Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 177 of 214
Found at i:52021562 original size:227 final size:227
Alignment explanation
Indices: 52020993--52021708 Score: 962
Period size: 227 Copynumber: 3.2 Consensus size: 227
52020983 GGTTTTAGTT
* * * ** *
52020993 TGCTCCACTGCAACATCA-ATAAGATAAGGCTTGTT-GCTTCAACCTGCTCCACTGCGACTTCAG
1 TGCTCCACTGCAACTTCAGA-GAGATAAGGCTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAG
* * * * * *
52021056 AGAGATAAAACTCGTTATGGTAGATTTAATCCA-ACTTACTGTAACTTTAGAGGTATAGGATTCA
65 GGAGATAAGACTTGTTATGGTAGATTTAAT-CAGACCTACTGCAACTTTAGAGGCATAGGATTCA
* * * * *
52021120 TCGTTTTAATCCACTCCATTGCAACTTTAGGGAGATAGAATTAATAGCTTCAATCTGCTCCACTG
129 TCGTTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCGCTG
*
52021185 CAACTTTAGGGAGATAAGATTGGTATCTTCAACC
194 TAACTTTAGGGAGATAAGATTGGTATCTTCAACC
* *
52021219 TACTCCACTGCAAC-T-ATG-GAGATAAGG-TTGGTTATCTTCAGTCTGCTCCACTGTAACTTCA
1 TGCTCCACTGCAACTTCA-GAGAGATAAGGCTT-GTTATCTTCAGTCTGCTCCACTGCAACTTCA
* *
52021280 GGGAGATAAGACTTGTTATGGTAGATTTAATAAGACCTACCGCAACTTTAGAGGCATAGGATTCA
64 GGGAGATAAGACTTGTTATGGTAGATTTAATCAGACCTACTGCAACTTTAGAGGCATAGGATTCA
* *
52021345 TCGTTTTAATCTGCTCCACTACAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGTTCCGCTG
129 TCGTTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCGCTG
* *
52021410 TAACTTCAGGGTGATAAGATTGGTATCTTCAACC
194 TAACTTTAGGGAGATAAGATTGGTATCTTCAACC
* *
52021444 TGCTCCACTACAACTTCAGAGAGATAAGGTTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGAGAGATAAGGCTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
* * *
52021509 GAGATAAGACTTGTTATGGTAGATTTAATCTGACCTACTGCAACTTCAGAGGCATAGGATTTATC
66 GAGATAAGACTTGTTATGGTAGATTTAATCAGACCTACTGCAACTTTAGAGGCATAGGATTCATC
* * * * *
52021574 GCTTTAATCCGCTCCACTACAACTTCAAGGAAATAGGATTAATAGCTTCAATTTGCTCCGCTGTA
131 GTTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCGCTGTA
**
52021639 ACTTTAGGGAGATAAGATTGGTTATCTTCAGTC
196 ACTTTAGGGAGATAAGATTGG-TATCTTCAACC
* *
52021672 TGCTTCACTGCAACTTCA-ATGAGATAAGACTTGTTAT
1 TGCTCCACTGCAACTTCAGA-GAGATAAGGCTTGTTAT
52021709 GGTAGATTTA
Statistics
Matches: 431, Mismatches: 48, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
223 2 0.00
224 13 0.03
225 179 0.42
226 15 0.03
227 180 0.42
228 42 0.10
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (227 bp):
TGCTCCACTGCAACTTCAGAGAGATAAGGCTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
GAGATAAGACTTGTTATGGTAGATTTAATCAGACCTACTGCAACTTTAGAGGCATAGGATTCATC
GTTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCGCTGTA
ACTTTAGGGAGATAAGATTGGTATCTTCAACC
Found at i:52021670 original size:183 final size:183
Alignment explanation
Indices: 52021444--52021890 Score: 628
Period size: 183 Copynumber: 2.4 Consensus size: 183
52021434 ATCTTCAACC
* * * * *
52021444 TGCTCCACTACAACTTCAGAGAGATAAGGTTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTTAGGGAGATAAGATTAGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
*
52021509 GAGATAAGACTTGTTATGGTAGATTTAATCTGACCTACTGCAACTTCAGAGGCATAGGATTTATC
66 GAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGCATAGGATTTATC
* * *
52021574 GCTTTAATCCGCTCCACTACAACTTCAAGGAAATAGGATTAATAGCTTCAATT
131 ACTTTAATCCACTCCACTACAACTTCAAGGAAATAGGATTAATAGCTTCAATA
* * * * **
52021627 TGCTCCGCTGTAACTTTAGGGAGATAAGATTGGTTATCTTCAGTCTGCTTCACTGCAACTTCAAT
1 TGCTCCACTGCAACTTTAGGGAGATAAGATTAGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
* * *
52021692 GAGATAAGACTTGTTATGGTAGATTTAATCCGACCTATTGCAGCTTCAGAGGCATTGGATTTATC
66 GAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGCATAGGATTTATC
* * * *
52021757 ATTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTAATAGCTTTAATA
131 ACTTTAATCCACTCCACTACAACTTCAAGGAAATAGGATTAATAGCTTCAATA
** *
52021810 TGCTCCACTGCAACTTCT-GGGAGATAAGATTAG-TATCTTCAACCTTCTCCACTGCAACTTCAG
1 TGCTCCACTGCAACTT-TAGGGAGATAAGATTAGTTATCTTCAGTCTGCTCCACTGCAACTTCAG
**
52021873 GGAGATAAGGTTTGTTAT
65 GGAGATAAGACTTGTTAT
52021891 CTTCAGTCTT
Statistics
Matches: 231, Mismatches: 32, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
182 40 0.17
183 190 0.82
184 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (183 bp):
TGCTCCACTGCAACTTTAGGGAGATAAGATTAGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
GAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGCATAGGATTTATC
ACTTTAATCCACTCCACTACAACTTCAAGGAAATAGGATTAATAGCTTCAATA
Found at i:52021765 original size:227 final size:225
Alignment explanation
Indices: 52021040--52021899 Score: 697
Period size: 227 Copynumber: 3.8 Consensus size: 225
52021030 TTCAACCTGC
* * * * * * * * *
52021040 TCCACTGCGACTTCAGAGAGATAAAACTCGTTATGGTAGATTTAATCCAACTTACTGTAACTTTA
1 TCCACTGCAACTTCAGGGACATAAGACT-GTTAT-GCAGATTTAAT-CGACCTACTGCAACTTCA
* * * ** * * * *
52021105 GAGGTATAGGATTCATCGTTTTAATCCACTCCATTGCAACTTTAGGGAGATAGAATTAATAGCTT
63 GAGGCATAGGATTAATCGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAATAGCTT
* * * * ** * *
52021170 CAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGG-TATCTTCAACCTACTCCACTGCAAC-
128 CAATTTGCTCCGCTGTAACTTCAGGGAGATAAGATTGGTTATCTTCAGTCTGCTCCACTACAACT
* * **
52021233 T-ATG-GAGATAAG-GTTGGTTATCTTCAGTCTGC
193 TCA-GAGAGATAAGACTT-GTTATCGTCAGTCTAA
* * * * * *
52021265 TCCACTGTAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATAAGACCTACCGCAACTTTA
1 TCCACTGCAACTTCAGGGACATAAGAC-TGTTAT-GCAGATTTAAT-CGACCTACTGCAACTTCA
* * *
52021330 GAGGCATAGGATTCATCGTTTTAATCTGCTCCACTACAACTTTAGGGAGATAGGATTAATAGCTT
63 GAGGCATAGGATTAATCGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAATAGCTT
* * * **
52021395 CAATCTGTTCCGCTGTAACTTCAGGGTGATAAGATTGG-TATCTTCAACCTGCTCCACTACAACT
128 CAATTTGCTCCGCTGTAACTTCAGGGAGATAAGATTGGTTATCTTCAGTCTGCTCCACTACAACT
** * **
52021459 TCAGAGAGATAAGGTTTGTTATCTTCAGTCTGC
193 TCAGAGAGATAAGACTTGTTATCGTCAGTCTAA
* *
52021492 TCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTACTGCAACTTCA
1 TCCACTGCAACTTCAGGGACATAAGAC-TGTTAT-GCAGATTTAATC-GACCTACTGCAACTTCA
* * * *
52021557 GAGGCATAGGATTTATCGCTTTAATCCGCTCCACTACAACTTCAAGGAAATAGGATTAATAGCTT
63 GAGGCATAGGATTAATCGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAATAGCTT
* * *
52021622 CAATTTGCTCCGCTGTAACTTTAGGGAGATAAGATTGGTTATCTTCAGTCTGCTTCACTGCAACT
128 CAATTTGCTCCGCTGTAACTTCAGGGAGATAAGATTGGTTATCTTCAGTCTGCTCCACTACAACT
* *
52021687 TCA-ATGAGATAAGACTTGTTATGGT-AGATTTAA
193 TCAGA-GAGATAAGACTTGTTATCGTCAG-TCTAA
* ** * * * *
52021720 TCCGACCTATTGCAGCTTCAGAGG-CATTGGA-T-TTAT-CA-TTTTAATCCACTCCACTACAAC
1 TCC-A-C---TGCAACTTCAG-GGACATAAGACTGTTATGCAGATTTAATCGAC-CTACTGCAAC
* * * * * * *
52021780 TTCAG-GGAGATAGGATTAATAGCTTTAATATGCTCCACTGCAACTTCTGGGAGATAAGATTAGT
59 TTCAGAGG-CATAGGATTAATCGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAAT
* * * * * *
52021844 ATCTTCAACCTT-CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTATCTTCAGTCT
123 AGCTTCAA-TTTGCTCCGCTGTAACTTCAGGGAGATAAGATTGGTTATCTTCAGTCT
52021900 TGATCTGCTT
Statistics
Matches: 541, Mismatches: 76, Indels: 34
0.83 0.12 0.05
Matches are distributed among these distances:
225 168 0.31
226 7 0.01
227 292 0.54
228 51 0.09
229 1 0.00
230 5 0.01
231 1 0.00
233 14 0.03
234 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (225 bp):
TCCACTGCAACTTCAGGGACATAAGACTGTTATGCAGATTTAATCGACCTACTGCAACTTCAGAG
GCATAGGATTAATCGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAATAGCTTCAA
TTTGCTCCGCTGTAACTTCAGGGAGATAAGATTGGTTATCTTCAGTCTGCTCCACTACAACTTCA
GAGAGATAAGACTTGTTATCGTCAGTCTAA
Found at i:52022703 original size:24 final size:24
Alignment explanation
Indices: 52022675--52022724 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
52022665 ATTTTCCCCT
*
52022675 CTGTAATCTTCTAGGTTCAATCCA
1 CTGTAATCTTCAAGGTTCAATCCA
52022699 CTGTAATCTTCAAGGTTCAATCCA
1 CTGTAATCTTCAAGGTTCAATCCA
52022723 CT
1 CT
52022725 AGAATTTTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (24 bp):
CTGTAATCTTCAAGGTTCAATCCA
Found at i:52023709 original size:19 final size:20
Alignment explanation
Indices: 52023667--52023718 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
52023657 GGCTTCTCAT
* *
52023667 TTTTCTTTTTTTTCTCCTCT
1 TTTTCTTTTTTTTCTCATCA
*
52023687 TTTTCTTTTTTTT-TTATCA
1 TTTTCTTTTTTTTCTCATCA
52023706 TTTTCATTTTTTT
1 TTTTC-TTTTTTT
52023719 GAAATATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTCTTTTTTTTCTCATCA
Found at i:52023709 original size:20 final size:21
Alignment explanation
Indices: 52023663--52023718 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 21
52023653 CCTTGGCTTC
*
52023663 TCATTTTTCTTTTTTTTCTCC
1 TCATTTTTCTTTTTTTTCTCA
*
52023684 TC-TTTTTCTTTTTTTT-TTA
1 TCATTTTTCTTTTTTTTCTCA
*
52023703 TCA-TTTTCATTTTTTT
1 TCATTTTTCTTTTTTTT
52023719 GAAATATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 15 0.48
20 14 0.45
21 2 0.06
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (21 bp):
TCATTTTTCTTTTTTTTCTCA
Found at i:52023733 original size:25 final size:26
Alignment explanation
Indices: 52023705--52023754 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
52023695 TTTTTTTATC
52023705 ATTTTCA-TTTTTTTGAAATATTTTG
1 ATTTTCATTTTTTTTGAAATATTTTG
*
52023730 ATTTTGATTTTTTTTGAAATATTTT
1 ATTTTCATTTTTTTTGAAATATTTT
52023755 TTGATTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.66
Consensus pattern (26 bp):
ATTTTCATTTTTTTTGAAATATTTTG
Found at i:52028926 original size:26 final size:25
Alignment explanation
Indices: 52028897--52028952 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
52028887 AATAAAAATA
*
52028897 AATAAA-TAAAAATGGAATGTATATAT
1 AATAAAGTAAAAAT-GAAAGTAT-TAT
*
52028923 AATAAAGTAAACATGAAAGTATTAT
1 AATAAAGTAAAAATGAAAGTATTAT
52028948 AATAA
1 AATAA
52028953 TACTTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 8 0.30
26 13 0.48
27 6 0.22
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.29
Consensus pattern (25 bp):
AATAAAGTAAAAATGAAAGTATTAT
Found at i:52030895 original size:10 final size:10
Alignment explanation
Indices: 52030868--52030971 Score: 73
Period size: 10 Copynumber: 10.9 Consensus size: 10
52030858 TTAAAAAAGG
52030868 TATATAAAATT
1 TATA-AAAATT
52030879 TATTAAAAATT
1 TA-TAAAAATT
52030890 TATAAAAATT
1 TATAAAAATT
52030900 TAT-AAAATT
1 TATAAAAATT
*
52030909 T-T--AAATA
1 TATAAAAATT
* *
52030916 TGTAAGAATT
1 TATAAAAATT
*
52030926 TAT-CAAATT
1 TATAAAAATT
52030935 TATTAAAAAATT
1 TA-T-AAAAATT
52030947 TATAAAAA--
1 TATAAAAATT
52030955 T-T-AAAATT
1 TATAAAAATT
52030963 TATAAAAAT
1 TATAAAAAT
52030972 ATTAATAATT
Statistics
Matches: 75, Mismatches: 7, Indels: 23
0.71 0.07 0.22
Matches are distributed among these distances:
6 4 0.05
7 6 0.08
8 4 0.05
9 14 0.19
10 27 0.36
11 11 0.15
12 9 0.12
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (10 bp):
TATAAAAATT
Found at i:52030906 original size:9 final size:9
Alignment explanation
Indices: 52030870--52030969 Score: 73
Period size: 9 Copynumber: 10.8 Consensus size: 9
52030860 AAAAAAGGTA
52030870 TATAAAATT
1 TATAAAATT
52030879 TATTAAAAATT
1 TA-T-AAAATT
52030890 TATAAAAATT
1 TAT-AAAATT
52030900 TATAAAATT
