Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 116 of 240
Found at i:36137661 original size:50 final size:50
Alignment explanation
Indices: 36137598--36137786 Score: 198
Period size: 50 Copynumber: 3.7 Consensus size: 50
36137588 TTGTACTACA
* * * **
36137598 AATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTACC
1 AATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGGTACC
* * * *
36137648 CATGCCATGTCCCAGACATAGTCTTACGGGGGACCTCTCATCTCGGTACC
1 AATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGGTACC
* * * *
36137698 AACGCCATGCCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATGATGCC
1 AATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCAT-A--TC---GGTACC
*
36137754 AATGCCATGTCCCAAACATGGTCTTACGTGGGA
1 AATGCCATGTCCCAGACATGGTCTTACGTGGGA
36137787 TATGACATTT
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
50 77 0.68
53 2 0.02
56 34 0.30
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGGTACC
Found at i:36138016 original size:50 final size:50
Alignment explanation
Indices: 36137962--36138068 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 50
36137952 ACATGGGAGT
* * * * *
36137962 TCTCATATCGGTGCCCATGCCATGTCCCAGACATAGCCTTATG-GGGGACC
1 TCTCATATCGGTACCAACGCCATGCCCCAGACATAGCCTTACGTGGGG-CC
* * *
36138012 TCTCATCTCGGTACCAACGCCATGCCCCAGACATGGTCTTACGTGGGGCC
1 TCTCATATCGGTACCAACGCCATGCCCCAGACATAGCCTTACGTGGGGCC
36138062 TCTCATA
1 TCTCATA
36138069 ACCTCAATAA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 43 0.91
51 4 0.09
ACGTcount: A:0.20, C:0.34, G:0.22, T:0.24
Consensus pattern (50 bp):
TCTCATATCGGTACCAACGCCATGCCCCAGACATAGCCTTACGTGGGGCC
Found at i:36140215 original size:20 final size:20
Alignment explanation
Indices: 36140188--36140237 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
36140178 ATAGAGGAAC
* *
36140188 CAAAGTGCAAGCAGAGGCAT
1 CAAAGTGCAACCAAAGGCAT
36140208 -AAATGTGCAACCAAAGGCAT
1 CAAA-GTGCAACCAAAGGCAT
36140228 CAAAGTGCAA
1 CAAAGTGCAA
36140238 ATAGAGACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 3 0.12
20 20 0.77
21 3 0.12
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (20 bp):
CAAAGTGCAACCAAAGGCAT
Found at i:36141305 original size:21 final size:21
Alignment explanation
Indices: 36141264--36141302 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
36141254 CTTTTGTTTT
* *
36141264 ATTAATATTATTACATTAATA
1 ATTAATATTAATACATAAATA
36141285 ATTAA-ATTAATACATAAA
1 ATTAATATTAATACATAAA
36141303 ATATGCTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTAATATTAATACATAAATA
Found at i:36151856 original size:29 final size:29
Alignment explanation
Indices: 36151812--36152026 Score: 152
Period size: 29 Copynumber: 7.4 Consensus size: 29
36151802 TCAATGACTA
* *
36151812 ATGAAAAGGGATAGCTTCAGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* * *
36151841 GTGAAAAGAGAAAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
*
36151870 ATGAAAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* ** * * *
36151899 ATGAAAAGGGAT-GGTGAT-AACCATCAACT
1 ATGAAAAGGGATAGCT--TCGGCTATCGATT
* * * * * *
36151928 ATTG-AAAGGGAT-GGTGACGACCATCAAAT
1 A-TGAAAAGGGATAGCT-TCGGCTATCGATT
*
36151957 ATGAAAAGGGATAGC-TCTGACTATCGATT
1 ATGAAAAGGGATAGCTTC-GGCTATCGATT
* *
36151986 ATGAAAAGGGATAACTTCGGCTATCTATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
*
36152015 ATGAAAGGGGAT
1 ATGAAAAGGGAT
36152027 GGTGACGACC
Statistics
Matches: 150, Mismatches: 28, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
28 5 0.03
29 139 0.93
30 6 0.04
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGATT
Found at i:36151960 original size:58 final size:57
Alignment explanation
Indices: 36151890--36152113 Score: 184
Period size: 58 Copynumber: 3.8 Consensus size: 57
36151880 ATAGCTTTGG
*
36151890 CTATCGATTATGAAAAGGGATGGTGATAACCATCAACTATTG-AAAGGGATGGTGACGA
1 CTATCAATTATGAAAAGGGATGGT-ATAACCATCAACTA-TGAAAAGGGATGGTGACGA
* * * * * * * * ** * *
36151948 CCATCAAATATGAAAAGGGATAGCTCTGACTATCGATTATGAAAAGGGATAACT-TCGG
1 CTATCAATTATGAAAAGGGAT-GGTATAACCATCAACTATGAAAAGGGAT-GGTGACGA
* * **
36152006 CTATCTATTATGAAAGGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACGA
1 CTATCAATTATGAAAAGGGATGGT-ATAACCATCAACTATGAAAAGGGATGGTGACGA
* *
36152064 CTATCAATTAATGAAAAGGGATGGTTTCAACCATCGAA-TATTAAAAGGGA
1 CTATCAATT-ATGAAAAGGGATGGTAT-AACCATC-AACTATGAAAAGGGA
36152114 CAGTTATGAT
Statistics
Matches: 125, Mismatches: 33, Indels: 15
0.72 0.19 0.09
Matches are distributed among these distances:
57 5 0.04
58 84 0.67
59 34 0.27
60 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (57 bp):
CTATCAATTATGAAAAGGGATGGTATAACCATCAACTATGAAAAGGGATGGTGACGA
Found at i:36152020 original size:116 final size:117
Alignment explanation
Indices: 36151861--36152085 Score: 355
Period size: 116 Copynumber: 1.9 Consensus size: 117
36151851 AAAGCTTCGG
* * *
36151861 CTATCGATTATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGATAACCATCAA
1 CTATCGATTATGAAAAGGGATAACTTCGGCTATCGATTATGAAAAGGGATGGTGACAACCATCAA
36151926 CTATTG-AAAGGGATGGTGACGACCATCAAAT-ATGAAAAGGGATAGCTCTGA
66 CTA-TGAAAAGGGATGGTGACGACCATCAAATAATGAAAAGGGATAGCTCTGA
* * *
36151977 CTATCGATTATGAAAAGGGATAACTTCGGCTATCTATTATGAAAGGGGATGGTGACGACCATCAA
1 CTATCGATTATGAAAAGGGATAACTTCGGCTATCGATTATGAAAAGGGATGGTGACAACCATCAA
* *
36152042 CTATGAAAAGGGATGGTGACGACTATCAATTAATGAAAAGGGAT
66 CTATGAAAAGGGATGGTGACGACCATCAAATAATGAAAAGGGAT
36152086 GGTTTCAACC
Statistics
Matches: 99, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
115 2 0.02
116 85 0.86
117 12 0.12
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (117 bp):
CTATCGATTATGAAAAGGGATAACTTCGGCTATCGATTATGAAAAGGGATGGTGACAACCATCAA
CTATGAAAAGGGATGGTGACGACCATCAAATAATGAAAAGGGATAGCTCTGA
Found at i:36152026 original size:87 final size:86
Alignment explanation
Indices: 36151869--36152085 Score: 235
Period size: 87 Copynumber: 2.5 Consensus size: 86
36151859 GGCTATCGAT
* * **
36151869 TATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGATAACCATCAACTATTGAA
1 TATGAAAAGGGATAGCTCTGACTATCGATTATGAAAAGGGATACT-ATAACCATCAACTATTGAA
36151934 AGGGATGGTGACGACCATCAAA
65 AGGGATGGTGACGACCATCAAA
** * * *
36151956 TATGAAAAGGGATAGCTCTGACTATCGATTATGAAAAGGGATAACT-TCGGCTATCTATTA-TGA
1 TATGAAAAGGGATAGCTCTGACTATCGATTATGAAAAGGGAT-ACTAT-AACCATCAACTATTGA
*
36152019 AAGGGGATGGTGACGACCATCAAC
64 AA-GGGATGGTGACGACCATCAAA
* *
36152043 TATGAAAAGGGAT-GGTGAC-GACTATCAATTAATGAAAAGGGAT
1 TATGAAAAGGGATAGCT--CTGACTATCGATT-ATGAAAAGGGAT
36152086 GGTTTCAACC
Statistics
Matches: 112, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
86 8 0.07
87 90 0.80
88 14 0.12
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.24
Consensus pattern (86 bp):
TATGAAAAGGGATAGCTCTGACTATCGATTATGAAAAGGGATACTATAACCATCAACTATTGAAA
GGGATGGTGACGACCATCAAA
Found at i:36152046 original size:29 final size:29
Alignment explanation
Indices: 36152014--36152088 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
36152004 GGCTATCTAT
*
36152014 TATGAAAGGGGATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* *
36152043 TATGAAAAGGGATGGTGACGACTATCAAT
1 TATGAAAAGGGATGGTGACGACCATCAAC
36152072 TAATGAAAAGGGATGGT
1 T-ATGAAAAGGGATGGT
36152089 TTCAACCATC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 27 0.64
30 15 0.36
ACGTcount: A:0.37, C:0.11, G:0.31, T:0.21
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:36153597 original size:33 final size:33
Alignment explanation
Indices: 36153560--36153627 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
36153550 TTGGACCTAA
*
36153560 ATTTGGTATGTATATATATTGGATGTTGGAACC
1 ATTTGGTATGTATATATATTGGATGTTGAAACC
36153593 ATTTGGTATGTATATATATTGGATGTTGAAACC
1 ATTTGGTATGTATATATATTGGATGTTGAAACC
36153626 AT
1 AT
36153628 GTTACACGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (33 bp):
ATTTGGTATGTATATATATTGGATGTTGAAACC
Found at i:36154944 original size:22 final size:21
Alignment explanation
Indices: 36154881--36154951 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 21
36154871 CAACAAAGCT
*
36154881 GCCAGTAACCAGAATGGCTAAGA
1 GCCA-TAAACAGAATGGCTAA-A
* * *
36154904 GCCGTAAACAGGATAGCTATAA
1 GCCATAAACAGAATGGCTA-AA
*
36154926 GCTATAAACAGAATGGCTACAA
1 GCCATAAACAGAATGGCTA-AA
36154948 GCCA
1 GCCA
36154952 GAAGTACAGT
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
22 33 0.89
23 4 0.11
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.15
Consensus pattern (21 bp):
GCCATAAACAGAATGGCTAAA
Found at i:36154996 original size:32 final size:32
Alignment explanation
Indices: 36154959--36155142 Score: 236
Period size: 32 Copynumber: 5.8 Consensus size: 32
36154949 CCAGAAGTAC
* *
36154959 AGTAATATGATTGGCACA-AAGCCATCAGTAGT
1 AGTAATATGATCGGCACACAA-CCATCAGTAAT
36154991 AGTAATATGATCGGCACACAACCATCAGTAAT
1 AGTAATATGATCGGCACACAACCATCAGTAAT
*
36155023 AGTAGTATGATCGGCACA-AAGCCATCAG---T
1 AGTAATATGATCGGCACACAA-CCATCAGTAAT
* *
36155052 AGTAATATGATTGACACACAACCATCAGTAAT
1 AGTAATATGATCGGCACACAACCATCAGTAAT
*
36155084 GGTAATATGATCGGCACACAACCATCAGTAAT
1 AGTAATATGATCGGCACACAACCATCAGTAAT
*
36155116 GGTAATATGATCGGCACA-AAGCCATCA
1 AGTAATATGATCGGCACACAA-CCATCA
36155143 ATAGCATCGG
Statistics
Matches: 136, Mismatches: 9, Indels: 14
0.86 0.06 0.09
Matches are distributed among these distances:
29 23 0.17
30 2 0.01
31 4 0.03
32 105 0.77
33 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (32 bp):
AGTAATATGATCGGCACACAACCATCAGTAAT
Found at i:36155078 original size:61 final size:61
Alignment explanation
Indices: 36154959--36155142 Score: 228
Period size: 61 Copynumber: 2.9 Consensus size: 61
36154949 CCAGAAGTAC
* *
36154959 AGTAATATGATTGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACACAACCATCAGTAAT
1 AGTAATATGATCGGCACAAAGCCATC---AGTAGTAATATGATCGACACACAACCATCAGTAAT
* *
36155023 AGTAGTATGATCGGCACAAAGCCATCAGTAGTAATATGATTGACACACAACCATCAGTAAT
1 AGTAATATGATCGGCACAAAGCCATCAGTAGTAATATGATCGACACACAACCATCAGTAAT
* *
36155084 GGTAATATGATCGGCACACAA-CCATCAGTAATGGTAATATGATCGGCACA-AAGCCATCA
