Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 168 of 235
Found at i:56777422 original size:15 final size:15
Alignment explanation
Indices: 56777402--56777462 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
56777392 TTTGGGTTTT
56777402 TTTATTCTGGATTTC
1 TTTATTCTGGATTTC
56777417 TTTATTCTAGG-TTTC
1 TTTATTCT-GGATTTC
* *
56777432 TCTA-TCTTGGATTTA
1 TTTATTC-TGGATTTC
*
56777447 TTTATTC-GGTTTTC
1 TTTATTCTGGATTTC
56777461 TT
1 TT
56777463 GTTATCTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
14 11 0.30
15 22 0.59
16 4 0.11
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.61
Consensus pattern (15 bp):
TTTATTCTGGATTTC
Found at i:56786604 original size:47 final size:47
Alignment explanation
Indices: 56786538--56786770 Score: 328
Period size: 47 Copynumber: 5.0 Consensus size: 47
56786528 AGTGTATATG
* **
56786538 TGTGA-ATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGCATA
1 TGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
*
56786584 TATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
1 TGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
* * *
56786631 TGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACAGGTGTA
1 TGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
* * *
56786678 TGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCATGTGTA
1 TGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
* * *
56786725 TGTGAGATAGGGCCTAATGGCCGATGTGATGAATGTGAA-A-GTGTA
1 TGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
56786770 T
1 T
56786771 AAATGTGATA
Statistics
Matches: 168, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
45 6 0.04
46 5 0.03
47 157 0.93
ACGTcount: A:0.30, C:0.11, G:0.33, T:0.26
Consensus pattern (47 bp):
TGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
Found at i:56786957 original size:37 final size:37
Alignment explanation
Indices: 56786901--56786980 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
56786891 CCGGACTCTA
* * *
56786901 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
56786938 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
56786975 AAGACT
1 AAGACT
56786981 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:56794273 original size:19 final size:19
Alignment explanation
Indices: 56794249--56794288 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
56794239 TGAAAATGTG
56794249 TAAGTTATGCCTATAAATT
1 TAAGTTATGCCTATAAATT
*
56794268 TAAGTTATGCCTATGAATT
1 TAAGTTATGCCTATAAATT
56794287 TA
1 TA
56794289 TGATGACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (19 bp):
TAAGTTATGCCTATAAATT
Found at i:56799559 original size:30 final size:30
Alignment explanation
Indices: 56799525--56799585 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56799515 TCCTTAACTC
56799525 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
56799555 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
56799585 A
1 A
56799586 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:56800495 original size:40 final size:40
Alignment explanation
Indices: 56800397--56800544 Score: 179
Period size: 40 Copynumber: 3.6 Consensus size: 40
56800387 TGGGCTATTA
* * * * *
56800397 CACACTATGTGCCAATACATAGTCGAAGCTATTTTAATCTCG
1 CACACTAAGTGCC-ATACATAGCCGAAGCTATCTCAA-ATCG
*
56800439 CACACTACGTGCCATACATAGCCGAAGCTATCTCAAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCG
* * *
56800479 CACACTAAGTGTCATACATAGCCGAAGTTATCTCGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCG
* *
56800519 CACACTAAGTGCCGTACATAACCGAA
1 CACACTAAGTGCCATACATAGCCGAA
56800545 TTGTCGTGAA
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 62 0.66
41 20 0.21
42 12 0.13
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCG
Found at i:56804348 original size:40 final size:40
Alignment explanation
Indices: 56804291--56805345 Score: 1992
Period size: 40 Copynumber: 26.4 Consensus size: 40
56804281 TCGAATGATG
* *
56804291 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * *
56804331 TCCGGACTAAGAT-CCGAAG-GCATTTGTGCAAGTTGATATA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAG-TGATATA
*
56804371 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56804411 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56804451 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56804491 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56804531 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56804571 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56804611 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56804651 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56804691 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56804731 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56804771 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56804811 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56804851 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56804891 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56804931 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56804971 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56805011 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56805051 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56805091 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56805131 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56805171 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56805211 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56805251 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56805291 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
56805331 TCCGGGCTAAGTCCC
1 TCCGGGCTAAGTCCC
56805346 NNNNNNNNNN
Statistics
Matches: 1002, Mismatches: 8, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
39 1 0.00
40 979 0.98
41 22 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:56816067 original size:40 final size:40
Alignment explanation
Indices: 56815969--56816116 Score: 179
Period size: 40 Copynumber: 3.6 Consensus size: 40
56815959 TGGGCTATTA
* * * * *
56815969 CACACTATGTGCCAATACATAGTCGAAGCTATTTTAATCTCG
1 CACACTAAGTGCC-ATACATAGCCGAAGCTATCTCAA-ATCG
*
56816011 CACACTACGTGCCATACATAGCCGAAGCTATCTCAAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCG
* * *
56816051 CACACTAAGTGTCATACATAGCCGAAGTTATCTCGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCG
* *
56816091 CACACTAAGTGCCGTACATAACCGAA
1 CACACTAAGTGCCATACATAGCCGAA
56816117 TTGTCGTGAA
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 62 0.66
41 20 0.21
42 12 0.13
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCG
Found at i:56831161 original size:39 final size:39
Alignment explanation
Indices: 56831118--56831225 Score: 164
Period size: 39 Copynumber: 2.8 Consensus size: 39
56831108 CCGGACATAT
* * *
56831118 TTCCAGCACGTAGCCTGCGGACCTTAATTCC-AGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGA-ATATAA
56831157 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGAATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGAATATAA
*
56831196 TTCCAGCACATAGCCAGCGGACCCTAAGTC
1 TTCCAGCACATAGCCTGCGGACCCTAAGTC
56831226 TTGATATACA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 63 0.98
40 1 0.02
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGAATATAA
Found at i:56833183 original size:21 final size:20
Alignment explanation
Indices: 56833144--56833183 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
56833134 TTTGTTCTTC
*
56833144 TTTTCTTATTTCAATTAATA
1 TTTTCTTATTTCAAATAATA
*
56833164 TTTTTTTATTTCAAAATAAT
1 TTTTCTTATTTC-AAATAAT
56833184 GCAAATTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTCTTATTTCAAATAATA
Found at i:56836361 original size:14 final size:15
Alignment explanation
Indices: 56836333--56836361 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56836323 CAGTTAACTA
56836333 TACTTTAGTTACTTT
1 TACTTTAGTTACTTT
56836348 TACTTTAG-TACTTT
1 TACTTTAGTTACTTT
56836362 AGTAAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.59
Consensus pattern (15 bp):
TACTTTAGTTACTTT
Found at i:56839311 original size:55 final size:54
Alignment explanation
Indices: 56839199--56839389 Score: 226
Period size: 55 Copynumber: 3.5 Consensus size: 54
56839189 AACTTACCAT
* * * * * * *
56839199 TGCCATGTCTTGACATGGTTTTACGTGGT-ATCCTTACCTTAT-GAACTCACCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATGA-CCTTTCCTTATAGAACTCATCAA
56839252 TGCCATGCCTTGGCATGGTCTTACATGA-GACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATGACCTTT-CCTTATAG-AACTCATCAA
* * ** *
56839307 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTTCCTTATAGAACTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATGACCTTTCCTTATAGAACTCATCAA
56839361 TGCCATGCCTTGGCATGGTCTTACATGAT
1 TGCCATGCCTTGGCATGGTCTTACATGAT
56839390 ATCCTTATCT
Statistics
Matches: 119, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
52 4 0.03
53 30 0.25
54 37 0.31
55 43 0.36
56 5 0.04
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGGCATGGTCTTACATGATGACCTTTCCTTATAGAACTCATCAA
Found at i:56839384 original size:54 final size:54
Alignment explanation
Indices: 56839178--56839395 Score: 251
Period size: 54 Copynumber: 4.0 Consensus size: 54
56839168 TCGGGAACCT
* * * * * * * *
56839178 TTTCCTTTTTGAACTTACCATTGCCATGTCTTGACATGGTTTTACGTGGTATCC
1 TTTCCTTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC
* * *
56839232 TTACCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGAGA-CC
1 TTTCCTTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC
* * *
56839284 TTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCC
1 TTT-CCTTATAG-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC
* * *
56839340 TTTCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC
1 TTTCCTTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC
56839394 TT
1 TT
56839396 ATCTTACCAA
Statistics
Matches: 140, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
52 4 0.03
53 39 0.28
54 49 0.35
55 43 0.31
56 5 0.04
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (54 bp):
TTTCCTTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC
Found at i:56839428 original size:47 final size:47
Alignment explanation
Indices: 56839374--56839495 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
56839364 CATGCCTTGG
*
56839374 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATATTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATATTCCAAA
* * *
56839421 CATGGTCTTACATGGTATCCTTGTCTTACGAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATATTCCAAA
56839468 CATGGTCTTACATGATATCCTTGTCTTA
1 CATGGTCTTACATGATATCCTTGTCTTA
56839496 GTGCCAATGC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATATTCCAAA
Found at i:56846738 original size:40 final size:40
Alignment explanation
Indices: 56846705--56846896 Score: 269
Period size: 40 Copynumber: 4.8 Consensus size: 40
56846695 GGATATAACT
* * *
56846705 ACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
* *
56846745 ACTCGCACCAATGCCTTCGGGACTTAGCTCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
* *
56846785 ACTTGCACAAATGCCTACGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
* *
56846825 ACTCACACAAATGCCTTCGGGACTTAGCCCGGA-ACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTA
* *
56846865 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
56846897 TTATCATCCA
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 1 0.01
40 135 0.99
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:56854689 original size:40 final size:40
Alignment explanation
Indices: 56854512--56854688 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
56854502 AAGCCAAGTA
* * * * *
56854512 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCACTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
56854551 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56854591 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
56854631 CCTTTGGGACTTAGCCC-GAAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
56854671 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
56854689 ATTATCATCC
Statistics
Matches: 121, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
39 15 0.12
40 106 0.88
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56859536 original size:73 final size:73
Alignment explanation
Indices: 56859407--56859543 Score: 195
Period size: 73 Copynumber: 1.9 Consensus size: 73
56859397 TGTGGAATGT
* * * * *
56859407 TATCGACTGGCTCGCTAGAGTGGCACCGTGACAATGGTCTATTGACCTTATGGAGTGACACCACA
1 TATCGACTAGCTCACTAGAGCGACACCGTGACAATGGTCTATTGACCTTATAGAGTGACACCACA
56859472 ATGACAAC
66 ATGACAAC
* *
56859480 TATCGACTAGCTCACTAGAGCGACACTGTGACGATGGTCTATTGA-CTCTATAGAGTGACACCAC
1 TATCGACTAGCTCACTAGAGCGACACCGTGACAATGGTCTATTGACCT-TATAGAGTGACACCAC
56859544 GATGGTGGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 2 0.04
73 54 0.96
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (73 bp):
TATCGACTAGCTCACTAGAGCGACACCGTGACAATGGTCTATTGACCTTATAGAGTGACACCACA
ATGACAAC
Found at i:56867112 original size:43 final size:43
Alignment explanation
Indices: 56866950--56867105 Score: 176
Period size: 42 Copynumber: 3.6 Consensus size: 43
56866940 CATAGGATTC
* ** *
56866950 CGATATGTGATTTTGTGTAAGACCACGTTTGGGACATTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTCTGGGACATTGGCAT
*
56866993 C-A-ATTTGATATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATTTG--A-TTACGTGTAAGACCACGTCTGGGACATTGGCAT
* *
56867037 TG-TATTTGATTTCGTGTAAGACC-CTGTCTGGGACATTGGCAT
1 CGATATTTGATTACGTGTAAGACCAC-GTCTGGGACATTGGCAT
*
56867079 CGATATTTGATTACATGTAAGACCACG
1 CGATATTTGATTACGTGTAAGACCACG
56867106 AATGGGATGT
Statistics
Matches: 94, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
41 4 0.04
42 32 0.34
43 23 0.24
44 30 0.32
45 5 0.05
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCACGTCTGGGACATTGGCAT
Found at i:56878876 original size:39 final size:39
Alignment explanation
Indices: 56878821--56878964 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
56878811 CCAACATAAT
*
56878821 TGCCTTCGGGACTTAGCCCAGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * *
56878860 TGCCTTCGGTATTTAGCTCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
56878899 TGCCTCCGGGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
56878938 TGCCTTCGGGACTTAGACCGGATATAA
1 TGCCTTCGGGACTTAGCCCGGATATAA
56878965 ATCTCACACA
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 95 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:56881652 original size:29 final size:29
Alignment explanation
Indices: 56881619--56881692 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
56881609 GTTGTGAGAT
* * *
56881619 TGGCACTAAGTCTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
56881648 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
56881677 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56881693 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:56882127 original size:40 final size:40
Alignment explanation
Indices: 56882083--56882315 Score: 412
Period size: 40 Copynumber: 5.8 Consensus size: 40
56882073 CGAGTTACTA
56882083 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
56882123 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
56882163 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
56882203 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
* * *
56882243 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
* * *
56882283 TATCCGTGCTAAATCCCGAAGAGCAATCATGCT
1 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
56882316 GGTGGCGTGT
Statistics
Matches: 185, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 185 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
Found at i:56882142 original size:80 final size:80
Alignment explanation
Indices: 56882005--56882315 Score: 405
Period size: 80 Copynumber: 3.9 Consensus size: 80
56881995 TCGAATGATG
** * * *
56882005 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCAGACTAAGAT-CCGAAG-GC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATATCCGGGCTAAG-TCCCGAAGAGC
** * * *
56882066 ATTGGTGCGAGTTACTATA
63 ATTCATGCTAGTGA-TGTA
*
56882085 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
56882150 CATGCTAGTGATGTA
66 CATGCTAGTGATGTA
*
56882165 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
56882230 CATGCTAGTGATGTA
66 CATGCTAGTGATGTA
* * * * *
56882245 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATCCCGAAGAGCAAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
56882310 CATGCT
66 CATGCT
56882316 GGTGGCGTGT
Statistics
Matches: 210, Mismatches: 17, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
79 1 0.00
80 184 0.88
81 19 0.09
82 6 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
CATGCTAGTGATGTA
Found at i:56885912 original size:47 final size:47
Alignment explanation
Indices: 56885854--56886342 Score: 906
Period size: 47 Copynumber: 10.4 Consensus size: 47
56885844 CAGCCAAGAC
56885854 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56885901 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56885948 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56885995 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56886042 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56886089 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56886136 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56886183 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56886230 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
56886277 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
56886324 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
56886343 TCCCGAAGGG
Statistics
Matches: 432, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 432 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:56886517 original size:37 final size:37
Alignment explanation
Indices: 56886461--56886539 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
56886451 CCGAGCTCTA
* *
56886461 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
56886498 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56886535 AAGAC
1 AAGAC
56886540 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56890325 original size:94 final size:94
Alignment explanation
Indices: 56890227--56890441 Score: 227
Period size: 94 Copynumber: 2.3 Consensus size: 94
56890217 AACCTGACGC
* * * ** * * *
56890227 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATTCATGCCCCAGACATGTC
1 CATGTCCCAAACAGGTATTACACTAGCTTAAATATCGCGAGGCCAATGCATGCCCCAAACATGTC
56890292 TTACACTAGCTCTCGTCTCAATGTCGATG
66 TTACACTAGCTCTCGTCTCAATGTCGATG
* * * * *
56890321 CATGTCCCAAACATGTATTACACTGGCTTAAATATCTCGAGGCTAATGCATGTCCCAAACATGTC
1 CATGTCCCAAACAGGTATTACACTAGCTTAAATATCGCGAGGCCAATGCATGCCCCAAACATGTC
* * * *
56890386 TTACACTGGCTCTCATACT--GTGGCTGATG
66 TTACACTAGCTCTCGT-CTCAATGTC-GATG
* *
56890415 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAAACAGGTATTACACTAGC
56890442 ACACATATCA
Statistics
Matches: 100, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
93 3 0.03
94 95 0.95
95 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (94 bp):
CATGTCCCAAACAGGTATTACACTAGCTTAAATATCGCGAGGCCAATGCATGCCCCAAACATGTC
TTACACTAGCTCTCGTCTCAATGTCGATG
Found at i:56890497 original size:98 final size:98
Alignment explanation
Indices: 56890368--56891274 Score: 1814
Period size: 98 Copynumber: 9.3 Consensus size: 98
56890358 CGAGGCTAAT
56890368 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
1 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
56890433 TACACTAGCACACATATCACCCATTATCAATCA
66 TACACTAGCACACATATCACCCATTATCAATCA
56890466 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
1 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
56890531 TACACTAGCACACATATCACCCATTATCAATCA
66 TACACTAGCACACATATCACCCATTATCAATCA
56890564 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
1 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
56890629 TACACTAGCACACATATCACCCATTATCAATCA
66 TACACTAGCACACATATCACCCATTATCAATCA
56890662 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
1 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
56890727 TACACTAGCACACATATCACCCATTATCAATCA
