Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 156 of 295
Found at i:52955179 original size:28 final size:28
Alignment explanation
Indices: 52955121--52955180 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
52955111 TATTCAGTAT
* * *
52955121 CAGT-ACAGTCTGGGCCTTAGCCCTATA
1 CAGTAACAGTCTGGGCCTAAACCCAATA
* *
52955148 CAGTAACAGTGTGGGCCTAAACCCAATC
1 CAGTAACAGTCTGGGCCTAAACCCAATA
52955176 CAGTA
1 CAGTA
52955181 TCGTACAGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (28 bp):
CAGTAACAGTCTGGGCCTAAACCCAATA
Found at i:52955328 original size:26 final size:27
Alignment explanation
Indices: 52955299--52955359 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
52955289 CCGATATCAT
*
52955299 AGCAAAGCTGCCAGTAATAAT-AATGC
1 AGCAAAGCTGCCAGAAATAATAAATGC
* *
52955325 AGCATAGCTGCCAGAAATAGTAAATGC
1 AGCAAAGCTGCCAGAAATAATAAATGC
*
52955352 GGCAAAGC
1 AGCAAAGC
52955360 CACCAGTATC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.16
Consensus pattern (27 bp):
AGCAAAGCTGCCAGAAATAATAAATGC
Found at i:52955691 original size:81 final size:81
Alignment explanation
Indices: 52955562--52955974 Score: 440
Period size: 81 Copynumber: 5.0 Consensus size: 81
52955552 GAGCATAATC
* * * * * *
52955562 GTCATTTTACCCTACAGGGGCATTACAGTCATTTT-TCCTTTCAAGGGTACTACGGTAATTTTAC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTAT-AGGGGTATTACGGTCATTTTAC
52955626 CCTAAAGAAGCATTACG
65 CCTAAAGAAGCATTACG
* * * * *
52955643 GTAATTTTACCTTACAGGGGCATTATGGACATTTTACCCTATAGGGGTATTAGGGTCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACC
* *
52955708 C-AAACG-GGTATTACG
66 CTAAA-GAAGCATTACG
* * * * * *
52955723 GTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAAGGGTATTATGATCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACC
*
52955788 TTAGAAGAGAAGGGCATTACG
66 CT--AA-AGAA--GCATTACG
* * *
52955809 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGATCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACC
52955874 CTATAAG--GCCATTACG
66 CTA-AAGAAG-CATTACG
** * *
52955890 GTCATTTTAATCTATAGGGGCATTACGGTCATTTTACCCTATAGGGGTATTATGGTCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACC
* * *
52955955 CTATAGAGGTATTACG
66 CTAAAGAAGCATTACG
52955971 GTCA
1 GTCA
52955975 AATAACGACC
Statistics
Matches: 278, Mismatches: 41, Indels: 26
0.81 0.12 0.08
Matches are distributed among these distances:
80 68 0.24
81 129 0.46
82 5 0.02
83 3 0.01
84 4 0.01
85 1 0.00
86 68 0.24
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (81 bp):
GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACC
CTAAAGAAGCATTACG
Found at i:52955814 original size:32 final size:27
Alignment explanation
Indices: 52955562--52955974 Score: 396
Period size: 27 Copynumber: 15.1 Consensus size: 27
52955552 GAGCATAATC
*
52955562 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* * * * * *
52955589 GTCATTTTTCCTTTCAAGGGTACTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * **
52955616 GTAATTTTACCCTAAAGAAGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
52955643 GTAATTTTACCTTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
52955670 GACATTTTACCCTATAGGGGTATTAGG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
52955697 GTCATTTTACCC-AAACGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
52955723 GTCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
52955750 GTCATTTTACCCTACAAGGGTATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
52955777 ATCATTTTACCTTAGAAGAGAAGGGCATTACG
1 GTCATTTTACCCT---ACAG--GGGCATTACG
52955809 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
52955836 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
52955863 ATCATTTTACCCTATAAGGCCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
** *
52955890 GTCATTTTAATCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
52955917 GTCATTTTACCCTATAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
52955944 GTCATTTTACCCTATAGAGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
52955971 GTCA
1 GTCA
52955975 AATAACGACC
Statistics
Matches: 321, Mismatches: 59, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
26 23 0.07
27 274 0.85
29 3 0.01
30 2 0.01
32 19 0.06
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:52957772 original size:15 final size:15
Alignment explanation
Indices: 52957752--52957781 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52957742 AACTAAAATT
52957752 TTTGCAAAAGCCCAG
1 TTTGCAAAAGCCCAG
*
52957767 TTTGCAAAAGTCCAG
1 TTTGCAAAAGCCCAG
52957782 ACTTGAACCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (15 bp):
TTTGCAAAAGCCCAG
Found at i:52960379 original size:27 final size:27
Alignment explanation
Indices: 52960349--52960420 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
52960339 AGTATAGCTG
52960349 CCAGAAAT-AGTAAATGTGGCAAAGCCA
1 CCAG-AATCAGTAAATGTGGCAAAGCCA
* * *
52960376 CCAGTATCAGTAATTGTGGCATAGCCA
1 CCAGAATCAGTAAATGTGGCAAAGCCA
* *
52960403 CTAGTAA-CAGTGAATGTG
1 CCAG-AATCAGTAAATGTG
52960421 ATATAGTCAC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 2 0.06
27 33 0.92
28 1 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (27 bp):
CCAGAATCAGTAAATGTGGCAAAGCCA
Found at i:52960608 original size:27 final size:27
Alignment explanation
Indices: 52960577--52960881 Score: 342
Period size: 27 Copynumber: 11.1 Consensus size: 27
52960567 GGCATAATCA
* *
52960577 TCATTTTACCATATAGGGGTATTATGG
1 TCATTTTACCCTATAGGGGTATTACGG
* *
52960604 TCATTTTACCCTACAGGGGCATTACGG
1 TCATTTTACCCTATAGGGGTATTACGG
*
52960631 TCATTTTA-CCTTTCAGGGGTATTACGG
1 TCATTTTACCCTAT-AGGGGTATTACGG
* * *
52960658 TCATTTTACCCTATAAGGGCATTACGA
1 TCATTTTACCCTATAGGGGTATTACGG
* *
52960685 TCATTTTACCCTATAGGGGCATTACAG
1 TCATTTTACCCTATAGGGGTATTACGG
* * *
52960712 TCATTTTACCCAAGATGGGTATTACGG
1 TCATTTTACCCTATAGGGGTATTACGG
* *
52960739 TTATTTTACCCTACAGGGGTATTACGG
1 TCATTTTACCCTATAGGGGTATTACGG
*
52960766 TCATTTTACCCTATAGGAGAGGGGCATTACGG
1 TCATTTTACCCTAT-----AGGGGTATTACGG
*
52960798 TCATTTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTATAGGGGTATTACGG
* *
52960825 TTATTTTACCCTACAGGGGTATTACGG
1 TCATTTTACCCTATAGGGGTATTACGG
* * * *
52960852 TCATTTTACCTTACAGGGGTACTATGG
1 TCATTTTACCCTATAGGGGTATTACGG
52960879 TCA
1 TCA
52960882 AATAACAACC
Statistics
Matches: 238, Mismatches: 33, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
26 3 0.01
27 205 0.86
28 4 0.02
32 26 0.11
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTACGG
Found at i:52962056 original size:31 final size:31
Alignment explanation
Indices: 52962018--52962079 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
52962008 AAAAAGAAAA
52962018 ATAAAATGATAGAGTTTGAGTAAGGGAGGAG
1 ATAAAATGATAGAGTTTGAGTAAGGGAGGAG
52962049 ATAAAATGATAGAGTTTGAGTAAGGGAGGAG
1 ATAAAATGATAGAGTTTGAGTAAGGGAGGAG
52962080 GTATGTACTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (31 bp):
ATAAAATGATAGAGTTTGAGTAAGGGAGGAG
Found at i:52968765 original size:58 final size:56
Alignment explanation
Indices: 52968696--52968812 Score: 132
Period size: 57 Copynumber: 2.1 Consensus size: 56
52968686 TGAAATGGTG
* *
52968696 AAATGGAGAAATAAGAAA-CATTTGAAAATG-AT-TATGATTTTCTCCAAAATGAAAATGA
1 AAATGGAGAAAT--GAAATCATTAGAAAATGAATGT-TG-TTTTCACCAAAATG-AAATGA
* *
52968754 AAATGGGGAAATGAAATCATTAGGAAATGAATGTTGTTTTCACCAAAATGAAATGA
1 AAATGGAGAAATGAAATCATTAGAAAATGAATGTTGTTTTCACCAAAATGAAATGA
52968810 AAA
1 AAA
52968813 ATGAAAATGA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
56 13 0.25
57 23 0.44
58 15 0.29
59 1 0.02
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (56 bp):
AAATGGAGAAATGAAATCATTAGAAAATGAATGTTGTTTTCACCAAAATGAAATGA
Found at i:52968821 original size:18 final size:18
Alignment explanation
Indices: 52968798--52968832 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52968788 TGTTTTCACC
52968798 AAAATGAAATGAAAAATG
1 AAAATGAAATGAAAAATG
**
52968816 AAAATGACTTGAAAAAT
1 AAAATGAAATGAAAAAT
52968833 AAATTTATGT
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:0.63, C:0.03, G:0.14, T:0.20
Consensus pattern (18 bp):
AAAATGAAATGAAAAATG
Found at i:52969224 original size:15 final size:16
Alignment explanation
Indices: 52969204--52969238 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
52969194 CTTAGTTGAA
52969204 CTAGGATTTCA-TTTT
1 CTAGGATTTCATTTTT
52969219 CTAGGATTTCATTTTT
1 CTAGGATTTCATTTTT
52969235 CTAG
1 CTAG
52969239 TTGAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.51
Consensus pattern (16 bp):
CTAGGATTTCATTTTT
Found at i:52971719 original size:42 final size:42
Alignment explanation
Indices: 52971619--52971732 Score: 119
Period size: 42 Copynumber: 2.7 Consensus size: 42
52971609 AATGGGTACA
** *
52971619 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATTCAGTATCG
1 ATGCCAACGTCCCAGACTG-GGTCTTACA-CAAAATCAGTATCG
*
52971662 ATGCC-TCTGTCCCAGACTGGGTCTTACACAAAATCAG-ATACG
1 ATGCCAAC-GTCCCAGACTGGGTCTTACACAAAATCAGTAT-CG
52971704 ATGCCAACGTCCCAGACAT-GGTCTTACAC
1 ATGCCAACGTCCCAGAC-TGGGTCTTACAC
52971733 CTAAATCTCA
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
41 2 0.03
42 33 0.54
43 25 0.41
44 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACTGGGTCTTACACAAAATCAGTATCG
Found at i:52972083 original size:9 final size:9
Alignment explanation
Indices: 52972062--52972098 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
52972052 AAAATTCAAA
52972062 CATTCAA-T
1 CATTCAATT
*
52972070 CATTCATTT
1 CATTCAATT
52972079 CATTCAATT
1 CATTCAATT
52972088 CATTCAATT
1 CATTCAATT
52972097 CA
1 CA
52972099 ATCCATATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 6 0.23
9 20 0.77
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.43
Consensus pattern (9 bp):
CATTCAATT
Found at i:52978131 original size:13 final size:13
Alignment explanation
Indices: 52978113--52978137 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52978103 AGCCAACAGA
52978113 CATGGCCGTGTGC
1 CATGGCCGTGTGC
52978126 CATGGCCGTGTG
1 CATGGCCGTGTG
52978138 ATACTTAGCT
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:0.08, C:0.28, G:0.40, T:0.24
Consensus pattern (13 bp):
CATGGCCGTGTGC
Found at i:52982928 original size:40 final size:40
Alignment explanation
Indices: 52982891--52983076 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
52982881 GCTACTCGTT
* *
52982891 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
52982931 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
52982971 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * * *
52983011 CCAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
52983052 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
52983077 CATCATTCGA
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.02
40 112 0.88
41 12 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:52984272 original size:56 final size:56
Alignment explanation
Indices: 52984205--52984324 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
52984195 TATTAGTTTA
