Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 108 of 378
Found at i:29924201 original size:2 final size:2
Alignment explanation
Indices: 29924194--29924221 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
29924184 GTAGCTAAAT
29924194 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29924222 CATAAACAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:29925155 original size:18 final size:18
Alignment explanation
Indices: 29925116--29925160 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
29925106 AGAGATTAGG
*
29925116 TTTTTTTCTTTTTCTTTA
1 TTTTTTTATTTTTCTTTA
29925134 TTTTTTTATTTTTC--TA
1 TTTTTTTATTTTTCTTTA
29925150 -TTTTTTATTTT
1 TTTTTTTATTTT
29925161 GGGTTGTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 11 0.42
16 2 0.08
18 13 0.50
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTTATTTTTCTTTA
Found at i:29927127 original size:45 final size:46
Alignment explanation
Indices: 29927039--29927133 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 46
29927029 GTAGTAGCAG
* *
29927039 ATGTGCACACATATGCGGCATTTTACTCAACAAAAACAACAACAAA
1 ATGTGCACACAAATGCGACATTTTACTCAACAAAAACAACAACAAA
* * *
29927085 ATGTGTACACAAATGCGACA-TTTACTCAACAAAAATAGCAACAAA
1 ATGTGCACACAAATGCGACATTTTACTCAACAAAAACAACAACAAA
29927130 ATGT
1 ATGT
29927134 TTATTACAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 27 0.61
46 17 0.39
ACGTcount: A:0.46, C:0.21, G:0.12, T:0.21
Consensus pattern (46 bp):
ATGTGCACACAAATGCGACATTTTACTCAACAAAAACAACAACAAA
Found at i:29939541 original size:25 final size:25
Alignment explanation
Indices: 29939513--29939562 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
29939503 TAAAAATTAA
29939513 CCCTTTTAATAAATATTTGGGAGTT
1 CCCTTTTAATAAATATTTGGGAGTT
29939538 CCCTTTTAATAAATATTTGGGAGTT
1 CCCTTTTAATAAATATTTGGGAGTT
29939563 TCAATCTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (25 bp):
CCCTTTTAATAAATATTTGGGAGTT
Found at i:29944583 original size:18 final size:18
Alignment explanation
Indices: 29944562--29944596 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29944552 TCCTTCTCAA
29944562 CTTCCTCGTCATCACTTC
1 CTTCCTCGTCATCACTTC
* *
29944580 CTTCCTCTTCTTCACTT
1 CTTCCTCGTCATCACTT
29944597 TCTTGCTCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.43, G:0.03, T:0.46
Consensus pattern (18 bp):
CTTCCTCGTCATCACTTC
Found at i:29950755 original size:582 final size:584
Alignment explanation
Indices: 29949643--29950791 Score: 1881
Period size: 582 Copynumber: 2.0 Consensus size: 584
29949633 CCTCTGGCTC
* *
29949643 TGTCACAACACTGAAGGCAATATGCTCCTTTTGAGTGCTTTGCTCATAATGTTGCAATATTGGCA
1 TGTCACAACACTGAAGGCAATATGCTCCTTTTGAGTGCTTTGCTCATAACGTTGCAACATTGGCA
* * * *
29949708 CTCTGTGTTGCAAAATTACAGCCAGTCTTGTATTCCTATGCCTCTGAATGCTGTCTTGCACACTC
66 CTCTGTGTTGCAAAATTACAGCCAATCTCGTATTCCTATGCCTCTGAATGATGTCCTGCACACTC
* *
29949773 ACTGAATATGTTACCCTTCCTTTAAGTCTATTTTGGCCCCTGAGGTCATATAAATGGTTTAAATT
131 ACTGAATATGTTACCCTTCCTTTAAGTCTATTTTGGCCCCTAAGGTCATATAAATGGTTCAAATT
* * *
29949838 GCAATTTTTTTTATTATTGATTACCTAAAGATGAAAACTAAGTGAAAACATATTTAAATAGATTT
196 ACAATTTTTTTTATTATTAATTACCTAAAGATGAAAACTAAGTGAAAACATAATTAAATAGATTT
* * *
29949903 AATATAAGCTCTTTAAGTATAGAAAATAATTTAATATGCTACAATGAATTGTGACAGATCAATGC
261 AATATAAGCTCTTTAAGTACAAAAAATAATTTAATATGATACAATGAATTGTGACAGATCAATGC
*
29949968 TCACAATCCTATGGCATGCCAATAATATCCAGTGGTTCCAAGAGATCACAATGCCAACATATCAC
326 TCACAATCCTATAGCATGCCAATAATATCCAGTGGTTCCAAGAGATCACAATGCCAACATATCAC
* *
29950033 TTGTATACACATTTACCTACTATTTTATGCACACTTTCACTTATCATATTCATATGTTCATAACA
391 TTATATACACATTTACCTACTATTTTATGCACACATTCACTTATCATATTCATATGTTCATAACA
*
29950098 ATTTGATATTCACTTATAATGCACTTTTCAAGTGCTCACAAAATTTCTTAAAAGGCCATATTCAC
456 ATTTGATATTAACTTATAATGCACTTTTCAAGTGCTCACAAAATTTCTTAAAAGGCCATATTCAC
*
29950163 TTTAAGTCACTATGGTGTGCCTAAAACCAGTAGTCCACTTAACATTCTCGATACCCTTTGACTG
521 TTTAAGTCACTATAGTGTGCCTAAAACCAGTAGTCCACTTAACATTCTCGATACCCTTTGACTG
*
29950227 TGTCACAACACTGAAGGCAATATGCTCCTTTTGAGTGCTTTGCTCATAACGTTGCAACATTGGTA
1 TGTCACAACACTGAAGGCAATATGCTCCTTTTGAGTGCTTTGCTCATAACGTTGCAACATTGGCA
* * *
29950292 CTCTGTGTTGCAAAATTGCAGCTAATCTCGTATTCTTATGCCTCTGAATGATGTCCTGCACACTC
66 CTCTGTGTTGCAAAATTACAGCCAATCTCGTATTCCTATGCCTCTGAATGATGTCCTGCACACTC
* * *
29950357 ATTGAATA-GTTACCCTTCCTTTAGGTCTATTTTGGCCCTTAAGGTCATATAAATGGTTCAAATT
131 ACTGAATATGTTACCCTTCCTTTAAGTCTATTTTGGCCCCTAAGGTCATATAAATGGTTCAAATT
* * *
29950421 ATAA-TTTTTTTATTATTAATTACCTAAAGATGAAAACTAAGTGAAAACATAATTAAATTGCTTT
196 ACAATTTTTTTTATTATTAATTACCTAAAGATGAAAACTAAGTGAAAACATAATTAAATAGATTT
* * *
29950485 AATATGAGCTCTTTAAGTACAAAAAATAGTTTAATATGATACAATGAATTGTGATAGATCAATGC
261 AATATAAGCTCTTTAAGTACAAAAAATAATTTAATATGATACAATGAATTGTGACAGATCAATGC
* * *
29950550 TCACAATCCTATAGCATGCTAATGATATCCAGTGGTTCCAAGAGATCACAATGCCAACATGTCAC
326 TCACAATCCTATAGCATGCCAATAATATCCAGTGGTTCCAAGAGATCACAATGCCAACATATCAC
29950615 TTATATACACATTTACCTACTATTTTATGCACACATTCACTTATCATATTCATATGTTCATAACA
391 TTATATACACATTTACCTACTATTTTATGCACACATTCACTTATCATATTCATATGTTCATAACA
* * * *
29950680 GTTTCG-TATTAACTTATAATGTACTTTTCAAGTGCTCACATAATTTCTTAAAATGCCATATTCA
456 ATTT-GATATTAACTTATAATGCACTTTTCAAGTGCTCACAAAATTTCTTAAAAGGCCATATTCA
* * * *
29950744 CTTTCAGTCACTATAGTGTGCGTAAGACTAGTAGTCCACTTAACATTC
520 CTTTAAGTCACTATAGTGTGCCTAAAACCAGTAGTCCACTTAACATTC
29950792 ACTGTCACAT
Statistics
Matches: 521, Mismatches: 43, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
582 339 0.65
583 55 0.11
584 127 0.24
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (584 bp):
TGTCACAACACTGAAGGCAATATGCTCCTTTTGAGTGCTTTGCTCATAACGTTGCAACATTGGCA
CTCTGTGTTGCAAAATTACAGCCAATCTCGTATTCCTATGCCTCTGAATGATGTCCTGCACACTC
ACTGAATATGTTACCCTTCCTTTAAGTCTATTTTGGCCCCTAAGGTCATATAAATGGTTCAAATT
ACAATTTTTTTTATTATTAATTACCTAAAGATGAAAACTAAGTGAAAACATAATTAAATAGATTT
AATATAAGCTCTTTAAGTACAAAAAATAATTTAATATGATACAATGAATTGTGACAGATCAATGC
TCACAATCCTATAGCATGCCAATAATATCCAGTGGTTCCAAGAGATCACAATGCCAACATATCAC
TTATATACACATTTACCTACTATTTTATGCACACATTCACTTATCATATTCATATGTTCATAACA
ATTTGATATTAACTTATAATGCACTTTTCAAGTGCTCACAAAATTTCTTAAAAGGCCATATTCAC
TTTAAGTCACTATAGTGTGCCTAAAACCAGTAGTCCACTTAACATTCTCGATACCCTTTGACTG
Found at i:29954570 original size:13 final size:13
Alignment explanation
Indices: 29954552--29954576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29954542 AACAAACTTT
29954552 CCCTTCCCTCTTA
1 CCCTTCCCTCTTA
29954565 CCCTTCCCTCTT
1 CCCTTCCCTCTT
29954577 CCTTGCCACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.56, G:0.00, T:0.40
Consensus pattern (13 bp):
CCCTTCCCTCTTA
Found at i:29964060 original size:33 final size:33
Alignment explanation
Indices: 29964018--29964267 Score: 140
Period size: 33 Copynumber: 7.7 Consensus size: 33
29964008 CTCGAGGTGC
*
29964018 ACATTCCCTTTTCAAGTGGTACACACAAAGAGT
1 ACATTTCCTTTTCAAGTGGTACACACAAAGAGT
** * * * * * *
29964051 ACATACCCTTTTCAATTTGTAGACTCAAAGTGC
1 ACATTTCCTTTTCAAGTGGTACACACAAAGAGT
* ** * ** *
29964084 ATATAACCTTTTCAAAT-GTACACGTATAA-TGT
1 ACATTTCCTTTTCAAGTGGTACACACA-AAGAGT
* *
29964116 ACCTTTCCTTTTCAAGTGGTATACACAAAGTA-T
1 ACATTTCCTTTTCAAGTGGTACACACAAAG-AGT
* *
29964149 ACATTTCCTTTTCATA-TGGTATACTCAAAGTA-T
1 ACATTTCCTTTTCA-AGTGGTACACACAAAG-AGT
* *
29964182 ACATTTCC-TTTCATA-TGATATACACAAAGTA-T
1 ACATTTCCTTTTCA-AGTGGTACACACAAAG-AGT
* *
29964214 ACCTTTCCTTTTCAAGT-GTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGGTACACACAAAGAGT
** *
29964246 ACATAACCTTTTCAAGTTGTAC
1 ACATTTCCTTTTCAAGTGGTAC
29964268 CATTTGGGTA
Statistics
Matches: 174, Mismatches: 34, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
32 77 0.44
33 96 0.55
34 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (33 bp):
ACATTTCCTTTTCAAGTGGTACACACAAAGAGT
Found at i:29964126 original size:98 final size:98
Alignment explanation
Indices: 29964024--29964266 Score: 253
Period size: 98 Copynumber: 2.5 Consensus size: 98
29964014 GTGCACATTC
* * *
29964024 CCTTTTCAAGTGGTACACACAAAGAGTACATACCCTTTTCAATTTGTAGACTCAAAGTGCATATA
1 CCTTTTCAAGTGGTACACACAAAGAGTACATAACCTTTTCAATTTGTAGACTCAAAGTACACATA
** *
29964089 ACCTTTTCAAATG-TACACGTATAA-TGTACCTTT
66 ACC-TTTCAAATGATACACACA-AAGTATACCTTT
* ** * * *
29964122 CCTTTTCAAGTGGTATACACAAAGTA-TACATTTCCTTTTC-ATATGGTATACTCAAAGTATACA
1 CCTTTTCAAGTGGTACACACAAAG-AGTACATAACCTTTTCAAT-TTGTAGACTCAAAGTACACA
** * *
29964185 TTTCCTTTCATATGATATACACAAAGTATACCTTT
64 TAACCTTTCAAATGATACACACAAAGTATACCTTT
* *
29964220 CCTTTTCAAGT-GTACACACAAAGTGTACATAACCTTTTCAAGTTGTA
1 CCTTTTCAAGTGGTACACACAAAGAGTACATAACCTTTTCAATTTGTA
29964267 CCATTTGGGT
Statistics
Matches: 118, Mismatches: 21, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
97 39 0.33
98 78 0.66
99 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.36
Consensus pattern (98 bp):
CCTTTTCAAGTGGTACACACAAAGAGTACATAACCTTTTCAATTTGTAGACTCAAAGTACACATA
ACCTTTCAAATGATACACACAAAGTATACCTTT
Found at i:29964204 original size:32 final size:32
Alignment explanation
Indices: 29964135--29964249 Score: 144
Period size: 32 Copynumber: 3.6 Consensus size: 32
29964125 TTTCAAGTGG
*
29964135 TATACACAAAGTATACATTTCCTTTTCATATGG
1 TATACACAAAGTATACATTTCC-TTTCATATGA
*
29964168 TATACTCAAAGTATACATTTCCTTTCATATGA
1 TATACACAAAGTATACATTTCCTTTCATATGA
*
29964200 TATACACAAAGTATACCTTTCCTTTTCA-AGTG-
1 TATACACAAAGTATACATTTCC-TTTCATA-TGA
* *
29964232 TACACACAAAGTGTACAT
1 TATACACAAAGTATACAT
29964250 AACCTTTTCA
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
32 45 0.62
33 28 0.38
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.37
Consensus pattern (32 bp):
TATACACAAAGTATACATTTCCTTTCATATGA
Found at i:29964259 original size:65 final size:64
Alignment explanation
Indices: 29964024--29964259 Score: 180
Period size: 65 Copynumber: 3.6 Consensus size: 64
29964014 GTGCACATTC
* * * * *
29964024 CCTTTTCAAGTGGTACACACAAAGAGTACATACCCTTTTCAATTTGTAGACTCAAAGTGCATA-T
1 CCTTTTCAAGTGGTACACACAAAGTGTACATATCCTTTTC-ATATGTATACACAAAGT--ATACT
**
29964088 AA
63 TT
* ** * *
29964090 CCTTTTCAAAT-GTACACGTATAA-TGTACCTTTCCTTTTCA-AGTGGTATACACAAAGTATACA
1 CCTTTTCAAGTGGTACACACA-AAGTGTACATATCCTTTTCATA-T-GTATACACAAAGTATAC-
29964152 TTT
62 TTT
* * * *
29964155 CCTTTTCATA-TGGTATACTCAAAGTATACATTTCC-TTTCATATGATATACACAAAGTATACCT
1 CCTTTTCA-AGTGGTACACACAAAGTGTACATATCCTTTTCATATG-TATACACAAAGTATA-CT
29964218 TT
63 TT
*
29964220 CCTTTTCAAGT-GTACACACAAAGTGTACATAACCTTTTCA
1 CCTTTTCAAGTGGTACACACAAAGTGTACATATCCTTTTCA
29964260 AGTTGTACCA
Statistics
Matches: 135, Mismatches: 22, Indels: 27
0.73 0.12 0.15
Matches are distributed among these distances:
63 3 0.02
64 22 0.16
65 80 0.59
66 30 0.22
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.36
Consensus pattern (64 bp):
CCTTTTCAAGTGGTACACACAAAGTGTACATATCCTTTTCATATGTATACACAAAGTATACTTT
Found at i:29970634 original size:15 final size:13
Alignment explanation
Indices: 29970605--29970631 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
