Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 41 of 172
Found at i:13127124 original size:16 final size:15
Alignment explanation
Indices: 13127099--13127128 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13127089 GAATCATCTG
13127099 CAAGCTTTTTCTTGC
1 CAAGCTTTTTCTTGC
13127114 CAAGTCTTTTTCTTG
1 CAAG-CTTTTTCTTG
13127129 GAGGGGGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.50
Consensus pattern (15 bp):
CAAGCTTTTTCTTGC
Found at i:13129218 original size:27 final size:27
Alignment explanation
Indices: 13129187--13129343 Score: 190
Period size: 27 Copynumber: 5.8 Consensus size: 27
13129177 TAAATTGTAC
13129187 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
13129214 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13129240 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
13129268 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
13129296 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
13129323 AGCACTAAGTGTGCGAGTTGA
1 AGCACTAAGTGTGCGATTTGA
13129344 TTTGTAACAC
Statistics
Matches: 111, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 88 0.79
28 23 0.21
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:13129301 original size:82 final size:81
Alignment explanation
Indices: 13129188--13129343 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
13129178 AAATTGTACA
* *
13129188 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
13129252 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
13129269 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
13129334 TGCGAGTTGA
65 TGCGAATTGA
13129344 TTTGTAACAC
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:13129328 original size:55 final size:54
Alignment explanation
Indices: 13129187--13129341 Score: 195
Period size: 55 Copynumber: 2.9 Consensus size: 54
13129177 TAAATTGTAC
* **
13129187 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-AATGAATATG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATG
* * ** *
13129240 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG
1 A-GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATG
* *
13129295 TAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTT
1 -AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTT
13129342 GATTTGTAAC
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 1 0.01
54 38 0.44
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATG
Found at i:13130731 original size:37 final size:37
Alignment explanation
Indices: 13130681--13130760 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
13130671 CTTATTACGA
* *
13130681 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
13130718 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
13130755 GGTCTT
1 AGTCTT
13130761 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:13130957 original size:47 final size:47
Alignment explanation
Indices: 13130879--13131211 Score: 576
Period size: 47 Copynumber: 7.1 Consensus size: 47
13130869 CCCTTCGGGA
* * * * * *
13130879 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
13130926 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13130973 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13131020 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13131067 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
13131114 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13131161 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13131208 CTTA
1 CTTA
13131212 ACTCATTTAA
Statistics
Matches: 272, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 272 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:13133157 original size:39 final size:39
Alignment explanation
Indices: 13133095--13133172 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
13133085 CTCTCCCTAA
*
13133095 ATCCAAATTCGGCACATTGAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCACATTCAACAACCCAAATGCTAACCT
* *
13133134 ATCCAAGTTCGGCATATTCAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCACATTCAACAACCCAAATGCTAACCT
13133173 CAACGTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.37, C:0.31, G:0.10, T:0.22
Consensus pattern (39 bp):
ATCCAAATTCGGCACATTCAACAACCCAAATGCTAACCT
Found at i:13143968 original size:14 final size:14
Alignment explanation
Indices: 13143942--13144050 Score: 53
Period size: 14 Copynumber: 7.8 Consensus size: 14
13143932 TGTCATTAGA
13143942 GTTTATGGG-TTATG
1 GTTTA-GGGTTTATG
*
13143956 GTTTAGGGTTTATA
1 GTTTAGGGTTTATG
** *
13143970 GTTTATAGTTTAGG
1 GTTTAGGGTTTATG
*
13143984 GCTT-GGAGTTTATG
1 GTTTAGG-GTTTATG
* * *
13143998 GTTTATGATTTATA
1 GTTTAGGGTTTATG
* *
13144012 GTTT-GAGATTTATA
1 GTTTAG-GGTTTATG
* *
13144026 GTTTGGGGTTTGTG
1 GTTTAGGGTTTATG
*
13144040 GTTTAAGGTTT
1 GTTTAGGGTTT
13144051 GGGATTTGAG
Statistics
Matches: 71, Mismatches: 19, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
13 3 0.04
14 66 0.93
15 2 0.03
ACGTcount: A:0.18, C:0.01, G:0.30, T:0.50
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:13144014 original size:21 final size:21
Alignment explanation
Indices: 13143937--13144015 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 21
13143927 ATTACTGTCA
* * *
13143937 TTAGAGTTTATGGGTTATGGT
1 TTAGGGTTTATAGTTTATGGT
*
13143958 TTAGGGTTTATAGTTTATAGT
1 TTAGGGTTTATAGTTTATGGT
* **
13143979 TTAGGGCTTGGAGTTTATGGT
1 TTAGGGTTTATAGTTTATGGT
* *
13144000 TTATGATTTATAGTTT
1 TTAGGGTTTATAGTTT
13144016 GAGATTTATA
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.20, C:0.01, G:0.28, T:0.51
Consensus pattern (21 bp):
TTAGGGTTTATAGTTTATGGT
Found at i:13144036 original size:21 final size:20
Alignment explanation
Indices: 13144012--13144077 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
13144002 ATGATTTATA
13144012 GTTTGAGATTTATAGTTTGGG
1 GTTTGAGATTTA-AGTTTGGG
* *
13144033 GTTTGTGGTTTAAGGTTTGGG
1 GTTTGAGATTTAA-GTTTGGG
* *
13144054 ATTTGAGATTTGAGATTTGGG
1 GTTTGAGATTTAAG-TTTGGG
13144075 GTT
1 GTT
13144078 AGGGGTTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
20 2 0.06
21 34 0.94
ACGTcount: A:0.17, C:0.00, G:0.36, T:0.47
Consensus pattern (20 bp):
GTTTGAGATTTAAGTTTGGG
Found at i:13144410 original size:15 final size:14
Alignment explanation
Indices: 13144390--13144438 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
13144380 ACTATTTTAA
13144390 GGTTTATGGATTAT
1 GGTTTATGGATTAT
* *
13144404 GGGTTTAGGGTTTAT
1 -GGTTTATGGATTAT
*
13144419 GGTTTATGGTTTAAT
1 GGTTTATGGATT-AT
13144434 GGTTT
1 GGTTT
13144439 GGAGTTAGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:13144410 original size:22 final size:21
Alignment explanation
Indices: 13144327--13144438 Score: 73
Period size: 22 Copynumber: 5.2 Consensus size: 21
13144317 TGTCATTATA
* * *
13144327 GTTTAGGGATTATGGCTTAGG
1 GTTTATGGATTATGGTTTAAG
* * * *
13144348 GTATATGGTTTAGGGTTTAAA
1 GTTTATGGATTATGGTTTAAG
* **
13144369 GTGTAT-GAGTTACTATTTTAAG
1 GTTTATGGA-TTA-TGGTTTAAG
*
13144391 GTTTATGGATTATGGGTTTAGG
1 GTTTATGGATTAT-GGTTTAAG
*
13144413 GTTTATGGTTTATGGTTTAATG
1 GTTTATGGATTATGGTTTAA-G
13144435 GTTT
1 GTTT
13144439 GGAGTTAGAG
Statistics
Matches: 67, Mismatches: 19, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
20 1 0.01
21 29 0.43
22 35 0.52
23 2 0.03
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.46
Consensus pattern (21 bp):
GTTTATGGATTATGGTTTAAG
Found at i:13144414 original size:7 final size:7
Alignment explanation
Indices: 13144385--13144545 Score: 55
Period size: 7 Copynumber: 22.7 Consensus size: 7
13144375 GAGTTACTAT
*
13144385 TTTAAGG
1 TTTAGGG
*
13144392 TTTATGG
1 TTTAGGG
*
13144399 ATTATGGG
1 TTTA-GGG
13144407 TTTAGGG
1 TTTAGGG
*
13144414 TTTATGG
1 TTTAGGG
*
13144421 TTTATGG
1 TTTAGGG
*
13144428 TTTAATGG
1 TTT-AGGG
13144436 TTT-GGAG
1 TTTAGG-G
13144443 -TTAGAGG
1 TTTAG-GG
13144450 -TTAGGG
1 TTTAGGG
*
13144456 GTTAGGG
1 TTTAGGG
* *
13144463 GTTA-AG
1 TTTAGGG
13144469 TGTTAGGG
1 T-TTAGGG
13144477 TTTTAGGG
1 -TTTAGGG
*
13144485 TTTAGAG
1 TTTAGGG
* * *
13144492 ATTATGT
1 TTTAGGG
* *
13144499 TTTATGA
1 TTTAGGG
13144506 TTTAGGG
1 TTTAGGG
13144513 TTTAAGGG
1 TTT-AGGG
*
13144521 -ATAGGG
1 TTTAGGG
13144527 -TTAGGGG
1 TTTA-GGG
*
13144534 TTTAAGG
1 TTTAGGG
13144541 TTTAG
1 TTTAG
13144546 AGTAATTAGT
Statistics
Matches: 120, Mismatches: 22, Indels: 24
0.72 0.13 0.14
Matches are distributed among these distances:
6 12 0.10
7 80 0.67
8 27 0.22
9 1 0.01
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:13144437 original size:8 final size:7
Alignment explanation
Indices: 13144385--13144438 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
13144375 GAGTTACTAT
*
13144385 TTTAAGG
1 TTTATGG
13144392 TTTATGG
1 TTTATGG
*
13144399 ATTATGGG
1 TTTAT-GG
*
13144407 TTTAGGG
1 TTTATGG
13144414 TTTATGG
1 TTTATGG
13144421 TTTATGG
1 TTTATGG
13144428 TTTAATGG
1 TTT-ATGG
13144436 TTT
1 TTT
13144439 GGAGTTAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
7 28 0.70
8 12 0.30
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.52
Consensus pattern (7 bp):
TTTATGG
Found at i:13144466 original size:21 final size:23
Alignment explanation
Indices: 13144442--13144491 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
13144432 ATGGTTTGGA
13144442 GTTAGAG-GTTAGGG-GTTAGGG
1 GTTAGAGTGTTAGGGTGTTAGGG
*
13144463 GTTA-AGTGTTAGGGTTTTAGGG
1 GTTAGAGTGTTAGGGTGTTAGGG
*
13144485 TTTAGAG
1 GTTAGAG
13144492 ATTATGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 2 0.08
21 11 0.46
22 9 0.38
23 2 0.08
ACGTcount: A:0.20, C:0.00, G:0.44, T:0.36
Consensus pattern (23 bp):
GTTAGAGTGTTAGGGTGTTAGGG
Found at i:13145046 original size:115 final size:115
Alignment explanation
Indices: 13144884--13145395 Score: 516
Period size: 115 Copynumber: 4.4 Consensus size: 115
13144874 GATGACATCG
* * * *
13144884 TTTTTTTGGATCTTTAATGGCGTTTTAGGTTAAAACGCCGCAATAGGTTTGATTTAGCGGCGCTA
1 TTTTTTTTGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGGTTTGATTTAGCGACGCTA
* * * *
13144949 GGTTATAAACGCCACTAATGTTTATTTTGTTTATATCAAAATGGAGTAGT
66 GGGTAAAAACGCCACTAATGTTTATTCTGTTTATATCAAAACGGAGTAGT
* * * * *
13144999 TTTTTTTTTATTTTTAGTGGCGATTTAGGTTAAAAAGCCGCAATAGGTTTGATTTAGCGGCCCTA
1 TTTTTTTTGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGGTTTGATTTAGCGACGCTA
* * * * *
13145064 GGGTATAAACGCCACTAATGGTTATTTTGTTTATATCAAAACGGTGTA-C
66 GGGTAAAAACGCCACTAATGTTTATTCTGTTTATATCAAAACGGAGTAGT
* * * * *
13145113 TTTTATTGGATTGTTAGTGGCGTTTTAGGGTAAAACGCCGCAATA-GTTTCGCCTTTAGCGACGC
1 TTTTTTTTGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGGTTT-G-ATTTAGCGACGC
* * * ** *
13145177 TTGGAGAAAAAACGCCACTAAATG-TTATTCTGTTTATATGAAAACGTCGTCGT
64 TAGG-GTAAAAACGCCACT-AATGTTTATTCTGTTTATATCAAAACGGAGTAGT
* **
13145230 TTTTTTTTGGATTTTTAGTGGCGTTTTAGGGTT-AAACGCCGCAATAGATTTTCCTTTAGCGACG
1 TTTTTTTT-GATTTTTAGTGGCGTTTTA-GGTTAAAACGCCGCAATAG-GTTTGATTTAGCGACG
* * * * * *
13145294 CTAGGGGAAAAACACCACTAAAGTTTATTCTATTTATATCAAAATGGCA-TCG-
63 CTAGGGTAAAAACGCCACTAATGTTTATTCTGTTTATATCAAAACGG-AGTAGT
* * * * *
13145346 TTTTGTTTGATTTTTAGTGGC-ATTTATGTTAAAACACCGCAATTGGTTTG