52984205 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
52984261 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
52984317 TTGCCCAT
1 TTGCCCAT
52984325 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:52990854 original size:39 final size:40
Alignment explanation
Indices: 52990780--52990963 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
52990770 GCTACTCGTT
*
52990780 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
52990820 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
52990859 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
52990899 C-AATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
52990939 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52990964 CATCATTCGA
Statistics
Matches: 129, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
38 3 0.02
39 58 0.45
40 63 0.49
41 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:52990883 original size:79 final size:80
Alignment explanation
Indices: 52990780--52990963 Score: 250
Period size: 79 Copynumber: 2.3 Consensus size: 80
52990770 GCTACTCGTT
*
52990780 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCAC-AATGCCTTCGGATCTTAACCCG
* *
52990843 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
* **
52990859 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAATGCCTTCGGATCTTAACCCGGA
* *
52990924 TATGGTCACTTAGCA
66 TATAGTAACTTAGCA
52990939 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52990964 CATCATTCGA
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
78 12 0.13
79 71 0.76
80 10 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:52994715 original size:19 final size:19
Alignment explanation
Indices: 52994691--52994733 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
52994681 TATGTAACAA
52994691 ATATAT-TTATAAAAAATTC
1 ATATATCTT-TAAAAAATTC
**
52994710 ATATATCTTTCTAAAATTC
1 ATATATCTTTAAAAAATTC
52994729 ATATA
1 ATATA
52994734 AAATAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATATCTTTAAAAAATTC
Found at i:52995193 original size:27 final size:27
Alignment explanation
Indices: 52995130--52995200 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
52995120 CAAAGGGGGT
*
52995130 GTGGTGCCTATCTGATAGGCGACACCA
1 GTGGTGCCTATCTAATAGGCGACACCA
*** * **
52995157 GTGACCCCTATCTAATAGGCGGCACTG
1 GTGGTGCCTATCTAATAGGCGACACCA
52995184 GTGGTGCCTATCTAATA
1 GTGGTGCCTATCTAATA
52995201 AGTAACACAC
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (27 bp):
GTGGTGCCTATCTAATAGGCGACACCA
Found at i:53003158 original size:37 final size:36
Alignment explanation
Indices: 53003098--53003175 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 36
53003088 TTATTACGAA
* *
53003098 GTCTTACCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCGGACAAAATCTCCACACGAAGTCATCGG
*
53003134 GTCTTACCCGGACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTA-CCGGACAAAATCT-CCACACGAAGTCATCGG
53003171 GTCTT
1 GTCTT
53003176 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 7 0.19
37 30 0.81
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (36 bp):
GTCTTACCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:53003372 original size:47 final size:47
Alignment explanation
Indices: 53003294--53003700 Score: 665
Period size: 47 Copynumber: 8.6 Consensus size: 47
53003284 CCCTTCGGGA
* * * * * *
53003294 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53003341 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53003388 CTTATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53003434 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53003483 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53003530 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53003577 CTTATCACATATATACAC-TTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53003623 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53003674 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
53003701 TATTCAAATA
Statistics
Matches: 340, Mismatches: 12, Indels: 16
0.92 0.03 0.04
Matches are distributed among these distances:
46 71 0.21
47 178 0.52
48 10 0.03
49 36 0.11
50 10 0.03
51 35 0.10
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53003616 original size:189 final size:190
Alignment explanation
Indices: 53003294--53003700 Score: 717
Period size: 189 Copynumber: 2.1 Consensus size: 190
53003284 CCCTTCGGGA
* * * * * *
53003294 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
53003359 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTCACATTCATCACATCG
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTCACATTCATCACATCG
53003424 GCCATTAGGCCTTATCAC-ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GCCATTAGGCCTTATCACAATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53003483 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
53003548 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTCACATTCATCACGTCG
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTCACATTCATCACATCG
53003613 GCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GCCATTAGGCCTTATCACA-ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53003674 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
53003701 TATTCAAATA
Statistics
Matches: 207, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
189 139 0.67
191 68 0.33
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTCACATTCATCACATCG
GCCATTAGGCCTTATCACAATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53003637 original size:142 final size:141
Alignment explanation
Indices: 53003294--53003700 Score: 674
Period size: 142 Copynumber: 2.9 Consensus size: 141
53003284 CCCTTCGGGA
* * * * * * *
53003294 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACAC
53003359 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC-TTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
53003423 GGCCATTAGGC
131 GGCCATTAGGC
*
53003434 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATAC
53003499 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
53003564 TCGGCCATTAGGC
129 TCGGCCATTAGGC
53003577 CTTATCACATATATACAC-TTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC----ATATAT
53003641 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
53003701 TATTCAAATA
Statistics
Matches: 251, Mismatches: 9, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
140 43 0.17
141 10 0.04
142 96 0.38
143 36 0.14
144 66 0.26
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:53007269 original size:37 final size:37
Alignment explanation
Indices: 53007219--53007326 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
53007209 ACCTTTAGCT
* * *
53007219 CGGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
53007256 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* * *
53007293 CAGACATACTCTCCACACGTAGTCATCGGGTCTT
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTT
53007327 TAGAGCTCGG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:53007523 original size:47 final size:47
Alignment explanation
Indices: 53007445--53007748 Score: 527
Period size: 47 Copynumber: 6.5 Consensus size: 47
53007435 CCCTTCGGGA
* * * * * *
53007445 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53007492 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53007539 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53007586 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53007633 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53007680 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53007727 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
53007749 CAATGAATAA
Statistics
Matches: 245, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 245 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53013162 original size:62 final size:62
Alignment explanation
Indices: 53013065--53013200 Score: 245
Period size: 62 Copynumber: 2.2 Consensus size: 62
53013055 ACCTAATTAG
* *
53013065 ATTACAAAGTTTGTTCCCATTTTTAATGTTGTAATGTATTTAATTTATATAACAAAATTTAT
1 ATTACAAAGTTTGCTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAAAATTTAT
*
53013127 ATTACAAAGTTTGCTCCAATTTTTAATGTTGTAATGTATTTAATTTATATTACAAAATTTAT
1 ATTACAAAGTTTGCTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAAAATTTAT
53013189 ATTACAAAGTTT
1 ATTACAAAGTTT
53013201 ATTACAAGTT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 71 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (62 bp):
ATTACAAAGTTTGCTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAAAATTTAT
Found at i:53013187 original size:14 final size:14
Alignment explanation
Indices: 53013168--53013202 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
53013158 TAATGTATTT
53013168 AATTTATATTACAA
1 AATTTATATTACAA
53013182 AATTTATATTACAA
1 AATTTATATTACAA
*
53013196 AGTTTAT
1 AATTTAT
53013203 TACAAGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (14 bp):
AATTTATATTACAA
Found at i:53016257 original size:16 final size:16
Alignment explanation
Indices: 53016236--53016277 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
53016226 CTTCTGCTTC
53016236 TTCTTCTTCTCTTCT-T
1 TTCTTCTTC-CTTCTCT
53016252 TTCTTC-TCCTTCTCT
1 TTCTTCTTCCTTCTCT
53016267 TTCTTC-TCCTT
1 TTCTTCTTCCTT
53016278 TACTCACTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.20
15 14 0.56
16 6 0.24
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (16 bp):
TTCTTCTTCCTTCTCT
Found at i:53021354 original size:11 final size:11
Alignment explanation
Indices: 53021338--53021362 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
53021328 GATTGGAAGA
53021338 AAGACATAGTG
1 AAGACATAGTG
53021349 AAGACATAGTG
1 AAGACATAGTG
53021360 AAG
1 AAG
53021363 TATTCTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.28, T:0.16
Consensus pattern (11 bp):
AAGACATAGTG
Found at i:53025674 original size:48 final size:48
Alignment explanation
Indices: 53025598--53025996 Score: 394
Period size: 48 Copynumber: 8.8 Consensus size: 48
53025588 GGTTATACGG
53025598 GTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
1 GTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
* * ** *
53025646 GTAACGTGGTGCTAAGTGGATATGCCACGGTTACGTATATTGATTCAT
1 GTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
** *
53025694 -TAACGTGGTGCTAAGTGGATATA-C-C-A-T-----GGTT-ATACGT
1 GTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
* *
53025731 GAAACGTGGTGCTAAGTGCATATACCACGATTACACATATTGATACAT
1 GTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
* ** * * *
53025779 GTAACGTGGTGCTAGGTGGATATGTCACGGTTACATATATTGATTCAT
1 GTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
* *
53025827 -TAACGTGGTGCTAAGTGGATATACCACG---------GTT-ATACGT
1 GTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
*
53025864 GTAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACAT
1 GTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
* * * * * *
53025912 GTAACGTGGTGCTAATTGGATATGCCATGGTTACATATATTGATTCAT