29970595 GCTCGGCAAG
29970605 GACACGCCCGTGT
1 GACACGCCCGTGT
29970618 GACACGCCCGTGT
1 GACACGCCCGTGT
29970631 G
1 G
29970632 TGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:29979412 original size:39 final size:39
Alignment explanation
Indices: 29979294--29979476 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
29979284 TCGTTCAAAC
* * ** * **
29979294 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
29979334 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
29979374 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
*
29979413 GCCTTCGGGCTTAGCCCAGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
29979452 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
29979477 CTCGAACATT
Statistics
Matches: 124, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 86 0.69
40 38 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:29983347 original size:32 final size:33
Alignment explanation
Indices: 29983311--29983471 Score: 182
Period size: 33 Copynumber: 4.9 Consensus size: 33
29983301 GTGCACATAA
* * * * *
29983311 CCTTTTCAAAT-GTACACATATAGTGTACCTTT
1 CCTTTTCAAATGGTATACACAAAGTATACATTT
*
29983343 CCTTTTCAAGTGGTATACACAAAGTATACATTT
1 CCTTTTCAAATGGTATACACAAAGTATACATTT
* *
29983376 TCTTTTCATATGGTATACACAAAGTATACATTT
1 CCTTTTCAAATGGTATACACAAAGTATACATTT
* * *
29983409 CCATTTCATATGGTATACACAAAGTATACCTTT
1 CCTTTTCAAATGGTATACACAAAGTATACATTT
* * *
29983442 CCTTTTCAAGT-GTACACACAAAGTGTACAT
1 CCTTTTCAAATGGTATACACAAAGTATACAT
29983472 AACTTTTTCA
Statistics
Matches: 110, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
32 26 0.24
33 84 0.76
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (33 bp):
CCTTTTCAAATGGTATACACAAAGTATACATTT
Found at i:29983381 original size:99 final size:100
Alignment explanation
Indices: 29983244--29983489 Score: 229
Period size: 98 Copynumber: 2.5 Consensus size: 100
29983234 GTGCACATTC
* * *
29983244 CCTTTTCAAGTGGTACACACGAAATGTAT--A-TACCCTTTTTCAATTTGTACACTCAAAGTGCA
1 CCTTTTCAAGTGGTACACAC-AAA-GTATACATTA-ACTTTTTCAATTTGTACACACAAAGTACA
* * * *
29983306 CATAACCTTTTCAAAT-GTACACATATAGTGTACCTTT
63 CATAACCATTTCAAATGGTACACACAAAGTATACCTTT
* ** * * *
29983343 CCTTTTCAAGTGGTATACACAAAGTATACATTTTC-TTTTC-ATATGGTATACACAAAGTATACA
1 CCTTTTCAAGTGGTACACACAAAGTATACATTAACTTTTTCAAT-TTGTACACACAAAGTACACA
** * *
29983406 TTTCCATTTCATATGGTATACACAAAGTATACCTTT
65 TAACCATTTCAAATGGTACACACAAAGTATACCTTT
* *
29983442 CCTTTTCAAGT-GTACACACAAAGTGTACA-TAACTTTTTCAAGTTGTAC
1 CCTTTTCAAGTGGTACACACAAAGTATACATTAACTTTTTCAATTTGTAC
29983490 CATTTGGGTA
Statistics
Matches: 117, Mismatches: 23, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
97 8 0.07
98 58 0.50
99 50 0.43
100 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (100 bp):
CCTTTTCAAGTGGTACACACAAAGTATACATTAACTTTTTCAATTTGTACACACAAAGTACACAT
AACCATTTCAAATGGTACACACAAAGTATACCTTT
Found at i:29983480 original size:32 final size:33
Alignment explanation
Indices: 29983244--29983489 Score: 178
Period size: 33 Copynumber: 7.5 Consensus size: 33
29983234 GTGCACATTC
* *
29983244 CCTTTTCAAGTGGTACACACGAAA-TGTATATAC
1 CCTTTTCAAGTGGTACACAC-AAAGTGTACATAT
* * * * *
29983277 CCTTTTTCAATTTGTACACTCAAAGTGCACATAA
1 CC-TTTTCAAGTGGTACACACAAAGTGTACATAT
* * * * *
29983311 CCTTTTCAAAT-GTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGGTACACACAAAGTGTACATAT
* * *
29983343 CCTTTTCAAGTGGTATACACAAAGTATACATTT
1 CCTTTTCAAGTGGTACACACAAAGTGTACATAT
* * * *
29983376 TCTTTTCATA-TGGTATACACAAAGTATACATTT
1 CCTTTTCA-AGTGGTACACACAAAGTGTACATAT
* * * * *
29983409 CCATTTCATA-TGGTATACACAAAGTATACCTTT
1 CCTTTTCA-AGTGGTACACACAAAGTGTACATAT
*
29983442 CCTTTTCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGGTACACACAAAGTGTACATAT
* *
29983474 CTTTTTCAAGTTGTAC
1 CCTTTTCAAGTGGTAC
29983490 CATTTGGGTA
Statistics
Matches: 176, Mismatches: 31, Indels: 12
0.80 0.14 0.05
Matches are distributed among these distances:
32 51 0.29
33 101 0.57
34 24 0.14
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACACAAAGTGTACATAT
Found at i:29983748 original size:37 final size:37
Alignment explanation
Indices: 29983689--29983773 Score: 134
Period size: 37 Copynumber: 2.3 Consensus size: 37
29983679 CATGTAAATC
*
29983689 ACAAATCAAGATTGACTTATTACATGTACATACCAATT
1 ACAAATC-ATATTGACTTATTACATGTACATACCAATT
* *
29983727 ACAAATCATATTGACTTATTACATGTGCATACCATTT
1 ACAAATCATATTGACTTATTACATGTACATACCAATT
29983764 ACAAATCATA
1 ACAAATCATA
29983774 ATGCACAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
37 37 0.84
38 7 0.16
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (37 bp):
ACAAATCATATTGACTTATTACATGTACATACCAATT
Found at i:29984253 original size:21 final size:22
Alignment explanation
Indices: 29984207--29984254 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
29984197 TGTAAAAGTG
**
29984207 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAATAAAATTTC
29984229 ATTT-TCTATCAA-AAAATTTC
1 ATTTATCTATCAATAAAATTTC
29984249 AATTTA
1 -ATTTA
29984255 CAGCATATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 6 0.27
21 12 0.55
22 4 0.18
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTATCTATCAATAAAATTTC
Found at i:29990369 original size:25 final size:24
Alignment explanation
Indices: 29990321--29990513 Score: 214
Period size: 25 Copynumber: 8.0 Consensus size: 24
29990311 GCTTTACCAT
*
29990321 ATAACTGGAGGCCT-AGCCTCTTTT-
1 ATAACTGG-GGCATAAGCC-CTTTTC
* * *
29990345 AGTAACTGGGGCAAAAACCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTC
*
29990370 ATAATTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
*
29990395 ATAACTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
29990420 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
*
29990445 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
* *
29990468 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
*
29990491 ATAATTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
29990514 GCACTTCCTT
Statistics
Matches: 148, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
23 40 0.27
24 32 0.22
25 76 0.51
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTC
Found at i:29990585 original size:9 final size:9
Alignment explanation
Indices: 29990571--29990627 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
29990561 ATCTCATGTG
29990571 CATATCATA
1 CATATCATA
*
29990580 CATATCATGTG
1 CATATCA--TA
29990591 CATATCATA
1 CATATCATA
* *
29990600 CATGTCATGTG
1 CATATCA--TA
29990611 CATATCATA
1 CATATCATA
29990620 CATATCAT
1 CATATCAT
29990628 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:29990587 original size:20 final size:20
Alignment explanation
Indices: 29990559--29990629 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
29990549 GCATTTATGA
*
29990559 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
29990579 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
29990599 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
29990619 ACATATCATGT
1 ACATATCATGT
29990630 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:29990594 original size:11 final size:11
Alignment explanation
Indices: 29990564--29990618 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
29990554 TATGAACATC
29990564 TCATGTGCATA
1 TCATGTGCATA
*
29990575 TCA--TACATA
1 TCATGTGCATA
29990584 TCATGTGCATA
1 TCATGTGCATA
* *
29990595 TCA--TACATG
1 TCATGTGCATA
29990604 TCATGTGCATA
1 TCATGTGCATA
29990615 TCAT
1 TCAT
29990619 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:29990693 original size:25 final size:25
Alignment explanation
Indices: 29990665--29990712 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
29990655 CATATTAAAC
* * *
29990665 CCTAGAGGTATAATGGTCATTTTTA
1 CCTAGAGGCAAAACGGTCATTTTTA
*
29990690 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGAGGCAAAACGGTCATTTT
29990713 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (25 bp):
CCTAGAGGCAAAACGGTCATTTTTA
Found at i:29991901 original size:27 final size:26
Alignment explanation
Indices: 29991871--29991948 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
29991861 AGGCATATTC
29991871 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
*
29991898 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAGGGG-TATTACG
* *
29991925 GTCTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCT-ACAGGGGTATT
29991949 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.09
27 36 0.84
28 3 0.07
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:29992137 original size:54 final size:54
Alignment explanation
Indices: 29992079--29992218 Score: 174
Period size: 54 Copynumber: 2.6 Consensus size: 54
29992069 TGTAAATCAG
29992079 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
* * * * * *
29992133 GGGTATTTTGATAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGATAATTTCACAAACCAA
* ** *
29992187 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
29992219 AAATAGTAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
53 1 0.01
54 70 0.97
55 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
Found at i:29992216 original size:27 final size:27
Alignment explanation
Indices: 29991966--29992264 Score: 142
Period size: 27 Copynumber: 11.0 Consensus size: 27
29991956 TTTCATCCTA
* * * * * *
29991966 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * * *
29991993 CAAGGGTATTTCAGTAATTTTGTTAAG
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
29992020 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-T
* *
29992049 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAT
* * *
29992076 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
** * * * *
29992103 TGAGGGTA-TTTCGATAATTTCACAAAC
1 CAAGGGTATTTTAG-TAATTTTATAAAT
*
29992130 CAAGGGTATTTT-GATAATTTTACAAA-
1 CAAGGGTATTTTAG-TAATTTTATAAAT
* * *
29992156 CTAGGGGTATTTTGGTAATTTTACAAA-
1 C-AAGGGTATTTTAGTAATTTTATAAAT
*
29992183 CTAAGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTTAGTAATTTTATAAAT
* *** * *
29992211 CGAGGGTAAAATAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
*** *
29992238 CAAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
29992265 TGAGGGTAAA
Statistics
Matches: 218, Mismatches: 44, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.03
27 179 0.82
28 18 0.08
29 15 0.07
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAT
Found at i:29992243 original size:54 final size:54
Alignment explanation
Indices: 29992197--29992399 Score: 250
Period size: 54 Copynumber: 3.8 Consensus size: 54
29992187 GGGTATTTTA
* *
29992197 GTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTTTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATCAAGGGTAAAATG
* * * * *
29992251 GTAATTCTATAAATTGAGGGTAAAACTG-TAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAAC-GATAATTCTGTAAATCAAGGGTAAAATG
