Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 140 of 145
Found at i:46454161 original size:6 final size:7
Alignment explanation
Indices: 46454146--46454170 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46454136 AATTACTTTC
46454146 TTTTATT
1 TTTTATT
46454153 TTTTATT
1 TTTTATT
46454160 TTTTATT
1 TTTTATT
46454167 TTTT
1 TTTT
46454171 GCTTATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:46458173 original size:7 final size:8
Alignment explanation
Indices: 46458152--46458186 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
46458142 ACCAAATATT
46458152 TTAAAAAA
1 TTAAAAAA
46458160 TTAAAAAA
1 TTAAAAAA
46458168 TTAAAAAA
1 TTAAAAAA
46458176 TT-AAAAA
1 TTAAAAAA
46458183 TTAA
1 TTAA
46458187 TATTTTAGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
TTAAAAAA
Found at i:46460808 original size:14 final size:14
Alignment explanation
Indices: 46460791--46460818 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46460781 CCAAGTACTG
46460791 AAAACAAGATATAT
1 AAAACAAGATATAT
46460805 AAAACAAGATATAT
1 AAAACAAGATATAT
46460819 GATGCATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (14 bp):
AAAACAAGATATAT
Found at i:46461585 original size:30 final size:30
Alignment explanation
Indices: 46461549--46461610 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
46461539 TCCTTAGATG
* *
46461549 ATTTTCATGTGCATTTCACATGAGCCATTA
1 ATTTTCATGTGCACTTCACATGAGCCACTA
*
46461579 ATTTTCATGTGCACTTCATATGAGCCACTA
1 ATTTTCATGTGCACTTCACATGAGCCACTA
46461609 AT
1 AT
46461611 AAACTCTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (30 bp):
ATTTTCATGTGCACTTCACATGAGCCACTA
Found at i:46463281 original size:30 final size:30
Alignment explanation
Indices: 46463245--46463306 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
46463235 ATAAGAGTTT
*
46463245 ATTAGTGGCTCACGTGAAGTACACATGAAA
1 ATTAGTGGCTCACGTGAAATACACATGAAA
* *
46463275 ATTAGTGGCTCATGTGAAATGCACATGAAA
1 ATTAGTGGCTCACGTGAAATACACATGAAA
46463305 AT
1 AT
46463307 CTTCTAAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (30 bp):
ATTAGTGGCTCACGTGAAATACACATGAAA
Found at i:46474825 original size:296 final size:293
Alignment explanation
Indices: 46474168--46475340 Score: 1039
Period size: 296 Copynumber: 3.9 Consensus size: 293
46474158 ACTCAATTAA
* * * * * * * *
46474168 TATATAGAAGTAATGGAGATAATAACTTGTGCATATTAAAATGAAAATTTATAAATTAGAATAAA
1 TATATACAACTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATATATTAAA
* * * * * *
46474233 ATGAAGCTTTGGTTGAATGGTAAAATT-AAGATTTTGCTAACTTAATTAGTGTGGGTTCAAA-CC
66 ATAAAGCTTTGGTTGAATGATAAATTTAAAG-TTTTACTAATTTAATTGGTGTGGGTTCAAATCC
* * * *
46474296 CTACTGTATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGATTAAAATAACTATTGTTAAAT
130 C-ACTATATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGACTAAAAT-AC----CTCAAAT
* * * * *
46474361 AGTATAACTTATTTTAATTACAAAAGGGTATTTTTGTAATTTTCTAACCGAGTTGGTGGCCCAAA
189 AGTATAACTTATTTTAATTA-AGAAGGGCATTTTTGTAATTTCCTAACTGAGTTGGT-GACC-AA
* * * * *
46474426 TGGGGGTGACATCAACTTAGTGAAACAATTAAT-AATTGTAAGG
251 TGAGGGTGACACCAACTTAGTAAAACACTTAATAAATAGTAA-G
* * * * *
46474469 ATAGATATACAACTACTGGAGATAATAACTTATGTATATTAAAATAAAAATGAATAAAATATATT
1 -T--ATATACAACTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATATATT
*
46474534 AAAATAAAGAC-TTGGTT-AAGTGATAAATTTAATA-TTTTACTAATTTAATTGGGGTGGGTTCA
63 AAAATAAAG-CTTTGGTTGAA-TGATAAATTTAA-AGTTTTACTAATTTAATTGGTGTGGGTTCA
* * *
46474596 AATCCCACTATATTCTTATTTTAATTTGTTTTTGTTAAAATGAAAAGACTAAAATGACCTCAAAT
125 AATCCCACTATATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGACTAAAAT-ACCTCAAAT
* * * *
46474661 AGTATAAATTATTTTAATTATGAAGGGCATTTTTGTAATTTCCTAACTGATTTGGTGACTCGATC
189 AGTATAACTTATTTTAATTAAGAAGGGCATTTTTGTAATTTCCTAACTGAGTTGGTGAC-CAAT-
* *
46474726 GAGGGTGACACCAACATAGTCAAACACTTAATAAATAGTAAG
252 GAGGGTGACACCAACTTAGTAAAACACTTAATAAATAGTAAG
* * *
46474768 TATATACAATTAGTAGAGATAA-AAATGTGTGCATATTAAAATAAAAATGTATAAAATATATTAA
1 TATATACAACTAATAGAGATAATAACT-TGTGCATATTAAAATAAAAATGTATAAAATATATTAA
** * * * ** *
46474832 AATAAAATTTTGGTTGAGTAATAAATTTAAAGTTTT-TTAGATCCAATTGGTGTGGGTTCAAATA
65 AATAAAGCTTTGGTTGAATGATAAATTTAAAGTTTTACTA-ATTTAATTGGTGTGGGTTCAAATC
* * *
46474896 TCA-TCATATGCATATTTTAATTTATTTTTGTTAAAATAAAAAGACTAAAATACCCTCAAACAGT
129 CCACT-ATATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGACTAAAATA-CCTCAAATAGT
* *** * *
46474960 ATAACTTATTTTAATTACGAAATAACATTTTTATAATTTCCTAA-TCGAGTTGGTGACCTAGTTG
192 ATAACTTATTTTAATTAAG-AAGGGCATTTTTGTAATTTCCTAACT-GAGTTGGTGACC-A-ATG
* *
46475024 AGGATGACACCAACTTAGTAAAATACTTAATAAATAGTATA-
253 AGGGTGACACCAACTTAGTAAAACACTTAATAAATAGTA-AG
* * ** *
46475065 TTTATACAACTAATTGAGATAATAACTTGTGCATATT-AAA-AAACGTGATTATCAAATATATTA
1 TATATACAACTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATG--TATAAAATATATTA
** * * ** **
46475128 AAACGAAGCTTTGGTTGAATGGTAAATTTAAAGTTTTATTAATTTAATTGGCATGTATTCAAATC
64 AAATAAAGCTTTGGTTGAATGATAAATTTAAAGTTTTACTAATTTAATTGGTGTGGGTTCAAATC
** * * ** *
46475193 TTA-TCATATG--TATTTTAGTTGGTTTTTGTTAAAATAAAAA-TTTAAAATACCCTCAAATGGT
129 CCACT-ATATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGACTAAAATA-CCTCAAATAGT
* **** * **
46475254 ACAACTTATTTTAATTACAGAAAAATATTCTCATAATTTCCTAACTGAGTTGGTGACCCAATTGA
192 ATAACTTATTTTAATTA-AGAAGGGCATTTTTGTAATTTCCTAACTGAGTTGGTGA-CCAA-TGA
* * *
46475319 AGGTGACACAAACTCAGTAAAA
254 GGGTGACACCAACTTAGTAAAA
46475341 TTCAAAAAGA
Statistics
Matches: 724, Mismatches: 117, Indels: 68
0.80 0.13 0.07
Matches are distributed among these distances:
294 85 0.12
295 44 0.06
296 175 0.24
297 164 0.23
298 13 0.02
299 59 0.08
300 31 0.04
302 1 0.00
303 2 0.00
304 144 0.20
305 5 0.01
306 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (293 bp):
TATATACAACTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATATATTAAA
ATAAAGCTTTGGTTGAATGATAAATTTAAAGTTTTACTAATTTAATTGGTGTGGGTTCAAATCCC
ACTATATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGACTAAAATACCTCAAATAGTATAA
CTTATTTTAATTAAGAAGGGCATTTTTGTAATTTCCTAACTGAGTTGGTGACCAATGAGGGTGAC
ACCAACTTAGTAAAACACTTAATAAATAGTAAG
Found at i:46491377 original size:48 final size:47
Alignment explanation
Indices: 46491303--46491456 Score: 128
Period size: 44 Copynumber: 3.4 Consensus size: 47
46491293 ATCCTATACT
46491303 CCTGAAGTTGCAGTGG-G-ATGGATTGAAGATCATAGCAAACTTTATCTC
1 CCTGAAGTTGCAGTGGAGCA-GG-TTGAAGAT-ATAGCAAACTTTATCTC
*
46491351 CCTGAAGTTGCAGTGGAGCAGGTTGAAG-T-TA-C-AAGTCTTATCTC
1 CCTGAAGTTGCAGTGGAGCAGGTTGAAGATATAGCAAACT-TTATCTC
* * *** * *
46491395 CCTAAAGCTGCAGTGGAGCAAACTGAAGATA-ATG-AATC-TTATTTC
1 CCTGAAGTTGCAGTGGAGCAGGTTGAAGATATA-GCAAACTTTATCTC
46491440 CCTGAAGTTGCAGTGGA
1 CCTGAAGTTGCAGTGGA
46491457 ACAGATTAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 19
0.74 0.09 0.16
Matches are distributed among these distances:
43 3 0.03
44 31 0.36
45 25 0.29
47 2 0.02
48 22 0.25
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (47 bp):
CCTGAAGTTGCAGTGGAGCAGGTTGAAGATATAGCAAACTTTATCTC
Found at i:46491452 original size:45 final size:44
Alignment explanation
Indices: 46491344--46491456 Score: 129
Period size: 44 Copynumber: 2.5 Consensus size: 44
46491334 ATAGCAAACT
*** * *
46491344 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATACAAATC
* *
46491388 TTATCTCCCTAAAGCTGCAGTGGAGCAAACTGAAGATA-ATGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATACA--AATC
*
46491433 TTATTTCCCTGAAGTTGCAGTGGA
1 TTATCTCCCTGAAGTTGCAGTGGA
46491457 ACAGATTAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
43 1 0.02
44 32 0.56
45 24 0.42
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATACAAATC
Found at i:46491640 original size:180 final size:181
Alignment explanation
Indices: 46491329--46491723 Score: 558
Period size: 180 Copynumber: 2.2 Consensus size: 181
46491319 GATGGATTGA
* * * *
46491329 AGATCATAGCAAACTTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCT
1 AGATCATAGCAAACTTTATCTCCCTGAAGTTGTAGCGAAGCAGGTTGAAGTTACAAGTCTTAACT
* * **
46491394 CCCTAAAGCTGCAGTGGAGCAAACTGAAGATAATGAATCTTATTTCCCTGAAGTTGCAGTGGAAC
66 CCCTAAAGCTGCAGTAGAGCAAACTGAAGATAACGAATCTTATTTCCCAAAAGTTGCAGTGGAAC
* * * *
46491459 AGATTAAAGTTATAAATTACAGATTTTATCTCTCTAAAGTTACAGTAGGGC
131 AGATTAAAGCTATAAATTAAAGATCTTATCTCTCTAAAGTTACAGTAGAGC
* *
46491510 AG-TCATATCAAACTTTATCTCCCTGAAGTTGTAGCGAAGCAGGTTGAAGTTATAAGTCTTAACT
1 AGATCATAGCAAACTTTATCTCCCTGAAGTTGTAGCGAAGCAGGTTGAAGTTACAAGTCTTAACT
* * * * *
46491574 CCCTGAAGTTGTAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCAAAAGTTGCAGTGGAAC
66 CCCTAAAGCTGCAGTAGAGCAAACTGAAGATAACGAATCTTATTTCCCAAAAGTTGCAGTGGAAC
* * **
46491639 AGATTAAAGCTATAAATTAAATATCTTATCTTTCTAAAGTTGTAGTAGAGC
131 AGATTAAAGCTATAAATTAAAGATCTTATCTCTCTAAAGTTACAGTAGAGC
* *
46491690 AGATCATAGCAAACCTTATCTCCCTTAAGTTGTA
1 AGATCATAGCAAACTTTATCTCCCTGAAGTTGTA
46491724 CTGGAATAGT
Statistics
Matches: 187, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
180 157 0.84
181 30 0.16
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (181 bp):
AGATCATAGCAAACTTTATCTCCCTGAAGTTGTAGCGAAGCAGGTTGAAGTTACAAGTCTTAACT
CCCTAAAGCTGCAGTAGAGCAAACTGAAGATAACGAATCTTATTTCCCAAAAGTTGCAGTGGAAC
AGATTAAAGCTATAAATTAAAGATCTTATCTCTCTAAAGTTACAGTAGAGC
Found at i:46493620 original size:25 final size:25
Alignment explanation
Indices: 46493592--46493678 Score: 67
Period size: 25 Copynumber: 3.5 Consensus size: 25
46493582 CCTCTTTGCA
*
46493592 AAATTCTTATTTATTTATTTATTTT
1 AAATTCTTATTTATTTACTTATTTT
46493617 AAA-TCTT-TTCATATATTACTTATTTT
1 AAATTCTTATT--TAT-TTACTTATTTT
*
46493643 AAACTGTTTTA-TTA-TTACTTATTTT
1 AAA-T-TCTTATTTATTTACTTATTTT
*
46493668 AAGTT-TTATTT
1 AAATTCTTATTT
46493679 TCATGTATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
22 3 0.06
23 5 0.10
24 5 0.10
25 19 0.37
26 13 0.25
27 2 0.04
29 4 0.08
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (25 bp):
AAATTCTTATTTATTTACTTATTTT
Found at i:46493639 original size:26 final size:25
Alignment explanation
Indices: 46493606--46493977 Score: 191
Period size: 26 Copynumber: 14.8 Consensus size: 25
46493596 TCTTATTTAT
46493606 TTATTTATTTTAAATCTTTTCATATA
1 TTATTTATTTTAAATCTTTT-ATATA
* *
46493632 TTACTTATTTTAAACTGTTTTAT-TA
1 TTATTTATTTTAAA-TCTTTTATATA
* * * *
46493657 TTACTTATTTTAAGTTTTATTTTCATGTA
1 TTATTTATTTTAA---ATCTTTT-ATATA
*
46493686 TTA-TTATTTTAAA-C--TTATACA
1 TTATTTATTTTAAATCTTTTATATA
* *
46493707 TTATTCATTTTAAATTGTTTTATATA
1 TTATTTATTTTAAA-TCTTTTATATA
* * *
46493733 GTATTCATTTCAAA-CTGTTT-TAT-
1 TTATTTATTTTAAATCT-TTTATATA
*
46493756 TGTATACTATTTTAAA-CTATTATATATA
1 T-TAT-TTATTTTAAATCT-TT-TATATA
* *
46493784 TTATTTATTTTAAACTGTTTTATATT
1 TTATTTATTTTAAA-TCTTTTATATA
* *
46493810 TTATTTATCTTAAAT-TTTTTTCATA
1 TTATTTATTTTAAATCTTTTAT-ATA
** * * * *
46493835 TGGTTTATTTTGAACCAATTTGTATA
1 TTATTTATTTTAAATC-TTTTATATA
*
46493861 TTATTTATTTTAAATTTTTTCATATA
1 TTATTTATTTTAAATCTTTT-ATATA
*
46493887 TTA-TT-TTTTAAA-ATTTT-TATA