1 GTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
* *
53025960 -TAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 GTAACGTGGTGCTAAGTGGATATACCACGATTACACAT
53025997 GTAATGTGGT
Statistics
Matches: 286, Mismatches: 43, Indels: 45
0.76 0.11 0.12
Matches are distributed among these distances:
37 8 0.03
38 52 0.18
39 1 0.00
40 1 0.00
41 1 0.00
42 1 0.00
43 1 0.00
45 1 0.00
46 1 0.00
47 83 0.29
48 136 0.48
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.32
Consensus pattern (48 bp):
GTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
Found at i:53025808 original size:133 final size:133
Alignment explanation
Indices: 53025565--53026034 Score: 796
Period size: 133 Copynumber: 3.5 Consensus size: 133
53025555 ATGGAAAAAT
*
53025565 GTGGTGCTAAGTGGATATACCACGGTTATACGGGTAACGTGGTGCTAAGTGGATATACCACGATT
1 GTGGTGCTAAGTGGATATACCACGGTTATACGTGTAACGTGGTGCTAAGTGGATATACCACGATT
*
53025630 ACACATATTGATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACGTATATTGATTCATT
66 ACACATATTGATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
53025695 AAC
131 AAC
* * *
53025698 GTGGTGCTAAGTGGATATACCATGGTTATACGTGAAACGTGGTGCTAAGTGCATATACCACGATT
1 GTGGTGCTAAGTGGATATACCACGGTTATACGTGTAACGTGGTGCTAAGTGGATATACCACGATT
* *
53025763 ACACATATTGATACATGTAACGTGGTGCTAGGTGGATATGTCACGGTTACATATATTGATTCATT
66 ACACATATTGATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
53025828 AAC
131 AAC
*
53025831 GTGGTGCTAAGTGGATATACCACGGTTATACGTGTAACGTGGTGCTAAGTGGATATACCATGATT
1 GTGGTGCTAAGTGGATATACCACGGTTATACGTGTAACGTGGTGCTAAGTGGATATACCACGATT
* *
53025896 ACACATATTGATACATGTAACGTGGTGCTAATTGGATATGCCATGGTTACATATATTGATTCATT
66 ACACATATTGATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
53025961 AAC
131 AAC
* * * * *
53025964 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAATGTGGTGCTAAGTGGATATGCCACGGTT
1 GTGGTGCTAAGTGGATATACCACGGTTATACGTGTAACGTGGTGCTAAGTGGATATACCACGATT
*
53026029 ATACAT
66 ACACAT
53026035 GTTAATTTGA
Statistics
Matches: 315, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
133 315 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (133 bp):
GTGGTGCTAAGTGGATATACCACGGTTATACGTGTAACGTGGTGCTAAGTGGATATACCACGATT
ACACATATTGATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
AAC
Found at i:53025878 original size:38 final size:38
Alignment explanation
Indices: 53025827--53026036 Score: 159
Period size: 38 Copynumber: 5.0 Consensus size: 38
53025817 ATTGATTCAT
*
53025827 TAACGTGGTGCTAAGTGGATATACCACGGTTATACGTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTATACATG
**
53025865 TAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACATG
1 TAACGTGGTGCTAAGTGGATATA-C-------CAC-GGTT-ATACATG
* * * *
53025913 TAACGTGGTGCTAATTGGATATGCCATGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG
*
53025954 ATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTATACATG
* *
53025998 TAATGTGGTGCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTATACATG
53026036 T
1 T
53026037 TAATTTGAAA
Statistics
Matches: 136, Mismatches: 18, Indels: 36
0.72 0.09 0.19
Matches are distributed among these distances:
38 59 0.43
39 3 0.02
40 6 0.04
41 2 0.01
44 2 0.01
45 3 0.02
46 3 0.02
47 31 0.23
48 27 0.20
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTATACATG
Found at i:53025883 original size:85 final size:86
Alignment explanation
Indices: 53025773--53025944 Score: 238
Period size: 85 Copynumber: 2.0 Consensus size: 86
53025763 ACACATATTG
* ** * * *
53025773 ATACATGTAACGTGGTGCTAGGTGGATATGTCACGGTTACATATATTGATTCAT-TAACGTGGTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGGTG
53025837 CTAAGTGGATATACCACGGTT
66 CTAAGTGGATATACCACGGTT
* *
53025858 ATACGTGTAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACATGTAACGTGGTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGGTG
* * *
53025923 CTAATTGGATATGCCATGGTT
66 CTAAGTGGATATACCACGGTT
53025944 A
1 A
53025945 CATATATTGA
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
85 46 0.61
86 29 0.39
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (86 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGGTG
CTAAGTGGATATACCACGGTT
Found at i:53034553 original size:22 final size:22
Alignment explanation
Indices: 53034527--53034570 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
53034517 GAAAATAATC
*
53034527 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
*
53034549 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
53034571 GTTGATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:53041285 original size:22 final size:22
Alignment explanation
Indices: 53041255--53041298 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
53041245 GAAAATAATA
*
53041255 AAAAATAATCAAAATTTATTAT
1 AAAAATAATCAAAATTCATTAT
* *
53041277 AAAATTAATTAAAATTCATTAT
1 AAAAATAATCAAAATTCATTAT
53041299 GTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAAATAATCAAAATTCATTAT
Found at i:53044311 original size:53 final size:53
Alignment explanation
Indices: 53044239--53044340 Score: 136
Period size: 53 Copynumber: 1.9 Consensus size: 53
53044229 AACTACGATA
* * *
53044239 AGGCAAAGATCCAATGTAAGACCATG-CTAAGGCATGGCAATGGTGAGTTCATG
1 AGGCAAAGATCCAATGTAAGACCATGTC-AAGACATGGAAATGGTAAGTTCATG
*
53044292 AGGCAAGGATACC-ATGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AGGCAAAGAT-CCAATGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
53044341 TAAAAAGGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
53 40 0.93
54 3 0.07
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (53 bp):
AGGCAAAGATCCAATGTAAGACCATGTCAAGACATGGAAATGGTAAGTTCATG
Found at i:53051196 original size:27 final size:27
Alignment explanation
Indices: 53051122--53051207 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 27
53051112 CAAAACAATC
* * * * *
53051122 ATTTTACCCCACAGGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATTTCGGTA
*
53051149 ATTTTACACTACAAGGGTATTTTGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
*
53051176 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGGTA
53051203 ATTTT
1 ATTTT
53051208 TCAAATCGGG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:53051251 original size:54 final size:54
Alignment explanation
Indices: 53051192--53051482 Score: 222
Period size: 54 Copynumber: 5.4 Consensus size: 54
53051182 CACTACAAGG
* ** *
53051192 GTATTTCGATAATTTTTCAAATCGGGAGTGTTTTAATAATTTTACAAATCGATT
1 GTATTTCGATAATTTTACAAATCGGGAGTGTTTCGATAATTTTACAAATCGAGT
* * * * * *
53051246 TTATTTTGATAATTTTACAAATCGAGAGTGTTTCGGTAATTTTATAAATCAAGGGT
1 GTATTTCGATAATTTTACAAATCGGGAGTGTTTCGATAATTTTACAAATC--GAGT
* *
53051302 GT-TTTAG-TAATTTTACAAATCGAGG-GTGATTCGATAATTTTACAAATCGAGT
1 GTATTTCGATAATTTTACAAATCG-GGAGTGTTTCGATAATTTTACAAATCGAGT
* * * * * *
53051354 GTGTTTCGGTAATTTCACAAATCGGGGGTATTTCGATAATTTTACAAATTGAAG-
1 GTATTTCGATAATTTTACAAATCGGGAGTGTTTCGATAATTTTACAAATCG-AGT
* * * * *
53051408 GTATTTC-AGTAATTTCAC-AATCAAGG-GTATTTC-AGTAATTTTACAAAT-TAGGG
1 GTATTTCGA-TAATTTTACAAATC-GGGAGTGTTTCGA-TAATTTTACAAATCGA-GT
* *
53051461 GTATTTTGGTAATTTTACAAAT
1 GTATTTCGATAATTTTACAAAT
53051483 TAAGTGTATT
Statistics
Matches: 194, Mismatches: 29, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
51 1 0.01
52 7 0.04
53 44 0.23
54 132 0.68
55 7 0.04
56 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (54 bp):
GTATTTCGATAATTTTACAAATCGGGAGTGTTTCGATAATTTTACAAATCGAGT
Found at i:53051463 original size:80 final size:80
Alignment explanation
Indices: 53051164--53051530 Score: 237
Period size: 81 Copynumber: 4.5 Consensus size: 80
53051154 ACACTACAAG
** * ** * **
53051164 GGTATTTTGGTAATTTTACACTACAAGGGTATTTC-GATAATTTTTCAAATC-GGGAGTGTTTTA
1 GGTATTTCAGTAATTTTACAAT-CAAGGGTATTTCAG-TAATTTCACAAATCAGGG-GTATTTCG
* *
53051227 ATAATTTTACAAATCGAT
63 ATAATTTTACAAATTGAA
** * * * * * * * *
53051245 TTTATTT-TGATAATTTTACAAATCGAGAGTGTTTCGGTAATTTTATAAATCAAGGGTGT-TTTA
1 GGTATTTCAG-TAATTTTAC-AATCAAGGGTATTTCAGTAATTTCACAAATC-AGGG-GTATTTC
* *
53051308 G-TAATTTTACAAATCGAG
62 GATAATTTTACAAATTGAA
* * * * *
53051326 GGTGA-TTC-GATAATTTTACAAATCGAGTGTGTTTCGGTAATTTCACAAATCGGGGGTATTTCG
1 GGT-ATTTCAG-TAATTTTAC-AATCAAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTCG
53051389 ATAATTTTACAAATTGAA
63 ATAATTTTACAAATTGAA
* * * * *
53051407 GGTATTTCAGTAATTTCACAATCAAGGGTATTTCAGTAATTTTACAAATTAGGGGTATTTTGGTA
1 GGTATTTCAGTAATTTTACAATCAAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTCGATA
53051472 ATTTTACAAATT-AA
66 ATTTTACAAATTGAA
* * * * *
53051486 GTGTATTTTAGTAATTTTACAAACTAGGGGTACTTCGGTAATTTC
1 G-GTATTTCAGTAATTTTACAATC-AAGGGTATTTCAGTAATTTC
53051531 TCTTTATTAT
Statistics
Matches: 234, Mismatches: 39, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
79 5 0.02
80 77 0.33
81 139 0.59
82 8 0.03
83 5 0.02
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (80 bp):
GGTATTTCAGTAATTTTACAATCAAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTCGATA
ATTTTACAAATTGAA
Found at i:53051526 original size:27 final size:26
Alignment explanation
Indices: 53051134--53051529 Score: 193
Period size: 27 Copynumber: 14.7 Consensus size: 26
53051124 TTTACCCCAC
* * * *
53051134 AGGGGTATGTCGGTCATTTTACACTAC
1 AGGGGTATTTCGGTAATTTTACA-AAT
* * * *
53051161 AAGGGTATTTTGGTAATTTTACACTAC
1 AGGGGTATTTCGGTAATTTTACA-AAT
* * *
53051188 AAGGGTATTTCGATAATTTTTCAAAT
1 AGGGGTATTTCGGTAATTTTACAAAT
* * ***
53051214 CGGGAGTGTTTTAATAATTTTACAAAT
1 AGGG-GTATTTCGGTAATTTTACAAAT
* *** * *
53051241 CGATTTTATTTTGATAATTTTACAAAT
1 AG-GGGTATTTCGGTAATTTTACAAAT
* * * *
53051268 CGAGAGTGTTTCGGTAATTTTATAAAT
1 AG-GGGTATTTCGGTAATTTTACAAAT
* * **
53051295 CAAGGGTGTTTTAGTAATTTTACAAAT
1 -AGGGGTATTTCGGTAATTTTACAAAT
* *
53051322 CGAGGGTGA-TTCGATAATTTTACAAAT
1 AG-GGGT-ATTTCGGTAATTTTACAAAT
* * * *
53051349 CGAGTGTGTTTCGGTAATTTCACAAAT
1 AG-GGGTATTTCGGTAATTTTACAAAT
* *
53051376 CGGGGGTATTTCGATAATTTTACAAAT
1 -AGGGGTATTTCGGTAATTTTACAAAT
* * * *
53051403 TGAAGGTATTTCAGTAATTTCAC-AAT
1 AG-GGGTATTTCGGTAATTTTACAAAT
* *
53051429 CAAGGGTATTTCAGTAATTTTACAAATT
1 -AGGGGTATTTCGGTAATTTTACAAA-T
*
53051457 AGGGGTATTTTGGTAATTTTACAAATT
1 AGGGGTATTTCGGTAATTTTACAAA-T
* * **
53051484 AAGTGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTCGGTAATTTTACAAA-T
*
53051511 AGGGGTACTTCGGTAATTT
1 AGGGGTATTTCGGTAATTT
53051530 CTCTTTATTA
Statistics
Matches: 289, Mismatches: 69, Indels: 22
0.76 0.18 0.06
Matches are distributed among these distances:
26 25 0.09
27 262 0.91
28 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (26 bp):
AGGGGTATTTCGGTAATTTTACAAAT
Found at i:53051883 original size:28 final size:28
Alignment explanation
Indices: 53051844--53051899 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
53051834 TTTGGCCCCT
*
53051844 TTAGGCCCAATCACATTCACATGGCCCA
1 TTAGACCCAATCACATTCACATGGCCCA
*
53051872 TTAGACCCAATCACATTCATATGGCCCA
1 TTAGACCCAATCACATTCACATGGCCCA
53051900 CCAAGCCAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.34, G:0.12, T:0.23