* * * * *
29992305 GTAATTTTGTAAGTCAAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAATG
*
29992359 GTAATTATGTAAATCG-GGGTAAAACGATAATTCTGTAAATC
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATC
29992400 GGGGGTACTT
Statistics
Matches: 127, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
53 25 0.20
54 102 0.80
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (54 bp):
GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAATG
Found at i:29992245 original size:81 final size:81
Alignment explanation
Indices: 29992170--29992399 Score: 218
Period size: 81 Copynumber: 2.9 Consensus size: 81
29992160 GGGTATTTTG
* *** * *
29992170 GTAATTTTACAAACTAAGGGT-ATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTCTACAAACTAAGGGTAAAACT-GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGT
29992234 AAATCAAGGGTAAAATA
65 AAATCAAGGGTAAAATA
* * * * *
29992251 GTAATTCTATAAATTGAGGGTAAAACTGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTA
1 GTAATTCTACAAACTAAGGGTAAAACTGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
* *
29992316 AGTCAAGGGTAAAA-C
66 AATCAAGGGTAAAATA
* ** * * *
29992331 GATAATTATGTAAA-TCAGGGGTAAAACGGTAATTATGTAAATCG-GGGTAAAAC-GATAATTCT
1 G-TAATTCTACAAACT-AAGGGTAAAACTGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCT
29992393 GTAAATC
63 GTAAATC
29992400 GGGGGTACTT
Statistics
Matches: 124, Mismatches: 21, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
79 1 0.01
80 23 0.19
81 98 0.79
82 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (81 bp):
GTAATTCTACAAACTAAGGGTAAAACTGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
AATCAAGGGTAAAATA
Found at i:29992270 original size:27 final size:27
Alignment explanation
Indices: 29992195--29992406 Score: 209
Period size: 27 Copynumber: 7.9 Consensus size: 27
29992185 AAGGGTATTT
*
29992195 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
29992222 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
29992249 TAGTAATTCTATAAATTGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
29992276 CT-GTAATTCTGTAAATCGAGGGTAAAA
1 -TAGTAATTCTGTAAATCGAGGGTAAAA
** * * *
29992303 CGGTAATTTTGTAAGTCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
29992330 -CGATAATTATGTAAATC-AGGGGTAAAA
1 TAG-TAATTCTGTAAATCGA-GGGTAAAA
** *
29992357 CGGTAATTATGTAAATCG-GGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
29992383 -CGATAATTCTGTAAATCGGGGGTA
1 TAG-TAATTCTGTAAATCGAGGGTA
29992407 CTTTGGTAAT
Statistics
Matches: 160, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
25 1 0.01
26 24 0.15
27 133 0.83
28 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:29992433 original size:27 final size:27
Alignment explanation
Indices: 29992412--29992501 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
29992402 GGGTACTTTG
*
29992412 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
29992439 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
29992466 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
29992493 GTAATTTTA
1 GTAATTTTA
29992502 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:29992460 original size:54 final size:54
Alignment explanation
Indices: 29992395--29992501 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
29992385 ATAATTCTGT
* * *
29992395 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
29992449 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
29992502 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:29992515 original size:27 final size:27
Alignment explanation
Indices: 29992412--29992516 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
29992402 GGGTACTTTG
* *
29992412 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
29992439 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
29992466 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
29992493 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
29992517 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:29995445 original size:40 final size:40
Alignment explanation
Indices: 29995400--29995567 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
29995390 CGGAATATAA
29995400 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
29995440 CCGGATAAAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
29995480 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
29995520 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
29995560 CCGGATAT
1 CCGGATAT
29995568 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:30002622 original size:27 final size:27
Alignment explanation
Indices: 30002522--30002710 Score: 195
Period size: 26 Copynumber: 7.3 Consensus size: 27
30002512 CANTAATTAA
* *
30002522 TGTAAATCG-GGGTAAAAC-G-ATTTA
1 TGTAAATCGAGGGTAAAACGGTAATTC
* *
30002546 TGTAAATTGGGGGTAAAACGGTAATTC
1 TGTAAATCGAGGGTAAAACGGTAATTC
**
30002573 TGTAAATCGA-GGTAAAATAGTAATTC
1 TGTAAATCGAGGGTAAAACGGTAATTC
30002599 TGTAAA-CTGAGGGTAAAACGGTAA-TC
1 TGTAAATC-GAGGGTAAAACGGTAATTC
30002625 TGTAAATCG-GGGTAAAA-GG-AATTC
1 TGTAAATCGAGGGTAAAACGGTAATTC
30002649 T-TACAATCGAGGGTAAAAC-GTAATTC
1 TGTA-AATCGAGGGTAAAACGGTAATTC
* *
30002675 TAT-AACCTGAGGGTAAAACGGTAATTC
1 TGTAAATC-GAGGGTAAAACGGTAATTC
30002702 TGTAAATCG
1 TGTAAATCG
30002711 GGAGTACTTT
Statistics
Matches: 138, Mismatches: 12, Indels: 27
0.78 0.07 0.15
Matches are distributed among these distances:
23 4 0.03
24 18 0.13
25 30 0.22
26 49 0.36
27 34 0.25
28 3 0.02
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.28
Consensus pattern (27 bp):
TGTAAATCGAGGGTAAAACGGTAATTC
Found at i:30002675 original size:76 final size:79
Alignment explanation
Indices: 30002546--30002712 Score: 236
Period size: 76 Copynumber: 2.1 Consensus size: 79
30002536 AAACGATTTA
* *
30002546 TGTAAATTGGGGGTAAAACGGTAATTCTGTAAATCGAGGTAAAATAGTAATTCTGTAAACTGAGG
1 TGTAAA-TCGGGGTAAAACGGTAATTCTGTAAATCGAGGTAAAATAGTAATTCTATAAACTGAGG
30002611 GTAAAACGGTAA-TC
65 GTAAAACGGTAATTC
* *
30002625 TGTAAATCGGGGTAAAA-GG-AATTCT-TACAATCGAGGGTAAAA-CGTAATTCTATAACCTGAG
1 TGTAAATCGGGGTAAAACGGTAATTCTGTA-AATCGA-GGTAAAATAGTAATTCTATAAACTGAG
30002686 GGTAAAACGGTAATTC
64 GGTAAAACGGTAATTC
30002702 TGTAAATCGGG
1 TGTAAATCGGG
30002713 AGTACTTTGG
Statistics
Matches: 81, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
75 2 0.02
76 41 0.51
77 22 0.27
78 10 0.12
79 6 0.07
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (79 bp):
TGTAAATCGGGGTAAAACGGTAATTCTGTAAATCGAGGTAAAATAGTAATTCTATAAACTGAGGG
TAAAACGGTAATTC
Found at i:30002701 original size:103 final size:103
Alignment explanation
Indices: 30002522--30002707 Score: 243
Period size: 103 Copynumber: 1.8 Consensus size: 103
30002512 CANTAATTAA
* * * *
30002522 TGTAAATCGGGGTAAAACGATTTATGTAAATTGGGGGTAAAACGGTAATTCTGTAAATCGAGGTA
1 TGTAAATCGGGGTAAAACGAATTATGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGTA
*
30002587 AAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATC
66 AAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATC
* * *
30002625 TGTAAATCGGGGTAAAAGGAATTCT-TACAATCGAGGGTAAAAC-GTAATTCTAT-AACCTGAGG
1 TGTAAATCGGGGTAAAACGAATTATGTA-AATCGAGGGTAAAACGGTAATTCTATAAATC-GA-G
*
30002687 GTAAAACGGTAATTCTGTAAA
63 GTAAAACAGTAATTCTGTAAA
30002708 TCGGGAGTAC
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
101 3 0.04
102 13 0.18
103 55 0.77
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.27
Consensus pattern (103 bp):
TGTAAATCGGGGTAAAACGAATTATGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGTA
AAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATC
Found at i:30005562 original size:31 final size:31
Alignment explanation
Indices: 30005521--30005584 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
30005511 CCTTTTCATA
*
30005521 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
30005552 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
30005583 TT
1 TT
30005585 ACGTAAACGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:30005878 original size:24 final size:24
Alignment explanation
Indices: 30005776--30005942 Score: 220
Period size: 24 Copynumber: 7.1 Consensus size: 24
30005766 GCTTTATCAT
* *
30005776 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
*
30005801 ATAACTGGGGCAAAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
*
30005824 TTAACTGGGGCATAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTG
*
30005846 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
30005870 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
30005894 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTG
30005918 ATAACTGGGG--TAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
30005940 ATA
1 ATA
30005943 CTTCCTCCAT
Statistics
Matches: 130, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
22 34 0.26
23 20 0.15
24 64 0.49
25 12 0.09
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:30005909 original size:70 final size:70
Alignment explanation
Indices: 30005775--30005942 Score: 236
Period size: 70 Copynumber: 2.4 Consensus size: 70
30005765 TGCTTTATCA
* * *
30005775 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTTAACTGGGGCATAA
1 TATAACTGG-GGCGTAAGCC-CTTTTGATAACTGGGGCAAAAGCCCTTTTATAACTGGGGCATAA
30005839 GCCC-TT
64 GCCCTTT
*
30005845 TATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTT-ATAACTGGGGCATAAG
30005910 CCCTTT
65 CCCTTT
30005916 TAATAACT-GGG-GTAAGCCCTTTTGATA
1 T-ATAACTGGGGCGTAAGCCCTTTTGATA
30005943 CTTCCTCCAT
Statistics
Matches: 90, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
69 31 0.34
70 47 0.52
71 6 0.07
72 6 0.07
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (70 bp):
TATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTATAACTGGGGCATAAGC
CCTTT
Found at i:30006011 original size:9 final size:9
Alignment explanation
Indices: 30005997--30006053 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
30005987 ATCTCGTGTG
30005997 CATATCATA
1 CATATCATA
*
30006006 CATATCATGTG
1 CATATCA--TA
30006017 CATATCATA
1 CATATCATA
* *
30006026 CATGTCATGTG
1 CATATCA--TA
30006037 CATATCATA
1 CATATCATA
30006046 CATATCAT
1 CATATCAT
30006054 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:30006016 original size:20 final size:20
Alignment explanation
Indices: 30005993--30006055 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
30005983 GAACATCTCG
30005993 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
30006013 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
30006033 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
30006053 TGT
1 TGT
30006056 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:30006138 original size:25 final size:25
Alignment explanation
Indices: 30006092--30006139 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