1 TATAAAATT
*
52030909 T-TAAATATG
1 TATAAA-ATT
*
52030918 TA-AGAATT
1 TATAAAATT
*
52030926 TATCAAATT
1 TATAAAATT
52030935 TATTAAAAAATT
1 TA-T--AAAATT
*
52030947 TATAAAA-A
1 TATAAAATT
52030955 T-TAAAATT
1 TATAAAATT
52030963 TATAAAA
1 TATAAAA
52030970 ATATTAATAA
Statistics
Matches: 73, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
7 5 0.07
8 10 0.14
9 29 0.40
10 13 0.18
11 9 0.12
12 7 0.10
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (9 bp):
TATAAAATT
Found at i:52030983 original size:18 final size:16
Alignment explanation
Indices: 52030941--52030971 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
52030931 AATTTATTAA
52030941 AAAATTTATAAAAATT
1 AAAATTTATAAAAATT
52030957 AAAATTTATAAAAAT
1 AAAATTTATAAAAAT
52030972 ATTAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATTTATAAAAATT
Found at i:52031237 original size:9 final size:8
Alignment explanation
Indices: 52031192--52031240 Score: 55
Period size: 8 Copynumber: 5.8 Consensus size: 8
52031182 AATTTGAATT
52031192 TTTTATAA
1 TTTTATAA
52031200 TTTTA-AA
1 TTTTATAA
52031207 TTTTCATAACA
1 TTTT-AT-A-A
52031218 TTTTATAA
1 TTTTATAA
52031226 TTTTAGTAA
1 TTTTA-TAA
52031235 TTTTAT
1 TTTTAT
52031241 TAAAATTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
7 6 0.17
8 13 0.36
9 9 0.25
10 3 0.08
11 5 0.14
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (8 bp):
TTTTATAA
Found at i:52040720 original size:17 final size:17
Alignment explanation
Indices: 52040698--52040736 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
52040688 CTAGCCCGGT
*
52040698 GCCGCCACCATTCTGTC
1 GCCGCCACCATTCTGAC
*
52040715 GCCGCCACCGTTCTGAC
1 GCCGCCACCATTCTGAC
52040732 GCCGC
1 GCCGC
52040737 GCCGCACGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.10, C:0.49, G:0.23, T:0.18
Consensus pattern (17 bp):
GCCGCCACCATTCTGAC
Found at i:52041365 original size:37 final size:37
Alignment explanation
Indices: 52041321--52041393 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
52041311 AACGAAGCTA
52041321 TTTTGGCCTTAATGCCCTTTTACCCGCGTGTCGACCG
1 TTTTGGCCTTAATGCCCTTTTACCCGCGTGTCGACCG
52041358 TTTTGGCCTTAATGCCCTTTTACCCGCGTGTCGACC
1 TTTTGGCCTTAATGCCCTTTTACCCGCGTGTCGACC
52041394 CGATCCGACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.11, C:0.33, G:0.21, T:0.36
Consensus pattern (37 bp):
TTTTGGCCTTAATGCCCTTTTACCCGCGTGTCGACCG
Found at i:52041724 original size:12 final size:12
Alignment explanation
Indices: 52041707--52041746 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
52041697 TTATTTAACC
*
52041707 TTATTATTGCTA
1 TTATTATTACTA
52041719 TTATTATTACTA
1 TTATTATTACTA
*
52041731 TTATTAATTATTA
1 TTATT-ATTACTA
52041744 TTA
1 TTA
52041747 GTTTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:52042770 original size:108 final size:108
Alignment explanation
Indices: 52042645--52043044 Score: 671
Period size: 108 Copynumber: 3.7 Consensus size: 108
52042635 AAAAATAATA
52042645 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
52042710 TCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTAAAAT
66 TCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTAAAAT
*
52042753 AAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
52042818 TCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTAAAAT
66 TCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTAAAAT
*
52042861 AAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
* * ** *
52042926 TCGTTCAACCAAATAGCTAAATATCCCTTCAAAAATTTCAAAAT
66 TCGTTCAACCAAATGGCTTAATAT-CCTTTTAAAATTTTAAAAT
* * *
52042970 AAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTC
1 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
*
52043032 TCGTTTAACCAAA
66 TCGTTCAACCAAA
52043045 ATCGCCAAAT
Statistics
Matches: 280, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
106 16 0.06
108 219 0.78
109 45 0.16
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (108 bp):
AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
TCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTAAAAT
Found at i:52047712 original size:19 final size:19
Alignment explanation
Indices: 52047688--52047728 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
52047678 ATAATAGTAA
52047688 TATATAATATATTAATTAT
1 TATATAATATATTAATTAT
* * *
52047707 TATATATTATTTTTATTAT
1 TATATAATATATTAATTAT
52047726 TAT
1 TAT
52047729 CTTGATTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATAATATATTAATTAT
Found at i:52053498 original size:3 final size:3
Alignment explanation
Indices: 52053492--52053519 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
52053482 CCTTTTTTTT
52053492 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
52053520 AGGGATTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:52054292 original size:37 final size:39
Alignment explanation
Indices: 52054240--52054315 Score: 95
Period size: 37 Copynumber: 2.0 Consensus size: 39
52054230 ATATGTTATT
* **
52054240 TTTATATATTATATATTTTATTATACATA-AAA-ATTAAA
1 TTTATATATAATATATAATATTATA-ATATAAATATTAAA
52054278 TTTATA-ATAATATATAATATTATAATATAAATATTAAA
1 TTTATATATAATATATAATATTATAATATAAATATTAAA
52054316 AAATTCTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 3 0.09
37 18 0.55
38 12 0.36
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (39 bp):
TTTATATATAATATATAATATTATAATATAAATATTAAA
Found at i:52054302 original size:15 final size:14
Alignment explanation
Indices: 52054284--52054313 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
52054274 TAAATTTATA
52054284 ATAATATATAATATT
1 ATAATATA-AATATT
52054299 ATAATATAAATATT
1 ATAATATAAATATT
52054313 A
1 A
52054314 AAAAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAATATAAATATT
Found at i:52054309 original size:31 final size:32
Alignment explanation
Indices: 52054272--52054380 Score: 93
Period size: 31 Copynumber: 3.4 Consensus size: 32
52054262 ATACATAAAA
52054272 ATTAAATTTATAATAATATATAATATTATAAT
1 ATTAAATTTATAATAATATATAATATTATAAT
* * *
52054304 A-TAAATATTA-AAAAAT-TCTAAATATGAT-AT
1 ATTAAAT-TTATAATAATATAT-AATATTATAAT
52054334 ATTAAATTTTAATAAATAATATATAATTATTA-AAT
1 ATTAAA-TTT-AT-AATAATATATAA-TATTATAAT
*
52054369 ATTAAATCTATA
1 ATTAAATTTATA
52054381 TATTTATATA
Statistics
Matches: 60, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
30 5 0.08
31 23 0.38
32 7 0.12
33 2 0.03
34 9 0.15
35 14 0.23
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (32 bp):
ATTAAATTTATAATAATATATAATATTATAAT
Found at i:52063685 original size:36 final size:36
Alignment explanation
Indices: 52063644--52063834 Score: 229
Period size: 36 Copynumber: 5.0 Consensus size: 36
52063634 GGTAGCTTTA
52063644 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
52063680 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAACTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA---G------T
*
52063725 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGC
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
52063762 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
52063798 GATATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
52063834 G
1 G
52063835 TTAGCCTTAG
Statistics
Matches: 136, Mismatches: 9, Indels: 20
0.82 0.05 0.12
Matches are distributed among these distances:
36 101 0.74
39 1 0.01
43 1 0.01
45 1 0.01
46 32 0.24
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:52063745 original size:82 final size:81
Alignment explanation
Indices: 52063608--52063923 Score: 322
Period size: 82 Copynumber: 3.9 Consensus size: 81
52063598 TTTGAGTACT
* * *
52063608 TCTGATCAATAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAAC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
52063673 GATAAGTGCTACACTTA
65 GATAAGTGCTACACTTA
*
52063690 TCTGATCAAGAGACAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAAC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
52063755 GATAAGCGCTATACTTA
65 GATAAGTGCTACACTTA
* * * * * ** *
52063772 TCTGATCAAGTGAAAAAGTGATAAGTGATATACTTATCT-GA-TCAAGTGA-CAAAGTG-ATAAG
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTA-ACTTAGCTACACTTATCTGATC-AAGTGAAAAAG
*
52063833 TG-TTAGCCTTAGCTACACTTA
64 TGATAAG---T-GCTACACTTA
* * * * * *
52063854 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AG-GGACAAGTG
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAACTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
52063917 ATAAGTG
66 ATAAGTG
52063924 GTCATACGTA
Statistics
Matches: 195, Mismatches: 28, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
78 3 0.02
79 8 0.04
80 11 0.06
81 7 0.04
82 155 0.79
83 10 0.05
84 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (81 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAACTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGCTACACTTA
Found at i:52063857 original size:118 final size:118
Alignment explanation
Indices: 52063644--52063878 Score: 398
Period size: 118 Copynumber: 2.0 Consensus size: 118
52063634 GGTAGCTTTA
*
52063644 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGATACACTTATCTGATCAAGAGACAAAGT
*
52063709 GATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGC
66 GATAAGTGGTAACCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGC
* * *
52063762 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGATATACTTATCTGATCAAGTGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGATACACTTATCTGATCAAGAGACAAAGT
* * *
52063827 GATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAG
66 GATAAGTGGTAACCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAG
52063879 TGGTAGCCTA
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 109 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (118 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGATACACTTATCTGATCAAGAGACAAAGT
GATAAGTGGTAACCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGC
Found at i:52063906 original size:45 final size:46
Alignment explanation
Indices: 52063803--52063925 Score: 191
Period size: 46 Copynumber: 2.7 Consensus size: 46
52063793 TAAGTGATAT
* *
52063803 ACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTAC
1 ACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTAC
52063849 ACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCC-TAGCTAC
1 ACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTAC
52063894 ACTTATCTGATC-AG-G-GACAAGTGATAAGTGGT
1 ACTTATCTGATCAAGTGAGA-AAGTGATAAGTGGT
52063926 CATACGTAAG
Statistics
Matches: 74, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
42 2 0.03
43 15 0.20
44 2 0.03
45 19 0.26
46 36 0.49
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (46 bp):
ACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTAC
Found at i:52065031 original size:35 final size:33
Alignment explanation
Indices: 52064992--52065249 Score: 251
Period size: 35 Copynumber: 7.7 Consensus size: 33
52064982 TGTCTTTTCT
* * *
52064992 TGCAGGGAATATTTCCTGTTCACGTATTAATCTG
1 TGCAGGGAATCTCTCCTGTTCACATATT-ATCTG
*
52065026 ATGCAGGGAATCTTTCCTGTTCACATCATT-TCT-
