Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 155 of 276
Found at i:50416555 original size:27 final size:26
Alignment explanation
Indices: 50416483--50416597 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 26
50416473 TGGAGGAAGC
* * *
50416483 GTTCTGGTGGCTATGCCACAAACATTT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
50416510 GTTTCTGATGGCTAC-GCCACAAATATCT
1 G-TTCTGGTGGCT-CTGCCAC-AATATCT
50416538 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
50416564 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
50416591 GTTCTGG
1 GTTCTGG
50416598 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
26 15 0.19
27 40 0.52
28 22 0.29
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:50417819 original size:16 final size:15
Alignment explanation
Indices: 50417785--50417813 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50417775 ATTTTATGTG
50417785 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
50417800 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
50417814 ACTTTAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:50421170 original size:93 final size:93
Alignment explanation
Indices: 50421063--50421233 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
50421053 GCCCCTAAGT
* *
50421063 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50421128 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
50421156 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50421221 CGAGTTCGGATGC
66 CGAGTTCGGATGC
50421234 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:50421230 original size:46 final size:46
Alignment explanation
Indices: 50421058--50421230 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
50421048 AACCCGCCCC
* * *
50421058 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
50421104 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
50421152 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
50421197 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50421231 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:50421687 original size:30 final size:30
Alignment explanation
Indices: 50421653--50421712 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
50421643 ATTTAATACG
50421653 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
50421683 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
50421713 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:50428296 original size:24 final size:24
Alignment explanation
Indices: 50428264--50428319 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
50428254 AACCTAATTA
* * *
50428264 TAATCAATGCCAAATATGTTATGT
1 TAATAAATGCCAAATATATTATAT
* *
50428288 TAGTAAATGCTAAATATATTATAT
1 TAATAAATGCCAAATATATTATAT
50428312 TAATAAAT
1 TAATAAAT
50428320 ACTAAATCCT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (24 bp):
TAATAAATGCCAAATATATTATAT
Found at i:50428324 original size:24 final size:24
Alignment explanation
Indices: 50428275--50428326 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
50428265 AATCAATGCC
* * * *
50428275 AAATATGTTATGTTAGTAAATGCT
1 AAATATATTATATTAATAAATACT
50428299 AAATATATTATATTAATAAATACT
1 AAATATATTATATTAATAAATACT
50428323 AAAT
1 AAAT
50428327 CCTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (24 bp):
AAATATATTATATTAATAAATACT
Found at i:50431161 original size:44 final size:45
Alignment explanation
Indices: 50431063--50431161 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 45
50431053 AATTGTAGAT
* * * **
50431063 TACACAACAATTAACCCGCAAATGGAATTTGCCTCTGGCTGTGGG
1 TACACAACAAGTAACCCGCAAATGAAATCTAACTCTGGCTGTGGG
* *
50431108 TACAGAACAAGT-ACCCGCAAATGAAATCTAACTCTGGCTGTGGT
1 TACACAACAAGTAACCCGCAAATGAAATCTAACTCTGGCTGTGGG
*
50431152 TGCACAACAA
1 TACACAACAA
50431162 AATTTTACAG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 35 0.78
45 10 0.22
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (45 bp):
TACACAACAAGTAACCCGCAAATGAAATCTAACTCTGGCTGTGGG
Found at i:50442523 original size:27 final size:28
Alignment explanation
Indices: 50442488--50442541 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
50442478 CAGCCATGAC
*
50442488 TATAATC-AACTCGCACACTTAGTGCTA
1 TATAATCAAACTCGCACACCTAGTGCTA
50442515 TATAATCAAACTCGCACACCTAGTGCT
1 TATAATCAAACTCGCACACCTAGTGCT
50442542 GTACAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (28 bp):
TATAATCAAACTCGCACACCTAGTGCTA
Found at i:50442794 original size:27 final size:26
Alignment explanation
Indices: 50442777--50442846 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
50442767 ATATTAAGTC
50442777 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
50442804 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
50442832 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
50442847 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:50442840 original size:28 final size:28
Alignment explanation
Indices: 50442777--50442871 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
50442767 ATATTAAGTC
*
50442777 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
50442804 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
50442832 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
50442861 CGCACACTTAG
1 CGCACACTTAG
50442872 CGCCTATCTC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.36
28 23 0.38
29 16 0.26
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:50458039 original size:105 final size:104
Alignment explanation
Indices: 50457757--50458470 Score: 722
Period size: 105 Copynumber: 6.8 Consensus size: 104
50457747 CCATAAAAAA
* * * * * *
50457757 ATCAACTGTGAGCGTAGGTCAGCGAGCTGTTCA-GAATTGCGATCTTAAATCAGCTAACTC-AA-
1 ATCAGCTGTGAACGTAGGTCATCGAGCTATTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAG
* * * *
50457819 ATA-ATTAGACGTTGTGATCTTAAATCAACGAGCCTTAATAAT
66 ATAGA-TAG--GTT-CGATCTTAAATCAACTAACCTTTATAAT
* * * * * *
50457861 ATCAACTGCGAACGTAGGTCAGCAAGCTA-TTGGGAGTTGTGATCTTAAATCAG-TGAACTCAAA
1 ATCAGCTGTGAACGTAGGTCATCGAGCTATTTAGGAGTTGCGATCTTAAATCAGCT-AACTCAAA
* * ** *
50457924 TAAACTTAGGTTCTGATCTTAAATCAGA-TAACCTTTATAAC
65 GATAGATAGGTTC-GATCTTAAATCA-ACTAACCTTTATAAT
* * * * *
50457965 ATCAGCTATGAACATAGGTCAACAAGCTATTTAGGAGTTGCGATCTTAAATCAACTAACTCAAAG
1 ATCAGCTGTGAACGTAGGTCATCGAGCTATTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAG
*
50458030 ATAGATAGGTTGCGATCTTAAATCAACTACCCTTTATAAT
66 ATAGATAGGTT-CGATCTTAAATCAACTAACCTTTATAAT
* * * * * *
50458070 ATCAGTTGTGAACGTAGGTCATCGAGCTATTTAAGAGCTGTGATATTAAATTAGCTAACTCAAAG
1 ATCAGCTGTGAACGTAGGTCATCGAGCTATTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAG
* ** *
50458135 ATAGATAGGTTGCAAAATTAAATCAGCTAACCTTTATAAT
66 ATAGATAGGTT-CGATCTTAAATCAACTAACCTTTATAAT
* * * * * *
50458175 ATCAACTGTGAACATAGGTCATCGAGTTGTTTGGGCGTTGCGATCTTAAATCAGCTAACTCAAAG
1 ATCAGCTGTGAACGTAGGTCATCGAGCTATTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAG
* * * *
50458240 ATAGATAGGCTACGATCTTAAATCAGCCAAGCTTTATAAT
66 ATAGATAGG-TTCGATCTTAAATCAACTAACCTTTATAAT
* * * * *
50458280 ATCATCTGTGAACGTAGGTCATCGAGCTGTTTAGGAGCTACGATCTTAAATCAACTAACTCAAAG
1 ATCAGCTGTGAACGTAGGTCATCGAGCTATTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAG
* *
50458345 ATAGATAGGTTGCGATATTAGATCAACTAACCTTTATAAT
66 ATAGATAGGTT-CGATCTTAAATCAACTAACCTTTATAAT
* * * * * *
50458385 ATTAGTTGTGAACGTAGGTCATCGAGTTGTTTAAGAGTTGCAATCTTAAATCAGCTAACTCAAAG
1 ATCAGCTGTGAACGTAGGTCATCGAGCTATTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAG
*
50458450 ATAGATAGGTTGTGATCTTAA
66 ATAGATAGGTT-CGATCTTAA
50458471 GTTTATGAAC
Statistics
Matches: 508, Mismatches: 89, Indels: 25
0.82 0.14 0.04
Matches are distributed among these distances:
103 2 0.00
104 98 0.19
105 400 0.79
106 8 0.02
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (104 bp):
ATCAGCTGTGAACGTAGGTCATCGAGCTATTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAG
ATAGATAGGTTCGATCTTAAATCAACTAACCTTTATAAT
Found at i:50458226 original size:210 final size:209
Alignment explanation
Indices: 50457757--50458470 Score: 803
Period size: 210 Copynumber: 3.4 Consensus size: 209
50457747 CCATAAAAAA
* * * * * * *
50457757 ATCAACTGTGAGCGTAGGTCAGCGAGCTGTTCA-GAATTGCGATCTTAAATCAGCTAACTC-AA-
1 ATCAGCTGTGAACATAGGTCATCGAGTTGTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAG
* * * * * * *
50457819 ATA-ATTAGACGTTGTGATCTTAAATCAACGAGCCTTAATAATATCAACTGCGAACGTAGGTCAG
66 ATAGA-TAG--GTTGCGATCTTAAATCAACCAACCTTTATAATATC-ATTGTGAACGTAGGTCAT
* * * * * ** *
50457883 CAAGCTA-TTGGGAGTTGTGATCTTAAATCAG-TGAACTCAAATAAACTTAGGTT-CTGATCTTA
127 CGAGCTATTTAGGAGCTGTGATCTTAAATCAGCT-AACTCAAAGATAGATAGGTTGC-GATATTA
* *
50457945 AATCAGATAACCTTTATAAC
190 AATCAGCTAACCTTTATAAT
* * * * * *
50457965 ATCAGCTATGAACATAGGTCAACAAGCTATTTAGGAGTTGCGATCTTAAATCAACTAACTCAAAG
1 ATCAGCTGTGAACATAGGTCATCGAGTTGTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAG
* *
50458030 ATAGATAGGTTGCGATCTTAAATCAACTACCCTTTATAATATCAGTTGTGAACGTAGGTCATCGA
66 ATAGATAGGTTGCGATCTTAAATCAACCAACCTTTATAATATCA-TTGTGAACGTAGGTCATCGA
* * * * *
50458095 GCTATTTAAGAGCTGTGATATTAAATTAGCTAACTCAAAGATAGATAGGTTGCAAAATTAAATCA
130 GCTATTTAGGAGCTGTGATCTTAAATCAGCTAACTCAAAGATAGATAGGTTGCGATATTAAATCA
50458160 GCTAACCTTTATAAT
195 GCTAACCTTTATAAT
* * *
50458175 ATCAACTGTGAACATAGGTCATCGAGTTGTTTGGGCGTTGCGATCTTAAATCAGCTAACTCAAAG
1 ATCAGCTGTGAACATAGGTCATCGAGTTGTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAG
* * * *
50458240 ATAGATAGGCTACGATCTTAAATCAGCCAAGCTTTATAATATCATCTGTGAACGTAGGTCATCGA
66 ATAGATAGGTTGCGATCTTAAATCAACCAACCTTTATAATATCAT-TGTGAACGTAGGTCATCGA
* ** * *