66 TACACTAGCACACATATCACCCATTATCAATCA
56890760 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
1 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
56890825 TACACTAGCACACATATCACCCATTATCAATCA
66 TACACTAGCACACATATCACCCATTATCAATCA
56890858 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
1 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
56890923 TACACTAGCACACATATCACCCATTATCAATCA
66 TACACTAGCACACATATCACCCATTATCAATCA
56890956 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
1 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
56891021 TACACTAGCACACATATCACCCATTATCAATCA
66 TACACTAGCACACATATCACCCATTATCAATCA
56891054 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
1 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
56891119 TACACTAGCACACATATCACCCATTATCAATCA
66 TACACTAGCACACATATCACCCATTATCAATCA
56891152 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
1 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
56891217 TACACTAGCACACATATCACCCATTATCAATCA
66 TACACTAGCACACATATCACCCATTATCAATCA
56891250 GCATGTCCCAAACATGTCTTACACT
1 GCATGTCCCAAACATGTCTTACACT
56891275 AGTACACATA
Statistics
Matches: 809, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 809 1.00
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.28
Consensus pattern (98 bp):
GCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAAACATGTCT
TACACTAGCACACATATCACCCATTATCAATCA
Found at i:56896370 original size:93 final size:93
Alignment explanation
Indices: 56896211--56896380 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
56896201 CCCATAAGCA
* *
56896211 AACTCGGACTCAAATCAACGAGCTCGGGCATTCGCATCCATGAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
56896276 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
* * *
56896304 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
56896369 GAGTTCGGATGC
66 GAGTTCGGATGC
56896381 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:56896377 original size:46 final size:46
Alignment explanation
Indices: 56896202--56896377 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
56896192 TGTAACCCGC
* * * * *
56896202 CCATAAGCAAACTCGGACTCAAATCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
56896248 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
56896298 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
56896341 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
56896378 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:56896396 original size:46 final size:45
Alignment explanation
Indices: 56896211--56896396 Score: 141
Period size: 46 Copynumber: 4.0 Consensus size: 45
56896201 CCCATAAGCA
* * * * * *
56896211 AACTCGGACTCAAATCAACGAGCTCGGGCATTCGCATCCAT-GAGTG
1 AACTCGGACTCAACTCAACGAGTTC-GG-ATGCTCAACCATCTAGTG
*
56896257 AACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-CG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AGTG
* * *
56896304 AACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAGTG
1 AACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAGTG
56896350 AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAGTG
56896396 A
1 A
56896397 TATGTCACTT
Statistics
Matches: 112, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
43 1 0.01
44 12 0.11
45 4 0.04
46 59 0.53
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAGTG
Found at i:56899483 original size:29 final size:29
Alignment explanation
Indices: 56899387--56899541 Score: 113
Period size: 29 Copynumber: 5.4 Consensus size: 29
56899377 TCTCATGTCA
* * *
56899387 CACACTTAGTGCC-CACTGACCGATCTCG
1 CACACATAGTGCCTCAATTACCGATCTCG
** * *
56899415 CACACATAGTG-CTCGGTTGA-AGAACTCG
1 CACACATAGTGCCTCAATT-ACCGATCTCG
* *
56899443 CACACACAGTGCCTCAATTACCGATCTCA
1 CACACATAGTGCCTCAATTACCGATCTCG
** **
56899472 CACACATAGTG-CTCGGTTAAAGGAAT-TCG
1 CACACATAGTGCCTCAATT-ACCG-ATCTCG
* *
56899501 CACACACAGTGCCTCAATTACTGATCTCG
1 CACACATAGTGCCTCAATTACCGATCTCG
56899530 CACACATAGTGC
1 CACACATAGTGC
56899542 TCGGTTAAAG
Statistics
Matches: 95, Mismatches: 24, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
27 1 0.01
28 36 0.38
29 51 0.54
30 7 0.07
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (29 bp):
CACACATAGTGCCTCAATTACCGATCTCG
Found at i:56899527 original size:58 final size:58
Alignment explanation
Indices: 56899405--56899573 Score: 286
Period size: 58 Copynumber: 2.9 Consensus size: 58
56899395 GTGCCCACTG
* *
56899405 ACCGATCTCGCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
*
56899462 ACCGATCTCACACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
* *
56899520 ACTGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTC
56899574 TAATCATTCG
Statistics
Matches: 105, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
57 29 0.28
58 76 0.72
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
Found at i:56899561 original size:29 final size:29
Alignment explanation
Indices: 56899412--56899570 Score: 112
Period size: 29 Copynumber: 5.5 Consensus size: 29
56899402 CTGACCGATC
* * *
56899412 TCGCACACATAGTGCTCGGTTGAA-GAAC
1 TCGCACACACAGTGCTCGGTTAAAGGAAT
** **
56899440 TCGCACACACAGTGCCTCAATT-ACCG-AT
1 TCGCACACACAGTG-CTCGGTTAAAGGAAT
* *
56899468 CTCACACACATAGTGCTCGGTTAAAGGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGGAAT
** **
56899498 TCGCACACACAGTGCCTCAATT-ACTG-AT
1 TCGCACACACAGTG-CTCGGTTAAAGGAAT
*
56899526 CTCGCACACATAGTGCTCGGTTAAAGGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGGAAT
*
56899556 TTGCACACACAGTGC
1 TCGCACACACAGTGC
56899571 CTCTAATCAT
Statistics
Matches: 98, Mismatches: 24, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
28 27 0.28
29 62 0.63
30 9 0.09
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (29 bp):
TCGCACACACAGTGCTCGGTTAAAGGAAT
Found at i:56899739 original size:43 final size:43
Alignment explanation
Indices: 56899678--56899942 Score: 386
Period size: 43 Copynumber: 6.2 Consensus size: 43
56899668 CCTTGCTCGA
** * *
56899678 ATCACCGGCATTAAGCCTGCTAAGCACGAAGACCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* *
56899721 ATCACCGGCACGAAGCCTGCTAGGCACGAAAGCCTGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* * * *
56899764 ATCACTGACACGAAGCATGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
56899807 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* * *
56899850 ATCACTGACACGAAGCATGCTAGGCACGAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* * *
56899893 ATCACCGGTACGAAGCCTACTAGGCACGAAGGCCCAAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
56899936 ATCACCG
1 ATCACCG
56899943 AGTTTCATGC
Statistics
Matches: 197, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 197 1.00
ACGTcount: A:0.34, C:0.32, G:0.22, T:0.12
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
Found at i:56913280 original size:108 final size:108
Alignment explanation
Indices: 56913153--56913369 Score: 416
Period size: 108 Copynumber: 2.0 Consensus size: 108
56913143 AAAACTTATA
*
56913153 AAATAAAATATGATTAAATTAAAACTAATTCTAACTCTATATAAAGTTAATAAAAATTAATATAT
1 AAATAAAATATGATTAAATTAAAACTAATACTAACTCTATATAAAGTTAATAAAAATTAATATAT
56913218 ATTATAATGGATATAATTATATATTAATAATTATCATTTTTTT
66 ATTATAATGGATATAATTATATATTAATAATTATCATTTTTTT
*
56913261 AAATAAAATATTATTAAATTAAAACTAATACTAACTCTATATAAAGTTAATAAAAATTAATATAT
1 AAATAAAATATGATTAAATTAAAACTAATACTAACTCTATATAAAGTTAATAAAAATTAATATAT
56913326 ATTATAATGGATATAATTATATATTAATAATTATCATTTTTTT
66 ATTATAATGGATATAATTATATATTAATAATTATCATTTTTTT
56913369 A
1 A
56913370 TTAAACTAAA
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (108 bp):
AAATAAAATATGATTAAATTAAAACTAATACTAACTCTATATAAAGTTAATAAAAATTAATATAT
ATTATAATGGATATAATTATATATTAATAATTATCATTTTTTT
Found at i:56920173 original size:21 final size:20
Alignment explanation
Indices: 56920149--56920190 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
56920139 CGGAATGCAA
56920149 TCAACCTAAGA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
56920170 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
56920190 T
1 T
56920191 ACCCGTTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:56925521 original size:20 final size:20
Alignment explanation
Indices: 56925484--56925521 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56925474 GCATTACTGG
*
56925484 ATAATTCATAACATTTACAA
1 ATAATTCATAACAATTACAA
*
56925504 ATAATTCATGACAATTAC
1 ATAATTCATAACAATTAC
56925522 TATTCATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (20 bp):
ATAATTCATAACAATTACAA
Found at i:56928794 original size:41 final size:41
Alignment explanation
Indices: 56928736--56928817 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
56928726 AACCAGTGTA
*
56928736 AGACCATGTCTGGGACATGGCATCGGCATTGATATGATAGC
1 AGACCATGTCTGAGACATGGCATCGGCATTGATATGATAGC
56928777 AGACCATGTCTGAGACATGGCATCGGCATTGATATGATAGC
1 AGACCATGTCTGAGACATGGCATCGGCATTGATATGATAGC
56928818 TAGTGTAAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
AGACCATGTCTGAGACATGGCATCGGCATTGATATGATAGC
Found at i:56928983 original size:42 final size:42
Alignment explanation
Indices: 56928921--56929073 Score: 121
Period size: 42 Copynumber: 3.5 Consensus size: 42
56928911 ATTTGATGTG
* *
56928921 AGACCATATCTGGGATATGGCATTGATATGAGATTCCGTGTA
1 AGACCATATCTGGGACATGGCATAGATATGAGATTCCGTGTA
* * *
56928963 AGACCATGTCTGGGACATGGCATCAGCACCGACGTGAGATGT-CGTATA
1 AGACCATATCTGGGACATGGCAT-AG-A--TA--TGAGAT-TCCGTGTA
* * * * *
56929011 AGACCATATCTAGGATATGGCATCGATATGTAGA-CCCATGTA
1 AGACCATATCTGGGACATGGCATAGATATG-AGATTCCGTGTA
*
56929053 AGACCATGTCTGGGACATGGC
1 AGACCATATCTGGGACATGGC
56929074 TTTGGAACTT
Statistics
Matches: 86, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
42 45 0.52
43 4 0.05
44 2 0.02
46 2 0.02
47 1 0.01
48 31 0.36
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (42 bp):
AGACCATATCTGGGACATGGCATAGATATGAGATTCCGTGTA
Found at i:56939291 original size:48 final size:48
Alignment explanation
Indices: 56939220--56939431 Score: 152
Period size: 48 Copynumber: 4.5 Consensus size: 48
56939210 TGAGAGCCAT
* ** * *
56939220 TGTAAGACCATGTCTAAGACATGGCATTGGCGTTGATATGAT-AGTCAG
1 TGTAAGACCATATCTGGGACATGGCATCGGCATTGATATG-TGAGTCAG
* * * *