1 -TGCAGGGAATCTCTCCTGTTCACAT-ATTATCTG
** *
52065059 TGCAGGGAATCTCTCCTGTTCACGCATTATTTTG
1 TGCAGGGAATCTCTCCTGTTCACATATTA-TCTG
* *
52065093 TTGCAGGGAATCTCTCCTGTTCACACATTATTTTG
1 -TGCAGGGAATCTCTCCTGTTCACATATTA-TCTG
*
52065128 TTGCAGGGAATCTTTCCTGTTCACATCATT-TCT-
1 -TGCAGGGAATCTCTCCTGTTCACAT-ATTATCTG
* *
52065161 TGCAGGGAATCTCTCCTGTTCTCGA-ATTATTTTG
1 TGCAGGGAATCTCTCCTGTTCAC-ATATTA-TCTG
52065195 TTGCAGGGAATCTCTCCTGTTCACATCATT-TCT-
1 -TGCAGGGAATCTCTCCTGTTCACAT-ATTATCTG
52065228 TGCAGGGAATCTCTCCTGTTCA
1 TGCAGGGAATCTCTCCTGTTCA
52065250 TGTATTATTT
Statistics
Matches: 195, Mismatches: 15, Indels: 29
0.82 0.06 0.12
Matches are distributed among these distances:
31 6 0.03
32 65 0.33
33 5 0.03
34 8 0.04
35 102 0.52
36 9 0.05
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.39
Consensus pattern (33 bp):
TGCAGGGAATCTCTCCTGTTCACATATTATCTG
Found at i:52065098 original size:67 final size:65
Alignment explanation
Indices: 52064986--52065249 Score: 316
Period size: 67 Copynumber: 3.9 Consensus size: 65
52064976 TTCACTTGTC
* * * *
52064986 TTTTCTTGCAGGGAATATTTCCTGTTCACGT-ATTAATCTGATGCAGGGAATCTTTCCTGTTCAC
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACATCATT--TCT--TGCAGGGAATCTCTCCTGTTCAC
*
52065050 ATCA
62 ATTA
* *
52065054 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCCTGTT--CA
52065118 CATTA
61 CATTA
* * *
52065123 TTTTGTTGCAGGGAATCTTTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCTCGAAT
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCAC--AT
52065188 TA
64 TA
*
52065190 TTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCA
52065250 TGTATTATTT
Statistics
Matches: 174, Mismatches: 13, Indels: 19
0.84 0.06 0.09
Matches are distributed among these distances:
65 2 0.01
67 130 0.75
68 4 0.02
69 10 0.06
70 26 0.15
71 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (65 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACATTA
Found at i:52065167 original size:102 final size:101
Alignment explanation
Indices: 52064986--52065249 Score: 388
Period size: 102 Copynumber: 2.6 Consensus size: 101
52064976 TTCACTTGTC
* * * ** * *
52064986 TTTTCTTGCAGGGAATATTTCCTGTTCACGTATTAATCTGATGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATT-ATTTGTTGCAGGGAATCTTTCCTGTTCACA
*
52065051 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
65 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGAATTA
52065088 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA-TTTGTTGCAGGGAATCTTTCCTGTTCACA
*
52065153 TCATTTCTTGCAGGGAATCTCTCCTGTTCTCGAATTA
65 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGAATTA
* * *
52065190 TTTTGTTGCAGGGAATCTCTCCTGTT--CACATCATTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTGTTGCAGGGAATCTTTCCTGTTCA
52065250 TGTATTATTT
Statistics
Matches: 149, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
99 25 0.17
100 6 0.04
101 1 0.01
102 117 0.79
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (101 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTGTTGCAGGGAATCTTTCCTGTTCACAT
CATTTCTTGCAGGGAATCTCTCCTGTTCACGAATTA
Found at i:52074349 original size:25 final size:25
Alignment explanation
Indices: 52074270--52074349 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
52074260 ACACACCACA
* * * *
52074270 GCTCTTATGAGCATTCCGATAATAG
1 GCTCTTATGAGCATCCCGTTATTTG
* * *
52074295 GCTCTCATGAGCTTCCCGTTATTTA
1 GCTCTTATGAGCATCCCGTTATTTG
*
52074320 ACTCTTATGAGCATCCCGTTATTTG
1 GCTCTTATGAGCATCCCGTTATTTG
52074345 GCTCT
1 GCTCT
52074350 CCGGAGCTTC
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (25 bp):
GCTCTTATGAGCATCCCGTTATTTG
Found at i:52074393 original size:24 final size:24
Alignment explanation
Indices: 52074366--52074459 Score: 68
Period size: 24 Copynumber: 3.9 Consensus size: 24
52074356 CTTCTTGATA
52074366 TTGGCTTGCATGAGCTTCCCGAAT
1 TTGGCTTGCATGAGCTTCCCGAAT
* *
52074390 TTGGCTCT-CTTGAGCTTCTCG--T
1 TTGGCT-TGCATGAGCTTCCCGAAT
* * *
52074412 TTACGACTCGTATGAGCTTCCCGATAT
1 TT--GGCTTGCATGAGCTTCCCGA-AT
* *
52074439 TTGGCTTGTAAGAGCTTCCCG
1 TTGGCTTGCATGAGCTTCCCG
52074460 TTACATAGAT
Statistics
Matches: 53, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
22 3 0.06
24 30 0.57
25 17 0.32
27 3 0.06
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.36
Consensus pattern (24 bp):
TTGGCTTGCATGAGCTTCCCGAAT
Found at i:52074494 original size:50 final size:50
Alignment explanation
Indices: 52074423--52074541 Score: 125
Period size: 50 Copynumber: 2.4 Consensus size: 50
52074413 TACGACTCGT
* * * * * *
52074423 ATGAGCTTCCCGATATTTGGCTTGTAAGAGCTTCCCG-TTACATAGATCAC
1 ATGAGCTTCCTGATATATGGCTCGAAAAAGCTACCCGTTTACATA-ATCAC
* * *
52074473 ATGAGCTTCCTGTTATATGGCTCGAAAAAGCTACCCGTTTATATACTCAC
1 ATGAGCTTCCTGATATATGGCTCGAAAAAGCTACCCGTTTACATAATCAC
52074523 ATGAGCATTCCTGA-ATATG
1 ATGAGC-TTCCTGATATATG
52074542 AATTGACAGA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
50 45 0.79
51 12 0.21
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (50 bp):
ATGAGCTTCCTGATATATGGCTCGAAAAAGCTACCCGTTTACATAATCAC
Found at i:52076350 original size:25 final size:25
Alignment explanation
Indices: 52076273--52076379 Score: 81
Period size: 25 Copynumber: 4.3 Consensus size: 25
52076263 ATATTCAGGA
* * *
52076273 AAGCTCATACGAGCATGTA-AACGAG
1 AAGCTCATGCGAGC-TGAATAACGGG
* * * **
52076298 AAGCTCCTCCGAGCTGATTAACAAG
1 AAGCTCATGCGAGCTGAATAACGGG
*
52076323 AAGCTCATGTGAGCTGAATAACGGG
1 AAGCTCATGCGAGCTGAATAACGGG
* ** *
52076348 AAGCTTATGCGAGCCAAATATCGGG
1 AAGCTCATGCGAGCTGAATAACGGG
52076373 AAGCTCA
1 AAGCTCA
52076380 AGAGGGCCAA
Statistics
Matches: 64, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
24 2 0.03
25 62 0.97
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (25 bp):
AAGCTCATGCGAGCTGAATAACGGG
Found at i:52079495 original size:51 final size:50
Alignment explanation
Indices: 52079349--52079505 Score: 217
Period size: 51 Copynumber: 3.1 Consensus size: 50
52079339 TGATCAATGT
* *
52079349 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGTGATCAATA-
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA-AC
* * * *
52079399 TCATTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAGC
1 T-ATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAA-C
52079451 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCATAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCA-AAC
52079502 TATC
1 TATC
52079506 TTATACTCAT
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
50 2 0.02
51 88 0.95
52 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAAC
Found at i:52079517 original size:51 final size:50
Alignment explanation
Indices: 52079355--52079522 Score: 196
Period size: 51 Copynumber: 3.3 Consensus size: 50
52079345 ATGTTATCCG
* *
52079355 GTACACATAGTAGCCTACACTTAGTACTACACATGTGATC-AA-TATCATT
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAACTATC-TT
* * * **
52079404 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAGCTATCCG
1 --GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAA-CTATCTT
52079457 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCATAACTATCTT
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCA-AACTATCTT
* *
52079508 ATACTCATAGTAGCC
1 GTACACATAGTAGCC
52079523 CATATAATCC
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
51 91 0.92
52 4 0.04
54 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAACTATCTT
Found at i:52080715 original size:16 final size:17
Alignment explanation
Indices: 52080686--52080717 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
52080676 AGAAATTTCA
52080686 AATATTTCATATCATAT
1 AATATTTCATATCATAT
52080703 AATATTT-ATATCATA
1 AATATTTCATATCATA
52080718 AACCAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
AATATTTCATATCATAT
Found at i:52093003 original size:16 final size:16
Alignment explanation
Indices: 52092982--52093025 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
52092972 ATTCTAATTC
52092982 ATTTGATATATTTAAT
1 ATTTGATATATTTAAT
*
52092998 ATTTGATATATTAAAT
1 ATTTGATATATTTAAT
*
52093014 AATT-ATATATTT
1 ATTTGATATATTT
52093026 TTAAAAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (16 bp):
ATTTGATATATTTAAT
Found at i:52098923 original size:49 final size:49
Alignment explanation
Indices: 52098866--52098965 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
52098856 CCTTAATCGT
52098866 TTAAAATGAACTCATATTCGATCTTGCTATGTCTTTGCCCGTAGAACCA
1 TTAAAATGAACTCATATTCGATCTTGCTATGTCTTTGCCCGTAGAACCA
52098915 TTAAAATGAACTCATATTCGATCTTGCTATGTCTTTGCCCGTAGAACCA
1 TTAAAATGAACTCATATTCGATCTTGCTATGTCTTTGCCCGTAGAACCA
52098964 TT
1 TT
52098966 CGGAATCAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (49 bp):
TTAAAATGAACTCATATTCGATCTTGCTATGTCTTTGCCCGTAGAACCA
Found at i:52099078 original size:43 final size:42
Alignment explanation
Indices: 52099008--52099148 Score: 124
Period size: 43 Copynumber: 3.3 Consensus size: 42
52098998 AGCTCGTAAA
** * *
52099008 ATGCCAACATCCCAGACATG-GTATTACATGTAATCAAATAACG
1 ATGCCAATGTCCCAGACA-GAGTCTTACACGTAATCAAAT-ACG
* * *
52099051 ATGCCACTGTCCCAGGCAGAGTCTTACACGTAATCATATACG
1 ATGCCAATGTCCCAGACAGAGTCTTACACGTAATCAAATACG
* * * *
52099093 ATGCCAATGTCCTAGACATAGTCTTACGCGTAAATCTCAAAT-TG
1 ATGCCAATGTCCCAGACAGAGTCTTACACGT-AA--TCAAATACG
52099137 ATGCCAATGTCC
1 ATGCCAATGTCC
52099149 TAGATGTGGT
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 30 0.38
43 32 0.40
44 13 0.16
45 5 0.06
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGAGTCTTACACGTAATCAAATACG
Found at i:52099116 original size:42 final size:42
Alignment explanation
Indices: 52099021--52099152 Score: 122
Period size: 42 Copynumber: 3.1 Consensus size: 42
52099011 CCAACATCCC
* * * * * *
52099021 AGACATGGTATTACATGTAATCAAATAACGATGCCACTGTCCC
1 AGACATAGTCTTACACGTAATCATAT-ACGATGCCAATGTCCT
* *
52099064 AGGCAGAGTCTTACACGTAATCATATACGATGCCAATGTCCT
1 AGACATAGTCTTACACGTAATCATATACGATGCCAATGTCCT
* * *
52099106 AGACATAGTCTTACGCGTAAATC-TCAAATTGATGCCAATGTCCT
1 AGACATAGTCTTACACGT-AATCAT-ATA-CGATGCCAATGTCCT
52099150 AGA
1 AGA
52099153 TGTGGTCTTA
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
42 30 0.41
43 26 0.36
44 17 0.23
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (42 bp):
AGACATAGTCTTACACGTAATCATATACGATGCCAATGTCCT
Found at i:52099870 original size:12 final size:12
Alignment explanation
Indices: 52099853--52099894 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
52099843 ATCCCATTAT
52099853 TCTCTCCTCAAA
1 TCTCTCCTCAAA
*
52099865 TCTCTCC-AAATA
1 TCTCTCCTCAA-A
*
52099877 TCCCTCCTCAAA
1 TCTCTCCTCAAA
52099889 TCTCTC
1 TCTCTC
52099895 TATGACCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.24, C:0.43, G:0.00, T:0.33
Consensus pattern (12 bp):
TCTCTCCTCAAA
Found at i:52102085 original size:21 final size:22
Alignment explanation
Indices: 52102048--52102088 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
52102038 TATGGTAGTT
52102048 TAAAACAAATAATGTAAATAAA
1 TAAAACAAATAATGTAAATAAA
52102070 TAAAA-AAATTAA-GTAAATA