1 TTTTTTTTGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGGTTTG
13145396 CCTATAGCAA
Statistics
Matches: 332, Mismatches: 53, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
113 10 0.03
114 55 0.17
115 127 0.38
116 44 0.13
117 44 0.13
118 46 0.14
119 3 0.01
120 3 0.01
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (115 bp):
TTTTTTTTGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGGTTTGATTTAGCGACGCTA
GGGTAAAAACGCCACTAATGTTTATTCTGTTTATATCAAAACGGAGTAGT
Found at i:13145607 original size:58 final size:59
Alignment explanation
Indices: 13145500--13145619 Score: 154
Period size: 58 Copynumber: 2.1 Consensus size: 59
13145490 TATTCATTTT
** * * *
13145500 CCCCCTTCTCTTTGGTTTATTTTCCCTATTTTCCCTACTCTGAATCCCTAAAATAATCA
1 CCCCCTTCTCCCTAGTTTATTTTCCCCATTTTCCCTACTCTGAAACCCTAAAATAATCA
* *
13145559 CCCCCTTCTCCCTAGTTTA-TTTCCCCATTTTCCCTAAT-TCGAAACCCTAAAATAATTA
1 CCCCCTTCTCCCTAGTTTATTTTCCCCATTTTCCCTACTCT-GAAACCCTAAAATAATCA
13145617 CCC
1 CCC
13145620 ATTTTTCCCC
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 1 0.02
58 36 0.68
59 16 0.30
ACGTcount: A:0.23, C:0.35, G:0.04, T:0.38
Consensus pattern (59 bp):
CCCCCTTCTCCCTAGTTTATTTTCCCCATTTTCCCTACTCTGAAACCCTAAAATAATCA
Found at i:13148548 original size:8 final size:8
Alignment explanation
Indices: 13148535--13148564 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
13148525 TATTTTAAAT
13148535 ATATTTCA
1 ATATTTCA
*
13148543 ATATTTTA
1 ATATTTCA
13148551 ATATTTCA
1 ATATTTCA
13148559 ATATTT
1 ATATTT
13148565 ATCAATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (8 bp):
ATATTTCA
Found at i:13148556 original size:16 final size:18
Alignment explanation
Indices: 13148521--13148564 Score: 65
Period size: 16 Copynumber: 2.5 Consensus size: 18
13148511 ATTTCATTGA
13148521 TCAATATTTTAAATATATT
1 TCAATATTTT-AATATATT
13148540 TCAATATTTT-A-ATATT
1 TCAATATTTTAATATATT
13148556 TCAATATTT
1 TCAATATTT
13148565 ATCAATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.56
17 1 0.04
19 10 0.40
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (18 bp):
TCAATATTTTAATATATT
Found at i:13148833 original size:15 final size:15
Alignment explanation
Indices: 13148813--13148841 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13148803 TTAAATTACA
13148813 TATTTTGGATTAATT
1 TATTTTGGATTAATT
13148828 TATTTTGGATTAAT
1 TATTTTGGATTAAT
13148842 CAGGACACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (15 bp):
TATTTTGGATTAATT
Found at i:13149016 original size:9 final size:9
Alignment explanation
Indices: 13149004--13149233 Score: 86
Period size: 9 Copynumber: 25.8 Consensus size: 9
13148994 TATCATATAG
13149004 TAACTTACA
1 TAACTTACA
13149013 TAACTTACA
1 TAACTTACA
13149022 TAACTTACA
1 TAACTTACA
*
13149031 AAACTTACA
1 TAACTTACA
13149040 TAA--TACA
1 TAACTTACA
* *
13149047 TAA-ATATA
1 TAACTTACA
* *
13149055 TATCGTATCA
1 TAACTTA-CA
13149065 TAACTTACA
1 TAACTTACA
* *
13149074 CAACTAACA
1 TAACTTACA
13149083 TAA--TACA
1 TAACTTACA
* *
13149090 TAAATATATA
1 TAACT-TACA
*
13149100 TAA-TAAATATA
1 TAACT---TACA
* *
13149111 TATCATATCA
1 TAACTTA-CA
13149121 TAACTTACA
1 TAACTTACA
*
13149130 CAACTTACA
1 TAACTTACA
13149139 TAA--TACA
1 TAACTTACA
* *
13149146 TAA-ATATA
1 TAACTTACA
** *
13149154 TGTCATATCA
1 TAACTTA-CA
13149164 TAACTTACA
1 TAACTTACA
*
13149173 TACCTTACA
1 TAACTTACA
* *
13149182 TAAATGTATA
1 TAACT-TACA
* *
13149192 TCA-TAACA
1 TAACTTACA
13149200 TAACTTACA
1 TAACTTACA
13149209 TAACTTACA
1 TAACTTACA
*
13149218 -AAGCTTACT
1 TAA-CTTACA
13149227 TAACTTA
1 TAACTTA
13149234 TGTAATACAT
Statistics
Matches: 167, Mismatches: 37, Indels: 34
0.70 0.16 0.14
Matches are distributed among these distances:
7 20 0.12
8 15 0.09
9 95 0.57
10 30 0.18
11 7 0.04
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (9 bp):
TAACTTACA
Found at i:13149107 original size:13 final size:13
Alignment explanation
Indices: 13149089--13149113 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13149079 AACATAATAC
13149089 ATAAATATATATA
1 ATAAATATATATA
13149102 ATAAATATATAT
1 ATAAATATATAT
13149114 CATATCATAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAAATATATATA
Found at i:13149122 original size:56 final size:58
Alignment explanation
Indices: 13148990--13149154 Score: 221
Period size: 56 Copynumber: 2.8 Consensus size: 58
13148980 TAATGTTTAT
* *
13148990 TATATATCATAT-AGTAACTTACATAACTTACATAACTTACA-AAACTTACATAATACATAAA
1 TATATATCATATCA-TAACTTACACAACTTACATAA--TACATAAA--TATATAATACATAAA
* *
13149051 TATATATCGTATCATAACTTACACAACTAACATAATACATAAATATAT-ATA-ATAAA
1 TATATATCATATCATAACTTACACAACTTACATAATACATAAATATATAATACATAAA
13149107 TATATATCATATCATAACTTACACAACTTACATAATACATAAATATAT
1 TATATATCATATCATAACTTACACAACTTACATAATACATAAATATAT
13149155 GTCATATCAT
Statistics
Matches: 96, Mismatches: 6, Indels: 9
0.86 0.05 0.08
Matches are distributed among these distances:
56 51 0.53
57 3 0.03
58 4 0.04
59 4 0.04
60 3 0.03
61 30 0.31
62 1 0.01
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.33
Consensus pattern (58 bp):
TATATATCATATCATAACTTACACAACTTACATAATACATAAATATATAATACATAAA
Found at i:13149160 original size:43 final size:43
Alignment explanation
Indices: 13149102--13149184 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
13149092 AATATATATA
13149102 ATAAATATATATCATATCATAACTTACACAACTTACATAATAC
1 ATAAATATATATCATATCATAACTTACACAACTTACATAATAC
* * *
13149145 ATAAATATATGTCATATCATAACTTACATACCTTACATAA
1 ATAAATATATATCATATCATAACTTACACAACTTACATAA
13149185 ATGTATATCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (43 bp):
ATAAATATATATCATATCATAACTTACACAACTTACATAATAC
Found at i:13149182 original size:36 final size:36
Alignment explanation
Indices: 13149131--13149217 Score: 124
Period size: 36 Copynumber: 2.5 Consensus size: 36
13149121 TAACTTACAC
* *
13149131 AACTTACATAA--TACATAAATATATGTCATATCAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
* *
13149165 AACTTACATACCTTACATAAATGTATATCATAACAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
13149201 AACTTACATAACTTACA
1 AACTTACATAACTTACA
13149218 AAGCTTACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 10 0.22
36 36 0.78
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.33
Consensus pattern (36 bp):
AACTTACATAACTTACATAAATATATATCATAACAT
Found at i:13151203 original size:43 final size:43
Alignment explanation
Indices: 13151136--13151250 Score: 171
Period size: 43 Copynumber: 2.7 Consensus size: 43
13151126 CTGAATTCAT
* *
13151136 TCACTGGCATTA-CGCCTGCTAGGCTCGAAGCCCGATATTAAC
1 TCACTGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAA
**
13151178 TCACTGGCATTATAGCCTGCTAGGCTTAAAGCCCGATATTAAA
1 TCACTGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAA
*
13151221 TCACCGGCATTATAG-CTGCTAGGCTCGAAG
1 TCACTGGCATTATAGCCTGCTAGGCTCGAAG
13151251 GCTCGAATAA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 25 0.38
43 40 0.62
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (43 bp):
TCACTGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAA
Found at i:13151630 original size:24 final size:24
Alignment explanation
Indices: 13151598--13151646 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
13151588 CTTATCGAAT
13151598 ATTATTTATGTTTAACTACTTAAA
1 ATTATTTATGTTTAACTACTTAAA
13151622 ATTATTTATGTTTAACTACTTAAA
1 ATTATTTATGTTTAACTACTTAAA
13151646 A
1 A
13151647 CTTACCTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (24 bp):
ATTATTTATGTTTAACTACTTAAA
Found at i:13158016 original size:43 final size:42
Alignment explanation
Indices: 13157967--13158065 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
13157957 GTATTACGCC
* *
13157967 TGCTAGGCTCGAAGCCCGATATTAACTCACTGGCATTATAGCA
1 TGCTAGGCTCGAAGCCC-ATATTAAATCACCGGCATTATAGCA
** * *
13158010 TGCTAGGCTTAAAACCCATATTAAATCACCGGCATTATAGCC
1 TGCTAGGCTCGAAGCCCATATTAAATCACCGGCATTATAGCA
13158052 TGCTAGGCTCGAAG
1 TGCTAGGCTCGAAG
13158066 GCTCGAATAG
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 33 0.70
43 14 0.30
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (42 bp):
TGCTAGGCTCGAAGCCCATATTAAATCACCGGCATTATAGCA
Found at i:13163657 original size:13 final size:14
Alignment explanation
Indices: 13163641--13163669 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13163631 TTATAAATAT
13163641 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
13163654 TTATAATGGTTTAA
1 TTATAATGGTTTAA
13163668 TT
1 TT
13163670 CATCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:13164127 original size:21 final size:21
Alignment explanation
Indices: 13164083--13164128 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
13164073 GAGCGAAGGT
* * *
13164083 AGCAGAGAGGGAGGCAGCGGC
1 AGCAGAGAGAGAGGCAGAGAC
*
13164104 AGCAGCGAGAGAGGCAGAGAC
1 AGCAGAGAGAGAGGCAGAGAC
13164125 AGCA
1 AGCA
13164129 ACGATGGTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.20, G:0.46, T:0.00
Consensus pattern (21 bp):
AGCAGAGAGAGAGGCAGAGAC
Found at i:13168310 original size:27 final size:27
Alignment explanation
Indices: 13168280--13168456 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 27
13168270 AAATTGTACA
* *
13168280 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
* ** *
13168307 GCACTCAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
13168334 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* *
13168361 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
13168389 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
13168416 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
13168443 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
13168457 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:13168393 original size:82 final size:81
Alignment explanation
Indices: 13168280--13168435 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
13168270 AAATTGTACA
* * * *
13168280 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
13168344 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
13168361 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
13168426 TGCGAGTTGA
65 TGCGAATTGA
13168436 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.77
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:13168447 original size:82 final size:81
Alignment explanation
Indices: 13168276--13168456 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
13168266 GATTAAATTG
* * * * *
13168276 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
13168341 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
13168357 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
13168421 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
13168439 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
13168457 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:13170854 original size:17 final size:17
Alignment explanation
Indices: 13170834--13170876 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
13170824 GGGAAAAAGT
13170834 GAGAAGGAAAAAAAAAA
1 GAGAAGGAAAAAAAAAA
*
13170851 GAGAA--TAAAAAAAAA
1 GAGAAGGAAAAAAAAAA
13170866 GA-AAGGAAAAA
1 GAGAAGGAAAAA
13170877 TTAAGGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