Consensus pattern (28 bp):
TTAGACCCAATCACATTCACATGGCCCA
Found at i:53051919 original size:33 final size:30
Alignment explanation
Indices: 53051846--53051925 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 30
53051836 TGGCCCCTTT
**
53051846 AGGCCCAATCACATTCACATGGCCCATTAG
1 AGGCCCAATCACATTCACATGGCCCACAAG
*
53051876 A--CCCAATCACATTCATATGGCCCACCAAG
1 AGGCCCAATCACATTCACATGGCCCA-CAAG
53051905 CCAGGCCCAATCACATTCACA
1 --AGGCCCAATCACATTCACA
53051926 CCTAACAGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
28 22 0.54
29 2 0.05
30 1 0.02
31 1 0.02
33 15 0.37
ACGTcount: A:0.33, C:0.38, G:0.12, T:0.17
Consensus pattern (30 bp):
AGGCCCAATCACATTCACATGGCCCACAAG
Found at i:53053726 original size:13 final size:13
Alignment explanation
Indices: 53053708--53053773 Score: 107
Period size: 13 Copynumber: 5.1 Consensus size: 13
53053698 AGTTTGGCAA
53053708 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
53053721 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
53053734 TGC-TTTGAAAAAG
1 TGCTTTTG-AAAAG
*
53053747 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
53053760 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
53053773 T
1 T
53053774 TTGGTTTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
12 4 0.08
13 41 0.84
14 4 0.08
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:53053995 original size:24 final size:23
Alignment explanation
Indices: 53053956--53054071 Score: 70
Period size: 24 Copynumber: 5.3 Consensus size: 23
53053946 TTAATATTTT
* *
53053956 AATATATA-AAATATAAATTTTA
1 AATATTTATAAATATAAATATTA
*
53053978 AATATTTTTAAATAATAAATATTA
1 AATATTTATAAAT-ATAAATATTA
* **
53054002 ATTATTTATAAA-ATTTA-ATTA
1 AATATTTATAAATATAAATATTA
*
53054023 GAATA--TATAAACTAT--ATTTTA
1 -AATATTTATAAA-TATAAATATTA
*
53054044 AATA-TT-TAAATATAACTATTA
1 AATATTTATAAATATAAATATTA
53054065 AATATTT
1 AATATTT
53054072 GTAATTAGTA
Statistics
Matches: 73, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
19 3 0.04
20 15 0.21
21 16 0.22
22 16 0.22
23 4 0.05
24 19 0.26
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.46
Consensus pattern (23 bp):
AATATTTATAAATATAAATATTA
Found at i:53058249 original size:42 final size:42
Alignment explanation
Indices: 53058167--53058263 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
53058157 CGAGATTCCT
* * * * *
53058167 TATAAGACCATATCTGGGATATGGCATCGGTGTGTGATTTTG
1 TATAAGACCATATCAGGGACATGGCATCGATATGTGATTTTA
* *
53058209 TATAAGACCATGTCAGGGACATGGCGTCGATATGAT-ATTTTA
1 TATAAGACCATATCAGGGACATGGCATCGATATG-TGATTTTA
*
53058251 TGTAAGACCATAT
1 TATAAGACCATAT
53058264 TCGGGGTATG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (42 bp):
TATAAGACCATATCAGGGACATGGCATCGATATGTGATTTTA
Found at i:53066392 original size:26 final size:26
Alignment explanation
Indices: 53066370--53066443 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
53066360 CATATACTGA
53066370 TACTGGCAGCTTTGCTGCGATACTAC
1 TACTGGCAGCTTTGCTGCGATACTAC
* * * * *
53066396 TACTGGCAGCCTTGTTGTGTTACTAG
1 TACTGGCAGCTTTGCTGCGATACTAC
*
53066422 TACTGGGAGCTTTGCTGCGATA
1 TACTGGCAGCTTTGCTGCGATA
53066444 TTGGTGTGTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.34
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGATACTAC
Found at i:53073708 original size:19 final size:18
Alignment explanation
Indices: 53073667--53073701 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
53073657 GATGGGCCGA
53073667 AATGGGCTGTGTAGGCTC
1 AATGGGCTGTGTAGGCTC
*
53073685 AATGGGCT-TGTGGGCTC
1 AATGGGCTGTGTAGGCTC
53073702 CACATGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.17, G:0.40, T:0.29
Consensus pattern (18 bp):
AATGGGCTGTGTAGGCTC
Found at i:53076706 original size:93 final size:93
Alignment explanation
Indices: 53076546--53076772 Score: 355
Period size: 93 Copynumber: 2.4 Consensus size: 93
53076536 TGTAACCCGC
* * *
53076546 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCTCGAACTTGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGAAC
* *
53076611 TCAACTCAATGAGTTTAGACATTCGCAT
66 TCAACTCAACGAGTTCAGACATTCGCAT
*
53076639 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTGTCGAACTCGAAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGAAC
*
53076704 TCAACTCAACGAGTTCGGACATTCGCAT
66 TCAACTCAACGAGTTCAGACATTCGCAT
* * * *
53076732 CGATAAGTGAAATCAGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCC
53076773 AAAATATCCT
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 123 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGAAC
TCAACTCAACGAGTTCAGACATTCGCAT
Found at i:53076707 original size:47 final size:47
Alignment explanation
Indices: 53076554--53076722 Score: 166
Period size: 47 Copynumber: 3.6 Consensus size: 47
53076544 GCCCATAAGT
* *
53076554 GAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTGTC
* * * * * * * **
53076601 GAACTTGGACTCAACTCAATGAGTTTAGACATTCGC-A--TCCATAAGT-
1 GAACTCGGACTCAACTCAACGAG-CTCG-GATGC-CTAGTTACATCTGTC
53076647 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTGTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTGTC
* *
53076694 GAACTCGAACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
53076723 CATTCGCATC
Statistics
Matches: 94, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 27 0.29
47 53 0.56
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTGTC
Found at i:53076763 original size:46 final size:44
Alignment explanation
Indices: 53076608--53076768 Score: 141
Period size: 46 Copynumber: 3.5 Consensus size: 44
53076598 CTCGAACTTG
* **
53076608 GACTCAACTCAATGAGTTTAGACATTCGCATCCATAAGTGAACTC
1 GACTCAACTCAACGAGTTCGGACATTCGCAT-CATAAGTGAACTC
* *
53076653 GGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATC-T--GTCGAACTC
1 -GACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCATAAGT-GAACTC
*
53076700 GAACTCAACTCAACGAGTTCGGACATTCGCATCGATAAGTGAAATC
1 G-ACTCAACTCAACGAGTTCGGACATTCGCATC-ATAAGTGAACTC
53076746 AGACTCAACTCAACGAGTTCGGA
1 -GACTCAACTCAACGAGTTCGGA
53076769 TGCCAAAATA
Statistics
Matches: 94, Mismatches: 8, Indels: 26
0.73 0.06 0.20
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 1 0.01
46 47 0.50
47 29 0.31
48 1 0.01
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (44 bp):
GACTCAACTCAACGAGTTCGGACATTCGCATCATAAGTGAACTC
Found at i:53086787 original size:27 final size:27
Alignment explanation
Indices: 53086742--53086813 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
53086732 GCAAATCTGC
* *
53086742 CATTTTACCTTACAAGGGTATTACAGT
1 CATTTTACCCTATAAGGGTATTACAGT
* * *
53086769 CATTTTACCCTATAGGGGTATTTCGGT
1 CATTTTACCCTATAAGGGTATTACAGT
*
53086796 CACTTTACCCTATAAGGG
1 CATTTTACCCTATAAGGG
53086814 AAAAACAATC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
CATTTTACCCTATAAGGGTATTACAGT
Found at i:53091392 original size:27 final size:27
Alignment explanation
Indices: 53091347--53091421 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
53091337 GAACAAATCT
* *
53091347 GTCATTTTACCTTACAGGGATATTACA
1 GTCATTTTACCCTATAGGGATATTACA
* * * *
53091374 GTTATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGATATTACA
53091401 GTCATTTTACCCTATAAGGGA
1 GTCATTTTACCCTAT-AGGGA
53091422 AAAATAGTCA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
27 35 0.90
28 4 0.10
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGATATTACA
Found at i:53098567 original size:24 final size:24
Alignment explanation
Indices: 53098540--53098594 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
53098530 TTAAATTCAT
*
53098540 ATACATATACACATGAACACATAC
1 ATACATATACACATAAACACATAC
* *
53098564 ATACTTATACACATAAACACATAT
1 ATACATATACACATAAACACATAC
53098588 ATACATA
1 ATACATA
53098595 CCTTCCACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.51, C:0.22, G:0.02, T:0.25
Consensus pattern (24 bp):
ATACATATACACATAAACACATAC
Found at i:53105555 original size:15 final size:15
Alignment explanation
Indices: 53105533--53105602 Score: 65
Period size: 15 Copynumber: 4.7 Consensus size: 15
53105523 GTATCTTGGG
*
53105533 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
53105548 TCTT-TTTATTCTGGA
1 T-TTCTTTATTCTGGA
*
53105563 TTTCTTTATTCTGGGC
1 TTTCTTTATTCT-GGA
*
53105579 TTT-TCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
53105593 TTTCTTTATT
1 TTTCTTTATT
53105603 TGGTTATCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
14 9 0.20
15 27 0.61
16 8 0.18
ACGTcount: A:0.11, C:0.16, G:0.13, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:53105602 original size:30 final size:30
Alignment explanation
Indices: 53105524--53105602 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 30
53105514 CATAGTATCG
* * *
53105524 TATCTTGGGTTTCTTTATCCTGGATCTTTT
1 TATCTTGGATTTCTTTATTCTGGAGCTTTT
53105554 TAT-TCTGGATTTCTTTATTCTGG-GCTTTT
1 TATCT-TGGATTTCTTTATTCTGGAGCTTTT
53105583 CTATCTTGGATTTCTTTATT
1 -TATCTTGGATTTCTTTATT
53105603 TGGTTATCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
29 6 0.14
30 36 0.84
31 1 0.02
ACGTcount: A:0.11, C:0.15, G:0.15, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGAGCTTTT
Found at i:53109384 original size:40 final size:40
Alignment explanation
Indices: 53109329--53109473 Score: 220
Period size: 40 Copynumber: 3.6 Consensus size: 40
53109319 CGGATGATAA
* * *
53109329 CCGGGCTATGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
53109369 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
53109409 CCGGGCTAACTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
53109449 CTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
53109474 AGCAAGTAGT
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 96 0.99
41 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:53109488 original size:80 final size:80
Alignment explanation
Indices: 53109329--53109505 Score: 207
Period size: 80 Copynumber: 2.2 Consensus size: 80
53109319 CGGATGATAA
** * *
53109329 CCGGGCTATGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAATCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCATTTG
* *
53109394 TGCGAGTTACTATAT
66 AGCAAGTTACTATAT
* * *
53109409 CCGGGCTAACTCCCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAATCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCGAAGGCATTT
*
53109473 GAGCAAG-TAGTTATAT
65 GAGCAAGTTA-CTATAT
* *
53109489 TC-GGCTAAATCTCGAAG
1 CCGGGCTAAATCCCGAAG
53109506 ATGCTTGGGT
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
79 17 0.20
80 66 0.80
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAATCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCATTTG
AGCAAGTTACTATAT
Found at i:53109773 original size:22 final size:21
Alignment explanation
Indices: 53109732--53109775 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
53109722 GAATGTGCAT
53109732 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
53109754 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
53109776 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:53116844 original size:40 final size:40