1 TAAAACAAA-TAATGTAAATA
52102089 TTAGGTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (22 bp):
TAAAACAAATAATGTAAATAAA
Found at i:52104443 original size:55 final size:55
Alignment explanation
Indices: 52104360--52104483 Score: 221
Period size: 55 Copynumber: 2.3 Consensus size: 55
52104350 GGTATGTAGA
* *
52104360 TCTCCTCTCGATCTCACTACTTGGCACAATCATACCAAATTCTTACCCATGAAAC
1 TCTCTTCTCGGTCTCACTACTTGGCACAATCATACCAAATTCTTACCCATGAAAC
52104415 TCTCTTCTCGGTCTCACTACTTGGCACAATCATACCAAATTCTTACCCATGAAAC
1 TCTCTTCTCGGTCTCACTACTTGGCACAATCATACCAAATTCTTACCCATGAAAC
*
52104470 TCTCTTCTCAGTCT
1 TCTCTTCTCGGTCT
52104484 TATTTATCTA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.26, C:0.34, G:0.08, T:0.32
Consensus pattern (55 bp):
TCTCTTCTCGGTCTCACTACTTGGCACAATCATACCAAATTCTTACCCATGAAAC
Found at i:52106574 original size:24 final size:25
Alignment explanation
Indices: 52106519--52106603 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
52106509 AAGGCTATTT
*
52106519 CATGAGCTTCCCGATTAACGGCTCT
1 CATGAGCTTCCCGATTAACGGCTCG
**
52106544 C-TGGAGCTTCCCGA-TATTGGCTCG
1 CAT-GAGCTTCCCGATTAACGGCTCG
* * *
52106568 CATGAGCTT-CCTATTACATGGCTCA
1 CATGAGCTTCCCGATTA-ACGGCTCG
52106593 CATGAGCTTCC
1 CATGAGCTTCC
52106604 TGTGATATGG
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
23 3 0.06
24 17 0.35
25 28 0.57
26 1 0.02
ACGTcount: A:0.19, C:0.31, G:0.21, T:0.29
Consensus pattern (25 bp):
CATGAGCTTCCCGATTAACGGCTCG
Found at i:52106613 original size:25 final size:25
Alignment explanation
Indices: 52106556--52106616 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
52106546 GGAGCTTCCC
*
52106556 GATATTGGCTCGCATGAGCTTCCTAT
1 GATA-TGGCTCACATGAGCTTCCTAT
* * *
52106582 TACATGGCTCACATGAGCTTCCTGT
1 GATATGGCTCACATGAGCTTCCTAT
52106607 GATATGGCTC
1 GATATGGCTC
52106617 GAAAGAGCTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.33
Consensus pattern (25 bp):
GATATGGCTCACATGAGCTTCCTAT
Found at i:52106624 original size:25 final size:25
Alignment explanation
Indices: 52106556--52106625 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
52106546 GGAGCTTCCC
*
52106556 GATATTGGCTCGCATGAGCTTCCTAT
1 GATA-TGGCTCGAATGAGCTTCCTAT
* * *
52106582 TACATGGCTC-ACATGAGCTTCCTGT
1 GATATGGCTCGA-ATGAGCTTCCTAT
*
52106607 GATATGGCTCGAAAGAGCT
1 GATATGGCTCGAATGAGCT
52106626 ACCCGTTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
25 32 0.91
26 3 0.09
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (25 bp):
GATATGGCTCGAATGAGCTTCCTAT
Found at i:52108095 original size:13 final size:14
Alignment explanation
Indices: 52108077--52108114 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
52108067 CTTTTAAAAT
52108077 TCTTCATAATA-TA
1 TCTTCATAATATTA
*
52108090 TCTTCAAAATATTA
1 TCTTCATAATATTA
*
52108104 TATTCATAATA
1 TCTTCATAATA
52108115 AATAGGAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (14 bp):
TCTTCATAATATTA
Found at i:52108653 original size:51 final size:51
Alignment explanation
Indices: 52108576--52108798 Score: 385
Period size: 51 Copynumber: 4.4 Consensus size: 51
52108566 CGGATCACAT
*
52108576 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
52108627 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTTGCT-AAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
52108677 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
52108728 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
52108779 TTATCACTTGTCACTTATCA
1 TTATCACTTGTCACTTATCA
52108799 GAAGTACTCA
Statistics
Matches: 162, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
50 45 0.28
51 117 0.72
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:52108681 original size:101 final size:102
Alignment explanation
Indices: 52108576--52108798 Score: 385
Period size: 101 Copynumber: 2.2 Consensus size: 102
52108566 CGGATCACAT
* * *
52108576 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCACTTATCACTTGTCAC
* *
52108641 TTGTCACCGATCAGATAAGTGTTGCT-AAGCTACCAC
66 TTATCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
52108677 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCACTTATCACTTGTCAC
*
52108742 TTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
66 TTATCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
52108779 TTATCACTTGTCACTTATCA
1 TTATCACTTGTCACTTATCA
52108799 GAAGTACTCA
Statistics
Matches: 115, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
101 85 0.74
102 30 0.26
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (102 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCACTTATCACTTGTCAC
TTATCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:52108894 original size:17 final size:17
Alignment explanation
Indices: 52108872--52108904 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
52108862 TATTCTCAAT
52108872 TCATCA-ACAAATATATC
1 TCATCATAC-AATATATC
52108889 TCATCATACAATATAT
1 TCATCATACAATATAT
52108905 AATTCATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TCATCATACAATATATC
Found at i:52115034 original size:11 final size:10
Alignment explanation
Indices: 52115011--52115069 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
52115001 AATGTTTAAA
52115011 TTTAATAATT
1 TTTAATAATT
52115021 TTTAATATATT
1 TTTAATA-ATT
52115032 TTT-AT-A-T
1 TTTAATAATT
52115039 TTTAA-AATT
1 TTTAATAATT
52115048 TTT-ATAATAT
1 TTTAATAAT-T
52115058 TTTAA-AATT
1 TTTAATAATT
52115067 TTT
1 TTT
52115070 TGTTTTATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
7 4 0.10
8 4 0.10
9 11 0.26
10 16 0.38
11 7 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTAATAATT
Found at i:52115057 original size:19 final size:19
Alignment explanation
Indices: 52115015--52115069 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
52115005 TTTAAATTTA
*
52115015 ATAAT-TTTTAATATATTTT
1 ATAATATTTTAAAAT-TTTT
52115034 -T-ATATTTTAAAATTTTT
1 ATAATATTTTAAAATTTTT
52115051 ATAATATTTTAAAATTTTT
1 ATAATATTTTAAAATTTTT
52115070 TGTTTTATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.19
18 10 0.31
19 16 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATAATATTTTAAAATTTTT
Found at i:52115067 original size:27 final size:28
Alignment explanation
Indices: 52115011--52115068 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
52115001 AATGTTTAAA
* *
52115011 TTTAATAATTTTTAATATATTTTTATAT
1 TTTAATAATTTTTAATATATTTTAAAAT
52115039 TTTAA-AATTTTT-ATAATATTTTAAAAT
1 TTTAATAATTTTTAAT-ATATTTTAAAAT
52115066 TTT
1 TTT
52115069 TTGTTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 2 0.07
27 20 0.74
28 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTAATAATTTTTAATATATTTTAAAAT
Found at i:52116698 original size:20 final size:20
Alignment explanation
Indices: 52116673--52116710 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52116663 TCCATATTTA
*
52116673 TTAATATCATTTTCTAAATT
1 TTAATACCATTTTCTAAATT
*
52116693 TTAATACCATTTTTTAAA
1 TTAATACCATTTTCTAAA
52116711 CATTTTATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAATACCATTTTCTAAATT
Found at i:52124042 original size:27 final size:27
Alignment explanation
Indices: 52124012--52124284 Score: 302
Period size: 27 Copynumber: 10.1 Consensus size: 27
52124002 TATAACAATT
*
52124012 ATTTTACCCTTTAGGGGTATTTCGGTC
1 ATTTTACCCTATAGGGGTATTTCGGTC
* *
52124039 ATTTTACCTTAT-GGGTGTATTTCAGTC
1 ATTTTACCCTATAGGG-GTATTTCGGTC
* *
52124066 ATTCTACCCTATAGGGGTATTTCGGTT
1 ATTTTACCCTATAGGGGTATTTCGGTC
*
52124093 ATTTTACCCTAT-GGGGTATTTCGATC
1 ATTTTACCCTATAGGGGTATTTCGGTC
* * *
52124119 ATTTTACCCTATGGGGGTATTTCAGTT
1 ATTTTACCCTATAGGGGTATTTCGGTC
*
52124146 ATTTTACCCTAT-GAGGGTATTTCAGTC
1 ATTTTACCCTATAG-GGGTATTTCGGTC
* * * *
52124173 ATTTTAACCTATGGGGGTATTTCAGTT
1 ATTTTACCCTATAGGGGTATTTCGGTC
* * *
52124200 ATTTTACCCTATAAGGGTATTTCGATT
1 ATTTTACCCTATAGGGGTATTTCGGTC
* * *
52124227 ATTTAACCCTATAGGGGTATATCGATC
1 ATTTTACCCTATAGGGGTATTTCGGTC
*
52124254 ATTTTACCCTAT-GAGGGTATTTTGGTC
1 ATTTTACCCTATAG-GGGTATTTCGGTC
52124281 ATTT
1 ATTT
52124285 AACCTATTTT
Statistics
Matches: 211, Mismatches: 29, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
26 29 0.14
27 178 0.84
28 4 0.02
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTATAGGGGTATTTCGGTC
Found at i:52124152 original size:107 final size:108
Alignment explanation
Indices: 52124012--52124291 Score: 379
Period size: 107 Copynumber: 2.6 Consensus size: 108
52124002 TATAACAATT
* * * *
52124012 ATTTTACCCTTTAGGGGTATTTCGGTCATTTTACCTTATG-GGTGTATTTCAGTCATTCTACCCT
1 ATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATGAGG-GTATTTCAGTCATTCTAACCT
* *
52124076 ATAGGGGTATTTCGGTTATTTTACCCTAT-GGGGTATTTCGATC
65 ATAGGGGTATTTCAGTTATTTTACCCTATAAGGGTATTTCGATC
* * *
52124119 ATTTTACCCTATGGGGGTATTTCAGTTATTTTACCCTATGAGGGTATTTCAGTCATTTTAACCTA
1 ATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCAGTCATTCTAACCTA
* *
52124184 TGGGGGTATTTCAGTTATTTTACCCTATAAGGGTATTTCGATT
66 TAGGGGTATTTCAGTTATTTTACCCTATAAGGGTATTTCGATC
* * **
52124227 ATTTAACCCTATAGGGGTATATC-GATCATTTTACCCTATGAGGGTATTTTGGTCATT-TAACCT
1 ATTTTACCCTATAGGGGTATTTCAG-TCATTTTACCCTATGAGGGTATTTCAGTCATTCTAACCT
52124290 AT
65 AT
52124292 TTTAGAGTTT
Statistics
Matches: 153, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
107 90 0.59
108 63 0.41
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.43
Consensus pattern (108 bp):
ATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCAGTCATTCTAACCTA
TAGGGGTATTTCAGTTATTTTACCCTATAAGGGTATTTCGATC
Found at i:52127402 original size:23 final size:24
Alignment explanation
Indices: 52127347--52127402 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
52127337 CAATCTTGGG
52127347 ATGA-TTTGT-AATCTTAGAAGAT
1 ATGATTTTGTAAATCTTAGAAGAT
* *
52127369 ATGGTTCTGTAAATCTTAG-AGAT
1 ATGATTTTGTAAATCTTAGAAGAT
*
52127392 TTGATTTTGTA
1 ATGATTTTGTA
52127403 GATAGTTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 3 0.11
23 16 0.59
24 8 0.30
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (24 bp):
ATGATTTTGTAAATCTTAGAAGAT
Found at i:52132116 original size:24 final size:25
Alignment explanation
Indices: 52132089--52132149 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
52132079 AGAGTGTCCA
52132089 GTTAATAGCTCTCTTG-AGCTTCCC
1 GTTAATAGCTCTCTTGAAGCTTCCC
*
52132113 GTTATATTG-T-TCTTGCAAGCTTCCC
1 GTTA-ATAGCTCTCTTG-AAGCTTCCC
*
52132138 GTTAATAACTCT
1 GTTAATAGCTCT
52132150 TCGGAGCCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
23 5 0.17
24 7 0.24
25 16 0.55
26 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.41
Consensus pattern (25 bp):
GTTAATAGCTCTCTTGAAGCTTCCC
Found at i:52139353 original size:46 final size:46
Alignment explanation
Indices: 52139174--52139554 Score: 639
Period size: 46 Copynumber: 8.4 Consensus size: 46
52139164 TACGTATGAT
* *
52139174 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
52139217 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
52139263 CACTTATCAC-TTGTTC-C-TGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTG-TCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