56939268 TGTAAGACCATATCTGGGACATGGTATCGGTATTGATATGTGTGTTAG
1 TGTAAGACCATATCTGGGACATGGCATCGGCATTGATATGTGAGTCAG
* * * * * * *
56939316 TGTAAGACCATATCTGGGATATGTCGTCGGCCTCGGTATGTGATTTCA-
1 TGTAAGACCATATCTGGGACATGGCATCGGCATTGATATGTGA-GTCAG
* * * **
56939364 TGTAAGACCATATCTGGG--AT---AT-GGAATTGATATGAGATTTTG
1 TGTAAGACCATATCTGGGACATGGCATCGGCATTGATATGTGAGTCAG
*
56939406 TGTAAGACCATTTCTGGGACATGGCA
1 TGTAAGACCATATCTGGGACATGGCA
56939432 CCGATGTGAG
Statistics
Matches: 127, Mismatches: 29, Indels: 17
0.73 0.17 0.10
Matches are distributed among these distances:
41 2 0.02
42 27 0.21
43 1 0.01
44 2 0.02
46 2 0.02
47 2 0.02
48 89 0.70
49 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (48 bp):
TGTAAGACCATATCTGGGACATGGCATCGGCATTGATATGTGAGTCAG
Found at i:56939483 original size:90 final size:90
Alignment explanation
Indices: 56939389--56939559 Score: 227
Period size: 90 Copynumber: 1.9 Consensus size: 90
56939379 GGGATATGGA
* * * * * *
56939389 ATTGATATGAGATTTTGTGTAAGACCATTTCTGGGACATGGCACCGATGTG-AGGTCCCGTGTAA
1 ATTGACATGAGATTTTGTATAAGACCATATCTGGGACATGGCACCGATATGTA-GACCCATGTAA
* *
56939453 TACCATGTTTGGGACATGGCGTCGGC
65 GACCATGTCTGGGACATGGCGTCGGC
* * *
56939479 ATTGACGTGAGATTTTGTATAAGACCATATCTGGGATATGGCATCGATATGTAGACCCATGTAAG
1 ATTGACATGAGATTTTGTATAAGACCATATCTGGGACATGGCACCGATATGTAGACCCATGTAAG
56939544 ACCATGTCTGGGACAT
66 ACCATGTCTGGGACAT
56939560 AGATTTGGAA
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
90 68 0.99
91 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (90 bp):
ATTGACATGAGATTTTGTATAAGACCATATCTGGGACATGGCACCGATATGTAGACCCATGTAAG
ACCATGTCTGGGACATGGCGTCGGC
Found at i:56945176 original size:40 final size:40
Alignment explanation
Indices: 56945119--56945311 Score: 242
Period size: 40 Copynumber: 4.8 Consensus size: 40
56945109 CGAATACACG
* * * * *
56945119 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * * *
56945159 ACACCAGCACGAATGCTCTTCGGGGTTTGGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
56945199 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
56945239 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
56945279 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCC
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCC
56945312 AGATTTAGTA
Statistics
Matches: 133, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 133 1.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:56945340 original size:120 final size:121
Alignment explanation
Indices: 56945119--56945396 Score: 287
Period size: 120 Copynumber: 2.3 Consensus size: 121
56945109 CGAATACACG
* * * * *
56945119 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGA
* * * * *
56945184 TTTGGCACGGATATATCACTAGCACGAATGCTCTTCGGAA-CTTAGCCCGGATA-CA
66 CTTAGCACAGATATATAACTAGCACCAATGCTCTTC-GAATCTTAGCCCGGATATCA
* * * * *
56945239 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGA
* * * * **
56945304 CTTAGCCCAGATTTAGTAACTCGCACCAATGC-CTTCGAATCTTAGTCCGGATATGG
66 CTTAGCACAGATATA-TAACTAGCACCAATGCTCTTCGAATCTTAGCCCGGATATCA
* *
56945360 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGACA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGACA
56945397 TCATTCGAAT
Statistics
Matches: 130, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
119 3 0.02
120 101 0.78
121 21 0.16
122 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (121 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGA
CTTAGCACAGATATATAACTAGCACCAATGCTCTTCGAATCTTAGCCCGGATATCA
Found at i:56945394 original size:40 final size:41
Alignment explanation
Indices: 56945132--56945400 Score: 209
Period size: 40 Copynumber: 6.7 Consensus size: 41
56945122 CCAGCATGAT
* * * *
56945132 TGCTCTTCGGGACCTAGCCCGGACAT-AACACCAGCA-CGAA
1 TGCTCTTCGGGACTTAGCCCGGATATCATCACTAGCATC-AA
** * *
56945172 TGCTCTTCGGGGTTTGGCACGGATAT-ATCACTAGCA-CGAA
1 TGCTCTTCGGGACTTAGCCCGGATATCATCACTAGCATC-AA
* *
56945212 TGCTCTTCGGAACTTAGCCCGGATA-CATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATCATCACTAGCATCAA
* *
56945252 TGCTCTTCGGGACTTAGCCCGGATA-CATCGCTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATCATCACTAGCATCAA
* * * * *
56945292 TGCTCTTCGGGACTTAGCCCAGAT-TTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATCA-TCACTAGCATCAA
* * **
56945333 TGC-CTTC-GAATCTTAGTCCGGATATGGTCACTTAGCA-CAA
1 TGCTCTTCGGGA-CTTAGCCCGGATATCATCAC-TAGCATCAA
* *
56945373 AGC-CTTCGGGACTTAGCCCGGACATCAT
1 TGCTCTTCGGGACTTAGCCCGGATATCAT
56945401 TCGAATAACC
Statistics
Matches: 185, Mismatches: 36, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.01
40 165 0.89
41 18 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (41 bp):
TGCTCTTCGGGACTTAGCCCGGATATCATCACTAGCATCAA
Found at i:56945735 original size:29 final size:29
Alignment explanation
Indices: 56945696--56945774 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
56945686 CTTAATAATC
*
56945696 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
56945726 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
* *
56945755 AGCCCGCAGACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
56945775 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:56962451 original size:40 final size:40
Alignment explanation
Indices: 56962373--56962473 Score: 127
Period size: 40 Copynumber: 2.5 Consensus size: 40
56962363 ACCCAAGTAT
*
56962373 CTTCGGGAT-TTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTAGCACAAATGC
**
56962412 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
56962452 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
56962474 CATCCGAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 11 0.20
40 42 0.76
41 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:56970746 original size:10 final size:10
Alignment explanation
Indices: 56970733--56970757 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
56970723 AGCTTCTGGT
56970733 AGCTTTCAAA
1 AGCTTTCAAA
56970743 AGCTTTCAAA
1 AGCTTTCAAA
56970753 AGCTT
1 AGCTT
56970758 AGTAAGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (10 bp):
AGCTTTCAAA
Found at i:56973039 original size:57 final size:58
Alignment explanation
Indices: 56972956--56973086 Score: 167
Period size: 57 Copynumber: 2.3 Consensus size: 58
56972946 AAGATTACTT
* * * *
56972956 GTCCAAGCTAAATCCTATTTCCAACATATGCTCATA-AGAGCTTA-ATCAGGATTACCC
1 GTCCAGGCTAAATCCTATCTACAACATATGCTCA-AGAGAGCTTATATCAGGATTACCA
** * *
56973013 GTCTGGGCTAAATCCTATCTATAACATATGCTCAAGAGGGCTTATATCAGGATTACCA
1 GTCCAGGCTAAATCCTATCTACAACATATGCTCAAGAGAGCTTATATCAGGATTACCA
56973071 GTCCAGGCTAAATCCT
1 GTCCAGGCTAAATCCT
56973087 TTCTGTAATG
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
56 1 0.02
57 35 0.56
58 26 0.42
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (58 bp):
GTCCAGGCTAAATCCTATCTACAACATATGCTCAAGAGAGCTTATATCAGGATTACCA
Found at i:56981070 original size:39 final size:39
Alignment explanation
Indices: 56981016--56981141 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
56981006 TTCAGTGATG
* *
56981016 TATATTCGAACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
56981055 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
56981094 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
56981133 TATGTCCGG
1 TATATCCGG
56981142 GCTAATGTCC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:56981168 original size:78 final size:78
Alignment explanation
Indices: 56981016--56981179 Score: 181
Period size: 78 Copynumber: 2.1 Consensus size: 78
56981006 TTCAGTGATG
* * * * * *
56981016 TATATTCGAACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCTGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAGGTCTGCAGGC
*
56981081 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * * *
56981094 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAATGTCCTGTAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAGGT-CTGCAGG
*
56981158 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
56981172 TATA-CCGG
1 TATATCCGG
56981180 GTTTAAATTC
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
77 9 0.12
78 63 0.88
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAGGTCTGCAGGC
TATGAGCTGGAAT
Found at i:56985920 original size:39 final size:40
Alignment explanation
Indices: 56985849--56985992 Score: 156
Period size: 39 Copynumber: 3.6 Consensus size: 40
56985839 GCTACTCGTT
* *
56985849 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
*
56985889 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
56985928 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
56985969 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56985993 CAGCATTCAA
Statistics
Matches: 90, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
38 2 0.02
39 47 0.52
40 33 0.37
41 8 0.09
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:57013578 original size:40 final size:40
Alignment explanation
Indices: 57013542--57013618 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
57013532 CCCGGATGTC
*
57013542 ATTCCAGCACGAAGCCTGCGGATCTTTAGGCCCGGATACA
1 ATTCCAGCACGAAGCCTGCGGATCTTTAAGCCCGGATACA
*
57013582 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATTCCAGCACGAAGCCTGCGGATCTTTAAGCCCGGAT
57013619 TGTTTTTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (40 bp):
ATTCCAGCACGAAGCCTGCGGATCTTTAAGCCCGGATACA
Found at i:57020835 original size:40 final size:40
Alignment explanation
Indices: 57020764--57020876 Score: 176
Period size: 40 Copynumber: 2.9 Consensus size: 40
57020754 TATCTAGCAC
* * *
57020764 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGAT-ACAATTCCAGCACGA
57020803 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
57020843 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
57020877 CATCAAATAA
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
39 16 0.23
40 53 0.77
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
Found at i:57023649 original size:10 final size:10
Alignment explanation
Indices: 57023625--57023671 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
57023615 CATGAGATTT
57023625 TGATAT-ACA
1 TGATATGACA
*
57023634 TCATATGACA
1 TGATATGACA
57023644 TGATATGACA
1 TGATATGACA
57023654 TGATATGCACA
