
71677039 AGCCCTTTT
1 AGCCCTTTT
71677048 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 1 0.02
24 14 0.27
25 37 0.71
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:71677015 original size:25 final size:25
Alignment explanation
Indices: 71676981--71677047 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
71676971 TTTTAATAAT
*
71676981 TGGGGCAAAGCCCTTTTTGATAAAC
1 TGGGGCAAAGCCCTTTTCGATAAAC
*
71677006 TGGGGCAAAGCCCTTTTCGGTAAAC
1 TGGGGCAAAGCCCTTTTCGATAAAC
*
71677031 TGGGGCATAGCCCTTTT
1 TGGGGCAAAGCCCTTTT
71677048 GCACTTCCTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (25 bp):
TGGGGCAAAGCCCTTTTCGATAAAC
Found at i:71684816 original size:30 final size:31
Alignment explanation
Indices: 71684746--71684828 Score: 125
Period size: 30 Copynumber: 2.7 Consensus size: 31
71684736 TCAATCTCAA
*
71684746 CATAT-ACTGGGCCGAAGCCTTTGCATTATT
1 CATATCACTAGGCCGAAGCCTTTGCATTATT
* *
71684776 CATGTCACTAGGCCGAAGCCTTTTCATTA-T
1 CATATCACTAGGCCGAAGCCTTTGCATTATT
71684806 CATATCACTAGGCCGAAGCCTTT
1 CATATCACTAGGCCGAAGCCTTT
71684829 ACTGTAAACG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 27 0.56
31 21 0.44
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTGCATTATT
Done.