1 AGTAATATGATCGGCACA-AAGCCATCAGT-A--GTAATATGATCGACACACAA-CCATCA
36155143 ATAGCATCGG
Statistics
Matches: 107, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
61 57 0.53
62 3 0.03
63 2 0.02
64 45 0.42
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (61 bp):
AGTAATATGATCGGCACAAAGCCATCAGTAGTAATATGATCGACACACAACCATCAGTAAT
Found at i:36155125 original size:93 final size:93
Alignment explanation
Indices: 36154959--36155142 Score: 307
Period size: 93 Copynumber: 2.0 Consensus size: 93
36154949 CCAGAAGTAC
* *
36154959 AGTAATATGATTGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACACAACCATCAGTAATA
1 AGTAATATGATTGACACAAAGCCATCAGTAATAGTAATATGATCGGCACACAACCATCAGTAATA
*
36155024 GTAGTATGATCGGCACAAAGCCATCAGT
66 GTAATATGATCGGCACAAAGCCATCAGT
*
36155052 AGTAATATGATTGACACACAA-CCATCAGTAATGGTAATATGATCGGCACACAACCATCAGTAAT
1 AGTAATATGATTGACACA-AAGCCATCAGTAATAGTAATATGATCGGCACACAACCATCAGTAAT
*
36155116 GGTAATATGATCGGCACAAAGCCATCA
65 AGTAATATGATCGGCACAAAGCCATCA
36155143 ATAGCATCGG
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
93 83 0.98
94 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (93 bp):
AGTAATATGATTGACACAAAGCCATCAGTAATAGTAATATGATCGGCACACAACCATCAGTAATA
GTAATATGATCGGCACAAAGCCATCAGT
Found at i:36155248 original size:27 final size:27
Alignment explanation
Indices: 36155189--36155253 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
36155179 AGTAAAGCTG
*
36155189 CCAGTAACAGTATATGTGGTCAAGCTA
1 CCAGTAACAGTATATGTGGTCAAGCCA
*
36155216 CTAGTAACAGTGAT-TGTGG-CAGAGCCA
1 CCAGTAACAGT-ATATGTGGTCA-AGCCA
36155243 CCAGT-ACAGTA
1 CCAGTAACAGTA
36155254 CTTCCTCCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 1 0.03
26 7 0.21
27 23 0.70
28 2 0.06
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (27 bp):
CCAGTAACAGTATATGTGGTCAAGCCA
Found at i:36155349 original size:24 final size:24
Alignment explanation
Indices: 36155317--36155450 Score: 135
Period size: 24 Copynumber: 5.6 Consensus size: 24
36155307 TCATGCACGG
**
36155317 AATCAGTCATACAAATCACAAACA
1 AATCAGTCATTTAAATCACAAACA
36155341 AATCAGTCATTTAAATCA-AAGACA
1 AATCAGTCATTTAAATCACAA-ACA
* *
36155365 AATCAGTCATTTAAACCACAGACA
1 AATCAGTCATTTAAATCACAAACA
* * * *
36155389 AATTAGTCATTTACATCTCAGACA
1 AATCAGTCATTTAAATCACAAACA
* * **
36155413 AATCATTCATTTACATCACAGTCA
1 AATCAGTCATTTAAATCACAAACA
*
36155437 AATCAATCATTTAA
1 AATCAGTCATTTAA
36155451 CCTCGAGGGG
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
23 2 0.02
24 91 0.97
25 1 0.01
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.27
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAAACA
Found at i:36155390 original size:48 final size:48
Alignment explanation
Indices: 36155317--36155450 Score: 160
Period size: 48 Copynumber: 2.8 Consensus size: 48
36155307 TCATGCACGG
** *
36155317 AATCAGTCATACAAATCACAAACAAATCAGTCATTTAAATCAAAGACA
1 AATCAGTCATTTAAATCACAGACAAATCAGTCATTTAAATCAAAGACA
* * * **
36155365 AATCAGTCATTTAAACCACAGACAAATTAGTCATTTACATCTCAGACA
1 AATCAGTCATTTAAATCACAGACAAATCAGTCATTTAAATCAAAGACA
* * * *
36155413 AATCATTCATTTACATCACAGTCAAATCAATCATTTAA
1 AATCAGTCATTTAAATCACAGACAAATCAGTCATTTAA
36155451 CCTCGAGGGG
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.27
Consensus pattern (48 bp):
AATCAGTCATTTAAATCACAGACAAATCAGTCATTTAAATCAAAGACA
Found at i:36155476 original size:27 final size:27
Alignment explanation
Indices: 36155446--36155513 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 27
36155436 AAATCAATCA
*
36155446 TTTAACCTCGAGGGGCAAAATAGTCAT
1 TTTAACCTAGAGGGGCAAAATAGTCAT
* * ** *
36155473 TTTACCCTATAGGGGCATTATGGTCAT
1 TTTAACCTAGAGGGGCAAAATAGTCAT
* *
36155500 TTTACCCTACAGGG
1 TTTAACCTAGAGGG
36155514 CATTACGATC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (27 bp):
TTTAACCTAGAGGGGCAAAATAGTCAT
Found at i:36155525 original size:26 final size:26
Alignment explanation
Indices: 36155469--36155541 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
36155459 GGCAAAATAG
* *
36155469 TCATTTTACCCTATAGGGGCATTATGG
1 TCATTTTACCCTATA-GGGCATTACGA
*
36155496 TCATTTTACCCTACAGGGCATTACGA
1 TCATTTTACCCTATAGGGCATTACGA
*
36155522 TCATTTTATCCTATAGGGCA
1 TCATTTTACCCTATAGGGCA
36155542 GATACCCTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 27 0.66
27 14 0.34
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.36
Consensus pattern (26 bp):
TCATTTTACCCTATAGGGCATTACGA
Found at i:36155580 original size:26 final size:26
Alignment explanation
Indices: 36155544--36155628 Score: 125
Period size: 27 Copynumber: 3.2 Consensus size: 26
36155534 ATAGGGCAGA
36155544 TACCCTATAAGGCATTACGGTCATTT
1 TACCCTATAAGGCATTACGGTCATTT
*
36155570 TACCCTATAAGGGTATTACGGTCATTT
1 TACCCTATAA-GGCATTACGGTCATTT
* *
36155597 TACCCTACAGGAGCATTACGGTCATTT
1 TACCCTATAAG-GCATTACGGTCATTT
36155624 TACCC
1 TACCC
36155629 ATCGAGGGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 11 0.21
27 42 0.79
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (26 bp):
TACCCTATAAGGCATTACGGTCATTT
Found at i:36155595 original size:27 final size:27
Alignment explanation
Indices: 36155544--36155667 Score: 121
Period size: 27 Copynumber: 4.6 Consensus size: 27
36155534 ATAGGGCAGA
*
36155544 TACCCTATAA-GGCATTACGGTCATTT
1 TACCCTATAAGGGTATTACGGTCATTT
36155570 TACCCTATAAGGGTATTACGGTCATTT
1 TACCCTATAAGGGTATTACGGTCATTT
* *
36155597 TACCCTA-CAGGAGCATTACGGTCATTT
1 TACCCTATAAGG-GTATTACGGTCATTT
* * **
36155624 TACCC-ATCGAGGGTATTTCGAACATTT
1 TACCCTAT-AAGGGTATTACGGTCATTT
*
36155651 TACGCT-TCAAGGGTATT
1 TACCCTAT-AAGGGTATT
36155668 TTAGTAATTT
Statistics
Matches: 83, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
26 14 0.17
27 66 0.80
28 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
TACCCTATAAGGGTATTACGGTCATTT
Found at i:36155637 original size:54 final size:54
Alignment explanation
Indices: 36155554--36155749 Score: 180
Period size: 54 Copynumber: 3.6 Consensus size: 54
36155544 TACCCTATAA
* * * *
36155554 GGCATTACGGTCATTTTACCCTAT-AAGGGTATTACGGTCATTTTACCCTAC-AG
1 GGCATTACGGTAATTTTACCC-ATCGAGGGTATTTCGGTCATTTTACCCTTCAAG
* ** *
36155607 GAGCATTACGGTCATTTTACCCATCGAGGGTATTTCGAACATTTTACGCTTCAAG
1 G-GCATTACGGTAATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCTTCAAG
* *** * ** * * *
36155662 GGTATTTTAGTAATTTTACCCTTCGAGGGTATTTTTGTAATTTTACCTTTCGAG
1 GGCATTACGGTAATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCTTCAAG
* *
36155716 GGTATTTCGGTAATTTTACCCATCGAGGGTATTT
1 GGCATTACGGTAATTTTACCCATCGAGGGTATTT
36155750 TGATAATTTT
Statistics
Matches: 117, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
53 3 0.03
54 111 0.95
55 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (54 bp):
GGCATTACGGTAATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCTTCAAG
Found at i:36155750 original size:54 final size:53
Alignment explanation
Indices: 36155615--36155760 Score: 186
Period size: 54 Copynumber: 2.7 Consensus size: 53
36155605 AGGAGCATTA
* * *
36155615 CGGTCATTTTACCCATCGAGGGTATTTCGAACATTTTACGCTTCAAGGGTATTT
1 CGGTAATTTTACCCATCGAGGGTATTTTGTA-ATTTTACGCTTCAAGGGTATTT
** * *
36155669 TAGTAATTTTACCCTTCGAGGGTATTTTTGTAATTTTAC-CTTTCGAGGGTATTT
1 CGGTAATTTTACCCATCGAGGGTA-TTTTGTAATTTTACGC-TTCAAGGGTATTT
36155723 CGGTAATTTTACCCATCGAGGGTATTTTGATAATTTTA
1 CGGTAATTTTACCCATCGAGGGTATTTTG-TAATTTTA
36155761 TAACATTTTT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
53 6 0.08
54 68 0.86
55 5 0.06
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (53 bp):
CGGTAATTTTACCCATCGAGGGTATTTTGTAATTTTACGCTTCAAGGGTATTT
Found at i:36155756 original size:27 final size:27
Alignment explanation
Indices: 36155620--36155760 Score: 162
Period size: 27 Copynumber: 5.2 Consensus size: 27
36155610 CATTACGGTC
* *
36155620 ATTTTACCCATCGAGGGTATTTCGA-A
1 ATTTTACCCTTCGAGGGTATTTTGATA
* *
36155646 CATTTTACGCTTCAAGGGTATTTT-AGTA
1 -ATTTTACCCTTCGAGGGTATTTTGA-TA
36155674 ATTTTACCCTTCGAGGGTATTTTTG-TA
1 ATTTTACCCTTCGAGGGTA-TTTTGATA
* * *
36155701 ATTTTACCTTTCGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTTGATA
*
36155728 ATTTTACCCATCGAGGGTATTTTGATA
1 ATTTTACCCTTCGAGGGTATTTTGATA
36155755 ATTTTA
1 ATTTTA
36155761 TAACATTTTT
Statistics
Matches: 97, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.05
27 87 0.90
28 5 0.05
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTTGATA
Found at i:36161941 original size:23 final size:23
Alignment explanation
Indices: 36161910--36161969 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
36161900 GCAAAAAATT
* *
36161910 CTACTAGTAAAAATACAGACAAG
1 CTACCAGTAAAAATACAAACAAG
* * * *
36161933 TTGCCAGTAAAAATGCAAATAAG
1 CTACCAGTAAAAATACAAACAAG
36161956 CTACCAGTAAAAAT
1 CTACCAGTAAAAAT
36161970 GCGATAAATC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (23 bp):
CTACCAGTAAAAATACAAACAAG
Found at i:36171846 original size:40 final size:41
Alignment explanation
Indices: 36171783--36171887 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
36171773 AGTAAGAATT
* * * *
36171783 ATTACACCGGCTTGAAGCTTGCTAGGCACTAAGCTCTATA-
1 ATTACACCGGCATGAAGCCTGCTAGGCACTAAGCCCGATAG
*
36171823 ATTACACCGGCACT-AAGCCTGCTAGGCATTAAGCCCGATAG
1 ATTACACCGGCA-TGAAGCCTGCTAGGCACTAAGCCCGATAG
*
36171864 A-TACACTGGCATGAAGCCTGCTAG
1 ATTACACCGGCATGAAGCCTGCTAG
36171888 ACTCAAAGCC
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
39 1 0.02
40 53 0.95
41 2 0.04
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (41 bp):
ATTACACCGGCATGAAGCCTGCTAGGCACTAAGCCCGATAG
Found at i:36172620 original size:16 final size:16
Alignment explanation
Indices: 36172599--36172633 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
36172589 AGTCCTTGTA
36172599 ATTTTA-TCACTTTAAC
1 ATTTTAGTCA-TTTAAC
36172615 ATTTTAGTCATTTAAC
1 ATTTTAGTCATTTAAC
36172631 ATT
1 ATT
36172634 AAAATTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.31, C:0.14, G:0.03, T:0.51
Consensus pattern (16 bp):
ATTTTAGTCATTTAAC
Found at i:36177873 original size:24 final size:24
Alignment explanation
Indices: 36177846--36177892 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