1 TTATTTATTTTAAATCTTTTATATA
* *
46493908 TTATTTACTTTAAAT-TGTTTCATTTA
1 TTATTTATTTTAAATCT-TTT-ATATA
* *
46493934 TCATTTATTTTAAACCTTTT-TATA
1 TTATTTATTTTAAATCTTTTATATA
* *
46493958 TTATTTACTTTAAATTTTTT
1 TTATTTATTTTAAATCTTTT
46493978 TTACATATTA
Statistics
Matches: 266, Mismatches: 50, Indels: 62
0.70 0.13 0.16
Matches are distributed among these distances:
21 13 0.05
22 13 0.05
23 11 0.04
24 41 0.15
25 47 0.18
26 100 0.38
27 23 0.09
28 13 0.05
29 5 0.02
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (25 bp):
TTATTTATTTTAAATCTTTTATATA
Found at i:46493666 original size:51 final size:48
Alignment explanation
Indices: 46493601--46493977 Score: 300
Period size: 51 Copynumber: 7.5 Consensus size: 48
46493591 AAAATTCTTA
*
46493601 TTTAT-TTATTTATTTTAAATCTTTTCATATATTACTTATTTTAAACTGT
1 TTTATATTATTTATTTTAAATTTTTTCATATATTA-TTATTTTAAACT-T
* * *
46493650 TTTATTATTACTTATTTTAAGTTTTATTTTCATGTATTATTATTTTAAAC-T
1 TTTA-TATTATTTATTTTAA--ATT-TTTTCATATATTATTATTTTAAACTT
* * * * *
46493701 TATACATTATTCATTTTAAATTGTTTT-ATATAGTATTCATTTCAAACTGT
1 TTTATATTATTTATTTTAAATT-TTTTCATATATTATT-ATTTTAAACT-T
* * *
46493751 TTTAT-TGTATACTATTTTAAACTATTAT-ATATATTATTTATTTTAAACTGT
1 TTTATAT-TAT-TTATTTTAAA-TTTTTTCATATATTA-TTATTTTAAACT-T
* ** *
46493802 TTTATATTTTATTTATCTTAAATTTTTTTCATATGGT-TTATTTTGAACCAATT
1 TTTATA--TTATTTATTTTAAA-TTTTTTCATATATTATTATTTT-AA--ACTT
* *
46493855 TGTATATTATTTATTTTAAATTTTTTCATATATTATT-TTTTAAAATT
1 TTTATATTATTTATTTTAAATTTTTTCATATATTATTATTTTAAACTT
* * * *
46493902 TTTATATTATTTACTTTAAATTGTTTCATTTATCATTTATTTTAAACCTT
1 TTTATATTATTTATTTTAAATTTTTTCATATATTA-TTATTTTAAA-CTT
*
46493952 TTTATATTATTTACTTTAAATTTTTT
1 TTTATATTATTTATTTTAAATTTTTT
46493978 TTACATATTA
Statistics
Matches: 265, Mismatches: 40, Indels: 45
0.76 0.11 0.13
Matches are distributed among these distances:
47 42 0.16
48 16 0.06
49 14 0.05
50 63 0.24
51 72 0.27
52 17 0.06
53 26 0.10
54 15 0.06
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.60
Consensus pattern (48 bp):
TTTATATTATTTATTTTAAATTTTTTCATATATTATTATTTTAAACTT
Found at i:46493844 original size:77 final size:72
Alignment explanation
Indices: 46493609--46493978 Score: 247
Period size: 77 Copynumber: 4.9 Consensus size: 72
46493599 TATTTATTTA
* * *
46493609 TTTATTTTAAATCTTTTCATATATTACTTATTTTAAACTGTTTTAT-TATTACTTATTTTAAGTT
1 TTTATTTTAAA-CTTTT-ATATATTATTTATTTTAAACTGTTTTATATATTATTTA-TTTAAATT
46493673 TTATTT-TCATG
63 TT-TTTAT-ATG
* * * * *
46493684 TATTATTATTTTAAAC--TTATACATTATTCATTTTAAATTGTTTTATATAGTATTCATTTCAAA
1 ---T-TTATTTTAAACTTTTATATATTATTTATTTTAAACTGTTTTATATATTATTTATTT-AAA
* *
46493747 CTGTTTTAT-TG
61 TTTTTTTATATG
*
46493758 TATACTATTTTAAACTATTATATATATTATTTATTTTAAACTGTTTTATATTTTATTTATCTTAA
1 T-T--TATTTTAAACT-TT-TATATATTATTTATTTTAAACTGTTTTATATATTATTTAT-TTAA
46493823 ATTTTTTTCATATGG
60 ATTTTTTT-ATAT-G
* * * * *
46493838 TTTATTTTGAACCAATTTGTATATTATTTATTTTAAA-TTTTTTCATATATTATTT-TTTAAA-A
1 TTTATTTT-AAAC-TTTTATATATTATTTATTTTAAACTGTTTT-ATATATTATTTATTTAAATT
*
46493900 TTTTTATATTA
63 TTTTTATA-TG
* * * * *
46493911 TTTACTTTAAATTGTTTCATTTATCATTTATTTTAAAC-CTTTT-TATATTATTTACTTTAAATT
1 TTTATTTTAAACT-TTT-ATATATTATTTATTTTAAACTGTTTTATATATTATTTA-TTTAAATT
46493974 TTTTT
63 TTTTT
46493979 TACATATTAT
Statistics
Matches: 234, Mismatches: 34, Indels: 52
0.73 0.11 0.16
Matches are distributed among these distances:
71 13 0.06
72 5 0.02
73 46 0.20
74 13 0.06
75 35 0.15
76 20 0.09
77 77 0.33
78 11 0.05
79 12 0.05
80 2 0.01
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (72 bp):
TTTATTTTAAACTTTTATATATTATTTATTTTAAACTGTTTTATATATTATTTATTTAAATTTTT
TTATATG
Found at i:46493894 original size:23 final size:23
Alignment explanation
Indices: 46493868--46493939 Score: 58
Period size: 24 Copynumber: 3.1 Consensus size: 23
46493858 ATATTATTTA
46493868 TTTTAAATTTTTTCATATATTATT
1 TTTTAAATTTTTTCATATATTA-T
*
46493892 TTTTAAAATTTTT-ATATTATT-T
1 TTTTAAATTTTTTCATA-TATTAT
* * * *
46493914 ACTTTAAATTGTTTCATTTATCAT
1 -TTTTAAATTTTTTCATATATTAT
46493938 TT
1 TT
46493940 ATTTTAAACC
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
22 1 0.03
23 17 0.46
24 19 0.51
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (23 bp):
TTTTAAATTTTTTCATATATTAT
Found at i:46495387 original size:2 final size:2
Alignment explanation
Indices: 46495382--46495411 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
46495372 ATATATATAT
*
46495382 AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
46495412 GTTGTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:46498986 original size:98 final size:98
Alignment explanation
Indices: 46498817--46499013 Score: 376
Period size: 98 Copynumber: 2.0 Consensus size: 98
46498807 TTAGATATAT
*
46498817 TCTAACCGATGCAATGATGATTAGTTGATCGGCCCCTTAAGATCCACCAATGATGGACACAATGA
1 TCTAACCGATGCAATGATGATTAGTCGATCGGCCCCTTAAGATCCACCAATGATGGACACAATGA
46498882 GACTAGGTGTAATGGCAATGCACCTAGTCATTA
66 GACTAGGTGTAATGGCAATGCACCTAGTCATTA
*
46498915 TCTAACTGATGCAATGATGATTAGTCGATCGGCCCCTTAAGATCCACCAATGATGGACACAATGA
1 TCTAACCGATGCAATGATGATTAGTCGATCGGCCCCTTAAGATCCACCAATGATGGACACAATGA
46498980 GACTAGGTGTAATGGCAATGCACCTAGTCATTA
66 GACTAGGTGTAATGGCAATGCACCTAGTCATTA
46499013 T
1 T
46499014 ATTCCTCACC
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (98 bp):
TCTAACCGATGCAATGATGATTAGTCGATCGGCCCCTTAAGATCCACCAATGATGGACACAATGA
GACTAGGTGTAATGGCAATGCACCTAGTCATTA
Found at i:46516864 original size:2 final size:2
Alignment explanation
Indices: 46516857--46516885 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
46516847 AATAAACAGC
46516857 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
46516886 CATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:46518233 original size:12 final size:12
Alignment explanation
Indices: 46518218--46518251 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
46518208 TAATGAGAAT
46518218 ATAAATAAGGAA
1 ATAAATAAGGAA
*
46518230 ATAAATAAAGAA
1 ATAAATAAGGAA
*
46518242 ATGAATAAGG
1 ATAAATAAGG
46518252 CTATAAAANN
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.18
Consensus pattern (12 bp):
ATAAATAAGGAA
Found at i:46523557 original size:45 final size:43
Alignment explanation
Indices: 46523493--46523794 Score: 326
Period size: 45 Copynumber: 7.0 Consensus size: 43
46523483 TTAGAACGAA
*
46523493 TATCCATT-AATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGGG
1 TATCC-TTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACC--G
* * *
46523538 TATCCATGAATATAAAGGTGGTTGCTAAATGTTGATTCCACTGG
1 TATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCAC-CG
* *
46523582 ATATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCGACCG
1 -TATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCG
* * * * * *
46523626 TATCTTTGATTATAAAAGG-GGCTGCTATGTGCTGATTCC-CCA
1 TATCCTTGAATAT-AAAGGTGGTTGCTAAGTGTTGATTCCACCG
46523668 TATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCG
1 TATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCG
* * * * *
46523711 TATCTTTGATTATGAAAGG-GGTTGCTATGTGCTAATTCC-CCG
1 TATCCTTGAATAT-AAAGGTGGTTGCTAAGTGTTGATTCCACCG
* * *
46523753 TATCCTTGATTATAAAGGTGTTTGCTATGTGTTGATTCCACC
1 TATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACC
46523795 AGATATCATT
Statistics
Matches: 218, Mismatches: 30, Indels: 20
0.81 0.11 0.07
Matches are distributed among these distances:
41 10 0.05
42 62 0.28
43 58 0.27
44 13 0.06
45 75 0.34
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (43 bp):
TATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCG
Found at i:46523662 original size:43 final size:42
Alignment explanation
Indices: 46523503--46523839 Score: 284
Period size: 45 Copynumber: 7.8 Consensus size: 42
46523493 TATCCATTAA
* * *
46523503 TATAAAGGTGGTTGCTAAGTGCTGATTCCACCGGGTATCCATGAA
1 TATAAAGGTGGTTGCTATGTGCTGATT-CACC--GTATCCTTGAT
** * * * *
46523548 TATAAAGGTGGTTGCTAAATGTTGATTCCACTGGATATCCATGAA
1 TATAAAGGTGGTTGCTATGTGCTGATT-CAC-CG-TATCCTTGAT
* * *
46523593 TATAAAGGTGGTTGCTAAGTGTTGATTCGACCGTATCTTTGAT
1 TATAAAGGTGGTTGCTATGTGCTGATTC-ACCGTATCCTTGAT
* * * *
46523636 TATAAAAGG-GGCTGCTATGTGCTGATTCCCCATATCCTTGAA
1 TAT-AAAGGTGGTTGCTATGTGCTGATTCACCGTATCCTTGAT
* * *
46523678 TATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGAT
1 TATAAAGGTGGTTGCTATGTGCTGATT-CACCGTATCCTTGAT
* *
46523721 TATGAAAGG-GGTTGCTATGTGCTAATTCCCCGTATCCTTGAT
1 TAT-AAAGGTGGTTGCTATGTGCTGATTCACCGTATCCTTGAT
* * * *
46523763 TATAAAGGTGTTTGCTATGTGTTGATTCCACCAGATATCATTGTT
1 TATAAAGGTGGTTGCTATGTGCTGATT-CACC-G-TATCCTTGAT
* * *
46523808 TATAAGGGTGG-TGCTATGTGCTCATCCACCGT
1 TATAAAGGTGGTTGCTATGTGCTGATTCACCGT
46523840 GTATCTGTTA
Statistics
Matches: 243, Mismatches: 38, Indels: 26
0.79 0.12 0.08
Matches are distributed among these distances:
41 11 0.05
42 60 0.25
43 62 0.26
44 26 0.11
45 84 0.35
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (42 bp):
TATAAAGGTGGTTGCTATGTGCTGATTCACCGTATCCTTGAT
Found at i:46523696 original size:85 final size:86
Alignment explanation
Indices: 46523492--46523829 Score: 373
Period size: 85 Copynumber: 3.9 Consensus size: 86
46523482 ATTAGAACGA
* ** *
46523492 ATATCCATT-AATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGGGTATCCATGAATAT-AAAG
1 ATATCC-TTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACC-GGTATCTTTGATTATAAAAG
** * *
46523555 GTGGTTGCTAAATGTTGATTCCACTGG
64 G-GGTTGCTATGTGCTGATTCC-C--C
* *
46523582 ATATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCGACC-GTATCTTTGATTATAAAAGGG
1 ATATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCGGTATCTTTGATTATAAAAGGG
*
46523646 GCTGCTATGTGCTGATTCCCC
66 GTTGCTATGTGCTGATTCCCC
*
46523667 ATATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACC-GTATCTTTGATTATGAAAGGG
1 ATATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCGGTATCTTTGATTATAAAAGGG
*
46523731 GTTGCTATGTGCTAATTCCCC
66 GTTGCTATGTGCTGATTCCCC
* * * * * * *
46523752 GTATCCTTGATTATAAAGGTGTTTGCTATGTGTTGATTCCACCAGATATCATTG-TT-TATAAGG
1 ATATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACC-GGTATCTTTGATTATAAAAGG
*
46523815 GTGGTGCTATGTGCT
65 G-GTTGCTATGTGCT
46523830 CATCCACCGT
Statistics
Matches: 218, Mismatches: 25, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
85 125 0.57
86 14 0.06
87 8 0.04
88 27 0.12
89 6 0.03
90 38 0.17
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.36
Consensus pattern (86 bp):
ATATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCGGTATCTTTGATTATAAAAGGG
GTTGCTATGTGCTGATTCCCC
Found at i:46523801 original size:130 final size:132
Alignment explanation
Indices: 46523503--46523823 Score: 370
Period size: 130 Copynumber: 2.5 Consensus size: 132
46523493 TATCCATTAA
* * *
46523503 TATAAAGGTGGTTGCTAAGTGCTGATTCCACCGGGTATCCATGAATATAAAGGTGGTTGCTAAAT
1 TATAAAGGTGGTTGCTATGTGCTGATTCCACC-GATATCCTTGAATATAAAGGTGGTTGCTAAAT
* * * *
46523568 GTTGATTCCACTGGATATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCGACCGTATCTTT
65 GTTGATTCCACTCGATATCCATGAATATAAAGGTGGTTGCTAAGTGCTAATTCGACCGTATCCTT
46523633 GAT
130 GAT
* *
46523636 TATAAAAGG-GGCTGCTATGTGCTGATTCC-CC-ATATCCTTGAATATAAAGGTGGTTGCTAAGT
1 TAT-AAAGGTGGTTGCTATGTGCTGATTCCACCGATATCCTTGAATATAAAGGTGGTTGCTAAAT
** * * *
46523698 GTTGATTCCAC-CG-TATCTTTGATTATGAAAGG-GGTTGCTATGTGCTAATTC-CCCGTATCCT
65 GTTGATTCCACTCGATATCCATGAATAT-AAAGGTGGTTGCTAAGTGCTAATTCGACCGTATCCT
46523759 TGAT
129 TGAT
* * * ** *
46523763 TATAAAGGTGTTTGCTATGTGTTGATTCCACCAGATATCATTGTTTATAAGGGTGG-TGCTA
1 TATAAAGGTGGTTGCTATGTGCTGATTCCACC-GATATCCTTGAATATAAAGGTGGTTGCTA
46523824 TGTGCTCATC
Statistics
Matches: 161, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
126 5 0.03
127 32 0.20
128 28 0.17
129 11 0.07
130 57 0.35
132 2 0.01
133 21 0.13
134 5 0.03
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (132 bp):
TATAAAGGTGGTTGCTATGTGCTGATTCCACCGATATCCTTGAATATAAAGGTGGTTGCTAAATG
TTGATTCCACTCGATATCCATGAATATAAAGGTGGTTGCTAAGTGCTAATTCGACCGTATCCTTG
AT
Found at i:46526653 original size:36 final size:36
Alignment explanation
Indices: 46526613--46526684 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
46526603 ACCCTCACTT
*
46526613 TTAATCGGTCCCTAAACTTCAAACTATTCTATTTAC
1 TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
46526649 TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
1 TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
46526685 ATCTTTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (36 bp):
TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
Found at i:46526963 original size:86 final size:87
Alignment explanation
Indices: 46526856--46527034 Score: 342
Period size: 86 Copynumber: 2.1 Consensus size: 87
46526846 TTCGATATTT
*
46526856 TTTATAGAAGATTTATTATTCAACTTTTTTAGTTTTACTTTATATTTAGTTTTTACTTTTAAAAG
1 TTTAAAGAAGATTTATTATTCAACTTTTTTAGTTTTACTTTATATTTAGTTTTTACTTTTAAAAG
46526921 TTATGTGACAATGTTCCGTTTC
66 TTATGTGACAATGTTCCGTTTC
46526943 TTTAAAGAAGATTTA-TATTCAACTTTTTTAGTTTTACTTTATATTTAGTTTTTACTTTTAAAAG
1 TTTAAAGAAGATTTATTATTCAACTTTTTTAGTTTTACTTTATATTTAGTTTTTACTTTTAAAAG
46527007 TTATGTGACAATGTTCCGTTTC
66 TTATGTGACAATGTTCCGTTTC
46527029 TTTAAA
1 TTTAAA
46527035 ATTTTCATTT
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
86 77 0.85
87 14 0.15
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.53
Consensus pattern (87 bp):
TTTAAAGAAGATTTATTATTCAACTTTTTTAGTTTTACTTTATATTTAGTTTTTACTTTTAAAAG
TTATGTGACAATGTTCCGTTTC
Found at i:46528484 original size:2 final size:2
Alignment explanation
Indices: 46528477--46528504 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
46528467 CTATGACAAC
46528477 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46528505 TTTATCTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46531119 original size:22 final size:22
Alignment explanation
Indices: 46531094--46531136 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
46531084 AGCATCAATC
46531094 CTAATAAAAATTAACATCAGTA
1 CTAATAAAAATTAACATCAGTA
* *
46531116 CTAATGAAAATTAGCATCAGT
1 CTAATAAAAATTAACATCAGT
46531137 CTATTTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (22 bp):
CTAATAAAAATTAACATCAGTA
Found at i:46534475 original size:39 final size:38
Alignment explanation
Indices: 46534427--46534501 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 38
46534417 NATTTAAAAA
*
46534427 GTATATTTAATGCAATAAAATATTTATTATATTTATTT
1 GTATATTTAATACAATAAAATATTTATTATATTTATTT
*
46534465 GTATATTTTAATATAATAAAATATTTATTATATTTAT
1 GTATA-TTTAATACAATAAAATATTTATTATATTTAT
46534502 GATAGTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 5 0.15
39 29 0.85
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (38 bp):
GTATATTTAATACAATAAAATATTTATTATATTTATTT
Found at i:46534511 original size:39 final size:39
Alignment explanation
Indices: 46534426--46534521 Score: 115
Period size: 39 Copynumber: 2.4 Consensus size: 39
46534416 NNATTTAAAA
**
46534426 AGTATATTTAATGCAATAAAATATTTATTATATTTATTTGT
1 AGTAT-TTTAATATAATAAAATATTTATTATATTTA-TTGT
46534467 A-TATTTTAATATAATAAAATATTTATTATATTTA-TGAT
1 AGTATTTTAATATAATAAAATATTTATTATATTTATTG-T
46534505 AGTATTTTTTAATATAA
1 AGTA--TTTTAATATAA
46534522 ATACTTTTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
37 2 0.04
38 2 0.04
39 30 0.61
40 3 0.06
41 12 0.24
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (39 bp):
AGTATTTTAATATAATAAAATATTTATTATATTTATTGT
Found at i:46558163 original size:22 final size:23
Alignment explanation
Indices: 46558138--46558193 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
46558128 TATACGAAAG
46558138 TTATAAAATAAAAGTATG-TATA
1 TTATAAAATAAAAGTATGATATA
*
46558160 TTATATAAA-AAATGTATGCATATA
1 TTATA-AAATAAAAGTATG-ATATA
*
46558184 TTTTAAAATA
1 TTATAAAATA
46558194 TGTATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 13 0.46
23 6 0.21
24 9 0.32
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (23 bp):
TTATAAAATAAAAGTATGATATA
Found at i:46561228 original size:13 final size:13
Alignment explanation
Indices: 46561212--46561254 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
46561202 AATAAACAGA
*
46561212 TAATAGAAACAAT
1 TAATAGAATCAAT
46561225 TAATCA-AATCAAT
1 TAAT-AGAATCAAT
46561238 TAATAGAATCAAT
1 TAATAGAATCAAT
46561251 TAAT
1 TAAT
46561255 GCAATCAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 1 0.04
13 25 0.93
14 1 0.04
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (13 bp):
TAATAGAATCAAT
Found at i:46561260 original size:13 final size:13
Alignment explanation
Indices: 46561221--46561261 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
46561211 ATAATAGAAA
46561221 CAATTAAT-CAAAT
1 CAATTAATGC-AAT
46561234 CAATTAATAG-AAT
1 CAATTAAT-GCAAT
46561247 CAATTAATGCAAT
1 CAATTAATGCAAT
46561260 CA
1 CA
46561262 GCTATCCGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.04
13 24 0.96
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (13 bp):
CAATTAATGCAAT
Found at i:46564228 original size:30 final size:30
Alignment explanation
Indices: 46564160--46564233 Score: 102
Period size: 26 Copynumber: 2.6 Consensus size: 30
46564150 TGCGAACCCA
* *
46564160 GTGTCCAATGTAAATAAATATTATTTGAAG
1 GTGTCCAATGTAAATAAATAATATTTCAAG
46564190 GTGT----TGTAAATAAATAATATTTCAAG
1 GTGTCCAATGTAAATAAATAATATTTCAAG
46564216 GTGTCCAATGTAAATAAA
1 GTGTCCAATGTAAATAAA
46564234 AAAAAACTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 24 0.63
30 14 0.37
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (30 bp):
GTGTCCAATGTAAATAAATAATATTTCAAG
Found at i:46564483 original size:75 final size:77
Alignment explanation
Indices: 46564378--46564529 Score: 272
Period size: 75 Copynumber: 2.0 Consensus size: 77
46564368 CATCATTCGA
* *
46564378 TTTTCATACGAAAACATCTAATAATAATTATAAAATTATTTAAAATTATTAATTAACATTTAAAT
1 TTTTCATACGAAAACATCCAAAAATAATTATAAAATTATTTAAAATTATTAATTAACATTTAAAT
46564443 ATTGTGATAATT
66 ATTGTGATAATT
46564455 TTTTCATACGAAAA-A-CCAAAAATAATTATAAAATTATTTAAAATTATTAATTAACATTTAAAT
1 TTTTCATACGAAAACATCCAAAAATAATTATAAAATTATTTAAAATTATTAATTAACATTTAAAT
46564518 ATTGTGATAATT
66 ATTGTGATAATT
46564530 ACAAATTATA
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
75 58 0.79
76 1 0.01
77 14 0.19
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (77 bp):
TTTTCATACGAAAACATCCAAAAATAATTATAAAATTATTTAAAATTATTAATTAACATTTAAAT
ATTGTGATAATT
Found at i:46565318 original size:17 final size:19
Alignment explanation
Indices: 46565296--46565330 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46565286 TTTATTATCG
46565296 TTTATTT-C-ATACTTTTT
1 TTTATTTCCAATACTTTTT
46565313 TTTATTTCCAATACTTTT
1 TTTATTTCCAATACTTTT
46565331 AACATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.20, C:0.14, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATTTCCAATACTTTTT
Found at i:46571435 original size:9 final size:9
Alignment explanation
Indices: 46571421--46571451 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
46571411 GTTAAACGAA
46571421 TCGAGTTAT
1 TCGAGTTAT
*
46571430 TCGAGTTAA
1 TCGAGTTAT
46571439 TCGAGTTAT
1 TCGAGTTAT
46571448 TCGA
1 TCGA
46571452 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:46571529 original size:9 final size:9
Alignment explanation
Indices: 46571505--46571541 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
46571495 TGAGTTTTCG
*
46571505 AATTCAAAT
1 AATTCGAAT
*
46571514 AACTCGAAT
1 AATTCGAAT
46571523 AATTCGAAT
1 AATTCGAAT
46571532 AATTCGAAT
1 AATTCGAAT
46571541 A
1 A
46571542 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:46572371 original size:5 final size:5
Alignment explanation
Indices: 46572361--46572387 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
46572351 CTCGAAAATT
46572361 TTCGA TTCGA TTCGA TTCGA TTCGA TT
1 TTCGA TTCGA TTCGA TTCGA TTCGA TT
46572388 TGATCGAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (5 bp):
TTCGA
Found at i:46574111 original size:45 final size:45
Alignment explanation
Indices: 46574047--46574137 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
46574037 TTAGAGAAGT
* *
46574047 TGGATTTCTTGATCATGTGATTTCAATAGAAGGCATGCGGGTTGA
1 TGGATTTCTTGATCATGTGATTTCAACAGAAGGCATACGGGTTGA
46574092 TGGATTTCTTGATCATGTGATTTCAACAGAAGGCATACGGGTTGA
1 TGGATTTCTTGATCATGTGATTTCAACAGAAGGCATACGGGTTGA
46574137 T
1 T
46574138 CCGAGCAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (45 bp):
TGGATTTCTTGATCATGTGATTTCAACAGAAGGCATACGGGTTGA
Found at i:46577019 original size:3 final size:3
Alignment explanation
Indices: 46577011--46577070 Score: 93
Period size: 3 Copynumber: 19.3 Consensus size: 3
46577001 CCTTTTTAGC
*
46577011 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT CTT CATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT -ATT
46577058 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
46577071 CTATACNNNN
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
3 49 0.92
4 4 0.08
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:46580660 original size:26 final size:27
Alignment explanation
Indices: 46580605--46580653 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
46580595 ATAAAATACA
*
46580605 TCTTTGCATTCCTTTTTGAGCTAATAT
1 TCTTTGCATTCCTTTTTGAGATAATAT
46580632 TCTTT-CATT-CTTTTTGA-ATAAT
1 TCTTTGCATTCCTTTTTGAGATAAT
46580654 TATTTCTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 8 0.38
26 4 0.19
27 5 0.24
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.55
Consensus pattern (27 bp):
TCTTTGCATTCCTTTTTGAGATAATAT
Found at i:46593716 original size:116 final size:116
Alignment explanation
Indices: 46593512--46593859 Score: 696
Period size: 116 Copynumber: 3.0 Consensus size: 116
46593502 CTTGACCACT
46593512 CTTATCTGATTCTGGCGAATTACCACATTATTTCTGACAGCCTTGACTGCACATTTCTATACAGT
1 CTTATCTGATTCTGGCGAATTACCACATTATTTCTGACAGCCTTGACTGCACATTTCTATACAGT
