Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 32 of 196
Found at i:9012027 original size:16 final size:17
Alignment explanation
Indices: 9012006--9012037 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9011996 CTATGTATTT
9012006 TGAAAT-TAAAAATATA
1 TGAAATGTAAAAATATA
9012022 TGAAATGTAAAAATAT
1 TGAAATGTAAAAATAT
9012038 GATTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (17 bp):
TGAAATGTAAAAATATA
Found at i:9012570 original size:130 final size:132
Alignment explanation
Indices: 9012409--9012651 Score: 341
Period size: 130 Copynumber: 1.9 Consensus size: 132
9012399 ATATTCAAAA
** * * *
9012409 AAAATTTGAGGGGGGATGGGTTTGGGGTAGAT-GGGGATGAGATGGGAGGGGAGTAAAAGATTTA
1 AAAATTTGAGGGGAAATAGGTTTGGGGTAGATGGGGGATGAGATGGG-GGGCACTAAAAGATTTA
* *
9012473 G-GGGAAAGTGGCAGGGAGTAAAAGTTTTGGGGGGAAA-TAAAAA-GTTTTGAGGGTTTTTAAGG
65 GAGGGAAAGTGG-AAGGAGTAAAAGTTTTGGGGGAAAAGTAAAAATGTTTTGAGGGTTTTTAAGG
9012535 GAGT
129 GAGT
* * *
9012539 AAAATTTTAGGGGAAATAGGTTTGGGGTAGATGGGGGGTGAGATGGGGGGCACTAAAAGTTTTAG
1 AAAATTTGAGGGGAAATAGGTTTGGGGTAGATGGGGGATGAGATGGGGGGCACTAAAAGATTTAG
*
9012604 AGGGAAATTGGAAGGAGTAAAAGTTTTGGGGGAAAAGTAAAAATGTTT
66 AGGGAAAGTGGAAGGAGTAAAAGTTTTGGGGGAAAAGTAAAAATGTTT
9012652 GGGGTAAAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
130 66 0.67
131 28 0.29
132 4 0.04
ACGTcount: A:0.33, C:0.01, G:0.41, T:0.25
Consensus pattern (132 bp):
AAAATTTGAGGGGAAATAGGTTTGGGGTAGATGGGGGATGAGATGGGGGGCACTAAAAGATTTAG
AGGGAAAGTGGAAGGAGTAAAAGTTTTGGGGGAAAAGTAAAAATGTTTTGAGGGTTTTTAAGGGA
GT
Found at i:9012644 original size:20 final size:21
Alignment explanation
Indices: 9012619--9012669 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
9012609 AATTGGAAGG
*
9012619 AGTAAAAGT-TTTGGGGGAAA
1 AGTAAAAATGTTTGGGGGAAA
*
9012639 AGTAAAAATGTTTGGGGTAAA
1 AGTAAAAATGTTTGGGGGAAA
*
9012660 AATATAAAAT
1 AGTA-AAAAT
9012670 ATTATAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 8 0.31
21 13 0.50
22 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.27
Consensus pattern (21 bp):
AGTAAAAATGTTTGGGGGAAA
Found at i:9012661 original size:22 final size:20
Alignment explanation
Indices: 9012619--9012661 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
9012609 AATTGGAAGG
* *
9012619 AGTAAAAGTTTTGGGGGAAA
1 AGTAAAAATTTTGGGGAAAA
9012639 AGTAAAAATGTTTGGGGTAAAA
1 AGTAAAAAT-TTTGGGG-AAAA
9012661 A
1 A
9012662 TATAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 7 0.37
22 4 0.21
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (20 bp):
AGTAAAAATTTTGGGGAAAA
Found at i:9013897 original size:21 final size:21
Alignment explanation
Indices: 9013873--9013925 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
9013863 TAACAAAGGA
9013873 ACCGAAGTGCAAAATAGAGAC
1 ACCGAAGTGCAAAATAGAGAC
** **
9013894 ACCGAAGTGC-TTATAGAGGT
1 ACCGAAGTGCAAAATAGAGAC
9013914 ACCGAAGTGCAA
1 ACCGAAGTGCAA
9013926 TCCCGTACAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (21 bp):
ACCGAAGTGCAAAATAGAGAC
Found at i:9014942 original size:15 final size:16
Alignment explanation
Indices: 9014916--9014945 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9014906 GTGATGGCTT
9014916 TATTTGTTTTATCTTA
1 TATTTGTTTTATCTTA
9014932 TATTT-TTTTATCTT
1 TATTTGTTTTATCTT
9014946 GTTTTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.73
Consensus pattern (16 bp):
TATTTGTTTTATCTTA
Found at i:9014961 original size:25 final size:24
Alignment explanation
Indices: 9014914--9014961 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
9014904 AGGTGATGGC
*
9014914 TTTATTTGTTTTATCTTATATTTT
1 TTTATTTGTTTTATATTATATTTT
9014938 TTTATCTTGTTTTATTATTA-ATTT
1 TTTAT-TTGTTTTA-TATTATATTT
9014962 AATATTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 12 0.57
26 4 0.19
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (24 bp):
TTTATTTGTTTTATATTATATTTT
Found at i:9016155 original size:17 final size:17
Alignment explanation
Indices: 9016125--9016168 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
9016115 TTTTGTTAGT
9016125 TTTTG-TTT-TTATTTA
1 TTTTGTTTTATTATTTA
9016140 TTTTGTTTTATTATTTA
1 TTTTGTTTTATTATTTA
*
9016157 TTTTCTTTTATT
1 TTTTGTTTTATT
9016169 CACGATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 5 0.19
16 3 0.12
17 18 0.69
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.80
Consensus pattern (17 bp):
TTTTGTTTTATTATTTA
Found at i:9018869 original size:38 final size:38
Alignment explanation
Indices: 9018818--9018895 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
9018808 TTTTGCCCTA
9018818 AAGGTCCAAGGTATCAATACCTAGCTTAATTGTTGCGG
1 AAGGTCCAAGGTATCAATACCTAGCTTAATTGTTGCGG
9018856 AAGGTCCAAGGTATCAATACCTAGCTTAATTGTTGCGG
1 AAGGTCCAAGGTATCAATACCTAGCTTAATTGTTGCGG
9018894 AA
1 AA
9018896 CAACTGAGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (38 bp):
AAGGTCCAAGGTATCAATACCTAGCTTAATTGTTGCGG
Found at i:9020022 original size:20 final size:20
Alignment explanation
Indices: 9019997--9020061 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
9019987 GTTGTATTGG
9019997 TACTTCTCTAGAGGTACCTA
1 TACTTCTCTAGAGGTACCTA
* * * *
9020017 TACTTCACCCACAAGGTACCTG
1 TACTTC-TCTA-GAGGTACCTA
9020039 TACTTCT-TCAGAGGTACCTA
1 TACTTCTCT-AGAGGTACCTA
9020059 TAC
1 TAC
9020062 CTCTATTCAG
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
20 17 0.50
21 3 0.09
22 14 0.41
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (20 bp):
TACTTCTCTAGAGGTACCTA
Found at i:9027685 original size:45 final size:44
Alignment explanation
Indices: 9027383--9028541 Score: 696
Period size: 44 Copynumber: 25.7 Consensus size: 44
9027373 ATTAAAGTTT
* * * *
9027383 CAAATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATCGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA
* * ** * * * *
9027427 GCAAATCTTCTTTATCTAAAGTTGCAGTAGAGCAGATTGAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA
* * * * *
9027472 AAAATCTTATCTCTCTGAAGTTGTAGT-AAAGCAGATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTGAAGATA
* ** * * *
9027516 CAAATCTTATCTCCCTAAAGTTATAGTAGAGCAGATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA
* * ** *
9027560 CAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA
* * * *
9027604 CAAATCTCATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA
* * * * *
9027648 GCGAATCTTATTTCCCTAAAGTTGTAGTGGAACAGATTAAAGCTACTAATTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG------A-TA
* * *
9027700 CAAATCTTATTTTCCTGAAGTTGCAGT-GAAGCAGATTGAATATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTGAAGATA
* * * * *
9027744 CTAATCTTATTTCTCTGAAGTTACAGTGGAACAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATT---G----AAGATA
* * ** *
9027795 CAAATCTTATCTCCCTAAAGTGGCAGTGGAGTAGATTGAAGATG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA
* * * * * *
9027839 CGAATCTTATTTCCCTGGAGTTGCAGTGTAATAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATT---G----AAGATA
* * * *
9027890 TAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTAGATAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGAT-A
* * * * *
9027935 CAAATCTTATCTCTCTGAAGTGGCAGTAGAGCAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA
* * *
9027979 CAAAACTTATCTCTCTGAAGTTGCAGT-GAAGCAGATTGTAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTGAAGATA
* *** * * * * * * *
9028023 GAAAATCTTATCAATCTAAAGGTGAAGTAGAGCATATTGAATATA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA
** * * * *
9028068 GTGAATCTTATCTCCCTTAATTTTCAATGGAACAGATTGAAGATA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA
** * * * *
9028113 GTGAATCTTATCTCCCTTAATTTTCAATGGAACAGATTGAAGATA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA
** * * *
9028158 GTGAATCTTATTTCCCTGAAGTTACAGTGGAGCAGATTGAAGATA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA
* * * * * *
9028203 GTAAATCTTATTTCCCTGAAGTGGTAGTGGAACAGATTAAAGTTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA
* * * * * * *
9028248 CAAGT-TACATCTCCCTAAAGTTGCTGTGGAGCATATTGAAGTTA
1 CAAATCT-TATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA
* * * ** *
9028292 CAAATCTTATCTCCCTAAATTTGTAGTAAAACGGATTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA
* * *
9028336 GCAAATCTTATCTCCTTGAAGTTGCAATGGAACAGATTGAAGTTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA
* ** *
9028381 CAAATCTTATCTCCATGAAGTTGCAGTGGAGTAGATT-AAAATTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGA-TA
* * * * * * *
9028425 CAAATCTCATCCCCCTAAAGTTGCAGT-GAAGCAGAATAAAGCTG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTGAAGATA
* * ** *
9028469 CAAATCTAATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGCA-A
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG-ATA
* *
9028513 CAAATTTTATAC-CTCTGAAGTTGCAGTGG
1 CAAATCTTAT-CTCCCTGAAGTTGCAGTGG
9028542 GTTAGAATGA
Statistics
Matches: 889, Mismatches: 186, Indels: 79
0.77 0.16 0.07
Matches are distributed among these distances:
43 8 0.01
44 435 0.49
45 337 0.38
46 2 0.00
47 2 0.00
48 2 0.00
50 3 0.00
51 98 0.11
52 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA
Found at i:9027735 original size:51 final size:49
Alignment explanation
Indices: 9027651--9027981 Score: 210
Period size: 51 Copynumber: 6.9 Consensus size: 49
9027641 GAAGATAGCG
* *
9027651 AATCTTATTTCCCTAAAGTTGTAGTGGAACAGATTAAAGCTACTAATTACA
1 AATCTTATTTCCCTGAAGTTGCAGT-GAACAGATTAAAGCTAC-AATTACA
* * *
9027702 AATCTTATTTTCCTGAAGTTGCAGTGAAGCAGATTGAA--T---A-TACT
1 AATCTTATTTCCCTGAAGTTGCAGTGAA-CAGATTAAAGCTACAATTACA
* *
9027746 AATCTTATTTCTCTGAAGTTACAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATTTCCCTGAAGTTGCAGT-GAACAGATTAAAGCTACAA-TTACA
* * * ** * * *
9027797 AATCTTATCTCCCTAAAGTGGCAGTGGAGTAGATTGAAG-----A-TGCG
1 AATCTTATTTCCCTGAAGTTGCAGT-GAACAGATTAAAGCTACAATTACA
* * *
9027841 AATCTTATTTCCCTGGAGTTGCAGTGTAATAGATTAAAGCTACAAGTTATA
1 AATCTTATTTCCCTGAAGTTGCAGTG-AACAGATTAAAGCTACAA-TTACA
* * * *
9027892 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT---G-TA-GATAACA
1 AATCTTATTTCCCTGAAGTTGCAGT-GAACAGATTAAAGCTACAATTACA
* * * * *
9027937 AATCTTATCTCTCTGAAGTGGCAGTAGAGCAGATTGAAGCTACAA
1 AATCTTATTTCCCTGAAGTTGCAGT-GAACAGATTAAAGCTACAA
9027982 AACTTATCTC
Statistics
Matches: 218, Mismatches: 39, Indels: 47
0.72 0.13 0.15
Matches are distributed among these distances:
43 1 0.00
44 66 0.30
45 40 0.18
46 3 0.01
47 2 0.01
48 2 0.01
49 5 0.02
50 4 0.02
51 94 0.43
52 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (49 bp):
AATCTTATTTCCCTGAAGTTGCAGTGAACAGATTAAAGCTACAATTACA
Found at i:9027783 original size:95 final size:95
Alignment explanation
Indices: 9027510--9028515 Score: 543
Period size: 89 Copynumber: 11.0 Consensus size: 95
9027500 AAGCAGATTG
* ** * * *
9027510 AAGTTACAAATCTTATCTCCCTAAAGTTATAGT-AGAGCAGATTGAAGTTACAAATCTTATCTCC
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTGAAGATACGAATCTTATTTCC
* * **
9027574 CTAAAGTTACAGTGGAGTAGATT---G----
65 CTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * *
9027598 AAGTTACAAATCTCATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCC
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATA-CGAATCTTATTTCC
* *
9027663 CTAAAGTTGTAGTGGAACAGATTAAAGCTAC
65 CTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * * *
9027694 TAA-TTACAAATCTTATTTTCCTGAAGTTGCAGTGAAGCAGATTGAATATACTAATCTTATTTCT
1 -AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATACGAATCTTATTTCC
*
9027758 CTGAAGTTACAGTGGAACAGATTAAAGCTAC
65 CTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * * *
9027789 AAGTTACAAATCTTATCTCCCTAAAGTGGCAGTGGAGTAGATTGAAGATGCGAATCTTATTTCCC
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATACGAATCTTATTTCCC
* * *
9027854 TGGAGTTGCAGTGTAATAGATTAAAGCTAC
66 TGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * *
9027884 AAGTTATAAATCTTATCTCCCTGAAGTTGCAGT-AGAGCAGATTGTAGATAACAAATCTTATCTC
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTGAAGAT-ACGAATCTTATTTC
* * * * *
9027948 TCTGAAGTGGCAGTAGAGCAGATTGAAGCTAC
64 CCTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * ***
9027980 -----A-AAA-CTTATCTCTCTGAAGTTGCAGTGAAGCAGATTGTAGATA-GAAAATCTTATCAA
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATACG--AATCTTATTTC
* * * * * * * *
9028037 TCTAAAGGTGAAGTAGAGCATATTGAA--TA-
64 CCTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * * * * * *
9028066 TAG-T--GAATCTTATCTCCCTTAATTTTCAATGGAA-CAGATTGAAGATAGTGAATCTTATCTC
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAGATA-CGAATCTTATTTC
* * * * *
9028127 CCTTAATTTTCAATGGAACAGATTGAAG--A-
64 CCTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * * *
9028156 TAG-T--GAATCTTATTTCCCTGAAGTTACAGTGGAGCAGATTGAAGATA-GTAAATCTTATTTC
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATACG--AATCTTATTTC
* * *
9028217 CCTGAAGTGGTAGTGGAACAGATTAAAGTTAC
64 CCTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * * * * *
9028249 AAGTT----A-C--ATCTCCCTAAAGTTGCTGTGGAGCATATTGAAGTTACAAATCTTATCTCCC
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATACGAATCTTATTTCCC
* * * ** * *
9028307 TAAATTTGTAGTAAAACGGATTGAAG--A-
66 TGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * * * *
9028334 TAG---CAAATCTTATCTCCTTGAAGTTGCAATGGAA-CAGATTGAAGTTACAAATCTTATCTCC
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAGATACGAATCTTATTTCC
* **
9028395 ATGAAGTTGCAGTGGAGTAGATT--A---A-
65 CTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * * * * * * * * *
9028420 AA-TTACAAATCTCATCCCCCTAAAGTTGCAGTGAAGCAGAATAAAGCTGCAAATCTAATCTCTC
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATACGAATCTTATTTCCC
** *
9028484 TGAAGTTGCAGTGGAGTAGATTAAAGCAAC
66 TGAAGTTGCAGTGGAACAGATTAAAGCTAC
9028514 AA
1 AA
9028516 ATTTTATACC
Statistics
Matches: 726, Mismatches: 142, Indels: 94
0.75 0.15 0.10
Matches are distributed among these distances:
85 2 0.00
86 4 0.01
87 7 0.01
88 141 0.19
89 186 0.26
90 132 0.18
91 5 0.01
92 4 0.01
93 3 0.00
94 5 0.01
95 160 0.22
96 75 0.10
97 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (95 bp):
AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATACGAATCTTATTTCCC
TGAAGTTGCAGTGGAACAGATTAAAGCTAC
Found at i:9027940 original size:235 final size:219
Alignment explanation
Indices: 9027367--9028505 Score: 685
Period size: 221 Copynumber: 5.0 Consensus size: 219
9027357 AGTTGCAAAA
* * * * * * ** *
9027367 GAGTAGATTAAAGTTTCAAATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATCGAAGATAGCAAA
1 GAGTAGATTGAAGATACAAATCTCATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGATAGCGAA
* * ** * * *
9027432 TCTTCTTTATCTAAAGTTGCAGTAGAGCAGATTGAAGCTAA-AAATCTTATCTCTCTGAAGTTGT
66 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGTAGATAACAAATCTTATCTCTCTGAAGTTGC
* * * *
9027496 AGTAAAGCAGATTGAAGTTACAAATCTTATCTCCCTAAAGTTATAGTAGAGCAGATTGAAGTTAC
131 AGT-AAGCAGATTGAA-TTACAAATCTTATCTCTCTGAAGTTACAGT-GAACAGATTGAAGTTAC
*
9027561 AAATCTTATCTCCCTAAAGTTACAGTG
193 AAATCTTATCTCCCTAAAGTGACAGTG
* * * *
9027588 GAGTAGATTGAAGTTACAAATCTCATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAA
1 GAGTAGATTGAAGATACAAATCTCATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGATAGCGAA
* * * * * * *
9027653 TCTTATTTCCCTAAAGTTGTAGTGGAACAGATTAAAGCTACTAATTACAAATCTTAT-TTTCCTG
66 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATT---G-TA--GATAACAAATCTTATCTCT-CTG
* *
9027717 AAGTTGCAGTGAAGCAGATTGAATATACTAATCTTATTTCTCTGAAGTTACAGTGGAACAGATTA
124 AAGTTGCAGT-AAGCAGATTGAAT-TACAAATCTTATCTCTCTGAAGTTACAGT-GAACAGATT-
*
9027782 AAGCTACAAGTTACAAATCTTATCTCCCTAAAGTGGCAGTG
185 --G----AAGTTACAAATCTTATCTCCCTAAAGTGACAGTG
* * * * ** * * *
9027823 GAGTAGATTGAAGATGCGAATCTTATTTCCCTGGAGTTGCAGTGTAATAGATTAAAGCTA-CAAG
1 GAGTAGATTGAAGATACAAATCTCATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGATAGC--G
*
9027887 TTATAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTAGATAACAAATCTTATCTCTCTG
64 -----AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGTAGATAACAAATCTTATCTCTCTG
* * * *
9027952 AAGTGGCAGTAGAGCAGATTGAAGCTACAAAACTTATCTCTCTGAAGTTGCAGTGAAGCAGATTG
124 AAGTTGCAGTA-AGCAGATTGAA-TTACAAATCTTATCTCTCTGAAGTTACAGTGAA-CAGATTG
* * * *** *
9028017 TAGATAGAAAATCTTATCAATCTAAAGGTGA-AGTA
186 AAGTTA-CAAATCTTATCTCCCTAAA-GTGACAGTG
* * * ** * * * * * * *
9028052 GAGCATATTGAATATAGTGAATCTTATCTCCCTTAATTTTCAATGGAACAGATTGAAGATAGTGA
1 GAGTAGATTGAAGATA-CAAATCTCATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGATAGCGA
* * * * * * * *** * * *
9028117 ATCTTATCTCCCTTAATTTTCAATGGAACAGATTGAAGATAGTGAATCTTATTTCCCTGAAGTTA
65 ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGTAGATAACAAATCTTATCTCTCTGAAGTTG
* * * * * *** *
9028182 CAGTGGAGCAGATTGAAGATAGTAAATCTTATTTCCCTGAAGTGGTAGTGGAACAGATTAAAGTT
130 CAGT-AAGCAGATTGAA-TTA-CAAATCTTATCTCTCTGAAGTTACAGT-GAACAGATTGAAGTT
* * *
9028247 ACAAGT-TACATCTCCCTAAAGTTG-CTGTG
191 ACAAATCT-TATCTCCCTAAAG-TGACAGTG
* * * * * * ** * * *
9028276 GAGCATATTGAAGTTACAAATCTTATCTCCCTAAATTTGTAGTAAAACGGATTGAAGATAGCAAA
1 GAGTAGATTGAAGATACAAATCTCATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGATAGCGAA
* * * * * * *
9028341 TCTTATCTCCTTGAAGTTGCAATGGAACAGATTGAAG-TTACAAATCTTATCTC-CATGAAGTTG
66 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGTAGATAACAAATCTTATCTCTC-TGAAGTTG
* * * * * * * * * * * *
9028404 CAGTGGAGTAGATTAAAATTACAAATCTCATCCCCCTAAAGTTGCAGTGAAGCAGAATAAAGCTG
130 CAGT-AAGCAGATT-GAATTACAAATCTTATCTCTCTGAAGTTACAGTGAA-CAGATTGAAGTTA
* * *
9028469 CAAATCTAATCTCTCTGAAGTTG-CAGTG
192 CAAATCTTATCTCCCTAAAG-TGACAGTG
9028497 GAGTAGATT
1 GAGTAGATT
9028506 AAAGCAACAA
Statistics
Matches: 723, Mismatches: 154, Indels: 82
0.75 0.16 0.09
Matches are distributed among these distances:
220 3 0.00
221 146 0.20
222 34 0.05
223 75 0.10
224 100 0.14
225 32 0.04
226 3 0.00
227 5 0.01
228 69 0.10
229 31 0.04
230 36 0.05
231 1 0.00
232 1 0.00
234 5 0.01
235 146 0.20
236 3 0.00
237 2 0.00
238 1 0.00
241 30 0.04
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (219 bp):
GAGTAGATTGAAGATACAAATCTCATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGATAGCGAA
TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGTAGATAACAAATCTTATCTCTCTGAAGTTGC
AGTAAGCAGATTGAATTACAAATCTTATCTCTCTGAAGTTACAGTGAACAGATTGAAGTTACAAA
TCTTATCTCCCTAAAGTGACAGTG
Found at i:9028342 original size:133 final size:133
Alignment explanation
Indices: 9028192--9028443 Score: 326
Period size: 133 Copynumber: 1.9 Consensus size: 133
9028182 CAGTGGAGCA
* * * * *
9028192 GATTGAAGATAGTAAATCTTATTTCCCTGAAGTGGTAGTGGAACAGATTAAAGTTACAAGT-TAC
1 GATTGAAGATAGCAAATCTTATCTCCCTGAAGTGGCAATGGAACAGATTAAAGTTACAAATCT-C
* * * * * * *
9028256 ATCTCCCTAAAGTTGCTGTGGAGCATATTGAAGTTACAAATCTTATCTCCCTAAATTTGTAGTAA
65 ATCTCCATAAAGTTGCAGTGGAGCAGATTAAAATTACAAATCTCATCCCCCTAAATTTGTAGTAA
9028321 AACG
130 AACG
* * * *
9028325 GATTGAAGATAGCAAATCTTATCTCCTTGAAGTTGCAATGGAACAGATTGAAGTTACAAATCTTA
1 GATTGAAGATAGCAAATCTTATCTCCCTGAAGTGGCAATGGAACAGATTAAAGTTACAAATCTCA
* *
9028390 TCTCCATGAAGTTGCAGTGGAGTAGATTAAAATTACAAATCTCATCCCCCTAAA
66 TCTCCATAAAGTTGCAGTGGAGCAGATTAAAATTACAAATCTCATCCCCCTAAA
9028444 GTTGCAGTGA
Statistics
Matches: 100, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
133 99 0.99
134 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (133 bp):
GATTGAAGATAGCAAATCTTATCTCCCTGAAGTGGCAATGGAACAGATTAAAGTTACAAATCTCA
TCTCCATAAAGTTGCAGTGGAGCAGATTAAAATTACAAATCTCATCCCCCTAAATTTGTAGTAAA
ACG
Found at i:9028509 original size:44 final size:43
Alignment explanation
Indices: 9027891--9028541 Score: 300
Period size: 45 Copynumber: 14.6 Consensus size: 43
9027881 TACAAGTTAT
* ** *
9027891 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTAGATAAC
1 AAATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAAGCT-AC
* * *
9027936 AAATCTTATCTCTCTGAAGTGGCAGTAGAGCAGATTGAAGCTAC
1 AAATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * ** * *
9027980 AAAACTTATCTCTCTGAAGTTGCAGTGAAGCAGATTGTAGATAGA
1 AAATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAAGCTA-C
* * * * * * ** *
9028025 AAATCTTATCAAT-CTAAAGGTGAAGTAGAGCATATTGAATATAGT
1 AAATCTTATC--TCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-C
* * * * * * * * *
9028070 GAATCTTATCTCCCTTAATTTTCAATGGAACAGATTGAAGATAGT
1 AAATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-C
* * * * * * * * *
9028115 GAATCTTATCTCCCTTAATTTTCAATGGAACAGATTGAAGATAGT
1 AAATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-C
* * * * * *
9028160 GAATCTTATTTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGT
1 AAATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-C
* * * * *
9028205 AAATCTTATTTCCCTGAAGTGGTAGTGGAACAGATTAAAGTTAC
1 AAATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * * * * *
9028249 AAGT-TACATCTCCCTAAAGTTGCTGTGGAGCATATTGAAGTTAC
1 AAATCT-TATCT-CCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * ** * * * *
9028293 AAATCTTATCTCCCTAAATTTGTAGTAAAACGGATTGAAGATAGC
1 AAATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-C
* * * *
9028338 AAATCTTATCTCCTTGAAGTTGCAATGGAACAGATTGAAGTTAC
1 AAATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* **
9028382 AAATCTTATCTCCATGAAGTTGCAGTGGAGTAGATTAAAATTAC
1 AAATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * * * *
9028426 AAATCTCATCCCCCTAAAGTTGCAGTGAAGCAGAATAAAGCTGC
1 AAATCTTAT-CTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * *
9028470 AAATCTAATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGCAAC
1 AAATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
*
9028514 AAATTTTATAC-CTCTGAAGTTGCAGTGG
1 AAATCTTAT-CTC-CTGAAGTTGCAGTGG
9028542 GTTAGAATGA
Statistics
Matches: 494, Mismatches: 99, Indels: 27
0.80 0.16 0.04
Matches are distributed among these distances:
43 4 0.01
44 231 0.47