36177836 CACACGGTCG
*
36177846 TGTGACAACCCGTGTCCTAGGCCA
1 TGTGACAACCCATGTCCTAGGCCA
* *
36177870 TGTGATATCCCATGTCCTAGGCC
1 TGTGACAACCCATGTCCTAGGCC
36177893 GGGTGCAACA
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:0.19, C:0.32, G:0.23, T:0.26
Consensus pattern (24 bp):
TGTGACAACCCATGTCCTAGGCCA
Found at i:36179654 original size:27 final size:28
Alignment explanation
Indices: 36179601--36179657 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
36179591 TATTTGGACA
*
36179601 ATTTTTCACTTTAGTCCCTAAAGTTTCAC
1 ATTTTTCAATTTAGTCCCT-AAGTTTCAC
36179630 ATTTCTTCAATTTAGTCCCT-A-TTTCAC
1 ATTT-TTCAATTTAGTCCCTAAGTTTCAC
36179657 A
1 A
36179658 AATACACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 7 0.27
28 1 0.04
29 4 0.15
30 14 0.54
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.46
Consensus pattern (28 bp):
ATTTTTCAATTTAGTCCCTAAGTTTCAC
Found at i:36184648 original size:27 final size:27
Alignment explanation
Indices: 36184618--36184795 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36184608 ATATTGAGTC
* * * *
36184618 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
36184645 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36184672 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
36184700 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
36184727 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
36184754 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36184781 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36184796 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:36184757 original size:82 final size:81
Alignment explanation
Indices: 36184639--36184794 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36184629 TGCTATATAA
* *
36184639 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
36184704 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
36184721 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
36184785 CACTTAGTGC
65 CACTTAGTGC
36184795 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36190202 original size:24 final size:25
Alignment explanation
Indices: 36190141--36190202 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 25
36190131 TCGGCAACAC
* *
36190141 ATATTAATCTATCAACATTTATTAA
1 ATATCAATCTATCAACATTTATAAA
* * *
36190166 TTTTCCATC-ATCAACATTTA-AAA
1 ATATCAATCTATCAACATTTATAAA
36190189 ATATCAATCTATCA
1 ATATCAATCTATCA
36190203 TTAATGGAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
23 8 0.29
24 15 0.54
25 5 0.18
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (25 bp):
ATATCAATCTATCAACATTTATAAA
Found at i:36195241 original size:26 final size:26
Alignment explanation
Indices: 36195210--36195262 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
36195200 ACATCAAACA
36195210 TACCATGTCTAATAACGTTCAATTCC
1 TACCATGTCTAATAACGTTCAATTCC
*
36195236 TACCATGTCTAATAACGTTCGATTCC
1 TACCATGTCTAATAACGTTCAATTCC
36195262 T
1 T
36195263 TCTCTCTACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.36
Consensus pattern (26 bp):
TACCATGTCTAATAACGTTCAATTCC
Found at i:36197565 original size:21 final size:22
Alignment explanation
Indices: 36197539--36197579 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
36197529 AATAAATACC
*
36197539 TATTG-TTTTCCAGTATTTTGT
1 TATTGTTTTTCCACTATTTTGT
36197560 TATTGTTTTTCCACTATTTT
1 TATTGTTTTTCCACTATTTT
36197580 CCTATGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.15, C:0.12, G:0.10, T:0.63
Consensus pattern (22 bp):
TATTGTTTTTCCACTATTTTGT
Found at i:36197589 original size:22 final size:22
Alignment explanation
Indices: 36197544--36197590 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
36197534 ATACCTATTG
* ** *
36197544 TTTTCCAGTATTTTGTTATTGT
1 TTTTCCACTATTTTCCTATGGT
36197566 TTTTCCACTATTTTCCTATGGT
1 TTTTCCACTATTTTCCTATGGT
36197588 TTT
1 TTT
36197591 GCTTCCATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.13, C:0.15, G:0.11, T:0.62
Consensus pattern (22 bp):
TTTTCCACTATTTTCCTATGGT
Found at i:36198111 original size:46 final size:44
Alignment explanation
Indices: 36198060--36198146 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 44
36198050 GCTGTAATGG
*
36198060 AATAGAGCTATAATTAGTAATTCAACTATTTGGTTGAATGGAAGGA
1 AATAGAACTATAA-TAGT-ATTCAACTATTTGGTTGAATGGAAGGA
***
36198106 AATAGAACTATAATAGTATTCTTGTATTTGGTTGAATGGAA
1 AATAGAACTATAATAGTATTCAACTATTTGGTTGAATGGAA
36198147 TGATGTTGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 21 0.57
45 4 0.11
46 12 0.32
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.36
Consensus pattern (44 bp):
AATAGAACTATAATAGTATTCAACTATTTGGTTGAATGGAAGGA
Found at i:36198307 original size:26 final size:27
Alignment explanation
Indices: 36198278--36198334 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
36198268 ATTTAATAAA
* *
36198278 AATAAGAAATATT-TTAATTATATTTT
1 AATAAGAAATATTATTAAATATAATTT
* *
36198304 AAT-ATAATTATTATTAAATATAATTT
1 AATAAGAAATATTATTAAATATAATTT
36198330 AATAA
1 AATAA
36198335 TATAATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
25 7 0.28
26 17 0.68
27 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
AATAAGAAATATTATTAAATATAATTT
Found at i:36198338 original size:13 final size:13
Alignment explanation
Indices: 36198320--36198347 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36198310 ATTATTATTA
36198320 AATATAATTTAAT
1 AATATAATTTAAT
36198333 AATATAATTTAAT
1 AATATAATTTAAT
36198346 AA
1 AA
36198348 CATTCTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATATAATTTAAT
Found at i:36203206 original size:25 final size:27
Alignment explanation
Indices: 36203151--36203206 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
36203141 CAAATTATGG
*
36203151 CTTCAAACACAAACATACATTTATATA
1 CTTCAAACACAAACATACACTTATATA
36203178 -TTCAAAC-C-AACATTACACTTATA-A
1 CTTCAAACACAAACA-TACACTTATATA
36203202 CTTCA
1 CTTCA
36203207 CTTACAACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 5 0.19
25 14 0.54
26 7 0.27
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (27 bp):
CTTCAAACACAAACATACACTTATATA
Found at i:36204813 original size:15 final size:16
Alignment explanation
Indices: 36204787--36204826 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
36204777 TTGTCATAAC
*
36204787 TTCTTCTCTCTTTTCT
1 TTCTTCTTTCTTTTCT
36204803 TT-TTCTTTCTTTTCT
1 TTCTTCTTTCTTTTCT
36204818 TTCTTCTTT
1 TTCTTCTTT
36204827 TTACTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (16 bp):
TTCTTCTTTCTTTTCT
Found at i:36212525 original size:14 final size:14
Alignment explanation
Indices: 36212496--36212541 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 14
36212486 TTGCTGTAAC
36212496 TTCTTGTCTCTTTTCT
1 TTCTT-TCT-TTTTCT
36212512 TTCTTTCTTTTTCT
1 TTCTTTCTTTTTCT
36212526 TTC-TTCTTTTTACT
1 TTCTTTCTTTTT-CT
36212540 TT
1 TT
36212542 AATTTGCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.28
14 13 0.45
15 3 0.10
16 5 0.17
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.74
Consensus pattern (14 bp):
TTCTTTCTTTTTCT
Found at i:36213365 original size:20 final size:20
Alignment explanation
Indices: 36213322--36213363 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
36213312 TAAAGAAAGT
36213322 AAATAAAATGGAAAGTAATG
1 AAATAAAATGGAAAGTAATG
36213342 AAATACAAAT-GAAAGTAA-G
1 AAATA-AAATGGAAAGTAATG
36213361 AAA
1 AAA
36213364 ATTTGAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.64, C:0.02, G:0.17, T:0.17
Consensus pattern (20 bp):
AAATAAAATGGAAAGTAATG
Found at i:36213829 original size:15 final size:16
Alignment explanation
Indices: 36213809--36213838 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36213799 TGGTGCCTTG
36213809 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
36213824 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
36213839 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:36214831 original size:20 final size:21
Alignment explanation
Indices: 36214799--36214837 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
36214789 CTGAAGTTTG
*
36214799 AAAATTTTCATATTTTTCCTA
1 AAAATTTTCATATGTTTCCTA
36214820 AAAATTTT-ATATGTTTCC
1 AAAATTTTCATATGTTTCC
36214838 AATTTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.51
Consensus pattern (21 bp):
AAAATTTTCATATGTTTCCTA
Found at i:36216201 original size:38 final size:38
Alignment explanation
Indices: 36216150--36216235 Score: 156
Period size: 38 Copynumber: 2.3 Consensus size: 38
36216140 TGTTCGTTTC
36216150 AATCTTTTAATTCATGTTTTGTGCCGATTTCATTATCT
1 AATCTTTTAATTCATGTTTTGTGCCGATTTCATTATCT
36216188 AATCTTTTAATTCATGTTTTGTGCCGATTTCATTATCT
1 AATCTTTTAATTCATGTTTTGTGCCGATTTCATTATCT
36216226 AA-CTTGTTAA
1 AATCTT-TTAA
36216236 GATTTCTTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
37 3 0.06
38 44 0.94
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.51
Consensus pattern (38 bp):
AATCTTTTAATTCATGTTTTGTGCCGATTTCATTATCT
Found at i:36220308 original size:50 final size:50
Alignment explanation
Indices: 36220192--36220433 Score: 360
Period size: 50 Copynumber: 4.8 Consensus size: 50
36220182 GATAATGACA
* ** *
36220192 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* * **
36220243 TGCCCATACCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
36220293 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
36220343 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
36220393 TGCCAATGCCATGTCCCAAACATGGTCTTACAT-GGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
36220434 TTACCCAAAT
Statistics
Matches: 173, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
49 8 0.05
50 132 0.76
51 33 0.19
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:36227418 original size:50 final size:50
Alignment explanation
Indices: 36227302--36227544 Score: 360
Period size: 50 Copynumber: 4.8 Consensus size: 50
36227292 GATAATGACC
* ** *
36227302 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* ** *
36227353 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
36227403 TGCCAATGTCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