30006082 ATATATAAAC
* * * *
30006092 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
30006117 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
30006140 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:30007324 original size:27 final size:27
Alignment explanation
Indices: 30007294--30007371 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
30007284 AGGCATATTC
30007294 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
*
30007321 GTCACTTTACCCA-ACAGGGGCT-TTACG
1 GTCATTTTA-CCATACAGGGG-TATTACG
* *
30007348 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
30007372 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
26 3 0.07
27 35 0.83
28 4 0.10
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:30007474 original size:54 final size:54
Alignment explanation
Indices: 30007427--30007767 Score: 375
Period size: 54 Copynumber: 6.3 Consensus size: 54
30007417 AAGGGTATTT
* * *
30007427 CAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTGAAA
1 CAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
* * * * *
30007481 CAGTAATTCTATAAATCGAGGGTAAAATGGCAATTCTGTAAATTGAGGGTAAAA
1 CAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
* * * * *
30007535 CGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCGGGGGTAAAA
1 CAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
* * * * * *
30007589 CGGTAATTATGTAAATTGGGGGTAAAACGATAATTCTATAAATCGAGGGTAAAA
1 CAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
* * *
30007643 TAGTAA-TTTGTAAA-CTGATGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAA
1 CAGTAATTTTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
** * *
30007696 C-GATAATTTTACAAATCGAGGGTAAAACGGTAATTCTAT-AACCTGAGGGTAAAA
1 CAG-TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAA
* *
30007750 CGGTAATTCTGTAAATCG
1 CAGTAATTTTGTAAATCG
30007768 GGAGTACTTT
Statistics
Matches: 240, Mismatches: 41, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
52 1 0.00
53 44 0.18
54 193 0.80
55 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (54 bp):
CAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:30007529 original size:81 final size:82
Alignment explanation
Indices: 30007429--30007765 Score: 418
Period size: 81 Copynumber: 4.2 Consensus size: 82
30007419 GGGTATTTCA
* * * * *
30007429 GTAATTTTGTAAATCGAGGGTAAAAC-AGTAATTCTGTAAATCAAGGGTGAAACAGTAATTCTAT
1 GTAATTCTGTAAATTGAGGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAACAGTAATTCTAT
*
30007493 AAATC-GAGGGTAAAATG
65 AAATCTGAGGGTAAAACG
* * * * *
30007510 GCAATTCTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGT
1 GTAATTCTGTAAATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACAG-TAATTCTAT
*
30007574 AAATC-GGGGGTAAAACG
65 AAATCTGAGGGTAAAACG
* * * *
30007591 GTAATTATGTAAATTGGGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAGTAATT-TGTA
1 GTAATTCTGTAAATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
*
30007655 AA-CTGATGGTAAAACG
66 AATCTGAGGGTAAAACG
* * *
30007671 GTAATTCTGTAAATTGAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTAT-
1 GTAATTCTGTAAATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
*
30007735 AACCTGAGGGTAAAACG
66 AATCTGAGGGTAAAACG
30007752 GTAATTCTGTAAAT
1 GTAATTCTGTAAAT
30007766 CGGGAGTACT
Statistics
Matches: 224, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
79 1 0.00
80 73 0.33
81 149 0.67
82 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (82 bp):
GTAATTCTGTAAATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
AATCTGAGGGTAAAACG
Found at i:30007665 original size:26 final size:27
Alignment explanation
Indices: 30007427--30007764 Score: 268
Period size: 27 Copynumber: 12.6 Consensus size: 27
30007417 AAGGGTATTT
*
30007427 CAGTAATTTTGTAAA-TCGAGGGTAAAA
1 CAGTAATTCTGTAAACT-GAGGGTAAAA
* *
30007454 CAGTAATTCTGTAAA-TCAAGGGTGAAA
1 CAGTAATTCTGTAAACT-GAGGGTAAAA
*
30007481 CAGTAATTCTATAAA-TCGAGGGTAAAA
1 CAGTAATTCTGTAAACT-GAGGGTAAAA
** * *
30007508 TGGCAATTCTGTAAATTGAGGGTAAAA
1 CAGTAATTCTGTAAACTGAGGGTAAAA
*
30007535 CGGTAATTCTGTAAA-TCGAGGGTAAAA
1 CAGTAATTCTGTAAACT-GAGGGTAAAA
* *
30007562 C-GATAATTATGTAAA-TCGGGGGTAAAA
1 CAG-TAATTCTGTAAACT-GAGGGTAAAA
* * * *
30007589 CGGTAATTATGTAAATTGGGGGTAAAA
1 CAGTAATTCTGTAAACTGAGGGTAAAA
*
30007616 C-GATAATTCTATAAA-TCGAGGGTAAAA
1 CAG-TAATTCTGTAAACT-GAGGGTAAAA
* *
30007643 TAGTAATT-TGTAAACTGATGGTAAAA
1 CAGTAATTCTGTAAACTGAGGGTAAAA
* *
30007669 CGGTAATTCTGTAAATTGAGGGTAAAA
1 CAGTAATTCTGTAAACTGAGGGTAAAA
*
30007696 C-GATAATT-T-TACAAATCGAGGGTAAAA
1 CAG-TAATTCTGTA-AACT-GAGGGTAAAA
* * *
30007723 CGGTAATTCTATAACCTGAGGGTAAAA
1 CAGTAATTCTGTAAACTGAGGGTAAAA
*
30007750 CGGTAATTCTGTAAA
1 CAGTAATTCTGTAAA
30007765 TCGGGAGTAC
Statistics
Matches: 266, Mismatches: 29, Indels: 32
0.81 0.09 0.10
Matches are distributed among these distances:
25 2 0.01
26 29 0.11
27 225 0.85
28 8 0.03
29 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
CAGTAATTCTGTAAACTGAGGGTAAAA
Found at i:30007817 original size:134 final size:134
Alignment explanation
Indices: 30007439--30007767 Score: 374
Period size: 134 Copynumber: 2.4 Consensus size: 134
30007429 GTAATTTTGT
* * * * *
30007439 AAATCGAGGGTAAAACAGTAATTCTGTAAA-TCAAGGGTGAAAC-AGTAATTCTATAAATCGAGG
1 AAATCGAGGGTAAAACGGTAATTATATAAACT-GAGGGTAAAACGA-TAATTCTATAAATCGAGG
* * * * * *
30007502 GTAAAATGGCAATTCTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATA
64 GTAAAATAGTAATT-TGTAAACTGAGGGCAAAACAGTAATTCGGTAAATCGAGGGTAAAACGATA
**
30007567 ATTATGT
128 ATTATAC
* * * *
30007574 AAATCGGGGGTAAAACGGTAATTATGTAAATTGGGGGTAAAACGATAATTCTATAAATCGAGGGT
1 AAATCGAGGGTAAAACGGTAATTATATAAACTGAGGGTAAAACGATAATTCTATAAATCGAGGGT
* * * * *
30007639 AAAATAGTAATTTGTAAACTGATGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACGATAATT
66 AAAATAGTAATTTGTAAACTGAGGGCAAAACAGTAATTCGGTAAATCGAGGGTAAAACGATAATT
*
30007704 TTAC
131 ATAC
* * * *
30007708 AAATCGAGGGTAAAACGGTAATTCTATAACCTGAGGGTAAAACGGTAATTCTGTAAATCG
1 AAATCGAGGGTAAAACGGTAATTATATAAACTGAGGGTAAAACGATAATTCTATAAATCG
30007768 GGAGTACTTT
Statistics
Matches: 170, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
134 103 0.61
135 65 0.38
136 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (134 bp):
AAATCGAGGGTAAAACGGTAATTATATAAACTGAGGGTAAAACGATAATTCTATAAATCGAGGGT
AAAATAGTAATTTGTAAACTGAGGGCAAAACAGTAATTCGGTAAATCGAGGGTAAAACGATAATT
ATAC
Found at i:30008981 original size:26 final size:27
Alignment explanation
Indices: 30008952--30009027 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
30008942 TCAAAATAAC
* *
30008952 CCTAGGGGTATAACAGTAATTTTGC-A
1 CCTAGGGGTATAATAGTAATTTTCCAA
30008978 CCTAGGGGTATAATAGTAATTTTCCATA
1 CCTAGGGGTATAATAGTAATTTTCCA-A
* *
30009006 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
30009028 AACTACTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 23 0.52
28 21 0.48
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCCAA
Found at i:30010502 original size:26 final size:26
Alignment explanation
Indices: 30010472--30010553 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
30010462 TGAAATTCCC
30010472 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30010498 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30010524 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30010550 ATCA
1 ATCA
30010554 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:30011538 original size:14 final size:14
Alignment explanation
Indices: 30011519--30011552 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30011509 GTGTAAATAT
*
30011519 GCAAAAGCTTAGGG
1 GCAAAAGCTTAAGG
*
30011533 GCAAAAGTTTAAGG
1 GCAAAAGCTTAAGG
30011547 GCAAAA
1 GCAAAA
30011553 TCGTACTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.29, T:0.15
Consensus pattern (14 bp):
GCAAAAGCTTAAGG
Found at i:30012090 original size:53 final size:53
Alignment explanation
Indices: 30011909--30012115 Score: 182
Period size: 53 Copynumber: 3.8 Consensus size: 53
30011899 ATTAGGGTTT
* * * *
30011909 AAGGATACCATGTATGACCATGCCAAGACATGGCACTGGTAAGTT-TTACAAGGA
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCGT--AAGGA
* * * * * * * *
30011963 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGA
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCG-TAAGGA
** * * * *
30012018 AAAAATCCCACGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCGTAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCGTAAGGA
* * *
30012071 AAGGATACCACGTAAGACCATGTCAAGACGTGGAAATGGTAAGTT
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
30012116 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 31, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
53 42 0.35
54 38 0.32
55 38 0.32
57 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.20
Consensus pattern (53 bp):
AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCGTAAGGA
Found at i:30017036 original size:14 final size:14
Alignment explanation
Indices: 30017015--30017048 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
30017005 GTGTAAATAT
30017015 GCAAAAGTTTAGGG
1 GCAAAAGTTTAGGG
*
30017029 GTAAAAGTTTAGGG
1 GCAAAAGTTTAGGG
30017043 GCAAAA
1 GCAAAA
30017049 TCATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.32, T:0.21
Consensus pattern (14 bp):
GCAAAAGTTTAGGG
Found at i:30017582 original size:53 final size:53
Alignment explanation
Indices: 30017507--30017611 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 53
30017497 ATAAACTACG
* * * * *
30017507 ATAAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATAGCAATGGTGAGTTC
1 ATAAGGCAAAGATACCACGTAAGACCATGCCAAGACATAGAAATGGTAAGTTC
* * * *
30017560 ATAAGGGAAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 ATAAGGCAAAGATACCACGTAAGACCATGCCAAGACATAGAAATGGTAAGTT
30017612 TAAAAAGGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (53 bp):
ATAAGGCAAAGATACCACGTAAGACCATGCCAAGACATAGAAATGGTAAGTTC
Found at i:30018646 original size:198 final size:198
Alignment explanation
Indices: 30018308--30018699 Score: 703
Period size: 198 Copynumber: 2.0 Consensus size: 198
30018298 CCCCTGTTCC
*
30018308 AAATTTGGAAAATCACTAGAAATTTTAAAAAAAGAATTATAAGTCAAAGTTTATATTTATAGATT
1 AAATTTGGAAAATCACTAGAAATTGTAAAAAAAGAATTATAAGTCAAAGTTTATATTTATAGATT
* *
30018373 CCTTAGTGAGTATATTTTCATTAGAAACAACCAGAAACATTATCTGATTTCTGCATAATGAGATA
66 CCTTAGTGAGTATATTTTCATTAGAAACAAACAGAAACATTATCCGATTTCTGCATAATGAGATA
* * * *
30018438 ATTTATTTTTAGTGAAGAGAGGTTAGGTCTGCTGAACTGTGAAACAGGGGAATCTTTAATGAATT
131 ATTTATTTTTAGTGAAGAGAGGTTAGGTATGCTAAACTGTGAAACAGAGGAACCTTTAATGAATT
30018503 TCA
196 TCA
30018506 AAATTTGGAAAATCACTAGAAATTGTAAAAAAAGAATTATAAGTCAAAGTTTATATTTATAGATT
1 AAATTTGGAAAATCACTAGAAATTGTAAAAAAAGAATTATAAGTCAAAGTTTATATTTATAGATT
* *
30018571 CCTTAGTGAGTCTATTTTCATTAGAAATAAACAGAAACATTATCCGATTTCTGCATAATGAGATA