45 258 0.52
47 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (43 bp):
AAATCTTATCTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
Found at i:9029174 original size:14 final size:14
Alignment explanation
Indices: 9029144--9029190 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
9029134 TTGAAAACAA
* *
9029144 AAAAAAAG-GGAAG
1 AAAAAAAGAGAAAT
9029157 AAAAAAAGA-AAAT
1 AAAAAAAGAGAAAT
*
9029170 AAAAAAAGAGATAT
1 AAAAAAAGAGAAAT
9029184 AAAAAAA
1 AAAAAAA
9029191 CACCACAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 19 0.66
14 10 0.34
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (14 bp):
AAAAAAAGAGAAAT
Found at i:9030046 original size:13 final size:14
Alignment explanation
Indices: 9030027--9030063 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
9030017 ACTTTGATCC
9030027 TTTATTTTATTTTA
1 TTTATTTTATTTTA
9030041 -TTATTTTA-TTTA
1 TTTATTTTATTTTA
9030053 TTTATTTTATT
1 TTTATTTTATT
9030064 ATTTTTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.19
13 16 0.76
14 1 0.05
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:9030272 original size:21 final size:22
Alignment explanation
Indices: 9030247--9030296 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
9030237 ATGTTGTTCA
*
9030247 TATTTATACA-TTTTCGCTCAT
1 TATTTATACATTTTTCACTCAT
*
9030268 TATTTGTACATTTTTCACTCAT
1 TATTTATACATTTTTCACTCAT
9030290 TATTTAT
1 TATTTAT
9030297 TTATATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (22 bp):
TATTTATACATTTTTCACTCAT
Found at i:9031845 original size:9 final size:9
Alignment explanation
Indices: 9031831--9031856 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9031821 ACTACCCAAC
9031831 CTATGTTGT
1 CTATGTTGT
9031840 CTATGTTGT
1 CTATGTTGT
9031849 CTATGTTG
1 CTATGTTG
9031857 AATAATTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.23, T:0.54
Consensus pattern (9 bp):
CTATGTTGT
Found at i:9031874 original size:24 final size:24
Alignment explanation
Indices: 9031842--9031890 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
9031832 TATGTTGTCT
9031842 ATGTTGTCTATGTTGAATAATTAG
1 ATGTTGTCTATGTTGAATAATTAG
9031866 ATGTTGTCTATGTTGAATAATTAG
1 ATGTTGTCTATGTTGAATAATTAG
9031890 A
1 A
9031891 GTATTAGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.45
Consensus pattern (24 bp):
ATGTTGTCTATGTTGAATAATTAG
Found at i:9035252 original size:64 final size:64
Alignment explanation
Indices: 9035128--9035254 Score: 175
Period size: 64 Copynumber: 2.0 Consensus size: 64
9035118 CATTTCCTCC
* *
9035128 GCTCGTGTGATCCTTATTTTGTAATCAATGAGTTACACTGCCTAGACACATGCCCATGTCCTTG
1 GCTCGTGTGATCCTTATTTTGTAATCAATGAGTTACACTGCCAAGACACACGCCCATGTCCTTG
* * * * *
9035192 GCTCTTGTGATCCTTATTTTGTAATCAGTGAGTTACA-TGGCCAAGACATACGCTCGTGTCCTT
1 GCTCGTGTGATCCTTATTTTGTAATCAATGAGTTACACT-GCCAAGACACACGCCCATGTCCTT
9035255 AGCCCATGTA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
63 1 0.02
64 54 0.98
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (64 bp):
GCTCGTGTGATCCTTATTTTGTAATCAATGAGTTACACTGCCAAGACACACGCCCATGTCCTTG
Found at i:9035880 original size:12 final size:12
Alignment explanation
Indices: 9035834--9035895 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
9035824 TGGTAAAAGC
*
9035834 AAAAGAAAATGA
1 AAAAGAAAAGGA
* *
9035846 AATATGAAAATGA
1 AA-AAGAAAAGGA
*
9035859 AGAAGAAAAAGGA
1 AAAAG-AAAAGGA
9035872 AAAAGAAAAGGA
1 AAAAGAAAAGGA
**
9035884 ACTAGAAAAGGA
1 AAAAGAAAAGGA
9035896 GAGGGAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 21 0.51
13 20 0.49
ACGTcount: A:0.68, C:0.02, G:0.23, T:0.08
Consensus pattern (12 bp):
AAAAGAAAAGGA
Found at i:9036228 original size:8 final size:8
Alignment explanation
Indices: 9036215--9036248 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
9036205 ACTGGAACTC
9036215 AACACTTA
1 AACACTTA
9036223 AACACTTA
1 AACACTTA
9036231 AACACTTA
1 AACACTTA
9036239 AACACTTA
1 AACACTTA
9036247 AA
1 AA
9036249 ATTTTTGGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (8 bp):
AACACTTA
Found at i:9036395 original size:13 final size:13
Alignment explanation
Indices: 9036379--9036435 Score: 51
Period size: 15 Copynumber: 4.0 Consensus size: 13
9036369 ATTTTGAATT
9036379 AAAATTATAAATA
1 AAAATTATAAATA
* *
9036392 AAAATAATAAGTTTA
1 AAAATTATAA--ATA
9036407 AAAATTATCAAATA
1 AAAATTAT-AAATA
9036421 AAATATTATTAAATA
1 AAA-ATTA-TAAATA
9036436 TTTAATTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 9 0.26
14 5 0.14
15 18 0.51
16 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (13 bp):
AAAATTATAAATA
Found at i:9038945 original size:29 final size:31
Alignment explanation
Indices: 9038890--9038947 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
9038880 CAAAAAAATA
*
9038890 AAAAATTATTTTTTAAAAATTATAAAATTGT
1 AAAAATTATTTTTTAAAAATTAAAAAATTGT
**
9038921 AAAAA-TA-TTTTTAAATTTTAAAAAATT
1 AAAAATTATTTTTTAAAAATTAAAAAATT
9038948 AATTAATTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 17 0.71
30 2 0.08
31 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (31 bp):
AAAAATTATTTTTTAAAAATTAAAAAATTGT
Found at i:9041109 original size:19 final size:19
Alignment explanation
Indices: 9041081--9041117 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9041071 TGAAACATGA
*
9041081 AATGGGATGATAATGAAAC
1 AATGGAATGATAATGAAAC
9041100 AATGGAATGATAATGAAA
1 AATGGAATGATAATGAAA
9041118 TAGAAGTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.24, T:0.22
Consensus pattern (19 bp):
AATGGAATGATAATGAAAC
Found at i:9041825 original size:19 final size:18
Alignment explanation
Indices: 9041797--9041842 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
9041787 AAAAGTTTTA
9041797 TAAT-TTTTTTATAAACTT
1 TAATATTTTTTA-AAACTT
*
9041815 TAATATTTTTTAAAATTT
1 TAATATTTTTTAAAACTT
9041833 TAAATATTTT
1 T-AATATTTT
9041843 AAATAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TAATATTTTTTAAAACTT
Found at i:9041872 original size:41 final size:40
Alignment explanation
Indices: 9041819--9041897 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 40
9041809 AAACTTTAAT
9041819 ATTTTTTAAAATTTT-AAATATTTTAAATAATTTTTATATG
1 ATTTTTTAAAATTTTCAAAT-TTTTAAATAATTTTTATATG
* * *
9041859 ATTTTCTTGAAATTTTCAAATTTTTAATTATTTTTTATA
1 ATTTT-TTAAAATTTTCAAATTTTTAAATAATTTTTATA
9041898 ATTTTAAACG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 5 0.15
41 25 0.74
42 4 0.12
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (40 bp):
ATTTTTTAAAATTTTCAAATTTTTAAATAATTTTTATATG
Found at i:9042099 original size:9 final size:9
Alignment explanation
Indices: 9042087--9042113 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
9042077 ATTTTATAGT
9042087 TTTTTGAAA
1 TTTTTGAAA
9042096 TTTTTGAAA
1 TTTTTGAAA
9042105 TTTTTGAAA
1 TTTTTGAAA
9042114 AAAATCCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (9 bp):
TTTTTGAAA
Found at i:9052565 original size:44 final size:44
Alignment explanation
Indices: 9052427--9052567 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 44
9052417 AATAGCAGAT
* *
9052427 CTTGCTTTCCTGCACCGACAGTAAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGC
* * ** * * ** * * * *
9052471 CTTACCTCCCTG-AGTTG-CAGTGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCCTGCA-CCGACAGTGAAGCAGATCGAAGACACCAG-C
*
9052515 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGC
9052559 CTTGCCTTC
1 CTTGCCTTC
9052568 TTGGGTTGCA
Statistics
Matches: 66, Mismatches: 27, Indels: 8
0.65 0.27 0.08
Matches are distributed among these distances:
43 18 0.27
44 30 0.45
45 18 0.27
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (44 bp):
CTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGC
Found at i:9052710 original size:177 final size:176
Alignment explanation
Indices: 9052413--9052912 Score: 691
Period size: 177 Copynumber: 2.8 Consensus size: 176
9052403 AACAGATCAG
* * * * *
9052413 TAAAAATAGCAGATCTTGCTTTCCTGCACCGACAG-TAAAGCAGATCGAAGACACCAGCCTTACC
1 TAAAAATAGTAGATCTTGCCTTCCTACACCGACAGCGAAA-CAGATCGAAGACACCAGCCTTGCC
* *
9052477 TCCCT-GAGTTGCAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAG
65 TCCCTAG-GTTGCAGCGGAACAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAG
* * * *
9052541 CAGATCGAAGACACCAGCCTTGCCTTCTTGGGTTGCAGCAGAGCAAGT
129 CAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCAGAACAAGT
* *
9052589 TAAAAAATAATAGATCTTGCCTTCCTACACCGATAGCGAAACAGATCGAAGACACCAGCCTTGCC
1 T-AAAAATAGTAGATCTTGCCTTCCTACACCGACAGCGAAACAGATCGAAGACACCAGCCTTGCC
* * *
9052654 TCCCTAGGTTACAGCGGAACAAGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCTAAGC
65 TCCCTAGGTTGCAGCGGAACAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGC
* * * ** *
9052719 AGACCAAAGACACCAGCCTTGCCTCCCTAGGTTGTAGTGGAACAGGT
130 AGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCAGAACAAGT
* **
9052766 TAAAAATAGTAGATCTTGCCTTCCTATACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGTAGATCTTGCCTTCCTACACCGACAGCGAAACAGATCGAAGACACCAGCCTTGCCT
*
9052831 CCCTAGGTTGCAGCGGATCAGGTTAAAAATAGCAGA-CTTTGCCTTCCTGCACCGACAGCGAAGC
66 CCCTAGGTTGCAGCGGAACAGGTTAAAAATAGCAGATC-TTGCCTTCCTGCACCGACAGCGAAGC
* *
9052895 AGATCGATGACCCCAGCC
130 AGATCGAAGACACCAGCC
9052913 CTATCTCCCT
Statistics
Matches: 285, Mismatches: 35, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
175 1 0.00
176 132 0.46
177 148 0.52
178 4 0.01
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.21
Consensus pattern (176 bp):
TAAAAATAGTAGATCTTGCCTTCCTACACCGACAGCGAAACAGATCGAAGACACCAGCCTTGCCT
CCCTAGGTTGCAGCGGAACAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCA
GATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCAGAACAAGT
Found at i:9052924 original size:88 final size:88
Alignment explanation
Indices: 9052413--9052912 Score: 680
Period size: 88 Copynumber: 5.7 Consensus size: 88
9052403 AACAGATCAG
* ** *
9052413 TAAAAATAGCAGATCTTGCTTTCCTGCACCGACAGTAAAGCAGATCGAAGACACCAGCCTTACCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
9052478 CCCT-GAGTTGCAGTGGAGCAGGT
66 CCCTAG-GTTGCAGCGGAACAGGT
9052501 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * * * *
9052566 TCTTGGGTTGCAGCAGAGCAAGT
66 CCCTAGGTTGCAGCGGAACAGGT
** * * *
9052589 TAAAAAATAATAGATCTTGCCTTCCTACACCGATAGCGAAACAGATCGAAGACACCAGCCTTGCC
1 T-AAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
* *
9052654 TCCCTAGGTTACAGCGGAACAAGT
65 TCCCTAGGTTGCAGCGGAACAGGT
* * *
9052678 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCTAAGCAGACCAAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
9052743 CCCTAGGTTGTAGTGGAACAGGT
66 CCCTAGGTTGCAGCGGAACAGGT
* ** *
9052766 TAAAAATAGTAGATCTTGCCTTCCTATACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
9052831 CCCTAGGTTGCAGCGGATCAGGT
66 CCCTAGGTTGCAGCGGAACAGGT
* *
9052854 TAAAAATAGCAGA-CTTTGCCTTCCTGCACCGACAGCGAAGCAGATCGATGACCCCAGCC
1 TAAAAATAGCAGATC-TTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