1 TGATATG-ACA
57023665 TGATATG
1 TGATATG
57023672 TTATGAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 5 0.15
10 19 0.56
11 10 0.29
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (10 bp):
TGATATGACA
Found at i:57023667 original size:21 final size:21
Alignment explanation
Indices: 57023625--57023691 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
57023615 CATGAGATTT
*
57023625 TGATAT-ACATCATATG-ACA
1 TGATATGACATGATATGCACA
57023644 TGATATGACATGATATGCACA
1 TGATATGACATGATATGCACA
** *
57023665 TGATATGTTATGAGATGCACA
1 TGATATGACATGATATGCACA
*
57023686 AGATAT
1 TGATAT
57023692 ATTCATTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
19 6 0.15
20 9 0.22
21 26 0.63
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (21 bp):
TGATATGACATGATATGCACA
Found at i:57023767 original size:25 final size:25
Alignment explanation
Indices: 57023737--57023809 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
57023727 GGAGGAAGTG
* *
57023737 CAAAAAGGGCTTTGCCCAAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTAAC
* *
57023762 CGAAAAGGGCTTTGCCCCAGTTAAT
1 CAAAAAGGGCTTTGCCCCAGTTAAC
*
57023787 CAAAAAAGGCTTTGCCCCAGTTA
1 CAAAAAGGGCTTTGCCCCAGTTA
57023810 TTAAAAGAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTAAC
Found at i:57023820 original size:24 final size:25
Alignment explanation
Indices: 57023739--57023820 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
57023729 AGGAAGTGCA
* * *
57023739 AAAAG-GGCTTTGCCCAAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTAATC
57023763 GAAAAG-GGCTTTGCCCCAGTTAATC
1 -AAAAGAGGCTTTGCCCCAGTTAATC
* *
57023788 AAAAAAGGCTTTGCCCCAGTT-ATT
1 AAAAGAGGCTTTGCCCCAGTTAATC
57023812 AAAAGAGGC
1 AAAAGAGGC
57023821 CAGGCCTCCA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
24 14 0.28
25 36 0.72
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTAATC
Found at i:57037905 original size:27 final size:26
Alignment explanation
Indices: 57037874--57038051 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
57037864 TAAATTGTAC
57037874 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
57037901 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
57037927 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
57037955 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
57037983 GGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
57038010 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
57038037 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57038052 GACTCGATAT
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 104 0.79
28 26 0.20
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:57037990 original size:82 final size:81
Alignment explanation
Indices: 57037875--57038030 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57037865 AAATTGTACA
*
57037875 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
57037939 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
57037956 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
57038021 TGCGAGTTGA
65 TGCGAATTGA
57038031 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57038042 original size:82 final size:81
Alignment explanation
Indices: 57037871--57038051 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
57037861 GATTAAATTG
*
57037871 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
57037936 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
57037952 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
57038016 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57038034 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57038052 GACTCGATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57046089 original size:27 final size:26
Alignment explanation
Indices: 57046058--57046235 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
57046048 TAAATTGTAC
57046058 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
57046085 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
57046111 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
57046139 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
57046167 GGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
57046194 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
57046221 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57046236 GACTCGATAT
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 104 0.79
28 26 0.20
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:57046174 original size:82 final size:81
Alignment explanation
Indices: 57046059--57046214 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57046049 AAATTGTACA
*
57046059 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
57046123 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
57046140 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
57046205 TGCGAGTTGA
65 TGCGAATTGA
57046215 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57046226 original size:82 final size:81
Alignment explanation
Indices: 57046055--57046235 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
57046045 GATTAAATTG
*
57046055 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
57046120 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
57046136 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
57046200 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57046218 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57046236 GACTCGATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57055962 original size:21 final size:21
Alignment explanation
Indices: 57055923--57055962 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
57055913 GAGGTGATGG
*
57055923 AGAATCAGGTGGGATAGGTGA
1 AGAATCAGGTGGGAAAGGTGA
* *
57055944 AGAATTAGGTGGTAAAGGT
1 AGAATCAGGTGGGAAAGGT
57055963 AGGTTATTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.40, T:0.23
Consensus pattern (21 bp):
AGAATCAGGTGGGAAAGGTGA
Found at i:57066564 original size:40 final size:40
Alignment explanation
Indices: 57066502--57066717 Score: 330
Period size: 40 Copynumber: 5.4 Consensus size: 40
57066492 AAACCAAGTA
* * *
57066502 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
57066541 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
57066581 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
57066621 CCTTCGGGACTTAGCCCGAAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
57066661 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
57066701 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
57066718 CGTTATCATC
Statistics
Matches: 164, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 14 0.09
40 150 0.91
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:57075326 original size:40 final size:40
Alignment explanation
Indices: 57075297--57075599 Score: 497
Period size: 40 Copynumber: 7.6 Consensus size: 40
57075287 GCTACTCGCT
57075297 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACA
*
57075337 CAAATGCCTTTGGGACTTAGCCCGGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACA
57075377 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACA
*
57075417 CAAATGCCTTTGGGACTTAGCCCGGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACA
57075457 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACA
*
57075497 CAAATGCCTTTGGGACTTAGCCCGGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACA
*
57075537 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCA-CA
*
57075577 CAAATGCCTTCAGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
57075600 CGTTATCATC
Statistics
Matches: 249, Mismatches: 8, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
39 5 0.02
40 238 0.96
41 6 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACA
Found at i:57075411 original size:80 final size:80
Alignment explanation
Indices: 57075297--57075599 Score: 547
Period size: 80 Copynumber: 3.8 Consensus size: 80
57075287 GCTACTCGCT
57075297 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCCCGG
57075362 AATTAGTAACTCACA
66 AATTAGTAACTCACA
57075377 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCCCGG
57075442 AATTAGTAACTCACA
66 AATTAGTAACTCACA
57075457 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCCCGG
57075522 AATTAGTAACTCACA
66 AATTAGTAACTCACA
* **
57075537 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACT-AGCACAAATGCCTTCAGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CACAAATGCCTTTGGGACTTAGCCC
57075600 CGTTATCATC
Statistics
Matches: 218, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
79 2 0.01
80 216 0.99
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCCCGG
AATTAGTAACTCACA
Found at i:57076850 original size:30 final size:30
Alignment explanation
Indices: 57076814--57076872 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
57076804 CTCATTCCCT
57076814 TCTTTTTCTTTCTTCTATTCGGCCAAGTTC
1 TCTTTTTCTTTCTTCTATTCGGCCAAGTTC
*
57076844 TCTTTTTCTTTCTTCTATTCGGCGAAGTT
1 TCTTTTTCTTTCTTCTATTCGGCCAAGTT
57076873 GAACAACATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.10, C:0.24, G:0.12, T:0.54
Consensus pattern (30 bp):
TCTTTTTCTTTCTTCTATTCGGCCAAGTTC
Found at i:57084809 original size:39 final size:39
Alignment explanation
Indices: 57084749--57084880 Score: 176
Period size: 39 Copynumber: 3.4 Consensus size: 39
57084739 TGCATGGTAT
57084749 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
* * *
57084788 TGGAAATATATCCAGATTTGAAGTCCGCAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
* * * * *
57084827 TGGAAATATATTCGGACTTAAAGTCTGCAGGC-TAAGTGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TGC
57084866 TGGAAAAATATCCGG
1 TGGAAAAATATCCGG
57084881 GCTAAGTCCC
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 2 0.02
39 79 0.98
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
Found at i:57084905 original size:39 final size:39
Alignment explanation
Indices: 57084873--57085049 Score: 273
Period size: 39 Copynumber: 4.5 Consensus size: 39
57084863 TGCTGGAAAA
*
57084873 ATATCCGGGCTAAGTCCCGAAGGAATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* **
57084912 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* **