14 2 0.09
15 11 0.50
16 4 0.18
17 5 0.23
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (17 bp):
GAGAAGGAAAAAAAAAA
Found at i:13175014 original size:51 final size:49
Alignment explanation
Indices: 13174863--13175027 Score: 152
Period size: 51 Copynumber: 3.3 Consensus size: 49
13174853 TAAGAACACG
* * *
13174863 TGTGTAGTACTAAATGCAGGCTACTACGTGTACAAGATGGTTAGGTCGCA
1 TGTGTAGTACTAAATGCAGGCTACTATGTGTA-ACGATGGTTAGGTCACA
* * * * * *
13174913 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACA
1 TGTGTAGTACTAAATGCAGGCTACTATGTGTA-ACGAT-GGTTAGGTCACA
* * *
13174964 TGTGTGGTACTAAATGCAGGCCACTATGTGTAAGCGATGGTTTTGGTCACA
1 TGTGTAGTACTAAATGCAGGCTACTATGTGTAA-CGATGG-TTAGGTCACA
*
13175015 -GATGTGGTACTAA
1 TG-TGTAGTACTAA
13175028 GTGTAGGTAT
Statistics
Matches: 94, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
50 35 0.37
51 59 0.63
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAATGCAGGCTACTATGTGTAACGATGGTTAGGTCACA
Found at i:13176726 original size:23 final size:23
Alignment explanation
Indices: 13176700--13176745 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
13176690 AATATGAATG
13176700 AATGTTTTTAATTTGAACAAAAT
1 AATGTTTTTAATTTGAACAAAAT
13176723 AATGTTTTTAATTTGAACAAAAT
1 AATGTTTTTAATTTGAACAAAAT
13176746 TTTTTATGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (23 bp):
AATGTTTTTAATTTGAACAAAAT
Found at i:13179224 original size:20 final size:20
Alignment explanation
Indices: 13179199--13179236 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13179189 TAGTGAGAAA
*
13179199 TTTATTTTCTAGGTATAAAT
1 TTTATTTTCTAGGAATAAAT
13179219 TTTATTTTCTAGGAATAA
1 TTTATTTTCTAGGAATAA
13179237 CAATTATACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (20 bp):
TTTATTTTCTAGGAATAAAT
Found at i:13182234 original size:21 final size:20
Alignment explanation
Indices: 13182210--13182257 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
13182200 TTATGGCACA
13182210 TCAGTACTCTTATCCTGAATT
1 TCAGTA-TCTTATCCTGAATT
* * *
13182231 TCAGGATTTTATCTTGAATT
1 TCAGTATCTTATCCTGAATT
*
13182251 TTAGTAT
1 TCAGTAT
13182258 TTTAATTTGG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (20 bp):
TCAGTATCTTATCCTGAATT
Found at i:13182248 original size:20 final size:20
Alignment explanation
Indices: 13182219--13182261 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13182209 ATCAGTACTC
13182219 TTATCCTGAATTTCAGGATT
1 TTATCCTGAATTTCAGGATT
* * *
13182239 TTATCTTGAATTTTAGTATT
1 TTATCCTGAATTTCAGGATT
13182259 TTA
1 TTA
13182262 ATTTGGATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (20 bp):
TTATCCTGAATTTCAGGATT
Found at i:13204416 original size:31 final size:31
Alignment explanation
Indices: 13204381--13204443 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
13204371 AACATGGTGC
13204381 TAAGTGGATATACCACGATTACACATATTGA
1 TAAGTGGATATACCACGATTACACATATTGA
* * *
13204412 TAAGTGGATATGCCACGGTTACATATATTGA
1 TAAGTGGATATACCACGATTACACATATTGA
13204443 T
1 T
13204444 TCATTAACGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (31 bp):
TAAGTGGATATACCACGATTACACATATTGA
Found at i:13207153 original size:47 final size:49
Alignment explanation
Indices: 13207035--13207213 Score: 205
Period size: 47 Copynumber: 3.8 Consensus size: 49
13207025 TGTAACCCGC
* * * *
13207035 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGG--GC-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
*
13207081 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-C-AGTTCACAT
* *
13207131 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
*
13207175 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
13207214 TTCAACCATC
Statistics
Matches: 114, Mismatches: 8, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
43 3 0.03
44 5 0.04
45 1 0.01
46 36 0.32
47 58 0.51
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
Found at i:13207203 original size:94 final size:93
Alignment explanation
Indices: 13207043--13207213 Score: 288
Period size: 94 Copynumber: 1.8 Consensus size: 93
13207033 GCCCATAAGT
* * *
13207043 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
13207108 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
13207136 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTCA
13207201 ACGAGTTCGGATG
65 ACGAGTTCGGATG
13207214 TTCAACCATC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
93 27 0.38
94 45 0.62
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13214282 original size:13 final size:16
Alignment explanation
Indices: 13214244--13214280 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
13214234 TACCTTACAT
13214244 CACACGACAATTCCAC
1 CACACGACAATTCCAC
13214260 CACACGACAATTCCAC
1 CACACGACAATTCCAC
13214276 CACAC
1 CACAC
13214281 AAACTTGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.46, G:0.05, T:0.11
Consensus pattern (16 bp):
CACACGACAATTCCAC
Found at i:13217568 original size:35 final size:37
Alignment explanation
Indices: 13217521--13217650 Score: 104
Period size: 40 Copynumber: 3.4 Consensus size: 37
13217511 AAATAGTTTT
* *
13217521 ATAAGTTATGTATTAGTGAAGCTCCCTC-G-TTAGTG
1 ATAAGTTGTGTATTAGAGAAGCTCCCTCAGCTTAGTG
* *
13217556 ATAAGTTGTGTATCA-ACGAAGCTCCCTCATGAGCTTATTG
1 ATAAGTTGTGTATTAGA-GAAGCTCCCTC---AGCTTAGTG
*
13217596 ATAAGTTGTGTATTAGAGAAACTCCCTATGCAAGCTTAAGTG
1 ATAAGTTGTGTATTAGAGAAGCTCCC--T-C-AGCTT-AGTG
*
13217638 ACAAGTTGTGTAT
1 ATAAGTTGTGTAT
13217651 CAGTGAAGTT
Statistics
Matches: 75, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
35 24 0.32
39 1 0.01
40 27 0.36
41 6 0.08
42 16 0.21
43 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (37 bp):
ATAAGTTGTGTATTAGAGAAGCTCCCTCAGCTTAGTG
Found at i:13217648 original size:42 final size:40
Alignment explanation
Indices: 13217550--13217652 Score: 120
Period size: 40 Copynumber: 2.5 Consensus size: 40
13217540 AGCTCCCTCG
*
13217550 TTAGTGATAAGTTGTGTATCAACGAAGCTCCCTCATGAGC
1 TTAGTGATAAGTTGTGTATCAACGAAACTCCCTCATGAGC
* *
13217590 TTATTGATAAGTTGTGTATTAGA-GAAACTCCCT-ATGCAAGC
1 TTAGTGATAAGTTGTGTATCA-ACGAAACTCCCTCATG--AGC
*
13217631 TTAAGTGACAAGTTGTGTATCA
1 TT-AGTGATAAGTTGTGTATCA
13217653 GTGAAGTTCG
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
39 3 0.06
40 28 0.53
41 6 0.11
42 16 0.30
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (40 bp):
TTAGTGATAAGTTGTGTATCAACGAAACTCCCTCATGAGC
Found at i:13227041 original size:46 final size:46
Alignment explanation
Indices: 13226983--13227073 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
13226973 AATTGAGAAA
*
13226983 AATCAGCTCAATTGAGAGGCTAATTGAGTAGGGACGAAATTGTTAC
1 AATCAGCTCAATTGAGAGGCTAATTGAGTAGGGACAAAATTGTTAC
*
13227029 AATCAGTTCAATTGAGAGGCTAATTGAGTAGGGACAAAATTGTTA
1 AATCAGCTCAATTGAGAGGCTAATTGAGTAGGGACAAAATTGTTA
13227074 TTTATTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.27
Consensus pattern (46 bp):
AATCAGCTCAATTGAGAGGCTAATTGAGTAGGGACAAAATTGTTAC
Found at i:13234277 original size:46 final size:46
Alignment explanation
Indices: 13234210--13234302 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
13234200 TTAAAAGACA
*
13234210 ATTAGACCCAAAATCTATTTGGGCTGGATGGCAAGGGCATGAAATC
1 ATTAGACCCAAAATCTATTTGGGCTGGACGGCAAGGGCATGAAATC
*
13234256 ATTAGACCCAAAAGT-TATTTGGGCTGGACGGCAAGGGTATGAAATC
1 ATTAGACCCAAAA-TCTATTTGGGCTGGACGGCAAGGGCATGAAATC
13234302 A
1 A
13234303 GCAGAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 43 0.98
47 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (46 bp):
ATTAGACCCAAAATCTATTTGGGCTGGACGGCAAGGGCATGAAATC
Found at i:13240247 original size:55 final size:55
Alignment explanation
Indices: 13240182--13240286 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 55
13240172 CTCGTGTTGT
* * **
13240182 TTTGGCAGGTTCACCCACGGTTGCTTGGCACAGGCATGTCGCACGCCCATGTTAA
1 TTTGACAGGTTCAACCACGGTTGCAAGGCACAGGCATGTCGCACGCCCATGTTAA
* * * *
13240237 TTTGACAGGTTCAACCATGGTTTCAAGGCACGGGCGTGTCGCACGCCCAT
1 TTTGACAGGTTCAACCACGGTTGCAAGGCACAGGCATGTCGCACGCCCAT
13240287 ATTGTTTTCG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.19, C:0.29, G:0.28, T:0.25
Consensus pattern (55 bp):
TTTGACAGGTTCAACCACGGTTGCAAGGCACAGGCATGTCGCACGCCCATGTTAA
Found at i:13240301 original size:55 final size:54
Alignment explanation
Indices: 13240178--13240303 Score: 135
Period size: 55 Copynumber: 2.3 Consensus size: 54
13240168 CACGCTCGTG
* ** *
13240178 TTGTTTTGGCAGGTTCACCCACGGTTGCTTGGCACAGGCATGTCGCACGCCCATG
1 TTGTTTT-GCAGGTTCAACCACGGTTGCAAGGCACAGGCATGTCGCACGCCCATA
** * * * *
13240233 TTAATTTGACAGGTTCAACCATGGTTTCAAGGCACGGGCGTGTCGCACGCCCATA
1 TTGTTTTG-CAGGTTCAACCACGGTTGCAAGGCACAGGCATGTCGCACGCCCATA
13240288 TTGTTTTCGCAGGTTC
1 TTGTTTT-GCAGGTTC
13240304 GCCCACGGCC
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
54 1 0.02
55 55 0.96
56 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.27, T:0.29
Consensus pattern (54 bp):
TTGTTTTGCAGGTTCAACCACGGTTGCAAGGCACAGGCATGTCGCACGCCCATA
Found at i:13244293 original size:13 final size:13
Alignment explanation
Indices: 13244275--13244311 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
13244265 GCTCGGCAGG
*
13244275 GACACGCTCGTGT
1 GACACGCCCGTGT
13244288 GACACGCCCGTGT
1 GACACGCCCGTGT
*
13244301 GACACACCCGT
1 GACACGCCCGT
13244312 ATGCGATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.19, C:0.38, G:0.27, T:0.16
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:13246019 original size:40 final size:40
Alignment explanation
Indices: 13245941--13246204 Score: 320
Period size: 40 Copynumber: 6.5 Consensus size: 40
13245931 ACCCAAGTAT
* *
13245941 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * **
13245980 CTTCGGGTCTTAGCCCGAATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
13246020 CTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
13246060 CTTCGGGACTTAGCCCGGGTATAGTCACTAGCACAAATTC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
13246100 CTTCGGGACTTGGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
** *
13246143 CTTTTGGACTTAGCCCGGATATAGTAACTTA-CACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCAC-TAGCACAAATGC
13246183 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
13246205 CATCCGAATA
Statistics
Matches: 194, Mismatches: 23, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
39 12 0.06
40 148 0.76
41 1 0.01
43 31 0.16
44 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:13252140 original size:46 final size:46
Alignment explanation
Indices: 13252090--13252218 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
13252080 TGGTTGAGCA
*
13252090 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
13252136 TCCGAACACGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
13252182 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13252219 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:13268637 original size:40 final size:40
Alignment explanation
Indices: 13268578--13268702 Score: 148
Period size: 40 Copynumber: 3.1 Consensus size: 40
13268568 TCGAATGATG
13268578 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* *