50458305 GCTGTTTAGGAGCTACGATCTTAAATCAACTAACTCAAAGATAGATAGGTTGCGATATTAGATCA
130 GCTATTTAGGAGCTGTGATCTTAAATCAGCTAACTCAAAGATAGATAGGTTGCGATATTAAATCA
*
50458370 ACTAACCTTTATAAT
195 GCTAACCTTTATAAT
* * * * *
50458385 ATTAGTTGTGAACGTAGGTCATCGAGTTGTTTAAGAGTTGCAATCTTAAATCAGCTAACTCAAAG
1 ATCAGCTGTGAACATAGGTCATCGAGTTGTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAG
*
50458450 ATAGATAGGTTGTGATCTTAA
66 ATAGATAGGTTGCGATCTTAA
50458471 GTTTATGAAC
Statistics
Matches: 428, Mismatches: 69, Indels: 16
0.83 0.13 0.03
Matches are distributed among these distances:
208 26 0.06
209 77 0.18
210 316 0.74
211 8 0.02
212 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (209 bp):
ATCAGCTGTGAACATAGGTCATCGAGTTGTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAG
ATAGATAGGTTGCGATCTTAAATCAACCAACCTTTATAATATCATTGTGAACGTAGGTCATCGAG
CTATTTAGGAGCTGTGATCTTAAATCAGCTAACTCAAAGATAGATAGGTTGCGATATTAAATCAG
CTAACCTTTATAAT
Found at i:50458315 original size:315 final size:314
Alignment explanation
Indices: 50457851--50458461 Score: 848
Period size: 315 Copynumber: 1.9 Consensus size: 314
50457841 AATCAACGAG
* *
50457851 CCTTAATAATATCAACTGCGAACGTAGGTCAGCAAGCTATTGGGAGTTGTGATCTTAAATCAGTG
1 CCTTAATAATATCAACTGCGAACATAGGTCAGCAAGCTATTGGGAGTTGCGATCTTAAATCAGTG
* * * *
50457916 AACTCAAATAAACTTAGGTTCTGATCTTAAATCAGATAACCTTTATAACATCAGCTATGAACATA
66 AACTCAAAGAAACATAGGTACTGATCTTAAATCAGACAACCTTTATAACATCAGCTATGAACATA
* *
50457981 GGTCAACAAGCTATTTAGGAGTTGCGATCTTAAATCAACTAACTCAAAGATAGATAGGTTGCGAT
131 GGTCAACAAGCTATTTAGGAGCTACGATCTTAAATCAACTAACTCAAAGATAGATAGGTTGCGAT
* * *
50458046 CTTAAATCAACTACCCTTTATAATATCAGTTGTGAACGTAGGTCATCGAGCTATTTAAGAGCTGT
196 ATTAAATCAACTAACCTTTATAATATCAGTTGTGAACGTAGGTCATCGAGCTATTTAAGAGCTGC
* *
50458111 GATATTAAATTAGCTAACTCAAAGATAGATAGGTTGCAAAATTAAATCAGCTAA
261 AATATTAAATCAGCTAACTCAAAGATAGATAGGTTGCAAAATTAAATCAGCTAA
* * * * * * *
50458165 CCTTTATAATATCAACTGTGAACATAGGTCATCGAGTTGTTTGGGCGTTGCGATCTTAAATCAGC
1 CCTTAATAATATCAACTGCGAACATAGGTCAGCAAGCT-ATTGGGAGTTGCGATCTTAAATCAG-
* * * * * * *
50458230 T-AACTCAAAGATAGATAGGCTAC-GATCTTAAATCAGCCAAGCTTTATAATATCATCTGTGAAC
64 TGAACTCAAAGAAACATAGG-TACTGATCTTAAATCAGACAACCTTTATAACATCAGCTATGAAC
* * * *
50458293 GTAGGTCATCGAGCTGTTTAGGAGCTACGATCTTAAATCAACTAACTCAAAGATAGATAGGTTGC
128 ATAGGTCAACAAGCTATTTAGGAGCTACGATCTTAAATCAACTAACTCAAAGATAGATAGGTTGC
* * * * *
50458358 GATATTAGATCAACTAACCTTTATAATATTAGTTGTGAACGTAGGTCATCGAGTTGTTTAAGAGT
193 GATATTAAATCAACTAACCTTTATAATATCAGTTGTGAACGTAGGTCATCGAGCTATTTAAGAGC
*
50458423 TGCAATCTTAAATCAGCTAACTCAAAGATAGATAGGTTG
258 TGCAATATTAAATCAGCTAACTCAAAGATAGATAGGTTG
50458462 TGATCTTAAG
Statistics
Matches: 257, Mismatches: 37, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
314 32 0.12
315 222 0.86
316 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (314 bp):
CCTTAATAATATCAACTGCGAACATAGGTCAGCAAGCTATTGGGAGTTGCGATCTTAAATCAGTG
AACTCAAAGAAACATAGGTACTGATCTTAAATCAGACAACCTTTATAACATCAGCTATGAACATA
GGTCAACAAGCTATTTAGGAGCTACGATCTTAAATCAACTAACTCAAAGATAGATAGGTTGCGAT
ATTAAATCAACTAACCTTTATAATATCAGTTGTGAACGTAGGTCATCGAGCTATTTAAGAGCTGC
AATATTAAATCAGCTAACTCAAAGATAGATAGGTTGCAAAATTAAATCAGCTAA
Found at i:50459965 original size:40 final size:40
Alignment explanation
Indices: 50459904--50460110 Score: 265
Period size: 40 Copynumber: 5.2 Consensus size: 40
50459894 CGGAATTTAG
* * * *
50459904 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
50459944 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* *
50459984 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
50460024 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
50460064 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
50460104 CCGGATA
1 CCGGATA
50460111 TCATTCAAAT
Statistics
Matches: 150, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.01
40 144 0.96
41 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:50465805 original size:7 final size:7
Alignment explanation
Indices: 50465793--50465824 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
50465783 GAAAATAGAT
50465793 AAAGACA
1 AAAGACA
50465800 AAAGACA
1 AAAGACA
50465807 AAAGACA
1 AAAGACA
50465814 AAAGACA
1 AAAGACA
50465821 AAAG
1 AAAG
50465825 TTGAAATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.72, C:0.12, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAGACA
Found at i:50468003 original size:24 final size:24
Alignment explanation
Indices: 50467976--50468023 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
50467966 GCAAGGCAGA
*
50467976 GTCCACAGAGTATAGTAGACGAGC
1 GTCCACAGAGTATAGTAAACGAGC
50468000 GTCCACAGAGTATAGTAAACGAGC
1 GTCCACAGAGTATAGTAAACGAGC
50468024 AAGAGGACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (24 bp):
GTCCACAGAGTATAGTAAACGAGC
Found at i:50468996 original size:37 final size:37
Alignment explanation
Indices: 50468946--50469020 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
50468936 GGTCCTAGCA
*
50468946 TGGAGAATGAGCAAATAAATTACATGGGTAATAATTC
1 TGGACAATGAGCAAATAAATTACATGGGTAATAATTC
* **
50468983 TGGACAATTAGCAAATAAATTATGTGGGTAATAATTC
1 TGGACAATGAGCAAATAAATTACATGGGTAATAATTC
50469020 T
1 T
50469021 AGACCTCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (37 bp):
TGGACAATGAGCAAATAAATTACATGGGTAATAATTC
Found at i:50474528 original size:4 final size:4
Alignment explanation
Indices: 50474506--50474563 Score: 55
Period size: 4 Copynumber: 13.8 Consensus size: 4
50474496 CCATTTTCCA
*
50474506 ATTT ATTTT ATCTT CTTT ATTT ATTT ATTCT A-TT ATTTT ATTT ATTT
1 ATTT A-TTT AT-TT ATTT ATTT ATTT ATT-T ATTT A-TTT ATTT ATTT
*
50474553 AGTT ATTT ATT
1 ATTT ATTT ATT
50474564 GTCTATTTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
3 2 0.04
4 31 0.69
5 12 0.27
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:50474545 original size:17 final size:17
Alignment explanation
Indices: 50474525--50474560 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
50474515 ATCTTCTTTA
50474525 TTTATTTATTCTA-TTAT
1 TTTATTTATT-TAGTTAT
50474542 TTTATTTATTTAGTTAT
1 TTTATTTATTTAGTTAT
50474559 TT
1 TT
50474561 ATTGTCTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTATTTATTTAGTTAT
Found at i:50474562 original size:21 final size:21
Alignment explanation
Indices: 50474521--50474608 Score: 63
Period size: 21 Copynumber: 3.9 Consensus size: 21
50474511 TTTTATCTTC
*
50474521 TTTATTTATTTATTCTATTAT
1 TTTATTTATTTATTATATTAT
50474542 TTTATTTATTTAGTTAT-TTAT
1 TTTATTTATTTA-TTATATTAT
* *
50474563 TGTCTATTTCTTTTGATTATTTTTATT
1 T-T-TATTT-ATTT-ATTA-TATTA-T
50474590 TTTATTT-TTTATTCATATT
1 TTTATTTATTTATT-ATATT
50474609 CTTAATTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
21 17 0.31
22 10 0.18
23 9 0.16
24 6 0.11
25 7 0.13
26 4 0.07
27 2 0.04
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTATTTATTTATTATATTAT
Found at i:50479545 original size:25 final size:25
Alignment explanation
Indices: 50479490--50479556 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
50479480 ATTTTTAGTT
* *
50479490 TTATGTTCATTATTATTTTCTTGGAC
1 TTAT-TTCATTATTATCTTCTTGAAC
*
50479516 TTATTTCATTTTTATCTT-TTGAAC
1 TTATTTCATTATTATCTTCTTGAAC
*
50479540 TATATTATTATTATTAT
1 T-TATT-TCATTATTAT
50479557 GGTTGTTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 6 0.18
25 16 0.47
26 12 0.35
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.61
Consensus pattern (25 bp):
TTATTTCATTATTATCTTCTTGAAC
Found at i:50483384 original size:18 final size:19
Alignment explanation
Indices: 50483361--50483396 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
50483351 TGTCCCCTCT
50483361 TTAAGTTT-GAAAAATTTA
1 TTAAGTTTCGAAAAATTTA
50483379 TTAAGTTTCGAAAAATTT
1 TTAAGTTTCGAAAAATTT
50483397 TGTATGTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.44
Consensus pattern (19 bp):
TTAAGTTTCGAAAAATTTA
Found at i:50490569 original size:9 final size:9
Alignment explanation
Indices: 50490555--50490579 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
50490545 AAGTTAAGTA
50490555 ATGTATTTC
1 ATGTATTTC
50490564 ATGTATTTC
1 ATGTATTTC
50490573 ATGTATT
1 ATGTATT
50490580 GATGCTTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.08, G:0.12, T:0.56
Consensus pattern (9 bp):
ATGTATTTC
Found at i:50492202 original size:43 final size:43
Alignment explanation
Indices: 50492032--50492203 Score: 152
Period size: 43 Copynumber: 4.0 Consensus size: 43
50492022 CATAGGATTC
* * * * *
50492032 CGATATGTGATTTCGTGTAAGACCACGTTTGGGACGTTGGCAT
1 CGATATTTGATTACATGTAAGACCATGTCTGGGACGTTGGCAT
* ** * *
50492075 CGAT-TTGAGATTTACATGTAAGACCATGTCTATGACATCGGCAT
1 CGATATT-TGA-TTACATGTAAGACCATGTCTGGGACGTTGGCAT
* * *
50492119 CG-TATTTGATTTCGTGTAAGACCCTGTCTGGGACAG-TGGCAT
1 CGATATTTGATTACATGTAAGACCATGTCTGGGAC-GTTGGCAT
* * *
50492161 CGATATTTGATTACATGTAAGAACAGGTCTGGGATGTTGGCAT
1 CGATATTTGATTACATGTAAGACCATGTCTGGGACGTTGGCAT
50492204 TGTACAAGTT
Statistics
Matches: 99, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
42 29 0.29
43 41 0.41
44 29 0.29
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTACATGTAAGACCATGTCTGGGACGTTGGCAT
Found at i:50496317 original size:24 final size:25
Alignment explanation
Indices: 50496289--50496352 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
50496279 TCAACCAAAT
* * *
50496289 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
50496313 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
50496338 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
50496353 TGAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:50496403 original size:24 final size:24