46593577 GACATATGATCACTTATTTGGCGTGTAGGGTTGGATAGGTACTTATTACCC
66 GACATATGATCACTTATTTGGCGTGTAGGGTTGGATAGGTACTTATTACCC
46593628 CTTATCTGATTCTGGCGAATTACCACATTATTTCTGACAGCCTTGACTGCACATTTCTATACAGT
1 CTTATCTGATTCTGGCGAATTACCACATTATTTCTGACAGCCTTGACTGCACATTTCTATACAGT
46593693 GACATATGATCACTTATTTGGCGTGTAGGGTTGGATAGGTACTTATTACCC
66 GACATATGATCACTTATTTGGCGTGTAGGGTTGGATAGGTACTTATTACCC
46593744 CTTATCTGATTCTGGCGAATTACCACATTATTTCTGACAGCCTTGACTGCACATTTCTATACAGT
1 CTTATCTGATTCTGGCGAATTACCACATTATTTCTGACAGCCTTGACTGCACATTTCTATACAGT
46593809 GACATATGATCACTTATTTGGCGTGTAGGGTTGGATAGGTACTTATTACCC
66 GACATATGATCACTTATTTGGCGTGTAGGGTTGGATAGGTACTTATTACCC
46593860 TAAATGATGT
Statistics
Matches: 232, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 232 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (116 bp):
CTTATCTGATTCTGGCGAATTACCACATTATTTCTGACAGCCTTGACTGCACATTTCTATACAGT
GACATATGATCACTTATTTGGCGTGTAGGGTTGGATAGGTACTTATTACCC
Found at i:46600151 original size:20 final size:19
Alignment explanation
Indices: 46600126--46600173 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
46600116 GAATTTTTTG
46600126 GGTAATTTTCAGGTAATTC
1 GGTAATTTTCAGGTAATTC
**
46600145 AGGTAATTTTTGGGTAATTC
1 -GGTAATTTTCAGGTAATTC
46600165 GGTTAATTT
1 GG-TAATTT
46600174 GGTTAATTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.25, C:0.06, G:0.23, T:0.46
Consensus pattern (19 bp):
GGTAATTTTCAGGTAATTC
Found at i:46600171 original size:9 final size:9
Alignment explanation
Indices: 46600159--46600207 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
46600149 AATTTTTGGG
46600159 TAATTCGGT
1 TAATTCGGT
*
46600168 TAATTTGGT
1 TAATTCGGT
46600177 TAATTCGGT
1 TAATTCGGT
*
46600186 TAA-TCGGG
1 TAATTCGGT
*
46600194 TAATTCGGG
1 TAATTCGGT
46600203 TAATT
1 TAATT
46600208 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
8 7 0.19
9 29 0.81
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.43
Consensus pattern (9 bp):
TAATTCGGT
Found at i:46600180 original size:18 final size:18
Alignment explanation
Indices: 46600153--46600208 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
46600143 TCAGGTAATT
46600153 TTTGGGTAATTCGGTTAA
1 TTTGGGTAATTCGGTTAA
*
46600171 TTTGGTTAATTCGGTTAA
1 TTTGGGTAATTCGGTTAA
* *
46600189 -TCGGGTAATTCGGGTAA
1 TTTGGGTAATTCGGTTAA
46600206 TTT
1 TTT
46600209 TTAACCAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 14 0.44
18 18 0.56
ACGTcount: A:0.21, C:0.07, G:0.27, T:0.45
Consensus pattern (18 bp):
TTTGGGTAATTCGGTTAA
Found at i:46601405 original size:7 final size:7
Alignment explanation
Indices: 46601393--46601426 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
46601383 GATTTAGTCT
46601393 TTTATTA
1 TTTATTA
46601400 TTTATTA
1 TTTATTA
46601407 TTTATTA
1 TTTATTA
46601414 TTTATT-
1 TTTATTA
46601420 TTTATTA
1 TTTATTA
46601427 AATTTGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTATTA
Found at i:46601978 original size:23 final size:22
Alignment explanation
Indices: 46601946--46601991 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
46601936 GATTTCAATA
*
46601946 TATATATTTTGTATTTTTTTCTT
1 TATATATTTT-TATTTATTTCTT
* *
46601969 TATATTTTTTTGTTTATTTCTT
1 TATATATTTTTATTTATTTCTT
46601991 T
1 T
46601992 CATTTGTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.76
Consensus pattern (22 bp):
TATATATTTTTATTTATTTCTT
Found at i:46602113 original size:13 final size:14
Alignment explanation
Indices: 46602079--46602116 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
46602069 TTTTCTTATG
46602079 TATATTAGTTTCGTT
1 TATATTA-TTTCGTT
46602094 TAT-TTATTT-GTT
1 TATATTATTTCGTT
46602106 TATATTATTTC
1 TATATTATTTC
46602117 TATGTCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:46602143 original size:15 final size:15
Alignment explanation
Indices: 46602123--46602156 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
46602113 TTTCTATGTC
46602123 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
*
46602138 ATTGTTGTATTTGTT
1 ATTGTTGTATTTATT
46602153 ATTG
1 ATTG
46602157 CGACATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:46613182 original size:116 final size:116
Alignment explanation
Indices: 46612986--46613196 Score: 300
Period size: 116 Copynumber: 1.8 Consensus size: 116
46612976 ATATATACAT
* * * * *
46612986 TAAATGTCAATTAAATCGATCAGTTCAATTATAAAAATTAATAGCGAATAACAGATCAACTTCAT
1 TAAATGTCAATAAAATCGACCAGTTCAATTATAAAAATTAATAGCGAATAACAAACCAACCTCAT
* * *
46613051 TTGAACTATTTGCAACACAAACTTAACTTCAATTCAATAAAAAATATACCC
66 TTGAACCACTTGCAACACAAACTCAACTTCAATTCAATAAAAAATATACCC
* *
46613102 TAAATGTCAATAAAATCGACCGGTTCAATTATGAAAATTAATAGCGAA-AACCAAACCAACCTCA
1 TAAATGTCAATAAAATCGACCAGTTCAATTATAAAAATTAATAGCGAATAA-CAAACCAACCTCA
46613166 CTTT-AACCACTTGCAACACAAACTCAACTTC
65 -TTTGAACCACTTGCAACACAAACTCAACTTC
46613197 CATAACCCAT
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
115 2 0.02
116 78 0.94
117 3 0.04
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.27
Consensus pattern (116 bp):
TAAATGTCAATAAAATCGACCAGTTCAATTATAAAAATTAATAGCGAATAACAAACCAACCTCAT
TTGAACCACTTGCAACACAAACTCAACTTCAATTCAATAAAAAATATACCC
Found at i:46614230 original size:20 final size:20
Alignment explanation
Indices: 46614194--46614231 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46614184 ACCCTAACTC
*
46614194 GAATCCTAAACTTAAACCTT
1 GAATCCTAAACTCAAACCTT
46614214 GAAT-CTAAACCTCAAACC
1 GAATCCTAAA-CTCAAACC
46614232 CCCAAAGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.42, C:0.29, G:0.05, T:0.24
Consensus pattern (20 bp):
GAATCCTAAACTCAAACCTT
Found at i:46616501 original size:16 final size:17
Alignment explanation
Indices: 46616474--46616508 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
46616464 ATATAGCTTT
46616474 TTTTTTAGTTTAAAAAA
1 TTTTTTAGTTTAAAAAA
46616491 TTTTTTA-TTTAAAAAA
1 TTTTTTAGTTTAAAAAA
46616507 TT
1 TT
46616509 GCCTATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTTTTAGTTTAAAAAA
Found at i:46616753 original size:2 final size:2
Alignment explanation
Indices: 46616746--46616786 Score: 73
Period size: 2 Copynumber: 20.0 Consensus size: 2
46616736 CATTAACATT
46616746 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
46616787 AATACACTCG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:46618016 original size:22 final size:21
Alignment explanation
Indices: 46617989--46618037 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
46617979 CATTTGGTGA
*
46617989 AAATATGTTTGAAA-ATTTTATC
1 AAATAT-TTTCAAACATTTT-TC
46618011 AAATATTTTCAAAGCATTTTTC
1 AAATATTTTCAAA-CATTTTTC
46618033 AAATA
1 AAATA
46618038 CACTCAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
22 13 0.54
23 5 0.21
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (21 bp):
AAATATTTTCAAACATTTTTC
Found at i:46621089 original size:21 final size:23
Alignment explanation
Indices: 46621063--46621110 Score: 82
Period size: 21 Copynumber: 2.2 Consensus size: 23
46621053 AATCTGCTAC
46621063 TTTTTGTTGTTG-TTT-TCATTG
1 TTTTTGTTGTTGTTTTGTCATTG
46621084 TTTTTGTTGTTGTTTTGTCATTG
1 TTTTTGTTGTTGTTTTGTCATTG
46621107 TTTT
1 TTTT
46621111 GGTGTCGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 12 0.48
22 3 0.12
23 10 0.40
ACGTcount: A:0.04, C:0.04, G:0.19, T:0.73
Consensus pattern (23 bp):
TTTTTGTTGTTGTTTTGTCATTG
Found at i:46621360 original size:15 final size:16
Alignment explanation
Indices: 46621335--46621367 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
46621325 CTTAATTTTT
46621335 TATATAAAAATAATAA
1 TATATAAAAATAATAA
*
46621351 TATA-AAAAATATTAA
1 TATATAAAAATAATAA
46621366 TA
1 TA
46621368 CGAGCGTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TATATAAAAATAATAA
Found at i:46622200 original size:28 final size:29
Alignment explanation
Indices: 46622133--46622201 Score: 106
Period size: 28 Copynumber: 2.4 Consensus size: 29
46622123 AATAAACACC
*
46622133 AAAAATTTATTTTAAAAATAAAAAAATAA
1 AAAAATATATTTTAAAAATAAAAAAATAA
46622162 AAAAA-AGTATTTT-AAAATAAAAAAATAA
1 AAAAATA-TATTTTAAAAATAAAAAAATAA
46622190 AAAAATATATTT
1 AAAAATATATTT
46622202 ATTATATATT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
28 25 0.68
29 12 0.32
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (29 bp):
AAAAATATATTTTAAAAATAAAAAAATAA
Found at i:46623482 original size:31 final size:31
Alignment explanation
Indices: 46623447--46623510 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
46623437 ACATAAACTG
46623447 AATTTCAAATTTTAACATATTAAAGGGACTA
1 AATTTCAAATTTTAACATATTAAAGGGACTA
46623478 AATTTCAAATTTTAACATATTAAAGGGACTA
1 AATTTCAAATTTTAACATATTAAAGGGACTA
46623509 AA
1 AA
46623511 AAGTAAAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.34
Consensus pattern (31 bp):
AATTTCAAATTTTAACATATTAAAGGGACTA
Found at i:46625887 original size:6 final size:6
Alignment explanation
Indices: 46625876--46625908 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
46625866 GGATTATGAA
46625876 GATAAT GATAAT GATAAT GATAAT GATAAT GAT
1 GATAAT GATAAT GATAAT GATAAT GATAAT GAT
46625909 TTGGGCATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.33
Consensus pattern (6 bp):
GATAAT
Found at i:46627839 original size:3 final size:3
Alignment explanation
Indices: 46627813--46627954 Score: 79
Period size: 3 Copynumber: 46.7 Consensus size: 3
46627803 TATCAATGAA
* * * *
46627813 AAT ATT AAT AAT ATT AAAT AAAT AAT AAT AAT AAT AAT AAT ATT AAC
1 AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** ** * * *
46627860 AAT AATT TAT AAT AAT GTT AAT AGG AAC AA- AAT AAC AAT AAT ACT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * * * * *
46627905 AAT AAT AAT AAT GCT AGT AAT AAT AAG GAT AAT AAT AGT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46627953 AA
1 AA
46627955 AAAGGTAAAT
Statistics
Matches: 101, Mismatches: 35, Indels: 6
0.71 0.25 0.04
Matches are distributed among these distances:
2 2 0.02
3 91 0.90
4 8 0.08
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:46631103 original size:2 final size:2
Alignment explanation
Indices: 46631096--46631127 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
46631086 CATACAAAAG
*
46631096 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46631128 GTGTGGGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46632450 original size:15 final size:14
Alignment explanation
Indices: 46632430--46632463 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
46632420 GGGATACTAC
*
46632430 AATTATCTTAATATT
1 AATTATCCTAATA-T
46632445 AATTATCCTAATAT
1 AATTATCCTAATAT
46632459 AATTA
1 AATTA
46632464 AAATAGAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTATCCTAATAT
Found at i:46634418 original size:44 final size:44
Alignment explanation
Indices: 46634362--46634452 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
46634352 ACTCTATTTT
* *
46634362 TTAGTTTTCCACTTAAACTCTTATTAGTGTAGGTTATTTTATTA