9052913 CTATCTCCCT
Statistics
Matches: 361, Mismatches: 48, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
87 1 0.00
88 282 0.78
89 78 0.22
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.21
Consensus pattern (88 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTAGGTTGCAGCGGAACAGGT
Found at i:9053019 original size:44 final size:45
Alignment explanation
Indices: 9052912--9053053 Score: 205
Period size: 45 Copynumber: 3.2 Consensus size: 45
9052902 TGACCCCAGC
*
9052912 CCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAAATCACAAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATCACAAAGT
* ****
9052957 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-T
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATCACAAAGT
* *
9053001 CCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAAATCACAAAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATCACAAAGT
9053046 CCTATCTC
1 CCTATCTC
9053054 TTTGGCATTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 38 0.45
45 46 0.55
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (45 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATCACAAAGT
Found at i:9053351 original size:44 final size:44
Alignment explanation
Indices: 9053288--9053751 Score: 199
Period size: 44 Copynumber: 10.7 Consensus size: 44
9053278 GAAGATGGTG
* *
9053288 AATCTTATTTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAATA
* * * *
9053333 AAT-TTATCTCCCTGAAGTTGCAGTTGAGCGGATTAAAATC-ACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCAATA
* * ** * *
9053376 GATCTTTATCTCTCTGAAGTTGCA-AAGAGCAGA-T--CGC-ATCT
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT-A
* * *
9053417 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT-A
* * * * * * *
9053461 AGTCTTATC-CTTCTTAAGTTGTAGT-GAGGCAGACTGAAG--ATGGCG
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGCAAT---A
9053506 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAATA
* * * ***
9053550 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCCCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATA
* * * * * * *
9053594 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGA-T-CA-C-ATCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT-A
** * * * * *
9053635 GGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTCAAGAAACCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-TA
* * * * * * ** *
9053680 AGTCTTATCCCCCTGAAATTGCAGTGGGGCAAACTAAATAAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATA
* * *
9053724 AATCCTGTCTCCCT-AAGTTGTAGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
9053752 TGGATTAGAG
Statistics
Matches: 321, Mismatches: 73, Indels: 52
0.72 0.16 0.12
Matches are distributed among these distances:
40 20 0.06
41 39 0.12
42 3 0.01
43 25 0.08
44 138 0.43
45 91 0.28
46 3 0.01
48 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATA
Found at i:9053493 original size:85 final size:87
Alignment explanation
Indices: 9053336--9053543 Score: 205
Period size: 85 Copynumber: 2.4 Consensus size: 87
9053326 GCCAATAAAT
* * *
9053336 TTATCTCCCTGAAGTTGCAGTTGAGCGGATTAAAATCACAGATCTTTATCTCTCTGAAGTTGCAA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATCACAGATCTTTATCTCTCTGAAGTTGCAA
* *
9053401 AGAGCAGA-TCG-CAT-CTAGTC
66 AGAGCAGACT-GACATGCGAATC
*
9053421 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCA-AG-TC-TTATC-CTTCTTAAGTTG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AATCACAGATCTTTATCTC-TCTGAAGTTG
* ** *
9053482 TAGTGAGGCAGACTGAAGATGGCGAATC
63 CAAAGA-GCAGACTG-ACAT-GCGAATC
*
9053510 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA
9053544 GCCAATAATC
Statistics
Matches: 103, Mismatches: 11, Indels: 16
0.79 0.08 0.12
Matches are distributed among these distances:
83 1 0.01
84 17 0.17
85 38 0.37
86 3 0.03
87 8 0.08
89 36 0.35
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (87 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATCACAGATCTTTATCTCTCTGAAGTTGCAA
AGAGCAGACTGACATGCGAATC
Found at i:9053651 original size:218 final size:219
Alignment explanation
Indices: 9053273--9053689 Score: 651
Period size: 218 Copynumber: 1.9 Consensus size: 219
9053263 GCAATTTAAA
* * * *
9053273 AGACTGAAGATGGTGAATCTTATTTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAAATTT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAAATCT
* * *
9053338 ATCTCCCTGAAGTTGCAGTTGAGCGGATTAAAATCACAGATCTTTATCTCTCTGAAGTTGCAAAG
66 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTTATCTCTCTGAAGTTACAAAG
* * * *
9053403 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAATCAAGTCTT
131 AGCAGATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAACCAAGTCTT
9053467 ATCCTTCTTAAGTTGTAGTGAGGC
196 ATCCTTCTTAAGTTGTAGTGAGGC
9053491 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT-AATCC
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAAAT-C
* *
9053555 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCCCAGATC-TTATCTCTCTGAAGTTACAGT
65 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTTATCTCTCTGAAGTTACA-A
* * *
9053619 AGAGTAGATCACATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTCAAGAAACCAAGTC
129 AGAGCAGATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAACCAAGTC
9053684 TTATCC
194 TTATCC
9053690 CCCTGAAATT
Statistics
Matches: 180, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
217 21 0.12
218 142 0.79
219 17 0.09
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (219 bp):
AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAAATCT
ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTTATCTCTCTGAAGTTACAAAG
AGCAGATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAACCAAGTCTT
ATCCTTCTTAAGTTGTAGTGAGGC
Found at i:9053737 original size:218 final size:218
Alignment explanation
Indices: 9053301--9053751 Score: 597
Period size: 218 Copynumber: 2.1 Consensus size: 218
9053291 CTTATTTCCT
* *
9053301 TGAAGTTGCAGTGGAGCAGATTAAAGCCAATAAATTTATCTCCCTGAAGTTGCAGTTGAGCGGAT
1 TGAAGTTGCAGTGGAGCAGATTAAAGCCAATAAATCTATCTCCCTGAAGTTGCAGTGGAGCGGAT
* * * *
9053366 TAAAATCACAGATCTTTATCTCTCTGAAGTTGCAAAGAGCAGATCGCATCTAGTCTTATCTCCCT
66 TAAAACCACAGATCTTTATCTCTCTGAAGTTACAAAGAGCAGATCACATCGAGTCTTATCTCCCT
* * ** * * * *
9053431 GAAGTTGCAGTGGAGCAGACTAAGTAATCAAGTCTTATCCTTCTTAAGTTGTAGTGAGGCAGACT
131 GAAGTTGCAGTGGAGCAGACTAAGAAACCAAGTCTTATCCCCCTGAAATTGCAGTGAGGCAAACT
** * *
9053496 GAAGATGGCGAATCTTATCTCCC
196 GAAGATAACAAATCCTATCTCCC
9053519 TGAAGTTGCAGTGGAGCAGATTAAAGCCAAT-AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGA
1 TGAAGTTGCAGTGGAGCAGATTAAAGCCAATAAAT-CTATCTCCCTGAAGTTGCAGTGGAGCGGA
* * * *
9053583 TTAAAACCCCAGATC-TTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCGGGTCTTATCTCC
65 TTAAAACCACAGATCTTTATCTCTCTGAAGTTACA-AAGAGCAGATCACATCGAGTCTTATCTCC
* *
9053647 CTGAAGTTGCAGTGGAGTAGACTCAAGAAACCAAGTCTTATCCCCCTGAAATTGCAGTGGGGCAA
129 CTGAAGTTGCAGTGGAGCAGACT-AAGAAACCAAGTCTTATCCCCCTGAAATTGCAGTGAGGCAA
*
9053712 ACT-AA-ATAAACAAATCCTGTCTCCC
193 ACTGAAGAT-AACAAATCCTATCTCCC
*
9053737 T-AAGTTGTAGTGGAG
1 TGAAGTTGCAGTGGAG
9053752 TGGATTAGAG
Statistics
Matches: 203, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
217 36 0.18
218 132 0.65
219 35 0.17
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (218 bp):
TGAAGTTGCAGTGGAGCAGATTAAAGCCAATAAATCTATCTCCCTGAAGTTGCAGTGGAGCGGAT
TAAAACCACAGATCTTTATCTCTCTGAAGTTACAAAGAGCAGATCACATCGAGTCTTATCTCCCT
GAAGTTGCAGTGGAGCAGACTAAGAAACCAAGTCTTATCCCCCTGAAATTGCAGTGAGGCAAACT
GAAGATAACAAATCCTATCTCCC
Found at i:9054201 original size:19 final size:19
Alignment explanation
Indices: 9054177--9054232 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
9054167 AATCTTCAAG
9054177 GATATATAATCTTAGATAT
1 GATATATAATCTTAGATAT
9054196 GATATATGCAATCTTAGATAT
1 GATATAT--AATCTTAGATAT
**
9054217 GATATGCAATCTTAGA
1 GATATATAATCTTAGA
9054233 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.48
21 17 0.52
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATATAATCTTAGATAT
Found at i:9054208 original size:21 final size:21
Alignment explanation
Indices: 9054177--9054232 Score: 84
Period size: 19 Copynumber: 2.9 Consensus size: 21
9054167 AATCTTCAAG
9054177 GATATAT--AATCTTAGATAT
1 GATATATGCAATCTTAGATAT
9054196 GATATATGCAATCTTAGATAT
1 GATATATGCAATCTTAGATAT
9054217 G--ATATGCAATCTTAGA
1 GATATATGCAATCTTAGA
9054233 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 22 0.63
21 13 0.37
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (21 bp):
GATATATGCAATCTTAGATAT
Found at i:9054254 original size:23 final size:22
Alignment explanation
Indices: 9054190--9054255 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 22
9054180 ATATAATCTT
9054190 AGATATGATATATGCAATCTT---
1 AGATATG--ATATGCAATCTTAGA
9054211 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
9054233 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
9054256 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 12 0.31
21 7 0.18
22 8 0.21
23 12 0.31
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:9056992 original size:18 final size:18
Alignment explanation
Indices: 9056961--9057008 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
9056951 CATAATATCA
9056961 ATTTTTAATGAAATAATAAT
1 ATTTTTAA--AAATAATAAT
*
9056981 ATTTTTAAAAATAATTAT
1 ATTTTTAAAAATAATAAT
*
9056999 A-CTTTAAAAA
1 ATTTTTAAAAA
9057009 AACTAAAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 8 0.31
18 10 0.38
20 8 0.31
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTTTTAAAAATAATAAT
Found at i:9059953 original size:37 final size:37
Alignment explanation
Indices: 9059903--9059975 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
9059893 AAAAACAAAT
9059903 GTTGAAGGGTAAAATACTCTAAAAATAATATAATTTG
1 GTTGAAGGGTAAAATACTCTAAAAATAATATAATTTG
*
9059940 GTTGAAGGGTAAAATACTCTCAAAATAATATAATTT
1 GTTGAAGGGTAAAATACTCTAAAAATAATATAATTT
9059976 ACTTTATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (37 bp):
GTTGAAGGGTAAAATACTCTAAAAATAATATAATTTG
Found at i:9060724 original size:2 final size:2
Alignment explanation
Indices: 9060712--9060744 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
9060702 ATATTATCAA
9060712 AT AT CAT 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 AT AT
9060745 GTCAGAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9066452 original size:41 final size:41
Alignment explanation
Indices: 9066372--9066501 Score: 134
Period size: 41 Copynumber: 3.1 Consensus size: 41
9066362 GCACATATCT
* * * *
9066372 TGAAATGATACACTGGCATAAAAGCCTGCTAGGCTTAAAGCC
1 TGAAATAATACACCGGCAT-AAAGCCTGCTAGACATAAAGCC
** *
9066414 TGATTTAATACACCGGCATAAAGCCTGCTAGACATAAAGTC
1 TGAAATAATACACCGGCATAAAGCCTGCTAGACATAAAGCC
* * * *
9066455 TGAAATATTTCACCGGCATCAAGCCTGCTAGGCACATAGAGCC
1 TGAAATAATACACCGGCATAAAGCCTGCTA-G-ACATAAAGCC