66 CCTTAGTGAGTATATTTTCATTAGAAACAAACAGAAACATTATCCGATTTCTGCATAATGAGATA
30018636 ATTTATTTTTAGTGAAGAGAGGTTAGGTATGCTAAACTGTGAAACAGAGGAACCTTTAATGAAT
131 ATTTATTTTTAGTGAAGAGAGGTTAGGTATGCTAAACTGTGAAACAGAGGAACCTTTAATGAAT
30018700 AAACTGTACT
Statistics
Matches: 185, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
198 185 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (198 bp):
AAATTTGGAAAATCACTAGAAATTGTAAAAAAAGAATTATAAGTCAAAGTTTATATTTATAGATT
CCTTAGTGAGTATATTTTCATTAGAAACAAACAGAAACATTATCCGATTTCTGCATAATGAGATA
ATTTATTTTTAGTGAAGAGAGGTTAGGTATGCTAAACTGTGAAACAGAGGAACCTTTAATGAATT
TCA
Found at i:30020447 original size:21 final size:21
Alignment explanation
Indices: 30020418--30020463 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
30020408 AAACAACAAG
*
30020418 AAAATAGCAACAAAACAGTAA
1 AAAACAGCAACAAAACAGTAA
* *
30020439 AAAACAGCAAGAAAATAGTAA
1 AAAACAGCAACAAAACAGTAA
30020460 AAAA
1 AAAA
30020464 TATTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.70, C:0.11, G:0.11, T:0.09
Consensus pattern (21 bp):
AAAACAGCAACAAAACAGTAA
Found at i:30022194 original size:54 final size:54
Alignment explanation
Indices: 30022112--30022218 Score: 151
Period size: 54 Copynumber: 2.0 Consensus size: 54
30022102 TTCAATCACA
* * * *
30022112 TTCAAGTGCATTTTATTCTCCTATTCTATTTTATATTTTAATACAGTTTAATTG
1 TTCAAGTGCATTTTATCCTCCTATTCTATTTCATATTTTAATAAAGCTTAATTG
* **
30022166 TTCAAGTGTATTTTATCCTTTTATTCTATTTCATATTTTAATAAAGCTTAATT
1 TTCAAGTGCATTTTATCCTCCTATTCTATTTCATATTTTAATAAAGCTTAATT
30022219 ATTTAACTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.27, C:0.12, G:0.07, T:0.54
Consensus pattern (54 bp):
TTCAAGTGCATTTTATCCTCCTATTCTATTTCATATTTTAATAAAGCTTAATTG
Found at i:30022261 original size:26 final size:26
Alignment explanation
Indices: 30022231--30022284 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
30022221 TTAACTCAAT
* *
30022231 TTTTTGACATAATATTTTTGTCCGAAC
1 TTTTGGACA-AATACTTTTGTCCGAAC
* *
30022258 TTTTGGACAGATACTTTTGTCGGAAC
1 TTTTGGACAAATACTTTTGTCCGAAC
30022284 T
1 T
30022285 AGTTTGATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (26 bp):
TTTTGGACAAATACTTTTGTCCGAAC
Found at i:30023748 original size:22 final size:21
Alignment explanation
Indices: 30023683--30023749 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 21
30023673 TCTTACACTT
*
30023683 CATACTTATCCTAAGGTCTATC
1 CATACTAAT-CTAAGGTCTATC
*
30023705 CATAGACTAATTTAA--T-TA-C
1 CAT--ACTAATCTAAGGTCTATC
30023724 CATACTAATGCTAAGGTCTATC
1 CATACTAAT-CTAAGGTCTATC
30023746 CATA
1 CATA
30023750 GACTAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
17 6 0.17
18 3 0.09
19 4 0.11
20 3 0.09
21 3 0.09
22 8 0.23
23 3 0.09
24 5 0.14
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (21 bp):
CATACTAATCTAAGGTCTATC
Found at i:30025217 original size:48 final size:48
Alignment explanation
Indices: 30025146--30025285 Score: 192
Period size: 48 Copynumber: 2.9 Consensus size: 48
30025136 AGGGTAAAAT
* * * * ***
30025146 GCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT-ATCAAC
30025194 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
*
30025242 ACCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT
30025286 AAACCAAATG
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
47 2 0.02
48 81 0.98
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
Found at i:30027816 original size:68 final size:67
Alignment explanation
Indices: 30027744--30027893 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
30027734 CATCATGTGT
* * * *
30027744 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
30027806 ATGTAG
62 ATGTAG
** * *
30027812 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
30027877 AG
66 AG
30027879 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
30027894 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:30027849 original size:64 final size:64
Alignment explanation
Indices: 30027768--30027951 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
30027758 AGACATTATG
* *
30027768 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
30027832 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
30027897 AA
63 AA
* * * *
30027899 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
30027952 GAACTATATG
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:30029039 original size:2 final size:2
Alignment explanation
Indices: 30029032--30029058 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30029022 TCATGACATG
30029032 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
30029059 GACTAGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30033428 original size:20 final size:20
Alignment explanation
Indices: 30033403--30033463 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
30033393 GATCACACAA
30033403 GCCCGTGTGGCTCAGGACAC
1 GCCCGTGTGGCTCAGGACAC
*
30033423 GCCCGTGT-CCTC----CA-
1 GCCCGTGTGGCTCAGGACAC
30033437 -CCCGTGTGGCTCAGGACAC
1 GCCCGTGTGGCTCAGGACAC
30033456 GCCCGTGT
1 GCCCGTGT
30033464 CCTCTACCCG
Statistics
Matches: 32, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
13 7 0.22
14 3 0.09
15 2 0.06
18 2 0.06
19 3 0.09
20 15 0.47
ACGTcount: A:0.11, C:0.39, G:0.31, T:0.18
Consensus pattern (20 bp):
GCCCGTGTGGCTCAGGACAC
Found at i:30033441 original size:33 final size:33
Alignment explanation
Indices: 30033404--30033476 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
30033394 ATCACACAAG
30033404 CCCGTGTGGCTCAGGACACGCCCGTGTCCTCCA
1 CCCGTGTGGCTCAGGACACGCCCGTGTCCTCCA
*
30033437 CCCGTGTGGCTCAGGACACGCCCGTGTCCTCTA
1 CCCGTGTGGCTCAGGACACGCCCGTGTCCTCCA
30033470 CCCGTGT
1 CCCGTGT
30033477 AATTCTCTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.11, C:0.41, G:0.27, T:0.21
Consensus pattern (33 bp):
CCCGTGTGGCTCAGGACACGCCCGTGTCCTCCA
Found at i:30035398 original size:96 final size:96
Alignment explanation
Indices: 30035199--30035484 Score: 308
Period size: 96 Copynumber: 2.9 Consensus size: 96
30035189 AGGGTAAAAT
* * *
30035199 GCCGATACCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCG-GTGCCGATGCCATGTC
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACAT--ATCGAG-GCCGATGCCATGTC
* * *
30035263 CTAGATATGGTCTTACACTAACACATATAACAAT
63 CCAGACATGGTCTTACACTAACACATATAACAAG
* * * *
30035297 GCCGATGCCATGTTCCAAACATAGTCTTACACTGGCTCACATATTGAGGCCAATGCCATGTCCCA
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCA
**** **
30035362 GACATGGTCTTACACTGGTTC-TCATAATGAG
66 GACATGGTCTTACACTAACACAT-ATAACAAG
* * * *
30035393 GCCGATGCCATG-TCCTAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCC
1 GCCGATGCCATGTTCC-AGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCC
30035457 AGACATGGTCTTACACTAGAACACATAT
65 AGACATGGTCTTACACT--AACACATAT
30035485 CAACCAAATG
Statistics
Matches: 154, Mismatches: 28, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
95 4 0.03
96 108 0.70
97 1 0.01
98 40 0.26
99 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.26
Consensus pattern (96 bp):
GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCA
GACATGGTCTTACACTAACACATATAACAAG
Found at i:30035468 original size:144 final size:146
Alignment explanation
Indices: 30035206--30035473 Score: 425
Period size: 144 Copynumber: 1.8 Consensus size: 146
30035196 AATGCCGATA
*
30035206 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGTGCCGATGCCATGTCCTAGATAT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGTGCCGATGCCATGTCCTAGACAT
* * *
30035271 GGTCTTACACTAACACATATAACAATGCCGATGCCATGTTCCAAACATAGTCTTACACTGGCTCA
66 GGTCTTACACTAACACACATAACAACGCCGATGCCATGTCCCAAACATAGTCTTACACTGGCTCA
30035336 CATATTGAGGCCAATG
131 CATATTGAGGCCAATG
*
30035352 CCATGTCCCAGACATGGTCTTACACTGGTTCTCATA-AT-GAG-GCCGATGCCATGTCCTAGACA
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCG-GTGCCGATGCCATGTCCTAGACA
* * * *
30035414 TGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACACT
65 TGGTCTTACACTAACACACATAACAACGCCGATGCCATGTCCCAAACATAGTCTTACACT
30035474 AGAACACATA
Statistics
Matches: 112, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
144 74 0.66
145 3 0.03
146 35 0.31
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (146 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGTGCCGATGCCATGTCCTAGACAT
GGTCTTACACTAACACACATAACAACGCCGATGCCATGTCCCAAACATAGTCTTACACTGGCTCA
CATATTGAGGCCAATG
Found at i:30035485 original size:48 final size:48
Alignment explanation
Indices: 30035199--30035488 Score: 278
Period size: 48 Copynumber: 6.0 Consensus size: 48
30035189 AGGGTAAAAT
* * * *
30035199 GCCGATACCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-CATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
* * ** * * *
30035246 GGTGCCGATGCCATGTCCTAGATATGGTCTTACACTAACACATATAACAAT
1 ---GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
* * * * ** *
30035297 GCCGATGCCATGTTCCAAACATAGTCTTACACTGGCTCACATATTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
* ** * * *
30035345 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATAAT-GAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACAT-ATCAAC
* *
30035393 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
* *
30035441 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGAACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
30035489 CAAATGTCTT
Statistics
Matches: 198, Mismatches: 39, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
47 2 0.01
48 157 0.79
49 2 0.01
50 35 0.18
51 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
Found at i:30038167 original size:31 final size:30
Alignment explanation
Indices: 30038096--30038168 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
30038086 AATGTGATTT
*
30038096 TTTAAATAATTACAAAAAATATAAAAAAATA
1 TTTAAA-AATTAAAAAAAATATAAAAAAATA
*
30038127 TTTAGAAATTAAAATAAAATA-AAACAAAAT-
1 TTTAAAAATTAAAA-AAAATATAAA-AAAATA
30038157 TATTAAAAATTA
1 T-TTAAAAATTA
30038169 TTTAAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 11 0.31
31 25 0.69
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (30 bp):
TTTAAAAATTAAAAAAAATATAAAAAAATA
Found at i:30038261 original size:15 final size:15
Alignment explanation
Indices: 30038220--30038262 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
30038210 CTTGTTTAAA
* *
30038220 TTTTTGTATATTTAT
1 TTTTTATATTTTTAT
30038235 TTTTTATAATTTTTAT
1 TTTTTAT-ATTTTTAT
30038251 TTTTTATATTTT
1 TTTTTATATTTT
30038263 AAATAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTTTATATTTTTAT
Found at i:30038262 original size:14 final size:14
Alignment explanation
Indices: 30038219--30038263 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
30038209 ACTTGTTTAA
30038219 ATTTTTGTATA-TTT
1 ATTTTT-TATATTTT
30038233 ATTTTTTATAATTTTT
1 ATTTTTTAT-A-TTTT
30038249 ATTTTTTATATTTT
1 ATTTTTTATATTTT
30038263 A
1 A
30038264 AATAATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 3 0.11