36227453 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
36227503 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
36227545 TTACCCAAAT
Statistics
Matches: 172, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 138 0.80
51 34 0.20
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:36236893 original size:16 final size:16
Alignment explanation
Indices: 36236872--36236905 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
36236862 ATTACCTCTG
36236872 AATATTATAATATATT
1 AATATTATAATATATT
36236888 AATATTATAATATATT
1 AATATTATAATATATT
36236904 AA
1 AA
36236906 AAAATCAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATATTATAATATATT
Found at i:36237823 original size:11 final size:11
Alignment explanation
Indices: 36237800--36237846 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
36237790 AACAAATCCT
36237800 CTCTCATATTTC
1 CTCTCA-ATTTC
36237812 CTCTCAATTTC
1 CTCTCAATTTC
*
36237823 CTCTCAATTTT
1 CTCTCAATTTC
*
36237834 CTCCCAATTTC
1 CTCTCAATTTC
36237845 CT
1 CT
36237847 TCCAAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
11 26 0.81
12 6 0.19
ACGTcount: A:0.17, C:0.36, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:36237857 original size:13 final size:13
Alignment explanation
Indices: 36237839--36237868 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
36237829 ATTTTCTCCC
36237839 AATTTCCTTCCAA
1 AATTTCCTTCCAA
36237852 AATTTCCTTCCAA
1 AATTTCCTTCCAA
36237865 AATT
1 AATT
36237869 CTCATAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTTCCTTCCAA
Found at i:36237914 original size:51 final size:51
Alignment explanation
Indices: 36237852--36237959 Score: 164
Period size: 51 Copynumber: 2.1 Consensus size: 51
36237842 TTCCTTCCAA
* * *
36237852 AATTTCCTTCCAAAATTCTCAT-AAATCCATATTTAATTTCAATTTCCTCTC
1 AATTTCATTCCAAAAATCTC-TCAAAGCCATATTTAATTTCAATTTCCTCTC
*
36237903 AATTTCATTCCAAAAATCTCTCAAAGCCATATTTAATTTCAATTTGCTCTC
1 AATTTCATTCCAAAAATCTCTCAAAGCCATATTTAATTTCAATTTCCTCTC
36237954 AATTTC
1 AATTTC
36237960 CTTTTTTAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 1 0.02
51 51 0.98
ACGTcount: A:0.32, C:0.24, G:0.02, T:0.42
Consensus pattern (51 bp):
AATTTCATTCCAAAAATCTCTCAAAGCCATATTTAATTTCAATTTCCTCTC
Found at i:36239784 original size:18 final size:18
Alignment explanation
Indices: 36239757--36239796 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
36239747 CAGGTGCGTT
*
36239757 TCCTATCCCTTATATGTA
1 TCCTAACCCTTATATGTA
36239775 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
36239793 TCCT
1 TCCT
36239797 TTTCCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:36240249 original size:25 final size:25
Alignment explanation
Indices: 36240221--36240268 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
36240211 TGAATATTTT
*
36240221 GAAGTTCGT-TTGATGTAATAAAATA
1 GAAGTT-GTATTGATGTAAAAAAATA
*
36240246 GAAGTTTTATTGATGTAAAAAAA
1 GAAGTTGTATTGATGTAAAAAAA
36240269 ATTTAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.35
Consensus pattern (25 bp):
GAAGTTGTATTGATGTAAAAAAATA
Found at i:36240325 original size:25 final size:25
Alignment explanation
Indices: 36240297--36240485 Score: 203
Period size: 25 Copynumber: 7.7 Consensus size: 25
36240287 TATTTTGATA
36240297 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
36240322 TTATATAATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
** *
36240347 TT-TATTGATGTAATAAAAATTTAAAT
1 TTAT-TTGATGTAAT-AAAATAGAAGT
* ** *
36240373 TT-TTT--TG-AATTATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
36240392 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
36240418 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
36240443 TTATATGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
36240468 TTATTTGATGTGATAAAA
1 TTATTTGATGTAATAAAA
36240486 ATTGAAAACC
Statistics
Matches: 137, Mismatches: 18, Indels: 18
0.79 0.10 0.10
Matches are distributed among these distances:
19 1 0.01
20 3 0.02
21 6 0.04
22 3 0.02
23 4 0.03
24 7 0.05
25 101 0.74
26 12 0.09
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:36240386 original size:96 final size:96
Alignment explanation
Indices: 36240233--36240460 Score: 404
Period size: 96 Copynumber: 2.4 Consensus size: 96
36240223 AGTTCGTTTG
* *
36240233 ATGTAATAAAATAGAAGTTTTATTGATGTAAAAAAAATTTAAATTTTTTTGAGTTATTTTGATAT
1 ATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAATTATTTTGATAT
36240298 TATTTGATGTAATAAAATAGAAGTTTATATA
66 TATTTGATGTAATAAAATAGAAGTTTATATA
36240329 ATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAATTATTTTGATAT
1 ATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAATTATTTTGATAT
* *
36240394 TATTTGATGTAATAAAATAGAAGTTTATTTG
66 TATTTGATGTAATAAAATAGAAGTTTATATA
36240425 ATGTAATAAAATAGAAG-TTTATATGATGTAATAAAA
1 ATGTAATAAAATAGAAGTTTTAT-TGATGTAATAAAA
36240461 TAGAAGTTTA
Statistics
Matches: 127, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
95 5 0.04
96 122 0.96
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (96 bp):
ATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAATTATTTTGATAT
TATTTGATGTAATAAAATAGAAGTTTATATA
Found at i:36240517 original size:23 final size:23
Alignment explanation
Indices: 36240487--36240616 Score: 206
Period size: 23 Copynumber: 5.7 Consensus size: 23
36240477 GTGATAAAAA
36240487 TTGAAAACCCAAACCTAATTAAG
1 TTGAAAACCCAAACCTAATTAAG
* *
36240510 TTGAAAACCCTAACCTAATTAAA
1 TTGAAAACCCAAACCTAATTAAG
* *
36240533 TTAAAAACCCAAACCTATTTAAG
1 TTGAAAACCCAAACCTAATTAAG
36240556 TTGAAAACCCAAACCTAATTAAG
1 TTGAAAACCCAAACCTAATTAAG
*
36240579 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCAAACCTAATTAAG
*
36240602 TTGAAAACCCTAACC
1 TTGAAAACCCAAACC
36240617 CTAAACTTAA
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 98 1.00
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.24
Consensus pattern (23 bp):
TTGAAAACCCAAACCTAATTAAG
Found at i:36240569 original size:69 final size:69
Alignment explanation
Indices: 36240487--36240616 Score: 233
Period size: 69 Copynumber: 1.9 Consensus size: 69
36240477 GTGATAAAAA
36240487 TTGAAAACCCAAACCTAATTAAGTTGAAAACCCTAACCTAATTAAATTAAAAACCCAAACCTATT
1 TTGAAAACCCAAACCTAATTAAGTTGAAAACCCTAACCTAATTAAATTAAAAACCCAAACCTATT
36240552 TAAG
66 TAAG
* * *
36240556 TTGAAAACCCAAACCTAATTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACC
1 TTGAAAACCCAAACCTAATTAAGTTGAAAACCCTAACCTAATTAAATTAAAAACCCAAACC
36240617 CTAAACTTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.24
Consensus pattern (69 bp):
TTGAAAACCCAAACCTAATTAAGTTGAAAACCCTAACCTAATTAAATTAAAAACCCAAACCTATT
TAAG
Found at i:36243210 original size:124 final size:124
Alignment explanation
Indices: 36242984--36243215 Score: 342
Period size: 124 Copynumber: 1.9 Consensus size: 124
36242974 CTCAAACAAG
* * * *
36242984 CTACTGTAGCAAAAGCGCGTCCCCAAGGGCGGGATTTTCACAAATTCTTCTCAAATAGCATCATG
1 CTACTATAGCAAAAGCGCGTCCACAAGGGCGAGAATTTCACAAATTCTTCTCAAATAGCATCATG
36243049 CTAGAAGCGAATTTATACTATTTGCTCAGAAGCGTCAAAAAAAATATTTCATCCATGAC
66 CTAGAAGCGAATTTATACTATTTGCTCAGAAGCGTCAAAAAAAATATTTCATCCATGAC
* * * *
36243108 CTACTATAGCAAGAGCGCGTCCACGAGGGCTAGAATTTCA-AAATTTCTTCTCAAATAGCATCCT
1 CTACTATAGCAAAAGCGCGTCCACAAGGGCGAGAATTTCACAAA-TTCTTCTCAAATAGCATCAT
* *
36243172 GCTAGAAGTGATTTTATACTATTTGCTCAGAAAG-GTCAAAAAAA
65 GCTAGAAGCGAATTTATACTATTTGCTCAG-AAGCGTCAAAAAAA
36243216 TTTATTTCTT
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
123 3 0.03
124 90 0.94
125 3 0.03
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (124 bp):
CTACTATAGCAAAAGCGCGTCCACAAGGGCGAGAATTTCACAAATTCTTCTCAAATAGCATCATG
CTAGAAGCGAATTTATACTATTTGCTCAGAAGCGTCAAAAAAAATATTTCATCCATGAC
Found at i:36245845 original size:26 final size:26
Alignment explanation
Indices: 36245816--36245878 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 26
36245806 TTTATCGAGG
*
36245816 TTATTAGTTTAT-GAT-AAATGAATATT
1 TTATTAATTTATCGATAAAAT-AATA-T
36245842 TTATTAATTTATCGATAAAATAATAT
1 TTATTAATTTATCGATAAAATAATAT
36245868 TTATTAATTTA
1 TTATTAATTTA
36245879 GAGAATATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
26 23 0.68
27 7 0.21
28 4 0.12
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (26 bp):
TTATTAATTTATCGATAAAATAATAT
Found at i:36246005 original size:38 final size:39
Alignment explanation
Indices: 36245957--36246034 Score: 106
Period size: 38 Copynumber: 2.0 Consensus size: 39
36245947 TGAATCAAAG
* * *
36245957 TTAATTGGTTCATGTAA-CACACAA-AAACAAAGAGTTAA
1 TTAATAGGTTCATGTAACCA-AAAAGAAAAAAAGAGTTAA
36245995 TTAATAGGTTCATGTAACCAAAAAGAAAAAAAGAGTTAA
1 TTAATAGGTTCATGTAACCAAAAAGAAAAAAAGAGTTAA
36246034 T
1 T
36246035 GATTTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
38 19 0.54
39 16 0.46
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.26
Consensus pattern (39 bp):
TTAATAGGTTCATGTAACCAAAAAGAAAAAAAGAGTTAA
Found at i:36248392 original size:15 final size:15
Alignment explanation
Indices: 36248372--36248402 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36248362 CCTACACACC
36248372 ATGATAGTGGATCTA
1 ATGATAGTGGATCTA
36248387 ATGATAGTGGATCTA
1 ATGATAGTGGATCTA
36248402 A
1 A
36248403 GTCACTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (15 bp):
ATGATAGTGGATCTA
Found at i:36249118 original size:42 final size:42
Alignment explanation
Indices: 36249063--36249168 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
36249053 AGTGACGACT
* * * * * *
36249063 GTGTGACTAAAACACATGCCCGTGTGGTTGAGATACAAGGTC
1 GTGTGGCTGAAACACACGCCCGTGTGATGGAGATACAAGATC
* ** *
36249105 GTGTGGCTGAAACACACACTTGTGTGATGGAGATACATGATC
1 GTGTGGCTGAAACACACGCCCGTGTGATGGAGATACAAGATC
*
36249147 GTGTGGATGAAACACACGCCCG
1 GTGTGGCTGAAACACACGCCCG
36249169 AGCACGACCG
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (42 bp):
GTGTGGCTGAAACACACGCCCGTGTGATGGAGATACAAGATC
Found at i:36250561 original size:44 final size:44
Alignment explanation
Indices: 36250512--36250600 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
36250502 ATTACATCTT