9066498 TGAA
1 TGAA
9066502 TATCTTGGAT
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
41 44 0.61
42 16 0.22
43 12 0.17
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (41 bp):
TGAAATAATACACCGGCATAAAGCCTGCTAGACATAAAGCC
Found at i:9068810 original size:37 final size:37
Alignment explanation
Indices: 9068759--9068858 Score: 94
Period size: 37 Copynumber: 2.7 Consensus size: 37
9068749 TCGGTTGGAC
**
9068759 TAGCTCTTCGGAGCAATTGGCGTGTTATCAGGTAAAT
1 TAGCTCTTATGAGCAATTGGCGTGTTATCAGGTAAAT
* * ** **
9068796 TGGCTCTTATGAGC-ATCTAGCGTGTTATTGGGTGGAT
1 TAGCTCTTATGAGCAAT-TGGCGTGTTATCAGGTAAAT
* *
9068833 TAGCTCTTATGAGCATTTGACGTGTT
1 TAGCTCTTATGAGCAATTGGCGTGTT
9068859 TTCGGTTGGA
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
36 2 0.04
37 46 0.94
38 1 0.02
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.37
Consensus pattern (37 bp):
TAGCTCTTATGAGCAATTGGCGTGTTATCAGGTAAAT
Found at i:9074167 original size:21 final size:21
Alignment explanation
Indices: 9074101--9074183 Score: 103
Period size: 22 Copynumber: 3.9 Consensus size: 21
9074091 CAAGTAAATG
* *
9074101 GAGAACACCAAGGTGCTATACA
1 GAGAACACAAACGTGCTA-ACA
9074123 GAGAACACAAACGTGCTAAACA
1 GAGAACACAAACGTGCT-AACA
*
9074145 GAGAACAAAAACGTGCTAACA
1 GAGAACACAAACGTGCTAACA
* *
9074166 GAGAGCACAAACATGCTA
1 GAGAACACAAACGTGCTA
9074184 GAAAATAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
21 19 0.35
22 34 0.63
23 1 0.02
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (21 bp):
GAGAACACAAACGTGCTAACA
Found at i:9077446 original size:42 final size:42
Alignment explanation
Indices: 9077399--9077494 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 42
9077389 TAAGATTTGT
* * *
9077399 ATGTTAAGTATGTCAACTGTATTAATTATAAATCTGATTCGC
1 ATGTTAAGCATGTCAACTATACTAATTATAAATCTGATTCGC
* * *
9077441 ATGTTAAGCATGTCAACTATGCTGATTATAAATTTGATTCGC
1 ATGTTAAGCATGTCAACTATACTAATTATAAATCTGATTCGC
*
9077483 ATGTTCAGCATG
1 ATGTTAAGCATG
9077495 CCACTGAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.39
Consensus pattern (42 bp):
ATGTTAAGCATGTCAACTATACTAATTATAAATCTGATTCGC
Found at i:9077618 original size:24 final size:24
Alignment explanation
Indices: 9077581--9077676 Score: 113
Period size: 24 Copynumber: 4.0 Consensus size: 24
9077571 GTTTTATTAC
* *
9077581 ATTATTGAATGGCTTGGCCACAACT
1 ATTATTGAGTGGCTTGACCACAA-T
*
9077606 -TTATTGAGCGGCTTGACCACAAT
1 ATTATTGAGTGGCTTGACCACAAT
** * *
9077629 GCTATTGAGTGGCTTGTCTACAAT
1 ATTATTGAGTGGCTTGACCACAAT
9077653 ATTATTGAGTGGCTTGACCACAAT
1 ATTATTGAGTGGCTTGACCACAAT
9077677 GATGCAGCTT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
23 1 0.02
24 58 0.98
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (24 bp):
ATTATTGAGTGGCTTGACCACAAT
Found at i:9077658 original size:48 final size:48
Alignment explanation
Indices: 9077583--9077677 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
9077573 TTTATTACAT
9077583 TATTGAATGGCTTGGCCACAACTTTATTGAGCGGCTTGACCACAATGC
1 TATTGAATGGCTTGGCCACAACTTTATTGAGCGGCTTGACCACAATGC
* * * *
9077631 TATTGAGTGGCTTGTCTACAA-TATTATTGAGTGGCTTGACCACAATG
1 TATTGAATGGCTTGGCCACAACT-TTATTGAGCGGCTTGACCACAATG
9077678 ATGCAGCTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 1 0.02
48 41 0.98
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (48 bp):
TATTGAATGGCTTGGCCACAACTTTATTGAGCGGCTTGACCACAATGC
Found at i:9077722 original size:64 final size:64
Alignment explanation
Indices: 9077631--9077782 Score: 196
Period size: 64 Copynumber: 2.4 Consensus size: 64
9077621 ACCACAATGC
* * * ** *
9077631 TATTGAGTGGCTTGTCTACAATATTATTGAGTGGCTTGACCACAATGATGCAGCTTGACTACGA
1 TATTGAGTGGCTTGGCCACAACATTATTGAGTAACTTGACCACAACGATGCAGCTTGACTACGA
* * **
9077695 TATTGAGTGGCTTGGCCACAACGTTATTGAGTAACTTGACCACAACGATGTAGCTTGACTGTGA
1 TATTGAGTGGCTTGGCCACAACATTATTGAGTAACTTGACCACAACGATGCAGCTTGACTACGA
* *
9077759 TATTAAGTGGCTTGGCCATAACAT
1 TATTGAGTGGCTTGGCCACAACAT
9077783 GGTGTGTTAT
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 75 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (64 bp):
TATTGAGTGGCTTGGCCACAACATTATTGAGTAACTTGACCACAACGATGCAGCTTGACTACGA
Found at i:9077723 original size:24 final size:24
Alignment explanation
Indices: 9077695--9077741 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
9077685 TTGACTACGA
** *
9077695 TATTGAGTGGCTTGGCCACAACGT
1 TATTGAGTAACTTGACCACAACGT
9077719 TATTGAGTAACTTGACCACAACG
1 TATTGAGTAACTTGACCACAACG
9077742 ATGTAGCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
TATTGAGTAACTTGACCACAACGT
Found at i:9078439 original size:16 final size:18
Alignment explanation
Indices: 9078408--9078444 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
9078398 AATTTACATA
9078408 AAAATATTGATTTTTAAC
1 AAAATATTGATTTTTAAC
*
9078426 AAAATA-TG-TTTTTAGC
1 AAAATATTGATTTTTAAC
9078442 AAA
1 AAA
9078445 TTTTTTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 2 0.11
18 6 0.33
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (18 bp):
AAAATATTGATTTTTAAC
Found at i:9079565 original size:28 final size:27
Alignment explanation
Indices: 9079516--9079577 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
9079506 ACGCATACTG
9079516 TATAAAAGAATGCCTATATATATATAT
1 TATAAAAGAATGCCTATATATATATAT
* * * *
9079543 TATAAAAGCCATGCGTATGTATATGTAT
1 TATAAAAG-AATGCCTATATATATATAT
*
9079571 CATAAAA
1 TATAAAA
9079578 AAACAATGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (27 bp):
TATAAAAGAATGCCTATATATATATAT
Found at i:9079729 original size:24 final size:23
Alignment explanation
Indices: 9079702--9079746 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
9079692 GTACATAAGC
* *
9079702 ATAGTAATAATAGTATATAATATT
1 ATAGTAAAAATAATA-ATAATATT
9079726 ATAGTAAAAATAATAATAATA
1 ATAGTAAAAATAATAATAATA
9079747 AGATACTAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (23 bp):
ATAGTAAAAATAATAATAATATT
Found at i:9081604 original size:44 final size:44
Alignment explanation
Indices: 9081467--9081813 Score: 227
Period size: 44 Copynumber: 7.8 Consensus size: 44
9081457 CCACTTCGCT
* * * * * *
9081467 ACCAATATAGGAAGACAGGACCTACTATCTTTGATCTACTTCAC
1 ACCAGTATGGGAAGACAAGATCTGCTTTCTTTGATCTACTTCAC
* *** * ** * *
9081511 GCCAGTACATGAAGACACGATCTATTTTCTTCGA-CTTACTCCACC
1 ACCAGTATGGGAAGACAAGATCTGCTTTCTTTGATC-TACTTCA-C
* * *
9081556 ACCAGTATGGGGAGACAAGATCTG-TTTCTTTGATCTGCTTCGTC
1 ACCAGTATGGGAAGACAAGATCTGCTTTCTTTGATCTACTTC-AC
* * * * *
9081600 ACCAGTATGGGGAGGCAAGATCTGATATCTTTGATCTACATCAC
1 ACCAGTATGGGAAGACAAGATCTGCTTTCTTTGATCTACTTCAC
* *** * * * *
9081644 GCCAGTACATGAAGACACGATCTGTTTTCTTTGACCTACTCCACC
1 ACCAGTATGGGAAGACAAGATCTGCTTTCTTTGATCTACTTCA-C
*
9081689 ACCAGTATGGGGAGACAAGATCTG-TTTCTTTGATCTACTTCAC
1 ACCAGTATGGGAAGACAAGATCTGCTTTCTTTGATCTACTTCAC
** *** * *
9081732 GGC-GATACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCC
1 ACCAG-TATGGGAAGACAAGATCTGCTTTCTTTGATCTACTTC-AC
* *
9081777 ACCAGTATGGGAAGGCAATATCTGCTTT-TTCTGATCT
1 ACCAGTATGGGAAGACAAGATCTGCTTTCTT-TGATCT
9081814 CTGATCTACT
Statistics
Matches: 231, Mismatches: 61, Indels: 21
0.74 0.19 0.07
Matches are distributed among these distances:
42 1 0.00
43 18 0.08
44 133 0.58
45 78 0.34
46 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
ACCAGTATGGGAAGACAAGATCTGCTTTCTTTGATCTACTTCAC
Found at i:9081660 original size:88 final size:88
Alignment explanation
Indices: 9081568--9081859 Score: 329
Period size: 88 Copynumber: 3.2 Consensus size: 88
9081558 CAGTATGGGG
*
9081568 AGACAAGATCTG-TTTCTTTGATCTGCTTCGTCACCAGTATGGGGAGGCAAGATCTGATATCTTT
1 AGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGGAGGCAAGATCTG-TATCTTT
*
9081632 GATCTACATCACGCCAGTACATGA
65 GATCTACTTCACGCCAGTACATGA
* * * * * * * *
9081656 AGACACGATCTGTTTTCTTTGACCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTG
1 AGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGGAGGCAAGATCTGTATCTTTG
*
9081721 ATCTACTTCACGGC-GATACATGA
66 ATCTACTTCACGCCAG-TACATGA
* *
9081744 AGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAATATCTGCTTTTTCT
1 AGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGGAGGCAAGATCTG-------T
*
9081809 GATCTCTGATCTACTTCACGCCAGTACATGA
59 -ATCTTTGATCTACTTCACGCCAGTACATGA
*
9081840 AGACAAAATCTG-TTATCTTT
1 AGACAAGATCTGCTT-TCTTT
9081860 CAACCTGCTC
Statistics
Matches: 169, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
87 1 0.01
88 85 0.50
89 38 0.22
95 3 0.02
96 41 0.24
97 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (88 bp):
AGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGGAGGCAAGATCTGTATCTTTG
ATCTACTTCACGCCAGTACATGA
Found at i:9081783 original size:133 final size:133
Alignment explanation
Indices: 9081475--9081773 Score: 397
Period size: 133 Copynumber: 2.3 Consensus size: 133
9081465 CTACCAATAT
* *
9081475 AGGAAGACAGGACCT-ACTATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTATTTT
1 AGGAAGACAAGATCTGA-TATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTATTTT
* * *
9081539 CTTCGACTTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTGATCTGCTTCGTCACCA
65 CTTCGACCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTGATCTACTTCGACACCA
*
9081604 GTAT
130 GTAC
* * * * *
9081608 GGGGAGGCAAGATCTGATATCTTTGATCTACATCACGCCAGTACATGAAGACACGATCTGTTTTC
1 AGGAAGACAAGATCTGATATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTATTTTC
* **
9081673 TTTGACCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTGATCTACTTC-ACGGC-G
66 TTCGACCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTGATCTACTTCGACACCAG
9081736 ATAC
131 -TAC
* * * *
9081740 ATGAAGACAAGATCTGCTTTCTTTGATCTGCTTC
1 AGGAAGACAAGATCTGATATCTTTGATCTACTTC
9081774 GCCACCAGTA
Statistics
Matches: 142, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
131 1 0.01
132 30 0.21
133 110 0.77
134 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (133 bp):
AGGAAGACAAGATCTGATATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTATTTTC
TTCGACCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTGATCTACTTCGACACCAG
TAC
Found at i:9093698 original size:28 final size:27
Alignment explanation
Indices: 9093649--9093710 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
9093639 ACGCATACTG
9093649 TATAAAAGAATGCCTATATATATATAT
1 TATAAAAGAATGCCTATATATATATAT
* * * *
9093676 TATAAAAGCCATGCGTATGTATATGTAT
1 TATAAAAG-AATGCCTATATATATATAT
*
9093704 CATAAAA
1 TATAAAA
9093711 AAACAATGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (27 bp):
TATAAAAGAATGCCTATATATATATAT
Found at i:9093981 original size:4 final size:4
Alignment explanation
Indices: 9093972--9094002 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
9093962 GCGGATTTCA
9093972 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
9094003 AAGGAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:9095969 original size:56 final size:56