13268617 TTCCGGGCTAAG-CCCGGAAGGCAATTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCC-GAAGGCATTTGTGCGAGATACTATA
* * **
13268658 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
13268698 TCCGG
1 TCCGG
13268703 TTAAATTCCG
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
39 5 0.07
40 64 0.88
41 4 0.05
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:13272688 original size:13 final size:13
Alignment explanation
Indices: 13272666--13272705 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
13272656 GCTCGGAAGG
13272666 GACACGCCCGTGT
1 GACACGCCCGTGT
*
13272679 GACACACCCGTGT
1 GACACGCCCGTGT
*
13272692 AACACGCCCGTGT
1 GACACGCCCGTGT
13272705 G
1 G
13272706 CTATTACTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.20, C:0.38, G:0.28, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:13281131 original size:46 final size:45
Alignment explanation
Indices: 13280882--13281198 Score: 169
Period size: 46 Copynumber: 6.7 Consensus size: 45
13280872 AGGTTATAAT
* *
13280882 GCCGATGCCATGTCCCAGACATGGCCTTACACTGAG-TA-TTGACATCGA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTG-GCTACAT--C-TCGA
** * * *
13280930 GGCCGACACCATGTCCCAGACATGGTCTTACACTAGCTCTTACATATCCGT
1 -GCCGATGCCATGTCCCAGACAT-GTCTTACACT-G-GC-TACATCT-CGA
* ** * * * * *
13280981 GCCGATGCTAAATCCCAGACATGGTCTTACATTGAC-ACTTCTATATGT
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTACATC--T-CGA
* *
13281029 GCTGATGCCATGTCCCAGACATGATCTTACACTGAC-ACATCTCGTA
1 GCCGATGCCATGTCCCAGACATG-TCTTACACTGGCTACATCTCG-A
* *
13281075 GCCGAAG-CATGTCCTAGACATGTCTTACACTGGCTTACATCTCGA
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGC-TACATCTCGA
* * * * * * *
13281120 GGCCGATG-CATGTCCTAGACATGTCTTATACTAGCTCCCGTTTCAA
1 -GCCGATGCCATGTCCCAGACATGTCTTACACTGGCT-ACATCTCGA
13281166 TGCCGATGCCATGTCCCAGACATGTCTTACACT
1 -GCCGATGCCATGTCCCAGACATGTCTTACACT
13281199 AGCACACAAT
Statistics
Matches: 213, Mismatches: 41, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
44 11 0.05
45 17 0.08
46 60 0.28
47 23 0.11
48 37 0.17
49 31 0.15
50 29 0.14
51 2 0.01
52 2 0.01
53 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTACATCTCGA
Found at i:13287802 original size:70 final size:70
Alignment explanation
Indices: 13287721--13287862 Score: 239
Period size: 70 Copynumber: 2.0 Consensus size: 70
13287711 CATCCCCGTA
*
13287721 CGTACGGATTTTTCATTGGATAAACTAGCTGAATTGTACGTTTATCAAATTGTGAGATTACACGG
1 CGTACGGATTTTTCATTGGATAAACTAGCCGAATTGTACGTTTATCAAATTGTGAGATTACACGG
13287786 GGTAC
66 GGTAC
* * * *
13287791 CGTACGGATTTTTCATTGGATAAACTAGCCGAATTGTATGTTTCTCAGATTGTGAGATTACATGG
1 CGTACGGATTTTTCATTGGATAAACTAGCCGAATTGTACGTTTATCAAATTGTGAGATTACACGG
13287856 GGTAC
66 GGTAC
13287861 CG
1 CG
13287863 ATTTCTGTTG
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (70 bp):
CGTACGGATTTTTCATTGGATAAACTAGCCGAATTGTACGTTTATCAAATTGTGAGATTACACGG
GGTAC
Found at i:13288145 original size:50 final size:50
Alignment explanation
Indices: 13288081--13288181 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
13288071 TTGAATTCGC
13288081 TTACAACAACAGTTTTCAATCAAGTATTAAGATGGCACCTTACGAGGCTT
1 TTACAACAACAGTTTTCAATCAAGTATTAAGATGGCACCTTACGAGGCTT
* *
13288131 TTACAACAATAGTTTTCAATCAAGTATTAAGATGGCACCTTATGAGGCTT
1 TTACAACAACAGTTTTCAATCAAGTATTAAGATGGCACCTTACGAGGCTT
13288181 T
1 T
13288182 GTACGGTCGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (50 bp):
TTACAACAACAGTTTTCAATCAAGTATTAAGATGGCACCTTACGAGGCTT
Found at i:13289205 original size:56 final size:56
Alignment explanation
Indices: 13289119--13289389 Score: 533
Period size: 56 Copynumber: 4.8 Consensus size: 56
13289109 ACAAGGGATG
13289119 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
13289175 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
13289231 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
*
13289287 ATGGGCAAAACACGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
13289343 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAA
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAA
13289390 TGTTGTTCTT
Statistics
Matches: 213, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 213 1.00
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:13290557 original size:79 final size:81
Alignment explanation
Indices: 13290421--13290603 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
13290411 TCGAATGATG
* *
13290421 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
13290485 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
13290500 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
13290562 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
13290580 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
13290604 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:13290619 original size:40 final size:40
Alignment explanation
Indices: 13290422--13290605 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
13290412 CGAATGATGT
* * * *
13290422 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
13290462 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
13290502 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
13290540 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
13290581 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
13290606 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:13290627 original size:79 final size:79
Alignment explanation
Indices: 13290474--13290638 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
13290464 GGACTAAGAT
* **
13290474 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
13290539 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
13290553 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
13290616 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
13290632 CCGAAGG
1 CCGAAGG
13290639 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:13294043 original size:362 final size:362
Alignment explanation
Indices: 13293378--13294464 Score: 2129
Period size: 362 Copynumber: 3.0 Consensus size: 362
13293368 TCAGTATGTC
* * * *
13293378 ATCGATAAAGACCATTACAAACTTATGCAAATACGGTCGGAAAAAGCAGTTCATCAAATTCATAA
1 ATCGATAAAGACCACTACAAACTTATGCAAATATGGTCAGAAAAAGCAATTCATCAAATTCATAA
13293443 ACACCGCAGGAGCATTCGTTAAACCGAAGGGCATATCAAGAAACTCATAGTGCCCATACCTTGTT
66 ACACCGCAGGAGCATTCGTTAAACCGAAGGGCATATCAAGAAACTCATAGTGCCCATACCTTGTT
13293508 CTAAACACGGTTTTCAGTACATCTTACTCCTTAACCTTTAGCTAATAGTAGGACGGCCTTAAGTC
131 CTAAACACGGTTTTCAGTACATCTTACTCCTTAACCTTTAGCTAATAGTAGGACGGCCTTAAGTC
13293573 AATCTTGGAAAACACGGTGGCTCCCCTCAACTAATCGAACAAATCATCGATCCTTGGCAAGGGAT
196 AATCTTGGAAAACACGGTGGCTCCCCTCAACTAATCGAACAAATCATCGATCCTTGGCAAGGGAT
13293638 ACTTGTTCTTCATGGATACCTTGTTGAGCTGTCGATATTCTATACACAATATCATTAACCTATCT
261 ACTTGTTCTTCATGGATACCTTGTTGAGCTGTCGATATTCTATACACAATATCATTAACCTATCT
13293703 TTCTTTCTCACAAAAACTACCGAAGCACCCCACGGTG
326 TTCTTTCTCACAAAAACTACCGAAGCACCCCACGGTG
13293740 ATCGATAAAGACCACTACAAACTTATGCAAATATGGTCAGAAAAAGCAATTCATCAAATTCATAA
1 ATCGATAAAGACCACTACAAACTTATGCAAATATGGTCAGAAAAAGCAATTCATCAAATTCATAA
13293805 ACACCGCAGGAGCATTCGTTAAACCGAAGGGCATATCAAGAAACTCATAGTGCCCATACCTTGTT
66 ACACCGCAGGAGCATTCGTTAAACCGAAGGGCATATCAAGAAACTCATAGTGCCCATACCTTGTT
13293870 CTAAACACGGTTTTCAGTACATCTTACTCCTTAACCTTTAGCTAATAGTAGGACGGCCTTAAGTC
131 CTAAACACGGTTTTCAGTACATCTTACTCCTTAACCTTTAGCTAATAGTAGGACGGCCTTAAGTC
13293935 AATCTTGGAAAACACGGTGGCTCCCCTCAACTAATCGAACAAATCATCGATCCTTGGCAAGGGAT
196 AATCTTGGAAAACACGGTGGCTCCCCTCAACTAATCGAACAAATCATCGATCCTTGGCAAGGGAT
13294000 ACTTGTTCTTCATGGATACCTTGTTGAGCTGTCGATATTCTATACACAATATCATTAACCTATCT
261 ACTTGTTCTTCATGGATACCTTGTTGAGCTGTCGATATTCTATACACAATATCATTAACCTATCT
13294065 TTCTTTCTCACAAAAACTACCGAAGCACCCCACGGTG
326 TTCTTTCTCACAAAAACTACCGAAGCACCCCACGGTG
13294102 ATCGATAAAGACCACTACAAACTTATGCAAATATGGTCAGAAAAAGCAATTCATCAAATTCATAA
1 ATCGATAAAGACCACTACAAACTTATGCAAATATGGTCAGAAAAAGCAATTCATCAAATTCATAA
13294167 ACACCGCAGGAGCATTCGTTAAACCGAAGGGCATATCAAGAAACTCATAGTGCCCATACCTTGTT
66 ACACCGCAGGAGCATTCGTTAAACCGAAGGGCATATCAAGAAACTCATAGTGCCCATACCTTGTT
13294232 CTAAACACGGTTTTCAGTACATCTTACTCCTTAACCTTTAGCTAATAGTAGGACGGCCTTAAGTC
131 CTAAACACGGTTTTCAGTACATCTTACTCCTTAACCTTTAGCTAATAGTAGGACGGCCTTAAGTC
13294297 AATCTTGGAAAACACGGTGGCTCCCCTCAACTAATCGAACAAATCATCGATCCTTGGCAAGGGAT
196 AATCTTGGAAAACACGGTGGCTCCCCTCAACTAATCGAACAAATCATCGATCCTTGGCAAGGGAT
*
13294362 ACTTGTTCTTCATGGATACCTTGTTGAGCTGTCGATATTCTATACACAATATCATTAACCTGTCT
261 ACTTGTTCTTCATGGATACCTTGTTGAGCTGTCGATATTCTATACACAATATCATTAACCTATCT
13294427 TTCTTTCTCACAAAAACTACCGAAGCACCCCACGGTG
326 TTCTTTCTCACAAAAACTACCGAAGCACCCCACGGTG
13294464 A
1 A
13294465 ATAACTTAAT
Statistics
Matches: 720, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
362 720 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (362 bp):
ATCGATAAAGACCACTACAAACTTATGCAAATATGGTCAGAAAAAGCAATTCATCAAATTCATAA
ACACCGCAGGAGCATTCGTTAAACCGAAGGGCATATCAAGAAACTCATAGTGCCCATACCTTGTT
CTAAACACGGTTTTCAGTACATCTTACTCCTTAACCTTTAGCTAATAGTAGGACGGCCTTAAGTC
AATCTTGGAAAACACGGTGGCTCCCCTCAACTAATCGAACAAATCATCGATCCTTGGCAAGGGAT
ACTTGTTCTTCATGGATACCTTGTTGAGCTGTCGATATTCTATACACAATATCATTAACCTATCT
TTCTTTCTCACAAAAACTACCGAAGCACCCCACGGTG
Found at i:13297821 original size:31 final size:31
Alignment explanation
Indices: 13297778--13297856 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
13297768 TTTAACGGTT
*
13297778 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
13297809 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
13297840 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
13297857 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:13298103 original size:25 final size:26
Alignment explanation
Indices: 13298075--13298171 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
13298065 CTCTTTTAAT
13298075 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
13298100 AACTGGGGCA-AAGCCCTTTCCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
13298125 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
13298151 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
13298172 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 32 0.49
26 33 0.51
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:13299062 original size:27 final size:27
Alignment explanation
Indices: 13298971--13299054 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
13298961 GGGCATATTC
* *
13298971 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
13298998 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
13299025 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
13299052 GTC
1 GTC
13299055 TTTTTACCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:13299146 original size:27 final size:27
Alignment explanation
Indices: 13299116--13299443 Score: 209
Period size: 27 Copynumber: 12.1 Consensus size: 27
13299106 GTAAATCTAG
* *
13299116 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTAT
* *
13299143 AAACCAATGGTATTTTTA-TAATTTTTAG
1 AAACCAAGGGTA-TTTTAGTAA-TTTTAT
** * *
13299171 AAAGTTAAGGGTATTTCTA-TAACTTTGT
1 AAA-CCAAGGGTATTT-TAGTAATTTTAT
* * * * *