1 TTAGTTTCCCACTTAAACTCTTATTAGTGTAGGTTATTTTAATA
*
46634406 TTAGTTTCCCACTTAAACTCTTATTAGTTTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTTATTAGTGTAGGTTATTTTAATA
46634450 TTA
1 TTA
46634453 TTTGACCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.26, C:0.12, G:0.10, T:0.52
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTTATTAGTGTAGGTTATTTTAATA
Found at i:46635731 original size:41 final size:41
Alignment explanation
Indices: 46635674--46635824 Score: 173
Period size: 41 Copynumber: 3.7 Consensus size: 41
46635664 TTTTGTAAGT
*
46635674 TCAGGCTTTTTGCCTAGCAGGCTTTATGTCAGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGTCAGTGAATTATA
*
46635715 TCAGGCTTTATGCCTAGCAGGC-TCA-GTGCTAGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGT-C-AGTGAATTATA
* * * * *
46635756 TCAGACTTTATGTCTAGCAGGCTTTGTG-CAGGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGTCA-GTGAATTATA
* *
46635797 TCGGGCTTTGTGCCTAGCAGGCTTTATG
1 TCAGGCTTTATGCCTAGCAGGCTTTATG
46635825 CCGGTGTTTT
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 2 0.02
40 4 0.04
41 84 0.91
42 1 0.01
43 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTATGTCAGTGAATTATA
Found at i:46636572 original size:24 final size:23
Alignment explanation
Indices: 46636539--46636828 Score: 151
Period size: 23 Copynumber: 12.5 Consensus size: 23
46636529 TATGTTGCCT
*
46636539 ATTTGTTGTATATATGCTGTTAA
1 ATTTGGTGTATATATGCTGTTAA
* * * * *
46636562 ATTTTGGTGTAAAAATGTTGCTCA
1 A-TTTGGTGTATATATGCTGTTAA
* * ***
46636586 ATTTGGTATGTATATGCTG-CCC
1 ATTTGGTGTATATATGCTGTTAA
*
46636608 ATTTGTTGTATATATGCTGTTAA
1 ATTTGGTGTATATATGCTGTTAA
* * *
46636631 GTTTTGGTGTA-AAAGTGTTGTTAA
1 -ATTTGGTGTATATA-TGCTGTTAA
* *
46636655 ATTTGGTATGTATATGCTGCTT-A
1 ATTTGGTGTATATATGCTG-TTAA
* * *
46636678 A-TTGCTGTAAATATGATGTTAA
1 ATTTGGTGTATATATGCTGTTAA
*
46636700 ATTTTGGTGTA-AAAGTGCTGTTAA
1 A-TTTGGTGTATATA-TGCTGTTAA
* * * *
46636724 ATTTGGTATGTATATGCTG-CAC
1 ATTTGGTGTATATATGCTGTTAA
* * *
46636746 ATTTGTTGTATATAAGCTGTCCAA
1 ATTTGGTGTATATATGCTGT-TAA
* *
46636770 ATTTTGGTGTATAAATGCTGTTTA
1 A-TTTGGTGTATATATGCTGTTAA
* * * *
46636794 ATTTGGTATATATTTGTTGTTTA
1 ATTTGGTGTATATATGCTGTTAA
*
46636817 ATTTGATGTATA
1 ATTTGGTGTATA
46636829 AGAGCTGTCC
Statistics
Matches: 196, Mismatches: 57, Indels: 28
0.70 0.20 0.10
Matches are distributed among these distances:
21 2 0.01
22 47 0.24
23 71 0.36
24 60 0.31
25 16 0.08
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.47
Consensus pattern (23 bp):
ATTTGGTGTATATATGCTGTTAA
Found at i:46636639 original size:69 final size:69
Alignment explanation
Indices: 46636528--46636802 Score: 361
Period size: 69 Copynumber: 4.0 Consensus size: 69
46636518 NNNNNNNNNN
* * * * *
46636528 ATATGTTGCCTATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGTTGCTCAATTTGGT
1 ATATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAATTTGGT
46636593 ATGT
66 ATGT
* * *
46636597 ATATGCTGCCCATTTGTTGTATATATGCTGTTAAGTTTTGGTGTAAAAGTGTTGTTAAATTTGGT
1 ATATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAATTTGGT
46636662 ATGT
66 ATGT
** * * * * *
46636666 ATATGCTGCTTAATTGCTGTAAATATGATGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGT
1 ATATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAATTTGGT
46636731 ATGT
66 ATGT
* * * * *
46636735 ATATGCTGCACATTTGTTGTATATAAGCTGTCCAAATTTTGGTGTATAAATGCTGTTTAATTTGG
1 ATATGCTGCCCATTTGTTGTATATATGCTGT-TAAATTTTGGTGTAAAAATGCTGTTAAATTTGG
46636800 TAT
65 TAT
46636803 ATATTTGTTG
Statistics
Matches: 180, Mismatches: 25, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
69 148 0.82
70 32 0.18
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (69 bp):
ATATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAATTTGGT
ATGT
Found at i:46639126 original size:21 final size:20
Alignment explanation
Indices: 46639102--46639162 Score: 50
Period size: 24 Copynumber: 2.7 Consensus size: 20
46639092 AAGTATACGT
46639102 ATTTTTTAAATTTTATTTTTA
1 ATTTTTTAAATTTTA-TTTTA
*
46639123 ATTTATTGGGAAATATTTATTTTA
1 ATTT-TT--TAAAT-TTTATTTTA
46639147 ATGTTTTTAATATTTT
1 AT-TTTTTAA-ATTTT
46639163 TGATGTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
21 4 0.12
22 7 0.22
23 2 0.06
24 13 0.41
25 6 0.19
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (20 bp):
ATTTTTTAAATTTTATTTTA
Found at i:46639822 original size:22 final size:24
Alignment explanation
Indices: 46639791--46639834 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
46639781 TTTTGAAAAT
*
46639791 ATTTTTAATT-AA-TATTTTTACA
1 ATTTTAAATTAAATTATTTTTACA
46639813 ATTTTAAATTAAATTATTTTTA
1 ATTTTAAATTAAATTATTTTTA
46639835 AAAATGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 2 0.11
24 8 0.42
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTTTAAATTAAATTATTTTTACA
Found at i:46640753 original size:23 final size:23
Alignment explanation
Indices: 46640727--46640770 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
46640717 ACCCATAATG
46640727 TAATATCCC-GAAAATTACTACTT
1 TAATA-CCCTGAAAATTACTACTT
46640750 TAATACCCTGAAAATTACTAC
1 TAATACCCTGAAAATTACTAC
46640771 AGTAAGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.32
Consensus pattern (23 bp):
TAATACCCTGAAAATTACTACTT
Found at i:46652330 original size:16 final size:15
Alignment explanation
Indices: 46652292--46652335 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
46652282 TACAAAAAAG
*
46652292 AAATTAAACTATGATT
1 AAATTAAA-AATGATT
46652308 AATATTAAAAATGATCT
1 AA-ATTAAAAATGAT-T
46652325 AAATTAAAAAT
1 AAATTAAAAAT
46652336 ATTTATTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (15 bp):
AAATTAAAAATGATT
Found at i:46654121 original size:33 final size:33
Alignment explanation
Indices: 46654081--46654235 Score: 251
Period size: 33 Copynumber: 4.8 Consensus size: 33
46654071 ATATGAATTT
46654081 TTTTATGATCTAATTGATGTCAATAATATGAAC
1 TTTTATGATCTAATTGATGTCAATAATATGAAC
46654114 TTTTATGATCTAATTGATGTCAATAATATGAAC
1 TTTTATGATCTAATTGATGTCAATAATATGAAC
46654147 TTTTATGATCTAATTGATGTCAATAATATGAAC
1 TTTTATGATCTAATTGATGTCAATAATATGAAC
* **
46654180 TTTTATGATCTAATTGATG-AAAT-ATATGAGT
1 TTTTATGATCTAATTGATGTCAATAATATGAAC
* *
46654211 TTTTATGATATAATTGATATCAATA
1 TTTTATGATCTAATTGATGTCAATA
46654236 TTAAGTGTTT
Statistics
Matches: 114, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
31 23 0.20
32 6 0.05
33 85 0.75
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (33 bp):
TTTTATGATCTAATTGATGTCAATAATATGAAC
Found at i:46654395 original size:33 final size:34
Alignment explanation
Indices: 46654351--46654439 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 34
46654341 ATATATAAAT
*
46654351 TTTTTAAGATCTAATTGATGTCAATA-ATATGAA
1 TTTTTATGATCTAATTGATGTCAATAGATATGAA
* * *
46654384 TTTTTATGATCTGATTAATG--AA-AGATATGAG
1 TTTTTATGATCTAATTGATGTCAATAGATATGAA
* * *
46654415 TCTTTATGATATAATTGATATCAAT
1 TTTTTATGATCTAATTGATGTCAAT
46654440 TGTAAGTGTT
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
30 1 0.02
31 23 0.53
33 19 0.44
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (34 bp):
TTTTTATGATCTAATTGATGTCAATAGATATGAA
Found at i:46654509 original size:205 final size:205
Alignment explanation
Indices: 46654147--46654596 Score: 744
Period size: 205 Copynumber: 2.2 Consensus size: 205
46654137 TAATATGAAC
* * * *
46654147 TTTTATGATCTAATTGATGTCAATAATATGAACTTTTATGATCTAATTGATGAAATATATGAGTT
1 TTTTATGATCTAATTGATGTCAATAATATGAATTTTTATGATCTAATTAATGAAAGATATGAGTC
46654212 TTTATGATATAATTGATATCAATATTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTAT
66 TTTATGATATAATTGATATCAATATTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTAT
46654277 GGATCATGCATGCTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATTGAGTAGAATGAATGAAA
131 GGATCATGCATGCTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATTGAGTAGAATGAATGAAA
46654342 TATATAAATT
196 TATATAAATT
* *
46654352 TTTTAAGATCTAATTGATGTCAATAATATGAATTTTTATGATCTGATTAATGAAAGATATGAGTC
1 TTTTATGATCTAATTGATGTCAATAATATGAATTTTTATGATCTAATTAATGAAAGATATGAGTC
46654417 TTTATGATATAATTGATATCAAT-TGTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTA
66 TTTATGATATAATTGATATCAATAT-TAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTA
* ** * *
46654481 TGTATTGTGCATGCTTTTTAGTTCATCCCTTGTTATATGAGTTAGTATTTAGTAGAATGAATGAA
130 TGGATCATGCATGCTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATTGAGTAGAATGAATGAA
*
46654546 ATATATGAATT
195 ATATATAAATT
* *
46654557 TTTTATGATCTAATTGATG-AAAT-ATATGAGTTTTTATGAT
1 TTTTATGATCTAATTGATGTCAATAATATGAATTTTTATGAT
46654597 ACAATTGATG
Statistics
Matches: 229, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
203 16 0.07
204 4 0.02
205 209 0.91
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (205 bp):
TTTTATGATCTAATTGATGTCAATAATATGAATTTTTATGATCTAATTAATGAAAGATATGAGTC
TTTATGATATAATTGATATCAATATTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTAT
GGATCATGCATGCTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATTGAGTAGAATGAATGAAA
TATATAAATT
Found at i:46654594 original size:31 final size:32
Alignment explanation
Indices: 46654541--46654606 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
46654531 AGTAGAATGA
*
46654541 ATGAAATATATGAATTTTTTATGAT-CTAATTG
1 ATGAAATATATGAAGTTTTTATGATAC-AATTG
46654573 ATGAAATATATG-AGTTTTTATGATACAATTG
1 ATGAAATATATGAAGTTTTTATGATACAATTG
46654604 ATG
1 ATG
46654607 TCAATTATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 19 0.59
32 13 0.41
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (32 bp):
ATGAAATATATGAAGTTTTTATGATACAATTG
Found at i:46654717 original size:171 final size:172
Alignment explanation
Indices: 46654377--46654746 Score: 516
Period size: 172 Copynumber: 2.2 Consensus size: 172
46654367 GATGTCAATA
* * *
46654377 ATATGAA-TTTTTATGATCTGATTAATGAAAGATATGAGTCTTTATGATATAATTGATATCAATT
1 ATATGAATTTTTTATGATCTAATTGATGAAAGATATGAGTCTTTATGATACAATTGATATCAATT
* ** * * *
46654441 GTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTATGTATTGTGCATGCTTTTTAGTTCA
66 ATAAGACTTTTCTCCCCTTCCAATTCTAGGTGCATTTGTATGGATTGTGCATGCTTTTTAGCTCA
**
46654506 TCCCTTGTTATATGAGTTAGTATTTAGTAGAATGAATGAAAT
131 TCCCTTGTTATATGAGTTAGTACCTAGTAGAATGAATGAAAT
* * *
46654548 ATATGAATTTTTTATGATCTAATTGATGAAATATATGAGTTTTTATGATACAATTGATGTCAATT
1 ATATGAATTTTTTATGATCTAATTGATGAAAGATATGAGTCTTTATGATACAATTGATATCAATT
*
46654613 ATATAGACTTTTCT-CCCTTCCCATTCTAGGTGCATTTGTGA-GGA-TGATGCATGC-TTTTAGC
66 ATA-AGACTTTTCTCCCCTTCCAATTCTAGGTGCATTTGT-ATGGATTG-TGCATGCTTTTTAGC
*
46654674 TCATCCCTTGTTATATGAGTTAGTACCTAGTAGAATTAATGAAAT
128 TCATCCCTTGTTATATGAGTTAGTACCTAGTAGAATGAATGAAAT
* *
46654719 ATATGGATTTTTTATGATCTAAGTGATG
1 ATATGAATTTTTTATGATCTAATTGATG
46654747 TCAATTATAT
Statistics
Matches: 177, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
171 83 0.47
172 86 0.49
173 8 0.05
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (172 bp):