14 12 0.43
15 1 0.04
16 12 0.43
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (14 bp):
ATTTTTTATATTTT
Found at i:30039959 original size:23 final size:23
Alignment explanation
Indices: 30039928--30039977 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
30039918 GCATCCTGTT
* * *
30039928 ATATGGCTCTCTGGAGCTTCCCG
1 ATATGGCTCGCTGGAACTTCCCA
* *
30039951 ATATTGCTCGCTTGAACTTCCCA
1 ATATGGCTCGCTGGAACTTCCCA
30039974 ATAT
1 ATAT
30039978 ATGGATATCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (23 bp):
ATATGGCTCGCTGGAACTTCCCA
Found at i:30040154 original size:25 final size:25
Alignment explanation
Indices: 30040085--30040156 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 25
30040075 TATTGCTCTT
* * *
30040085 ATGAGCTTCCCGTTATATAGCCTAG
1 ATGAGCTTCCCGTTATATGGCTTAC
* *
30040110 ATGTGCTTCCCGTTACATGGCTTAC
1 ATGAGCTTCCCGTTATATGGCTTAC
**
30040135 ATGAGCTTCCTATTATATGGCT
1 ATGAGCTTCCCGTTATATGGCT
30040157 CGAGAAAGGG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATGGCTTAC
Found at i:30042857 original size:2 final size:2
Alignment explanation
Indices: 30042850--30042890 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
30042840 TCGATCGGAG
30042850 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30042891 GAGTACGCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30042958 original size:29 final size:29
Alignment explanation
Indices: 30042924--30043084 Score: 92
Period size: 29 Copynumber: 5.6 Consensus size: 29
30042914 TACTCGATTT
* * *
30042924 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
30042953 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
30042982 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * *** * *
30043011 TGCACACTCAGTGCCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
30043040 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
30043069 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
30043085 ATCTCGTCAC
Statistics
Matches: 112, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 1 0.01
29 110 0.98
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:30043016 original size:58 final size:58
Alignment explanation
Indices: 30042923--30043084 Score: 186
Period size: 58 Copynumber: 2.8 Consensus size: 58
30042913 ATACTCGATT
** * ** *
30042923 TCGCACACTTAGTGCCATGCGATTT-AAGCCCGCACACATAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACAC-TAGTGCCATACCCTTCCAGCA
***
30042981 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATTTTTCCAGCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACT-AGTGCCATACCCTTCCAGCA
30043040 T-GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACAC-TAGTGCCA
30043085 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
57 5 0.05
58 84 0.92
59 2 0.02
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTAGTGCCATACCCTTCCAGCA
Found at i:30056354 original size:55 final size:53
Alignment explanation
Indices: 30056263--30056446 Score: 165
Period size: 55 Copynumber: 3.6 Consensus size: 53
30056253 ACTAGGGTTT
* *
30056263 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATACGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAG-TTC-ATAAGGC
* * * *
30056318 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGC
* * *
30056371 AAGGATACCATGTAAGA-C--G---AGACATGGCAATGGTAAGTT-TTAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGC
* *
30056414 AAGGATACCACGTAAGACCATGTCAAGACATGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG
30056447 AAATGGTAAG
Statistics
Matches: 109, Mismatches: 12, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
43 16 0.15
44 1 0.01
46 4 0.04
47 17 0.16
49 8 0.07
50 1 0.01
52 5 0.05
53 17 0.16
54 3 0.03
55 33 0.30
56 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGC
Found at i:30056668 original size:16 final size:16
Alignment explanation
Indices: 30056647--30056677 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30056637 ATACATTTGA
30056647 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
30056663 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
30056678 AGTGCAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:30056767 original size:14 final size:14
Alignment explanation
Indices: 30056748--30056775 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30056738 CCAAGTAGTA
30056748 AGATAATTCTTATG
1 AGATAATTCTTATG
30056762 AGATAATTCTTATG
1 AGATAATTCTTATG
30056776 GATGTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
AGATAATTCTTATG
Found at i:30060191 original size:80 final size:80
Alignment explanation
Indices: 30060044--30060248 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
30060034 ATTGAATGAT
* * ** * * *
30060044 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATA-CCGGGTTAAGACCCGAAGGCCAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCAT
*
30060108 TGTGCTAGT-GACCAC
66 TGTGCAAGTCGACC-C
* * *
30060123 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGG-CAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCA-
** *
30060187 TTGTGCAAGTCGTTCT
65 TTGTGCAAGTCGACCC
* *
30060203 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
30060249 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 35 0.33
80 69 0.65
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCAT
TGTGCAAGTCGACCC
Found at i:30060246 original size:40 final size:40
Alignment explanation
Indices: 30060042--30060248 Score: 188
Period size: 40 Copynumber: 5.2 Consensus size: 40
30060032 CAATTGAATG
* * ** **
30060042 ATATCCGGGCTAAGTCCCGAAGACATTTATGC-TAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAT-GTGGTT
* ***
30060082 ATA-CCGGGTTAAGACCCGAAGGCCATT-GTGC-TAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAT-GTGGTT
* * *
30060121 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
* * * * *
30060161 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
*
30060201 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
30060241 ATATCCGG
1 ATATCCGG
30060249 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
39 30 0.22
40 108 0.78
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
Found at i:30068236 original size:80 final size:80
Alignment explanation
Indices: 30068089--30068293 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
30068079 ATTGAATGAT
* * ** * * *
30068089 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATA-CCGGGTTAAGACCCGAAGGCCAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCAT
*
30068153 TGTGCTAGT-GACCAC
66 TGTGCAAGTCGACC-C
* * *
30068168 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGG-CAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCA-
** *
30068232 TTGTGCAAGTCGTTCT
65 TTGTGCAAGTCGACCC
* *
30068248 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
30068294 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 35 0.33
80 69 0.65
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCAT
TGTGCAAGTCGACCC
Found at i:30068291 original size:40 final size:40
Alignment explanation
Indices: 30068087--30068293 Score: 188
Period size: 40 Copynumber: 5.2 Consensus size: 40
30068077 CAATTGAATG
* * ** **
30068087 ATATCCGGGCTAAGTCCCGAAGACATTTATGC-TAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAT-GTGGTT
* ***
30068127 ATA-CCGGGTTAAGACCCGAAGGCCATT-GTGC-TAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAT-GTGGTT
* * *
30068166 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
* * * * *
30068206 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
*
30068246 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
30068286 ATATCCGG
1 ATATCCGG
30068294 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
39 30 0.22
40 108 0.78
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
Found at i:30071577 original size:27 final size:27
Alignment explanation
Indices: 30071539--30071597 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
30071529 GAACACTAGT
30071539 TTAGCCTTATCAAATGATGGATTTATC
1 TTAGCCTTATCAAATGATGGATTTATC
*
30071566 TTAGCCTTATCAGATGATGGATTTATC
1 TTAGCCTTATCAAATGATGGATTTATC
30071593 TTAGC
1 TTAGC
30071598 TGAGTTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (27 bp):
TTAGCCTTATCAAATGATGGATTTATC
Found at i:30081589 original size:40 final size:39
Alignment explanation
Indices: 30081424--30081607 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
30081414 AAATTGAATG
* * *
30081424 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
30081464 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
30081504 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
30081544 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
30081583 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
30081608 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:30081632 original size:80 final size:81
Alignment explanation
Indices: 30081464--30081652 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
30081454 GCTGGAAATT
* * * *
30081464 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
30081529 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
30081545 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
30081608 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
30081624 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
30081653 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:30089707 original size:40 final size:39
Alignment explanation
Indices: 30089542--30089725 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
30089532 AAATTGAATG
* * *
30089542 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
30089582 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
30089622 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
30089662 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
30089701 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
30089726 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:30089750 original size:80 final size:81
Alignment explanation
Indices: 30089582--30089770 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
30089572 GCTGGAAATT
* * * *
30089582 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
30089647 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
30089663 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
30089726 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
30089742 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
30089771 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:30095881 original size:24 final size:24
Alignment explanation
Indices: 30095834--30095915 Score: 85
Period size: 23 Copynumber: 3.4 Consensus size: 24
30095824 CAACTTGTGT
*
30095834 GAGCTTACTGATATATCAGCTCGTAA
1 GAGCTTACT-AT-TTTCAGCTCGTAA
*
30095860 GAGCTTACTATTTTCAGCTCGTCA