52139307 CACTTATCACTTTGTCACTTGATTAGATAAGTGTAGCTAAAACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
52139353 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
52139399 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
52139445 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
52139491 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
52139537 CACTTATCACTTTGTCAC
1 CACTTATCACTTTGTCAC
52139555 CACTTATCAC
Statistics
Matches: 321, Mismatches: 10, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
43 10 0.03
44 44 0.14
45 28 0.09
46 239 0.74
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:52142131 original size:49 final size:47
Alignment explanation
Indices: 52142068--52142184 Score: 130
Period size: 47 Copynumber: 2.4 Consensus size: 47
52142058 TTTTCTTGAT
* * *
52142068 CATAGTCCAACTATGGTCTTACACAT-AATCACATAATACAT-ACTGATGC
1 CATAGCCCAGCTATGGTCTTACAC-TGAAGCACAT-AT-C-TCACTGATGC
*
52142117 CATAGCCCAGCTATGGTCTTACACTGTAGCACATATCTCACTGATGC
1 CATAGCCCAGCTATGGTCTTACACTGAAGCACATATCTCACTGATGC
* *
52142164 CATATCCCAGATATGGTCTTA
1 CATAGCCCAGCTATGGTCTTA
52142185 TACGGAAATC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
46 1 0.02
47 28 0.47
48 3 0.05
49 28 0.47
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (47 bp):
CATAGCCCAGCTATGGTCTTACACTGAAGCACATATCTCACTGATGC
Found at i:52143597 original size:46 final size:46
Alignment explanation
Indices: 52143475--52143858 Score: 627
Period size: 46 Copynumber: 8.5 Consensus size: 46
52143465 TACGTATGAT
* *
52143475 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
52143518 CACTTATCAC-TTGTTC-C-TGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTG-TCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
52143562 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
52143608 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
52143654 CACTTATCACTTTGTCATTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
52143700 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
52143746 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
52143792 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGATAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
52143838 CACTTATCACTTTGTCACTTG
1 CACTTATCACTTTGTCACTTG
52143859 TCACTGATCA
Statistics
Matches: 324, Mismatches: 12, Indels: 7
0.94 0.03 0.02
Matches are distributed among these distances:
43 32 0.10
44 21 0.06
45 4 0.01
46 267 0.82
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:52150342 original size:35 final size:35
Alignment explanation
Indices: 52150301--52150371 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
52150291 GATAAGGCTC
52150301 GCTTGAACTTCAAGCTATCCCGATTATGGCTCTTT
1 GCTTGAACTTCAAGCTATCCCGATTATGGCTCTTT
52150336 GCTTGAACTTCAAGCTATCCCGATTATGGCTCTTT
1 GCTTGAACTTCAAGCTATCCCGATTATGGCTCTTT
52150371 G
1 G
52150372 TGAGCTTCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (35 bp):
GCTTGAACTTCAAGCTATCCCGATTATGGCTCTTT
Found at i:52155002 original size:26 final size:26
Alignment explanation
Indices: 52154963--52155028 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
52154953 GGACACACCT
* *
52154963 TAGCTC-TTATGAGCATCCCGATATA
1 TAGCTCTTTGTGAGCATCCCGATAAA
* *
52154988 T-GACTCTTTGTGAGCTTCCCGTTAAA
1 TAG-CTCTTTGTGAGCATCCCGATAAA
52155014 TAGCTCTTTGTGAGC
1 TAGCTCTTTGTGAGC
52155029 TTCCTAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
24 1 0.03
25 4 0.12
26 28 0.82
27 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
TAGCTCTTTGTGAGCATCCCGATAAA
Found at i:52158350 original size:24 final size:24
Alignment explanation
Indices: 52158293--52158351 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
52158283 AAAGAGCCTA
* *
52158293 TAACGGGTAACTCCGAAGAGCAAT
1 TAACAGGTAGCTCCGAAGAGCAAT
*
52158317 TAACAGGTAGCTCCGAAGAGTAAT
1 TAACAGGTAGCTCCGAAGAGCAAT
*
52158341 TAATAGGTAGC
1 TAACAGGTAGC
52158352 ACTAGATAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.20
Consensus pattern (24 bp):
TAACAGGTAGCTCCGAAGAGCAAT
Found at i:52158421 original size:23 final size:24
Alignment explanation
Indices: 52158366--52158421 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
52158356 GATAGCCATA
52158366 TAAC-GGGAAGTTCAAGCAAACAC
1 TAACAGGGAAGTTCAAGCAAACAC
* *
52158389 TAACA-TGAAGTTCAAGCAAGCAC
1 TAACAGGGAAGTTCAAGCAAACAC
52158412 TAA-AGGGAAG
1 TAACAGGGAAG
52158422 CTCTCAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (24 bp):
TAACAGGGAAGTTCAAGCAAACAC
Found at i:52163227 original size:28 final size:29
Alignment explanation
Indices: 52163195--52163257 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 29
52163185 CCTGAATATA
52163195 TTATATTA-TAAA-AATTAATTATAT-TAAT
1 TTATATTATTAAATAA-TAATTATATCT-AT
52163223 TTATA-TATTAAATAATAATTATATCTAT
1 TTATATTATTAAATAATAATTATATCTAT
52163251 TTATATT
1 TTATATT
52163258 GAATCACTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
27 2 0.06
28 25 0.81
29 4 0.13
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
TTATATTATTAAATAATAATTATATCTAT
Found at i:52178251 original size:25 final size:25
Alignment explanation
Indices: 52178217--52178267 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
52178207 ACTAACACCG
52178217 TTAGTTTTTGTTGATGTGCCATTAC
1 TTAGTTTTTGTTGATGTGCCATTAC
52178242 TTAGTTTTTGTTGATGTGCCATTAC
1 TTAGTTTTTGTTGATGTGCCATTAC
52178267 T
1 T
52178268 GGCCAATCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.12, G:0.20, T:0.53
Consensus pattern (25 bp):
TTAGTTTTTGTTGATGTGCCATTAC
Found at i:52178325 original size:18 final size:18
Alignment explanation
Indices: 52178292--52178342 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
52178282 CACATTGTAG
*
52178292 AAATAAATTAAAAAATAAA
1 AAAT-AATTTAAAAATAAA
* *
52178311 AAATATTTTAAAAATATA
1 AAATAATTTAAAAATAAA
*
52178329 AATTAATTTAAAAA
1 AAATAATTTAAAAA
52178343 GTATAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAATTTAAAAATAAA
Found at i:52181196 original size:15 final size:16
Alignment explanation
Indices: 52181170--52181202 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
52181160 AGGTAACATT
52181170 TTATTGTTTATTATTA
1 TTATTGTTTATTATTA
*
52181186 TTATT-TTTATTTTTA
1 TTATTGTTTATTATTA
52181201 TT
1 TT
52181203 TTATTTTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
TTATTGTTTATTATTA
Found at i:52181216 original size:23 final size:22
Alignment explanation
Indices: 52181168--52181207 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
52181158 ACAGGTAACA
52181168 TTTTATTGTTTATTATTATTAT
1 TTTTATTGTTTATTATTATTAT
52181190 TTTTATT-TTTATT-TTATT
1 TTTTATTGTTTATTATTATT
52181208 TTGATTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (22 bp):
TTTTATTGTTTATTATTATTAT
Found at i:52182799 original size:21 final size:20
Alignment explanation
Indices: 52182761--52182827 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
52182751 ACATAAGTGC
* *
52182761 TAAACGGAAACCCGTAAGGGT
1 TAAAC-GAAAACCATAAGGGT
* * *
52182782 TAAACGAAAGCTCATAAGAGC
1 TAAACGAAAAC-CATAAGGGT
* *
52182803 TGAACGAAAACCATAAAGGT
1 TAAACGAAAACCATAAGGGT
52182823 TAAAC
1 TAAAC
52182828 TGAAGATCAA
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
20 15 0.43
21 20 0.57
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (20 bp):
TAAACGAAAACCATAAGGGT
Found at i:52182814 original size:42 final size:41
Alignment explanation
Indices: 52182747--52182827 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
52182737 GGCTGCACAG
* * * *
52182747 AAGCACATAAGTGCTAAACGGAAACCCGTAAGGGTTAAACGA
1 AAGCACATAAGAGCTAAAC-GAAAACCATAAAGGTTAAACGA
* *
52182789 AAGCTCATAAGAGCTGAACGAAAACCATAAAGGTTAAAC
1 AAGCACATAAGAGCTAAACGAAAACCATAAAGGTTAAAC
52182828 TGAAGATCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 17 0.52
42 16 0.48
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.15
Consensus pattern (41 bp):
AAGCACATAAGAGCTAAACGAAAACCATAAAGGTTAAACGA
Found at i:52189864 original size:46 final size:46
Alignment explanation
Indices: 52189786--52189970 Score: 298
Period size: 46 Copynumber: 4.0 Consensus size: 46
52189776 ACATTGCTAT
* *
52189786 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
** *
52189832 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
*
52189878 AACTCAGTATGATTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* *
52189924 AACTCAGTATGGTTTTCTTCACCGAAACACCATACTTATTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
52189970 A
1 A
52189971 CTTTGCCATG
Statistics
Matches: 128, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 128 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:52190463 original size:22 final size:22
Alignment explanation
Indices: 52190435--52190480 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
52190425 TTCTAAATTA
*
52190435 ACGTCTTATCCAACCATTTTAG
1 ACGTCTTAACCAACCATTTTAG
52190457 ACGTCTTAACCAACCATTTTAG
1 ACGTCTTAACCAACCATTTTAG
52190479 AC
1 AC
52190481 TACTGAACAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (22 bp):
ACGTCTTAACCAACCATTTTAG
Found at i:52191265 original size:16 final size:16
Alignment explanation
Indices: 52191225--52191266 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
52191215 TTTTAAATCG
52191225 CAAAAATTCACTAAAT
1 CAAAAATTCACTAAAT
*
52191241 CACAAAATTCACTAATT
1 CA-AAAATTCACTAAAT
52191258 CAAAAATTC
1 CAAAAATTC
52191267 TTATAAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.26
Consensus pattern (16 bp):
CAAAAATTCACTAAAT
Found at i:52192208 original size:21 final size:20
Alignment explanation
Indices: 52192182--52192284 Score: 73
Period size: 21 Copynumber: 5.0 Consensus size: 20
52192172 TACAGAATCA
*
52192182 CATAAGTGCTAAACAGAAACT
1 CATAAGAGCTAAAC-GAAACT
* * * *
52192203 CGTAAGGGTTAAACGGAAGCT
1 CATAAGAGCTAAAC-GAAACT
*
52192224 CATAAGAGCTAAACGAAACC
1 CATAAGAGCTAAACGAAACT
* *
52192244 CATAA-AGGTTAAACTGAAGCT
1 CATAAGA-GCTAAAC-GAAACT
*
52192265 CAAAAGAGCTAAACTGAAAC
1 CATAAGAGCTAAAC-GAAAC
52192285 CCAAAAGGGT
Statistics
Matches: 63, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
19 1 0.02
20 15 0.24
21 46 0.73
22 1 0.02
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.17
Consensus pattern (20 bp):
CATAAGAGCTAAACGAAACT
Found at i:52192289 original size:21 final size:21
Alignment explanation
Indices: 52192227--52192301 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
52192217 GGAAGCTCAT
52192227 AAGAGCTAAAC-GAAACCCATA
1 AAGAGCTAAACTGAAACCCA-A
* * *
52192248 AAG-GTTAAACTGAAGCTCAA
1 AAGAGCTAAACTGAAACCCAA
52192268 AAGAGCTAAACTGAAACCCAA
1 AAGAGCTAAACTGAAACCCAA
* *
52192289 AAGGGTTAAACTG
1 AAGAGCTAAACTG
52192302 GAACTCATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 10 0.23
21 34 0.77
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.15
Consensus pattern (21 bp):
AAGAGCTAAACTGAAACCCAA
Found at i:52192322 original size:41 final size:44
Alignment explanation
Indices: 52192182--52192310 Score: 164
Period size: 41 Copynumber: 3.1 Consensus size: 44
52192172 TACAGAATCA
* * * *