Alignment explanation
Indices: 9095883--9095990 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 56
9095873 AACTAACTCT
* *
9095883 TATATATCAGGAGTACATCAAAATAGAAAACAAGAGCAAAGAAATTTGAAATCTCC
1 TATATATCAGGAGTACACCAAAATAGAAAACAAAAGCAAAGAAATTTGAAATCTCC
* * *
9095939 TATATATTAGGAGTATACCAAAATAGAAAACAAAAGTAAAGAAATTTGAAAT
1 TATATATCAGGAGTACACCAAAATAGAAAACAAAAGCAAAGAAATTTGAAAT
9095991 ACAAACAGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.53, C:0.10, G:0.14, T:0.23
Consensus pattern (56 bp):
TATATATCAGGAGTACACCAAAATAGAAAACAAAAGCAAAGAAATTTGAAATCTCC
Found at i:9096529 original size:7 final size:7
Alignment explanation
Indices: 9096517--9096558 Score: 77
Period size: 7 Copynumber: 6.1 Consensus size: 7
9096507 TTATCATAAT
9096517 TATTATA
1 TATTATA
9096524 TATTATA
1 TATTATA
9096531 TATTATA
1 TATTATA
9096538 TATTATA
1 TATTATA
9096545 TATTAT-
1 TATTATA
9096551 TATTATA
1 TATTATA
9096558 T
1 T
9096559 TAGTTGAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.18
7 28 0.82
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TATTATA
Found at i:9096553 original size:3 final size:3
Alignment explanation
Indices: 9096505--9096560 Score: 51
Period size: 3 Copynumber: 17.7 Consensus size: 3
9096495 TATACACATA
* *
9096505 TAT TAT CAT AAT TAT TAT ATAT TAT ATAT TAT ATAT TAT ATAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TAT -TAT TAT -TAT TAT TAT
9096554 TA- TAT TA
1 TAT TAT TA
9096561 GTTGAAATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
2 2 0.04
3 31 0.69
4 12 0.27
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:9100858 original size:16 final size:16
Alignment explanation
Indices: 9100837--9100869 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9100827 ACAAAGTGGT
9100837 AAAGCAAAAGAGGCAG
1 AAAGCAAAAGAGGCAG
9100853 AAAGCAAAAGAGGCAG
1 AAAGCAAAAGAGGCAG
9100869 A
1 A
9100870 GCAAAGCAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.30, T:0.00
Consensus pattern (16 bp):
AAAGCAAAAGAGGCAG
Found at i:9109240 original size:32 final size:32
Alignment explanation
Indices: 9109140--9109246 Score: 97
Period size: 32 Copynumber: 3.3 Consensus size: 32
9109130 CATGCTCGTG
* * * *
9109140 TGGCCCACATGCCCAGATTGGCCTCACCCGTA
1 TGGCCCACACGTCTAGATTGGCCTCACCAGTA
** * ** * *
9109172 TCACCCACACATCTAGATTGGCCTTGCCTGTG
1 TGGCCCACACGTCTAGATTGGCCTCACCAGTA
*
9109204 TGGCCCACACGTCTAGATTGGCATCACCAGTA
1 TGGCCCACACGTCTAGATTGGCCTCACCAGTA
*
9109236 TGGCCTACACG
1 TGGCCCACACG
9109247 GCCTGGCCTA
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.22
Consensus pattern (32 bp):
TGGCCCACACGTCTAGATTGGCCTCACCAGTA
Found at i:9112382 original size:31 final size:31
Alignment explanation
Indices: 9112344--9112425 Score: 119
Period size: 31 Copynumber: 2.6 Consensus size: 31
9112334 CATGTTTACA
* *
9112344 CTTTCATTTTGGTCACCCAACTTCTAGATCT
1 CTTTCATTTTGGTCACCCAACTTCAAGATCG
*
9112375 CTTTCATTTTGGTCACCCAACTTCAAGGTCG
1 CTTTCATTTTGGTCACCCAACTTCAAGATCG
* *
9112406 CTTTCATTTTAGCCACCCAA
1 CTTTCATTTTGGTCACCCAA
9112426 AAAACTATCA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.21, C:0.30, G:0.11, T:0.38
Consensus pattern (31 bp):
CTTTCATTTTGGTCACCCAACTTCAAGATCG
Found at i:9114618 original size:28 final size:28
Alignment explanation
Indices: 9114540--9114630 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
9114530 GAACTTTGGG
* *
9114540 CCTTGAACA-CTAAACCTTAGACTTTGGA
1 CCTTGAA-ATCTAAACCTTAGACCTTGAA
* * *
9114568 CCTTGAACTTTAAAACTTAGACCTTGAA
1 CCTTGAAATCTAAACCTTAGACCTTGAA
* *
9114596 CCTTGAAATCTAAACCTTGGACCTTAAA
1 CCTTGAAATCTAAACCTTAGACCTTGAA
*
9114624 CCCTGAA
1 CCTTGAA
9114631 CCTTAGACCT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (28 bp):
CCTTGAAATCTAAACCTTAGACCTTGAA
Found at i:9114623 original size:14 final size:14
Alignment explanation
Indices: 9114606--9114646 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
9114596 CCTTGAAATC
9114606 TAAACCTTGGACCT
1 TAAACCTTGGACCT
* *
9114620 TAAACCCTGAACCT
1 TAAACCTTGGACCT
*
9114634 TAGACCTTGGACC
1 TAAACCTTGGACC
9114647 ATGAACCCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (14 bp):
TAAACCTTGGACCT
Found at i:9114651 original size:21 final size:21
Alignment explanation
Indices: 9114608--9114653 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
9114598 TTGAAATCTA
* *
9114608 AACCTTGGACCTTAAACCCTG
1 AACCTTAGACCTTAAACCATG
**
9114629 AACCTTAGACCTTGGACCATG
1 AACCTTAGACCTTAAACCATG
9114650 AACC
1 AACC
9114654 CAAGGTTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.22
Consensus pattern (21 bp):
AACCTTAGACCTTAAACCATG
Found at i:9118526 original size:15 final size:15
Alignment explanation
Indices: 9118502--9118538 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
9118492 ATTTAATACT
9118502 TTTATAAAAATTTTA
1 TTTATAAAAATTTTA
*
9118517 TTTATTAAAATTTTA
1 TTTATAAAAATTTTA
*
9118532 TATATAA
1 TTTATAA
9118539 CCATCTTAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTATAAAAATTTTA
Found at i:9119743 original size:19 final size:20
Alignment explanation
Indices: 9119719--9119757 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
9119709 TTTATTTATT
9119719 ATATAAATTC-ATTTATAAA
1 ATATAAATTCTATTTATAAA
9119738 ATATAAATTCTTATTTATAA
1 ATATAAATTC-TATTTATAA
9119758 GTATGATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATAAATTCTATTTATAAA
Found at i:9121954 original size:18 final size:16
Alignment explanation
Indices: 9121935--9121982 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
9121925 TCAAATAACA
9121935 AAACTCCTAAAAATAGC
1 AAACT-CTAAAAATAGC
9121952 AAACAT-TAAAAATAGC
1 AAAC-TCTAAAAATAGC
*
9121968 AAACACTAAAAATAG
1 AAACTCTAAAAATAG
9121983 TAGTCCTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 23 0.82
17 4 0.14
18 1 0.04
ACGTcount: A:0.60, C:0.17, G:0.06, T:0.17
Consensus pattern (16 bp):
AAACTCTAAAAATAGC
Found at i:9121963 original size:16 final size:16
Alignment explanation
Indices: 9121941--9121982 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
9121931 AACAAAACTC
9121941 CTAAAAATAGCAAACA
1 CTAAAAATAGCAAACA
*
9121957 TTAAAAATAGCAAACA
1 CTAAAAATAGCAAACA
9121973 CTAAAAATAG
1 CTAAAAATAG
9121983 TAGTCCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.62, C:0.14, G:0.07, T:0.17
Consensus pattern (16 bp):
CTAAAAATAGCAAACA
Found at i:9126302 original size:17 final size:18
Alignment explanation
Indices: 9126277--9126326 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
9126267 ACTCAAACCT
*
9126277 AAAAGTGATTTGAACTC-
1 AAAATTGATTTGAACTCG
*
9126294 AAAATTGATATGAA-TCG
1 AAAATTGATTTGAACTCG
*
9126311 AAAATTGATTCGAACT
1 AAAATTGATTTGAACT
9126327 AAGAATGACA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 2 0.07
17 24 0.89
18 1 0.04
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (18 bp):
AAAATTGATTTGAACTCG
Found at i:9127532 original size:21 final size:20
Alignment explanation
Indices: 9127495--9127534 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
9127485 ATACATAAAT
*
9127495 TTGCAGTCTAGCCGCCATAA
1 TTGCAGTCAAGCCGCCATAA
*
9127515 TTGCAGTACAAGCTGCCATA
1 TTGCAGT-CAAGCCGCCATA
9127535 TAGCACTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (20 bp):
TTGCAGTCAAGCCGCCATAA
Found at i:9129624 original size:16 final size:18
Alignment explanation
Indices: 9129598--9129631 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9129588 TTAAATTAAC
9129598 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
9129615 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
9129632 CCAATTCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:9137153 original size:25 final size:25
Alignment explanation
Indices: 9137102--9137154 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
9137092 GTTGGTTTCA
**
9137102 CTTTAAAAACAACATTTATTGCTAG
1 CTTTAAAAACAACATTTATTGAAAG
9137127 CTTTAAAAACAACATTTATTGAAAG
1 CTTTAAAAACAACATTTATTGAAAG
9137152 CTT
1 CTT
9137155 CTACTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.36
Consensus pattern (25 bp):
CTTTAAAAACAACATTTATTGAAAG
Found at i:9142018 original size:23 final size:23
Alignment explanation
Indices: 9141990--9142035 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
9141980 TGGTTTACAA
9141990 TTTTGTGTCATGCTTCTTAACAT
1 TTTTGTGTCATGCTTCTTAACAT
*
9142013 TTTTGTGTCATGCTTCTTTACAT
1 TTTTGTGTCATGCTTCTTAACAT
9142036 GGGGAATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.15, C:0.17, G:0.13, T:0.54
Consensus pattern (23 bp):
TTTTGTGTCATGCTTCTTAACAT
Found at i:9143928 original size:59 final size:59
Alignment explanation
Indices: 9143795--9143968 Score: 198
Period size: 59 Copynumber: 3.0 Consensus size: 59
9143785 AAGTAGGTTA
* * *
9143795 TATATTATGATTTTTATT-AATTCATATTTTAAAAATAATTATATTAAGAATGTTAATAAAT
1 TATA-TATTATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAGAATATTAATAAAT
* *
9143856 TATATATTA-TTTTATTAAATTATATTTAATAATAATTATGTTAA-AATATTATTAAAT
1 TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAGAATATTAATAAAT
* *
9143913 TATATCATTATTTTTATTAAATTATTTTTAGTAATAATCT-TATTAA-AAT-TTAATAA
1 TATAT-ATTATTTTTATTAAATTATATTTAATAATAAT-TATATTAAGAATATTAATAA
9143969 CAATAACAAT
Statistics
Matches: 100, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
57 16 0.16
58 28 0.28
59 43 0.43
60 9 0.09
61 4 0.04
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (59 bp):
TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAGAATATTAATAAAT
Found at i:9144150 original size:16 final size:16
Alignment explanation
Indices: 9144129--9144179 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
9144119 TGAATTACTG
9144129 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
9144145 ATTACAGCTATATTCC
1 ATTACAGCTCTATTCC
*
9144161 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
9144177 ATT
1 ATT
9144180 CACCCCAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.27, C:0.29, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:9146287 original size:21 final size:22
Alignment explanation
Indices: 9146258--9146298 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9146248 AAGCCAAACG
9146258 AAAACAGAAAG-GAAAGAAAAA
1 AAAACAGAAAGAGAAAGAAAAA
*
9146279 AAAAGAGAAAGAGAAAGAAA
1 AAAACAGAAAGAGAAAGAAA
9146299 GACGCAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (22 bp):
AAAACAGAAAGAGAAAGAAAAA
Found at i:9153064 original size:21 final size:22
Alignment explanation
Indices: 9153040--9153084 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
9153030 AGTTAACTTA
9153040 AAAAT-TTATATATATCA-AATT
1 AAAATCTTAT-TATATCATAATT
*
9153061 AAAATCTTATTATATTATAATT
1 AAAATCTTATTATATCATAATT
9153083 AA
1 AA
9153085 TTACATGGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAATCTTATTATATCATAATT
Found at i:9154099 original size:24 final size:24
Alignment explanation
Indices: 9154023--9154099 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