36250512 TACCCAAACGAAGAACAAACAATTAAATTAATTATTTGTAATGA
1 TACCCAAACGAAGAACAAACAATTAAATTAATTATTTGTAATGA
*
36250556 TACCCAAACGAAGAACAAACAATTAATTTAATTATTTGTAATGA
1 TACCCAAACGAAGAACAAACAATTAAATTAATTATTTGTAATGA
36250600 T
1 T
36250601 TTTCTTTACT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.29
Consensus pattern (44 bp):
TACCCAAACGAAGAACAAACAATTAAATTAATTATTTGTAATGA
Found at i:36250975 original size:21 final size:19
Alignment explanation
Indices: 36250943--36250982 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 19
36250933 ACTTTAATCC
36250943 TTAATATTTTTTACAGTGAT
1 TTAATATTTTTTA-AGTGAT
36250963 TTAATATTTTTTTAAGTGAT
1 TTAATA-TTTTTTAAGTGAT
36250983 AAAAAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (19 bp):
TTAATATTTTTTAAGTGAT
Found at i:36251486 original size:5 final size:5
Alignment explanation
Indices: 36251476--36251500 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
36251466 AAAAACTAAC
36251476 AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT
36251501 TAAATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:36255656 original size:19 final size:20
Alignment explanation
Indices: 36255616--36255666 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
36255606 GCCTTGTGGC
*
36255616 ATCAATATTTTTACACAGAT
1 ATCAATATTTTTACACAAAT
*
36255636 ATCAATATTTTTATA-AAAT
1 ATCAATATTTTTACACAAAT
*
36255655 ATCGATATTTTT
1 ATCAATATTTTT
36255667 CAGTTGGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (20 bp):
ATCAATATTTTTACACAAAT
Found at i:36271002 original size:12 final size:12
Alignment explanation
Indices: 36270985--36271012 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
36270975 TCGAACCCTA
36270985 GCTTCTTCAATG
1 GCTTCTTCAATG
36270997 GCTTCTTCAATG
1 GCTTCTTCAATG
36271009 GCTT
1 GCTT
36271013 TCTTTCCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (12 bp):
GCTTCTTCAATG
Found at i:36271114 original size:42 final size:42
Alignment explanation
Indices: 36271061--36271146 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
36271051 GATGATACAT
36271061 TTACTTTATTTTACTTAATTTATCATTTACTTACTAATTTAC
1 TTACTTTATTTTACTTAATTTATCATTTACTTACTAATTTAC
*
36271103 TTACTTTATTTTACTTAATTTATCATTTATTTACTAATTTAC
1 TTACTTTATTTTACTTAATTTATCATTTACTTACTAATTTAC
36271145 TT
1 TT
36271147 TTATAACCTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (42 bp):
TTACTTTATTTTACTTAATTTATCATTTACTTACTAATTTAC
Found at i:36271117 original size:14 final size:14
Alignment explanation
Indices: 36271061--36271125 Score: 71
Period size: 14 Copynumber: 4.6 Consensus size: 14
36271051 GATGATACAT
36271061 TTACTTTATTTTAC
1 TTACTTTATTTTAC
*
36271075 TTAATTTATCATTTAC
1 TTACTTTAT--TTTAC
*
36271091 TTAC--TAATTTAC
1 TTACTTTATTTTAC
36271103 TTACTTTATTTTAC
1 TTACTTTATTTTAC
*
36271117 TTAATTTAT
1 TTACTTTAT
36271126 CATTTATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
12 9 0.21
14 25 0.60
16 8 0.19
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (14 bp):
TTACTTTATTTTAC
Found at i:36275800 original size:31 final size:31
Alignment explanation
Indices: 36275779--36275888 Score: 177
Period size: 31 Copynumber: 3.6 Consensus size: 31
36275769 ATAAATATCA
*
36275779 ACATATTCATACCATGTAATCATTCATATTT
1 ACATATTCATACCCTGTAATCATTCATATTT
36275810 ACATATTCATACCCTGTAATCATTCATATTT
1 ACATATTCATACCCTGTAATCATTCATATTT
* **
36275841 ACATATTCATACCCTGTAATCATTCACACAT
1 ACATATTCATACCCTGTAATCATTCATATTT
36275872 ACATATT-ATACCCTGTA
1 ACATATTCATACCCTGTA
36275889 CTTGATGACA
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 10 0.13
31 65 0.87
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.38
Consensus pattern (31 bp):
ACATATTCATACCCTGTAATCATTCATATTT
Found at i:36275805 original size:17 final size:17
Alignment explanation
Indices: 36275783--36275866 Score: 58
Period size: 17 Copynumber: 5.3 Consensus size: 17
36275773 ATATCAACAT
36275783 ATTCATACCATGTAATC
1 ATTCATACCATGTAATC
*
36275800 ATTCAT---ATTTACAT-
1 ATTCATACCATGTA-ATC
*
36275814 ATTCATACCCTGTAATC
1 ATTCATACCATGTAATC
*
36275831 ATTCAT---ATTTACAT-
1 ATTCATACCATGTA-ATC
*
36275845 ATTCATACCCTGTAATC
1 ATTCATACCATGTAATC
36275862 ATTCA
1 ATTCA
36275867 CACATACATA
Statistics
Matches: 50, Mismatches: 7, Indels: 20
0.65 0.09 0.26
Matches are distributed among these distances:
14 19 0.38
15 4 0.08
16 4 0.08
17 23 0.46
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (17 bp):
ATTCATACCATGTAATC
Found at i:36275819 original size:14 final size:14
Alignment explanation
Indices: 36275800--36275851 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
36275790 CCATGTAATC
36275800 ATTCATATTTACAT
1 ATTCATATTTACAT
*
36275814 ATTCATACCCTGTA-AT
1 ATTCATA---TTTACAT
36275830 CATTCATATTTACAT
1 -ATTCATATTTACAT
36275845 ATTCATA
1 ATTCATA
36275852 CCCTGTAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 17 0.55
15 2 0.06
16 2 0.06
17 10 0.32
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (14 bp):
ATTCATATTTACAT
Found at i:36277631 original size:22 final size:22
Alignment explanation
Indices: 36277592--36277651 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
36277582 TCTAATTTTT
36277592 TATAATAA--AAATTA-TAAAA
1 TATAATAATTAAATTATTAAAA
36277611 TATAATAATTAAATTATTAAAA
1 TATAATAATTAAATTATTAAAA
*
36277633 TATTAAT-ATTAAAATATTA
1 TA-TAATAATTAAATTATTA
36277652 GTTTCCCTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 8 0.22
21 6 0.17
22 18 0.50
23 4 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TATAATAATTAAATTATTAAAA
Found at i:36277642 original size:14 final size:14
Alignment explanation
Indices: 36277625--36277651 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36277615 ATAATTAAAT
36277625 TATTAAAATATTAA
1 TATTAAAATATTAA
36277639 TATTAAAATATTA
1 TATTAAAATATTA
36277652 GTTTCCCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TATTAAAATATTAA
Found at i:36278048 original size:33 final size:35
Alignment explanation
Indices: 36278006--36278070 Score: 107
Period size: 33 Copynumber: 1.9 Consensus size: 35
36277996 GTGTCCTGCA
36278006 GTTAGGGTTTTGG-GTTATT-GGTTTAGGGTTAAG
1 GTTAGGGTTTTGGTGTTATTAGGTTTAGGGTTAAG
*
36278039 GTTAGGGTTTTGGTGTTTTTAGGTTTAGGGTT
1 GTTAGGGTTTTGGTGTTATTAGGTTTAGGGTT
36278071 TTAGAGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 13 0.45
34 5 0.17
35 11 0.38
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.49
Consensus pattern (35 bp):
GTTAGGGTTTTGGTGTTATTAGGTTTAGGGTTAAG
Found at i:36278225 original size:95 final size:95
Alignment explanation
Indices: 36278098--36278389 Score: 295
Period size: 95 Copynumber: 3.0 Consensus size: 95
36278088 TAAATAAAGG
** ** * * * *
36278098 ATTAGGGTTTAGGGTTTGTCAATTAAATTAATTATAAATTTTTCAAAATTGGATTAGGTTTCGTG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAATTAGATTAGGTTTAGTG
* *
36278163 TTTATTGT-TTTTTAAGAAAAAATCAATTAA
66 TTTA-AGTATTTTTAAGAAAAAATCAAATAA
* * * *
36278193 ATTAGGGTTTAGGGTTACTTGAGTAATTTAATTA-AATTTTTTTTAAAATCAGATTAAGGTTTAG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAA-ATTTTTAAAAATTAGATT-AGGTTTAG
* *
36278257 AG-TTAAGTATTTTTAAGAAAAAATTAAATAA
64 TGTTTAAGTATTTTTAAGAAAAAATCAAATAA
* *
36278288 ATTAGAGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAAATTAGATTAGGGTTTA
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTT--AAAAATTAGATTA-GGTTTA
** * *
36278353 GTGTTT-AGGGTTTTTAAGTAGAAACTCAAATAA
63 GTGTTTAAGTATTTTTAAG-AAAAAATCAAATAA
36278386 ATTA
1 ATTA
36278390 TGTAAGATAT
Statistics
Matches: 161, Mismatches: 27, Indels: 15
0.79 0.13 0.07
Matches are distributed among these distances:
94 4 0.02
95 101 0.63
96 11 0.07
97 28 0.17
98 17 0.11
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.42
Consensus pattern (95 bp):
ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAATTAGATTAGGTTTAGTG
TTTAAGTATTTTTAAGAAAAAATCAAATAA
Found at i:36278402 original size:9 final size:9
Alignment explanation
Indices: 36278387--36278498 Score: 101
Period size: 9 Copynumber: 13.1 Consensus size: 9
36278377 CTCAAATAAA
36278387 TTATGTAAG
1 TTATGTAAG
*
36278396 ATATGTAAG
1 TTATGTAAG
*
36278405 ATATGTAAG
1 TTATGTAAG
**
36278414 -T-TGTATT
1 TTATGTAAG
36278421 TTATGTAAG
1 TTATGTAAG
*
36278430 TTCTGT-A-
1 TTATGTAAG
*
36278437 TTATGTATG
1 TTATGTAAG
36278446 TTATGTAAG
1 TTATGTAAG
*
36278455 TTGTGT-AG
1 TTATGTAAG
*
36278463 -AATGTAAG
1 TTATGTAAG
*
36278471 CTATGTAAG
1 TTATGTAAG
36278480 TTATGTAAG
1 TTATGTAAG
36278489 TTATGTAAG
1 TTATGTAAG
36278498 T
1 T
36278499 GGTGTATTAT
Statistics
Matches: 83, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
7 12 0.14
8 7 0.08
9 64 0.77
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:36278436 original size:25 final size:26
Alignment explanation
Indices: 36278388--36278495 Score: 96
Period size: 25 Copynumber: 4.2 Consensus size: 26
36278378 TCAAATAAAT
* * *
36278388 TATGTAAGATATGTAAGATATGTAAG
1 TATGTATGTTATGTAAGTTATGTAAG
* * *
36278414 T-TGTATTTTATGTAAGTTCTGT-AT
1 TATGTATGTTATGTAAGTTATGTAAG
*
36278438 TATGTATGTTATGTAAGTTGTGT-AG
1 TATGTATGTTATGTAAGTTATGTAAG
* * *
36278463 AATGTAAGCTATGTAAGTTATGTAAG
1 TATGTATGTTATGTAAGTTATGTAAG
36278489 TTATGTA
1 -TATGTA
36278496 AGTGGTGTAT
Statistics
Matches: 65, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
24 2 0.03
25 55 0.85
26 3 0.05
27 5 0.08
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.44
Consensus pattern (26 bp):
TATGTATGTTATGTAAGTTATGTAAG
Found at i:36278452 original size:16 final size:16
Alignment explanation
Indices: 36278386--36278573 Score: 58
Period size: 16 Copynumber: 10.9 Consensus size: 16
36278376 ACTCAAATAA
*
36278386 ATTATGTAAGATATGT
1 ATTATGTAAGTTATGT
* * *
36278402 AAGATATGTAAGTTGTAT
1 -A-TTATGTAAGTTATGT
* *
36278420 TTTATGTAAGTTCTGT
1 ATTATGTAAGTTATGT
*
36278436 ATTATGTATGTTATGT
1 ATTATGTAAGTTATGT
* *
36278452 AAGTTGTGT-AG-AATGT
1 -A-TTATGTAAGTTATGT
*
36278468 AAGCTATGTAAGTTATGT
1 -A-TTATGTAAGTTATGT
**
36278486 AAGTTATGTAAGTGGTGT
1 -A-TTATGTAAGTTATGT
** *
36278504 ATTATGT-TCTTCGGTGT
1 ATTATGTAAGTT--ATGT
* *
36278521 AAGTTATGTAGGCTATGT