52192182 CATAAGTGCTAAACAGAAACTCGT-AAGGGTTAAAC-GGAAGCT
1 CATAAGAGCTAAACTGAAACCCATAAAGGGTTAAACTGGAAGCT
52192224 CATAAGAGCTAAAC-GAAACCCATAAA-GGTTAAACT-GAAGCT
1 CATAAGAGCTAAACTGAAACCCATAAAGGGTTAAACTGGAAGCT
*
52192265 CAAAAGAGCTAAACTGAAACCCA-AAAGGGTTAAACTGGAA-CT
1 CATAAGAGCTAAACTGAAACCCATAAAGGGTTAAACTGGAAGCT
52192307 CATA
1 CATA
52192311 TGAGTTAACT
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
41 37 0.48
42 37 0.48
43 3 0.04
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.17
Consensus pattern (44 bp):
CATAAGAGCTAAACTGAAACCCATAAAGGGTTAAACTGGAAGCT
Found at i:52202805 original size:27 final size:27
Alignment explanation
Indices: 52202770--52202821 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
52202760 ATAGAATATT
* *
52202770 TATTCATTTATCGATAAATTAATAAAA
1 TATTAATTTATCGATAAACTAATAAAA
52202797 TATTAATTTATCGATAAACTAATAA
1 TATTAATTTATCGATAAACTAATAA
52202822 CCTCGATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (27 bp):
TATTAATTTATCGATAAACTAATAAAA
Found at i:52205630 original size:26 final size:26
Alignment explanation
Indices: 52205561--52205641 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 26
52205551 TGAAGGAAGT
* * *
52205561 ATACTGTTATTGGCAGCGTTGCTACG
1 ATACTGTTACTGGCAGCTTTGCTGCG
*
52205587 ATACTGTTACTGGCAGCTTTGATGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* *
52205613 ATACTATTACTGGCAGCTTTCCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
52205639 ATA
1 ATA
52205642 TTGGTGTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:52211266 original size:21 final size:20
Alignment explanation
Indices: 52211236--52211275 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
52211226 GATTCATAAT
52211236 AAAAAAACAGA-AAAGAAAGG
1 AAAAAAACAGAGAAA-AAAGG
52211256 AAAAAATACAGAGAAAAAAG
1 AAAAAA-ACAGAGAAAAAAG
52211276 ATGAAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 9 0.50
22 3 0.17
ACGTcount: A:0.75, C:0.05, G:0.17, T:0.03
Consensus pattern (20 bp):
AAAAAAACAGAGAAAAAAGG
Found at i:52214173 original size:469 final size:469
Alignment explanation
Indices: 52213290--52214223 Score: 1814
Period size: 469 Copynumber: 2.0 Consensus size: 469
52213280 CTTTGGGTAT
52213290 AAGACTGGACTTTAGTACTGCGTTTCATCCCCGGATAGATGGTCAATCAGAAAGGGTGATTCAAA
1 AAGACTGGACTTTAGTACTGCGTTTCATCCCCGGATAGATGGTCAATCAGAAAGGGTGATTCAAA
*
52213355 TATTGGATGATATGTTAAGAAGTTGTGTAATGGATTTTCGAGGCAGCTGGGAAGACTATTTGCTG
66 TATTGGATGATATGTTAAGAAGTTGTGTAATGGATTTTCGAGGCAGCTGGGAAGACTATTTGCCG
*
52213420 CTAACAGAGTTCGCATATAATAATAGCTACCAGTCCAATATTCAAATGGCATCGTACAAGGCATT
131 CTAACAGAGTTCGCATATAATAATAGCTACCAGTCCAATATTCAAATGGCACCGTACAAGGCATT
52213485 ATATAGTCGTAGGTGTCGTACTCCTACCTGTTGGACTAAGTTGGGCGAGTGGCGAGTTCTGGGAC
196 ATATAGTCGTAGGTGTCGTACTCCTACCTGTTGGACTAAGTTGGGCGAGTGGCGAGTTCTGGGAC
52213550 CAGAGTTAGTTTTTGATACCGAAGAGAAGGTAAAACTGATCCGAGACCGATTGAAGGAGGCATCT
261 CAGAGTTAGTTTTTGATACCGAAGAGAAGGTAAAACTGATCCGAGACCGATTGAAGGAGGCATCT
52213615 GATAGGCAGAAGTCTTACGCGGACCTTAAACACTGAGAGATTGAGTATTCTATGGTGGACTATGT
326 GATAGGCAGAAGTCTTACGCGGACCTTAAACACTGAGAGATTGAGTATTCTATGGTGGACTATGT
52213680 ATTTCTCAAGGTCTCCCCTTGGAAAAAGTTACTGAGGTTTGGGCGGAAGGGTAAGCTTAGCCCTA
391 ATTTCTCAAGGTCTCCCCTTGGAAAAAGTTACTGAGGTTTGGGCGGAAGGGTAAGCTTAGCCCTA
52213745 AGCTCATTGGATAC
456 AGCTCATTGGATAC
52213759 AAGACTGGACTTTAGTACTGCGTTTCATCCCCGGATAGATGGTCAATCAGAAAGGGTGATTCAAA
1 AAGACTGGACTTTAGTACTGCGTTTCATCCCCGGATAGATGGTCAATCAGAAAGGGTGATTCAAA
52213824 TATTGGATGATATGTTAAGAAGTTGTGTAATGGATTTTCGAGGCAGCTGGGAAGACTATTTGCCG
66 TATTGGATGATATGTTAAGAAGTTGTGTAATGGATTTTCGAGGCAGCTGGGAAGACTATTTGCCG
* *
52213889 CTAACAGAGTTCGCATATAATAATAGCTACCAGTCCAGTATTCAAATGGCACCGTACAAGGCGTT
131 CTAACAGAGTTCGCATATAATAATAGCTACCAGTCCAATATTCAAATGGCACCGTACAAGGCATT
52213954 ATATAGTCGTAGGTGTCGTACTCCTACCTGTTGGACTAAGTTGGGCGAGTGGCGAGTTCTGGGAC
196 ATATAGTCGTAGGTGTCGTACTCCTACCTGTTGGACTAAGTTGGGCGAGTGGCGAGTTCTGGGAC
52214019 CAGAGTTAGTTTTTGATACCGAAGAGAAGGTAAAACTGATCCGAGACCGATTGAAGGAGGCATCT
261 CAGAGTTAGTTTTTGATACCGAAGAGAAGGTAAAACTGATCCGAGACCGATTGAAGGAGGCATCT
52214084 GATAGGCAGAAGTCTTACGCGGACCTTAAACACTGAGAGATTGAGTATTCTATGGTGGACTATGT
326 GATAGGCAGAAGTCTTACGCGGACCTTAAACACTGAGAGATTGAGTATTCTATGGTGGACTATGT
* *
52214149 ATTTCTCAAGGTCTCCCTTTGGAAAAAGTTATTGAGGTTTGGGCGGAAGGGTAAGCTTAGCCCTA
391 ATTTCTCAAGGTCTCCCCTTGGAAAAAGTTACTGAGGTTTGGGCGGAAGGGTAAGCTTAGCCCTA
52214214 AGCTCATTGG
456 AGCTCATTGG
52214224 GTCTTTCCGT
Statistics
Matches: 459, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
469 459 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (469 bp):
AAGACTGGACTTTAGTACTGCGTTTCATCCCCGGATAGATGGTCAATCAGAAAGGGTGATTCAAA
TATTGGATGATATGTTAAGAAGTTGTGTAATGGATTTTCGAGGCAGCTGGGAAGACTATTTGCCG
CTAACAGAGTTCGCATATAATAATAGCTACCAGTCCAATATTCAAATGGCACCGTACAAGGCATT
ATATAGTCGTAGGTGTCGTACTCCTACCTGTTGGACTAAGTTGGGCGAGTGGCGAGTTCTGGGAC
CAGAGTTAGTTTTTGATACCGAAGAGAAGGTAAAACTGATCCGAGACCGATTGAAGGAGGCATCT
GATAGGCAGAAGTCTTACGCGGACCTTAAACACTGAGAGATTGAGTATTCTATGGTGGACTATGT
ATTTCTCAAGGTCTCCCCTTGGAAAAAGTTACTGAGGTTTGGGCGGAAGGGTAAGCTTAGCCCTA
AGCTCATTGGATAC
Found at i:52216507 original size:26 final size:26
Alignment explanation
Indices: 52216473--52216553 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
52216463 TGGAGGAAGT
*
52216473 ATACTGTTACTGGCAGCGTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* *
52216499 ATACCGTTACTGGCAACTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* *
52216525 ATACTATTATTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
52216551 ATA
1 ATA
52216554 TTGGTGTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:52216686 original size:28 final size:28
Alignment explanation
Indices: 52216654--52216708 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
52216644 TTATTGCACT
* * *
52216654 ATATTGATATTGTATTGGGCTAAGGCCC
1 ATATTGATACTATACTGGGCTAAGGCCC
*
52216682 ATATTGTTACTATACTGGGCTAAGGCC
1 ATATTGATACTATACTGGGCTAAGGCC
52216709 ACAGTGTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (28 bp):
ATATTGATACTATACTGGGCTAAGGCCC
Found at i:52218532 original size:22 final size:23
Alignment explanation
Indices: 52218485--52218532 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
52218475 AAAAAAATTT
*
52218485 AAAAATTATAAAAATTTTGTATA
1 AAAAATTATAAAAATTTTGTAAA
*
52218508 AAAAATTA-AACAATTTAT-TAAA
1 AAAAATTATAAAAATTT-TGTAAA
52218530 AAA
1 AAA
52218533 GGGAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAAATTATAAAAATTTTGTAAA
Found at i:52218769 original size:24 final size:23
Alignment explanation
Indices: 52218716--52218771 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 23
52218706 ATTTTTTTTC
52218716 AAATTATTTACATAATGAAAAAT
1 AAATTATTTACATAATGAAAAAT
52218739 AAGATTATTT-CAATTAAT-AAATAAT
1 AA-ATTATTTAC-A-TAATGAAA-AAT
52218764 AAATTATT
1 AAATTATT
52218772 AATTTTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 3 0.10
24 17 0.59
25 9 0.31
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (23 bp):
AAATTATTTACATAATGAAAAAT
Found at i:52219400 original size:6 final size:6
Alignment explanation
Indices: 52219391--52219419 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
52219381 TGTATTTGTA
52219391 ATTTTC ATTTTC ATTTTC ATTTT- ATTTTC
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC
52219420 GGCTATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (6 bp):
ATTTTC
Found at i:52220619 original size:22 final size:21
Alignment explanation
Indices: 52220594--52220661 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
52220584 AAAACATAAT
52220594 ATATTTTTTAAAATTATTATCA
1 ATATTTTTTAAAA-TATTATCA
*
52220616 ATATGTTTT-AAAT-TTATCA
1 ATATTTTTTAAAATATTATCA
52220635 ATATTATTTTAAAAATATATAT-A
1 ATATT-TTTT-AAAATAT-TATCA
52220658 ATAT
1 ATAT
52220662 GAAGTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 10 0.26
20 5 0.13
21 3 0.08
22 12 0.31
23 6 0.15
24 3 0.08
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (21 bp):
ATATTTTTTAAAATATTATCA
Found at i:52220646 original size:20 final size:19
Alignment explanation
Indices: 52220610--52220647 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
52220600 TTTAAAATTA
*
52220610 TTATCAATATGTTTTAAAT
1 TTATCAATATATTTTAAAT
52220629 TTATCAATATTATTTTAAA
1 TTATCAATA-TATTTTAAA
52220648 AATATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (19 bp):
TTATCAATATATTTTAAAT
Found at i:52222566 original size:17 final size:17
Alignment explanation
Indices: 52222512--52222570 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
52222502 TTATGTCTAC
52222512 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
* *
52222529 TAAATTTCACATT-TTGTAT
1 T--ATTT-ATATTATTGAAT
52222548 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
52222565 TATTTA
1 TATTTA
52222571 ATCATGCTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 4 0.12
17 16 0.47
19 10 0.29
20 4 0.12
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (17 bp):
TATTTATATTATTGAAT
Found at i:52222867 original size:19 final size:19
Alignment explanation
Indices: 52222843--52222880 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
52222833 AAAGTTAATA
52222843 ACAAATTTAATTACGGTGG
1 ACAAATTTAATTACGGTGG
*
52222862 ACAAATTTTATTACGGTGG
1 ACAAATTTAATTACGGTGG
52222881 GTGGTAGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (19 bp):
ACAAATTTAATTACGGTGG
Found at i:52223345 original size:41 final size:40
Alignment explanation
Indices: 52223196--52223415 Score: 172
Period size: 41 Copynumber: 5.3 Consensus size: 40
52223186 CATATTTTTG
* * ** * *
52223196 GGCCTTTAGCGGCGTTTTTGACAAATTGCCGCTAATTCTCC
1 GGCCTTTAGCGGCGTTTTTTA-TAAGCGCCGCTAATGCTCT
* * *
52223237 GACCTTTTAACGGCGATTTTCGTA-AAGCGCCGCTAATGCTCT
1 GGCC-TTTAGCGGCG-TTTT-TTATAAGCGCCGCTAATGCTCT
* *
52223279 AGCCTTTAGCGGCGTTTTCTTATAAGCACCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTT-TTATAAGCGCCGCTAATGCTCT
* *
52223320 GGCCTTTAGCGGCGTTTTTTAATAAGCGCCACTAATGATCT
1 GGCCTTTAGCGGCGTTTTTT-ATAAGCGCCGCTAATGCTCT
* * * * * * *
52223361 GGTCATTAGCGGCGTTTTTGGAAAAGCGCCGGTAATACTGT
1 GGCCTTTAGCGGCGTTTTT-TATAAGCGCCGCTAATGCTCT
* *
52223402 GTCATTTAGCGGCG
1 GGCCTTTAGCGGCG
52223416 CTCGTTTAAA
Statistics
Matches: 143, Mismatches: 30, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
40 9 0.06
41 104 0.73
42 25 0.17
43 4 0.03
44 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (40 bp):
GGCCTTTAGCGGCGTTTTTTATAAGCGCCGCTAATGCTCT
Found at i:52224462 original size:27 final size:28
Alignment explanation
Indices: 52224418--52224477 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
52224408 ATAGAAAAGG
* * *
52224418 ATATA-TATGCAACGATATATATATGTT
1 ATATATTATGAAACGATATAAATATATT
52224445 ATATATTATGAAAC-ATATAAATATATT
1 ATATATTATGAAACGATATAAATATATT
52224472 A-ATATT
1 ATATATT
52224478 GTGTTAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 5 0.17
27 17 0.59
28 7 0.24
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (28 bp):
ATATATTATGAAACGATATAAATATATT
Found at i:52225171 original size:116 final size:117
Alignment explanation
Indices: 52224916--52225178 Score: 291