13299199 AAATCAGGGGTATTTTGGTAGTTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTAT
** * *
13299226 AAACTGAGGGTATTTCAGTAATTTCAT
1 AAACCAAGGGTATTTTAGTAATTTTAT
* *
13299253 AAACC-AGTGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTTAGTAATTTTAT
* * * *
13299280 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTAT
*** *
13299307 AAATTGAGGGTATTTCTA-TAATTTTAC
1 AAACCAAGGGTATTT-TAGTAATTTTAT
* *
13299334 AAACCAAGGGTATTTTAGCAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTAT
* * *
13299361 AGA-CTAGGGTATTTTGGTAATTTTACT
1 AAACCAAGGGTATTTTAGTAATTTTA-T
* * * *
13299388 -AATCGAGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTAT
* *
13299414 AAACCGAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTAT
13299441 AAA
1 AAA
13299444 TCGACGGTAA
Statistics
Matches: 238, Mismatches: 51, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
26 26 0.11
27 179 0.75
28 22 0.09
29 11 0.05
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTAT
Found at i:13299265 original size:54 final size:53
Alignment explanation
Indices: 13299101--13299438 Score: 250
Period size: 54 Copynumber: 6.2 Consensus size: 53
13299091 TACAATGGTG
* * * * * *
13299101 TTTTGGTAAATCTAGAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTATAAACC-AGGGTA
** * * * * *
13299155 TTTTTATAATTTTTAGAAAGTTAAGGGTATTTCTA-TAACTTTGTAAATCAGGGGTA
1 TTTTGGTAA-TTTTACAAA-CTAAGGGTATTTC-AGTAATTTTATAAACCA-GGGTA
* * *
13299211 TTTTGGTAGTTTTACAAACTGAGGGTATTTCAGTAATTTCATAAACCAGTGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTATAAACCAG-GGTA
* ** * **
13299265 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTATAAA-CCAGGGTA
* * * * * * *
13299319 TTTCT-ATAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGACTAGGGTA
1 TTT-TGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTATAAACCAGGGTA
* * ** *
13299372 TTTTGGTAATTTTACTAA-TCGAGGGTATTTTGGTAATTTTGTAAACCGAGGGTA
1 TTTTGGTAATTTTACAAACT-AAGGGTATTTCAGTAATTTTATAAACC-AGGGTA
*
13299426 TTTTAGTAATTTT
1 TTTTGGTAATTTT
13299439 GTAAATCGAC
Statistics
Matches: 226, Mismatches: 47, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
52 1 0.00
53 42 0.19
54 130 0.58
55 19 0.08
56 33 0.15
57 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (53 bp):
TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTATAAACCAGGGTA
Found at i:13299296 original size:81 final size:80
Alignment explanation
Indices: 13299204--13299438 Score: 305
Period size: 81 Copynumber: 2.9 Consensus size: 80
13299194 TTTGTAAATC
* *
13299204 AGGGGTATTTTGGTAGTTTTACAAACTGAGGGTATTTCAGTAATTTCATAAACC-AGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAA-TGAGGGTATTTCAGTAATTTTATAAACCAAG-GGTATTT
*
13299268 TGGTAATTTTACAAACT
64 TAGTAATTTTACAAACT
*
13299285 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTA-TAATTTTACAAACCAAGGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAA-TGAGGGTATTTC-AGTAATTTTATAAACCAAGGGTATTT
* *
13299349 TAGCAATTTTACAGACT
64 TAGTAATTTTACAAACT
* ** * *
13299366 A-GGGTATTTTGGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTGTAAACCGAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAAT-GAGGGTATTTCAGTAATTTTATAAACCAAGGGTATTTT
13299430 AGTAATTTT
65 AGTAATTTT
13299439 GTAAATCGAC
Statistics
Matches: 136, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
79 1 0.01
80 62 0.46
81 70 0.51
82 3 0.02
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTACAAATGAGGGTATTTCAGTAATTTTATAAACCAAGGGTATTTTA
GTAATTTTACAAACT
Found at i:13299462 original size:27 final size:27
Alignment explanation
Indices: 13299404--13299532 Score: 107
Period size: 27 Copynumber: 4.8 Consensus size: 27
13299394 GGGTATTTTG
* * ***
13299404 GTAATTTTGTAAACCGAGGGTATTTTA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
13299431 GTAATTTTGTAAATCGACGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * * *
13299458 ATAATTCTGTAAATCAAGGATAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* **
13299485 GTAATTCTATAAATCGAGGGTAAACGA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
13299512 -TAATTCTATAAATTGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
13299533 CTTTGATAAT
Statistics
Matches: 84, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
26 20 0.24
27 64 0.76
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.33
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATA
Found at i:13301977 original size:48 final size:49
Alignment explanation
Indices: 13301592--13302004 Score: 256
Period size: 46 Copynumber: 8.7 Consensus size: 49
13301582 ATAGGTTATA
* * *
13301592 ATGCCGATGCCATGTCCCATACATGGTTTTACACTGGCTCATC-CATC-
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATATCG
* ** * *
13301639 AAGTTGATGCCATGTCCCAGACATGGCCTTACACTGAG-T-ATTGATATCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTG-GCTCA-TCATATCG
* * * * * *
13301688 AGGCAGACGCCATGTCCCAGAAATGGTCTTACACTAGCTCTTACATATTCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CATA-TCG
* ** * * * *
13301739 -TGCCGATGCTAAATCCCAGACATGGTCTTACATTGACACTTCTATAT-G
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ATATCG
* * * * * *
13301787 -TGCTGATGGCATGTCCCAGACATGATCTTGCACT-G-ACA-CATCTCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATATCG
* * * *
13301832 -TAGCCGAAG-CATGTCCTAGACAT-GTCTTACACTGGCTTA-CATCTCG
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATATCG
* * * * * * *
13301878 AGGCCGATG-CATATCCCAGACAT-GTCTTACACTAGCTC-CCGTTTCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATATCG
*
13301924 ATGCCGATGCCATGTCCCAGACATGGTTTTACACTGGCTC-TCATAGT-G
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATA-TCG
*
13301972 TTGCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACT
13302005 AGCACACAAT
Statistics
Matches: 283, Mismatches: 65, Indels: 37
0.74 0.17 0.10
Matches are distributed among these distances:
44 11 0.04
45 17 0.06
46 68 0.24
47 59 0.21
48 55 0.19
49 34 0.12
50 36 0.13
51 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATATCG
Found at i:13310168 original size:35 final size:34
Alignment explanation
Indices: 13310127--13310225 Score: 101
Period size: 35 Copynumber: 2.8 Consensus size: 34
13310117 CATAGGTAAG
*
13310127 TACATGTAAGCTTATATTGAACTTGTATATTCGGC
1 TACATGTAAGCTTATATTGAA-TTGTATATTCGAC
* * * * *
13310162 TGCATGTGAGGTTATATTGAATTTTAGTATTCGAT
1 TACATGTAAGCTTATATTGAATTGTA-TATTCGAC
13310197 TACATGTGAA-CTTATATTGAAATTGTATA
1 TACATGT-AAGCTTATATTG-AATTGTATA
13310226 CTTAGATATA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
34 4 0.08
35 40 0.78
36 7 0.14
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (34 bp):
TACATGTAAGCTTATATTGAATTGTATATTCGAC
Found at i:13312880 original size:46 final size:46
Alignment explanation
Indices: 13312689--13313010 Score: 173
Period size: 46 Copynumber: 6.8 Consensus size: 46
13312679 ACTATCGAAA
* * *
13312689 TCGAGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTTACATA
1 TCGAGGCCGATG-CATGTCCTAGACAT-GTCTTACACTAG--CTTACATC
* * * *
13312739 TCCG-TGCCAATGCCATGTCCCAGACATGGTCTTACACT-GAC--ACCTC
1 T-CGAGGCCGATG-CATGTCCTAGACAT-GTCTTACACTAG-CTTACATC
* * * *
13312785 TATAC-ATGCCGATGCCATGTCCCAAACATTGTCTTACACT-G--AACATC
1 --T-CGAGGCCGATG-CATGTCCTAGACA-TGTCTTACACTAGCTTACATC
* *
13312832 TCGTA-GCCGATGCATGTTCTAGACATG-CTTTACACTGGCTTACATC
1 TCG-AGGCCGATGCATGTCCTAGACATGTC-TTACACTAGCTTACATC
* *
13312878 TCGAGGCCGATGCATGTCCTAGACATGTCTTACACTAGCTTTCGTC
1 TCGAGGCCGATGCATGTCCTAGACATGTCTTACACTAGCTTACATC
* * * * * *
13312924 TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAA
1 TCGAGGCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCT-TACAT-C
* * *
13312973 T-GTGGCCGATGCATGTCCCAGATATGTCTTACACTAGC
1 TCGAGGCCGATGCATGTCCTAGACATGTCTTACACTAGC
13313011 ACACAATATC
Statistics
Matches: 223, Mismatches: 31, Indels: 40
0.76 0.11 0.14
Matches are distributed among these distances:
42 1 0.00
43 9 0.04
44 12 0.05
45 9 0.04
46 69 0.31
47 29 0.13
48 56 0.25
49 4 0.02
50 32 0.14
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
TCGAGGCCGATGCATGTCCTAGACATGTCTTACACTAGCTTACATC
Found at i:13312981 original size:48 final size:47
Alignment explanation
Indices: 13312647--13313007 Score: 195
Period size: 48 Copynumber: 7.7 Consensus size: 47
13312637 GGGTATAATA
* * * * *
13312647 CCGACGCCATGTCCTAGA-ATGGTCTTACACTGACTATCGA-AATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAAT-G-TG
* *
13312695 CCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTTACAT-ATCCGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CATAAT--GTG
* * *
13312745 CCAATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACA--TG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTC-ATA-ATGTG
* * * *
13312793 CCGATGCCATGTCCCAAACATTGTCTTACACTGAACATCTCGT-A---G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG-GC-TCTCATAATGTG
* * * * *
13312838 CCGATG-CATGTTCTAGACATGCT-TTACACTGGCT-TACAT-CTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-G-TG
* *
13312884 CCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTTTCGTC-TCAA--TG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TC-TCAT-AATGTG
*
13312930 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-G
*
13312978 CCGATG-CATGTCCCAGATAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
13313008 AGCACACAAT
Statistics
Matches: 251, Mismatches: 33, Indels: 60
0.73 0.10 0.17
Matches are distributed among these distances:
40 1 0.00
41 3 0.01
42 1 0.00
43 8 0.03
44 12 0.05
45 12 0.05
46 50 0.20
47 25 0.10
48 71 0.28
49 23 0.09
50 40 0.16
51 4 0.02
52 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:13314902 original size:23 final size:22
Alignment explanation
Indices: 13314876--13314923 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
13314866 TTTAATTATG
13314876 TTTAAATAAAATTATTAATATTT
1 TTTAAA-AAAATTATTAATATTT
* *
13314899 TTT-AAAAAATTGTTCATATTT
1 TTTAAAAAAATTATTAATATTT
13314920 TTTA
1 TTTA
13314924 TTTAATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 17 0.77
22 2 0.09
23 3 0.14
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTAAAAAAATTATTAATATTT
Found at i:13314909 original size:21 final size:21
Alignment explanation
Indices: 13314883--13314923 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13314873 ATGTTTAAAT
13314883 AAAATTATTAATATTTTTTAA
1 AAAATTATTAATATTTTTTAA
* *
13314904 AAAATTGTTCATATTTTTTA
1 AAAATTATTAATATTTTTTA
13314924 TTTAATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
AAAATTATTAATATTTTTTAA
Found at i:13315156 original size:5 final size:5
Alignment explanation
Indices: 13315146--13315180 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
13315136 ACCTCTAATT
*
13315146 AATAA AATAA AATAA AATAA AA-AA AATAA AGTAA A
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA A
13315181 GGACTAGAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:13329294 original size:15 final size:15
Alignment explanation
Indices: 13329274--13329302 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13329264 GCTATTAAAG
13329274 AAAGTATGTAGATAA
1 AAAGTATGTAGATAA
13329289 AAAGTATGTAGATA
1 AAAGTATGTAGATA