Alignment explanation
Indices: 50496376--50496425 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
50496366 CATGCATCGA
*
50496376 CATTCAAATCTGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
* *
50496400 CATTTAATTCCGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
50496424 CA
1 CA
50496426 ATGTTAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAGTGC
Found at i:50496498 original size:94 final size:94
Alignment explanation
Indices: 50496381--50496662 Score: 528
Period size: 94 Copynumber: 3.0 Consensus size: 94
50496371 ATCGACATTC
* *
50496381 AAATCTGCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
50496446 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
50496475 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
50496540 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
*
50496569 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
50496634 GGCAACTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
50496663 CGGTCACATT
Statistics
Matches: 184, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 184 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:50504143 original size:24 final size:25
Alignment explanation
Indices: 50504115--50504178 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
50504105 TCAACCAAAT
* *
50504115 TCGCACACATAGTGCTAAAC-AAGC
1 TCGCACACATAGTGCCAAACTAAAC
*
50504139 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCAAACTAAAC
50504164 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
50504179 TGAAAATTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 33 0.92
25 3 0.08
ACGTcount: A:0.34, C:0.33, G:0.16, T:0.17
Consensus pattern (25 bp):
TCGCACACATAGTGCCAAACTAAAC
Found at i:50504229 original size:24 final size:24
Alignment explanation
Indices: 50504202--50504251 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
50504192 CATGCATCGA
50504202 CATTCAAATCT-ACACACATAGTGC
1 CATT-AAATCTCACACACATAGTGC
* * *
50504226 CATTTAATTTCGCACACATAGTGC
1 CATTAAATCTCACACACATAGTGC
50504250 CA
1 CA
50504252 ATGTTAACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (24 bp):
CATTAAATCTCACACACATAGTGC
Found at i:50504334 original size:94 final size:94
Alignment explanation
Indices: 50504207--50504676 Score: 886
Period size: 94 Copynumber: 5.0 Consensus size: 94
50504197 ATCGACATTC
* * * *
50504207 AAATCTACACACATAGTGCCATTTAATTTCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
50504272 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
50504301 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
50504366 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
50504395 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
50504460 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
50504489 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
50504554 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
*
50504583 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
50504648 GGCAACTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
50504677 CGGTCACATT
Statistics
Matches: 370, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 370 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:50528144 original size:45 final size:45
Alignment explanation
Indices: 50528080--50528194 Score: 214
Period size: 45 Copynumber: 2.6 Consensus size: 45
50528070 TGTACAATAC
50528080 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
*
50528125 TATTCGGGCCTTTGAGCCTAGCAAGCTATAATGCCGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
50528170 TATTCGGGCC-TTGAGCCTAGCAGGC
1 TATTCGGGCCTTTGAGCCTAGCAGGC
50528195 GAAATACCAG
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
44 14 0.21
45 54 0.79
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
Found at i:50529338 original size:17 final size:17
Alignment explanation
Indices: 50529316--50529351 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
50529306 TATTTTGTTC
50529316 ATTTTAACATCACTTTG
1 ATTTTAACATCACTTTG
50529333 ATTTTAACATCACTTTG
1 ATTTTAACATCACTTTG
50529350 AT
1 AT
50529352 ATGTTCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.47
Consensus pattern (17 bp):
ATTTTAACATCACTTTG
Found at i:50529822 original size:66 final size:66
Alignment explanation
Indices: 50529721--50529851 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 66
50529711 GGTAAATTAA
* * * *
50529721 AAATATTATTTTATTTGGTGGTGCCACAAAGAATGGCGCCACCCA-TGTAATCTGCCACCTTTTT
1 AAATATTATTTTATTTGATGGTGCCACAAAAAATGGAGCCA-CCAGTGTAATCTGCCACCCTTTT
50529785 TT
65 TT
* * * *
50529787 AAATGTTATTTTATTTGATTGTGCCATAAAAAATGGAGCCACCAGTGTAATTTGCCACCCTTTTT
1 AAATATTATTTTATTTGATGGTGCCACAAAAAATGGAGCCACCAGTGTAATCTGCCACCCTTTTT
50529852 CAACTATTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 3 0.05
66 53 0.95
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.37
Consensus pattern (66 bp):
AAATATTATTTTATTTGATGGTGCCACAAAAAATGGAGCCACCAGTGTAATCTGCCACCCTTTTT
T
Found at i:50529960 original size:93 final size:94
Alignment explanation
Indices: 50529787--50530002 Score: 240
Period size: 93 Copynumber: 2.3 Consensus size: 94
50529777 ACCTTTTTTT
* * *
50529787 AAATGTTATTTTATTTGATTGTGCCATAAAAAATGGAGCCACCAGTGTAATTTGCCACCCTTTTT
1 AAATGTTATTTTATTTGGTTGTGCCATAAAAAATGGAGCCACCAGTGTAATATGCAACCCTTTTT
*
50529852 CAACTATTTTGTTTT-AATTCAAAATTCA
66 CAACTAGTTTGTTTTAAATTCAAAATTCA
* * * **
50529880 AAATATTATTTTATTTGGTTGAT-CTATAAAGAATGGCTCCACCAGTGTAATATGCAACCCTTTT
1 AAATGTTATTTTATTTGGTTG-TGCCATAAAAAATGGAGCCACCAGTGTAATATGCAACCCTTTT
****
50529944 TTTTTTAAGTTT-TTTTAAAATTCAAAATTCA
65 TCAACT-AGTTTGTTTT-AAATTCAAAATTCA
* * *
50529975 AATTGTTCTTTTATTTGGTGGTGCCATA
1 AAATGTTATTTTATTTGGTTGTGCCATA
50530003 GAGAATAGTG
Statistics
Matches: 100, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
93 60 0.60
94 6 0.06
95 34 0.34
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (94 bp):
AAATGTTATTTTATTTGGTTGTGCCATAAAAAATGGAGCCACCAGTGTAATATGCAACCCTTTTT
CAACTAGTTTGTTTTAAATTCAAAATTCA
Found at i:50535043 original size:30 final size:30
Alignment explanation
Indices: 50534990--50535077 Score: 142
Period size: 30 Copynumber: 3.0 Consensus size: 30
50534980 ACAGGGGTTT
* **
50534990 TCACATGGCC-TGACACATGCCCGTGTCCC
1 TCACATGGCCATAACACACACCCGTGTCCC
50535019 TCACATGGCCATAACACACACCCGTGTCCC
1 TCACATGGCCATAACACACACCCGTGTCCC
50535049 TCACATGGCCATAACACACACCCGTGTCC
1 TCACATGGCCATAACACACACCCGTGTCC
50535078 AAAAACCTTG
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 10 0.18
30 45 0.82
ACGTcount: A:0.24, C:0.42, G:0.16, T:0.18
Consensus pattern (30 bp):
TCACATGGCCATAACACACACCCGTGTCCC
Found at i:50539310 original size:40 final size:40
Alignment explanation
Indices: 50539231--50539407 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
50539221 CGGATGATAA
* * * *
50539231 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
50539271 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
50539311 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
50539351 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
50539391 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
50539408 ATATTGGGTT
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.12
40 102 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:50539674 original size:22 final size:22
Alignment explanation
Indices: 50539634--50539675 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
50539624 GAATGTGCAT
*
50539634 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
50539656 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
50539676 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:50543139 original size:14 final size:14
Alignment explanation
Indices: 50543120--50543148 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
50543110 TGCTTTCCAT
50543120 AGTAAAACTATCTC
1 AGTAAAACTATCTC
50543134 AGTAAAACTATCTC
1 AGTAAAACTATCTC
50543148 A
1 A
50543149 ATTGTACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.28
Consensus pattern (14 bp):
AGTAAAACTATCTC
Found at i:50544089 original size:38 final size:38
Alignment explanation
Indices: 50544033--50544179 Score: 152
Period size: 38 Copynumber: 3.6 Consensus size: 38
50544023 CATGTGTAAC
*
50544033 CGTGGCATATCCATTTAGCACCACGTTACACGTATAAT
1 CGTGGCATATCCACTTAGCACCACGTTACACGTATAAT
* *
50544071 CGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATGT
1 CGTGGCATATCCACTTAGCACCACGTTACACG--T--ATA-A--T
*
50544115 AACCGTGGCATATCCATTTAGCACCACGTTACACGTATAAT
1 ---CGTGGCATATCCACTTAGCACCACGTTACACGTATAAT
*
50544156 CGTGGTATATCCACTTAGCACCAC
1 CGTGGCATATCCACTTAGCACCAC
50544180 ATTTTTTTTC
Statistics
Matches: 90, Mismatches: 8, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
37 2 0.02
38 48 0.53
39 1 0.01
41 4 0.04
42 1 0.01
43 1 0.01
44 4 0.04
46 1 0.01
47 26 0.29
48 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (38 bp):
CGTGGCATATCCACTTAGCACCACGTTACACGTATAAT
Found at i:50551235 original size:22 final size:20
Alignment explanation
Indices: 50551210--50551249 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
50551200 TACACGTTTC
50551210 AAAATACAGAGGTATCGATATT
1 AAAAT-CAGA-GTATCGATATT
*
50551232 AAAATCAGATTATCGATA
1 AAAATCAGAGTATCGATA
50551250 CCTCTGCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 4 0.24
22 5 0.29
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.28
Consensus pattern (20 bp):
AAAATCAGAGTATCGATATT
Found at i:50551905 original size:39 final size:39
Alignment explanation
Indices: 50551823--50551960 Score: 150
Period size: 39 Copynumber: 3.5 Consensus size: 39