ATATGAATTTTTTATGATCTAATTGATGAAAGATATGAGTCTTTATGATACAATTGATATCAATT
ATAAGACTTTTCTCCCCTTCCAATTCTAGGTGCATTTGTATGGATTGTGCATGCTTTTTAGCTCA
TCCCTTGTTATATGAGTTAGTACCTAGTAGAATGAATGAAAT
Found at i:46660448 original size:153 final size:158
Alignment explanation
Indices: 46660238--46660545 Score: 410
Period size: 153 Copynumber: 2.0 Consensus size: 158
46660228 CGTGGTGTAG
*
46660238 GGATGTCAGTGGAATATGTGCTATTGAAATCCTTTGTGTATATATATCAACCTATGACCATTGTT
1 GGATGTCAGTGGAATA-GTGCTATTGAAATCCTTTGTGTATATATATCAACCTATGACCATCGTT
* * * ** * * *
46660303 AAAGTAGTGTGATAGGAGGGTATTTTTTGCAATTCCTCAGGGACGTATGCCTCTGCCCCTTGGAA
65 AAAGTAGTATGATAGGAGGGTATTTTTGGCAATTCCTCAGGGACATACACATCGGCCCCTTAGAA
*
46660368 GTTTTCAGTGGTTTATGGATGAACTAGTT
130 GTTTTCAGTGATTTATGGATGAACTAGTT
* *
46660397 GGATGTCAGTGG-A-A-TGCTGTTGAAATCC-TT-TGTATATATATCGACCTATGACCATCGTTA
1 GGATGTCAGTGGAATAGTGCTATTGAAATCCTTTGTGTATATATATCAACCTATGACCATCGTTA
* * * * *
46660457 GAGTAGTATTATAGGAGGGTATTTTTGGCAATTCGTCAGGGACATACACATCGGGCCCTTAGAGG
66 AAGTAGTATGATAGGAGGGTATTTTTGGCAATTCCTCAGGGACATACACATCGGCCCCTTAGAAG
*
46660522 TTTTTAGTGATTTATGGATGAACT
131 TTTTCAGTGATTTATGGATGAACT
46660546 GGTTCCTGAT
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
153 102 0.78
154 2 0.02
155 13 0.10
157 1 0.01
158 1 0.01
159 12 0.09
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.35
Consensus pattern (158 bp):
GGATGTCAGTGGAATAGTGCTATTGAAATCCTTTGTGTATATATATCAACCTATGACCATCGTTA
AAGTAGTATGATAGGAGGGTATTTTTGGCAATTCCTCAGGGACATACACATCGGCCCCTTAGAAG
TTTTCAGTGATTTATGGATGAACTAGTT
Found at i:46667865 original size:15 final size:14
Alignment explanation
Indices: 46667832--46667870 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
46667822 ATTTGATTGA
46667832 AAAATGACTTCTAG
1 AAAATGACTTCTAG
*
46667846 AAAATGATTTCTAG
1 AAAATGACTTCTAG
46667860 ACAAATGACTT
1 A-AAATGACTT
46667871 ACTTTTCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (14 bp):
AAAATGACTTCTAG
Found at i:46669943 original size:71 final size:70
Alignment explanation
Indices: 46669826--46669961 Score: 200
Period size: 71 Copynumber: 1.9 Consensus size: 70
46669816 GAATTTGAGG
* * *
46669826 TTTAACTTAGTTGATCTTGTGAGTAGGAATTTTGAAACTTAATGGACCAAAAAAGTAAACAAAAC
1 TTTAACTCAGTTGATCTCGTGAGTAGGAATGTTGAAACTTAATGGACCAAAAAAGTAAACAAAAC
46669891 TTGGA
66 TTGGA
* * * *
46669896 TTTAACTCGGTTGATTCTCGTGAGTAGGAATGTTGAAACTTAGTGGACCAGAAAAGTAAATAAAA
1 TTTAACTCAGTTGA-TCTCGTGAGTAGGAATGTTGAAACTTAATGGACCAAAAAAGTAAACAAAA
46669961 C
65 C
46669962 GAGTCTTCGG
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
70 12 0.21
71 46 0.79
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (70 bp):
TTTAACTCAGTTGATCTCGTGAGTAGGAATGTTGAAACTTAATGGACCAAAAAAGTAAACAAAAC
TTGGA
Found at i:46670073 original size:83 final size:84
Alignment explanation
Indices: 46669915--46670073 Score: 203
Period size: 83 Copynumber: 1.9 Consensus size: 84
46669905 GTTGATTCTC
* * * * * * **
46669915 GTGAGTAGGAATGTTGAAACTTAGTGGACCAGAAAAGTAAATAAAACGAGTCTTCGGATTTGGAG
1 GTGAGTAAGAATATTGAAACTTAGTGAACCAGAAAAATAAATAAAACAAATCTTCAAATTTGGAG
*
46669980 TTTAATTTAATAGGTTCCT
66 TTTAACTTAATAGGTTCCT
* * *
46669999 GTGAGTAAGAATATTGAAATTTAGTGAACCA-AAAAATAAATAAAACAAATTTTCAAATTTGGGG
1 GTGAGTAAGAATATTGAAACTTAGTGAACCAGAAAAATAAATAAAACAAATCTTCAAATTTGGAG
46670063 TTTAACTTAAT
66 TTTAACTTAAT
46670074 TGATTCTGGT
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
83 36 0.57
84 27 0.43
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.31
Consensus pattern (84 bp):
GTGAGTAAGAATATTGAAACTTAGTGAACCAGAAAAATAAATAAAACAAATCTTCAAATTTGGAG
TTTAACTTAATAGGTTCCT
Found at i:46670338 original size:109 final size:109
Alignment explanation
Indices: 46670225--46670492 Score: 378
Period size: 109 Copynumber: 2.5 Consensus size: 109
46670215 TTAGAGTTAC
* * * *
46670225 TCCATTTGATTTATTAATATGATTATTTGAATACACTCGTATTTCAATTTACGTTAATGCTTTAT
1 TCCATTTGATTTATTAATATGATTATTTGAACACACTAGTATTTCAATTTACATTAATGCCTTAT
* * *
46670290 TTGGGAAGGCAACAATGTATTGTAGCAATTGTGTCTAGGTTTAG
66 TTGAGAAGGCAACAAAGTATTGTAGCAATTGTGTCTAGGCTTAG
* * *
46670334 TCCATTTGATTTACTAATATGATCATTTGAACACACTAGTATTTCAATTTATATTAATGCCTTAT
1 TCCATTTGATTTATTAATATGATTATTTGAACACACTAGTATTTCAATTTACATTAATGCCTTAT
* *
46670399 TTGAGAGGGCAACAAAGTATTGTGGCAATTGTGTCTAGGCTTAG
66 TTGAGAAGGCAACAAAGTATTGTAGCAATTGTGTCTAGGCTTAG
* * *
46670443 CCCATTT-AGTTTATTAATATGATTATTT-AACACCCTTGTATTTCAATTTA
1 TCCATTTGA-TTTATTAATATGATTATTTGAACACACTAGTATTTCAATTTA
46670493 TGGTAGTTGT
Statistics
Matches: 141, Mismatches: 17, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
108 21 0.15
109 120 0.85
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (109 bp):
TCCATTTGATTTATTAATATGATTATTTGAACACACTAGTATTTCAATTTACATTAATGCCTTAT
TTGAGAAGGCAACAAAGTATTGTAGCAATTGTGTCTAGGCTTAG
Found at i:46670505 original size:72 final size:73
Alignment explanation
Indices: 46670427--46670565 Score: 199
Period size: 72 Copynumber: 1.9 Consensus size: 73
46670417 ATTGTGGCAA
* *
46670427 TTGTGTCTAGGCTTAGCCCATTTAGTTTATTAATATGATTATTT-AACACCCTTGTATTTCAATT
1 TTGTGTCTAGGCTTAGCCCATTTAGTTTATTAATATGATCATTTGAACACCCTCGTATTTCAATT
46670491 TATGGTAG
66 TATGGTAG
* * * ** *
46670499 TTGTGTCTAGGTTTAGCCCATTTGGTTTATTATTATGATCATTTGAACATGCTCGTATTTTAATT
1 TTGTGTCTAGGCTTAGCCCATTTAGTTTATTAATATGATCATTTGAACACCCTCGTATTTCAATT
46670564 TA
66 TA
46670566 CGTTAACGTT
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
72 40 0.69
73 18 0.31
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (73 bp):
TTGTGTCTAGGCTTAGCCCATTTAGTTTATTAATATGATCATTTGAACACCCTCGTATTTCAATT
TATGGTAG
Found at i:46670698 original size:26 final size:26
Alignment explanation
Indices: 46670669--46670724 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
46670659 TCAAATGATT
46670669 AATATTAAATCGATCGGAAAATTAAG
1 AATATTAAATCGATCGGAAAATTAAG
46670695 AATATTAAATCGATCGGAAAATTAAG
1 AATATTAAATCGATCGGAAAATTAAG
46670721 AATA
1 AATA
46670725 GGATTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.27
Consensus pattern (26 bp):
AATATTAAATCGATCGGAAAATTAAG
Found at i:46687635 original size:80 final size:82
Alignment explanation
Indices: 46687486--46687642 Score: 255
Period size: 80 Copynumber: 1.9 Consensus size: 82
46687476 TAGGAAGGGC
* * *
46687486 TATGTTTATGAGTTACATCTCTAATGATCTACTCAAAAAAAAACTTGGCTATTTTTTAAAAAGAT
1 TATGTTTATAAGTTACATCTCTAATGATCTACTCAAAAAAAAACTTGGCTATTGTATAAAAAGAT
46687551 ATTTAGAATTCAAAAGT
66 ATTTAGAATTCAAAAGT
* *
46687568 TATGTTTATAAGTTGCATCTCTAATGATCTA-T-TAAAAAAAACTTGGCTATTGTATAAAAAGAT
1 TATGTTTATAAGTTACATCTCTAATGATCTACTCAAAAAAAAACTTGGCTATTGTATAAAAAGAT
46687631 ATTTAGAATTCA
66 ATTTAGAATTCA
46687643 GCAAATGAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
80 40 0.57
81 1 0.01
82 29 0.41
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.38
Consensus pattern (82 bp):
TATGTTTATAAGTTACATCTCTAATGATCTACTCAAAAAAAAACTTGGCTATTGTATAAAAAGAT
ATTTAGAATTCAAAAGT
Found at i:46692182 original size:19 final size:21
Alignment explanation
Indices: 46692158--46692197 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
46692148 AGCATAAATT
46692158 ATATAATATA-TAT-AACATA
1 ATATAATATATTATAAACATA
46692177 ATATAATATATTATAAACATA
1 ATATAATATATTATAAACATA
46692198 GAAAATGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 3 0.16
21 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATAATATATTATAAACATA
Found at i:46696371 original size:442 final size:442
Alignment explanation
Indices: 46695547--46696430 Score: 1759
Period size: 442 Copynumber: 2.0 Consensus size: 442
46695537 AAAATGAATG
46695547 GATGGGGTTCCTCATATTTACACGCCTACAAAAGTGGTATTTTTAATGTTTGGCATTACTACGAT
1 GATGGGGTTCCTCATATTTACACGCCTACAAAAGTGGTATTTTTAATGTTTGGCATTACTACGAT
46695612 AAAAAAAAATTTAAGTTATGAAAATAATTTTGAAAATTAACATAAATTAAAAAAATGATTTCACC
66 AAAAAAAAATTTAAGTTATGAAAATAATTTTGAAAATTAACATAAATTAAAAAAATGATTTCACC
46695677 TTAATAATACTTTAATTTAATAATTTTAGAATTTGTAAATATATTATAAGCTAGTATTTTTTATA
131 TTAATAATACTTTAATTTAATAATTTTAGAATTTGTAAATATATTATAAGCTAGTATTTTTTATA
46695742 TATAAAATAAAATATGAAATATAATTTTGTAGATATTATGAAAACATGTTAATATGTGATTATTT
196 TATAAAATAAAATATGAAATATAATTTTGTAGATATTATGAAAACATGTTAATATGTGATTATTT
46695807 AATTGATATAAATGTGCTTTTGATTATCATTTAAGGGATGAAATTAAAATTATTAATTTTGAGAG
261 AATTGATATAAATGTGCTTTTGATTATCATTTAAGGGATGAAATTAAAATTATTAATTTTGAGAG
46695872 GTTAAAATATAGTTTTCATCATGTATTAATTTATGATTTCGTTGTTTTTAAATGACTAAATAATT
326 GTTAAAATATAGTTTTCATCATGTATTAATTTATGATTTCGTTGTTTTTAAATGACTAAATAATT
*
46695937 TTTTTTAATTTTTTGAGGTCAAAAGTGTAATTTTATTATATCTATTAAGTTA
391 TTTTTTAATTTTTTGAGGTCAAAAGTGTAATTTTATTATATATATTAAGTTA
46695989 GATGGGGTTCCTCATATTTACACGCCTACAAAAGTGGTATTTTTAATGTTTGGCATTACTACGAT
1 GATGGGGTTCCTCATATTTACACGCCTACAAAAGTGGTATTTTTAATGTTTGGCATTACTACGAT
46696054 AAAAAAAAATTTAAGTTATGAAAATAATTTTGAAAATTAACATAAATTAAAAAAATGATTTCACC
66 AAAAAAAAATTTAAGTTATGAAAATAATTTTGAAAATTAACATAAATTAAAAAAATGATTTCACC
46696119 TTAATAATACTTTAATTTAATAATTTTAGAATTTGTAAATATATTATAAGCTAGTATTTTTTATA
131 TTAATAATACTTTAATTTAATAATTTTAGAATTTGTAAATATATTATAAGCTAGTATTTTTTATA
46696184 TATAAAATAAAATATGAAATATAATTTTGTAGATATTATGAAAACATGTTAATATGTGATTATTT
196 TATAAAATAAAATATGAAATATAATTTTGTAGATATTATGAAAACATGTTAATATGTGATTATTT
46696249 AATTGATATAAATGTGCTTTTGATTATCATTTAAGGGATGAAATTAAAATTATTAATTTTGAGAG
261 AATTGATATAAATGTGCTTTTGATTATCATTTAAGGGATGAAATTAAAATTATTAATTTTGAGAG
46696314 GTTAAAATATAGTTTTCATCATGTATTAATTTATGATTTCGTTGTTTTTAAATGACTAAATAATT
326 GTTAAAATATAGTTTTCATCATGTATTAATTTATGATTTCGTTGTTTTTAAATGACTAAATAATT
46696379 TTTTTTAATTTTTTGAGGTCAAAAGTGTAATTTTATTATATATATTAAGTTA
391 TTTTTTAATTTTTTGAGGTCAAAAGTGTAATTTTATTATATATATTAAGTTA
46696431 TATATTATTA
Statistics
Matches: 441, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
442 441 1.00
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (442 bp):
GATGGGGTTCCTCATATTTACACGCCTACAAAAGTGGTATTTTTAATGTTTGGCATTACTACGAT
AAAAAAAAATTTAAGTTATGAAAATAATTTTGAAAATTAACATAAATTAAAAAAATGATTTCACC
TTAATAATACTTTAATTTAATAATTTTAGAATTTGTAAATATATTATAAGCTAGTATTTTTTATA
TATAAAATAAAATATGAAATATAATTTTGTAGATATTATGAAAACATGTTAATATGTGATTATTT
AATTGATATAAATGTGCTTTTGATTATCATTTAAGGGATGAAATTAAAATTATTAATTTTGAGAG
GTTAAAATATAGTTTTCATCATGTATTAATTTATGATTTCGTTGTTTTTAAATGACTAAATAATT
TTTTTTAATTTTTTGAGGTCAAAAGTGTAATTTTATTATATATATTAAGTTA
Found at i:46696947 original size:19 final size:20
Alignment explanation
Indices: 46696925--46696978 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
46696915 TTTTTACGGA
* *
46696925 TTTTATATTTTTTTACA-TT
1 TTTTATATTTTTCTAAATTT
*
46696944 TTTTATAATTTTCTAAATTT
1 TTTTATATTTTTCTAAATTT
*
46696964 TTTTATATATTTCTA
1 TTTTATATTTTTCTA
46696979 TATATTCTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTATATTTTTCTAAATTT
Found at i:46697008 original size:19 final size:18
Alignment explanation
Indices: 46696943--46697016 Score: 60
Period size: 19 Copynumber: 3.9 Consensus size: 18
46696933 TTTTTTACAT
*