Alignment explanation
Indices: 53116786--53117010 Score: 371
Period size: 40 Copynumber: 5.6 Consensus size: 40
53116776 CAGATAATAA
* *
53116786 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
53116826 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
53116866 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
53116906 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
53116946 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
53116986 CCGGGCTAAGTCCTGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
53117011 AGCAAGTAGT
Statistics
Matches: 174, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 173 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:53117308 original size:22 final size:21
Alignment explanation
Indices: 53117267--53117310 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
53117257 GAATGTGCAT
53117267 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
53117289 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
53117311 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:53118860 original size:46 final size:46
Alignment explanation
Indices: 53118734--53118845 Score: 172
Period size: 46 Copynumber: 2.4 Consensus size: 46
53118724 TTTGGGCATT
53118734 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCC
* * *
53118780 TGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACT-CC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AAATGCC
*
53118826 CGAGCTCGTTGAGTTGAGTC
1 CGAACTCGTTGAGTTGAGTC
53118846 TGAATTCGGT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 56 0.95
47 3 0.05
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCC
Found at i:53123311 original size:29 final size:29
Alignment explanation
Indices: 53123265--53123399 Score: 150
Period size: 29 Copynumber: 4.7 Consensus size: 29
53123255 GGTTAAAACA
* *
53123265 ATCCCTTTTCATAGTTGATGACCGTCACC
1 ATCCCTTTTCATAATTGATGATCGTCACC
* * *
53123294 ATCCCTTTTCATAATTGAT-AGTTG-AAGCT
1 ATCCCTTTTCATAATTGATGA-TCGTCA-CC
*
53123323 ATCCCTTTTCAT-ATTCGATGGTCGTCACC
1 ATCCCTTTTCATAATT-GATGATCGTCACC
* *
53123352 ATCCCTTTTCATAGTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTGATGATCGTCACC
53123381 ATCCCTTTTCATAATTGAT
1 ATCCCTTTTCATAATTGAT
53123400 AGCCGAAGCT
Statistics
Matches: 89, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
28 5 0.06
29 81 0.91
30 3 0.03
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.39
Consensus pattern (29 bp):
ATCCCTTTTCATAATTGATGATCGTCACC
Found at i:53123383 original size:87 final size:87
Alignment explanation
Indices: 53123265--53123428 Score: 292
Period size: 87 Copynumber: 1.9 Consensus size: 87
53123255 GGTTAAAACA
**
53123265 ATCCCTTTTCATAGTTGATGACCGTCACCATCCCTTTTCATAATTGATAGTTGAAGCTATCCCTT
1 ATCCCTTTTCATAGTTGATGACCGTCACCATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTT
53123330 TTCATATTCGATGGTCGTCACC
66 TTCATATTCGATGGTCGTCACC
**
53123352 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTT
1 ATCCCTTTTCATAGTTGATGACCGTCACCATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTT
53123417 TTCATATTCGAT
66 TTCATATTCGAT
53123429 AGCCGAAGCT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.38
Consensus pattern (87 bp):
ATCCCTTTTCATAGTTGATGACCGTCACCATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTT
TTCATATTCGATGGTCGTCACC
Found at i:53123385 original size:58 final size:58
Alignment explanation
Indices: 53123223--53123393 Score: 186
Period size: 58 Copynumber: 2.9 Consensus size: 58
53123213 AATGTGCTAA
* * * *
53123223 CGATGGTCGTAACCGTCCCTTTTCATATTTG-TGGTTAAAACAATCCCTTTTCATAGTT
1 CGATGGTCGTCACCATCCCTTTTCATAATTGATGGTT-GAACAATCCCTTTTCATAGTT
** * *
53123281 -GATGACCGTCACCATCCCTTTTCATAATTGATAGTTGAAGCTATCCCTTTTCATA-TT
1 CGATGGTCGTCACCATCCCTTTTCATAATTGATGGTTGAA-CAATCCCTTTTCATAGTT
* * * *
53123338 CGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATA
1 CGATGGTCGTCACCATCCCTTTTCATAATTGATGGTTG-AACAATCCCTTTTCATA
53123394 ATTGATAGCC
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
57 29 0.31
58 64 0.68
59 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.38
Consensus pattern (58 bp):
CGATGGTCGTCACCATCCCTTTTCATAATTGATGGTTGAACAATCCCTTTTCATAGTT
Found at i:53123413 original size:29 final size:29
Alignment explanation
Indices: 53123294--53123457 Score: 138
Period size: 29 Copynumber: 5.7 Consensus size: 29
53123284 GACCGTCACC
*
53123294 ATCCCTTTTCATAATTGATAGTTGAAGCT
1 ATCCCTTTTCATAATTGATAGTCGAAGCT
* * *
53123323 ATCCCTTTTCAT-ATTCGATGGTCGTCA-CC
1 ATCCCTTTTCATAATT-GATAGTCG-AAGCT
* * * *
53123352 ATCCCTTTTCATAGTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAATTGATAGTCG-AAGCT
*
53123381 ATCCCTTTTCATAATTGATAGCCGAAGCT
1 ATCCCTTTTCATAATTGATAGTCGAAGCT
*
53123410 ATCCCTTTTCAT-ATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATT-GATAGTCGAAGCT
* * * *
53123439 AACTCTTTTTATATTTGAT
1 ATCCCTTTTCATAATTGAT
53123458 GATCGCCGAT
Statistics
Matches: 115, Mismatches: 14, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
28 7 0.06
29 103 0.90
30 5 0.04
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (29 bp):
ATCCCTTTTCATAATTGATAGTCGAAGCT
Found at i:53123447 original size:87 final size:87
Alignment explanation
Indices: 53123267--53123459 Score: 262
Period size: 87 Copynumber: 2.2 Consensus size: 87
53123257 TTAAAACAAT
**
53123267 CCCTTTTCATAGTTGATGACCGTCACCATCCCTTTTCATAATTGATAGTTGAAGCTATCCCTTTT
1 CCCTTTTCATAGTTGATGACCGTCACCATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTTTT
* * * *
53123332 CATATTCGATGGTCGTCACCAT
66 CATATTCGATAGCCGTAACCAA
**
53123354 CCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTTTT
1 CCCTTTTCATAGTTGATGACCGTCACCATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTTTT
*
53123419 CATATTCGATAGCCG-AAGCTAA
66 CATATTCGATAGCCGTAA-CCAA
* * *
53123441 CTCTTTTTATATTTGATGA
1 CCCTTTTCATAGTTGATGA
53123460 TCGCCGATAC
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
86 1 0.01
87 91 0.99
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (87 bp):
CCCTTTTCATAGTTGATGACCGTCACCATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTTTT
CATATTCGATAGCCGTAACCAA
Found at i:53128932 original size:67 final size:67
Alignment explanation
Indices: 53128821--53128958 Score: 222
Period size: 67 Copynumber: 2.1 Consensus size: 67
53128811 CCATGTTAAA
* * *
53128821 GTTTGATTAAAGGTTCGTTTTTGATTCATTTTCGATAATTTCTATGTTTTTGTGATCATTGCTTT
1 GTTTGATTAAAGGTTCATTTTTGATCCATTTTCGATAATGTCTATGTTTTTGTGATCATTGCTTT
53128886 AT
66 AT
* *
53128888 GTTTGATTAAAGGTTCATTTTTGATCCATTTTTGATAATGTCTATGTTTTTGTGATCGTTGCTTT
1 GTTTGATTAAAGGTTCATTTTTGATCCATTTTCGATAATGTCTATGTTTTTGTGATCATTGCTTT
*
53128953 GT
66 AT
53128955 GTTT
1 GTTT
53128959 TACTAAGCCC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.55
Consensus pattern (67 bp):
GTTTGATTAAAGGTTCATTTTTGATCCATTTTCGATAATGTCTATGTTTTTGTGATCATTGCTTT
AT
Found at i:53142210 original size:47 final size:47
Alignment explanation
Indices: 53142156--53142466 Score: 453
Period size: 47 Copynumber: 6.6 Consensus size: 47
53142146 TATTTGAATA
* * * *
53142156 AATGTGAAAGTGTATATATGTGTTAAGACCTAATGGCCGATGTTATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
53142203 AATGTGAAAGTGTATATATGTTATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
53142250 AATGTGAATGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
53142299 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
53142346 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
53142393 AATGTGAAAGTGTATATATGTGATAGGGCC-AAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAA-TGGCCAATGTGATG
* *
53142440 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53142467 TCCCGAAGGG
Statistics
Matches: 241, Mismatches: 20, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
46 2 0.01
47 196 0.81
49 43 0.18
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:53142318 original size:143 final size:141
Alignment explanation
Indices: 53142156--53142466 Score: 489
Period size: 143 Copynumber: 2.2 Consensus size: 141
53142146 TATTTGAATA
* * *
53142156 AATGTGAAAGTGTATATATGTGTTAAGACCTAATGGCCGATGTTATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGACCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
* *
53142221 TGTTATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTATATATATGTGATAAGGCCTAA-
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC-AAG
* *
53142285 TGGCCGATGTGATG
128 TGGCCAACGTGATG
*
53142299 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGACCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
*
53142364 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCAAGTGG
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAAGTGG
53142429 CCAACGTGATG
131 CCAACGTGATG
* *
53142440 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53142467 TCCCGAAGGG
Statistics
Matches: 156, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
140 2 0.01
141 54 0.35
143 100 0.64
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGACCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAAGTGG
CCAACGTGATG
Found at i:53144281 original size:40 final size:40
Alignment explanation
Indices: 53143878--53144269 Score: 640
Period size: 40 Copynumber: 9.8 Consensus size: 40
53143868 GAGAATTGAG
53143878 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
53143918 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
53143958 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
53143998 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
53144038 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
53144078 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
53144118 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
53144158 AGTGATGTATCCAGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * ** *
53144198 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGTT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
53144238 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
53144270 ATCATGCTGG
Statistics
Matches: 331, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 331 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:53148349 original size:47 final size:47
Alignment explanation
Indices: 53148295--53148699 Score: 684
Period size: 47 Copynumber: 8.6 Consensus size: 47
53148285 TATTTGAATA
53148295 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53148342 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53148389 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53148438 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53148485 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53148532 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53148579 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
53148626 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53148673 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53148700 TCCCGAAGGG