13329303 TTTTGGTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.28
Consensus pattern (15 bp):
AAAGTATGTAGATAA
Found at i:13347726 original size:297 final size:297
Alignment explanation
Indices: 13347351--13347943 Score: 1186
Period size: 297 Copynumber: 2.0 Consensus size: 297
13347341 GACATCATTC
13347351 CTAAGTTATTTACAAGACCCATGCTTGAATTTTTTATTTTGGTGAACATTTTGAGTTATGCCATT
1 CTAAGTTATTTACAAGACCCATGCTTGAATTTTTTATTTTGGTGAACATTTTGAGTTATGCCATT
13347416 GTTGATAGCTTGTGATTTTTGTTGTTTGATGGTAGAAAATAAAATATATGTGATAAATTAACATG
66 GTTGATAGCTTGTGATTTTTGTTGTTTGATGGTAGAAAATAAAATATATGTGATAAATTAACATG
13347481 TTTTGTATTAGAATTTTTGATGATTCTGAGTAATTAGGACTAATTTACAAAAATGATAAATTGAG
131 TTTTGTATTAGAATTTTTGATGATTCTGAGTAATTAGGACTAATTTACAAAAATGATAAATTGAG
13347546 GGACTAAAATGTGAAATAAATGAAATTTATGGACTTGTATGAACACTAGGAGTATTCGGCCTAAG
196 GGACTAAAATGTGAAATAAATGAAATTTATGGACTTGTATGAACACTAGGAGTATTCGGCCTAAG
13347611 CATGGTGTGTGCAAATTTTGCATATTTTGTGTTTTCG
261 CATGGTGTGTGCAAATTTTGCATATTTTGTGTTTTCG
13347648 CTAAGTTATTTACAAGACCCATGCTTGAATTTTTTATTTTGGTGAACATTTTGAGTTATGCCATT
1 CTAAGTTATTTACAAGACCCATGCTTGAATTTTTTATTTTGGTGAACATTTTGAGTTATGCCATT
13347713 GTTGATAGCTTGTGATTTTTGTTGTTTGATGGTAGAAAATAAAATATATGTGATAAATTAACATG
66 GTTGATAGCTTGTGATTTTTGTTGTTTGATGGTAGAAAATAAAATATATGTGATAAATTAACATG
13347778 TTTTGTATTAGAATTTTTGATGATTCTGAGTAATTAGGACTAATTTACAAAAATGATAAATTGAG
131 TTTTGTATTAGAATTTTTGATGATTCTGAGTAATTAGGACTAATTTACAAAAATGATAAATTGAG
13347843 GGACTAAAATGTGAAATAAATGAAATTTATGGACTTGTATGAACACTAGGAGTATTCGGCCTAAG
196 GGACTAAAATGTGAAATAAATGAAATTTATGGACTTGTATGAACACTAGGAGTATTCGGCCTAAG
13347908 CATGGTGTGTGCAAATTTTGCATATTTTGTGTTTTC
261 CATGGTGTGTGCAAATTTTGCATATTTTGTGTTTTC
13347944 TGCAATTTGG
Statistics
Matches: 296, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
297 296 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (297 bp):
CTAAGTTATTTACAAGACCCATGCTTGAATTTTTTATTTTGGTGAACATTTTGAGTTATGCCATT
GTTGATAGCTTGTGATTTTTGTTGTTTGATGGTAGAAAATAAAATATATGTGATAAATTAACATG
TTTTGTATTAGAATTTTTGATGATTCTGAGTAATTAGGACTAATTTACAAAAATGATAAATTGAG
GGACTAAAATGTGAAATAAATGAAATTTATGGACTTGTATGAACACTAGGAGTATTCGGCCTAAG
CATGGTGTGTGCAAATTTTGCATATTTTGTGTTTTCG
Found at i:13373300 original size:16 final size:19
Alignment explanation
Indices: 13373279--13373315 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13373269 GCGAATATGT
13373279 AAAAC-AATAA-C-ATGAA
1 AAAACAAATAATCTATGAA
13373295 AAAACAAATAATCTATGAA
1 AAAACAAATAATCTATGAA
13373314 AA
1 AA
13373316 TTTAACCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 5 0.28
18 1 0.06
19 7 0.39
ACGTcount: A:0.68, C:0.11, G:0.05, T:0.16
Consensus pattern (19 bp):
AAAACAAATAATCTATGAA
Found at i:13373727 original size:21 final size:18
Alignment explanation
Indices: 13373683--13373792 Score: 71
Period size: 21 Copynumber: 5.5 Consensus size: 18
13373673 TTCATAAACG
13373683 AAATATATAATAATATAA
1 AAATATATAATAATATAA
13373701 ACAATATGATAAGTAATATATA
1 A-AATAT-ATAA-TAATATA-A
13373723 AAATAATATATATAATA-AA
1 AAAT-ATATA-ATAATATAA
*
13373742 ATGTACGTAATATAAT-ATATAA
1 A---A-AT-ATATAATAATATAA
*
13373764 TAATATATAATAATATAA
1 AAATATATAATAATATAA
13373782 TAAATAATATA
1 -AAAT-ATATA
13373793 CAAAGAAAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 26
0.71 0.04 0.25
Matches are distributed among these distances:
17 7 0.09
18 8 0.11
19 11 0.15
20 10 0.14
21 21 0.28
22 10 0.14
23 7 0.09
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (18 bp):
AAATATATAATAATATAA
Found at i:13373729 original size:12 final size:12
Alignment explanation
Indices: 13373714--13373792 Score: 51
Period size: 12 Copynumber: 6.6 Consensus size: 12
13373704 ATATGATAAG
13373714 TAATATATAAAA
1 TAATATATAAAA
13373726 TAATATATATAATA
1 TAATATATA-AA-A
* * *
13373740 AAATGTACGTAATA
1 TAATATA--TAAAA
13373754 TAATATAT--AA
1 TAATATATAAAA
13373764 TAATATAT--AA
1 TAATATATAAAA
13373774 TAATATA-ATAAA
1 TAATATATA-AAA
13373786 TAATATA
1 TAATATA
13373793 CAAAGAAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
10 18 0.33
12 19 0.35
13 2 0.04
14 12 0.22
15 1 0.02
16 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (12 bp):
TAATATATAAAA
Found at i:13375399 original size:44 final size:44
Alignment explanation
Indices: 13375333--13375994 Score: 1002
Period size: 44 Copynumber: 15.0 Consensus size: 44
13375323 TGTCAAATTG
* **
13375333 GCTATCTTCGAATCTGGTCTCTGACAATACAGAGATACCAAATCT
1 GCTATCTTCG-ATCTGCTCTCTGACAATACAGAGACGCCAAATCT
* *
13375378 GCTATCCTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCC
1 GCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
* *
13375422 GTTATCTTCGATCTGCTCTCTGACAATACAGAGACACCAAATCT
1 GCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
*
13375466 GCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCC
1 GCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
** *
13375510 ATTATCTTCGATCTTCTCTCTGACAATACAGAGACGCCAAATCT
1 GCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
* * *
13375554 GCTATCTTCGATCTACTCTCTAACAATACAAAGACGCCAAATCT
1 GCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
* *
13375598 GTTATCTTCGATCTGCTCTCTGACAATACGGAGACGCCAAATCT
1 GCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
* *
13375642 GTTATCTTCGATCTGCTCTCTGACAATACAGAGACGGCAAATCT
1 GCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
* * *
13375686 ACTATCTTCGATATGCTCTCTGATAATACAGAGACGCCAAATCT
1 GCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
* * *
13375730 ACTATCTTCGATCTGCTGTCTAACAATACAGAGACGCCAAATCT
1 GCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
*
13375774 GCTATCTTCGATCTGCTCTCTGACAATACAGAGACGGCAAATCT
1 GCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
* * *
13375818 ACTATCTTCGATCTGCTGTCTAACAATACAGAGACGCCAAATCT
1 GCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
*
13375862 GCTATCTTCGATCTGCTCTCTGACAATACGGAGACGCCAAATCT
1 GCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
* * *
13375906 GTTATCTTCAATCTGCTCTCTGTCAATACAGAGACGCCAAATCT
1 GCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
*
13375950 G-TCACCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
1 GCT-ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
13375994 G
1 G
13375995 TCACCGGTGA
Statistics
Matches: 560, Mismatches: 56, Indels: 3
0.90 0.09 0.00
Matches are distributed among these distances:
43 1 0.00
44 550 0.98
45 9 0.02
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (44 bp):
GCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT
Found at i:13381390 original size:47 final size:47
Alignment explanation
Indices: 13381321--13381476 Score: 240
Period size: 47 Copynumber: 3.3 Consensus size: 47
13381311 CTTCGGGACT
* * * * * *
13381321 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
13381368 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
13381415 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
13381464 TATCACATATATA
1 TATCACATATATA
13381477 NNNNNNNNNN
Statistics
Matches: 101, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
47 54 0.53
49 47 0.47
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:13381445 original size:49 final size:49
Alignment explanation
Indices: 13381321--13381476 Score: 239
Period size: 49 Copynumber: 3.3 Consensus size: 49
13381311 CTTCGGGACT
* * * * *
13381321 TATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
13381368 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
13381415 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
13381464 TATCACATATATA
1 TATCACATATATA
13381477 NNNNNNNNNN
Statistics
Matches: 100, Mismatches: 5, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
46 1 0.01
47 45 0.45
49 54 0.54
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:13399157 original size:28 final size:28
Alignment explanation
Indices: 13399126--13399206 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 28
13399116 TCAATATTAC
*
13399126 ACATATTTATTTAATAATAAAATAAAAA
1 ACATATATATTTAATAATAAAATAAAAA
* * * * *
13399154 ACATATGTAATTAATGAGT--GATAAAAT
1 ACATATATATTTAAT-AATAAAATAAAAA
*
13399181 A-ATATATATTTTATAATAAAATAAAA
1 ACATATATATTTAATAATAAAATAAAA
13399207 GTGATGTAAG
Statistics
Matches: 40, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
25 2 0.05
26 10 0.25
27 13 0.32
28 13 0.32
29 2 0.05
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (28 bp):
ACATATATATTTAATAATAAAATAAAAA
Found at i:13399306 original size:21 final size:19
Alignment explanation
Indices: 13399261--13399318 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 19
13399251 ATTCATAAAC
13399261 GAAATATATAATAATATAA
1 GAAATATATAATAATATAA
*
13399280 GCAATATGATAAGTAATATATA
1 GAAATAT-ATAA-TAATATA-A
13399302 -AAATAATATATATAATA
1 GAAAT-ATATA-ATAATA
13399319 AAATGTAGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
19 6 0.19
20 4 0.12
21 18 0.56
22 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (19 bp):
GAAATATATAATAATATAA
Found at i:13401407 original size:15 final size:15
Alignment explanation
Indices: 13401387--13401455 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
13401377 GTATCTTGGG
13401387 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
13401402 TCTCTTTATTCTAGA
1 TTTCTTTATCCTGGA
* *
13401417 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
13401432 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
13401447 TTTCTTTAT
1 TTTCTTTAT
13401456 TCGGTTTTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.13, C:0.17, G:0.12, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:13401449 original size:30 final size:30
Alignment explanation
Indices: 13401378--13401465 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
13401368 CATAGTATCG
* * * *
13401378 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
* *
13401408 TAT-TCTAGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
13401438 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
13401466 TGTTATATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.17
30 39 0.81
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:13401466 original size:14 final size:14
Alignment explanation
Indices: 13401387--13401466 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
13401377 GTATCTTGGG
*
13401387 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
* *
13401402 TCTCTTTATTCTAGA
1 TTTCTTTATTC-GGA
*
13401417 TTTCTTTATTCTGGG
1 TTTCTTTATTC-GGA
* *
13401432 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
13401447 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
13401461 TTTCTT
1 TTTCTT
13401467 GTTATATTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
14 9 0.17
15 42 0.81
16 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:13403907 original size:46 final size:46
Alignment explanation
Indices: 13403857--13404032 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
13403847 TGGTTGAGCA
13403857 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
13403903 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
13403948 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