50551813 ATTCACTTTT
* * * * * *
50551823 AAGCATATATCATATTACACATATAACCACAAAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
50551862 AAGCATATATCACAATACTCATATAATTACATAGCGTTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
50551901 AAGCATATAACGCAATACTCATATAATCACGTAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
50551940 AAGTATATATCATAATACTCA
1 AAGCATATATCACAATACTCA
50551961 AAAACATATT
Statistics
Matches: 80, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:50555585 original size:17 final size:18
Alignment explanation
Indices: 50555563--50555596 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50555553 CACATTGAAG
50555563 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
50555580 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
50555597 CTTCTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:50556903 original size:28 final size:28
Alignment explanation
Indices: 50556861--50556963 Score: 136
Period size: 28 Copynumber: 3.7 Consensus size: 28
50556851 TGGCCTCTTT
* * *
50556861 AGGCCCAATCTCATTCATGTGGCCTATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
50556889 GGGCCCAATCACATTCATATGGCCCATT
1 AGGCCCAATCACATTCATATGGCCCATC
*
50556917 AGGCCCAATCA-ATTTCATATGGCCCGTC
1 AGGCCCAATCACA-TTCATATGGCCCATC
50556945 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
50556964 GTCATGCAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
27 1 0.02
28 63 0.97
29 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:50556934 original size:56 final size:57
Alignment explanation
Indices: 50556845--50556963 Score: 152
Period size: 56 Copynumber: 2.1 Consensus size: 57
50556835 TCCATACTTC
* * * * * *
50556845 TTCATTTGGCCTCTTTAGGCCCAATCTCATTCATGTGGCCTATCGGGCCCAATCACA
1 TTCATATGGCCTCATTAGGCCCAATCTAATTCATATGGCCCATCAGGCCCAATCACA
*
50556902 TTCATATGGCC-CATTAGGCCCAATC-AATTTCATATGGCCCGTCAGGCCCAATCACA
1 TTCATATGGCCTCATTAGGCCCAATCTAA-TTCATATGGCCCATCAGGCCCAATCACA
50556958 TTCATA
1 TTCATA
50556964 GTCATGCAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 1 0.02
56 43 0.80
57 10 0.19
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (57 bp):
TTCATATGGCCTCATTAGGCCCAATCTAATTCATATGGCCCATCAGGCCCAATCACA
Found at i:50560267 original size:42 final size:42
Alignment explanation
Indices: 50560208--50560405 Score: 245
Period size: 42 Copynumber: 4.7 Consensus size: 42
50560198 TGTGTAATTT
*
50560208 CGTGTAAGACCATATCTGGGATATGGCATCGATATGGGATTC
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGTGATTC
*
50560250 CGTGTAAGACCATATCTGGGATATGGCATCGATATGTGATTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGTGATTC
* * * * *
50560292 TGTGTAAGACCATGTCTGGGACATGGCATCGATATGAGACAT-
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGTGA-TTC
* * ** * *
50560334 CGTGTAAAACCATAGCTGGTCTATCCGCATCGATATGTGATCC
1 CGTGTAAGACCATATCTGGGATAT-GGCATCGATATGTGATTC
*
50560377 CATGTAAGACCATATCTGGGATATGGCAT
1 CGTGTAAGACCATATCTGGGATATGGCAT
50560406 TGGCATCTTA
Statistics
Matches: 129, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
42 96 0.74
43 33 0.26
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATATGTGATTC
Found at i:50566719 original size:23 final size:23
Alignment explanation
Indices: 50566693--50566736 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
50566683 CTATCATTTT
*
50566693 TCTAAATAAAATAATAATAAATA
1 TCTAAACAAAATAATAATAAATA
* *
50566716 TCTAAGCAAAATATTAATAAA
1 TCTAAACAAAATAATAATAAA
50566737 ATAATATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (23 bp):
TCTAAACAAAATAATAATAAATA
Found at i:50570152 original size:114 final size:113
Alignment explanation
Indices: 50569968--50570314 Score: 453
Period size: 114 Copynumber: 3.1 Consensus size: 113
50569958 ATTGGAACTA
* * * ** *
50569968 TTCATGGTGTAGCCTCTAGCAAGCTAAAACTGGAATGGCAAAACATGATACATGAATATGTGTAA
1 TTCATGGTGTAGCCTCTAGAAAGATGAAACTGGAATGGCAAAACACAATACATGAATGTGTGTAA
* *
50570033 GACCATGTGGTTAATACCCATGACATGATATGATATGGCTATATGAATG
66 GACCATGTGGTTAAGACCCATGGCATGATATGATATGGCT-TATGAATG
* *
50570082 TTCATGGTGTAGCCTCTAGTAAGATGAAACTAGAATGGCAAAACACAATACATGAATGTGTGTAA
1 TTCATGGTGTAGCCTCTAGAAAGATGAAACTGGAATGGCAAAACACAATACATGAATGTGTGTAA
* * * *
50570147 AACCATGTGGTTAAGACCCTTGGCATAATATGATATGGTTGTATGAATG
66 GACCATGTGGTTAAGACCCATGGCATGATATGATATGGCT-TATGAATG
* * * * * *
50570196 TTCATAGTGTAGCCTCCAGAAAGATGAAACTGGAATGGGAGAACACAAAACATGAATGTATGTAA
1 TTCATGGTGTAGCCTCTAGAAAGATGAAACTGGAATGGCAAAACACAATACATGAATGTGTGTAA
* * * *
50570261 GACCATGTGATTAAGACCTATGGCATGATATGATATGAC-TATGATTG
66 GACCATGTGGTTAAGACCCATGGCATGATATGATATGGCTTATGAATG
50570308 TTCATGG
1 TTCATGG
50570315 CATAGCCTTC
Statistics
Matches: 202, Mismatches: 31, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
112 13 0.06
114 189 0.94
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (113 bp):
TTCATGGTGTAGCCTCTAGAAAGATGAAACTGGAATGGCAAAACACAATACATGAATGTGTGTAA
GACCATGTGGTTAAGACCCATGGCATGATATGATATGGCTTATGAATG
Found at i:50575409 original size:46 final size:46
Alignment explanation
Indices: 50575275--50575440 Score: 133
Period size: 46 Copynumber: 3.6 Consensus size: 46
50575265 GTAAGGTGCC
* * * * * *
50575275 GATGCCATGTCCTAGACACGTTTTACACTGGCTCA-CATCTC-AAGTT
1 GATG-CATGTCCCAGACATGTCTTACACTGACT-ATCATCTCGAGGCT
50575321 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGGCT
* * * * *
50575369 GATGCATGTCCGAGACATGTCTTGCACTGGCTTAT-GTCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGAC-TATCATCTCGAGGCT
* *
50575415 GATACGTGTCCCAGACATGTCTTACA
1 GATGCATGTCCCAGACATGTCTTACA
50575441 TTAGCACTCG
Statistics
Matches: 100, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
45 1 0.01
46 58 0.58
47 34 0.34
48 6 0.06
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGCT
Found at i:50582341 original size:16 final size:16
Alignment explanation
Indices: 50582313--50582372 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
50582303 CCCTAATTTC
50582313 TCCTTTTTCTTTTCTT
1 TCCTTTTTCTTTTCTT
50582329 TCCTTCTTT-TTTTCTT
1 TCCTT-TTTCTTTTCTT
* *
50582345 T-CTATTTCGTTTC-T
1 TCCTTTTTCTTTTCTT
*
50582359 TCTCTGTTTCTTTT
1 TC-CTTTTTCTTTT
50582373 TCTTGTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 5 0.14
15 6 0.17
16 22 0.61
17 3 0.08
ACGTcount: A:0.02, C:0.23, G:0.03, T:0.72
Consensus pattern (16 bp):
TCCTTTTTCTTTTCTT
Found at i:50582360 original size:26 final size:25
Alignment explanation
Indices: 50582318--50582371 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
50582308 ATTTCTCCTT
* *
50582318 TTTCTTTTCTTTCCTTCTTTTTTTC
1 TTTCTTTTCTTTCCTTCTCTGTTTC
50582343 TTTCTATTTCGTTT-CTTCTCTGTTTC
1 TTTCT-TTTC-TTTCCTTCTCTGTTTC
50582369 TTT
1 TTT
50582372 TTCTTGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.20
26 17 0.68
27 3 0.12
ACGTcount: A:0.02, C:0.22, G:0.04, T:0.72
Consensus pattern (25 bp):
TTTCTTTTCTTTCCTTCTCTGTTTC
Found at i:50585386 original size:22 final size:21
Alignment explanation
Indices: 50585357--50585399 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
50585347 GGCCTCAATT
50585357 AAAGTGAAAAAAAACCAAAAA
1 AAAGTGAAAAAAAACCAAAAA
*
50585378 AAAGATGAAAAAAAACCTAAAA
1 AAAG-TGAAAAAAAACCAAAAA
50585400 TGAGAGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.74, C:0.09, G:0.09, T:0.07
Consensus pattern (21 bp):
AAAGTGAAAAAAAACCAAAAA
Found at i:50585409 original size:22 final size:22
Alignment explanation
Indices: 50585362--50585409 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
50585352 CAATTAAAGT
*
50585362 GAAAAAAAACCAAAAAAAAGAT
1 GAAAAAAAACCAAAAAAAAGAG
* **
50585384 GAAAAAAAACCTAAAATGAGAG
1 GAAAAAAAACCAAAAAAAAGAG
50585406 GAAA
1 GAAA
50585410 GTACTAACCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.71, C:0.08, G:0.15, T:0.06
Consensus pattern (22 bp):
GAAAAAAAACCAAAAAAAAGAG
Found at i:50591117 original size:17 final size:16
Alignment explanation
Indices: 50591078--50591110 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
50591068 AACATAATCT
50591078 AATATATATATAAACA
1 AATATATATATAAACA
*
50591094 AAT-TATATATATACA
1 AATATATATATAAACA
50591109 AA
1 AA
50591111 ACATATAACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 13 0.81
16 3 0.19
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (16 bp):
AATATATATATAAACA
Found at i:50596953 original size:68 final size:67
Alignment explanation
Indices: 50596881--50597030 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
50596871 CATCATGTGT
* * * *
50596881 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
50596943 ATGTAG
62 ATGTAG
** * *
50596949 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
50597014 AG
66 AG
50597016 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
50597031 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:50596986 original size:64 final size:64
Alignment explanation
Indices: 50596905--50597088 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
50596895 AGACATTATG
* *
50596905 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
50596969 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
50597034 AA
63 AA
* * * *
50597036 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
50597089 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:50599832 original size:149 final size:149
Alignment explanation
Indices: 50599562--50599859 Score: 587
Period size: 149 Copynumber: 2.0 Consensus size: 149
50599552 ACAATGTAAG
50599562 TTAGCATGATATTGCAACAAAATTCGTAATCATAATTCATACATCTTAGCTCACTGAGGTCTCGA
1 TTAGCATGATATTGCAACAAAATTCGTAATCATAATTCATACATCTTAGCTCACTGAGGTCTCGA