9154013 CTGGCATCCC
9154023 CCACCTCCACCAGACCCCTTTGCA
1 CCACCTCCACCAGACCCCTTTGCA
* * * *
9154047 CCCCCACCACCTGGACCTCC--GGCA
1 CCACCTCCACC-AGACC-CCTTTGCA
* *
9154071 ACACCTCCACCAGACCCCTTTGCT
1 CCACCTCCACCAGACCCCTTTGCA
9154095 CCACC
1 CCACC
9154100 ACCGCCAGGG
Statistics
Matches: 38, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
22 2 0.05
23 4 0.11
24 26 0.68
25 4 0.11
26 2 0.05
ACGTcount: A:0.19, C:0.56, G:0.10, T:0.14
Consensus pattern (24 bp):
CCACCTCCACCAGACCCCTTTGCA
Found at i:9154116 original size:48 final size:48
Alignment explanation
Indices: 9154024--9154124 Score: 139
Period size: 48 Copynumber: 2.1 Consensus size: 48
9154014 TGGCATCCCC
* * *
9154024 CACCTCCACCAGACCCCTTTGCACCCCCACCACCTGGACCTCCGGCAA
1 CACCTCCACCAGACCCCTTTGCACCACCACCACCAGGACATCCGGCAA
* * * *
9154072 CACCTCCACCAGACCCCTTTGCTCCACCACCGCCAGGGCATCCGGCAC
1 CACCTCCACCAGACCCCTTTGCACCACCACCACCAGGACATCCGGCAA
9154120 CACCT
1 CACCT
9154125 ATGTTTGGGC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.20, C:0.53, G:0.14, T:0.13
Consensus pattern (48 bp):
CACCTCCACCAGACCCCTTTGCACCACCACCACCAGGACATCCGGCAA
Found at i:9156076 original size:3 final size:3
Alignment explanation
Indices: 9156068--9156104 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
9156058 GAGGTCAATG
9156068 TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
9156105 GTTTTATTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9156092 original size:16 final size:16
Alignment explanation
Indices: 9156071--9156103 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9156061 GTCAATGTTA
9156071 TTATTATTATTATTAT
1 TTATTATTATTATTAT
9156087 TTATTATTATTATTAT
1 TTATTATTATTATTAT
9156103 T
1 T
9156104 AGTTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:9156092 original size:19 final size:19
Alignment explanation
Indices: 9156068--9156104 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
9156058 GAGGTCAATG
9156068 TTATTATTATTATTATTAT
1 TTATTATTATTATTATTAT
9156087 TTATTATTATTATTATTA
1 TTATTATTATTATTATTA
9156105 GTTTTATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTATTATTATTATTAT
Found at i:9163330 original size:31 final size:33
Alignment explanation
Indices: 9163248--9163330 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 33
9163238 GGATATTACA
* *
9163248 TTTACTATCCCAGCGGACTATCTCTATTTTGTG
1 TTTACTATCCCAACGGACTATCTCTATTCTGTG
* * *
9163281 TTTAGTGTCCCAACGGACTATCTC-A-TCTGTT
1 TTTACTATCCCAACGGACTATCTCTATTCTGTG
*
9163312 TTTACTATCCCAATGGACT
1 TTTACTATCCCAACGGACT
9163331 GTCTTTGTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 20 0.48
32 1 0.02
33 21 0.50
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.40
Consensus pattern (33 bp):
TTTACTATCCCAACGGACTATCTCTATTCTGTG
Found at i:9167640 original size:30 final size:30
Alignment explanation
Indices: 9167605--9167675 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
9167595 CACCCGCCCT
9167605 CCCCACCGCCCCCAA-ACCCTTTTGCACCAC
1 CCCCACC-CCCCCAAGACCCTTTTGCACCAC
* ** *
9167635 CCCCACCACGACAAGATCCTTTTGCACCAC
1 CCCCACCCCCCCAAGACCCTTTTGCACCAC
*
9167665 CACCACCCCCC
1 CCCCACCCCCC
9167676 TTATATGGTG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.23, C:0.58, G:0.07, T:0.13
Consensus pattern (30 bp):
CCCCACCCCCCCAAGACCCTTTTGCACCAC
Found at i:9167687 original size:27 final size:30
Alignment explanation
Indices: 9167657--9167719 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 30
9167647 AAGATCCTTT
*
9167657 TGCACCACCACCACC-CC-CCTTA-TATGG
1 TGCACCACCACCACCTCCGCCTTACTATGC
*
9167684 TGCACCCCCACCACCTCCGCCTTACTATGC
1 TGCACCACCACCACCTCCGCCTTACTATGC
9167714 TGCACC
1 TGCACC
9167720 TCCTCCTCCC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 14 0.45
28 2 0.06
29 5 0.16
30 10 0.32
ACGTcount: A:0.19, C:0.51, G:0.11, T:0.19
Consensus pattern (30 bp):
TGCACCACCACCACCTCCGCCTTACTATGC
Found at i:9172167 original size:16 final size:16
Alignment explanation
Indices: 9172146--9172180 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
9172136 GGGAGTGGGC
9172146 ATTCTTTTGGCACTTG
1 ATTCTTTTGGCACTTG
9172162 ATTCTTTTGGCACTTG
1 ATTCTTTTGGCACTTG
9172178 ATT
1 ATT
9172181 GCTAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.17, G:0.17, T:0.51
Consensus pattern (16 bp):
ATTCTTTTGGCACTTG
Found at i:9174529 original size:21 final size:21
Alignment explanation
Indices: 9174492--9174598 Score: 112
Period size: 21 Copynumber: 5.2 Consensus size: 21
9174482 ATGAGCCAAT
*
9174492 AGAAGCTC-TAA-AGCTGAAC
1 AGAAGCTCGTAAGAGCTAAAC
* *
9174511 AGAAGCTCGTAAGAGCTGAGC
1 AGAAGCTCGTAAGAGCTAAAC
* * * *
9174532 AAAAACTCAT-AGAAGTTAAAC
1 AGAAGCTCGTAAG-AGCTAAAC
9174553 AGAAGCTCGTAAGAGCTAAAC
1 AGAAGCTCGTAAGAGCTAAAC
*
9174574 AGAAGCTCGAAAGAGCTAAAC
1 AGAAGCTCGTAAGAGCTAAAC
9174595 AGAA
1 AGAA
9174599 AGTAAAACAT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.11
20 5 0.07
21 57 0.79
22 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTAAAC
Found at i:9181050 original size:15 final size:15
Alignment explanation
Indices: 9181010--9181052 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
9181000 CACTAAACAA
9181010 AAAAT-ATAATAAAT
1 AAAATCATAATAAAT
*
9181024 AAAATCAAAATAAAT
1 AAAATCATAATAAAT
9181039 AAAAGTC-TAATAAA
1 AAAA-TCATAATAAA
9181053 CAGTCCAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.20
15 18 0.72
16 2 0.08
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (15 bp):
AAAATCATAATAAAT
Found at i:9182253 original size:30 final size:30
Alignment explanation
Indices: 9182219--9182326 Score: 85
Period size: 32 Copynumber: 3.5 Consensus size: 30
9182209 TTAACTTTTG
9182219 ATTTAGTCCTTATTTATTTATTTTATTAAA
1 ATTTAGTCCTTATTTATTTATTTTATTAAA
* * **
9182249 ATTTAGCCCCTTTTATTATTTATTTTATTCCA
1 ATTTAG-TCCTTAT-TTATTTATTTTATTAAA
* * **
9182281 ATTTA-TCCTT-TTAATTTCATTTAAGTTATG
1 ATTTAGTCCTTATTTATTT-ATTTTA-TTAAA
9182311 ATTTAGTCCTTTATTT
1 ATTTAGTCC-TTATTT
9182327 TTCACCCTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
28 5 0.08
29 6 0.10
30 17 0.28
31 8 0.13
32 22 0.37
33 2 0.03
ACGTcount: A:0.25, C:0.12, G:0.05, T:0.58
Consensus pattern (30 bp):
ATTTAGTCCTTATTTATTTATTTTATTAAA
Found at i:9182398 original size:41 final size:42
Alignment explanation
Indices: 9182351--9182442 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 42
9182341 AACTATTTCC
* * *
9182351 TTTTATTTTTTTATTTACATATTTATTTATTATTCCTTTA-A
1 TTTTATTTTTTTACTTACATATTTATATATTATTCATTTATA
** * * *
9182392 TTTTATTCATTTACTTGCTTATTTATATATTATTCATTTATT
1 TTTTATTTTTTTACTTACATATTTATATATTATTCATTTATA
9182434 TTTTATTTT
1 TTTTATTTT
9182443 AATTCCTTTA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
41 33 0.82
42 7 0.17
ACGTcount: A:0.23, C:0.08, G:0.01, T:0.68
Consensus pattern (42 bp):
TTTTATTTTTTTACTTACATATTTATATATTATTCATTTATA
Found at i:9182664 original size:3 final size:3
Alignment explanation
Indices: 9182656--9182690 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
9182646 ATTTGCACAT
*
9182656 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9182691 TACCTTTCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9183772 original size:72 final size:72
Alignment explanation
Indices: 9183655--9183795 Score: 266
Period size: 72 Copynumber: 2.0 Consensus size: 72
9183645 CAAACTCAGG
9183655 TATTAAATTATCAAAATATTTTTATTTTAATAATGTAATAAATGTTAATTAAGGGTATGTCATAA
1 TATTAAATTATCAAAATATTTTTATTTTAATAATGTAATAAATGTTAATTAAGGGTATGTCATAA
9183720 TCTTAGA
66 TCTTAGA
9183727 TATTAAATTATCAAAAT-TTTATTATTTTAATAATGTAATAAATGTTAATTAAGGGTATGTCATA
1 TATTAAATTATCAAAATATTT-TTATTTTAATAATGTAATAAATGTTAATTAAGGGTATGTCATA
9183791 ATCTT
65 ATCTT
9183796 CTTGATAATA
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
71 3 0.04
72 65 0.96
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.45
Consensus pattern (72 bp):
TATTAAATTATCAAAATATTTTTATTTTAATAATGTAATAAATGTTAATTAAGGGTATGTCATAA
TCTTAGA
Found at i:9184188 original size:178 final size:180
Alignment explanation
Indices: 9183886--9184244 Score: 560
Period size: 178 Copynumber: 2.0 Consensus size: 180
9183876 AATTATAGCG
* * *
9183886 CATTTAGTATACTTAATATTATGTATTTACGTGTTTAAATTTCTTTTTACTAACAATTTAATCTA
1 CATTTAGTATACTTAATATGATGTATTTACGTGTTT-AACTTCTTTTTACTAACAATTAAATCTA
* * * ** **
9183951 ATTTTTTTCAATAAAATATTGTACATATTGTATGTGTTATTATTAATTAATTTCAAACATCATGT
65 AATTTTTTCAACAAAATATTATACATATTACATGTGTTATTATTAATTAATTTCAAACATCACAT
*
9184016 TTTAATTATTTATCATATGTTATATTCAAATGCAGACATGTATTCTAAATA
130 TTTAATTATTTATCATATGTTATATTCAAATGCACACATGTATTCTAAATA
**
9184067 CATTTAGTATTTTTAATATGATGTATTTACGTGTTT-ACTT-TTTTTACTAACAATTAAATCTAA
1 CATTTAGTATACTTAATATGATGTATTTACGTGTTTAACTTCTTTTTACTAACAATTAAATCTAA
*
9184130 ATTTTTTCAACAAAATATTATACATATTACATGTGTTATTATTAATTAATTTCAAACATTACATT
66 ATTTTTTCAACAAAATATTATACATATTACATGTGTTATTATTAATTAATTTCAAACATCACATT
*
9184195 TTAATTATTTATCATATGTTATATTCAAATGTACACATGTATTCTAAATA
131 TTAATTATTTATCATATGTTATATTCAAATGCACACATGTATTCTAAATA
9184245 TATGATTTTC
Statistics
Matches: 163, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
178 127 0.78
179 3 0.02
181 33 0.20
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (180 bp):
CATTTAGTATACTTAATATGATGTATTTACGTGTTTAACTTCTTTTTACTAACAATTAAATCTAA
ATTTTTTCAACAAAATATTATACATATTACATGTGTTATTATTAATTAATTTCAAACATCACATT
TTAATTATTTATCATATGTTATATTCAAATGCACACATGTATTCTAAATA
Found at i:9186723 original size:17 final size:18
Alignment explanation
Indices: 9186703--9186736 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9186693 TTAATTTGAA
*
9186703 TTTAGTTTTAG-TTTTTT
1 TTTAATTTTAGATTTTTT
9186720 TTTAATTTTAGATTTTT
1 TTTAATTTTAGATTTTT
9186737 CCAAAAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
TTTAATTTTAGATTTTTT
Found at i:9187157 original size:20 final size:20
Alignment explanation
Indices: 9187119--9187157 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9187109 AATAATAAAC
**
9187119 TATTTTAATTTTAGGATATG
1 TATTTTAATTTTAAAATATG
*
9187139 TATTTTATTTTTAAAATAT
1 TATTTTAATTTTAAAATAT
9187158 AATAATACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
TATTTTAATTTTAAAATATG
Found at i:9220377 original size:41 final size:41
Alignment explanation
Indices: 9220330--9220407 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
9220320 ATATTTTATT
* *
9220330 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTACTTTATTAAAATAAGGGAATTATTTTCC
9220371 TTATCTTTTAGTACTTTATTAAAATAAGGGAATTATT
1 TTATCTTTTAGTACTTTATTAAAATAAGGGAATTATT
9220408 ATCCCAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (41 bp):
TTATCTTTTAGTACTTTATTAAAATAAGGGAATTATTTTCC
Found at i:9224046 original size:19 final size:19
Alignment explanation
Indices: 9224022--9224058 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
9224012 CATTTTAAAG
9224022 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
9224041 TTATTTAGGTAGATAAAT