Period size: 116 Copynumber: 2.3 Consensus size: 117
52224906 GCTCGGGGCT
* * * * * *
52224916 TTAGCGGCGATTTTTCCT-AAAACGCCGCAAATATTTCTTTAATACGACATCGTTTAGTGTTCTG
1 TTAGCGGCGGTTTTT-ATAAAAACGCCGCAAAAATTTCTATAATACGACATCGTTTACTGTTATG
* * *
52224980 CTCTGGTCGAAAAGTTCGACAAAACGACGTCGCTTTGATGATGTTTACCGGTA
65 ATCTGGTCGAAAAGTTAGACAAAACGACATCGCTTTGATGATGTTTACCGGTA
* * * * *
52225033 TTAGCGGCGG-TTTTACATAAACGCCGCAAAAATTTCTATAATACGACGTCGTTTACTTTTATTA
1 TTAGCGGCGGTTTTTATAAAAACGCCGCAAAAATTTCTATAATACGACATCGTTTACTGTTATGA
* * * * **
52225097 TTTGGTTG-AAAGTTAGACAAAACGACATCGTTTTTAT-ACTGTTTATTGGTA
66 TCTGGTCGAAAAGTTAGACAAAACGACATCGCTTTGATGA-TGTTTACCGGTA
*
52225148 TTAGCGGCGGTTTTTATAAAAACGTCGCAAA
1 TTAGCGGCGGTTTTTATAAAAACGCCGCAAA
52225179 GGAAATAAAT
Statistics
Matches: 120, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
114 1 0.01
115 45 0.38
116 65 0.54
117 9 0.08
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (117 bp):
TTAGCGGCGGTTTTTATAAAAACGCCGCAAAAATTTCTATAATACGACATCGTTTACTGTTATGA
TCTGGTCGAAAAGTTAGACAAAACGACATCGCTTTGATGATGTTTACCGGTA
Found at i:52228018 original size:43 final size:43
Alignment explanation
Indices: 52227892--52228018 Score: 96
Period size: 43 Copynumber: 2.8 Consensus size: 43
52227882 AAAGATTGCT
*
52227892 TATGTAAGCTATATTTAAATTTTATTAATAATAAATTGATAACTTAAA
1 TATGTAAACTATATTTAAATTTTATTAATAAT--A-T--TAACTTAAA
* * * * * **
52227940 TAAGTATTACTATATTTTTAATATTA-TACAT-ATATTAATTTACG
1 TATGTA-AACTATA-TTTAAATTTTATTA-ATAATATTAACTTAAA
52227984 TATGTAAACTATATTTAAATTTTATTAATAATATT
1 TATGTAAACTATATTTAAATTTTATTAATAATATT
52228019 TAAACATATT
Statistics
Matches: 62, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
42 11 0.18
43 13 0.21
44 11 0.18
46 1 0.02
47 1 0.02
48 5 0.08
49 9 0.15
50 11 0.18
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (43 bp):
TATGTAAACTATATTTAAATTTTATTAATAATATTAACTTAAA
Found at i:52228216 original size:213 final size:213
Alignment explanation
Indices: 52227849--52228408 Score: 1102
Period size: 213 Copynumber: 2.6 Consensus size: 213
52227839 TATATTCACT
52227849 ACCCATAATTCAGTGGAAGATTAGTTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAATTT
1 ACCCATAATTCAGTGGAAGATTAGTTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAATTT
52227914 TATTAATAATAAATTGATAACTTAAATAAGTATTACTATATTTTTAATATTATACATATATTAAT
66 TATTAATAATAAATTGATAACTTAAATAAGTATTACTATATTTTTAATATTATACATATATTAAT
52227979 TTACGTATGTAAACTATATTTAAATTTTATTAATAATATTTAAACATATTTTGTTGTCAAATCAG
131 TTACGTATGTAAACTATATTTAAATTTTATTAATAATATTTAAACATATTTTGTTGTCAAATCAG
52228044 TAACACATATACCTCTCC
196 TAACACATATACCTCTCC
52228062 ACCCATAATTCAGTGGAAGATTAGTTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAATTT
1 ACCCATAATTCAGTGGAAGATTAGTTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAATTT
52228127 TATTAATAATAAATTGATAACTTAAATAAGTATTACTATATTTTTAATATTATACATATATTAAT
66 TATTAATAATAAATTGATAACTTAAATAAGTATTACTATATTTTTAATATTATACATATATTAAT
*
52228192 TTACGTATGTAAGCTATATTTAAATTTTATTAATAATATTTAAACATATTTTGTTGTCAAATCAG
131 TTACGTATGTAAACTATATTTAAATTTTATTAATAATATTTAAACATATTTTGTTGTCAAATCAG
52228257 TAACACATATACCTCTCC
196 TAACACATATACCTCTCC
*
52228275 ACCCATAATTCAGTGGAAGATTAGCTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAATTT
1 ACCCATAATTCAGTGGAAGATTAGTTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAATTT
52228340 TATTAATAATAAATTGATAACTTAAATAAGTATTACTATATTTTTAATATTATACATATATTAAT
66 TATTAATAATAAATTGATAACTTAAATAAGTATTACTATATTTTTAATATTATACATATATTAAT
52228405 TTAC
131 TTAC
52228409 ATAATACATA
Statistics
Matches: 345, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
213 345 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (213 bp):
ACCCATAATTCAGTGGAAGATTAGTTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAATTT
TATTAATAATAAATTGATAACTTAAATAAGTATTACTATATTTTTAATATTATACATATATTAAT
TTACGTATGTAAACTATATTTAAATTTTATTAATAATATTTAAACATATTTTGTTGTCAAATCAG
TAACACATATACCTCTCC
Found at i:52228231 original size:43 final size:43
Alignment explanation
Indices: 52228105--52228231 Score: 98
Period size: 42 Copynumber: 2.8 Consensus size: 43
52228095 AAAGATTGCT
52228105 TATGTAAGCTATATTTAAATTTTATTAATAATAAATTGATAACTTAAA
1 TATGTAAGCTATATTTAAATTTTATTAATAAT--A-T--TAACTTAAA
* * * * **
52228153 TAAGTATTA-CTATATTTTTAATATTA-TACAT-ATATTAATTTACG
1 TATGTA--AGCTATA-TTTAAATTTTATTA-ATAATATTAACTTAAA
52228197 TATGTAAGCTATATTTAAATTTTATTAATAATATT
1 TATGTAAGCTATATTTAAATTTTATTAATAATATT
52228232 TAAACATATT
Statistics
Matches: 63, Mismatches: 9, Indels: 19
0.69 0.10 0.21
Matches are distributed among these distances:
42 12 0.19
43 12 0.19
44 11 0.17
46 1 0.02
47 1 0.02
48 5 0.08
49 9 0.14
50 12 0.19
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.48
Consensus pattern (43 bp):
TATGTAAGCTATATTTAAATTTTATTAATAATATTAACTTAAA
Found at i:52228413 original size:9 final size:9
Alignment explanation
Indices: 52228405--52228797 Score: 267
Period size: 9 Copynumber: 45.9 Consensus size: 9
52228395 ATATATTAAT
52228405 TTACATAA-
1 TTACATAAC
52228413 -TACATAAC
1 TTACATAAC
52228421 TTACATAAC
1 TTACATAAC
* *
52228430 CTACTTAA-
1 TTACATAAC
52228438 -TACATAAC
1 TTACATAAC
*
52228446 TTGCATAAC
1 TTACATAAC
52228455 TTACATAA-
1 TTACATAAC
*
52228463 -TACACAAC
1 TTACATAAC
*
52228471 TTACAT--G
1 TTACATAAC
*
52228478 TGTAAATAA-
1 T-TACATAAC
*
52228487 -TACACAAC
1 TTACATAAC
52228495 TTACATAAC
1 TTACATAAC
*
52228504 TTACATACC
1 TTACATAAC
* *
52228513 CTACATAAA
1 TTACATAAC
* *
52228522 TTAAATAAG
1 TTACATAAC
52228531 TTACATAA-
1 TTACATAAC
*
52228539 TAATACATACC
1 T--TACATAAC
*
52228550 CTACATAAC
1 TTACATAAC
*
52228559 TTACATAAG
1 TTACATAAC
52228568 TTACATAA-
1 TTACATAAC
*
52228576 -TACACAA-
1 TTACATAAC
** *
52228583 AAACAAAAAC
1 TTAC-ATAAC
52228593 TTACATAAC
1 TTACATAAC
52228602 TTACATAA-
1 TTACATAAC
*
52228610 -TACACAAC
1 TTACATAAC
52228618 TTACATAAC
1 TTACATAAC
*
52228627 TTATATAA-
1 TTACATAAC
*
52228635 -TACACAAC
1 TTACATAAC
52228643 TTACATAAC
1 TTACATAAC
52228652 TTACATAA-
1 TTACATAAC
*
52228660 -TACATAAT
1 TTACATAAC
*
52228668 TTGCATAAC
1 TTACATAAC
52228677 TTACATAA-
1 TTACATAAC
*
52228685 -GACATAAC
1 TTACATAAC
*
52228693 TTACATAAG
1 TTACATAAC
*
52228702 TTTCATAA-
1 TTACATAAC
*
52228710 -TACACAAC
1 TTACATAAC
**
52228718 TTACGCAAC
1 TTACATAAC
*
52228727 TTACACAAC
1 TTACATAAC
52228736 TTACATAAC
1 TTACATAAC
52228745 TTACATAAC
1 TTACATAAC
* *
52228754 TTACACAGC
1 TTACATAAC
*
52228763 TTACACAAC
1 TTACATAAC
52228772 TTACATAAC
1 TTACATAAC
*
52228781 TTACACAAC
1 TTACATAAC
52228790 TTACATAA
1 TTACATAA
52228798 TGTATAACTT
Statistics
Matches: 303, Mismatches: 55, Indels: 53
0.74 0.13 0.13
Matches are distributed among these distances:
7 60 0.20
8 7 0.02
9 228 0.75
10 8 0.03
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.29
Consensus pattern (9 bp):
TTACATAAC
Found at i:52228439 original size:25 final size:25
Alignment explanation
Indices: 52228406--52228808 Score: 114
Period size: 25 Copynumber: 15.7 Consensus size: 25
52228396 TATATTAATT
52228406 TACATAATACATAACTTACATAACC
1 TACATAATACATAACTTACATAACC
* * *
52228431 TACTTAATACATAACTTGCATAACT
1 TACATAATACATAACTTACATAACC
* ***
52228456 TACATAATACACAACTTACAT-GTG
1 TACATAATACATAACTTACATAACC
* * *
52228480 TAAATAATACACAACTTACATAACT
1 TACATAATACATAACTTACATAACC
* * * **
52228505 TACATACCCTACATAAATTAAATAAGT
1 TACATA--ATACATAACTTACATAACC
* * *
52228532 TACATAATAATACATACCCTACATAACT
1 TAC---ATAATACATAACTTACATAACC
* *
52228560 TACATAAGTTACATAA--TACACAA-A
1 TACATAA--TACATAACTTACATAACC
* *
52228584 AACAAAAACTTACATAACTTACATAA--
1 TAC-ATAA--TACATAACTTACATAACC
* *
52228610 TACACAACTTACATAACTTATATAA--
1 TACATAA--TACATAACTTACATAACC
*
52228635 TACACAACTTACATAACTTACATAA--
1 TACATAA--TACATAACTTACATAACC
*
52228660 TACATAATTTGCATAACTTACATAA--
1 TACATAA--TACATAACTTACATAACC
* * *
52228685 GACATAACTTACATAAGTTTCATAA--
1 TACATAA--TACATAACTTACATAACC
* ** * *
52228710 TACACAACTTACGCAACTTACACAACT
1 TACATAA--TACATAACTTACATAACC
* * *
52228737 TACATAACTTACATAACTTACACAGCT
1 TACATAA--TACATAACTTACATAACC
* * *
52228764 TACACAACTTACATAACTTACACAACT
1 TACATAA--TACATAACTTACATAACC
**
52228791 TACATAATGTATAACTTA
1 TACATAATACATAACTTA
52228809 TTCCTAAATC
Statistics
Matches: 305, Mismatches: 60, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
24 22 0.07
25 179 0.59
26 2 0.01
27 83 0.27
28 16 0.05
30 3 0.01
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.29
Consensus pattern (25 bp):
TACATAATACATAACTTACATAACC
Found at i:52228549 original size:37 final size:37
Alignment explanation
Indices: 52228505--52228577 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
52228495 TTACATAACT
52228505 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
* *
52228542 TACATACCCTACATAACTTACATAAGTTACATAATA
1 TACATACCCTACATAAATTAAATAAGTTACATAATA
52228578 CACAAAAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.30
Consensus pattern (37 bp):
TACATACCCTACATAAATTAAATAAGTTACATAATAA
Found at i:52228748 original size:27 final size:27
Alignment explanation
Indices: 52228590--52228794 Score: 187
Period size: 25 Copynumber: 8.0 Consensus size: 27
52228580 CAAAAACAAA
*
52228590 AACTTACATAACTTACATAA--TACAC
1 AACTTACATAACTTACACAACTTACAC
* *
52228615 AACTTACATAACTTATATAA--TACAC
1 AACTTACATAACTTACACAACTTACAC
* *
52228640 AACTTACATAACTTACATAA--TACAT
1 AACTTACATAACTTACACAACTTACAC
* * * * *
52228665 AATTTGCATAACTTACATAA--GACAT
1 AACTTACATAACTTACACAACTTACAC
* * *
52228690 AACTTACATAAGTTTCATAA--TACAC
1 AACTTACATAACTTACACAACTTACAC
** *
52228715 AACTTACGCAACTTACACAACTTACAT
1 AACTTACATAACTTACACAACTTACAC
*
52228742 AACTTACATAACTTACACAGCTTACAC
1 AACTTACATAACTTACACAACTTACAC
52228769 AACTTACATAACTTACACAACTTACA
1 AACTTACATAACTTACACAACTTACA
52228795 TAATGTATAA
Statistics
Matches: 155, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
25 103 0.66
27 52 0.34
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.29
Consensus pattern (27 bp):
AACTTACATAACTTACACAACTTACAC
Found at i:52234297 original size:21 final size:21
Alignment explanation
Indices: 52234271--52234339 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
52234261 CAACAACTTA
* *
52234271 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
**
52234292 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
*
52234313 AAGTAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
52234334 AAGCAG
1 AAGCAG
52234340 CGATAGAATC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.35, C:0.19, G:0.43, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:52234930 original size:85 final size:84
Alignment explanation
Indices: 52234775--52235026 Score: 303
Period size: 85 Copynumber: 3.0 Consensus size: 84
52234765 GTTTGTGAAA
* * * ** * *
52234775 TAAGCGTCGCTAAAGAACACT-A-CTGTTAGCAGCGTTTTTGACCAAGCGCCGCTATAGAACATT
1 TAAGCGCCACTAAAGAACA-TGATCT-TTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATG
*
52234838 A-CTTTTAGCAGCGTTTTCTTCC
64 ATC-TTTAGCGGCGTTTT-TTCC
*
52234860 TAAGCGCCATTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGAT
1 TAAGCGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGAT
*
52234925 CTTTAGTGGCGTTTTTTCCC
66 CTTTAGCGGCGTTTTTT-CC
* * * * *
52234945 CAAGCGCCGCTAGAGAACATGATCTTTAGCGGCATTTTTTCCTAAGCGCCGCTAAAGAACATGAT
1 TAAGCGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGAT
52235010 CTTTAGCGGCGTTTTTT
66 CTTTAGCGGCGTTTTTT
52235027 TCTGTAAGCG
Statistics
Matches: 146, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
84 3 0.02
85 140 0.96
86 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (84 bp):
TAAGCGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGAT
CTTTAGCGGCGTTTTTTCC
Found at i:52235026 original size:42 final size:42
Alignment explanation
Indices: 52234775--52235045 Score: 307
Period size: 42 Copynumber: 6.4 Consensus size: 42
52234765 GTTTGTGAAA
* * *
52234775 TAAGCGTCGCTAAAGAACACT-A-CTGTTAGCAGCGTTTTTGACC
1 TAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTT-TCC
* * *
52234818 -AAGCGCCGCTATAGAACATTA-CTTTTAGCAGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCC
**
52234860 TAAGCGCCATTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
* *
52234902 CAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTCCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-CC
* * *
52234945 CAAGCGCCGCTAGAGAACATGATCTTTAGCGGCATTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
*
52234987 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTC-C
*
52235031 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
52235046 TTAGCGACGT
Statistics
Matches: 200, Mismatches: 20, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
41 1 0.00
42 106 0.53
43 78 0.39
44 15 0.08
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:52245492 original size:23 final size:23
Alignment explanation
Indices: 52245457--52245500 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
52245447 CAAAGGACAT
*
52245457 ACGGCTAAAACACACGCCTGTAC
1 ACGGCTAAAACACACACCTGTAC
* *
52245480 ACGGCTGAGACACACACCTGT
1 ACGGCTAAAACACACACCTGT
52245501 GTGGACGAAA
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:0.32, C:0.34, G:0.20, T:0.14
Consensus pattern (23 bp):
ACGGCTAAAACACACACCTGTAC
Found at i:52246564 original size:24 final size:24
Alignment explanation
Indices: 52246518--52246603 Score: 66
Period size: 24 Copynumber: 3.6 Consensus size: 24
52246508 TCCGAGCTGT
* *
52246518 ATAACGGGAAGCTCATAATAGCC-
1 ATAATGGGAAGCTCATAAGAGCCA
**
52246541 ATAATTGGGAAGCTCATGCGAGCCA
1 ATAA-TGGGAAGCTCATAAGAGCCA
* ** *
52246566 ATAATGGGTAGCTCCGAAGAGCTA
1 ATAATGGGAAGCTCATAAGAGCCA
* *
52246590 TTAACGGGAAGCTC
1 ATAATGGGAAGCTC
52246604 TGTATAGCCA
Statistics
Matches: 48, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
23 4 0.08
24 40 0.83
25 4 0.08
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.20
Consensus pattern (24 bp):
ATAATGGGAAGCTCATAAGAGCCA
Found at i:52246691 original size:26 final size:26
Alignment explanation
Indices: 52246662--52246712 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
52246652 CGTAGAGTCA
52246662 TTAATCAAGAAGCTCACAAAGAGCCT
1 TTAATCAAGAAGCTCACAAAGAGCCT
* *
52246688 TTAATCGAGAAGCTCACGAAGAGCC
1 TTAATCAAGAAGCTCACAAAGAGCC
52246713 ATATAATGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.18
Consensus pattern (26 bp):
TTAATCAAGAAGCTCACAAAGAGCCT
Found at i:52246729 original size:26 final size:26
Alignment explanation
Indices: 52246663--52246719 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
52246653 GTAGAGTCAT
* *
52246663 TAATCAAGAAGCTCACAAAGAGCCTT
1 TAATCGAGAAGCTCACAAAGAGCCTA
*
52246689 TAATCGAGAAGCTCACGAAGAGCCATA
1 TAATCGAGAAGCTCACAAAGAGCC-TA
52246716 TAAT
1 TAAT
52246720 GGGACGCTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (26 bp):
TAATCGAGAAGCTCACAAAGAGCCTA
Found at i:52248877 original size:16 final size:16
Alignment explanation
Indices: 52248853--52248884 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
52248843 AAAAATTATT
*
52248853 ATTTGTCCTACAAATA
1 ATTTCTCCTACAAATA
52248869 ATTTCTCCTACAAATA
1 ATTTCTCCTACAAATA
52248885 TATTACTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTTCTCCTACAAATA
Found at i:52255574 original size:23 final size:21
Alignment explanation
Indices: 52255527--52255575 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
52255517 TCATGGTAAT
* *
52255527 ATTTATATTTTTTTTAATTTG
1 ATTTTTATTTTTTTTAATTTA
*
52255548 ATTTTTATTATTTTTTGAGTTTA
1 ATTTTTATT-TTTTTT-AATTTA
52255571 ATTTT
1 ATTTT
52255576 GCCTTCAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 8 0.35
22 6 0.26
23 9 0.39
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.71
Consensus pattern (21 bp):
ATTTTTATTTTTTTTAATTTA
Found at i:52280706 original size:30 final size:31
Alignment explanation
Indices: 52280670--52280750 Score: 121
Period size: 30 Copynumber: 2.7 Consensus size: 31
52280660 AATATCTCGG
52280670 TACCCATATCTTTGACTTTCCGA-TATTTGA
1 TACCCATATCTTTGACTTTCCGATTATTTGA
* *
52280700 TACCCATGTCTTTGACTTT-CTATTATTTGA
1 TACCCATATCTTTGACTTTCCGATTATTTGA
*
52280730 TACCCATATCTTTGATTTTCC
1 TACCCATATCTTTGACTTTCC
52280751 ATAAATATGG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 2 0.04
30 42 0.93
31 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.09, T:0.47
Consensus pattern (31 bp):
TACCCATATCTTTGACTTTCCGATTATTTGA
Found at i:52285361 original size:31 final size:30
Alignment explanation
Indices: 52285326--52285411 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
52285316 TTTATTATGT
*
52285326 CAATATCTCGGTACCCATATATTTGACTTTC
1 CAATAT-TCGATACCCATATATTTGACTTTC
* * *
52285357 CAATATTTGATACTCATATCTTTGACTTTC
1 CAATATTCGATACCCATATATTTGACTTTC
* * * *
52285387 TATTATTTGATACCCATATCTTTGA
1 CAATATTCGATACCCATATATTTGA
52285412 TTTTTCATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 42 0.88
31 6 0.12
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (30 bp):
CAATATTCGATACCCATATATTTGACTTTC
Found at i:52285381 original size:30 final size:30
Alignment explanation
Indices: 52285337--52285411 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
52285327 AATATCTCGG
*
52285337 TACCCATATATTTGACTTTCCAATATTTGA
1 TACCCATATCTTTGACTTTCCAATATTTGA
* * *
52285367 TACTCATATCTTTGACTTTCTATTATTTGA
1 TACCCATATCTTTGACTTTCCAATATTTGA
52285397 TACCCATATCTTTGA
1 TACCCATATCTTTGA
52285412 TTTTTCATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (30 bp):
TACCCATATCTTTGACTTTCCAATATTTGA
Found at i:52287739 original size:6 final size:6
Alignment explanation
Indices: 52287730--52287768 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
52287720 TAATTCATGA
52287730 GGGCTG GGGCTG GGGCTG GGGCTG GGGCTG GGGCTG GGG
1 GGGCTG GGGCTG GGGCTG GGGCTG GGGCTG GGGCTG GGG
52287769 GCTCATTACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.15, G:0.69, T:0.15
Consensus pattern (6 bp):
GGGCTG
Found at i:52293619 original size:41 final size:40
Alignment explanation
Indices: 52293572--52293681 Score: 109
Period size: 37 Copynumber: 2.8 Consensus size: 40
52293562 CGACTTCGAG
* *
52293572 TCGATGAGACACTAGGTGTCAATTTATTACTTTGGATGTAT
1 TCGATGAGACACTGGGTGTCAATTTATTACTTTGG-TGTAA
* * * *
52293613 TCGATGAGGCACTGGGTGCCAA---CTTACTTTGGTTTAA
1 TCGATGAGACACTGGGTGTCAATTTATTACTTTGGTGTAA
* * *
52293650 CCAATGAGACACTGGGTGTCAATTTACTACTT
1 TCGATGAGACACTGGGTGTCAATTTATTACTT
52293682 CGAATTATCC
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
37 21 0.39
38 9 0.17
40 5 0.09
41 19 0.35
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCAATTTATTACTTTGGTGTAA
Found at i:52295109 original size:30 final size:29
Alignment explanation
Indices: 52295053--52295109 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
52295043 TATTTTCATT
*
52295053 CACACGGTCAGAGACACGGGCGTGTGTGA
1 CACACGGTCAGAGACACGGCCGTGTGTGA
* *
52295082 CACACGGTCAAGTGAGACGGCCGTGTGT
1 CACACGGTC-AGAGACACGGCCGTGTGT
52295110 CCCTTATGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.23, C:0.25, G:0.37, T:0.16
Consensus pattern (29 bp):
CACACGGTCAGAGACACGGCCGTGTGTGA
Found at i:52297810 original size:21 final size:21
Alignment explanation
Indices: 52297781--52297894 Score: 63
Period size: 21 Copynumber: 5.5 Consensus size: 21
52297771 AGTTAACTCA
*
52297781 TATGAGTTTCAGTTTAACCCT
1 TATGGGTTTCAGTTTAACCCT
* * * * *
52297802 TCTGGGTTTTAGTTCAGCTCT
1 TATGGGTTTCAGTTTAACCCT
* *
52297823 TTTGAGCTTT-AGTTTAACCCT
1 TATG-GGTTTCAGTTTAACCCT
* * * *
52297844 TATGGGTTTCCGTTCAGCTCT
1 TATGGGTTTCAGTTTAACCCT
* *
52297865 TATAAGCTTTC-GTTTAACCCT
1 TAT-GGGTTTCAGTTTAACCCT
52297886 TA-GGGTTTC
1 TATGGGTTTC
52297895 CGTCTAGCAC
Statistics
Matches: 66, Mismatches: 24, Indels: 8
0.67 0.24 0.08
Matches are distributed among these distances:
19 5 0.08
20 4 0.06
21 48 0.73
22 9 0.14
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (21 bp):
TATGGGTTTCAGTTTAACCCT
Found at i:52297850 original size:42 final size:42
Alignment explanation
Indices: 52297781--52297894 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
52297771 AGTTAACTCA
* *
52297781 TATGAG-TTTCAGTTTAACCCTTCTGGGTTTTAGTTCAGCTCT
1 TATGAGCTTT-AGTTTAACCCTTATGGGTTTCAGTTCAGCTCT
* *
52297823 TTTGAGCTTTAGTTTAACCCTTATGGGTTTCCGTTCAGCTCT
1 TATGAGCTTTAGTTTAACCCTTATGGGTTTCAGTTCAGCTCT
* *
52297865 TATAAGCTTTCGTTTAACCCTTA-GGGTTTC
1 TATGAGCTTTAGTTTAACCCTTATGGGTTTC
52297895 CGTCTAGCAC
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 7 0.11
42 54 0.84
43 3 0.05
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (42 bp):
TATGAGCTTTAGTTTAACCCTTATGGGTTTCAGTTCAGCTCT
Found at i:52297908 original size:41 final size:42
Alignment explanation
Indices: 52297791--52297908 Score: 141
Period size: 42 Copynumber: 2.8 Consensus size: 42
52297781 TATGAGTTTC
* ** * * *
52297791 AGTTTAACCCTTCTGGGTTTTAGTTCAGCTCTTTTGAGCTTT
1 AGTTTAACCCTTATGGGTTTCCGTTCAGCACTTATAAGCTTT
*
52297833 AGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATAAGCTTT
1 AGTTTAACCCTTATGGGTTTCCGTTCAGCACTTATAAGCTTT
*
52297875 CGTTTAACCCTTA-GGGTTTCCG-TCTAGCACTTAT
1 AGTTTAACCCTTATGGGTTTCCGTTC-AGCACTTAT
52297909 GTGCTTCTGT
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
40 2 0.03
41 17 0.25
42 49 0.72
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (42 bp):
AGTTTAACCCTTATGGGTTTCCGTTCAGCACTTATAAGCTTT
Found at i:52302724 original size:16 final size:16
Alignment explanation
Indices: 52302703--52302734 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52302693 CGAAATTCAC
52302703 TTAACAAAATAGTCCT
1 TTAACAAAATAGTCCT
52302719 TTAACAAAATAGTCCT
1 TTAACAAAATAGTCCT
52302735 AAAATATTTC
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:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (16 bp):
TTAACAAAATAGTCCT
Found at i:52305397 original size:17 final size:17
Alignment explanation
Indices: 52305364--52305397 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
52305354 TTATTATTAA
* *
52305364 ATATATTTTAATTAAAT
1 ATATAATTTAATAAAAT
52305381 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
52305398 TCTTAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Done.