1 GAGCTTACTATTTTCAGCTCGTAA
** * *
30095884 GAGCTTAC-CGTTTCAGCTCATTA
1 GAGCTTACTATTTTCAGCTCGTAA
30095907 GAGCTTACT
1 GAGCTTACT
30095916 GTCCATCAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
23 19 0.39
24 19 0.39
25 2 0.04
26 9 0.18
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (24 bp):
GAGCTTACTATTTTCAGCTCGTAA
Found at i:30104546 original size:49 final size:49
Alignment explanation
Indices: 30104381--30104607 Score: 303
Period size: 49 Copynumber: 4.5 Consensus size: 49
30104371 CGGGTACTCG
* * * * * * *
30104381 GTGGCCTGCACATAGTACCACCCTTTTAGTCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GACCAAGCTATC-TCTTCTCAAA
*
30104432 GTGGCCTTCACATAATACCACACTTGTGACCAAAGCTATCT-TTCTTCACCAA
1 GTGGCCTTCACATAGTACCACACTTGTGACC-AAGCTATCTCTTC-TCA--AA
*
30104484 GTGGCCTTCACATAGTACCACGCTTGTGACCAAGCTATCTCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCTCAAA
30104533 GTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCTCAAA
*
30104582 GTGGCCTTCATATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
30104608 AGTCACTAGT
Statistics
Matches: 159, Mismatches: 12, Indels: 12
0.87 0.07 0.07
Matches are distributed among these distances:
49 78 0.49
50 5 0.03
51 42 0.26
52 34 0.21
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (49 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCTCAAA
Found at i:30104558 original size:101 final size:100
Alignment explanation
Indices: 30104381--30104607 Score: 307
Period size: 101 Copynumber: 2.3 Consensus size: 100
30104371 CGGGTACTCG
* * * *
30104381 GTGGCCTGCACATAGTACCACCCTTTTAGTCAAAGCTACCTTCTTCACAAAGTGGCCTTCACATA
1 GTGGCCTTCACATAGTACCACACTTGTAGACAAAGCTACCTTCTTCACAAAGTGGCCTTCACATA
30104446 ATACCACACTTGTGACCAAAGCTATCT-TTCTTCACCAA
66 ATACCACACTTGTGACC-AAGCTATCTCTTC-TCA--AA
* * * *
30104484 GTGGCCTTCACATAGTACCACGCTTGT-GACCAAGCTATC-TCTTCTCAAAGTGGCCTTCACATA
1 GTGGCCTTCACATAGTACCACACTTGTAGACAAAGCTACCTTCTTCACAAAGTGGCCTTCACATA
*
30104547 GTACCACACTTGTGACCAAGCTATCTCTTCTCAAA
66 ATACCACACTTGTGACCAAGCTATCTCTTCTCAAA
*
30104582 GTGGCCTTCATATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
30104608 AGTCACTAGT
Statistics
Matches: 113, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
98 26 0.23
100 12 0.11
101 42 0.37
102 9 0.08
103 24 0.21
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (100 bp):
GTGGCCTTCACATAGTACCACACTTGTAGACAAAGCTACCTTCTTCACAAAGTGGCCTTCACATA
ATACCACACTTGTGACCAAGCTATCTCTTCTCAAA
Found at i:30106346 original size:29 final size:29
Alignment explanation
Indices: 30106303--30106560 Score: 216
Period size: 29 Copynumber: 8.9 Consensus size: 29
30106293 AGTGTGCTAA
30106303 CGATGGTCGTAACCATCCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
*
30106332 CGATGGTCGTCACCATCCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
* * * * *
30106361 TGATAGTCGAAACTATCCCTTTTCATAGT
1 CGATGGTCGTAACCATCCCTTTTCATATT
* * * *
30106390 CGATAGTCGAAACTATCCCTTTTCATATA
1 CGATGGTCGTAACCATCCCTTTTCATATT
** *
30106419 CGATGGTCGGCACCATTCCTTTTCAT-TGT
1 CGATGGTCGTAACCATCCCTTTTCATAT-T
* * * *
30106448 TGATGGTCATCACCATCCGTTTTCATAGTT
1 CGATGGTCGTAACCATCCCTTTTCATA-TT
** *
30106478 -GATGGTCGTTGCCATCCCTTTTCATAAT
1 CGATGGTCGTAACCATCCCTTTTCATATT
* * * * *
30106506 CGATAGTCGAAACTATCCATTTTCATAGT
1 CGATGGTCGTAACCATCCCTTTTCATATT
* * *
30106535 CAATGGTC-AAATCCATCTCTTTTCAT
1 CGATGGTCGTAA-CCATCCCTTTTCAT
30106561 TGATCGATGA
Statistics
Matches: 186, Mismatches: 38, Indels: 10
0.79 0.16 0.04
Matches are distributed among these distances:
28 5 0.03
29 179 0.96
30 1 0.01
31 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (29 bp):
CGATGGTCGTAACCATCCCTTTTCATATT
Found at i:30106471 original size:87 final size:87
Alignment explanation
Indices: 30106303--30106503 Score: 253
Period size: 87 Copynumber: 2.3 Consensus size: 87
30106293 AGTGTGCTAA
* *
30106303 CGATGGTCGTAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTTGATAGT
1 CGATGGTCGTAACCATCCCTTTTCATATACGATGGTCGGCACCATCCCTTTTCATATTTGATAGT
*
30106368 CGAAACTATCCCTTTTCATAGT
66 CGAAACCATCCCTTTTCATAGT
* * * * *
30106390 CGATAGTCGAAACTATCCCTTTTCATATACGATGGTCGGCACCATTCCTTTTCAT-TGTTGATGG
1 CGATGGTCGTAACCATCCCTTTTCATATACGATGGTCGGCACCATCCCTTTTCATAT-TTGATAG
* *
30106454 TC-ATCACCATCCGTTTTCATAGT
65 TCGA-AACCATCCCTTTTCATAGT
* **
30106477 TGATGGTCGTTGCCATCCCTTTTCATA
1 CGATGGTCGTAACCATCCCTTTTCATA
30106504 ATCGATAGTC
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
86 2 0.02
87 94 0.98
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (87 bp):
CGATGGTCGTAACCATCCCTTTTCATATACGATGGTCGGCACCATCCCTTTTCATATTTGATAGT
CGAAACCATCCCTTTTCATAGT
Found at i:30106529 original size:87 final size:86
Alignment explanation
Indices: 30106303--30106532 Score: 241
Period size: 87 Copynumber: 2.6 Consensus size: 86
30106293 AGTGTGCTAA
* *
30106303 CGATGGTCGTAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTTGATAGT
1 CGATGGTCGTAACCATCCCTTTTCATAATCGATGGTCGACACCAT-CCTTTTCATATTTGATAGT
*
30106368 CGAAACTATCCCTTTTCATAGT
65 CGAAACCATCCCTTTTCATAGT
* * * * *
30106390 CGATAGTCGAAACTATCCCTTTTCAT-ATACGATGGTCGGCACCATTCCTTTTCAT-TGTTGATG
1 CGATGGTCGTAACCATCCCTTTTCATAAT-CGATGGTCGACACCA-TCCTTTTCATAT-TTGATA
* *
30106453 GTC-ATCACCATCCGTTTTCATAGT
63 GTCGA-AACCATCCCTTTTCATAGT
* ** * * *
30106477 TGATGGTCGTTGCCATCCCTTTTCATAATCGATAGTCGAAACTATCCATTTTCATA
1 CGATGGTCGTAACCATCCCTTTTCATAATCGATGGTCGACACCATCC-TTTTCATA
30106533 GTCAATGGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
86 6 0.05
87 108 0.92
88 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (86 bp):
CGATGGTCGTAACCATCCCTTTTCATAATCGATGGTCGACACCATCCTTTTCATATTTGATAGTC
GAAACCATCCCTTTTCATAGT
Found at i:30120296 original size:48 final size:46
Alignment explanation
Indices: 30120178--30120298 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
30120168 TGATATGTGT
* **
30120178 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGACAAGG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACAAAA
* * * *
30120224 GCCAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACA-A-AA
* *
30120272 GCTAGTGTAAGACTTGTTTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
30120299 GCGTCAGCTT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
46 38 0.61
47 1 0.02
48 23 0.37
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACAAAA
Found at i:30120377 original size:49 final size:48
Alignment explanation
Indices: 30120318--30120489 Score: 168
Period size: 49 Copynumber: 3.5 Consensus size: 48
30120308 TATTGTGTGT
* *
30120318 CAGTGTAAGACCTATCTGGGACATGGCATTGACACCGATAGATGAGAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCGAC-CCGATAGATGAAAGC
* * * * *
30120367 CAGTGTAAGACCTATCTGGGACACGACATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTATCTGGGACATGGCATCGACC-CGATAGATGAAAGC
* * ** **
30120416 CAGTGTAAAACCTGTCTGGGACATGGCATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCGAC-CCGATAGATGAAAGC
*
30120463 CAGTGTAAGACCATGTCTGGGACATGG
1 CAGTGTAAGACC-TATCTGGGACATGG
30120490 TGTCGGCACC
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
47 15 0.15
48 15 0.15
49 71 0.70
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (48 bp):
CAGTGTAAGACCTATCTGGGACATGGCATCGACCCGATAGATGAAAGC
Found at i:30126001 original size:32 final size:32
Alignment explanation
Indices: 30125965--30126029 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
30125955 CATTATAAAC
* *
30125965 TTATAAATTGATTACTTGAATTCAATAACTCA
1 TTATAAATTAATTAATTGAATTCAATAACTCA
* **
30125997 TTATAAATTAATTAATTTAATTTGATAACTCA
1 TTATAAATTAATTAATTGAATTCAATAACTCA
30126029 T
1 T
30126030 ATTGATTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.45
Consensus pattern (32 bp):
TTATAAATTAATTAATTGAATTCAATAACTCA
Found at i:30126056 original size:145 final size:145
Alignment explanation
Indices: 30125798--30126204 Score: 669
Period size: 145 Copynumber: 2.8 Consensus size: 145
30125788 TAAATATTTT
* * * * *
30125798 TACTATGAATTTGGAACATCATAAATTTACAAATTGATTACCTGAATTTAATAACTC---AT-AA
1 TACTATGAATTCGGAACATCATAAACTTATAAATTGATTACTTGAATTCAATAACTCATTATAAA
* *
30125859 TTAATTAATTTAATTTGATAACTCATACTGATTAATTGAGCCTGTTAGATTTATGATTGATCATG
66 TTAATTAATTTAATTTGATAACTCATATTGATTAATTGAGCCTGTTAGATTTATGATTAATCATG
*
30125924 TGTAAGAATGTATTC
131 TGTAAAAATGTATTC
*
30125939 TACTATGAATTCGGAACATTATAAACTTATAAATTGATTACTTGAATTCAATAACTCATTATAAA
1 TACTATGAATTCGGAACATCATAAACTTATAAATTGATTACTTGAATTCAATAACTCATTATAAA
* *
30126004 TTAATTAATTTAATTTGATAACTCATATTGATTAATTGAGCCTGCTAGATTTAGGATTAATCATG
66 TTAATTAATTTAATTTGATAACTCATATTGATTAATTGAGCCTGTTAGATTTATGATTAATCATG
30126069 TGTAAAAATGTATTC
131 TGTAAAAATGTATTC
*
30126084 TACTATGAATTCGGAACATCATAAACTTATAAATTGATTACTTGAATTCAATAACGCATTATAAA
1 TACTATGAATTCGGAACATCATAAACTTATAAATTGATTACTTGAATTCAATAACTCATTATAAA
*
30126149 TTAATTAATTTAATTTGATAACTCATATTGATTAATTGAGCTTGTTAGATTTATGA
66 TTAATTAATTTAATTTGATAACTCATATTGATTAATTGAGCCTGTTAGATTTATGA
30126205 ACTTTATAAT
Statistics
Matches: 246, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
141 51 0.21
144 2 0.01
145 193 0.78
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.40
Consensus pattern (145 bp):
TACTATGAATTCGGAACATCATAAACTTATAAATTGATTACTTGAATTCAATAACTCATTATAAA
TTAATTAATTTAATTTGATAACTCATATTGATTAATTGAGCCTGTTAGATTTATGATTAATCATG
TGTAAAAATGTATTC
Found at i:30150277 original size:15 final size:16
Alignment explanation
Indices: 30150253--30150287 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
30150243 ATTAACTTTT
*
30150253 AATTTTATAA-TATTA
1 AATTTAATAATTATTA
30150268 AATTTAATAATTATTA
1 AATTTAATAATTATTA
30150284 AATT
1 AATT
30150288 ATTAAGCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTTAATAATTATTA
Found at i:30150766 original size:20 final size:20
Alignment explanation
Indices: 30150743--30150781 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30150733 TTACATTAGT
* *
30150743 TTTTCAATATATTAATTAAA
1 TTTTAAATAAATTAATTAAA
*
30150763 TTTTAAATAAATTTATTAA
1 TTTTAAATAAATTAATTAA
30150782 CCCTGTACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTAAATAAATTAATTAAA
Found at i:30158842 original size:30 final size:30
Alignment explanation
Indices: 30158808--30158868 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
30158798 TTCCCGAGCC
30158808 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
30158838 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
30158868 T
1 T
30158869 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:30164658 original size:15 final size:17
Alignment explanation
Indices: 30164622--30164666 Score: 67
Period size: 15 Copynumber: 2.8 Consensus size: 17
30164612 GCAATTAGGG
30164622 TTAGGGTTTTAAGAATT
1 TTAGGGTTTTAAGAATT
*
30164639 TTAGGTTTTTAA-AA-T
1 TTAGGGTTTTAAGAATT
30164654 TTAGGGTTTTAAG
1 TTAGGGTTTTAAG
30164667 GAAAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.48