1 -A-TTATGTAAGTTATGT
36278539 ATTATGTAAGTTATTATGTT
1 ATTATGTAAG---TTATG-T
36278559 ATTATGTAAGTTATG
1 ATTATGTAAGTTATG
36278574 CAAGTTTATA
Statistics
Matches: 128, Mismatches: 29, Indels: 28
0.69 0.16 0.15
Matches are distributed among these distances:
15 1 0.01
16 50 0.39
17 16 0.12
18 39 0.30
19 10 0.08
20 12 0.09
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.46
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:36278504 original size:18 final size:18
Alignment explanation
Indices: 36278465--36278530 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
36278455 TTGTGTAGAA
* **
36278465 TGTAAGCTATGTAAGTTA
1 TGTAAGTTATGTAAGTGG
36278483 TGTAAGTTATGTAAGTGG
1 TGTAAGTTATGTAAGTGG
***
36278501 TGT-A-TTATGTTCTTCGG
1 TGTAAGTTATGTAAGT-GG
36278518 TGTAAGTTATGTA
1 TGTAAGTTATGTA
36278531 GGCTATGTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 7 0.18
17 6 0.16
18 19 0.50
19 6 0.16
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.44
Consensus pattern (18 bp):
TGTAAGTTATGTAAGTGG
Found at i:36278510 original size:34 final size:33
Alignment explanation
Indices: 36278421--36278560 Score: 88
Period size: 34 Copynumber: 4.1 Consensus size: 33
36278411 AAGTTGTATT
* *
36278421 TTATGTAAGTTCTGTATTATGTATGTTATGTAAG
1 TTATGTAAG-TGTGTATTATGTAAGTTATGTAAG
* * * *
36278455 TTGTGTAGAATGT-AAGCTATGTAAGTTATGTAAG
1 TTATGTA-AGTGTGTA-TTATGTAAGTTATGTAAG
** *
36278489 TTATGTAAGTGGTGTATTATGT-TCTTCGGTGTAAG
1 TTATGTAAGT-GTGTATTATGTAAGTT--ATGTAAG
* * *
36278524 TTATGTAGGCTATGTATTATGTAAGTTAT-TATG
1 TTATGTAAG-TGTGTATTATGTAAGTTATGTAAG
36278557 TTAT
1 TTAT
36278561 TATGTAAGTT
Statistics
Matches: 79, Mismatches: 19, Indels: 17
0.69 0.17 0.15
Matches are distributed among these distances:
33 12 0.15
34 38 0.48
35 26 0.33
36 3 0.04
ACGTcount: A:0.26, C:0.04, G:0.24, T:0.46
Consensus pattern (33 bp):
TTATGTAAGTGTGTATTATGTAAGTTATGTAAG
Found at i:36278602 original size:33 final size:32
Alignment explanation
Indices: 36278556--36278637 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 32
36278546 AAGTTATTAT
*
36278556 GTTATTATGTAAGTTATGCAAGTT-TATATATAA
1 GTTA-TATATAAGTTATGCAAGTTAT-TATATAA
* * *
36278589 GTTTCTATATAAGTTATGTAAGTTATTATGTAA
1 G-TTATATATAAGTTATGCAAGTTATTATATAA
*
36278622 GTTATGTATAAGTTAT
1 GTTATATATAAGTTAT
36278638 CATATGATTG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
32 13 0.32
33 25 0.61
34 3 0.07
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (32 bp):
GTTATATATAAGTTATGCAAGTTATTATATAA
Found at i:36278610 original size:21 final size:21
Alignment explanation
Indices: 36278586--36278629 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
36278576 AGTTTATATA
36278586 TAAGTT-TCTATATAAGTTATG
1 TAAGTTAT-TATATAAGTTATG
*
36278607 TAAGTTATTATGTAAGTTATG
1 TAAGTTATTATATAAGTTATG
36278628 TA
1 TA
36278630 TAAGTTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (21 bp):
TAAGTTATTATATAAGTTATG
Found at i:36278669 original size:34 final size:36
Alignment explanation
Indices: 36278621--36278689 Score: 115
Period size: 34 Copynumber: 2.0 Consensus size: 36
36278611 TTATTATGTA
36278621 AGTTATGTATAAGTTATCATATGATTGATAAATTTG
1 AGTTATGTATAAGTTATCATATGATTGATAAATTTG
*
36278657 AGTTAT-T-TAAGTTATGATATGATTGATAAATTT
1 AGTTATGTATAAGTTATCATATGATTGATAAATTT
36278690 TGAAATAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 25 0.78
35 1 0.03
36 6 0.19
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.46
Consensus pattern (36 bp):
AGTTATGTATAAGTTATCATATGATTGATAAATTTG
Found at i:36278718 original size:17 final size:19
Alignment explanation
Indices: 36278682--36278720 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
36278672 GATATGATTG
36278682 ATAAATTTTGAAATAATAT
1 ATAAATTTTGAAATAATAT
36278701 ATAAATTTT-AAA-AATAT
1 ATAAATTTTGAAATAATAT
36278718 ATA
1 ATA
36278721 TATTAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 3 0.15
19 9 0.45
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
ATAAATTTTGAAATAATAT
Found at i:36278804 original size:15 final size:15
Alignment explanation
Indices: 36278784--36278926 Score: 93
Period size: 15 Copynumber: 9.4 Consensus size: 15
36278774 TTTGGTTATG
36278784 TATATTAAAACTATA
1 TATATTAAAACTATA
36278799 TATATTTTAAAACTATA
1 TATA--TTAAAACTATA
36278816 -ATA-TATAAACTATA
1 TATATTA-AAACTATA
*
36278830 TAGATATTAAAACAATA
1 T--ATATTAAAACTATA
*
36278847 TATATT-ATA-TATAA
1 TATATTAAAACTAT-A
* *
36278861 AATATATATATA-TATA
1 TATAT-TA-AAACTATA
* *
36278877 AATTTTAAATA-TATA
1 TATATTAAA-ACTATA
36278892 TATATTAAAACTATA
1 TATATTAAAACTATA
36278907 TATATTAAAAC-ATA
1 TATATTAAAACTATA
*
36278921 TGTATT
1 TATATT
36278927 TTTAATATTA
Statistics
Matches: 106, Mismatches: 9, Indels: 27
0.75 0.06 0.19
Matches are distributed among these distances:
13 4 0.04
14 25 0.24
15 39 0.37
16 8 0.08
17 28 0.26
18 2 0.02
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (15 bp):
TATATTAAAACTATA
Found at i:36278821 original size:18 final size:17
Alignment explanation
Indices: 36278788--36278928 Score: 78
Period size: 17 Copynumber: 8.1 Consensus size: 17
36278778 GTTATGTATA
36278788 TTAAAACTATATATATT
1 TTAAAACTATATATATT
36278805 TTAAAACTATA-ATA-T
1 TTAAAACTATATATATT
* * *
36278820 AT-AAACTATATAGATA
1 TTAAAACTATATATATT
*
36278836 TTAAAACAATATATATT
1 TTAAAACTATATATATT
*
36278853 ATATATAAAATATATATATAT
1 -T-TA-AAACTATATATAT-T
* * *
36278874 ATAAATTTTAAATATATATATA
1 -TTAA----AACTATATATATT
36278896 TTAAAACTATATATA--
1 TTAAAACTATATATATT
*
36278911 TTAAAAC-ATATGTATT
1 TTAAAACTATATATATT
36278927 TT
1 TT
36278929 TAATATTAAT
Statistics
Matches: 97, Mismatches: 14, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
14 14 0.14
15 11 0.11
16 6 0.06
17 32 0.33
18 1 0.01
19 3 0.03
20 12 0.12
21 6 0.06
23 12 0.12
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (17 bp):
TTAAAACTATATATATT
Found at i:36278829 original size:31 final size:30
Alignment explanation
Indices: 36278791--36278851 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
36278781 ATGTATATTA
* * *
36278791 AAACTATATATATTTTAAAACTATAATATAT
1 AAACTATATAGATATTAAAACAAT-ATATAT
36278822 AAACTATATAGATATTAAAACAATATATAT
1 AAACTATATAGATATTAAAACAATATATAT
36278852 TATATATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.38
Consensus pattern (30 bp):
AAACTATATAGATATTAAAACAATATATAT
Found at i:36279151 original size:123 final size:121
Alignment explanation
Indices: 36279018--36279250 Score: 283
Period size: 123 Copynumber: 1.9 Consensus size: 121
36279008 TATGCATGTT
* * *
36279018 ATTTATAATTATTTAGAAAACTTATAAA-TTTAATACTAATAAATTTTAAATATAGGTTATATAT
1 ATTTACAATTATTTAGAAAACTTA-AAATTTTAATACTAATAAAATTGAAATATAGGTTATATAT
* *
36279082 CCATA-CCATATATGGGGTGATATATTAAAAATATAG-GTTTTAATATTTTATAAAATATC
65 CCATATCAATATAT---GTAATATATTAAAAATATAGAG-TTTAATATTTTATAAAATATC
** * * * *
36279141 ATTTACAATTATTTTTAAAATTTAAAATTTTATTATTAATAAAATTGAAATATAGGTTATATATT
1 ATTTACAATTATTTAGAAAACTTAAAATTTTAATACTAATAAAATTGAAATATAGGTTATATATC
* *
36279206 CATATTAATATATGTAATATATTAATAATATAGAGTTTAATATTT
66 CATATCAATATATGTAATATATTAAAAATATAGAGTTTAATATTT
36279251 AAGATATAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
121 28 0.30
122 4 0.04
123 56 0.60
124 6 0.06
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (121 bp):
ATTTACAATTATTTAGAAAACTTAAAATTTTAATACTAATAAAATTGAAATATAGGTTATATATC
CATATCAATATATGTAATATATTAAAAATATAGAGTTTAATATTTTATAAAATATC
Found at i:36285621 original size:45 final size:44
Alignment explanation
Indices: 36285509--36285767 Score: 227
Period size: 44 Copynumber: 5.9 Consensus size: 44
36285499 CAATGTATAG
* *
36285509 CTTCAATCTGCTCCGCTGTAACTTCAGGAAGATAAGATTGGTAT
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTAT
* * ** *
36285553 CTTCAACCTGCTGCACTACAACTTCAGGGAGATAAGGTTGGTTAT
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGG-TAT
* * * *
36285598 CTTCAGTCTGCTCCAATGTAACTTCAGGGAGATAAGACTAGTAT
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTAT
* * * * *
36285642 CTTCAACCTG-TCCCACTGCAACTTCAGGG-GATAAGGTTTGTCGT
1 CTTCAATCTGCT-CCACTGTAACTTCAGGGAGATAAGATTGGT-AT
* * * * * ** *
36285686 -TTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTACTAG
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTAT
* * *
36285729 CTTCAATCTACTCCATTGTAACTTCAAGGAGATAAGATT
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATT
36285768 CGCCATGATG
Statistics
Matches: 167, Mismatches: 42, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
43 32 0.19
44 100 0.60
45 35 0.21
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTAT
Found at i:36285622 original size:89 final size:88
Alignment explanation
Indices: 36285509--36285679 Score: 245
Period size: 89 Copynumber: 1.9 Consensus size: 88
36285499 CAATGTATAG
** * * *
36285509 CTTCAATCTGCTCCGCTGTAACTTCAGGAAGATAAGATTGGTATCTTCAACCTG-CTGCACTACA
1 CTTCAATCTGCTCCAATGTAACTTCAGGAAGATAAGACTAGTATCTTCAACCTGTC-CCACTACA
36285573 ACTTCAGGGAGATAAGGTTGGTTAT
65 ACTTCAGGG-GATAAGGTTGGTTAT
* * *
36285598 CTTCAGTCTGCTCCAATGTAACTTCAGGGAGATAAGACTAGTATCTTCAACCTGTCCCACTGCAA
1 CTTCAATCTGCTCCAATGTAACTTCAGGAAGATAAGACTAGTATCTTCAACCTGTCCCACTACAA
36285663 CTTCAGGGGATAAGGTT
66 CTTCAGGGGATAAGGTT
36285680 TGTCGTTTTA
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
88 9 0.12
89 63 0.86
90 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (88 bp):
CTTCAATCTGCTCCAATGTAACTTCAGGAAGATAAGACTAGTATCTTCAACCTGTCCCACTACAA
CTTCAGGGGATAAGGTTGGTTAT
Found at i:36285866 original size:50 final size:50
Alignment explanation
Indices: 36285806--36286290 Score: 425
Period size: 50 Copynumber: 9.7 Consensus size: 50
36285796 TCAATGTCGA
* ** * *
36285806 GGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTACCAG
1 GGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTCCATTGCACTGCCAG
* * * ** * * *
36285856 GGAAGTAAGATTCACCGCTGTGGCTTCAATCTTTTTAATTACAATGTCAG
1 GGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTCCATTGCACTGCCAG
* * * * * * *
36285906 GGAAGCAAGATTTAACGTTGTAGTTTCAATCTATTCCACTGCACCGCCAT