Statistics
Matches: 342, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 297 0.87
49 45 0.13
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:53150182 original size:22 final size:22
Alignment explanation
Indices: 53150157--53150202 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
53150147 TTATTATTAA
53150157 CACATTTCATGGATTTCCATGC
1 CACATTTCATGGATTTCCATGC
53150179 CACATTTCATGGATTTCCATGC
1 CACATTTCATGGATTTCCATGC
53150201 CA
1 CA
53150203 TCACAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (22 bp):
CACATTTCATGGATTTCCATGC
Found at i:53151809 original size:28 final size:28
Alignment explanation
Indices: 53151766--53151823 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
53151756 TGCCACTAGA
*
53151766 GTTAGAAAAGACTCATAATGTGTTTCAC
1 GTTAGAAAAAACTCATAATGTGTTTCAC
*
53151794 GTTAGAAAAAATTCATAATGTGTTTCAC
1 GTTAGAAAAAACTCATAATGTGTTTCAC
53151822 GT
1 GT
53151824 ATCAATGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (28 bp):
GTTAGAAAAAACTCATAATGTGTTTCAC
Found at i:53153439 original size:42 final size:43
Alignment explanation
Indices: 53153356--53153479 Score: 132
Period size: 42 Copynumber: 2.9 Consensus size: 43
53153346 CACATCTAGA
*
53153356 ATGTTAGCATCG-ACTTATGATTTATGTGTAAGACCACGTTTGGG
1 ATGTTGGCATCGTA-TT-TGATTTATGTGTAAGACCACGTTTGGG
53153400 ATGTTGGCATCGTATTTGATTT-TGTGTAAGACC-CTGTTTGGG
1 ATGTTGGCATCGTATTTGATTTATGTGTAAGACCAC-GTTTGGG
* **
53153442 A-GAGTGGCATCGATATTTGA-TTACATGTAAGACCACGT
1 ATG-TTGGCATCG-TATTTGATTTATGTGTAAGACCACGT
53153480 CTATGACGTT
Statistics
Matches: 70, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
41 2 0.03
42 29 0.41
43 24 0.34
44 14 0.20
45 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (43 bp):
ATGTTGGCATCGTATTTGATTTATGTGTAAGACCACGTTTGGG
Found at i:53155329 original size:16 final size:16
Alignment explanation
Indices: 53155308--53155339 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
53155298 ATTTTACGCA
53155308 TGTTGAACATGTAAGT
1 TGTTGAACATGTAAGT
53155324 TGTTGAACATGTAAGT
1 TGTTGAACATGTAAGT
53155340 ATTTTTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (16 bp):
TGTTGAACATGTAAGT
Found at i:53157693 original size:27 final size:26
Alignment explanation
Indices: 53157655--53157714 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
53157645 CCACATATAT
* *
53157655 ATATTTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
53157681 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
53157708 ATATCTG
1 ATATCTG
53157715 GTAGCTTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:53159258 original size:15 final size:17
Alignment explanation
Indices: 53159228--53159259 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
53159218 TTGATACTTG
53159228 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
53159245 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
53159260 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:53165888 original size:40 final size:40
Alignment explanation
Indices: 53165744--53165937 Score: 196
Period size: 40 Copynumber: 4.8 Consensus size: 40
53165734 TTCGAATGAT
* * * * * *
53165744 ATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAGC-GAGTTACTAA
* * *
53165785 ATCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAGCGAGTTACTAA
* * *
53165825 TTCTGGGCTAAG-CCCGAAGGCATTGGAGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAA
* *
53165864 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAGTTACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTA-A
* *
53165905 A-CTGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
53165938 AGCTATATCC
Statistics
Matches: 129, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
39 32 0.25
40 68 0.53
41 28 0.22
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAA
Found at i:53165889 original size:79 final size:79
Alignment explanation
Indices: 53165802--53165963 Score: 213
Period size: 79 Copynumber: 2.1 Consensus size: 79
53165792 CTAAGATCCA
* *
53165802 AAGGCATTTGTGCGAGTTACTA-ATTCTGGGCTAAG-CCCGAAGGCATTGGAGCGAGTTA-CTAA
1 AAGGCATTTGCGCGAGTTACTATA-ACTGGGCTAAGTCCCGAAGGCATTGGAGCGAG-TAGCTAA
*
53165864 ATCCGGGTTAAGTCCCG
64 ATCC-GGTTAAATCCCG
* * *
53165881 AAGGCATTTGCGCGAGTTACTATAACTGGGCTATGTCCCGAAGGCATTTGAGCGAGTAGCTATAT
1 AAGGCATTTGCGCGAGTTACTATAACTGGGCTAAGTCCCGAAGGCATTGGAGCGAGTAGCTAAAT
*
53165946 CCGGTTAAATTCCG
66 CCGGTTAAATCCCG
53165960 AAGG
1 AAGG
53165964 TATGTTTCGT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
79 46 0.63
80 27 0.37
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGCGCGAGTTACTATAACTGGGCTAAGTCCCGAAGGCATTGGAGCGAGTAGCTAAAT
CCGGTTAAATCCCG
Found at i:53167905 original size:34 final size:34
Alignment explanation
Indices: 53167862--53167927 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
53167852 AATTTTTGTT
*
53167862 ACTGTTACTGTTACTG-AGTTGGGCTAAGGCCCAC
1 ACTGTTACTGATACTGTA-TTGGGCTAAGGCCCAC
*
53167896 ACTGTTACTGATATTGTATTGGGCTAAGGCCC
1 ACTGTTACTGATACTGTATTGGGCTAAGGCCC
53167928 TAACTGATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (34 bp):
ACTGTTACTGATACTGTATTGGGCTAAGGCCCAC
Found at i:53186789 original size:27 final size:26
Alignment explanation
Indices: 53186758--53186808 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
53186748 ATACAGTCTG
* *
53186758 GGCCTGAGCCTATTACAGATACAATTT
1 GGCCTGAGCCCAAT-CAGATACAATTT
*
53186785 GGCCTTAGCCCAATCAGATACAAT
1 GGCCTGAGCCCAATCAGATACAAT
53186809 CTCAGATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (26 bp):
GGCCTGAGCCCAATCAGATACAATTT
Found at i:53204138 original size:36 final size:36
Alignment explanation
Indices: 53204091--53204163 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
53204081 CTCAAGATAA
53204091 TACAATCATAATTGCACATAGTTCCACTATTTACTC
1 TACAATCATAATTGCACATAGTTCCACTATTTACTC
*
53204127 TACAATCATAATTGCACATAGTTCTACTATTTACTC
1 TACAATCATAATTGCACATAGTTCCACTATTTACTC
53204163 T
1 T
53204164 TGTTCATCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.38
Consensus pattern (36 bp):
TACAATCATAATTGCACATAGTTCCACTATTTACTC
Found at i:53206163 original size:27 final size:27
Alignment explanation
Indices: 53206103--53206220 Score: 105
Period size: 27 Copynumber: 4.3 Consensus size: 27
53206093 GAACAAATCT
* * * * *
53206103 GTCATTTTACCTTACCGGGGTATTACA
1 GTCATTTTACCCTATCAGGGTATTTCG
53206130 GTCATTTTACCCTA-CAGGAGTATTTCG
1 GTCATTTTACCCTATCAGG-GTATTTCG
* * *
53206157 GTTATTTTATCCTATGAGGGTACTTTC-
1 GTCATTTTACCCTATCAGGGTA-TTTCG
* *
53206184 GTTATTTTGACCCTATGAGGGTATTTCG
1 GTCATTTT-ACCCTATCAGGGTATTTCG
53206212 GTCATTTTA
1 GTCATTTTA
53206221 TCACATAAGG
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
26 3 0.04
27 47 0.61
28 27 0.35
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATCAGGGTATTTCG
Found at i:53206198 original size:28 final size:26
Alignment explanation
Indices: 53206133--53206220 Score: 97
Period size: 28 Copynumber: 3.2 Consensus size: 26
53206123 TATTACAGTC
*
53206133 ATTTTACCCTA-CAGGAGTATTTCGGTT
1 ATTTTACCCTATGAGG-GTATTTC-GTT
*
53206160 ATTTTATCCTATGAGGGTACTTTCGTT
1 ATTTTACCCTATGAGGGTA-TTTCGTT
*
53206187 ATTTTGACCCTATGAGGGTATTTCGGTC
1 ATTTT-ACCCTATGAGGGTATTTC-GTT
53206215 ATTTTA
1 ATTTTA
53206221 TCACATAAGG
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
27 26 0.49
28 27 0.51
ACGTcount: A:0.20, C:0.16, G:0.19, T:0.44
Consensus pattern (26 bp):
ATTTTACCCTATGAGGGTATTTCGTT
Found at i:53206231 original size:27 final size:27
Alignment explanation
Indices: 53206149--53206222 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 27
53206139 CCCTACAGGA
53206149 GTATTTCGGTTATTTTATCCTATGAGG
1 GTATTTCGGTTATTTTATCCTATGAGG
*
53206176 GTACTTTC-GTTATTTTGACCCTATGAGG
1 GTA-TTTCGGTTATTTT-ATCCTATGAGG
*
53206204 GTATTTCGGTCATTTTATC
1 GTATTTCGGTTATTTTATC
53206223 ACATAAGGGC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 17 0.41
28 24 0.59
ACGTcount: A:0.18, C:0.15, G:0.20, T:0.47
Consensus pattern (27 bp):
GTATTTCGGTTATTTTATCCTATGAGG
Found at i:53206239 original size:21 final size:21
Alignment explanation
Indices: 53206213--53206254 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
53206203 GGTATTTCGG
53206213 TCATTTTATCACATAAGGGCA
1 TCATTTTATCACATAAGGGCA
*
53206234 TCATTTTATCACATAATGGCA
1 TCATTTTATCACATAAGGGCA
53206255 AAATCGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (21 bp):
TCATTTTATCACATAAGGGCA
Found at i:53206414 original size:27 final size:27
Alignment explanation
Indices: 53206234--53206409 Score: 217
Period size: 27 Copynumber: 6.5 Consensus size: 27
53206224 CATAAGGGCA
* *
53206234 TCATTTTATCACATAATGGCAAAATCG
1 TCATTTTATCACATAAAGGAAAAATCG
* *
53206261 TCATTTTAACACATAAAGGAAAAATCT
1 TCATTTTATCACATAAAGGAAAAATCG
* *
53206288 TTATTTTATCACATAAAGGCAAAATCG
1 TCATTTTATCACATAAAGGAAAAATCG
* *
53206315 TCATTGTATCACATAAAGGTAAAATCG
1 TCATTTTATCACATAAAGGAAAAATCG
* * **
53206342 TTATTTTATCACATAAGGGTGAAATCG
1 TCATTTTATCACATAAAGGAAAAATCG
* * *
53206369 TCATTTTATCACATGAGGGAAAAATTG
1 TCATTTTATCACATAAAGGAAAAATCG
53206396 TCATTTTATCACAT
1 TCATTTTATCACAT
53206410 GAGGGTTCAG
Statistics
Matches: 129, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (27 bp):
TCATTTTATCACATAAAGGAAAAATCG
Found at i:53217488 original size:46 final size:46
Alignment explanation
Indices: 53217436--53217609 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
53217426 TATTTGGGCA
53217436 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATAGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATAGATGCGAATG
* * * *
53217482 TCCGAGCTCGTTGAGTTGAGTCCGAGTT--CGT-GAGATG-TAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATAGATGCGAA-T--G
*
53217527 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 --TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATAGATGCGAATG
* *
53217575 -CCTACGCTCGTTGAGTTGAGTCTGCGTTCACTTAT
1 TCCGA-GCTCGTTGAGTTGAGTCTGAGTTCACTTAT
53217610 GGTCGGGTTA
Statistics
Matches: 107, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
44 2 0.02
45 4 0.04
46 56 0.52
47 27 0.25
48 1 0.01
49 2 0.02
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.32
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATAGATGCGAATG
Found at i:53222148 original size:69 final size:70
Alignment explanation
Indices: 53222016--53222148 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 70
53222006 TAGTTTATTA
* * * * * *
53222016 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGAAAAAATCATGGTA
53222081 CTTAG
66 CTTAG
53222086 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGAAAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGAAAAAATCATGGT
53222149 GTTATGTGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 34 0.60
70 23 0.40
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGAAAAAATCATGGTA
CTTAG
Found at i:53223585 original size:47 final size:47
Alignment explanation
Indices: 53223531--53223841 Score: 505
Period size: 47 Copynumber: 6.6 Consensus size: 47
53223521 TATTTGAATA