57084951 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGCGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
57084990 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
57085029 ATATCCGGGCTTAAAGTCCCG
1 ATATCCGGGC-T-AAGTCCCG
57085050 CATGCTTTGT
Statistics
Matches: 125, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 116 0.93
40 1 0.01
41 8 0.06
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
Found at i:57084906 original size:78 final size:78
Alignment explanation
Indices: 57084824--57085049 Score: 195
Period size: 78 Copynumber: 2.9 Consensus size: 78
57084814 GCAGGCTTTA
* *
57084824 TGCTGGAAATATATTCGGACTTAAAGT-CTGCAGGC-TAAGTGCTGGAAAAATATCCGGGCTAAG
1 TGCTGGAAATATATCCGGAC-T-AAGTCCTGAAGGCATAAGTGCTGGAAAAATATCCGGGCTAAG
57084887 TCCCGAAGGAATTCG
64 TCCCGAAGGAATTCG
* * * ** ****
57084902 TGCTGGTATTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGCTATATCCGGGCTAAGTC
1 TGCTGGAAATATATCCGGACTAAGTCCTGAAGGCATAAGTGCTGGAAAAATATCCGGGCTAAGTC
*
57084967 CCGAAGGCATTCG
66 CCGAAGGAATTCG
* *** * * ** * **
57084980 TGTTGGCGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTTAAAG
1 TGCTGGAAATATATCCGGACTAAGTCCTGAAGGCATAAGTGCTGGAAAAATATCCGGGC-T-AAG
57085045 TCCCG
64 TCCCG
57085050 CATGCTTTGT
Statistics
Matches: 126, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
76 4 0.03
77 8 0.06
78 105 0.83
79 1 0.01
80 8 0.06
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (78 bp):
TGCTGGAAATATATCCGGACTAAGTCCTGAAGGCATAAGTGCTGGAAAAATATCCGGGCTAAGTC
CCGAAGGAATTCG
Found at i:57106586 original size:13 final size:13
Alignment explanation
Indices: 57106568--57106593 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57106558 GCTCGACAGG
57106568 GACACGCCCGTGT
1 GACACGCCCGTGT
57106581 GACACGCCCGTGT
1 GACACGCCCGTGT
57106594 ACGATTGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:57111006 original size:29 final size:30
Alignment explanation
Indices: 57110949--57111006 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
57110939 TTAAAAATCG
* *
57110949 ATATTATAATAAATTTAGTTCTAACTTTAC
1 ATATTATAATAAATTTAATTATAACTTTAC
* *
57110979 ATATTAT-ATTAATTTAATTATAATTTTA
1 ATATTATAATAAATTTAATTATAACTTTA
57111007 AAAAATTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (30 bp):
ATATTATAATAAATTTAATTATAACTTTAC
Found at i:57111568 original size:21 final size:21
Alignment explanation
Indices: 57111542--57111597 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
57111532 AATAGTGGTG
*
57111542 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
57111563 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
57111584 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
57111598 AACAGCGGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:57112449 original size:19 final size:18
Alignment explanation
Indices: 57112402--57112459 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
57112392 AAATAATATA
57112402 TAAATATATTATATATTTT
1 TAAATATATTATATA-TTT
* * *
57112421 TTATTTTATTATATATTT
1 TAAATATATTATATATTT
*
57112439 TAAATAATATTTATACATTT
1 TAAAT-ATA-TTATATATTT
57112459 T
1 T
57112460 TATATGTTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
18 6 0.20
19 14 0.47
20 10 0.33
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TAAATATATTATATATTT
Found at i:57112479 original size:40 final size:40
Alignment explanation
Indices: 57112404--57112479 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
57112394 ATAATATATA
* *
57112404 AATATATTATATATTTTTTATTTTATTATATATTTTAAAT
1 AATATATTATACATTTTTTATTTTATTATAAATTTTAAAT
57112444 AATAT-TTATACATTTTTATATGTTTATT-TAAATTTT
1 AATATATTATACATTTTT-TAT-TTTATTATAAATTTT
57112480 TTAAAATTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
39 11 0.34
40 15 0.47
41 6 0.19
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (40 bp):
AATATATTATACATTTTTTATTTTATTATAAATTTTAAAT
Found at i:57113239 original size:18 final size:18
Alignment explanation
Indices: 57113216--57113252 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
57113206 TGGATCACTT
57113216 ATTAAGATAGGTTGATTG
1 ATTAAGATAGGTTGATTG
57113234 ATTAAGATAGGTTGATTG
1 ATTAAGATAGGTTGATTG
57113252 A
1 A
57113253 CCTTAACTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.27, T:0.38
Consensus pattern (18 bp):
ATTAAGATAGGTTGATTG
Found at i:57115391 original size:17 final size:18
Alignment explanation
Indices: 57115356--57115393 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
57115346 ATTGAATAAT
57115356 AACAAGTGTAATATTTAA
1 AACAAGTGTAATATTTAA
57115374 AACAATGTGT-AT-TTTAA
1 AACAA-GTGTAATATTTAA
57115391 AAC
1 AAC
57115394 GATAAAGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 7 0.37
19 4 0.21
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (18 bp):
AACAAGTGTAATATTTAA
Found at i:57119111 original size:7 final size:7
Alignment explanation
Indices: 57119099--57119146 Score: 96
Period size: 7 Copynumber: 6.9 Consensus size: 7
57119089 TTTCACTATT
57119099 TACCTTA
1 TACCTTA
57119106 TACCTTA
1 TACCTTA
57119113 TACCTTA
1 TACCTTA
57119120 TACCTTA
1 TACCTTA
57119127 TACCTTA
1 TACCTTA
57119134 TACCTTA
1 TACCTTA
57119141 TACCTT
1 TACCTT
57119147 GCCACCATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (7 bp):
TACCTTA
Found at i:57122399 original size:20 final size:20
Alignment explanation
Indices: 57122373--57122447 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
57122363 CTTGTACGGG
57122373 ATTTGCACTTCGGTGCCTCT
1 ATTTGCACTTCGGTGCCTCT
* *
57122393 GTTTGCACTGCGGTGCCTCT
1 ATTTGCACTTCGGTGCCTCT
*
57122413 ATTTGCACTTCGGTGCCTTT
1 ATTTGCACTTCGGTGCCTCT
* *
57122433 ATATACACTTCGGTG
1 ATTTGCACTTCGGTG
57122448 TCCTTGTTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.12, C:0.27, G:0.23, T:0.39
Consensus pattern (20 bp):
ATTTGCACTTCGGTGCCTCT
Found at i:57123356 original size:20 final size:20
Alignment explanation
Indices: 57123316--57123357 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
57123306 ATAATGACAT
* * *
57123316 GTATAGGATGTTTTGTTATG
1 GTATAGGATGATATGTAATG
57123336 GTATAGGATGATATGTAATG
1 GTATAGGATGATATGTAATG
57123356 GT
1 GT
57123358 GATTTGGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (20 bp):
GTATAGGATGATATGTAATG
Found at i:57125778 original size:50 final size:50
Alignment explanation
Indices: 57125719--57125818 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
57125709 AACCAATTTG
* *
57125719 ACACCATTTCCATACACTTATAGGCAACTCAAAACATACCAATTTCACAC
1 ACACAATTTCCATACACTTATAGGCAACCCAAAACATACCAATTTCACAC
57125769 ACACAATTTCCATACACTTATAGGCAACCCAAAACATACCAATTTCACAC
1 ACACAATTTCCATACACTTATAGGCAACCCAAAACATACCAATTTCACAC
57125819 TCATAACATG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.41, C:0.32, G:0.04, T:0.23
Consensus pattern (50 bp):
ACACAATTTCCATACACTTATAGGCAACCCAAAACATACCAATTTCACAC
Found at i:57133348 original size:34 final size:34
Alignment explanation
Indices: 57133305--57133373 Score: 79
Period size: 34 Copynumber: 2.0 Consensus size: 34
57133295 AACGTGCATA
* *
57133305 TATTCCATATTCAC-TAATTCATCATAAT-ATCATC
1 TATTCCATA-TCACAAAACTCATCAT-ATCATCATC
*
57133339 TATTTCATATCACAAAACTCATCATATCATCATC
1 TATTCCATATCACAAAACTCATCATATCATCATC
57133373 T
1 T
57133374 CAAACCAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
33 6 0.20
34 24 0.80
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (34 bp):
TATTCCATATCACAAAACTCATCATATCATCATC
Found at i:57133377 original size:23 final size:23
Alignment explanation
Indices: 57133334--57133377 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
57133324 CATCATAATA
*
57133334 TCATCTATTTCATATCACAAAAC
1 TCATCTATATCATATCACAAAAC
*
57133357 TCATC-ATATCATCATCTCAAA
1 TCATCTATATCAT-ATCACAAA
57133378 CCAAACCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (23 bp):
TCATCTATATCATATCACAAAAC
Found at i:57139673 original size:25 final size:25
Alignment explanation
Indices: 57139640--57139706 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
57139630 CCCACTTCAC
57139640 AGCTTGTGTGAGCATTTACAGTCAT
1 AGCTTGTGTGAGCATTTACAGTCAT
* * *
57139665 AGCTCGTGTGAGCATTTGCTGTCAT
1 AGCTTGTGTGAGCATTTACAGTCAT
*
57139690 AGCTTGTGTGAGAATTT
1 AGCTTGTGTGAGCATTT
57139707 TCTCTGTATC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.37
Consensus pattern (25 bp):
AGCTTGTGTGAGCATTTACAGTCAT
Found at i:57141431 original size:25 final size:26
Alignment explanation
Indices: 57141385--57141452 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 26
57141375 ACACACCCTA
* *
57141385 GCTCTT-ATGAGCATCCCGATTAAA-G
1 GCTCTTCATGAGCTTCAC-ATTAAACG
*
57141410 GCTCTTCGTGAGCTTCACATTAAATCG
1 GCTCTTCATGAGCTTCACATTAAA-CG
*
57141437 GCTCTTTATGAGCTTC
1 GCTCTTCATGAGCTTC
57141453 CCGATAATGG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 12 0.34
26 8 0.23
27 15 0.43
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (26 bp):
GCTCTTCATGAGCTTCACATTAAACG
Found at i:57142905 original size:93 final size:92
Alignment explanation
Indices: 57142739--57142906 Score: 230
Period size: 93 Copynumber: 1.8 Consensus size: 92
57142729 TTATGAGAGC
** * *
57142739 CAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAAGCTACTGTAAGACCTGTCT
1 CAGTGTAAGACATGTCTGGGACAAACATCAGCCTCGAGATATACAAGCCACTGTAAGACCTGTCT
*
57142804 GGGACATGGCGTCAGCTTGTTGTTTGT
66 AGGACATGGCGTCAGCTTGTTGTTTGT
* * * *
57142831 CAGTGTAAGACCTGTCTGGGACACAACATCGGCCTCGATATATGA-AAGCCAGTGTAAGACCTGT
1 CAGTGTAAGACATGTCTGGGACA-AACATCAGCCTCGAGATAT-ACAAGCCACTGTAAGACCTGT
57142895 CTAGGACATGGC
64 CTAGGACATGGC
57142907 ATCGACTTTG
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
92 22 0.34
93 42 0.65
94 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (92 bp):
CAGTGTAAGACATGTCTGGGACAAACATCAGCCTCGAGATATACAAGCCACTGTAAGACCTGTCT
AGGACATGGCGTCAGCTTGTTGTTTGT
Found at i:57142910 original size:49 final size:47
Alignment explanation
Indices: 57142694--57142910 Score: 167
Period size: 49 Copynumber: 4.6 Consensus size: 47
57142684 TATGTGTGCT
* * *
57142694 AGTGTAAGACATGTCTGGGACATGCATCGGCCGCAT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGCATCGGCCTCATATATGAAAGCC
* * * * *