13403996 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13404033 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:13404013 original size:93 final size:93
Alignment explanation
Indices: 13403854--13404024 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
13403844 GGATGGTTGA
* *
13403854 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13403919 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
13403947 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13404012 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
13404025 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:13404996 original size:22 final size:22
Alignment explanation
Indices: 13404944--13405008 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
13404934 TTAAAGCCTT
* *
13404944 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
13404966 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
13404988 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
13405009 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:13405197 original size:27 final size:27
Alignment explanation
Indices: 13405167--13405268 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
13405157 ATTCTGTTAA
* *
13405167 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
13405194 GTGGCTATGCCACAAATATCTG-TTCTA
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
13405221 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
13405248 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
13405269 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.77
28 7 0.11
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:13405224 original size:54 final size:53
Alignment explanation
Indices: 13405166--13405268 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 53
13405156 TATTCTGTTA
* * * *
13405166 AGTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTCT
1 AGTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCAC-AATATCTGTTCT
* *
13405220 AGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTG
1 AGTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTG
13405269 ATAACTGAGC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 8 0.19
54 35 0.81
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (53 bp):
AGTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTGTTCT
Found at i:13405438 original size:31 final size:31
Alignment explanation
Indices: 13405400--13405510 Score: 150
Period size: 31 Copynumber: 3.6 Consensus size: 31
13405390 TTGCATTCAC
*
13405400 ATTCTGATTTTGATTCTGTTACCTAATACTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTG
* * *
13405431 ATTCTGATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTG
* * *
13405462 ATTTTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTG
*
13405493 ATTCTAATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
13405511 ATTCTGGTTC
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTAATACTG
Found at i:13405439 original size:6 final size:6
Alignment explanation
Indices: 13405400--13405542 Score: 96
Period size: 6 Copynumber: 23.3 Consensus size: 6
13405390 TTGCATTCAC
* * * *
13405400 ATTCTG ATTTTG ATTCTG -TTACCTA ATACTG ATTCTG ATTTTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
13405448 ATTACCTG ATACTG ATTTTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTA
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
13405499 ATTCTG ATTCTG ATTCTG GTTCTG ATTCTA ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
13405543 AATGTTTCTT
Statistics
Matches: 105, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
5 7 0.07
6 87 0.83
7 7 0.07
8 4 0.04
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:13405590 original size:31 final size:32
Alignment explanation
Indices: 13405555--13405618 Score: 76
Period size: 34 Copynumber: 2.0 Consensus size: 32
13405545 TGTTTCTTAT
* *
13405555 TCTG-TAATGGGTTAAAGCCCATTTGGTACTG
1 TCTGTTAATGGGCTAAAGCCCAATTGGTACTG
*
13405586 TCTGTTATAATGGGCTAAGGCCCAATTGGTACT
1 TCTG-T-TAATGGGCTAAAGCCCAATTGGTACT
13405619 AAAACTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 4 0.15
34 23 0.85
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (32 bp):
TCTGTTAATGGGCTAAAGCCCAATTGGTACTG
Found at i:13412745 original size:39 final size:38
Alignment explanation
Indices: 13412689--13412831 Score: 99
Period size: 39 Copynumber: 3.5 Consensus size: 38
13412679 GAATTTTTTC
*
13412689 CAACAATATTTGCAATTATTACCACTTGTTGTGGGTGAA
1 CAACAA-ATTTGCAATTAATACCACTTGTTGTGGGTGAA
*
13412728 CAACAAATTTGCAAATTAAACAAACCGCCACTTGGTT-TGTGGTCGAA
1 CAACAAATTTGC-AATT--A-ATA---CCACTT-GTTGTG-GGT-GAA
* * * *
13412775 CCACATATTTGCAATTACTACCACTTGTTGTGGGTGCA
1 CAACAAATTTGCAATTAATACCACTTGTTGTGGGTGAA
* *
13412813 CAACATATTTACAAATTAA
1 CAACAAATTTGC-AATTAA
13412832 ACAAACTGTC
Statistics
Matches: 82, Mismatches: 10, Indels: 24
0.71 0.09 0.21
Matches are distributed among these distances:
38 18 0.22
39 21 0.26
40 8 0.10
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
45 8 0.10
46 10 0.12
47 13 0.16
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (38 bp):
CAACAAATTTGCAATTAATACCACTTGTTGTGGGTGAA
Found at i:13412797 original size:85 final size:85
Alignment explanation
Indices: 13412694--13412849 Score: 258
Period size: 85 Copynumber: 1.8 Consensus size: 85
13412684 TTTTCCAACA
* *
13412694 ATATTTGCAATTATTACCACTTGTTGTGGGTGAACAACAAATTTGCAAATTAAACAAACCGCCAC
1 ATATTTGCAATTACTACCACTTGTTGTGGGTGAACAACAAATTTACAAATTAAACAAACCGCCAC
13412759 TTGGTTTGTGGTCGAACCAC
66 TTGGTTTGTGGTCGAACCAC
* * * *
13412779 ATATTTGCAATTACTACCACTTGTTGTGGGTGCACAACATATTTACAAATTAAACAAACTGTCAC
1 ATATTTGCAATTACTACCACTTGTTGTGGGTGAACAACAAATTTACAAATTAAACAAACCGCCAC
13412844 TTGGTT
66 TTGGTT
13412850 CATGAGCAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (85 bp):
ATATTTGCAATTACTACCACTTGTTGTGGGTGAACAACAAATTTACAAATTAAACAAACCGCCAC
TTGGTTTGTGGTCGAACCAC
Found at i:13412862 original size:85 final size:85
Alignment explanation
Indices: 13412694--13412874 Score: 247
Period size: 85 Copynumber: 2.1 Consensus size: 85
13412684 TTTTCCAACA
* *
13412694 ATATTTGCAATTATTACCACTTGTTGTGGGTGAACAACAAATTTGCAAATTAAACAAACCGCCAC
1 ATATTTGCAATTACTACCACTTGTTGTGGGTGAACAACAAATTTACAAATTAAACAAACCGCCAC
** *
13412759 TTGGTTTGTGGTCGAACCAC
66 TTGGTTCATGGTCAAACCAC
* * * *
13412779 ATATTTGCAATTACTACCACTTGTTGTGGGTGCACAACATATTTACAAATTAAACAAACTGTCAC
1 ATATTTGCAATTACTACCACTTGTTGTGGGTGAACAACAAATTTACAAATTAAACAAACCGCCAC
13412844 TTGGTTCATGAG-CAAACCAC
66 TTGGTTCATG-GTCAAACCAC
*
13412864 ATTGTTTGCAA
1 A-TATTTGCAA
13412875 ATTATTAAAT
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
85 75 0.89
86 9 0.11
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (85 bp):
ATATTTGCAATTACTACCACTTGTTGTGGGTGAACAACAAATTTACAAATTAAACAAACCGCCAC
TTGGTTCATGGTCAAACCAC
Found at i:13413135 original size:43 final size:43
Alignment explanation
Indices: 13413045--13413278 Score: 294
Period size: 42 Copynumber: 5.5 Consensus size: 43
13413035 TAAAAAAATA
*
13413045 CCGCTAAAGAACATGACCTTTAGAGGCGC-TTTCCCACAAACG
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACG
* *
13413087 CCGCTAAAGAACATGACCTTTAGTGGCGCTTTTCCCACCAACG
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACG
*
13413130 TCGCTAAAG-ACATGACCTTTAGCGGCGCTTTTCCCACAAACG
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACG
* * * * * *
13413172 CCACTAAAAAACATGACTTTTAACGGCGCTTTTACCACAAACT
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACG
* * * *
13413215 CCACTAAA-AGCATGACCTTTAACGGCGCTTTTCCCACAAATG
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACG
* * *
13413257 CTGATAAAAAACATGACCTTTA
1 CCGCTAAAGAACATGACCTTTA
13413279 AAAAATTTTT
Statistics
Matches: 168, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
42 99 0.59
43 69 0.41
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (43 bp):
CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACG
Found at i:13413200 original size:85 final size:85
Alignment explanation
Indices: 13413045--13413279 Score: 298
Period size: 85 Copynumber: 2.8 Consensus size: 85
13413035 TAAAAAAATA
* * *
13413045 CCGCTAAAGAACATGACCTTTAGAGGCGC-TTTCCCACAAACGCCGCTAAAGAACATGACCTTTA
1 CCGCTAAAG-ACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAAAACATGACCTTTA
** * *
13413109 GTGGCGCTTTTCCCACCAACGT
65 ACGGCGCTTTTACCACAAAC-T
*
13413131 -CGCTAAAGACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAAAACATGACTTTTAA
1 CCGCTAAAGACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAAAACATGACCTTTAA
13413195 CGGCGCTTTTACCACAAACT
66 CGGCGCTTTTACCACAAACT
* * * *
13413215 CCACTAAA-AGCATGACCTTTAACGGCGCTTTTCCCACAAATGCTGA-TAAAAAACATGACCTTT
1 CCGCTAAAGA-CATGACCTTTAGCGGCGCTTTTCCCACAAACGC-CACTAAAAAACATGACCTTT
13413278 AA
64 AA
13413280 AAAATTTTTA
Statistics
Matches: 132, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
84 20 0.15
85 111 0.84
86 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.23
Consensus pattern (85 bp):
CCGCTAAAGACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAAAACATGACCTTTAA
CGGCGCTTTTACCACAAACT
Found at i:13415261 original size:18 final size:18
Alignment explanation
Indices: 13415234--13415279 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
13415224 TGTTTATATC
*
13415234 AAATTAAATAATTATATTT
1 AAATT-AATAATTACATTT
*
13415253 AAATTAATACTTACATTT
1 AAATTAATAATTACATTT
13415271 AAATTAATA
1 AAATTAATA
13415280 TTTCATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATTAATAATTACATTT
Found at i:13415349 original size:29 final size:29
Alignment explanation
Indices: 13415317--13415392 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
13415307 TGAATATCAT
*
13415317 TTAAATTATCTTACTTTTTAAAAATAAAA
1 TTAACTTATCTTACTTTTTAAAAATAAAA
*
13415346 TTAACTTATCTTACTTATTAAAAATAAAA
1 TTAACTTATCTTACTTTTTAAAAATAAAA
*
13415375 TTAACTTACTTTTACTTT
1 TTAACTTA-TCTTACTTT
13415393 ATACCGTCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 35 0.83
30 7 0.17
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (29 bp):
TTAACTTATCTTACTTTTTAAAAATAAAA
Found at i:13417655 original size:34 final size:35
Alignment explanation
Indices: 13417596--13417673 Score: 124
Period size: 34 Copynumber: 2.3 Consensus size: 35
13417586 TGCAGATTAT
*
13417596 ATTAGAA-CATTGTTTTCCTTAAAAAAATGTATAA
1 ATTAGAATGATTGTTTTCCTTAAAAAAATGTATAA
13417630 ATTAGAATGATTGTTTTCCTT-AAAAAATGTATAA
1 ATTAGAATGATTGTTTTCCTTAAAAAAATGTATAA
*
13417664 ATTAAAATGA
1 ATTAGAATGA
13417674 CTAACTTCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
34 29 0.71
35 12 0.29
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.38
Consensus pattern (35 bp):
ATTAGAATGATTGTTTTCCTTAAAAAAATGTATAA
Found at i:13418358 original size:40 final size:40
Alignment explanation
Indices: 13418275--13418358 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
13418265 TAACTTGATT
* * * *
13418275 TTTTGTGGCGTTTTTATCATAAACGCTGCTATTACTTGCC
1 TTTTGTGGCGTTTTTATCATAAACACCGCTAATACTTGAC
* * *
13418315 TTTTGTGGTGTTTTTATCATAAATACCGCTAATGCTTGAC
1 TTTTGTGGCGTTTTTATCATAAACACCGCTAATACTTGAC
13418355 TTTT
1 TTTT