53223531 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
53223578 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
53223627 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
53223674 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
53223721 AATGTGAAAGTGTATATATGCGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * *
53223768 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
53223815 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53223842 TCCCGAAGGG
Statistics
Matches: 251, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
47 205 0.82
49 46 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:53227399 original size:39 final size:39
Alignment explanation
Indices: 53227345--53227472 Score: 157
Period size: 39 Copynumber: 3.3 Consensus size: 39
53227335 TATGAGATTG
*
53227345 AAAATATCCGAACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * *
53227384 AAAATATCCGGACATGAGATCTGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * * * **
53227423 AATATATTCGGACTTGTGGTCCGTAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
53227462 AAAATATCCGG
1 AAAATATCCGG
53227473 GTTAAAGACC
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:53233541 original size:40 final size:40
Alignment explanation
Indices: 53233497--53233728 Score: 288
Period size: 40 Copynumber: 5.8 Consensus size: 40
53233487 ATAACCACAA
* *
53233497 GCACAAATGCCCTCGGGTCTTAGCCAGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
53233537 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
53233577 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
53233617 GCACAATTGCCTTCGGGTCTTATCCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * * *
53233657 GCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATC-ATTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
53233697 GCACAATTGCCTCCGGGACTTAGCCTGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
53233729 CATTCAAATG
Statistics
Matches: 165, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.02
40 154 0.93
41 7 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:53233582 original size:80 final size:80
Alignment explanation
Indices: 53233497--53233728 Score: 331
Period size: 80 Copynumber: 2.9 Consensus size: 80
53233487 ATAACCACAA
* * * * *
53233497 GCACAAATGCCCTCGGGTCTTAGCCAGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTCTTAGC
*
53233561 CCGGATATATCAACTC
65 CCGGATATAGCAACTC
*
53233577 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
*
53233642 CGGGTATAGCAACTC
66 CGGATATAGCAACTC
* * * *
53233657 GCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATCATTAGCACAATTGCCTCCGGGACTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
*
53233722 TGGATAT
66 CGGATAT
53233729 CATTCAAATG
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
80 132 0.97
81 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
CGGATATAGCAACTC
Found at i:53233660 original size:120 final size:120
Alignment explanation
Indices: 53233496--53233727 Score: 322
Period size: 120 Copynumber: 1.9 Consensus size: 120
53233486 TATAACCACA
*
53233496 AGCACAAATGCCCTCGGGTCTTAGCCAGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAAATGCCCTCGGGTCTTAGCCAGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
53233561 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
66 CCGGATAAAATC-ACTAGCACAAATGCCTCCGGGACTTAGCCCGGATAAAATCACT
* * * * * *
53233616 AGCACAATTGCCTTCGGGTCTTATCCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTGGC
1 AGCACAAATGCCCTCGGGTCTTAGCCAGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
* * *
53233681 CCGGATAAAATCATTAGCACAATTGCCTCCGGGACTTAGCCTGGATA
66 CCGGATAAAATCACTAGCACAAATGCCTCCGGGACTTAGCCCGGATA
53233728 TCATTCAAAT
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
120 93 0.96
121 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
AGCACAAATGCCCTCGGGTCTTAGCCAGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
CCGGATAAAATCACTAGCACAAATGCCTCCGGGACTTAGCCCGGATAAAATCACT
Found at i:53240801 original size:40 final size:39
Alignment explanation
Indices: 53240723--53240931 Score: 246
Period size: 40 Copynumber: 5.3 Consensus size: 39
53240713 TCTTCGGAAT
* *
53240723 TTAG-CCGGATATAACCACAAGCAC-AATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
53240761 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
53240801 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * *
53240841 TTAACCCGG--ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
53240879 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
53240919 TTAGCCCGGATAT
1 TTAGCCCGGATAT
53240932 CATTCAAATG
Statistics
Matches: 145, Mismatches: 18, Indels: 15
0.81 0.10 0.08
Matches are distributed among these distances:
37 3 0.02
38 35 0.24
39 15 0.10
40 85 0.59
41 7 0.05
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:53240864 original size:78 final size:78
Alignment explanation
Indices: 53240723--53240930 Score: 330
Period size: 78 Copynumber: 2.7 Consensus size: 78
53240713 TCTTCGGAAT
* * * *
53240723 TTAG-CCGGATATAACCACAAGCACAA-TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGG--ATAGCAACTCGCAC
53240786 AAATGCCTTCGGGTC
64 AAATGCCTTCGGGTC
*
53240801 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATAGCAACTCGCACAA
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAGCAACTCGCACAA
53240866 ATGCCTTCGGGTC
66 ATGCCTTCGGGTC
*
53240879 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATA
53240931 TCATTCAAAT
Statistics
Matches: 121, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
78 82 0.68
79 19 0.16
80 20 0.17
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (78 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAGCAACTCGCACAA
ATGCCTTCGGGTC
Found at i:53245764 original size:40 final size:39
Alignment explanation
Indices: 53245652--53245814 Score: 197
Period size: 40 Copynumber: 4.2 Consensus size: 39
53245642 AAACCAAGTA
* * *
53245652 CCTTCGGGATTTAACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATG
* *
53245691 TCTTCGGGAC-TAGCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
*
53245729 CCTTCGGGACTTAGCTCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGC-CGGATATAGTAACTCGCACAAATG
* *
53245769 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAG-CCGGATA-TAGTAACTCGCACAAATG
53245809 CCTTCG
1 CCTTCG
53245815 TTATCATCCA
Statistics
Matches: 109, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
37 1 0.01
38 32 0.29
39 13 0.12
40 62 0.57
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
Found at i:53256203 original size:38 final size:38
Alignment explanation
Indices: 53256177--53256331 Score: 249
Period size: 38 Copynumber: 4.1 Consensus size: 38
53256167 TGTCCAGCAC
*
53256177 ATAGCCTGCGGACCTAAAGTCGGATATAATTCTCGCAT
1 ATAGCCTGCGGACATAAAGTCGGATATAATTCTCGCAT
53256215 -TAGCCTGCGGACATAAAGTCCGGATATAATTCTCGCAT
1 ATAGCCTGCGGACATAAAGT-CGGATATAATTCTCGCAT
* *
53256253 ATAGCCTGCGGACATGAAGTCGGATATAATTCTCGCTT
1 ATAGCCTGCGGACATAAAGTCGGATATAATTCTCGCAT
* *
53256291 ATAGCCTGCGGACCTGAAGTCGGATATAATTCTCGCAT
1 ATAGCCTGCGGACATAAAGTCGGATATAATTCTCGCAT
53256329 ATA
1 ATA
53256332 TATATTCACA
Statistics
Matches: 110, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
37 18 0.16
38 74 0.67
39 18 0.16
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (38 bp):
ATAGCCTGCGGACATAAAGTCGGATATAATTCTCGCAT
Found at i:53265938 original size:39 final size:39
Alignment explanation
Indices: 53265894--53266206 Score: 486
Period size: 39 Copynumber: 8.1 Consensus size: 39
53265884 ATGCAAGACA
53265894 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
53265933 CTGGAAATGTATCC-GGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
53265971 CTGGAAATATATCCGGGCCAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
53266010 CTAGAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
53266049 CTGGAAATATATTCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
53266088 CTGGAAATGTATCTGGTCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
53266127 CTGAAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
53266166 CTGGAAATGTATCCGGGTTAAAGTCCCGCA-GCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
53266204 CTG
1 CTG
53266207 ATAATATAAT
Statistics
Matches: 247, Mismatches: 26, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
38 47 0.19
39 200 0.81
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:53270110 original size:103 final size:104
Alignment explanation
Indices: 53269866--53270131 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
53269856 GTTGTACATA
** *
53269866 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
53269931 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
53269970 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
53270034 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
53270073 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
53270132 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:53277489 original size:104 final size:103
Alignment explanation
Indices: 53277353--53277617 Score: 399
Period size: 104 Copynumber: 2.6 Consensus size: 103
53277343 GTTGTACATA
** *
53277353 AAGGGGTTGCTGTGTGCTGATTCCCC-GATTCATTGGTGGTGCTATGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCAG-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
* **
53277417 TTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
53277457 GAGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
53277522 CTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * * *
53277560 AAGGGGTTGCTAAGTGCTGATTCCCGA-TTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCGATATCCACC
53277618 AATAACGGTT
Statistics
Matches: 148, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
102 28 0.19
103 54 0.36
104 65 0.44
105 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:53282031 original size:39 final size:39
Alignment explanation
Indices: 53281987--53282255 Score: 412
Period size: 39 Copynumber: 6.9 Consensus size: 39
53281977 GTGCAAGACA
53281987 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
53282026 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGTTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
53282065 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTA
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * * *
53282104 CTGGAGATATATCCGGGCCAAAGTTCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
53282143 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
53282182 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCGTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
** *
53282221 CTGGAAATGTATCTTGGTTAAAGTCCCGCAGGCTT
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTT
53282256 TGTCCTGATA
Statistics
Matches: 205, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 205 1.00
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:53302916 original size:19 final size:18