57142740 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGCATCGGCC-TCATATATGA-AAGCC
* * * * *** *
57142788 ACTGTAAGACCTGTCTGGGACATGGCGTCAG-CT--TGT-TGTTTGTC
1 AGTGTAAGACCTGTCTGGGACAT-GCATCGGCCTCATATATGAAAGCC
**
57142832 AGTGTAAGACCTGTCTGGGACACAACATCGGCCTCGATATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACA-TGCATCGGCCTC-ATATATGAAAGCC
*
57142881 AGTGTAAGACCTGTCTAGGACATGGCATCG
1 AGTGTAAGACCTGTCTGGGACAT-GCATCG
57142911 ACTTTGATGT
Statistics
Matches: 130, Mismatches: 29, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
44 27 0.21
45 3 0.02
46 31 0.24
47 3 0.02
48 30 0.23
49 36 0.28
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGGGACATGCATCGGCCTCATATATGAAAGCC
Found at i:57142948 original size:141 final size:138
Alignment explanation
Indices: 57142694--57142957 Score: 343
Period size: 141 Copynumber: 1.9 Consensus size: 138
57142684 TATGTGTGCT
** * *
57142694 AGTGTAAGACATGTCTGGGACATGCATCGGCCGCATTATGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACAAACATCGGCCGCATTATGAAAGCCAGTGTAAGACATGTCTAGG
* *
57142759 ACATGCATCAGCCTTGAGATATACAAGCTACTGTAAGACCTGTCTGGGACATGGCGTCAGCTTGT
66 ACATGCATCAGACTTGAGATATACAAGCTACTGTAAGACCTGTATGGGACATGGCGTCAGCTTGT
57142824 TGTTTGTC
131 TGTTTGTC
* * *
57142832 AGTGTAAGACCTGTCTGGGACACAACATCGGCCTCGATATATGAAAGCCAGTGTAAGACCTGTCT
1 AGTGTAAGACATGTCTGGGACA-AACATCGGCCGC-AT-TATGAAAGCCAGTGTAAGACATGTCT
* * * * *
57142897 AGGACATGGCATC-GACTT-TGATGTGCTAGCTAGTGTAAGACCATGTATGGGACATGGCGTC
63 AGGACAT-GCATCAGACTTGAGATATACAAGCTACTGTAAGACC-TGTATGGGACATGGCGTC
57142958 GGCATCTTAT
Statistics
Matches: 107, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
138 21 0.20
139 9 0.08
140 21 0.20
141 51 0.48
142 5 0.05
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (138 bp):
AGTGTAAGACATGTCTGGGACAAACATCGGCCGCATTATGAAAGCCAGTGTAAGACATGTCTAGG
ACATGCATCAGACTTGAGATATACAAGCTACTGTAAGACCTGTATGGGACATGGCGTCAGCTTGT
TGTTTGTC
Found at i:57150470 original size:64 final size:67
Alignment explanation
Indices: 57150391--57150540 Score: 184
Period size: 67 Copynumber: 2.3 Consensus size: 67
57150381 TACTATGTGG
* * *
57150391 TAGCTAGGTCACATGTGT-GATAC-GG-GATGTATACCATGTAGACAAGAGAGCTACGGGATAAT
1 TAGCTAGGTCACATGTGTGGATACAGGTGAAGGATACCATGTAGACAAGAGAGCTACGAGATAAT
57150453 TA
66 TA
* * *
57150455 TAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGATACCATGTAGACAAGAGAGCTACGAGATAA-
1 TAGCTAGGTCACATGTGTGGATACAGGTGAAGGATACCATGTAGACAAGAGAGCTACGAGATAAT
57150519 -A
66 TA
* *
57150520 GTGGCTAGGTCACATGGGTGG
1 -TAGCTAGGTCACATGTGTGG
57150541 TACTAAGCTA
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
64 17 0.23
65 4 0.05
66 19 0.26
67 33 0.45
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (67 bp):
TAGCTAGGTCACATGTGTGGATACAGGTGAAGGATACCATGTAGACAAGAGAGCTACGAGATAAT
TA
Found at i:57157893 original size:64 final size:65
Alignment explanation
Indices: 57157812--57157964 Score: 166
Period size: 67 Copynumber: 2.4 Consensus size: 65
57157802 ATACTATATG
* * * * * *
57157812 GTAGCTAGGTCATATGTGT-G-ATACGAGATGTATACCATGTAGATAAGAGAGCTACGGGATAAA
1 GTAGCTAGGTCACATGTGTGGTATACGAGAAGGACACCATGTAGACAAGAGAGCTACGAGATAAA
* * * *
57157875 TGTAGCTAGGTCGCATGTGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
1 -GTAGCTAGGTCACATGTGTGG-TATACGAGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
57157940 AA
64 AA
* *
57157942 GTGGCTAGGTCACATGGGTGGTA
1 GTAGCTAGGTCACATGTGTGGTA
57157965 CTAAGCTAAG
Statistics
Matches: 72, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
64 17 0.24
65 2 0.03
66 18 0.25
67 35 0.49
ACGTcount: A:0.31, C:0.13, G:0.32, T:0.24
Consensus pattern (65 bp):
GTAGCTAGGTCACATGTGTGGTATACGAGAAGGACACCATGTAGACAAGAGAGCTACGAGATAAA
Found at i:57160614 original size:32 final size:32
Alignment explanation
Indices: 57160573--57160638 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
57160563 ATAAATTGTT
57160573 ATGATTGTGAATATGAGTATGCACGTGGAGAA
1 ATGATTGTGAATATGAGTATGCACGTGGAGAA
57160605 ATGATTGTGAATATGAGTATGCACGTGGAGAA
1 ATGATTGTGAATATGAGTATGCACGTGGAGAA
57160637 AT
1 AT
57160639 TAACATAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.06, G:0.30, T:0.29
Consensus pattern (32 bp):
ATGATTGTGAATATGAGTATGCACGTGGAGAA
Found at i:57160866 original size:49 final size:48
Alignment explanation
Indices: 57160807--57160935 Score: 136
Period size: 49 Copynumber: 2.6 Consensus size: 48
57160797 CTTGTTGTGT
*
57160807 GTCAGTGTAAGACCTGTCTGGAACATGGCATCGACAC-CGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGG-ACATGGCATCGAC-CTCGATAGATGAAA
** * *
57160856 G-CAAGTGTAAGACCTGTCTAGGACATAACATCGGCCTCGATATATGAAA
1 GTC-AGTGTAAGACCTGTCT-GGACATGGCATCGACCTCGATAGATGAAA
* *
57160905 GTCAGTGTAAGACCTTTCTAGCACATGGCAT
1 GTCAGTGTAAGACCTGTCT-GGACATGGCAT
57160936 TGACTTTGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
48 2 0.03
49 62 0.93
50 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (48 bp):
GTCAGTGTAAGACCTGTCTGGACATGGCATCGACCTCGATAGATGAAA
Found at i:57184307 original size:34 final size:34
Alignment explanation
Indices: 57184266--57184340 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
57184256 CGCTTCAATA
57184266 TATTTATTCATGAGCATTCTCCTACCTCTTCTTT
1 TATTTATTCATGAGCATTCTCCTACCTCTTCTTT
*
57184300 TATTTATTCATGAGCATTCTCCTATCTCTTCTTT
1 TATTTATTCATGAGCATTCTCCTACCTCTTCTTT
57184334 TATTTAT
1 TATTTAT
57184341 CTTTCGTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.19, C:0.23, G:0.05, T:0.53
Consensus pattern (34 bp):
TATTTATTCATGAGCATTCTCCTACCTCTTCTTT
Found at i:57192857 original size:23 final size:24
Alignment explanation
Indices: 57192807--57192859 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
57192797 CTCATTTTTT
*
57192807 TTTAAA-TTTTAAATTTAAATCAA
1 TTTAAATTTTTAAATTCAAATCAA
* *
57192830 GTTAAATTTTTAAATTCGAAT-AA
1 TTTAAATTTTTAAATTCAAATCAA
57192853 TTTAAAT
1 TTTAAAT
57192860 AAATCAAGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (24 bp):
TTTAAATTTTTAAATTCAAATCAA
Found at i:57193205 original size:54 final size:53
Alignment explanation
Indices: 57193045--57193206 Score: 132
Period size: 54 Copynumber: 3.0 Consensus size: 53
57193035 CTACCAAACT
* * * * * *
57193045 TTTATTTCTCTCTCAAATATTTTACTTACTCTAAAATCCTCGAAACTTTTTTTCCA
1 TTTATTT-TCCCTCAAAAATTTTACTTACTCTCAAACCCT-TAAA-TTTTTTTTCA
* * * * * *
57193101 TTTATTTTCTCTCCAAAATGTTTACTT-C-CTCTAAGCCTTGATTTTATTTTTCA
1 TTTATTTTCCCTCAAAAAT-TTTACTTACTCTCAAACCCTTAAATTT-TTTTTCA
57193154 TTT-TGCTTTCCCTCAAAAATTTTACTTACTCTCAAACCCTTAAATTTTTTTTC
1 TTTAT--TTTCCCTCAAAAATTTTACTTACTCTCAAACCCTTAAATTTTTTTTC
57193207 TAATTTATGT
Statistics
Matches: 85, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
52 4 0.05
53 17 0.20
54 26 0.31
55 24 0.28
56 14 0.16
ACGTcount: A:0.24, C:0.23, G:0.03, T:0.50
Consensus pattern (53 bp):
TTTATTTTCCCTCAAAAATTTTACTTACTCTCAAACCCTTAAATTTTTTTTCA
Found at i:57195330 original size:16 final size:16
Alignment explanation
Indices: 57195291--57195331 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
57195281 GGAAGTGGCG
*
57195291 GGAAGAAGGTTAGAAA
1 GGAAGAATGTTAGAAA
57195307 GGAAGAATGTTAGAAA
1 GGAAGAATGTTAGAAA
57195323 GGAAGAATG
1 GGAAGAATG
57195332 GTATAACAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.37, T:0.15
Consensus pattern (16 bp):
GGAAGAATGTTAGAAA
Found at i:57197744 original size:89 final size:90
Alignment explanation
Indices: 57197631--57197797 Score: 266
Period size: 89 Copynumber: 1.9 Consensus size: 90
57197621 ATATAATAAA
* * *
57197631 ATCAATTAAACAATAAAAAAATAATACATTTTTAAATATA-ATTTGTTTAATTTAAAATA-ACTT
1 ATCAATTAAACAATAAAAAAATAATAAATTCTTAAATATATATTTGTTTAATTTAAAACAGA-TT
57197694 TTATGAAATATTTTAAAAAATCTATC
65 TTATGAAATATTTTAAAAAATCTATC
* *
57197720 ATCAATTAAACAATGAAAAGATAATAAATTCTTAAATATATATTTGTTTAATTTAAAACAGATTT
1 ATCAATTAAACAATAAAAAAATAATAAATTCTTAAATATATATTTGTTTAATTTAAAACAGATTT
57197785 TATGAAATATTTT
66 TATGAAATATTTT
57197798 TAGGAAATCT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
89 36 0.51
90 34 0.48
91 1 0.01
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (90 bp):
ATCAATTAAACAATAAAAAAATAATAAATTCTTAAATATATATTTGTTTAATTTAAAACAGATTT
TATGAAATATTTTAAAAAATCTATC
Found at i:57201086 original size:2 final size:2
Alignment explanation
Indices: 57201079--57201115 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
57201069 ACCATTGACG
*
57201079 TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57201116 CAAACCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:57222904 original size:43 final size:43
Alignment explanation
Indices: 57222839--57222958 Score: 186
Period size: 43 Copynumber: 2.8 Consensus size: 43
57222829 CTCGTACAAT
*
57222839 GCCAACGTCCCAGACGTAGTCTTACATGTAATCAACTATCGAA
1 GCCAACGTCCCAGACGTGGTCTTACATGTAATCAACTATCGAA
* * * *
57222882 GCCAATGTCCCAGACGTGGTCTTACATGTAATCAAGTATCTAT
1 GCCAACGTCCCAGACGTGGTCTTACATGTAATCAACTATCGAA
*
57222925 GCCAACGTCCCAGACGTGGTCTTACATGAAATCA
1 GCCAACGTCCCAGACGTGGTCTTACATGTAATCA
57222959 CATATCGGAG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACATGTAATCAACTATCGAA
Found at i:57224804 original size:27 final size:26
Alignment explanation
Indices: 57224765--57224852 Score: 97
Period size: 27 Copynumber: 3.2 Consensus size: 26
57224755 ACACGACATA
* *
57224765 AAAGAATAACCTTTGTGGCGAATTATG
1 AAAGAATAGCCTTCGTGGCGAATT-TG
57224792 AAAGAATAGCCTTCGTGGC-AATCTCTG
1 AAAGAATAGCCTTCGTGGCGAAT-T-TG
*
57224819 AAAGAATAGCCCTCGTGGCGATAATTTG
1 AAAGAATAGCCTTCGTGGCG--AATTTG
57224847 AAAGAA
1 AAAGAA
57224853 ATGCCTTTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
26 3 0.06
27 38 0.72
28 8 0.15
29 1 0.02
30 3 0.06
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (26 bp):
AAAGAATAGCCTTCGTGGCGAATTTG
Found at i:57224919 original size:27 final size:27
Alignment explanation
Indices: 57224845--57224919 Score: 62
Period size: 27 Copynumber: 2.8 Consensus size: 27
57224835 GGCGATAATT
* ***
57224845 TGAAAGAAATGCCTTTGTGGTGTACTC
1 TGAAAGAAATGCCCTTGTGGAAAACTC
* ** *
57224872 TGAAAG-AACGACTGTTATGGAAAACTC
1 TGAAAGAAATG-CCCTTGTGGAAAACTC
57224899 TGAAAGAAATGCCCTTGTGGA
1 TGAAAGAAATGCCCTTGTGGA
57224920 GCATCAAAAT
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
26 3 0.09
27 29 0.83
28 3 0.09