13418359 TTACAATTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.48
Consensus pattern (40 bp):
TTTTGTGGCGTTTTTATCATAAACACCGCTAATACTTGAC
Found at i:13419757 original size:40 final size:40
Alignment explanation
Indices: 13419665--13419768 Score: 109
Period size: 40 Copynumber: 2.6 Consensus size: 40
13419655 TTCTGTGGCG
* * * * *
13419665 TTTTTCAAAAAGCACCGCTAATGATTGGCCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCA
*** *
13419705 TTTTTTTCAAAGCGCCGCTAATGCTCGATCTATAGCGGCA
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCA
* *
13419745 TTTTTCAAAAAGCGCTGTTAATGC
1 TTTTTCAAAAAGCGCCGCTAATGC
13419769 CACTAAAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (40 bp):
TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCA
Found at i:13419859 original size:40 final size:40
Alignment explanation
Indices: 13419815--13420167 Score: 166
Period size: 40 Copynumber: 8.9 Consensus size: 40
13419805 AATTTTTTTT
* * **
13419815 GCGGCGTTTTGT-GAAAAGCGCCGCTAATGGTCGGCCTATA
1 GCGGCGTTTT-TCAAAAAGCGCCGCTAATGCTCGATCTATA
* ** *
13419855 GCGGCGTTTTTTAAAAAATGCCGGTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
** *
13419895 GCGATGTTTTTCAAAAAGCACCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* * * *
13419935 GCAGTGTTTTTCTAAAAGCGCCGCTAATGC-C-A-CTAAA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* **** * * ** ** * * *
13419972 GC-TC-AACAT-AAAACGACGACG-TTGTGCTTAATTTTTTT
1 GCGGCGTTTTTCAAAAAG-CGCCGCTAATGCTCGA-TCTATA
* * *
13420010 GCGGCTTTTTTTAAAAAAGCGCCGCTAATACTCGATCTATA
1 GCGGC-GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* ** * * *
13420051 GCGGCATTTTTTGAAAAGCTCCACTAATGCTCAATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* ** * *
13420091 GAGGCAATTTTCAAAAAGCGCCGCTAATGCTCAATCTACA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* * * * *
13420131 GCGACGCTTTTTGAAAAA-CACCGCTAATACTTGATCT
1 GCGGCG-TTTTTCAAAAAGCGCCGCTAATGCTCGATCT
13420168 GTAGTAGCAT
Statistics
Matches: 228, Mismatches: 73, Indels: 24
0.70 0.22 0.07
Matches are distributed among these distances:
34 8 0.04
35 5 0.02
36 1 0.00
37 6 0.03
38 4 0.02
39 3 0.01
40 169 0.74
41 22 0.10
42 10 0.04
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:13419923 original size:156 final size:155
Alignment explanation
Indices: 13419567--13419924 Score: 486
Period size: 156 Copynumber: 2.3 Consensus size: 155
13419557 TAAAGTGCCA
*
13419567 CTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAGCACTGCTAAATG-CACTAAAGCTCAACATA
1 CTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCACTGCT-AATGCCACTAAAGCTCAACATA
** * * *
13419631 AAATGATGGCGTTGTGCTTAATTTTTCTGTGGCGTTTTTCAAAAAGCACCGCTAATGATTGGCCT
65 AAATGACAGCGCTGTGCTTAATTTTTCTGCGGCGTTTTTCAAAAAGCACCGCTAATGATCGGCCT
** *
13419696 ATAGCGGCGTTTTTTTCAAAGCGCCG
130 ATAGCGGCGTTTTTTAAAAAACGCCG
* * *
13419722 CTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCGCTGTTAATGCCACTAAAGCTCAACATAA
1 CTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCACTGCTAATGCCACTAAAGCTCAACATAA
* * * *
13419787 AATGACAGCGCTGTGCTTAATTTTTTTTGCGGCGTTTTGT-GAAAAGCGCCGCTAATGGTCGGCC
66 AATGACAGCGCTGTGCTTAA-TTTTTCTGCGGCGTTTT-TCAAAAAGCACCGCTAATGATCGGCC
*
13419851 TATAGCGGCGTTTTTTAAAAAATGCCG
129 TATAGCGGCGTTTTTTAAAAAACGCCG
* ** *
13419878 GTAATGCTCGATCTATAGCGATGTTTTTCAAAAAGCACCGCTAATGC
1 CTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCACTGCTAATGC
13419925 TCGATCTATA
Statistics
Matches: 176, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
154 4 0.02
155 73 0.41
156 98 0.56
157 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (155 bp):
CTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCACTGCTAATGCCACTAAAGCTCAACATAA
AATGACAGCGCTGTGCTTAATTTTTCTGCGGCGTTTTTCAAAAAGCACCGCTAATGATCGGCCTA
TAGCGGCGTTTTTTAAAAAACGCCG
Found at i:13419930 original size:196 final size:196
Alignment explanation
Indices: 13419713--13420158 Score: 533
Period size: 196 Copynumber: 2.3 Consensus size: 196
13419703 CGTTTTTTTC
* *
13419713 AAAGCGCCGCTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCGCTGTTAATGCCACTAAAGC
1 AAAGCGCCGCTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCGCCGCTAATGCCACTAAAGC
* *
13419778 TCAACATAAAATGAC-AGCGCTGTGCTTAATTTTTTTTGCGGCGTTTTGT-GAAAAGCGCCGCTA
66 TCAACATAAAACGACGA-CGCTGTGCTTAA-TTTTTTTGCGGCGTTTTGTAAAAAAGCGCCGCTA
** * * ** * * ***
13419841 ATGGTCGGCCTATAGCGGCGTTTTTT-AAAAAATGCCGGTAATGCTCGATCTATAGCGATGTTTT
129 ATACTCGACCTATAGCGGCATTTTTTGAAAAAAT-CCACTAATGCTCAATCTATAGAGACAATTT
13419905 TCAA
193 TCAA
* * ** *
13419909 AAAGCACCGCTAATGCTCGATCTATAGCAGTGTTTTTCTAAAAGCGCCGCTAATGCCACTAAAGC
1 AAAGCGCCGCTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCGCCGCTAATGCCACTAAAGC
* * *
13419974 TCAACATAAAACGACGACGTTGTGCTTAATTTTTTTGCGGCTTTTTTTAAAAAAGCGCCGCTAAT
66 TCAACATAAAACGACGACGCTGTGCTTAATTTTTTTGCGGCGTTTTGTAAAAAAGCGCCGCTAAT
* ** *
13420039 ACTCGATCTATAGCGGCATTTTTTGAAAAGCTCCACTAATGCTCAATCTATAGAGGCAATTTTCA
131 ACTCGACCTATAGCGGCATTTTTTGAAAAAATCCACTAATGCTCAATCTATAGAGACAATTTTCA
13420104 A
196 A
* * * *
13420105 AAAGCGCCGCTAATGCTCAATCTACAGCGACGC-TTTTTGAAAAA-CACCGCTAAT
1 AAAGCGCCGCTAATGCTCGATCTATAGCG--GCATTTTTCAAAAAGCGCCGCTAAT
13420159 ACTTGATCTG
Statistics
Matches: 210, Mismatches: 35, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
195 17 0.08
196 177 0.84
197 15 0.07
198 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (196 bp):
AAAGCGCCGCTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCGCCGCTAATGCCACTAAAGC
TCAACATAAAACGACGACGCTGTGCTTAATTTTTTTGCGGCGTTTTGTAAAAAAGCGCCGCTAAT
ACTCGACCTATAGCGGCATTTTTTGAAAAAATCCACTAATGCTCAATCTATAGAGACAATTTTCA
A
Found at i:13430190 original size:15 final size:15
Alignment explanation
Indices: 13430172--13430200 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13430162 ATATTTATAA
13430172 AATTATTATTATTAT
1 AATTATTATTATTAT
13430187 AATTATTATTATTA
1 AATTATTATTATTA
13430201 GATAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:13431952 original size:8 final size:8
Alignment explanation
Indices: 13431939--13431976 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
13431929 CTAGATCAGT
13431939 AAAAGCCG
1 AAAAGCCG
*
13431947 AAAAGCCA
1 AAAAGCCG
*
13431955 AAAAGTCG
1 AAAAGCCG
13431963 AAAAGCCG
1 AAAAGCCG
13431971 AAAAGC
1 AAAAGC
13431977 AGGCATTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.55, C:0.21, G:0.21, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:13432632 original size:20 final size:21
Alignment explanation
Indices: 13432589--13432634 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
13432579 ACTGTTCTGT
13432589 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
13432609 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
13432628 TATGGGC
1 TATGGGC
13432635 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:13434207 original size:14 final size:14
Alignment explanation
Indices: 13434188--13434215 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13434178 TAAAGTTATT
13434188 AAAAAGAGAAAGAA
1 AAAAAGAGAAAGAA
13434202 AAAAAGAGAAAGAA
1 AAAAAGAGAAAGAA
13434216 GAGGGTCACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAAGAGAAAGAA
Found at i:13437669 original size:205 final size:205
Alignment explanation
Indices: 13437309--13438057 Score: 1204
Period size: 205 Copynumber: 3.7 Consensus size: 205
13437299 GCAGATCTGG
*
13437309 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* * *
13437374 GATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
13437439 AGAACAAATCGAAGTATGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTC
130 AGAACAAATCGAAGTATGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTC
13437504 AGATGTTTATA
195 AGATGTTTATA
*
13437515 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
*
13437580 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGTTGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * *
13437645 GAACAAATCGAAGTCTGCCATCTCCATTTCGACGGAGAGTAGATACATAACAGATCTAACCTTCA
131 GAACAAATCGAAGTATGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
13437710 GATGTTTATA
196 GATGTTTATA
* * *
13437720 CTGAAGTAGATCAAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGTTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* *
13437785 ATTTAGCTTTCATGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * *
13437850 GAACAAATCGAAGTTTGGCATCTCGATTTTGACGGAGAGCAGATACATAGTAGATCTAACCTTCA
131 GAACAAATCGAAGTATGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
13437915 GATG-----A
196 GATGTTTATA
* * * *
13437920 CTGAAACAGATCCAAGATGG-TTGGTATCCTTCTGCTTACAAGGAACAAATCGAAGGCATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * * *
13437984 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
13438049 GAACAAATC
131 GAACAAATC
13438058 AAAGAAACAG
Statistics
Matches: 506, Mismatches: 37, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
199 108 0.21
200 18 0.04
205 373 0.74
206 7 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTATGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
GATGTTTATA
Found at i:13438713 original size:19 final size:19
Alignment explanation
Indices: 13438689--13438749 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
13438679 AATCTTTAAG
13438689 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13438708 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13438727 GATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATAT
13438744 GATATG
1 GATATG
13438750 ATATGATATG
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.41
19 24 0.59
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13439317 original size:25 final size:25
Alignment explanation
Indices: 13439289--13439337 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
13439279 GCATAGTTTC
13439289 ATTT-TTTTATATGCTATGTTTAATT
1 ATTTCTTTTATATGCTAT-TTTAATT
*
13439314 ATTTCTTTTATGTGCTATTTTAAT
1 ATTTCTTTTATATGCTATTTTAAT
13439338 ATATATATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.22, C:0.06, G:0.08, T:0.63
Consensus pattern (25 bp):
ATTTCTTTTATATGCTATTTTAATT
Found at i:13452125 original size:20 final size:20
Alignment explanation
Indices: 13452087--13452134 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
13452077 TAAATTCTAA
* **
13452087 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
13452107 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
13452127 AAA-ATAAA
1 AAAGATAAA
13452135 ATCCTGAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:13452178 original size:15 final size:15
Alignment explanation
Indices: 13452158--13452187 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13452148 ATAATCCTAA
*
13452158 TAATTATCTTAATAT
1 TAATTATCCTAATAT
13452173 TAATTATCCTAATAT
1 TAATTATCCTAATAT
13452188 AAATAAAATG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:13453781 original size:6 final size:6
Alignment explanation
Indices: 13453770--13453803 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
13453760 ATAAAATAAA
13453770 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAA
13453804 CAATTGGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
TAAAAT
Done.