16 2 0.08
17 11 0.44
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (17 bp):
TTAGGGTTTTAAGAATT
Found at i:30164777 original size:96 final size:96
Alignment explanation
Indices: 30164653--30164892 Score: 263
Period size: 96 Copynumber: 2.4 Consensus size: 96
30164643 GTTTTTAAAA
* * * *
30164653 TTTAGGG-TTTTAAGGAAAAAAATTAAATAAATTAAGGTTTGGTGTTTGTTAATTAAATTAATTA
1 TTTAGGGTTTTTAAGG-AAAAAATCAAATAAATTAGGGTTTGG-GTTTCTTAAGTAAATTAATTA
*
30164717 CT-AATTTT-AAAAAATTAGATTATGG-TTTAGTG
64 -TAAATTTTAAAAAAATTAGATTA-GGATTTAGGG
* * *
30164749 TTTATGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
1 TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTT-GGGTTTCTTAAGTAAATTAATTAT
30164814 AAATTTTAAAAAAAAATTAGATTAGGATTTTAGGG
65 AAATTTT--AAAAAAATTAGATTAGGA-TTTAGGG
* * * *
30164849 TTTAGGGTATTTATGAAAAAAATTGAAATAAATTAGGGTTTGGG
1 TTTAGGGTTTTTAAGGAAAAAA-TCAAATAAATTAGGGTTTGGG
30164893 GTTTAGGGTT
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
95 1 0.01
96 51 0.42
97 10 0.08
98 2 0.02
99 14 0.11
100 27 0.22
101 17 0.14
ACGTcount: A:0.40, C:0.01, G:0.19, T:0.40
Consensus pattern (96 bp):
TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGTTTCTTAAGTAAATTAATTATA
AATTTTAAAAAAATTAGATTAGGATTTAGGG
Found at i:30165164 original size:126 final size:125
Alignment explanation
Indices: 30164947--30165485 Score: 828
Period size: 126 Copynumber: 4.3 Consensus size: 125
30164937 AAAAGCTTCT
** * *
30164947 ACGTGGACACTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGCCTGCGCAA
1 ACGTGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
30165012 ATAGTGTTAAAAACGCTTCAAGCAGGATGAATTGTT-GGCAAAAGTACTGAAAGAAGCTCCT
66 ATAGTG-TAAAAACGCTTCAAGCAGGATGCATT-TTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
30165073 ACGTGGATGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
30165138 ATAGTGTAAAAAACGCATCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
*
30165199 ACGTGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTAAGAAGACGTGTCTGCGCAA
1 ACGTGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* *
30165264 ATAGTGGTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* **
30165325 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
30165390 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * *
30165451 ATGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGATGCTCTTTTGCTACAGTAGTCTCTGAAA
30165486 TAACTTGGGC
Statistics
Matches: 380, Mismatches: 29, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
125 4 0.01
126 374 0.98
127 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (125 bp):
ACGTGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:30168750 original size:22 final size:22
Alignment explanation
Indices: 30168738--30168787 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
30168728 TAACGAGAGT
30168738 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
* *
30168760 TTTGAGA-G-ATTTGAGAGGAA
1 TTTGAGAGGAATTTAAGAGAAA
30168780 TTTGAGAG
1 TTTGAGAG
30168788 AATATTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 17 0.68
21 1 0.04
22 7 0.28
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:30168795 original size:11 final size:10
Alignment explanation
Indices: 30168738--30168795 Score: 64
Period size: 11 Copynumber: 5.5 Consensus size: 10
30168728 TAACGAGAGT
30168738 TTTGAGAGGAA
1 TTTGAGA-GAA
*
30168749 TTTAAGAGAAA
1 TTTGAGAG-AA
30168760 TTTGAGAG-A
1 TTTGAGAGAA
30168769 TTTGAGAGGAA
1 TTTGAGA-GAA
30168780 TTTGAGAGAA
1 TTTGAGAGAA
30168790 TATTGA
1 T-TTGA
30168796 AAGATTGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 8 0.20
10 6 0.15
11 27 0.66
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:30168801 original size:31 final size:31
Alignment explanation
Indices: 30168738--30168801 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
30168728 TAACGAGAGT
*
30168738 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
*
30168769 TTTGAGAGGAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGGAATTTAAGAGAAAT-TTGAAAGA
30168800 TT
1 TT
30168802 GAAGATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (31 bp):
TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
Found at i:30174947 original size:19 final size:21
Alignment explanation
Indices: 30174919--30174963 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
30174909 GTCTCAATAC
30174919 ACAATATGTCA-A-TCTCGAG
1 ACAATATGTCATAGTCTCGAG
*
30174938 ACAATTTGTCATATGTCTCGAG
1 ACAATATGTCATA-GTCTCGAG
30174960 ACAA
1 ACAA
30174964 ATACTCAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 10 0.45
20 1 0.05
22 11 0.50
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (21 bp):
ACAATATGTCATAGTCTCGAG
Found at i:30186848 original size:112 final size:112
Alignment explanation
Indices: 30186651--30186876 Score: 434
Period size: 112 Copynumber: 2.0 Consensus size: 112
30186641 GATGCATACT
30186651 GAACCAGTCTCTATCTCCATCTTTGTAAATGGTGCTAACAATATCCTCATCAAAACTCGATATTG
1 GAACCAGTCTCTATCTCCATCTTTGTAAATGGTGCTAACAATATCCTCATCAAAACTCGATATTG
30186716 AACATGTGAACACTTTGAAAAATCATTAGACCCAGAGCTCAAGAATA
66 AACATGTGAACACTTTGAAAAATCATTAGACCCAGAGCTCAAGAATA
* *
30186763 GAACCAGTCTTTATCTCCATCTTTGTAAATGGTGCTAACAATATCCTCATCAGAACTCGATATTG
1 GAACCAGTCTCTATCTCCATCTTTGTAAATGGTGCTAACAATATCCTCATCAAAACTCGATATTG
30186828 AACATGTGAACACTTTGAAAAATCATTAGACCCAGAGCTCAAGAATA
66 AACATGTGAACACTTTGAAAAATCATTAGACCCAGAGCTCAAGAATA
30186875 GA
1 GA
30186877 GTATAGAAAT
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 112 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (112 bp):
GAACCAGTCTCTATCTCCATCTTTGTAAATGGTGCTAACAATATCCTCATCAAAACTCGATATTG
AACATGTGAACACTTTGAAAAATCATTAGACCCAGAGCTCAAGAATA
Found at i:30189483 original size:16 final size:16
Alignment explanation
Indices: 30189458--30189488 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30189448 CACCACTTGG
*
30189458 ATTGTTTGCCATTAAA
1 ATTGTCTGCCATTAAA
30189474 ATTGTCTGCCATTAA
1 ATTGTCTGCCATTAA
30189489 TCATAATGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (16 bp):
ATTGTCTGCCATTAAA
Found at i:30191429 original size:21 final size:21
Alignment explanation
Indices: 30191405--30191445 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30191395 ATTTGCTCAA
* *
30191405 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
30191426 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
30191446 TCGCTCGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:30194263 original size:16 final size:16
Alignment explanation
Indices: 30194238--30194268 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30194228 CACCACTTGG
*
30194238 ATTGTTTGCCATTAAA
1 ATTGTCTGCCATTAAA
30194254 ATTGTCTGCCATTAA
1 ATTGTCTGCCATTAA
30194269 TCATAATGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (16 bp):
ATTGTCTGCCATTAAA
Found at i:30198247 original size:25 final size:25
Alignment explanation
Indices: 30198219--30198266 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
30198209 CAGGTAAGGC
30198219 TCCTTCTCCTTCTTCCATTCTTCTT
1 TCCTTCTCCTTCTTCCATTCTTCTT
* *
30198244 TCCTTTTCCTTCTTCCGTTCTTC
1 TCCTTCTCCTTCTTCCATTCTTC
30198267 ATATTCTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.02, C:0.40, G:0.02, T:0.56
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCATTCTTCTT
Found at i:30200960 original size:19 final size:20
Alignment explanation
Indices: 30200936--30200981 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
30200926 TATCCAAACA
*
30200936 CCAGAAAAGTAAATTA-TTT
1 CCAGAAAAGTAAATCATTTT
30200955 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
30200975 CCAGAAA
1 CCAGAAA
30200982 TTATTTTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:30200987 original size:14 final size:14
Alignment explanation
Indices: 30200965--30201002 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
30200955 CCAGAAAAGT
30200965 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
30200979 AAATTATTTTCCAG
1 AAATCATTTTCCAG
*
30200993 AAAACATTTT
1 AAATCATTTT
30201003 ACTGGCAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:30211143 original size:61 final size:61
Alignment explanation
Indices: 30211023--30211144 Score: 145
Period size: 61 Copynumber: 2.0 Consensus size: 61
30211013 TTGATAAAAG
* * * * * *
30211023 AAAGCGATAACTGGACATAACTTCAGTTTCTAGCATTGTTAGTAATTTACTGGTGTGTATC
1 AAAGCGATAACTGGACACAACTTCAGTTTCAACCATTGTTACTAATATACTAGTGTGTATC
* * * * *
30211084 AAAGTGATAACTGGACACAGCTTCAGTTTCAACCATTGTTACTAGTATATTAGTTTGTATC
1 AAAGCGATAACTGGACACAACTTCAGTTTCAACCATTGTTACTAATATACTAGTGTGTATC
30211145 TATATGTGAA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (61 bp):
AAAGCGATAACTGGACACAACTTCAGTTTCAACCATTGTTACTAATATACTAGTGTGTATC
Found at i:30213401 original size:27 final size:27
Alignment explanation
Indices: 30213346--30213401 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
30213336 ATTTCCCCTT
* *
30213346 TACTAGTAAAGATTTTAAGCAGACATG
1 TACTAGGAAAGATTTTAAGCACACATG
* *
30213373 TACTAGGAAAGGTTTTAAGCACACGTG
1 TACTAGGAAAGATTTTAAGCACACATG
30213400 TA
1 TA
30213402 ATCAAGACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (27 bp):
TACTAGGAAAGATTTTAAGCACACATG
Found at i:30226508 original size:2 final size:2
Alignment explanation
Indices: 30226501--30226528 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30226491 TTTCATTCAA
30226501 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30226529 TTTGTGTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30232894 original size:19 final size:20
Alignment explanation
Indices: 30232854--30232901 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
30232844 ATTTATATAT
* *
30232854 TAAAAAA-TATTGATTATTA
1 TAAAAAATTATTGAATATGA
30232873 TAAAAAATTATT-AATATGA
1 TAAAAAATTATTGAATATGA
30232892 TAAAAGAATT
1 TAAAA-AATT
30232902 TCTAAATGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
TAAAAAATTATTGAATATGA
Found at i:30234051 original size:21 final size:21
Alignment explanation
Indices: 30234025--30234066 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
30234015 ATATAAATTT
30234025 TATAACTTAAATTGTATAAAA
1 TATAACTTAAATTGTATAAAA
30234046 TATAACTTAAATTGTATAAAA
1 TATAACTTAAATTGTATAAAA
30234067 AATCTTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (21 bp):
TATAACTTAAATTGTATAAAA
Found at i:30234492 original size:21 final size:21
Alignment explanation
Indices: 30234462--30234515 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
30234452 GACTACTCCC
*
30234462 GATGTTGCAACACGGAGTTGG
1 GATGTCGCAACACGGAGTTGG
30234483 GATGTCGCAACACGGAGTTGG
1 GATGTCGCAACACGGAGTTGG
30234504 GATGTCGCAACA
1 GATGTCGCAACA
30234516 AAACAAGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.19, G:0.35, T:0.20
Consensus pattern (21 bp):
GATGTCGCAACACGGAGTTGG
Done.