46696943 TTTTTATAAT-TTTCTAAA
1 TTTTTATAATATTT-TATA
*
46696961 TTTTTTTATATATTTCTATA
1 TTTTTATA-ATATTT-TATA
*
46696981 TATTCTATAATATTTTATGA
1 T-TTTTATAATATTTTAT-A
*
46697001 TTTTTATAAAATTTTA
1 TTTTTATAATATTTTA
46697017 CAACTTTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
18 7 0.15
19 18 0.39
20 16 0.35
21 5 0.11
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (18 bp):
TTTTTATAATATTTTATA
Found at i:46697041 original size:8 final size:9
Alignment explanation
Indices: 46696925--46697080 Score: 54
Period size: 10 Copynumber: 16.3 Consensus size: 9
46696915 TTTTTACGGA
46696925 TTTTAT-AT
1 TTTTATAAT
*
46696933 TTTTTTACATT
1 TTTTATA-A-T
46696944 TTTTATAAT
1 TTTTATAAT
46696953 TTTCTA-AATTT
1 TTT-TATAA--T
46696964 TTTTATATAT
1 TTTTATA-AT
*
46696974 TTCTAT-AT
1 TTTTATAAT
*
46696982 ATTCTATAAT
1 -TTTTATAAT
*
46696992 ATTTTATGAT
1 -TTTTATAAT
*
46697002 TTTTATAAAA
1 TTTTAT-AAT
*
46697012 TTTTACAACT
1 TTTTATAA-T
46697022 TTTT-TACGAT
1 TTTTATA--AT
46697032 TTTTAT-AT
1 TTTTATAAT
*
46697040 TTTTCTAAT
1 TTTTATAAT
* *
46697049 TTTTAACAAG
1 TTTT-ATAAT
46697059 TTTTA-AAT
1 TTTTATAAT
46697067 CTTTTATATAT
1 -TTTTATA-AT
46697078 TTT
1 TTT
46697081 GTTATTAAAA
Statistics
Matches: 113, Mismatches: 15, Indels: 38
0.68 0.09 0.23
Matches are distributed among these distances:
8 16 0.14
9 33 0.29
10 47 0.42
11 16 0.14
12 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:46698887 original size:20 final size:20
Alignment explanation
Indices: 46698832--46698872 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
46698822 CTGAACCCTG
*
46698832 AATCTCGAACTCT-AACTCA
1 AATCTCGAACCCTAAACTCA
46698851 AATCTCGAACCCTAAACTCA
1 AATCTCGAACCCTAAACTCA
46698871 AA
1 AA
46698873 CTCTGAATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.41, C:0.32, G:0.05, T:0.22
Consensus pattern (20 bp):
AATCTCGAACCCTAAACTCA
Found at i:46700311 original size:2 final size:2
Alignment explanation
Indices: 46700304--46700334 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
46700294 TGTATGTATG
*
46700304 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46700335 GTGTGTATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46701476 original size:30 final size:25
Alignment explanation
Indices: 46701441--46701506 Score: 69
Period size: 30 Copynumber: 2.4 Consensus size: 25
46701431 GCAATTAGAC
46701441 CTAAATTTTGAAATATAAAAAGTAAAAGGA
1 CTAAATTTTGAAA-A-AAAAAGT--AA-GA
46701471 CTAAATTCCTTGAAAAAAAAAGTAAGA
1 CTAAATT--TTGAAAAAAAAAGTAAGA
46701498 CTAAATTTT
1 CTAAATTTT
46701507 AATGTACGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
25 2 0.06
27 9 0.26
28 2 0.06
30 14 0.41
31 1 0.03
32 6 0.18
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.29
Consensus pattern (25 bp):
CTAAATTTTGAAAAAAAAAGTAAGA
Found at i:46702133 original size:29 final size:29
Alignment explanation
Indices: 46702091--46702149 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
46702081 TGTTGGTAAA
46702091 TATGGGACCCAAAATAATTCTATTTCAAG
1 TATGGGACCCAAAATAATTCTATTTCAAG
46702120 TATGGGACCCAAAATAATTCTATTTCAAG
1 TATGGGACCCAAAATAATTCTATTTCAAG
46702149 T
1 T
46702150 CATGCTTCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (29 bp):
TATGGGACCCAAAATAATTCTATTTCAAG
Found at i:46710798 original size:15 final size:16
Alignment explanation
Indices: 46710770--46710799 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46710760 TCAAAAAATA
46710770 AATAAAATAATCATAC
1 AATAAAATAATCATAC
46710786 AATAAAA-AATCATA
1 AATAAAATAATCATA
46710800 TAAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAAAATAATCATAC
Found at i:46714624 original size:93 final size:95
Alignment explanation
Indices: 46714507--46714698 Score: 289
Period size: 95 Copynumber: 2.0 Consensus size: 95
46714497 ACTATTTGGC
* * * * *
46714507 AGTTAAGTTTGGCTTCAATTTTCAATTTGGTACTTGAATT-TTTTT-TGCCAATTTGGTACATGA
1 AGTTAAGTTTGGCTTCAATCTTCAATTTGGCACCTAAATTCTTTTTGTCCCAATTTGGTACATGA
* *
46714570 GTTTGGCCACAATGTTCATTTTGGTACCTG
66 GTTTGGCCAAAATGTTCATTTTGGTACCTA
*
46714600 AGTTGAGTTTGGCTTCAATCTTCAATTTGGCACCTAAATTCTTTTTGTCCCAATTTGGTACATGA
1 AGTTAAGTTTGGCTTCAATCTTCAATTTGGCACCTAAATTCTTTTTGTCCCAATTTGGTACATGA
*
46714665 GTTTGGCTAAAATGTTCATTTTGGTACCTA
66 GTTTGGCCAAAATGTTCATTTTGGTACCTA
46714695 AGTT
1 AGTT
46714699 TTTTTGTTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
93 35 0.40
94 5 0.06
95 48 0.55
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (95 bp):
AGTTAAGTTTGGCTTCAATCTTCAATTTGGCACCTAAATTCTTTTTGTCCCAATTTGGTACATGA
GTTTGGCCAAAATGTTCATTTTGGTACCTA
Found at i:46716968 original size:21 final size:19
Alignment explanation
Indices: 46716913--46716964 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
46716903 GGCCACATTT
*
46716913 CAATTGGTTTTTTTAACGG
1 CAATGGGTTTTTTTAACGG
*
46716932 TAATGGGTTTTTTTAACGG
1 CAATGGGTTTTTTTAACGG
*
46716951 CAATGAGTTTTTTT
1 CAATGGGTTTTTTT
46716965 TTAAATGGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.50
Consensus pattern (19 bp):
CAATGGGTTTTTTTAACGG
Found at i:46719018 original size:56 final size:56
Alignment explanation
Indices: 46718958--46719066 Score: 173
Period size: 56 Copynumber: 1.9 Consensus size: 56
46718948 AGTAGTTACG
* *
46718958 TTAGAAATCAAATTGATAAAATATAATACCCCATAATAATATCCTATTATATCCCA
1 TTAGAAATCAAATTGATAAAAGATAATACCCCATAATAATATCCTATAATATCCCA
* * *
46719014 TTAGAAATCAAATTGTTAAGAGATAATATCCCATAATAATATCCTATAATATC
1 TTAGAAATCAAATTGATAAAAGATAATACCCCATAATAATATCCTATAATATC
46719067 TGTTAGAGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.33
Consensus pattern (56 bp):
TTAGAAATCAAATTGATAAAAGATAATACCCCATAATAATATCCTATAATATCCCA
Found at i:46720392 original size:31 final size:29
Alignment explanation
Indices: 46720341--46720400 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 29
46720331 CAATTAGTGG
*
46720341 CTTAAATAAAAACTTAAATTATTTAATGA
1 CTTAAATAAAAACTTAAATTATTCAATGA
*
46720370 CTTAAATGAAAAATTTTAAATTATTCAATGA
1 CTTAAAT-AAAAA-CTTAAATTATTCAATGA
46720401 ATTTTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 7 0.26
30 5 0.19
31 15 0.56
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (29 bp):
CTTAAATAAAAACTTAAATTATTCAATGA
Found at i:46728971 original size:4 final size:4
Alignment explanation
Indices: 46728964--46729030 Score: 134
Period size: 4 Copynumber: 16.8 Consensus size: 4
46728954 ATGCATGCAT
46728964 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
46729012 TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TAT
46729031 ACAGACCATA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:46729586 original size:217 final size:217
Alignment explanation
Indices: 46728989--46729625 Score: 996
Period size: 213 Copynumber: 3.0 Consensus size: 217
46728979 GTATGTATGT
* * * * * * *
46728989 ATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATACAGACCATATTTACCATTAACA
1 ATGTATGTATATATATATGTAGGTATGCATGTATGTATGTATACACACCATATTTTCCATCAACA
* * *
46729054 ATAACACCTAACAATGAGAGTACCATATGGGAGAAAAAACATGCATAGGTTGGTCACCATTTGAA
66 AGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAA
*
46729119 TCAATGCCTATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTC
131 ACAATGCCTATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTC
46729184 TCCTAACATATTTACCACCAAC
196 TCCTAACATATTTACCACCAAC
* * *
46729206 A-G---GTATATATACATGTAGGTATGCATGTATGTGTGTATACACACCATATTTTCCGTCAACA
1 ATGTATGTATATATATATGTAGGTATGCATGTATGTATGTATACACACCATATTTTCCATCAACA
46729267 AGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAA
66 AGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAA
*
46729332 ACAATGCCGATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTC
131 ACAATGCCTATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTC
46729397 TCCTAACATATTTACCACCAAC
196 TCCTAACATATTTACCACCAAC
* *
46729419 ATGTATATATATATATATGTAGGTATGCATGTATGTATGTATACACACCATATTTTCCATCGACA
1 ATGTATGTATATATATATGTAGGTATGCATGTATGTATGTATACACACCATATTTTCCATCAACA
* * * *
46729484 AGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTCGGTGCACTAATTAA
66 AGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGT-CACCATTTGA
** *
46729549 AACAATGCCTATAAGAAATCAAAGGCAT-TAATATCAACTGCAGGCCTATTTAGCAATGACTTTT
130 AACAATGCCTATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTT
* *
46729613 GTCTTAACATATT
195 CTCCTAACATATT
46729626 CATCGATATA
Statistics
Matches: 385, Mismatches: 30, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
213 197 0.51
214 1 0.00
216 1 0.00
217 152 0.39
218 34 0.09
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (217 bp):
ATGTATGTATATATATATGTAGGTATGCATGTATGTATGTATACACACCATATTTTCCATCAACA
AGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAA
ACAATGCCTATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTC
TCCTAACATATTTACCACCAAC
Found at i:46730542 original size:14 final size:13
Alignment explanation
Indices: 46730523--46730552 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
46730513 GAAAAGTGAG
46730523 AAAAAAAGAAAAGA
1 AAAAAAAG-AAAGA
46730537 AAAAAAAGAAAGA
1 AAAAAAAGAAAGA
46730550 AAA
1 AAA
46730553 TTGGAGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAGA
Found at i:46740520 original size:29 final size:29
Alignment explanation
Indices: 46740483--46740543 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
46740473 AGGGTCCCTT
* *
46740483 TAAAA-AAAATTATAAAAT-GTAATACAA
1 TAAAATAAAAATATAAAATAGTAATAAAA
* *
46740510 TAAAATAAAAATATATACTAGTAATAAAA
1 TAAAATAAAAATATAAAATAGTAATAAAA
46740539 TAAAA
1 TAAAA
46740544 AAATTGGAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.18
28 10 0.36
29 13 0.46
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (29 bp):
TAAAATAAAAATATAAAATAGTAATAAAA
Found at i:46747012 original size:118 final size:118
Alignment explanation
Indices: 46746593--46747101 Score: 546
Period size: 117 Copynumber: 4.3 Consensus size: 118
46746583 TGTGATCGAT
* * * * ** *
46746593 GTTT-CAAGTGAATAATTGCAGTTGATTGGTTTGTGATTGCCAGAAAACCGAGTTTAGGGTGTTT
1 GTTTACAAGTGATTTATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCGAGTTTAGGGCGTTT
* * * *
46746657 GAGATATACATATAGGAGTGAAGATTTCAGTCTT-CAACTGTTGGTGAGTTCA
66 GAGATATACATATAGGAGTGAAGATTTTAGTCTTGAAACAGTCGGTGAGTTCA
* * * * * *
46746709 GTTTACGAGTGATTTACTGCATTTGGTTGGTACGTGGTTGCTGGAAAACTGAGTTTAGGGCGTTT
1 GTTTACAAGTGATTTATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCGAGTTTAGGGCGTTT
* * *
46746774 GAGATATACATATAGGAGTGAGGATTTTAGTCTCGAAACA-TCGGTCAGTTCA
66 GAGATATACATATAGGAGTGAAGATTTTAGTCTTGAAACAGTCGGTGAGTTCA
* * * *
46746826 GTTTTCAAGTGAATTATTGCAGTTGGTTGGTAAGTGATTGCTGGAAAACCGAGTTTAGGGCATTT
1 GTTTACAAGTGATTTATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCGAGTTTAGGGCGTTT
** * *
46746891 GAGAT-TAACGCATAGGAGTTAAGATTTTAGTCTTGAAAC-GTCGGTGAGTTCG
66 GAGATAT-ACATATAGGAGTGAAGATTTTAGTCTTGAAACAGTCGGTGAGTTCA
* * * * *
46746943 GTTTACGAGTGAGTTTTTTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCAAGTTTATGGTGTT
1 GTTTACAAGTGA-TTTATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCGAGTTTAGGGCGTT
* ** * * *
46747008 TGAGATTTATGTATGGGAGTGAAGATTTTAGTCTTG-AACAGTTGGTGAGCTT-G
65 TGAGATATACATATAGGAGTGAAGATTTTAGTCTTGAAACAGTCGGTGAG-TTCA
* * **
46747061 GTTTACAAGTGAGTTTTTTTCAGTTGGTTTTTATGTGATTG
1 GTTTACAAGTGA-TTTATTGCAGTTGGTTGGTATGTGATTG
46747102 TTGGGAACTG
Statistics
Matches: 331, Mismatches: 54, Indels: 14
0.83 0.14 0.04
Matches are distributed among these distances:
116 5 0.02
117 199 0.60
118 124 0.37
119 3 0.01
ACGTcount: A:0.25, C:0.09, G:0.29, T:0.37
Consensus pattern (118 bp):
GTTTACAAGTGATTTATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCGAGTTTAGGGCGTTT
GAGATATACATATAGGAGTGAAGATTTTAGTCTTGAAACAGTCGGTGAGTTCA
Found at i:46757117 original size:27 final size:27
Alignment explanation
Indices: 46757070--46757138 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
46757060 TTGAATATAA
*
46757070 TAAATATATTTTTTTAATTTTTTAATTT
1 TAAA-ATAATTTTTTAATTTTTTAATTT
* * *
46757098 TAAAATACTTTTTTATTTTTTTATTTT
1 TAAAATAATTTTTTAATTTTTTAATTT
46757125 TAAAATAATTTTTT
1 TAAAATAATTTTTT
46757139 GGTGTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 33 0.89
28 4 0.11
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (27 bp):
TAAAATAATTTTTTAATTTTTTAATTT
Found at i:46757146 original size:26 final size:27
Alignment explanation
Indices: 46757090--46757148 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
46757080 TTTTTAATTT
* * ** *
46757090 TTTAATTTTAAAATACTTTTTTATTTT
1 TTTATTTTTAAAATAATTTTTTAGGTG
46757117 TTTATTTTTAAAATAATTTTTT-GGTG
1 TTTATTTTTAAAATAATTTTTTAGGTG
46757143 TTTATT
1 TTTATT
46757149 AAAAATGGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (27 bp):
TTTATTTTTAAAATAATTTTTTAGGTG
Found at i:46767242 original size:20 final size:19
Alignment explanation
Indices: 46767217--46767258 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
46767207 TTTTGAGCAA
46767217 TTTAATTTTTCTTT-TATTTT
1 TTTAATTTTT-TTTCT-TTTT
46767237 TTTAATTTTTTTTCTTTTT
1 TTTAATTTTTTTTCTTTTT
46767256 TTT
1 TTT
46767259 CCATTCTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTAATTTTTTTTCTTTTT
Found at i:46772715 original size:21 final size:20
Alignment explanation
Indices: 46772667--46772715 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
46772657 TGTAAAAAAA
*
46772667 TCTTTA-AAAATTTACAAAG
1 TCTTTACAAAATTTACAAAC
*
46772686 TCTTAACAAAATTTATCAAAC
1 TCTTTACAAAATTTA-CAAAC
*
46772707 TTTTTACAA
1 TCTTTACAA
46772716 GGCTTTCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 5 0.21
20 8 0.33
21 11 0.46
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (20 bp):
TCTTTACAAAATTTACAAAC
Found at i:46774119 original size:12 final size:13
Alignment explanation
Indices: 46774102--46774131 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
46774092 AGTTTTTAGT
46774102 TTAGA-TCTACTA
1 TTAGATTCTACTA
46774114 TTAGATTCTACTA
1 TTAGATTCTACTA
46774127 TTAGA
1 TTAGA
46774132 GCTTGTGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (13 bp):
TTAGATTCTACTA
Found at i:46777287 original size:9 final size:9
Alignment explanation
Indices: 46777269--46777309 Score: 50
Period size: 8 Copynumber: 4.8 Consensus size: 9
46777259 TTGGTTTATT
46777269 TAATAATAA
1 TAATAATAA
*
46777278 TAATAGTAA
1 TAATAATAA
46777287 TAATAAT-A
1 TAATAATAA
*
46777295 TAAAAAT-A
1 TAATAATAA
46777303 TAATAAT
1 TAATAAT
46777310 GTTTAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
8 14 0.50
9 14 0.50
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (9 bp):
TAATAATAA
Found at i:46777319 original size:3 final size:3
Alignment explanation
Indices: 46777269--46777309 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
46777259 TTGGTTTATT
* *
46777269 TAA TAA TAA TAA TAG TAA TAA TAA T-A TAA AAA T-A TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
46777310 GTTTAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:46779210 original size:11 final size:11
Alignment explanation
Indices: 46779196--46779242 Score: 69
Period size: 11 Copynumber: 4.3 Consensus size: 11
46779186 ATTTTTTTAA
46779196 TTTTAAAATAT
1 TTTTAAAATAT
*
46779207 TTTTAAAATAC
1 TTTTAAAATAT
46779218 TTTTAAAATACT
1 TTTTAAAATA-T
46779230 TTTTAAAA-AT
1 TTTTAAAATAT
46779240 TTT
1 TTT
46779243 CAAATAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
10 4 0.12
11 21 0.64
12 8 0.24
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:46779233 original size:12 final size:12
Alignment explanation
Indices: 46779196--46779237 Score: 70
Period size: 11 Copynumber: 3.7 Consensus size: 12
46779186 ATTTTTTTAA
46779196 TTTTAAAATA-T
1 TTTTAAAATACT
46779207 TTTTAAAATAC-
1 TTTTAAAATACT
46779218 TTTTAAAATACT
1 TTTTAAAATACT
46779230 TTTTAAAA
1 TTTTAAAA
46779238 ATTTTCAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 21 0.72
12 8 0.28
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:46783111 original size:27 final size:28
Alignment explanation
Indices: 46783053--46783114 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
46783043 TTTAAAAAAA
* * * *
46783053 ATTTAAATAAAGTTTTAAATGGAAATTTT
1 ATTTAAATAAAG-TTAAAATAGAAAATAT
46783082 ATTTAAATAAA-TTAAAATAGAAAATAT
1 ATTTAAATAAAGTTAAAATAGAAAATAT
46783109 ATTTAA
1 ATTTAA
46783115 TTTGACATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 18 0.62
29 11 0.38
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (28 bp):
ATTTAAATAAAGTTAAAATAGAAAATAT
Found at i:46783620 original size:18 final size:19
Alignment explanation
Indices: 46783587--46783634 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
46783577 AAAAAAATAT
*
46783587 TTTTTTAAA-ATAATAATAA
1 TTTTTTAAAGATAATTAT-A
46783606 TTTTGTTAAAGATAATTATA
1 TTTT-TTAAAGATAATTATA
46783626 TTTTTTAAA
1 TTTTTTAAA
46783635 AAATAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 9 0.35
20 10 0.38
21 7 0.27
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (19 bp):
TTTTTTAAAGATAATTATA
Found at i:46783630 original size:21 final size:19
Alignment explanation
Indices: 46783582--46783640 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
46783572 CTGGAAAAAA
46783582 AATATTTTTTTAAAATAAT
1 AATATTTTTTTAAAATAAT
*
46783601 AATAATTTTGTTAAAGATAAT
1 AAT-ATTTTTTTAAA-ATAAT
*
46783622 TATA-TTTTTTAAAA-AAT
1 AATATTTTTTTAAAATAAT
46783639 AA
1 AA
46783641 AAAATAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.12
18 1 0.03
19 11 0.32
20 11 0.32
21 7 0.21
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
AATATTTTTTTAAAATAAT
Found at i:46786619 original size:18 final size:18
Alignment explanation
Indices: 46786596--46786630 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
46786586 TAAATAAATT
*
46786596 TTCTTTTTGATTTTTGTG
1 TTCTTTTTCATTTTTGTG
46786614 TTCTTTTTCATTTTTGT
1 TTCTTTTTCATTTTTGT
46786631 CATTTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.09, G:0.11, T:0.74
Consensus pattern (18 bp):
TTCTTTTTCATTTTTGTG
Found at i:46788747 original size:70 final size:71
Alignment explanation
Indices: 46788647--46788787 Score: 257
Period size: 70 Copynumber: 2.0 Consensus size: 71
46788637 GGTAATTTGT
* *
46788647 ATATTATTTGAGTTATATTTATGTTTAAAGCTTTATTATATATGTACATTTTGGTCTATTAATTA
1 ATATTATTTGAGTTAAAATTATGTTTAAAGCTTTATTATATATGTACATTTTGGTCTATTAATTA
46788712 TTCATG
66 TTCATG
46788718 ATATTATTTGAG-TAAAATTATGTTTAAAGCTTTATTATATATGTACATTTTGGTCTATTAATTA
1 ATATTATTTGAGTTAAAATTATGTTTAAAGCTTTATTATATATGTACATTTTGGTCTATTAATTA
46788782 TTCATG
66 TTCATG
46788788 TAATATAATA
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
70 56 0.82
71 12 0.18
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (71 bp):
ATATTATTTGAGTTAAAATTATGTTTAAAGCTTTATTATATATGTACATTTTGGTCTATTAATTA
TTCATG
Found at i:46793445 original size:58 final size:58
Alignment explanation
Indices: 46793337--46793446 Score: 148
Period size: 58 Copynumber: 1.9 Consensus size: 58
46793327 TTAATATAAC
* * ***
46793337 ATTTAGTATCTGAACTTTACACTTTTTTCTAATTTGGTACCAACTTTTTTTTAGCCCA
1 ATTTAGTACCTGAACTTGACACTTTTTTCTAATTTGGTACCAAAACTTTTTTAGCCCA
* * *
46793395 ATTTGGTACCTGAACTTGACACTTTTTTGTAATTTGGTATCAAAACTTTTTT
1 ATTTAGTACCTGAACTTGACACTTTTTTCTAATTTGGTACCAAAACTTTTTT
46793447 GGGGCCTAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 44 1.00
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (58 bp):
ATTTAGTACCTGAACTTGACACTTTTTTCTAATTTGGTACCAAAACTTTTTTAGCCCA
Found at i:46796387 original size:2 final size:2
Alignment explanation
Indices: 46796380--46796407 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
46796370 GCATGTGTCT
46796380 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46796408 ACAAATTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46798619 original size:39 final size:38
Alignment explanation
Indices: 46798570--46798678 Score: 128
Period size: 38 Copynumber: 2.8 Consensus size: 38
46798560 TGTTGTGGGC
46798570 ATGCCATAAGTCCCTGTACCTTTTTGTAAATTTATCATT
1 ATGCCATAAGTCCCTGTA-CTTTTTGTAAATTTATCATT
* * * **
46798609 ATGTCATAAGTCCTTGTACTTTTTGTAATTTTATTTTT
1 ATGCCATAAGTCCCTGTACTTTTTGTAAATTTATCATT
* ** *
46798647 ATGCCATAAATTTCTGTATTTTTTGTAAATTT
1 ATGCCATAAGTCCCTGTACTTTTTGTAAATTT
46798679 GTCCTTTATT
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
38 42 0.72
39 16 0.28
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (38 bp):
ATGCCATAAGTCCCTGTACTTTTTGTAAATTTATCATT
Found at i:46817420 original size:88 final size:89
Alignment explanation
Indices: 46817315--46817494 Score: 353
Period size: 88 Copynumber: 2.0 Consensus size: 89
46817305 TTATTAATTT
46817315 TATATAAAAAATATAAAAATATTATCGTAATAATATAATTTATTTTGTAATCATTTCTCAATTGA
1 TATATAAAAAATATAAAAATATTATCGTAATAATATAATTTATTTTGTAATCATTTCTCAATTGA
46817380 GTTGATATTATGGTTAAATCGTGA
66 GTTGATATTATGGTTAAATCGTGA
46817404 TATATAAAAAAT-TAAAAATATTATCGTAATAATATAATTTATTTTGTAATCATTTCTCAATTGA
1 TATATAAAAAATATAAAAATATTATCGTAATAATATAATTTATTTTGTAATCATTTCTCAATTGA
46817468 GTTGATATTATGGTTAAATCGTGA
66 GTTGATATTATGGTTAAATCGTGA
46817492 TAT
1 TAT
46817495 CAATTTAGTT
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 79 0.87
89 12 0.13
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (89 bp):
TATATAAAAAATATAAAAATATTATCGTAATAATATAATTTATTTTGTAATCATTTCTCAATTGA
GTTGATATTATGGTTAAATCGTGA
Found at i:46817953 original size:51 final size:51
Alignment explanation
Indices: 46817877--46817979 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
46817867 AACTATCTAT
46817877 AGCCCCTCTCCAACCCTTAAATAGAAGGATAATGCGCTTTAGCCCACTCGA
1 AGCCCCTCTCCAACCCTTAAATAGAAGGATAATGCGCTTTAGCCCACTCGA
*
46817928 AGCCCCTCTCCAACCCTTAAATAGAAGGATAATGCGTTTTAGCCCACTCGA
1 AGCCCCTCTCCAACCCTTAAATAGAAGGATAATGCGCTTTAGCCCACTCGA
46817979 A
1 A
46817980 CCAGCGTCCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (51 bp):
AGCCCCTCTCCAACCCTTAAATAGAAGGATAATGCGCTTTAGCCCACTCGA
Done.