1 GGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTCCATTGCACTGCCAG
* * * * ** * *
36285956 GGAAGTAAGATTCGCTGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAG
1 GGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTCCATTGCACTGCCAG
*
36286006 GGAAGCAAGATTCACCGTTGTAGCTTCAAT-TTGCTCCATTGCACTGCCAG
1 GGAAGCAAGATTCACCGTTGTAGCTTCAATCTT-TTCCATTGCACTGCCAG
* * * ** * * *
36286056 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGG
1 GGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTCCATTGCACTGCCAG
* * ** * *
36286106 GGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCAGTGCACCGCCAG
1 GGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTCCATTGCACTGCCAG
* ** * *
36286156 GGAAGTAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTGCAATGTC-G
1 GGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTCCATTGCACTGCCAG
** * *
36286205 GGAAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCACTACCAG
1 GG-AAGCAAGATTCACCGTTGTAGCTTCAATCTTTTCCATTGCACTGCCAG
* ** * *
36286256 GGAAGTAAGATTTGCTGTTGTGGCTTCAATCTTTT
1 GGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTT
36286291 TAATCGTAAC
Statistics
Matches: 331, Mismatches: 100, Indels: 8
0.75 0.23 0.02
Matches are distributed among these distances:
49 5 0.02
50 321 0.97
51 5 0.02
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (50 bp):
GGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTCCATTGCACTGCCAG
Found at i:36285901 original size:100 final size:100
Alignment explanation
Indices: 36285784--36286294 Score: 724
Period size: 100 Copynumber: 5.1 Consensus size: 100
36285774 GATGACTTTG
*
36285784 ATCTTTTTAATTTCAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCA
1 ATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCA
* * *
36285849 CTACCAGGGAAGTAAGATTCACCGCTGTGGCTTCA
66 CTGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCA
* * * **
36285884 ATCTTTTTAATTACAATGTC-AGGGAAGCAAGATTTAACGTTGTAG-TTTCAATCTATTCCACTG
1 ATCTTTTTAATTGCAATGTCGA-GGAAGCAAGATTCACCGTTGTAGCTTT-AATCTGCTCCACTG
* * *
36285947 CACCGCCATGGAAGTAAGATTCGCTGTTGTGGCTTCA
64 CACTGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCA
* * *
36285984 ATCTTTTTAATTGCAATGTC-AGGGAAGCAAGATTCACCGTTGTAGCTTCAATTTGCTCCATTGC
1 ATCTTTTTAATTGCAATGTCGA-GGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGC
36286048 ACTGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCA
65 ACTGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCA
* * * *
36286084 ATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCAGTGCA
1 ATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCA
* * *
36286149 CCGCCAGGGAAGTAAGATTCACCGTTGTAGCTTCA
66 CTGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCA
*
36286184 ATCTTTTTAATTGCAATGTCG-GGAAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGC
1 ATCTTTTTAATTGCAATGTCGAGG-AAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGC
* * *
36286248 ACTACCAGGGAAGTAAGATTTGCTGTTGTGGCTTCA
65 ACTGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCA
36286284 ATCTTTTTAAT
1 ATCTTTTTAAT
36286295 CGTAACCTCC
Statistics
Matches: 365, Mismatches: 41, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
99 6 0.02
100 357 0.98
101 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (100 bp):
ATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCA
CTGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCA
Found at i:36286080 original size:200 final size:199
Alignment explanation
Indices: 36285784--36286294 Score: 799
Period size: 200 Copynumber: 2.6 Consensus size: 199
36285774 GATGACTTTG
* *
36285784 ATCTTTTTAATTTCAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCA
1 ATCTTTTTAATTGCAATGTCG-GGAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCA
* *
36285849 CTACCAGGGAAGTAAGATTCACCGCTGTGGCTTCAATCTTTTTAATTACAATGTCAGGGAAGCAA
65 CTACCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTACAATGTCAGGGAAGCAA
* * * * * *
36285914 GATTTAACGTTGTAG-TTTCAATCTATTCCACTGCACCGCCATGGAAGTAAGATTCGCTGTTGTG
130 GATTCAACGTTGTAGCTTT-AATCTACTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTTGTA
36285978 GCTTCA
194 GCTTCA
* *
36285984 ATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATTTGCTCCATTGCA
1 ATCTTTTTAATTGCAATGTC-GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCA
* * *
36286049 CTGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAA
65 CTACCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTACAATGTCAGGGAAGCAA
** *
36286114 GATTCGCCGTTGTAGCTTTAATCTACTCCAGTGCACCGCCAGGGAAGTAAGATTCACCGTTGTAG
130 GATTCAACGTTGTAGCTTTAATCTACTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTTGTAG
36286179 CTTCA
195 CTTCA
36286184 ATCTTTTTAATTGCAATGTCGGGAAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCA
1 ATCTTTTTAATTGCAATGTCGGG-AAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCA
* *
36286249 CTACCAGGGAAGTAAGATTTGCTGTTGTGGCTTCAATCTTTTTAAT
65 CTACCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
36286295 CGTAACCTCC
Statistics
Matches: 285, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
199 3 0.01
200 278 0.98
201 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (199 bp):
ATCTTTTTAATTGCAATGTCGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCAC
TACCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTACAATGTCAGGGAAGCAAG
ATTCAACGTTGTAGCTTTAATCTACTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTTGTAGC
TTCA
Found at i:36297600 original size:35 final size:35
Alignment explanation
Indices: 36297559--36297689 Score: 120
Period size: 35 Copynumber: 3.8 Consensus size: 35
36297549 ATCGACGATG
36297559 GTTGTGCCCAACACTAGTCAGATGAACTGACAGAA
1 GTTGTGCCCAACACTAGTCAGATGAACTGACAGAA
*** * * * *
36297594 GTTGTGCCCAGTGCTAGTCGGAT-AACCGACGGTA
1 GTTGTGCCCAACACTAGTCAGATGAACTGACAGAA
* * *
36297628 GTTGTGCCCAACATTAGTCAGATAAACTGACAAAA
1 GTTGTGCCCAACACTAGTCAGATGAACTGACAGAA
* * * **
36297663 ATTGCGCCCAACGCTAGTTGGATGAAC
1 GTTGTGCCCAACACTAGTCAGATGAAC
36297690 CAACAATATT
Statistics
Matches: 72, Mismatches: 23, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
34 26 0.36
35 46 0.64
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (35 bp):
GTTGTGCCCAACACTAGTCAGATGAACTGACAGAA
Found at i:36297611 original size:69 final size:69
Alignment explanation
Indices: 36297509--36297659 Score: 194
Period size: 69 Copynumber: 2.2 Consensus size: 69
36297499 AGAAATAATT
* * * * *
36297509 AGATAAACTAACAGAAGTTATGCCGAGCACTAGTTAGATAATCGACGATGGTTGTGCCCAACACT
1 AGATAAACTGACAGAAGTTATGCCCAGCACTAGTCAGATAACCGACGATAGTTGTGCCCAACACT
36297574 AGTC
66 AGTC
* * ** * * *
36297578 AGATGAACTGACAGAAGTTGTGCCCAGTGCTAGTCGGATAACCGACGGTAGTTGTGCCCAACATT
1 AGATAAACTGACAGAAGTTATGCCCAGCACTAGTCAGATAACCGACGATAGTTGTGCCCAACACT
36297643 AGTC
66 AGTC
36297647 AGATAAACTGACA
1 AGATAAACTGACA
36297660 AAAATTGCGC
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.23
Consensus pattern (69 bp):
AGATAAACTGACAGAAGTTATGCCCAGCACTAGTCAGATAACCGACGATAGTTGTGCCCAACACT
AGTC
Found at i:36297646 original size:34 final size:34
Alignment explanation
Indices: 36297536--36297652 Score: 117
Period size: 34 Copynumber: 3.4 Consensus size: 34
36297526 TTATGCCGAG
* * * *
36297536 CACTAGTTAGATAATCGACGATGGTTGTGCCCAA
1 CACTAGTCAGATAACCGACGGTAGTTGTGCCCAA
* * * *
36297570 CACTAGTCAGATGAACTGACAGAAGTTGTGCCCAG
1 CACTAGTCAGAT-AACCGACGGTAGTTGTGCCCAA
** *
36297605 TGCTAGTCGGATAACCGACGGTAGTTGTGCCCAA
1 CACTAGTCAGATAACCGACGGTAGTTGTGCCCAA
*
36297639 CATTAGTCAGATAA
1 CACTAGTCAGATAA
36297653 ACTGACAAAA
Statistics
Matches: 63, Mismatches: 19, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
34 39 0.62
35 24 0.38
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (34 bp):
CACTAGTCAGATAACCGACGGTAGTTGTGCCCAA
Found at i:36297672 original size:69 final size:69
Alignment explanation
Indices: 36297545--36297690 Score: 184
Period size: 69 Copynumber: 2.1 Consensus size: 69
36297535 GCACTAGTTA
* * * * * * **
36297545 GATAATCGACGATGGTTGTGCCCAACACTAGTCAGATGAACTGACAGAAGTTGTGCCCAGTGCTA
1 GATAACCGACGATAGTTGTGCCCAACACTAGTCAGATAAACTGACAAAAATTGCGCCCAACGCTA
36297610 GTCG
66 GTCG
* *
36297614 GATAACCGACGGTAGTTGTGCCCAACATTAGTCAGATAAACTGACAAAAATTGCGCCCAACGCTA
1 GATAACCGACGATAGTTGTGCCCAACACTAGTCAGATAAACTGACAAAAATTGCGCCCAACGCTA
*
36297679 GTTG
66 GTCG
36297683 GATGAACC
1 GAT-AACC
36297691 AACAATATTA
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
69 61 0.94
70 4 0.06
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (69 bp):
GATAACCGACGATAGTTGTGCCCAACACTAGTCAGATAAACTGACAAAAATTGCGCCCAACGCTA
GTCG
Found at i:36297753 original size:20 final size:20
Alignment explanation
Indices: 36297725--36297771 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
36297715 AGTCCATAAA
36297725 ATCACATTTCATAACCCAAT
1 ATCACATTTCATAACCCAAT
* *
36297745 ATTACATTTCATAACTCAAT
1 ATCACATTTCATAACCCAAT
36297765 ATCACAT
1 ATCACAT
36297772 ATTCTTCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.34
Consensus pattern (20 bp):
ATCACATTTCATAACCCAAT
Found at i:36301649 original size:29 final size:29
Alignment explanation
Indices: 36301616--36301844 Score: 173
Period size: 29 Copynumber: 8.0 Consensus size: 29
36301606 GTGTAATCAC
*
36301616 GATGGTCGTCACCATCCCTTTTCATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAATT
* * *
36301645 GATGGTCATCACTATCCCTTTTCATAATC
1 GATGGTCGTCACCATCCCTTTTCATAATT
* * * *
36301674 GATAGTCG-AAGCTATCCCTTTTCATAATC
1 GATGGTCGTCA-CCATCCCTTTTCATAATT
* *** **
36301703 GATAG-CCAAAGTTATCCCTTTTCATAATT
1 GATGGTCGTCA-CCATCCCTTTTCATAATT
* * * *
36301732 CAATGGTCATCACCATCTCTTTTCATAGTT
1 -GATGGTCGTCACCATCCCTTTTCATAATT
*
36301762 GATGGTCGTCA-C-T--ATTTTCATAATTT
1 GATGGTCGTCACCATCCCTTTTCATAA-TT
** *
36301788 GATGGTCGTCACCATTTCTTTTCATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAATT
*
36301817 GATGGTCGTCACTATCCCTTTTCATAAT
1 GATGGTCGTCACCATCCCTTTTCATAAT
36301845 CGATAGCTGA
Statistics
Matches: 162, Mismatches: 29, Indels: 18
0.78 0.14 0.09
Matches are distributed among these distances:
25 8 0.05