50599627 CATTTCATAGTCTCAATAACCATAAGCTTAGTGTTCATACCTGTACCCTTTCAACACTTTTCACA
66 CATTTCATAGTCTCAATAACCATAAGCTTAGTGTTCATACCTGTACCCTTTCAACACTTTTCACA
50599692 TATTACTCCACTTCTTAAC
131 TATTACTCCACTTCTTAAC
50599711 TTAGCATGATATTGCAACAAAATTCGTAATCATAATTCATACATCTTAGCTCACTGAGGTCTCGA
1 TTAGCATGATATTGCAACAAAATTCGTAATCATAATTCATACATCTTAGCTCACTGAGGTCTCGA
*
50599776 CATTTCATAGTCTCAATAACCATAAGCTTGGTGTTCATACCTGTACCCTTTCAACACTTTTCACA
66 CATTTCATAGTCTCAATAACCATAAGCTTAGTGTTCATACCTGTACCCTTTCAACACTTTTCACA
50599841 TATTACTCCACTTCTTAAC
131 TATTACTCCACTTCTTAAC
50599860 CATAATCTTG
Statistics
Matches: 148, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.35
Consensus pattern (149 bp):
TTAGCATGATATTGCAACAAAATTCGTAATCATAATTCATACATCTTAGCTCACTGAGGTCTCGA
CATTTCATAGTCTCAATAACCATAAGCTTAGTGTTCATACCTGTACCCTTTCAACACTTTTCACA
TATTACTCCACTTCTTAAC
Found at i:50600075 original size:48 final size:48
Alignment explanation
Indices: 50600024--50600248 Score: 290
Period size: 48 Copynumber: 4.7 Consensus size: 48
50600014 TCATGTCAGT
* * * *
50600024 GCCGATGCCATGTCCCAGGCATGGTCATATACTAGCACACATATCATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATC
*
50600072 GCCGATGCCATGTACCAGACATGGTCTTACACTAGCACACATATCATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATC
* * *
50600120 GCCGATTCCATCTCCCAGACATGGTCTTACACTGGCACACATATCATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATC
* * * * *
50600168 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTCAAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC--ATC
* *
50600217 GCCAACGCCATGTCCCAGACATGGTCTTACAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACAC
50600249 GGGATCTCAT
Statistics
Matches: 157, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
48 126 0.80
49 29 0.18
50 2 0.01
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATC
Found at i:50600690 original size:9 final size:9
Alignment explanation
Indices: 50600676--50600714 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
50600666 ATATGACATT
50600676 TCATTATTA
1 TCATTATTA
50600685 TCATTATTA
1 TCATTATTA
*
50600694 TTATTATTA
1 TCATTATTA
*
50600703 TTATTATTA
1 TCATTATTA
50600712 TCA
1 TCA
50600715 CACGAACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (9 bp):
TCATTATTA
Found at i:50600693 original size:3 final size:3
Alignment explanation
Indices: 50600678--50600712 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
50600668 ATGACATTTC
*
50600678 ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
50600713 CACACGAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:50603522 original size:45 final size:45
Alignment explanation
Indices: 50603458--50603633 Score: 216
Period size: 45 Copynumber: 4.0 Consensus size: 45
50603448 AATCGTACAG
* * *
50603458 TACTATTCGGGCCTTTGAGCCTAGCAGGATATAATGCCGGTGATA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
50603503 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
50603548 TACTATTCAGGCCTTCAAGCCTAGTAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
50603593 TGA-TA-TCGGG-CTTCGAGCCTAGCATGCGA-AATGCTGGTGAA
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
50603634 TGAATTCGGG
Statistics
Matches: 117, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
42 11 0.09
43 15 0.13
44 4 0.03
45 86 0.74
46 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:50611008 original size:43 final size:43
Alignment explanation
Indices: 50610961--50611049 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
50610951 GAGTGATGAA
*
50610961 ATGAAATAAAAGTGAATAAAATGTAGGATGAAATATCCGAATG
1 ATGAAATAAAAGTGAACAAAATGTAGGATGAAATATCCGAATG
* *
50611004 ATGAAATAAAAGTGAACAAAATGTAGGATGATATATTCGAATG
1 ATGAAATAAAAGTGAACAAAATGTAGGATGAAATATCCGAATG
50611047 ATG
1 ATG
50611050 TTTGTACCTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.49, C:0.04, G:0.21, T:0.25
Consensus pattern (43 bp):
ATGAAATAAAAGTGAACAAAATGTAGGATGAAATATCCGAATG
Found at i:50611228 original size:45 final size:45
Alignment explanation
Indices: 50611110--50611285 Score: 243
Period size: 45 Copynumber: 4.0 Consensus size: 45
50611100 TATCGTACAG
* *
50611110 TACTATTCGGGCCTTTGAGCCTAGAAGGCTATAATGCCGGTGATA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGATA
*
50611155 TACTATTCGGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
1 TACTATTC-GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGATA
*
50611201 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGATA
* * *
50611246 TGA-TA-TCGGG-CTTCGAGCGTAGCATGC-AAAATGCCGGTGA
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
50611286 ATGAATTCGG
Statistics
Matches: 123, Mismatches: 6, Indels: 7
0.90 0.04 0.05
Matches are distributed among these distances:
42 12 0.10
43 15 0.12
44 5 0.04
45 46 0.37
46 45 0.37
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGATA
Found at i:50613569 original size:22 final size:21
Alignment explanation
Indices: 50613540--50613583 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
50613530 CTACCACTGA
50613540 AATTTCATGAAATTTCAACAT
1 AATTTCATGAAATTTCAACAT
*
50613561 AATTCTCATGAAATTTCACCAT
1 AATT-TCATGAAATTTCAACAT
50613583 A
1 A
50613584 GGACACCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (21 bp):
AATTTCATGAAATTTCAACAT
Found at i:50616367 original size:48 final size:48
Alignment explanation
Indices: 50616313--50616438 Score: 207
Period size: 48 Copynumber: 2.6 Consensus size: 48
50616303 CATGTCAGTG
* *
50616313 CCGATGCCATGTCCCAGACATGGTCTTATACTAGCACACATATCATCG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATCA
* * *
50616361 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATCA
50616409 CCGATGCCATGTCCCAGACATGGTCTTACA
1 CCGATGCCATGTCCCAGACATGGTCTTACA
50616439 GTGGCTCTCA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.25
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATCA
Found at i:50616479 original size:49 final size:48
Alignment explanation
Indices: 50616318--50616481 Score: 168
Period size: 48 Copynumber: 3.4 Consensus size: 48
50616308 CAGTGCCGAT
* * * ** * *
50616318 GCCATGTCCCAGACATGGTCTTATACTAGCACACATATCATCGTCGAT
1 GCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCAAC
* *
50616366 GCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCGAT
1 GCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCAAC
* * * * * *
50616414 GCCATGTCCCAGACATGGTCTTACAGTGGCTCTCATCTCGGAT-GCCAAC
1 GCCATGTCCCAAACATGGTCTTACACTGGCACACATATC--ATCACCAAC
50616463 GCCATGTCCCAAACATGGT
1 GCCATGTCCCAAACATGGT
50616482 TCTACACGGG
Statistics
Matches: 100, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
48 77 0.77
49 21 0.21
50 2 0.02
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (48 bp):
GCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCAAC
Found at i:50619115 original size:18 final size:17
Alignment explanation
Indices: 50619089--50619122 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
50619079 AATTTTTTTG
50619089 AAAACAATAATAGAAAAT
1 AAAACAATAATA-AAAAT
*
50619107 AAAATAATAATAAAAA
1 AAAACAATAATAAAAA
50619123 GAAATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAACAATAATAAAAAT
Found at i:50627601 original size:19 final size:19
Alignment explanation
Indices: 50627566--50627603 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
50627556 AAAACATAAT
*
50627566 CAAAACCAAAACTAATCCA
1 CAAAACCAAAACAAATCCA
*
50627585 CAAAACCAAAAGAAATCCA
1 CAAAACCAAAACAAATCCA
50627604 AAATTTTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.61, C:0.29, G:0.03, T:0.08
Consensus pattern (19 bp):
CAAAACCAAAACAAATCCA
Found at i:50628399 original size:32 final size:32
Alignment explanation
Indices: 50628363--50628424 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
50628353 ATGTGGCTTG
*
50628363 CCCGTGTGGCTCACACGC-CTGAATTGGCCTTA
1 CCCGTGTGGCCCACACGCTC-GAATTGGCCTTA
*
50628395 CCCGTGTGGCCCACATGCTCGAATTGGCCT
1 CCCGTGTGGCCCACACGCTCGAATTGGCCT
50628425 AGACCGTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.15, C:0.35, G:0.26, T:0.24
Consensus pattern (32 bp):
CCCGTGTGGCCCACACGCTCGAATTGGCCTTA
Found at i:50629854 original size:18 final size:17
Alignment explanation
Indices: 50629823--50629856 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
50629813 CCCACAAAAT
*
50629823 ATTTTTTTTAATTTTTA
1 ATTTTTTTCAATTTTTA
50629840 ATTTTTTTCATATTTTT
1 ATTTTTTTCA-ATTTTT
50629857 CTATTTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTTTTCAATTTTTA
Found at i:50630926 original size:25 final size:25
Alignment explanation
Indices: 50630879--50630929 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
50630869 TATTAGCTTC
* * * *
50630879 AAAATAACAAGAACATAACGAAAAG
1 AAAAAAACAAGAAAAGAAAGAAAAG
50630904 AAAAAAACAAGAAAAGAAAGAAAAG
1 AAAAAAACAAGAAAAGAAAGAAAAG
50630929 A
1 A
50630930 GATGGAAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.75, C:0.08, G:0.14, T:0.04
Consensus pattern (25 bp):
AAAAAAACAAGAAAAGAAAGAAAAG
Found at i:50633357 original size:8 final size:8
Alignment explanation
Indices: 50633344--50633369 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
50633334 TATATTTGAA
50633344 GAAGAAAG
1 GAAGAAAG
50633352 GAAGAAAG
1 GAAGAAAG
50633360 GAAGAAAG
1 GAAGAAAG
50633368 GA
1 GA
50633370 GGCAGGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (8 bp):
GAAGAAAG
Found at i:50644829 original size:32 final size:30
Alignment explanation
Indices: 50644770--50644843 Score: 87
Period size: 32 Copynumber: 2.4 Consensus size: 30
50644760 GGTCTAATTA
*
50644770 AAAATTTT-AAAATTTTTGTGAGATTAATG
1 AAAATTTTCAAAATTTTAGTGAGATTAATG
* * *
50644799 AGAATTTTCAAATATTTTAAGTGAGCTTAATT