Alignment explanation
Indices: 53302882--53302922 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
53302872 GTATTTTTGT
53302882 AAAACATTTATCTTTTTC
1 AAAACATTTATCTTTTTC
53302900 AAAACATTTATCTTTTTC
1 AAAACATTTATCTTTTTC
53302918 AAAAC
1 AAAAC
53302923 CCGAGTCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAACATTTATCTTTTTC
Found at i:53303801 original size:18 final size:17
Alignment explanation
Indices: 53303775--53303816 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
53303765 AATATTGCAG
53303775 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
53303793 GCCCGTGTGGCCCACAC
1 GCCCATGTGGCCCACAC
53303810 GGCCCAT
1 -GCCCAT
53303817 AATGGCCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.14, C:0.45, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:53305570 original size:38 final size:37
Alignment explanation
Indices: 53305513--53305658 Score: 125
Period size: 38 Copynumber: 3.8 Consensus size: 37
53305503 GCGTTACAAA
* * *
53305513 ATGGTTATCTATTGGTCCTTTTAGGAGACACTGTGTTG
1 ATGGTTATCTACTGATCC-TTTAGGAGACACCGTGTTG
* *
53305551 ATGGTTATCTACTAATCCTTTAGG-GCAACACCATGTTG
1 ATGGTTATCTACTGATCCTTTAGGAG--ACACCGTGTTG
* * * * *
53305589 ACGATTATCTACTGGTCC-TTCGGGGCAACACCGTGTTG
1 ATGGTTATCTACTGATCCTTTAGGAG--ACACCGTGTTG
*
53305627 ATAGTTATCTACTGATCCTTTAGGATGACACC
1 ATGGTTATCTACTGATCCTTTAGGA-GACACC
53305659 ATGATGACAA
Statistics
Matches: 86, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
36 1 0.01
37 10 0.12
38 70 0.81
39 4 0.05
40 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (37 bp):
ATGGTTATCTACTGATCCTTTAGGAGACACCGTGTTG
Found at i:53305716 original size:114 final size:113
Alignment explanation
Indices: 53305555--53305838 Score: 316
Period size: 114 Copynumber: 2.5 Consensus size: 113
53305545 GTGTTGATGG
** * * *
53305555 TTATCTACTAATCCTTTAGGGCAACACCATGTTGACGATTATCTACTGGTCCTTCGGGGCAACAC
1 TTATCTACTGGTCCTTCAGGGCAACACCGTGTTGACG-TTATCTACTGGTCCTTCAGGGCAACAC
* * * * * *
53305620 CGTGTTGATAGTTATCTACTGATCCTTTAGGATGACACCATGATGACAA
65 CGTGTTAACAATTATCTACTGATCCTTCAGGACGACACCATGATAACAA
* * * *
53305669 TTATCTACTGGTCTTTCGGGGCAACAACGTGTTGACAGTTATCTACTGGTCCTTCAGGGCGACAC
1 TTATCTACTGGTCCTTCAGGGCAACACCGTGTTGAC-GTTATCTACTGGTCCTTCAGGGCAACAC
* * * * ** *
53305734 TGTGTTAACAATTATCTATTGGTCCTTCAGGGCGACACTGTGTTAACAA
65 CGTGTTAACAATTATCTACTGATCCTTCAGGACGACACCATGATAACAA
* * *
53305783 TTATCTATTGGTCCTTCAGGGCAACACCGTGTTGACGGTTATCCACTAGTCCTTCA
1 TTATCTACTGGTCCTTCAGGGCAACACCGTGTTGAC-GTTATCTACTGGTCCTTCA
53305839 AGGTGACATC
Statistics
Matches: 140, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
114 139 0.99
115 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (113 bp):
TTATCTACTGGTCCTTCAGGGCAACACCGTGTTGACGTTATCTACTGGTCCTTCAGGGCAACACC
GTGTTAACAATTATCTACTGATCCTTCAGGACGACACCATGATAACAA
Found at i:53305825 original size:38 final size:38
Alignment explanation
Indices: 53305540--53305838 Score: 285
Period size: 38 Copynumber: 7.9 Consensus size: 38
53305530 CTTTTAGGAG
* ** ** *
53305540 ACACTGTGTTGATGGTTATCTACTAATCCTTTAGGGCA
1 ACACCGTGTTGACAGTTATCTACTGGTCCTTCAGGGCA
* *
53305578 ACACCATGTTGAC-GATTATCTACTGGTCCTTCGGGGCA
1 ACACCGTGTTGACAG-TTATCTACTGGTCCTTCAGGGCA
* * * ***
53305616 ACACCGTGTTGATAGTTATCTACTGATCCTTTAGGATG
1 ACACCGTGTTGACAGTTATCTACTGGTCCTTCAGGGCA
* * * * *
53305654 ACACCATGATGACAATTATCTACTGGTCTTTCGGGGCA
1 ACACCGTGTTGACAGTTATCTACTGGTCCTTCAGGGCA
* *
53305692 ACAACGTGTTGACAGTTATCTACTGGTCCTTCAGGGCG
1 ACACCGTGTTGACAGTTATCTACTGGTCCTTCAGGGCA
* * * * *
53305730 ACACTGTGTTAACAATTATCTATTGGTCCTTCAGGGCG
1 ACACCGTGTTGACAGTTATCTACTGGTCCTTCAGGGCA
* * * *
53305768 ACACTGTGTTAACAATTATCTATTGGTCCTTCAGGGCA
1 ACACCGTGTTGACAGTTATCTACTGGTCCTTCAGGGCA
* * *
53305806 ACACCGTGTTGACGGTTATCCACTAGTCCTTCA
1 ACACCGTGTTGACAGTTATCTACTGGTCCTTCA
53305839 AGGTGACATC
Statistics
Matches: 213, Mismatches: 46, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
37 1 0.00
38 211 0.99
39 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (38 bp):
ACACCGTGTTGACAGTTATCTACTGGTCCTTCAGGGCA
Found at i:53307196 original size:42 final size:44
Alignment explanation
Indices: 53307149--53307263 Score: 114
Period size: 42 Copynumber: 2.7 Consensus size: 44
53307139 GAGATTCCGA
* * *
53307149 ATAAGACCATATCTGGGATATGGCATCGGTA-CATGATTT-TGT
1 ATAAGACCATATCAGGGATATGGCATCGATATCATAATTTATGT
* * *
53307191 ATAAGACCATGT-AGGGACATGGCATCGATATGATAATTTCATGT
1 ATAAGACCATATCAGGGATATGGCATCGATATCATAATTT-ATGT
* *
53307235 A-AA-ACCATATCCGGGATATGGCATTGATA
1 ATAAGACCATATCAGGGATATGGCATCGATA
53307264 CGGTACGATG
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
41 15 0.25
42 23 0.39
43 17 0.29
44 4 0.07
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (44 bp):
ATAAGACCATATCAGGGATATGGCATCGATATCATAATTTATGT
Found at i:53330274 original size:17 final size:18
Alignment explanation
Indices: 53330252--53330286 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
53330242 GAATGCAAAC
53330252 AAAA-TTTTCAAAACTTA
1 AAAATTTTTCAAAACTTA
53330269 AAAATTTTTCAAAACTTA
1 AAAATTTTTCAAAACTTA
53330287 TAAGGGTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATTTTTCAAAACTTA
Found at i:53332054 original size:50 final size:51
Alignment explanation
Indices: 53331993--53332112 Score: 154
Period size: 50 Copynumber: 2.4 Consensus size: 51
53331983 AGGTCACGTA
* **
53331993 TGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAG-TTA-AGTCACATG
1 TGTAGTACTAAGTGCAGGCTACTACACGTACCAGATAGCTTAGA-TCACATG
* * *
53332043 TGTAGTACTAAGTGCAGGCTACTATACGTACCTGATAGCTTCGATCACATG
1 TGTAGTACTAAGTGCAGGCTACTACACGTACCAGATAGCTTAGATCACATG
*
53332094 TGTGGTACTAAGTGCAGGC
1 TGTAGTACTAAGTGCAGGC
53332113 CGCTATGTGT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
50 33 0.54
51 27 0.44
52 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (51 bp):
TGTAGTACTAAGTGCAGGCTACTACACGTACCAGATAGCTTAGATCACATG
Found at i:53332188 original size:51 final size:51
Alignment explanation
Indices: 53332076--53332217 Score: 162
Period size: 51 Copynumber: 2.8 Consensus size: 51
53332066 ATACGTACCT
* * * *
53332076 GATAGCTTCGATCACATGTGTGGTACTAAGTGCAGGCCGCTATGTGTAAGA
1 GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCCACTATGTGTAAGA
* * * *
53332127 GATGGTTTTGATCACAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AAGGA
1 GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCCACTATGTGTAA-GA
* *
53332178 GGTAGCTTTGA-CTACAAGGGTGGTACTATGTGCAGGCCAC
1 GATAGCTTTGATC-ACAAGTGTGGTACTATGTGCAGGCCAC
53332218 CGAGTATCCG
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
50 3 0.04
51 73 0.96
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (51 bp):
GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCCACTATGTGTAAGA
Found at i:53333804 original size:42 final size:43
Alignment explanation
Indices: 53333735--53333838 Score: 115
Period size: 42 Copynumber: 2.4 Consensus size: 43
53333725 TCCTAGACGT
* * *
53333735 GGTCTTACATG-TATCATATATCAATGCC-ACTGTCTCAGACAA
1 GGTCTTACATGAAATCAAATATCAATGCCGA-TGTCCCAGACAA
* *
53333777 GGTCTTACATGAAATCAAATA-CGATGCCGATGTCCCAGACAT
1 GGTCTTACATGAAATCAAATATCAATGCCGATGTCCCAGACAA
*
53333819 TGTCTTACATGTAAATCAAA
1 GGTCTTACATG-AAATCAAA
53333839 AATCGCTGTC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
42 37 0.70
43 16 0.30
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGAAATCAAATATCAATGCCGATGTCCCAGACAA
Found at i:53333859 original size:44 final size:42
Alignment explanation
Indices: 53333758--53333860 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
53333748 TCATATATCA
* * ** *
53333758 ATGCCACTGTCTCAGACAAGGTCTTACATGAAATCAAATACG
1 ATGCCAATGTCCCAGACATTGTCTTACATGAAATCAAAAACG
*
53333800 ATGCCGATGTCCCAGACATTGTCTTACATGTAAATCAAAAATCG
1 ATGCCAATGTCCCAGACATTGTCTTACATG-AAATCAAAAA-CG
* *
53333844 CTGTCAATGTCCCAGAC
1 ATGCCAATGTCCCAGAC
53333861 GTGGTCTCAC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 25 0.50
43 9 0.18
44 16 0.32
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATTGTCTTACATGAAATCAAAAACG
Found at i:53338324 original size:17 final size:17
Alignment explanation
Indices: 53338292--53338324 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
53338282 TGTTTTGAGC
53338292 TCTATTTTTTGATAATT
1 TCTATTTTTTGATAATT
53338309 TCTACTTTTTTG-TAAT
1 TCTA-TTTTTTGATAAT
53338325 CGTTGCTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.64
Consensus pattern (17 bp):
TCTATTTTTTGATAATT
Found at i:53339091 original size:44 final size:43
Alignment explanation
Indices: 53339022--53339141 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 43
53339012 TGACATAGGA
** *
53339022 TTTCGTGTAAGACCACGTTTGGGACATTGGCATCG-ACTTCT-AT
1 TTTCGTGTAAGACCTTGTCTGGGACATTGGCATCGTA--TCTAAT
* * *
53339065 TTTACGTGTAAGACCTTGTCTAGGACATCGACATCGTATCTAAT
1 TTT-CGTGTAAGACCTTGTCTGGGACATTGGCATCGTATCTAAT
* *
53339109 TTT-GTGTAAGACCTTGCCTGGGACAGTGGCATC
1 TTTCGTGTAAGACCTTGTCTGGGACATTGGCATC
53339142 AATGTTTGAT
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
42 25 0.40
43 6 0.10
44 31 0.49
45 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (43 bp):
TTTCGTGTAAGACCTTGTCTGGGACATTGGCATCGTATCTAAT
Found at i:53343631 original size:25 final size:23
Alignment explanation
Indices: 53343569--53343636 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
53343559 AACTATACAT
*
53343569 ATTTTTT-A-AAATTTATTTTTA
1 ATTTTTTGAGAAATATATTTTTA
53343590 ATTTTTTGAGAAATATATTTTTA
1 ATTTTTTGAGAAATATATTTTTA
* * *
53343613 GTATTTTTGATGTATTATATTTTT
1 AT-TTTTTGA-GAAATATATTTTT
53343637 TAAAATTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.18
22 1 0.03
23 13 0.33
24 7 0.18
25 11 0.28
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (23 bp):
ATTTTTTGAGAAATATATTTTTA
Found at i:53343663 original size:14 final size:15
Alignment explanation
Indices: 53343644--53343672 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
53343634 TTTTAAAATT
53343644 ATATAAAAA-TAATA
1 ATATAAAAATTAATA
53343658 ATATAAAAATTAATA
1 ATATAAAAATTAATA
53343673 TGAGCGGGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATATAAAAATTAATA
Found at i:53344575 original size:19 final size:20
Alignment explanation
Indices: 53344533--53344575 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
53344523 CCATATTAAC
** *
53344533 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
53344553 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
53344572 ACAG
1 ACAG
53344576 CCTCATGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:53346318 original size:17 final size:19
Alignment explanation
Indices: 53346296--53346341 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
53346286 ACATACATGC
53346296 AATAAT-ATTTT-TCTAAT
1 AATAATAATTTTATCTAAT
*
53346313 AATAATAATTTTATCTCAT
1 AATAATAATTTTATCTAAT
*
53346332 AATACTAATT
1 AATAATAATT
53346342 AAAATTTCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
19 14 0.56
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
AATAATAATTTTATCTAAT
Done.