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (27 bp):
TGAAAGAAATGCCCTTGTGGAAAACTC
Found at i:57226641 original size:17 final size:18
Alignment explanation
Indices: 57226616--57226654 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
57226606 AATAAAAATT
57226616 ATATAAAAATATTTTAAA
1 ATATAAAAATATTTTAAA
* *
57226634 ATAT-AAAATGTTTTAAC
1 ATATAAAAATATTTTAAA
57226651 ATAT
1 ATAT
57226655 TTTATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
ATATAAAAATATTTTAAA
Found at i:57228661 original size:109 final size:109
Alignment explanation
Indices: 57228521--57228762 Score: 362
Period size: 109 Copynumber: 2.2 Consensus size: 109
57228511 TGAAGGTTGG
* * *
57228521 ATTGGCAGATCATAATACATGAATGTGTGTAAGACCATGTAGTTACGACCCATGG-AAAGATATG
1 ATTGACAGATCACAATACATGAATGTGTGTAAGACCATGTAGTTAAGACCCATGGCAAA-ATATG
* * *
57228585 TCTATATGAATGTTCATGGTGTAGCCTTCGAAATTTGTTAATCAA
65 TCTATATGAATGTTCATGGTGTAGCCTTCAAAATGTGTAAATCAA
* * *
57228630 ATTGACAGATCACGATACATGAATGTGTGTAAGATCATGTGGTTAAGACCCATGGCAAAATATGT
1 ATTGACAGATCACAATACATGAATGTGTGTAAGACCATGTAGTTAAGACCCATGGCAAAATATGT
*
57228695 CTATTTGAATGTTCATGGTGTAGCCTTCAAAATGTGTAAATCAA
66 CTATATGAATGTTCATGGTGTAGCCTTCAAAATGTGTAAATCAA
57228739 ATT-AGCAGATCACAATACATGAAT
1 ATTGA-CAGATCACAATACATGAAT
57228763 CTATGTATAA
Statistics
Matches: 120, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
108 1 0.01
109 116 0.97
110 3 0.03
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (109 bp):
ATTGACAGATCACAATACATGAATGTGTGTAAGACCATGTAGTTAAGACCCATGGCAAAATATGT
CTATATGAATGTTCATGGTGTAGCCTTCAAAATGTGTAAATCAA
Found at i:57235258 original size:29 final size:30
Alignment explanation
Indices: 57235219--57235297 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
57235209 CTTAATAATC
57235219 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
57235249 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
57235278 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
57235298 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:57244618 original size:51 final size:51
Alignment explanation
Indices: 57244542--57244644 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
57244532 GCACTCAAAA
* * *
57244542 TAGCACCAAATGCGGCACTAGACAGTGATTTGCAGTTGAATTGCTAGTAAG
1 TAGCACCAAATGCGGCACTAGACAGTGATTTGCAGCTGAACTGCCAGTAAG
57244593 TAGCACCAAATGCGGCACTAGACAGTGATTTGCAGCTGAACTGCCAGTAAG
1 TAGCACCAAATGCGGCACTAGACAGTGATTTGCAGCTGAACTGCCAGTAAG
57244644 T
1 T
57244645 TAGGCTCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (51 bp):
TAGCACCAAATGCGGCACTAGACAGTGATTTGCAGCTGAACTGCCAGTAAG
Found at i:57245027 original size:65 final size:65
Alignment explanation
Indices: 57244921--57245048 Score: 175
Period size: 65 Copynumber: 2.0 Consensus size: 65
57244911 AAAATGGGCT
* * * * * *
57244921 CACACGCCCATGTTGTCTGCCCGTGTGGGTCCATACGCTTGTGTGGCTCACATGGCCCAAAATCC
1 CACACGCCCATGTGGTCTACCCGTGTGGGCCCACACACTTGTGTGGCCCACATGGCCCAAAATCC
* * *
57244986 CACACGCCCGTGTGGTTTACCCGTGTGGGCCCACACACTTGTGTGGCCCACATGGCCTAAAAT
1 CACACGCCCATGTGGTCTACCCGTGTGGGCCCACACACTTGTGTGGCCCACATGGCCCAAAAT
57245049 GGCCGAGCTC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.18, C:0.34, G:0.25, T:0.23
Consensus pattern (65 bp):
CACACGCCCATGTGGTCTACCCGTGTGGGCCCACACACTTGTGTGGCCCACATGGCCCAAAATCC
Found at i:57245138 original size:21 final size:21
Alignment explanation
Indices: 57245109--57245157 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
57245099 GTCATGCTCG
*
57245109 CACGGCCTGGCTCATTGATCA
1 CACGCCCTGGCTCATTGATCA
* *
57245130 CACGCCCTGGCTCGTTGATTA
1 CACGCCCTGGCTCATTGATCA
57245151 CACGCCC
1 CACGCCC
57245158 GTGTATCGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.16, C:0.39, G:0.22, T:0.22
Consensus pattern (21 bp):
CACGCCCTGGCTCATTGATCA
Found at i:57248908 original size:16 final size:16
Alignment explanation
Indices: 57248887--57248925 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
57248877 GGTGGACACT
57248887 GGAGCTGTACCAGGAA
1 GGAGCTGTACCAGGAA
*
57248903 GGAGCTGTACTAGGAA
1 GGAGCTGTACCAGGAA
57248919 GGAGCTG
1 GGAGCTG
57248926 AATCCCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.41, T:0.15
Consensus pattern (16 bp):
GGAGCTGTACCAGGAA
Found at i:57254640 original size:46 final size:46
Alignment explanation
Indices: 57254506--57254651 Score: 142
Period size: 46 Copynumber: 3.2 Consensus size: 46
57254496 GCATATCTGT
* * *
57254506 GCCGATGTCATATCCCATACATGATCTTACACTTG-C--ACATCTCATA-
1 GCCGATG-CATGTCCCAAACATG-TCTTACAC-TGACTTACGTCTCA-AG
* *
57254552 GCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGTCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGACTTACGTCTCAAG
*
57254598 GCCGATGCATGTCCCAAACATGTCTTACACTAGTAC-TA-GTCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACT-G-ACTTACGTCTCAAG
57254644 GCCGATGC
1 GCCGATGC
57254652 CATGCTCTAG
Statistics
Matches: 87, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
43 2 0.02
44 9 0.10
45 14 0.16
46 57 0.66
47 3 0.03
48 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGACTTACGTCTCAAG
Found at i:57257097 original size:24 final size:25
Alignment explanation
Indices: 57257066--57257118 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 25
57257056 TGAATGAATG
*
57257066 TTTTCTCTTGAAATTTATTAAAAT-
1 TTTTCTCTTGAAATTCATTAAAATA
57257090 TTTTCTCTTGAAATTCATTAAAATA
1 TTTTCTCTTGAAATTCATTAAAATA
57257115 TTTT
1 TTTT
57257119 TCAACATTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTTCTCTTGAAATTCATTAAAATA
Found at i:57259997 original size:11 final size:11
Alignment explanation
Indices: 57259981--57260019 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
57259971 CATAGGATTA
57259981 TTCTTTTCTTT
1 TTCTTTTCTTT
57259992 TTCTTTT-TCTT
1 TTCTTTTCT-TT
57260003 TTCTTTTCTTT
1 TTCTTTTCTTT
57260014 CTTCTT
1 -TTCTT
57260020 CTCTAGCCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.04
11 18 0.72
12 6 0.24
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTCTTTTCTTT
Found at i:57260003 original size:17 final size:17
Alignment explanation
Indices: 57259981--57260019 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
57259971 CATAGGATTA
57259981 TTCTTTTCTTTTTCTTT-
1 TTCTTTTC-TTTTCTTTC
57259998 TTCTTTTCTTTTCTTTC
1 TTCTTTTCTTTTCTTTC
57260015 TTCTT
1 TTCTT
57260020 CTCTAGCCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTCTTTTCTTTTCTTTC
Found at i:57266546 original size:5 final size:5
Alignment explanation
Indices: 57266536--57266572 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
57266526 CATAGGATTA
*
57266536 TTCTT TTCTTT TTCTT TTTTT TTCTT TTCTT TTCTT T
1 TTCTT TTC-TT TTCTT TTCTT TTCTT TTCTT TTCTT T
57266573 CTTCTTCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTCTT
Found at i:57266580 original size:15 final size:15
Alignment explanation
Indices: 57266536--57266580 Score: 62
Period size: 13 Copynumber: 3.3 Consensus size: 15
57266526 CATAGGATTA
57266536 TTCTTTTCTTT-TTC
1 TTCTTTTCTTTCTTC
57266550 TT-TTTT-TTTCTT-
1 TTCTTTTCTTTCTTC
57266562 TTCTTTTCTTTCTTC
1 TTCTTTTCTTTCTTC
57266577 TTCT
1 TTCT
57266581 CTACTCGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.19
13 10 0.37
14 8 0.30
15 4 0.15
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTCTTTTCTTTCTTC
Found at i:57267704 original size:25 final size:25
Alignment explanation
Indices: 57267676--57267726 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
57267666 ACCTCATAAT
* *
57267676 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
57267701 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
57267726 G
1 G
57267727 GATATGTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:57267779 original size:10 final size:10
Alignment explanation
Indices: 57267766--57267805 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
57267756 CAGTTTTGTA
57267766 CATGATATGC
1 CATGATATGC
57267776 CATGATATGC
1 CATGATATGC
* *
57267786 ACCTAATATGC
1 -CATGATATGC
57267797 CATGATATG
1 CATGATATG
57267806 TTCATATATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:57267885 original size:25 final size:25
Alignment explanation
Indices: 57267851--57267920 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
57267841 GAGGAAGTGC
*
57267851 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
57267876 AAAAGGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
57267901 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
57267921 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:57267933 original size:24 final size:23
Alignment explanation
Indices: 57267850--57267947 Score: 97
Period size: 25 Copynumber: 4.0 Consensus size: 23
57267840 GGAGGAAGTG
*
57267850 CAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAG-TTAT
*
57267874 CGAAAAGGGCTTTGCCCCAATTTAT
1 C-AAAAGGGCTTTGCCCC-AGTTAT
57267899 CAAAAAGGGCTTTGCCCCAGTTAT
1 C-AAAAGGGCTTTGCCCCAGTTAT
* **
57267923 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAG-GGCTTTGCC-CCAGTTAT
57267948 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 13 0.21
25 44 0.70
26 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (23 bp):
CAAAAGGGCTTTGCCCCAGTTAT
Found at i:57270777 original size:6 final size:6
Alignment explanation
Indices: 57270766--57270815 Score: 100
Period size: 6 Copynumber: 8.3 Consensus size: 6
57270756 AATCAATATA
57270766 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
57270814 AA
1 AA
57270816 TAAATAAATC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (6 bp):
AAACAT
Found at i:57275169 original size:46 final size:47
Alignment explanation
Indices: 57275098--57275220 Score: 135
Period size: 48 Copynumber: 2.7 Consensus size: 47
57275088 TGATATGTGC
* * *
57275098 GCCAATGTAAGA-ATGTCT-GGACATGCATCGACTTTGAG-ACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGAACGAGA
* * * *
57275142 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGA-ACGAGA
* *
57275190 GCTAGTGTAAGACAGGTCTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
57275221 AGCCACATCG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 11 0.17
45 6 0.09
46 17 0.26
48 32 0.48
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGAACGAGA
Done.