1 AAAATTTTCAAA-ATTTT-AGTGAGATTAATG
50644831 AAAATTTTCAAAA
1 AAAATTTTCAAAA
50644844 AAATTAGAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 7 0.19
30 3 0.08
31 6 0.16
32 21 0.57
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.42
Consensus pattern (30 bp):
AAAATTTTCAAAATTTTAGTGAGATTAATG
Found at i:50646026 original size:22 final size:22
Alignment explanation
Indices: 50645998--50646039 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
50645988 ATTGCCAAAA
50645998 GGGAGGGAAAAGGGGGTTTCCC
1 GGGAGGGAAAAGGGGGTTTCCC
50646020 GGGAGGGAAAAGGGGGTTTC
1 GGGAGGGAAAAGGGGGTTTC
50646040 TCATTGCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.10, G:0.52, T:0.14
Consensus pattern (22 bp):
GGGAGGGAAAAGGGGGTTTCCC
Found at i:50650448 original size:15 final size:15
Alignment explanation
Indices: 50650428--50650457 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50650418 AGTTGAAGAC
*
50650428 TTAACTTGGTTCCTA
1 TTAACTCGGTTCCTA
50650443 TTAACTCGGTTCCTA
1 TTAACTCGGTTCCTA
50650458 AGCAGAGACT
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:0.20, C:0.23, G:0.13, T:0.43
Consensus pattern (15 bp):
TTAACTCGGTTCCTA
Found at i:50656110 original size:94 final size:94
Alignment explanation
Indices: 50655949--50656120 Score: 263
Period size: 94 Copynumber: 1.8 Consensus size: 94
50655939 AGGATATTTG
** * * * *
50655949 GGCATCCGAGCTCGTTGAGTTGAGTTTAAGTTCACTGATGGATGCGAATGTCCGAGCTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTGATGGATACGAACGCCCAAGCTCATTGAG
50656014 TTGAGTCTGAGTTTCGTGAGATGTAACTA
66 TTGAGTCTGAGTTTCGTGAGATGTAACTA
* * *
50656043 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCAAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTGATGGATACGAACGCCCAAGCTCATTGAG
50656108 TTGAGTCTGAGTT
66 TTGAGTCTGAGTT
50656121 CGCTTATGGG
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 69 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (94 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTGATGGATACGAACGCCCAAGCTCATTGAG
TTGAGTCTGAGTTTCGTGAGATGTAACTA
Found at i:50659786 original size:48 final size:48
Alignment explanation
Indices: 50659718--50659811 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 48
50659708 TGTACGGAGG
*
50659718 AAAATGCCGAGTGTATACAGATCATAAAAGTCTCAAATACTTGATGGA
1 AAAATGCCGAGTGTATACAGATCATAAAAGTCTAAAATACTTGATGGA
* *
50659766 AAAATGCCGAGTGTATACAGATCATAAAAGTTTAAAATATTTGATG
1 AAAATGCCGAGTGTATACAGATCATAAAAGTCTAAAATACTTGATG
50659812 ACACAAAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.28
Consensus pattern (48 bp):
AAAATGCCGAGTGTATACAGATCATAAAAGTCTAAAATACTTGATGGA
Found at i:50662498 original size:46 final size:46
Alignment explanation
Indices: 50662443--50662618 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
50662433 TATTTGGGCA
*
50662443 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * * *
50662489 TCTGAGCTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
*
50662534 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCAAAT-
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
50662581 TCCCGAGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 T-CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50662619 TCGGGGTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 5 0.05
45 5 0.05
46 61 0.58
47 27 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:50662610 original size:93 final size:93
Alignment explanation
Indices: 50662439--50662611 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
50662429 AGGATATTTG
* *
50662439 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAGCTCGTTGAG
**
50662504 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
*
50662532 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCAAAT-TCCCGAGCTCGTTGA
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGT-CCGAGCTCGTTGA
50662596 GTTGAGTCCAAGTTCG
65 GTTGAGTCCAAGTTCG
50662612 CTTATGGTCG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAGCTCGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:50665127 original size:79 final size:78
Alignment explanation
Indices: 50665025--50665247 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
50665015 GCTCCTCGTT
* *
50665025 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
50665090 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
50665105 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
50665169 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
50665183 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
50665246 GA
63 GA
50665248 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:50665142 original size:39 final size:40
Alignment explanation
Indices: 50665025--50665247 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
50665015 GCTCCTCGTT
* *
50665025 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
50665065 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
50665105 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
50665144 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
50665183 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
50665224 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50665248 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:50673202 original size:29 final size:29
Alignment explanation
Indices: 50673139--50673206 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
50673129 TAATCAACCG
50673139 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
50673168 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
50673197 CGCACACTTA
1 CGCACACTTA
50673207 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:50673318 original size:174 final size:174
Alignment explanation
Indices: 50673028--50673354 Score: 618
Period size: 174 Copynumber: 1.9 Consensus size: 174
50673018 AACTCAAGGT
* *
50673028 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
50673093 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
50673158 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
50673202 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
50673267 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
50673332 ACTTTAAACTCGCACACTTAGTG
131 ACTTTAAACTCACACACTTAGTG
50673355 TTGTACAATT
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:50673347 original size:29 final size:29
Alignment explanation
Indices: 50673308--50673384 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 29
50673298 CTTAATAATC
50673308 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTG-CATGTACATTTA
* *
50673338 AACTCGCACACTTAGTG-TTGTACAATTTA
1 AACCCGCACACTTAGTGCATGTAC-ATTTA
50673367 AACCCGCACACTTAGTGC
1 AACCCGCACACTTAGTGC
50673385 TAATCTCATG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCATGTACATTTA
Found at i:50676225 original size:9 final size:9
Alignment explanation
Indices: 50676211--50676250 Score: 50
Period size: 8 Copynumber: 4.8 Consensus size: 9
50676201 ATCGGCAAAA
50676211 CCGAAAATG
1 CCGAAAATG
50676220 CCG-AAATG
1 CCGAAAATG
50676228 CCGAAAA-G
1 CCGAAAATG
50676236 CCG-AAATG
1 CCGAAAATG
*
50676244 CAGAAAA
1 CCGAAAA
50676251 GCTGAAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
7 3 0.11
8 15 0.56
9 9 0.33
ACGTcount: A:0.47, C:0.23, G:0.23, T:0.07
Consensus pattern (9 bp):
CCGAAAATG
Found at i:50676228 original size:8 final size:8
Alignment explanation
Indices: 50676215--50676249 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
50676205 GCAAAACCGA
50676215 AAATGCCG
1 AAATGCCG
50676223 AAATGCCG
1 AAATGCCG
*
50676231 AAAAGCCG
1 AAATGCCG
*
50676239 AAATGCAG
1 AAATGCCG
50676247 AAA
1 AAA
50676250 AGCTGAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.49, C:0.20, G:0.23, T:0.09
Consensus pattern (8 bp):
AAATGCCG
Found at i:50676240 original size:16 final size:16
Alignment explanation
Indices: 50676211--50676257 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
50676201 ATCGGCAAAA
50676211 CCGAAAATGCCGAAATG
1 CCGAAAA-GCCGAAATG
50676228 CCGAAAAGCCGAAATG
1 CCGAAAAGCCGAAATG
* *
50676244 CAGAAAAGCTGAAA
1 CCGAAAAGCCGAAA
50676258 GTTTAGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 21 0.75
17 7 0.25
ACGTcount: A:0.47, C:0.21, G:0.23, T:0.09
Consensus pattern (16 bp):
CCGAAAAGCCGAAATG
Found at i:50676257 original size:24 final size:24
Alignment explanation
Indices: 50676207--50676257 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
50676197 ATGAATCGGC
* *
50676207 AAAACCGAAAATGCCGAAATGCCG
1 AAAACCGAAAATGCAGAAAAGCCG
*
50676231 AAAAGCCG-AAATGCAGAAAAGCTG
1 AAAA-CCGAAAATGCAGAAAAGCCG
50676255 AAA
1 AAA
50676258 GTTTAGCTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.51, C:0.20, G:0.22, T:0.08
Consensus pattern (24 bp):
AAAACCGAAAATGCAGAAAAGCCG
Found at i:50676525 original size:29 final size:28
Alignment explanation
Indices: 50676468--50676582 Score: 113
Period size: 29 Copynumber: 4.0 Consensus size: 28
50676458 GTGAGCATGA
* * * *
50676468 ATATGAATGTGACTGGGCCTAACCAGCC
1 ATATAAATGTGATTGGGCCTAATCGGCC
50676496 ATATAAATGTGATTTGGGCCTAATCGGCC
1 ATATAAATGTGA-TTGGGCCTAATCGGCC
* * *
50676525 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATCGGCC
* * * *
50676554 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATCGGCC
50676582 A
1 A
50676583 GATATAGGTA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 27 0.36
29 47 0.64
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATCGGCC
Found at i:50680853 original size:8 final size:8
Alignment explanation
Indices: 50680840--50680883 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