1 TTATTTAGGTAGATAAAT
9224059 ATTAGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:9224148 original size:41 final size:41
Alignment explanation
Indices: 9224100--9224181 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
9224090 ATATTTTATT
* *
9224100 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTACTTTAGTAGAATAAGGGAATTATTTTCC
9224141 TTATCTTTTAGTACTTTAGTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTACTTTAGTAGAATAAGGGAATTATTTTCC
9224182 CAATTAGGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.48
Consensus pattern (41 bp):
TTATCTTTTAGTACTTTAGTAGAATAAGGGAATTATTTTCC
Found at i:9230023 original size:22 final size:25
Alignment explanation
Indices: 9229975--9230029 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 25
9229965 AGGACGAACG
9229975 AACGAAAAAAGAGAAATAGCAGCAAA
1 AACG-AAAAAGAGAAATAGCAGCAAA
9230001 AA-GAAAAAGA-AAATAAG-AG-AAA
1 AACGAAAAAGAGAAAT-AGCAGCAAA
9230023 AACGAAA
1 AACGAAA
9230030 TACATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 5 0.19
23 10 0.37
24 9 0.33
25 1 0.04
26 2 0.07
ACGTcount: A:0.71, C:0.07, G:0.18, T:0.04
Consensus pattern (25 bp):
AACGAAAAAGAGAAATAGCAGCAAA
Found at i:9236604 original size:79 final size:79
Alignment explanation
Indices: 9236442--9236675 Score: 293
Period size: 79 Copynumber: 3.0 Consensus size: 79
9236432 CAATTCTCCA
* *
9236442 CATGGTATCAAATGTTTTTGGTTCTTTCCT---AAGTGTTTT-TTTT-CTTGTCGAATTCTTGCT
1 CATGGTATCAGATGTTTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCTGGTCGAATTCTTGCT
* *
9236502 TCTCGTGTTTATTC
66 TCTCCTGTTCATTC
* * *
9236516 CATGATATCAGATGTTTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCTGGTTGAAATCTTGCT
1 CATGGTATCAGATGTTTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCTGGTCGAATTCTTGCT
*
9236581 TCTCTTGTTCATTC
66 TCTCCTGTTCATTC
* * *
9236595 CATGGTATCAGATGTTTTTGGTTCCTTT-CTAAGAAGAG-TTTCTTTTTCTTGGTCGAGTTCTTG
1 CATGGTATCAGATGTTTTTGGTT-CTTTCCTAAGAAGTGTTTTC-TTTTCCTGGTCGAATTCTTG
9236658 CTTCTCCTGTTCTATTC
64 CTTCTCCTGTTC-ATTC
9236675 C
1 C
9236676 CAAGTCCTTT
Statistics
Matches: 138, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
74 28 0.20
77 9 0.07
78 8 0.06
79 84 0.61
80 9 0.07
ACGTcount: A:0.15, C:0.18, G:0.17, T:0.50
Consensus pattern (79 bp):
CATGGTATCAGATGTTTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCTGGTCGAATTCTTGCT
TCTCCTGTTCATTC
Found at i:9247040 original size:30 final size:29
Alignment explanation
Indices: 9247013--9247069 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
9247003 CCTATTTTCA
9247013 AGTA-TATTTA-CGGAAATGGGTCAATTTT
1 AGTATTATTTACCGGAAA-GGGTCAATTTT
* *
9247041 TGTATTATTTACCGGAAAGGGTCGATTTT
1 AGTATTATTTACCGGAAAGGGTCAATTTT
9247070 GCCAAAATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 16 0.64
30 6 0.24
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (29 bp):
AGTATTATTTACCGGAAAGGGTCAATTTT
Found at i:9247326 original size:13 final size:13
Alignment explanation
Indices: 9247308--9247333 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9247298 CAAAATTTCT
9247308 TCAAAATTTAGCA
1 TCAAAATTTAGCA
9247321 TCAAAATTTAGCA
1 TCAAAATTTAGCA
9247334 AAAAAAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TCAAAATTTAGCA
Found at i:9247378 original size:30 final size:30
Alignment explanation
Indices: 9247342--9247406 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
9247332 CAAAAAAAAA
9247342 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
*
9247372 CTCTCAAATTTCTCCTTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
9247402 CTCTC
1 CTCTC
9247407 TTTAATTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.28, C:0.31, G:0.03, T:0.38
Consensus pattern (30 bp):
CTCTCAAATTTCTCCCTAAATTTCTCAAAG
Found at i:9248526 original size:18 final size:18
Alignment explanation
Indices: 9248503--9248545 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9248493 TGCCAGGTGC
* *
9248503 GTATCCTAGCCCTTATAT
1 GTATCCTAACACTTATAT
9248521 GTATCCTAACACTTATAT
1 GTATCCTAACACTTATAT
*
9248539 GTTTCCT
1 GTATCCT
9248546 TTTCCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACACTTATAT
Found at i:9252411 original size:126 final size:126
Alignment explanation
Indices: 9252039--9252432 Score: 580
Period size: 126 Copynumber: 3.1 Consensus size: 126
9252029 GGCCAAACAT
* * * **
9252039 GAACTACTGTAGAAAAAGAGTGTCCACATAGGAGCTTTTTTCAGT-AATTTTACTAACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCA-TCAATTTTGCCGACAGTGCAT
* *
9252103 CCTACTTGAAGCGTTTTTTACACTATTTGTTCAGAAAC-ATCTTCTCAAAATTATTTTTT-AG
65 CCTGCTTGAAGCGTTTTTTACACTATTTGTTCAG-AACTGTCTTCTCAAAATTATTTTTTCAG
9252164 GAACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCATCAATTTTG-CGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCATCAATTTTGCCGACAGTGCATC
* * * * *
9252228 CTGCTTGAAGCATTTCTGACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTTCAA
66 CTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAACTGTCTTCTCAAAATTA-TTTTTTCAG
* * *
9252290 GAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCATCAATTTTGCCGACAGTACATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCATCAATTTTGCCGACAGTGCATC
*
9252355 CTGTTTGAAGCGTTTTTTACACTATTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
*
9252416 GAACTACTATAGAAAAA
1 GAACTACTGTAGAAAAA
9252433 CTCAAAATCC
Statistics
Matches: 242, Mismatches: 22, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
123 2 0.01
124 54 0.22
125 53 0.22
126 75 0.31
127 58 0.24
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCATCAATTTTGCCGACAGTGCATC
CTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
Found at i:9252549 original size:34 final size:33
Alignment explanation
Indices: 9252510--9252601 Score: 121
Period size: 34 Copynumber: 2.7 Consensus size: 33
9252500 AAAATAAACT
9252510 CAAATTTAATTAATTTTCTTAAAAACACTAAATC
1 CAAATTTAATTAATTTT-TTAAAAACACTAAATC
* * *
9252544 CAAATTTAACTAATTTATTTAAAACCCCTAAATC
1 CAAATTTAATTAATTT-TTTAAAAACACTAAATC
* *
9252578 CTAATTTAATTAATTTTTAAAAAA
1 CAAATTTAATTAATTTTTTAAAAA
9252602 TAACGCTAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 6 0.12
34 43 0.86
35 1 0.02
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (33 bp):
CAAATTTAATTAATTTTTTAAAAACACTAAATC
Found at i:9252724 original size:35 final size:34
Alignment explanation
Indices: 9252619--9252709 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 34
9252609 AAATCCTGAT
* ** *
9252619 TTATTTTTAAAAATTCCTAAAACTTAGAACCCTAAA
1 TTATTTTAAAAAAACCCTAAAACCT--AACCCTAAA
*
9252655 TTATTTTAACAAAACCCTACAAACCTAACCCTAAA
1 TTATTTTAAAAAAACCCTA-AAACCTAACCCTAAA
9252690 TTATTTTAAAAAAACCCTAA
1 TTATTTTAAAAAAACCCTAA
9252710 CCCTAAAACC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
34 1 0.02
35 27 0.56
36 15 0.31
37 5 0.10
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (34 bp):
TTATTTTAAAAAAACCCTAAAACCTAACCCTAAA
Found at i:9252726 original size:15 final size:15
Alignment explanation
Indices: 9252698--9252737 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
9252688 AATTATTTTA
9252698 AAAAAACCCT-AACC
1 AAAAAACCCTAAACC
**
9252712 CTAAAACCCTAAACC
1 AAAAAACCCTAAACC
9252727 AAAAAACCCTA
1 AAAAAACCCTA
9252738 GGGACTAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.55, C:0.35, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAACCCTAAACC
Found at i:9254777 original size:31 final size:31
Alignment explanation
Indices: 9254742--9254803 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
9254732 GCCTATCTTC
9254742 CCCAATTGAAGTTACGGCAATGGTGGAAGAA
1 CCCAATTGAAGTTACGGCAATGGTGGAAGAA
9254773 CCCAATTGAAGTTACGGCAATGGTGGAAGAA
1 CCCAATTGAAGTTACGGCAATGGTGGAAGAA
9254804 AAGGAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.19
Consensus pattern (31 bp):
CCCAATTGAAGTTACGGCAATGGTGGAAGAA
Found at i:9259189 original size:18 final size:18
Alignment explanation
Indices: 9259148--9259190 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
9259138 TTCTTTCTTA
9259148 TTATTTTAAATTTTTTAT
1 TTATTTTAAATTTTTTAT
9259166 TATATTTT-AATTGTTTTAT
1 T-TATTTTAAATT-TTTTAT
9259185 TTATTT
1 TTATTT
9259191 AGTTAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (18 bp):
TTATTTTAAATTTTTTAT
Found at i:9265246 original size:16 final size:18
Alignment explanation
Indices: 9265220--9265254 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
9265210 TAGAATTGGG
9265220 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
9265237 TTGA-AAAATTAATTTAA
1 TTGAGAAAATTAATTTAA
9265254 T
1 T
9265255 AAATAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:9266291 original size:51 final size:50
Alignment explanation
Indices: 9266199--9266380 Score: 165
Period size: 51 Copynumber: 3.6 Consensus size: 50
9266189 CATCAGAACT
* * * *
9266199 CATGTGTAGTACTATGTGTAGGCTATTATGAGTATA-AGATAGTTATGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTAT--GTATACCGATAGTTATGGTCA
*
9266250 CATGTGTAGTACTAAGTGCAGGTTACTATGTATACCGGATAGCTT-TGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTATACC-GATAG-TTATGGTCA
* * * * * *
9266301 CGTGTATAGTACTATA-TACAGGCTACTACGTGTACCGA-ACGATATTGGTCA
1 CATGTGTAGTACTA-AGTGCAGGCTACTATGTATACCGATA-GTTA-TGGTCA
*
9266352 CATGTGTAGTACTAAGTGTAGGCTACTAT
1 CATGTGTAGTACTAAGTGCAGGCTACTAT
9266381 TTGTATCGAA
Statistics
Matches: 106, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
49 7 0.07
50 4 0.04
51 92 0.87
52 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTATACCGATAGTTATGGTCA
Found at i:9270138 original size:23 final size:24
Alignment explanation
Indices: 9270091--9270136 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
9270081 GAAAAATATT
9270091 AAATATATATATTTTTTATTTTTA
1 AAATATATATATTTTTTATTTTTA
9270115 AAATATA-ATAGTTTTTTATTTT
1 AAATATATATA-TTTTTTATTTT
9270137 AAGTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATATATATTTTTTATTTTTA
Found at i:9270247 original size:9 final size:9
Alignment explanation
Indices: 9270233--9270260 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
9270223 TTTTGTTACA
9270233 ACAATTAAT
1 ACAATTAAT
9270242 ACAATTAAT
1 ACAATTAAT
9270251 ACAATTAAT
1 ACAATTAAT
9270260 A
1 A
9270261 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:9270282 original size:68 final size:68
Alignment explanation
Indices: 9270203--9270412 Score: 388
Period size: 68 Copynumber: 3.1 Consensus size: 68
9270193 TTAAGTTTGT
*
9270203 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
9270268 AAA
66 AAA
9270271 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
9270336 AAA
66 AAA
9270339 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
9270402 AAT
66 AAA
9270405 TTTACTAA
1 TTTACTAA
9270413 CAATTAATTT
Statistics
Matches: 140, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
66 27 0.19
67 1 0.01
68 112 0.80
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Done.