50680830 GGCAAAACCG
50680840 GAAATGCC
1 GAAATGCC
50680848 GAAATGCC
1 GAAATGCC
*
50680856 GAAAAGCC
1 GAAATGCC
**
50680864 GAAATGTT
1 GAAATGCC
*
50680872 GAAAAGCC
1 GAAATGCC
50680880 GAAA
1 GAAA
50680884 GTTTGGATAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.11
Consensus pattern (8 bp):
GAAATGCC
Found at i:50680864 original size:16 final size:16
Alignment explanation
Indices: 50680840--50680883 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
50680830 GGCAAAACCG
*
50680840 GAAATGCCGAAATGCC
1 GAAAAGCCGAAATGCC
**
50680856 GAAAAGCCGAAATGTT
1 GAAAAGCCGAAATGCC
50680872 GAAAAGCCGAAA
1 GAAAAGCCGAAA
50680884 GTTTGGATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.11
Consensus pattern (16 bp):
GAAAAGCCGAAATGCC
Found at i:50681149 original size:29 final size:28
Alignment explanation
Indices: 50681092--50681191 Score: 103
Period size: 29 Copynumber: 3.5 Consensus size: 28
50681082 GTGAGCATGA
* *
50681092 ATATGAATGTGA-CTGGGCCTAATGAGCC
1 ATATAAATGTGATTTGGGCCTAATG-GCC
*
50681120 ATATAAATGTGATTTGGGTCTAATCGGCC
1 ATATAAATGTGATTTGGGCCTAAT-GGCC
* *
50681149 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAAT-GGCC
* *
50681178 ATATGAATATGATT
1 ATATAAATGTGATT
50681192 AGGCTTAATG
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
28 11 0.19
29 47 0.80
30 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
ATATAAATGTGATTTGGGCCTAATGGCC
Found at i:50681173 original size:58 final size:57
Alignment explanation
Indices: 50681105--50681215 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
50681095 TGAATGTGAC
* * * *
50681105 TGGGCCTAATGAGCCATATAAATGTGATTTGGGTCTAATCGGCCATATACAGGTGATT
1 TGGGCCTAATGAGCCATATAAATATGATTAGGCT-TAATCGGCCAGATACAGGTGATT
* * *
50681163 TGGGCCTAATGGGCCATATGAATATGATTAGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAATGAGCCATATAAATATGATTAGGCTTAATCGGCCAGATACAGGT
50681216 ATGTGAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 17 0.37
58 29 0.63
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (57 bp):
TGGGCCTAATGAGCCATATAAATATGATTAGGCTTAATCGGCCAGATACAGGTGATT
Found at i:50690834 original size:48 final size:48
Alignment explanation
Indices: 50690640--50690814 Score: 278
Period size: 48 Copynumber: 3.6 Consensus size: 48
50690630 ACGATGCCTT
* * *
50690640 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* * *
50690688 ATGCCGGTGCCATGTTCCAGACATGGTCTTACACTGGCTCGCATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
50690736 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
**
50690784 ATGTTGATGCCATGTCCCAGACATGGTCTTA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTA
50690815 GACGGGATCA
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 116 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
Found at i:50690834 original size:96 final size:96
Alignment explanation
Indices: 50690640--50690836 Score: 277
Period size: 96 Copynumber: 2.1 Consensus size: 96
50690630 ACGATGCCTT
* *
50690640 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAACAATGCCGGTGCCATGTTC
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAACAATGCCGATGCCATGTCC
* * *
50690705 CAGACATGGTCTTACACTGGCTCGCATAACG
66 CAGACATGGTCTTACACGGGATCACATAACG
* * * **
50690736 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATGTTGATGCCATGTCC
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAACAATGCCGATGCCATGTCC
* **
50690801 CAGACATGGTCTTAGACGGGATCACATGTCG
66 CAGACATGGTCTTACACGGGATCACATAACG
50690832 ATGCC
1 ATGCC
50690837 ATATCCCTGA
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 88 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (96 bp):
ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAACAATGCCGATGCCATGTCC
CAGACATGGTCTTACACGGGATCACATAACG
Found at i:50694408 original size:37 final size:37
Alignment explanation
Indices: 50694353--50694453 Score: 121
Period size: 37 Copynumber: 2.7 Consensus size: 37
50694343 TGTTTACTTG
* * *
50694353 ATGCCATAGTCCAACTATGGCCTTACACAAAATCACA
1 ATGCCATAGCCCAGCTATGGTCTTACACAAAATCACA
**** * *
50694390 ATGCCATAGCCCAGCTATGGTCTTACATGTCATTACG
1 ATGCCATAGCCCAGCTATGGTCTTACACAAAATCACA
50694427 ATGCCATAGCCCAGCTATGGTCTTACA
1 ATGCCATAGCCCAGCTATGGTCTTACA
50694454 TTCCATACTT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (37 bp):
ATGCCATAGCCCAGCTATGGTCTTACACAAAATCACA
Found at i:50694589 original size:15 final size:15
Alignment explanation
Indices: 50694557--50694585 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50694547 ATTTTCTATG
50694557 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
50694572 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
50694586 ATTTCCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:50695729 original size:45 final size:45
Alignment explanation
Indices: 50695665--50695792 Score: 175
Period size: 45 Copynumber: 2.8 Consensus size: 45
50695655 GTAGGATTAT
*
50695665 GATATATGTGTTTTTGAGTAAGACCACATTTGGGACATTGGCATC
1 GATATATGTGTTTTTGAGTAAGACCACATCTGGGACATTGGCATC
* *
50695710 GATATATGTGTTTTTGAGTAAGACCACATCTGGGACGTTGGTATC
1 GATATATGTGTTTTTGAGTAAGACCACATCTGGGACATTGGCATC
* ** * **
50695755 GATATATGTGGTTACGTGTAAGACCATGTCTGGGACAT
1 GATATATGTGTTTTTGAGTAAGACCACATCTGGGACAT
50695793 CGGTATCATA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 73 1.00
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (45 bp):
GATATATGTGTTTTTGAGTAAGACCACATCTGGGACATTGGCATC
Found at i:50695798 original size:45 final size:44
Alignment explanation
Indices: 50695695--50695826 Score: 135
Period size: 45 Copynumber: 3.0 Consensus size: 44
50695685 AGACCACATT
* * * * **
50695695 TGGGACATTGGCATCGATATATGTGTTTTTGAGTAAGACCACATC
1 TGGGACATTGGTATCGATATATGTG-ATTCGTGTAAGACCATGTC
* *
50695740 TGGGACGTTGGTATCGATATATGTGGTTACGTGTAAGACCATGTC
1 TGGGACATTGGTATCGATATATGTGATT-CGTGTAAGACCATGTC
* *
50695785 TGGGACATCGGTATC-ATAT-T-TGATTCGTGTAAGACCCTGTC
1 TGGGACATTGGTATCGATATATGTGATTCGTGTAAGACCATGTC
50695826 T
1 T
50695827 AGGATAGTAG
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
41 16 0.21
42 4 0.05
43 1 0.01
44 6 0.08
45 48 0.64
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (44 bp):
TGGGACATTGGTATCGATATATGTGATTCGTGTAAGACCATGTC
Found at i:50697094 original size:12 final size:12
Alignment explanation
Indices: 50697077--50697104 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
50697067 GTGGTTTATT
50697077 TTTGACATAAAA
1 TTTGACATAAAA
50697089 TTTGACATAAAA
1 TTTGACATAAAA
50697101 TTTG
1 TTTG
50697105 TCTATAAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (12 bp):
TTTGACATAAAA
Found at i:50700744 original size:48 final size:48
Alignment explanation
Indices: 50700598--50700769 Score: 203
Period size: 48 Copynumber: 3.7 Consensus size: 48
50700588 ACGATGCCTC
* * *
50700598 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* * *
50700646 ATGCCGGTGCCATGTTCCAGACATGGTCTTACACTGGCTCGCATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* * *
50700694 ATGCCGATGCCATGTCCCAGACATGGTCTTATAC-GG----GATCAC-
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* *
50700736 ATGCCGATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACAC
50700770 GGTTACACAT
Statistics
Matches: 110, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
42 31 0.28
43 4 0.04
47 2 0.02
48 73 0.66
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
Found at i:50700779 original size:42 final size:42
Alignment explanation
Indices: 50700518--50700779 Score: 170
Period size: 48 Copynumber: 5.9 Consensus size: 42
50700508 TACCGTAACA
* * ** * **
50700518 ATGCCATGTCTCAGACATGGTCTTACATGGAAATCTCATATCG
1 ATGCCATGTCCCAGACATGGTCTTACACGGTGA-CACATGCCG
* * *
50700561 ATGCCAATAG-CCCAG-CTATGGTCTTACACGATGCCTCATGCCG
1 ATGCC-AT-GTCCCAGAC-ATGGTCTTACACGGTGACACATGCCG
* * *
50700604 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAACAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACAC--GGTGAC---AC-ATGCCG
* * *
50700652 GTGCCATGTTCCAGACATGGTCTTACACTGGCTCGCATAACGATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACAC-GG-T-G-A-CAC-ATGCCG
*
50700700 ATGCCATGTCCCAGACATGGTCTTATACGG-GATCACATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACGGTGA-CACATGCCG
* * *
50700742 ATGCCATATCCCAGATATGGTCTTACACGGTTACACAT
1 ATGCCATGTCCCAGACATGGTCTTACACGGTGACACAT
50700780 ATTGGCATGG
Statistics
Matches: 174, Mismatches: 29, Indels: 33
0.74 0.12 0.14
Matches are distributed among these distances:
41 1 0.01
42 56 0.32
43 24 0.14
44 22 0.13
45 1 0.01
47 4 0.02
48 65 0.37
50 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGGTGACACATGCCG
Found at i:50702052 original size:22 final size:22
Alignment explanation
Indices: 50701977--50702060 Score: 85
Period size: 22 Copynumber: 4.1 Consensus size: 22
50701967 TTGTGCACAT
50701977 TTGGTCACAAATCATACATCAA
1 TTGGTCACAAATCATACATCAA
*
50701999 TTTGG-CATAAATCATACATCAA
1 -TTGGTCACAAATCATACATCAA
50702021 TT--T---AAA-CATATCA-CAA
1 TTGGTCACAAATCATA-CATCAA
50702037 TTGGTCACAAATCATACATCAA
1 TTGGTCACAAATCATACATCAA
50702059 TT
1 TT
50702061 TAATCTTATA
Statistics
Matches: 51, Mismatches: 1, Indels: 19
0.72 0.01 0.27
Matches are distributed among these distances:
16 9 0.18
17 5 0.10
18 1 0.02
21 7 0.14
22 25 0.49
23 4 0.08
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (22 bp):
TTGGTCACAAATCATACATCAA
Found at i:50703626 original size:29 final size:29
Alignment explanation
Indices: 50703553--50703788 Score: 253
Period size: 29 Copynumber: 8.1 Consensus size: 29
50703543 TGTGCTAAAT
* *
50703553 GATGGTCGAAACCATCCCTTTTCTTTAATC
1 GATGGTCGAAACCATCCCTTTTC-ATATTC
*
50703583 GATGGTCGAAA-CATCCTTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
* *
50703611 AATGGTCGAAACCATCCCTTTTCATATTA
1 GATGGTCGAAACCATCCCTTTTCATATTC
* * **
50703640 GATTGTTGTCACCATCCCTTTTCA-ATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
* * *
50703668 GATGGTC-ATCACTATCCCTTTTCATGTTC
1 GATGGTCGA-AACCATCCCTTTTCATATTC
*
50703697 GATGGTCGAAACCATCCTTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
** *
50703726 GATGGTCGTCACCATCCCTTTTCTTATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
** *
50703755 GATGGTCGTCACCATCCCTTTTCATTAATC
1 GATGGTCGAAACCATCCCTTTTCA-TATTC
50703785 GATG
1 GATG
50703789 CTAGTTGATA
Statistics
Matches: 174, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
28 36 0.21
29 118 0.68
30 20 0.11
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.39
Consensus pattern (29 bp):
GATGGTCGAAACCATCCCTTTTCATATTC
Found at i:50703709 original size:86 final size:87
Alignment explanation
Indices: 50703553--50703779 Score: 282
Period size: 86 Copynumber: 2.6 Consensus size: 87
50703543 TGTGCTAAAT
** * *
50703553 GATGGTCGAAACCATCCCTTTTCTTTAA-TCGATGGTCGA--AACATCCTTTTTCATATTCAATG
1 GATGGTCGTCACCATCCCTTTTC--TAATTCGATGGTC-ATCACCATCCCTTTTCATATTCAATG
50703615 GTCGAAACCATCCCTTTTCATATTA
63 GTCGAAACCATCCCTTTTCATATTA
* * * * *
50703640 GATTGTTGTCACCATCCCTTTTC-AATTCGATGGTCATCACTATCCCTTTTCATGTTCGATGGTC
1 GATGGTCGTCACCATCCCTTTTCTAATTCGATGGTCATCACCATCCCTTTTCATATTCAATGGTC
* *
50703704 GAAACCATCCTTTTTCATATTC
66 GAAACCATCCCTTTTCATATTA
* *
50703726 GATGGTCGTCACCATCCCTTTTCTTATTCGATGGTCGTCACCATCCCTTTTCAT
1 GATGGTCGTCACCATCCCTTTTCTAATTCGATGGTCATCACCATCCCTTTTCAT
50703780 TAATCGATGC
Statistics
Matches: 120, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
84 3 0.03
85 9 0.08
86 62 0.52
87 46 0.38
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (87 bp):
GATGGTCGTCACCATCCCTTTTCTAATTCGATGGTCATCACCATCCCTTTTCATATTCAATGGTC
GAAACCATCCCTTTTCATATTA
Found at i:50707660 original size:43 final size:42
Alignment explanation
Indices: 50707589--50707746 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 42
50707579 CGGAAAGCTC
* *
50707589 ATACAATGCCAACATCCCAGACGTGGTCTTACATGTAACCAA
1 ATACGATGCCAACATCCCAGACGTGGTCTTACATGAAACCAA
*
50707631 ATACCGATGCC-ACTATCCCAGACAG-GGTCTTACATGAAATCAA
1 ATA-CGATGCCAAC-ATCCCAGAC-GTGGTCTTACATGAAACCAA
* * ** * * * *
50707674 ATACGATGTCGATGTCCTAGACATGGTCTTACACGTAAATCATA
1 ATACGATGCCAACATCCCAGACGTGGTCTTACATG-AAACCA-A
* *
50707718 AGT-CGATGCCAACGTTCCAGACGTGGTCT
1 A-TACGATGCCAACATCCCAGACGTGGTCT
50707747 CAGACAAAAA
Statistics
Matches: 93, Mismatches: 15, Indels: 14
0.76 0.12 0.11
Matches are distributed among these distances:
42 28 0.30
43 41 0.44
44 23 0.25
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAACATCCCAGACGTGGTCTTACATGAAACCAA
Found at i:50713402 original size:28 final size:28
Alignment explanation
Indices: 50713370--50713434 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
50713360 ATTTACTAGA
*
50713370 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
50713398 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
50713426 ATACCCCTA
1 ATACCCCTA
50713435 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:50713581 original size:28 final size:27
Alignment explanation
Indices: 50713540--50713613 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
50713530 AGGAAGCGTC
50713540 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* * *
50713568 CTGGTGGCCCTGCCGCATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
50713595 CTGGTGGCACTGCCACAAA
1 CTGGTGGCACTGCCACAAA
50713614 ATAAATGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.30
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:50714117 original size:19 final size:19
Alignment explanation
Indices: 50714093--50714131 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
50714083 TTTTAATTAT
* *
50714093 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
50714112 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
50714131 T
1 T
50714132 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:50714743 original size:11 final size:10
Alignment explanation
Indices: 50714715--50714748 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
50714705 AGCCTGTAAG
50714715 TATTCTGAAT
1 TATTCTGAAT
*
50714725 TTTTCTGAAT
1 TATTCTGAAT
50714735 ATATTCTGAAT
1 -TATTCTGAAT
50714746 TAT
1 TAT
50714749 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:50721216 original size:28 final size:28
Alignment explanation
Indices: 50721184--50721248 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
50721174 ATTTACTAGA
*
50721184 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
50721212 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
50721240 ATACCCCTA
1 ATACCCCTA
50721249 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:50721412 original size:27 final size:28
Alignment explanation
Indices: 50721354--50721443 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
50721344 AGGAAGCGTC
*
50721354 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
50721382 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
50721409 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
50721438 CTGGTG
1 CTGGTG
50721444 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:50721454 original size:29 final size:28
Alignment explanation
Indices: 50721364--50721454 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
50721354 CTGGTGGCTA
* * *
50721364 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
50721392 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
50721419 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
50721448 TGTCACA
1 TGCCACA
50721455 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:50721462 original size:55 final size:56
Alignment explanation
Indices: 50721354--50721468 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
50721344 AGGAAGCGTC
* * *
50721354 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
50721409 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
50721465 CTGG
1 CTGG
50721469 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:50722558 original size:11 final size:10
Alignment explanation
Indices: 50722530--50722563 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
50722520 AGCCTGTAAG
50722530 TATTCTGAAT
1 TATTCTGAAT
*
50722540 TTTTCTGAAT
1 TATTCTGAAT
50722550 ATATTCTGAAT
1 -TATTCTGAAT
50722561 TAT
1 TAT
50722564 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:50723688 original size:21 final size:21
Alignment explanation
Indices: 50723664--50723734 Score: 52
Period size: 23 Copynumber: 3.2 Consensus size: 21
50723654 GGTACACCTG
50723664 GGTGAGTGTAGGAAACGTTCT
1 GGTGAGTGTAGGAAACGTTCT
* * ** * *
50723685 GGTGCTTGTTTCCGATACAGATCT
1 GGTG--AGTGTAGGAAAC-GTTCT
50723709 AGGTGAGTGTAGGAAACGTTCT
1 -GGTGAGTGTAGGAAACGTTCT
50723731 GGTG
1 GGTG
50723735 CTTGTTTCCG
Statistics
Matches: 34, Mismatches: 12, Indels: 8
0.63 0.22 0.15
Matches are distributed among these distances:
21 8 0.24
22 4 0.12
23 14 0.41
24 4 0.12
25 4 0.12
ACGTcount: A:0.21, C:0.13, G:0.35, T:0.31
Consensus pattern (21 bp):
GGTGAGTGTAGGAAACGTTCT
Found at i:50726868 original size:10 final size:12
Alignment explanation
Indices: 50726844--50726868 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50726834 ACCAATCAAG
50726844 TATAAACAAATA
1 TATAAACAAATA
50726856 TATAAACAAATA
1 TATAAACAAATA
50726868 T
1 T
50726869 CTAGTCAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TATAAACAAATA
Found at i:50728698 original size:61 final size:61
Alignment explanation
Indices: 50728579--50728698 Score: 163
Period size: 60 Copynumber: 2.0 Consensus size: 61
50728569 CTATTCAAAA
* *
50728579 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCTCTTACAGT
1 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCTATTACAGT
* * *
50728640 ATCAGAG-TATACTGGGCC-TAGCCCATATCAGTGTCAATCTGGGCCGTAGCCCTATTACA
1 ATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAG-CCTATTACA
50728699 AGTCGAGATA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
60 29 0.56
61 23 0.44
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (61 bp):
ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCTATTACAGT
Found at i:50728724 original size:60 final size:59
Alignment explanation
Indices: 50728579--50728727 Score: 151
Period size: 60 Copynumber: 2.5 Consensus size: 59
50728569 CTATTCAAAA
* *
50728579 ATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCTCTTACAG
1 ATCAGAGTAT-ACTGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAGCCTATTACAG
* * * *
50728639 TATCAGAGTATACTGGGCCTAGCCCATATCAGTGTCAATCTGGGCCGTAGCCCTATTACA-
1 -ATCAGAGTATACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAG-CCTATTACAG
**
50728699 AGTC-GAGATATGTTGGGCCTTGCCCATAT
1 A-TCAGAG-TATACTGGGCCTTGCCCATAT
50728728 TAACACAGTT
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
59 4 0.05
60 45 0.60
61 25 0.33
62 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (59 bp):
ATCAGAGTATACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCTATTACAG
Found at i:50728745 original size:20 final size:20
Alignment explanation
Indices: 50728720--50728765 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
50728710 GTTGGGCCTT
50728720 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
50728740 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
50728759 GCCCATA
1 GCCCATA
50728766 GCAAAATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Done.