26 13 0.08
27 2 0.01
28 4 0.02
29 108 0.67
30 25 0.15
31 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40
Consensus pattern (29 bp):
GATGGTCGTCACCATCCCTTTTCATAATT
Found at i:36301793 original size:55 final size:55
Alignment explanation
Indices: 36301721--36301831 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
36301711 AAGTTATCCC
36301721 TTTTCATAATTCAATGGTCATCACCATCTCTTTTCATAGTTGATGGTCGTCACTA
1 TTTTCATAATTCAATGGTCATCACCATCTCTTTTCATAGTTGATGGTCGTCACTA
** * *
36301776 TTTTCATAATTTGATGGTCGTCACCATTTCTTTTCATAGTTGATGGTCGTCACTA
1 TTTTCATAATTCAATGGTCATCACCATCTCTTTTCATAGTTGATGGTCGTCACTA
36301831 T
1 T
36301832 CCCTTTTCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (55 bp):
TTTTCATAATTCAATGGTCATCACCATCTCTTTTCATAGTTGATGGTCGTCACTA
Found at i:36301795 original size:26 final size:25
Alignment explanation
Indices: 36301751--36301831 Score: 99
Period size: 26 Copynumber: 3.0 Consensus size: 25
36301741 TCACCATCTC
36301751 TTTTCATAGTTGATGGTCGTCACTA
1 TTTTCATAGTTGATGGTCGTCACTA
* *
36301776 TTTTCATAATTTGATGGTCGTCACCATTTC
1 TTTTCAT-AGTTGATGGTCGTCA-C---TA
36301806 TTTTCATAGTTGATGGTCGTCACTA
1 TTTTCATAGTTGATGGTCGTCACTA
36301831 T
1 T
36301832 CCCTTTTCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
25 9 0.19
26 14 0.30
27 1 0.02
28 1 0.02
29 14 0.30
30 8 0.17
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (25 bp):
TTTTCATAGTTGATGGTCGTCACTA
Found at i:36303767 original size:24 final size:24
Alignment explanation
Indices: 36303727--36303798 Score: 83
Period size: 24 Copynumber: 2.9 Consensus size: 24
36303717 CAACTCATGC
36303727 GAGCATACCGATTTACAGCTCGTGA
1 GAGCATACCGA-TTACAGCTCGTGA
* *
36303752 GAGCATA-CGATCTACAGCTCGAGT
1 GAGCATACCGAT-TACAGCTCGTGA
*
36303776 GAGCATATCGATTCACAGCTCGT
1 GAGCATACCGATT-ACAGCTCGT
36303799 ATGAGCAGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 1 0.02
24 21 0.51
25 19 0.46
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.24
Consensus pattern (24 bp):
GAGCATACCGATTACAGCTCGTGA
Found at i:36303793 original size:25 final size:24
Alignment explanation
Indices: 36303727--36303805 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
36303717 CAACTCATGC
* * *
36303727 GAGCATACCGATTTACAGCTCGTGA
1 GAGCATA-CGATTCACAGCTCGAGT
36303752 GAGCATACGA-TCTACAGCTCGAGT
1 GAGCATACGATTC-ACAGCTCGAGT
36303776 GAGCATATCGATTCACAGCTCGTA-T
1 GAGCATA-CGATTCACAGCTCG-AGT
36303801 GAGCA
1 GAGCA
36303806 GACATGTACA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
23 1 0.02
24 19 0.40
25 24 0.51
26 3 0.06
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (24 bp):
GAGCATACGATTCACAGCTCGAGT
Found at i:36314820 original size:14 final size:14
Alignment explanation
Indices: 36314801--36314832 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
36314791 AGGTCATTTA
36314801 GCCCAACCAAACTG
1 GCCCAACCAAACTG
36314815 GCCCAACCAAACTG
1 GCCCAACCAAACTG
36314829 GCCC
1 GCCC
36314833 GGTAATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:36319949 original size:14 final size:14
Alignment explanation
Indices: 36319930--36319961 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
36319920 AGGTCATTTA
36319930 GCCCAACCAAACTG
1 GCCCAACCAAACTG
36319944 GCCCAACCAAACTG
1 GCCCAACCAAACTG
36319958 GCCC
1 GCCC
36319962 GGTAATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:36322667 original size:13 final size:13
Alignment explanation
Indices: 36322636--36322669 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
36322626 TTCACAAAGC
36322636 AATTAAAAATACA
1 AATTAAAAATACA
*
36322649 ATATTAAAAGTACA
1 A-ATTAAAAATACA
36322663 AATTAAA
1 AATTAAA
36322670 TATTAAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (13 bp):
AATTAAAAATACA
Found at i:36327817 original size:32 final size:32
Alignment explanation
Indices: 36327781--36327844 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
36327771 AGCCCAAAGC
* * *
36327781 ATGTTTCATCAGGGGAGAAGTGACAAAAGTTT
1 ATGTTTCACCACGGGAGAAGTGAAAAAAGTTT
36327813 ATGTTTCACCACGGGAGAAGTGAAAAAAGTTT
1 ATGTTTCACCACGGGAGAAGTGAAAAAAGTTT
36327845 TTAGGAGGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.27
Consensus pattern (32 bp):
ATGTTTCACCACGGGAGAAGTGAAAAAAGTTT
Found at i:36327920 original size:15 final size:15
Alignment explanation
Indices: 36327894--36327931 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
36327884 TAGTAAAATT
36327894 ATAATGTTATATTTTA
1 ATAAT-TTATATTTTA
*
36327910 ATAATTTATATTTTT
1 ATAATTTATATTTTA
36327925 ATAATTT
1 ATAATTT
36327932 TTAAAAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
ATAATTTATATTTTA
Found at i:36331537 original size:217 final size:218
Alignment explanation
Indices: 36331161--36331596 Score: 847
Period size: 217 Copynumber: 2.0 Consensus size: 218
36331151 TCTCCACTAT
*
36331161 TCTCGTACCACAAACTGCTTTGAGTGTGGGCTTGAACGAATTAGAATCAAACACAAAAAAATAAA
1 TCTCGTACCACAAACTGCTTTGAGCGTGGGCTTGAACGAATTAGAATCAAACACAAAAAAATAAA
*
36331226 TTATTTAATTTACTTTCAGTGGGAAAACAAAAATCTCTCTTTAATAGAAACTGATAGAATTGTTA
66 TTATTTAATTTACTTTCAGTAGGAAAACAAAAATCTCTCTTTAATAGAAACTGATAGAATTGTTA
36331291 TTCCAAAAAATATAATTCATACTTAATAGTAAATTCTCACTATTTTCGGGCAGAATAATAATATC
131 TTCCAAAAAATATAATTCATACTTAATAGTAAATTCTCACTATTTTCGGGCAGAATAATAATATC
36331356 TCAAAGTTGTTTAAAACTTAATG
196 TCAAAGTTGTTTAAAACTTAATG
36331379 TCTCGTACCACAAACTGCTTTGAGCGTGGGCTTGAACGAATTAGAATCAAACA-AAAAAAATAAA
1 TCTCGTACCACAAACTGCTTTGAGCGTGGGCTTGAACGAATTAGAATCAAACACAAAAAAATAAA
36331443 TTATTTAATTTACTTTCAGTAGGAAAACAAAAATCTCTCTTTAATAGAAACTGATAGAATTGTTA
66 TTATTTAATTTACTTTCAGTAGGAAAACAAAAATCTCTCTTTAATAGAAACTGATAGAATTGTTA
36331508 TTCCAAAAAATATAATTCATACTTAATAGTAAATTCTCACTATTTTCGGGCAGAATAATAATATC
131 TTCCAAAAAATATAATTCATACTTAATAGTAAATTCTCACTATTTTCGGGCAGAATAATAATATC
36331573 TCAAAGTTGTTTAAAACTTAATG
196 TCAAAGTTGTTTAAAACTTAATG
36331596 T
1 T
36331597 GTATTTAGCC
Statistics
Matches: 216, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
217 164 0.76
218 52 0.24
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (218 bp):
TCTCGTACCACAAACTGCTTTGAGCGTGGGCTTGAACGAATTAGAATCAAACACAAAAAAATAAA
TTATTTAATTTACTTTCAGTAGGAAAACAAAAATCTCTCTTTAATAGAAACTGATAGAATTGTTA
TTCCAAAAAATATAATTCATACTTAATAGTAAATTCTCACTATTTTCGGGCAGAATAATAATATC
TCAAAGTTGTTTAAAACTTAATG
Found at i:36333540 original size:8 final size:8
Alignment explanation
Indices: 36333527--36333555 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
36333517 TATATGTACT
36333527 AAATAATA
1 AAATAATA
36333535 AAATAATA
1 AAATAATA
36333543 AAATAATA
1 AAATAATA
36333551 AAATA
1 AAATA
36333556 TCATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:36334255 original size:16 final size:16
Alignment explanation
Indices: 36334236--36334266 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36334226 GTAATTAATT
*
36334236 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
36334252 AATTAAATAATTTTC
1 AATTAAATAATTTTC
36334267 TCAACCTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:36338419 original size:50 final size:50
Alignment explanation
Indices: 36338306--36338501 Score: 189
Period size: 50 Copynumber: 3.8 Consensus size: 50
36338296 ACATTAGGGG
**
36338306 GATGAGA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG---TACCGA
*
36338357 GGTTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGTACCGA
1 -G--ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGA
*** * * *
36338410 GATGAGAGGTCCCCCATAAGACCATGTTTGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGA
* ** * * *
36338460 TATGAGAACTCTCATGTAAGACCATATCTGGGATATGGCATT
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATT
36338502 TGCAGTATAG
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
50 73 0.61
52 2 0.02
53 4 0.03
54 6 0.05
56 34 0.29
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGA
Found at i:36338791 original size:20 final size:20
Alignment explanation
Indices: 36338766--36338804 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
36338756 TGAGTTATTT
36338766 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
36338786 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
36338805 AAAGAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:36348905 original size:23 final size:20
Alignment explanation
Indices: 36348879--36348930 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 20
36348869 AAATACCTAA
*
36348879 AAAAATACTATGACAAGAAATAT
1 AAAAATAATAT-AC-AGAAA-AT
36348902 AAAATATAATATACAGAAAAT
1 AAAA-ATAATATACAGAAAAT
36348923 AAAAATAA
1 AAAAATAA
36348931 GAAGAAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 4 0.15
21 6 0.22
22 5 0.19
23 6 0.22
24 6 0.22
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (20 bp):
AAAAATAATATACAGAAAAT
Found at i:36352115 original size:54 final size:54
Alignment explanation
Indices: 36352057--36352166 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 54
36352047 TGTGTATTAG
* *
36352057 GTCAGTGAGTTACACGGTCTAGCACACGACCTAAC-ACACGACCGTGTGACACAA
1 GTCAGAGAGTTACAAGGTCTAGCACACGACCT-ACGACACGACCGTGTGACACAA
* * ** *
36352111 GTCAGAGAGTTACAAGGTCTGGCACACGGCCTACGACACGGTCGTGTGACCCAA
1 GTCAGAGAGTTACAAGGTCTAGCACACGACCTACGACACGACCGTGTGACACAA
36352165 GT
1 GT
36352167 GATAGTACTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 2 0.04
54 46 0.96
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.17
Consensus pattern (54 bp):
GTCAGAGAGTTACAAGGTCTAGCACACGACCTACGACACGACCGTGTGACACAA
Found at i:36360199 original size:12 final size:12
Alignment explanation
Indices: 36360182--36360207 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36360172 GCTATTACAT
36360182 GGCCTAGCACAC
1 GGCCTAGCACAC
36360194 GGCCTAGCACAC
1 GGCCTAGCACAC
36360206 GG
1 GG
36360208 GCATGTGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:36365238 original size:25 final size:25
Alignment explanation
Indices: 36365195--36365282 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
36365185 TAGCTTGTAT
* *
36365195 GAGCTTTCCAATT-TCAGCTCATGA
1 GAGCTTACCGATTCTCAGCTCATGA
*
36365219 GAGCTTACTGATTCTCAGCTCAT-A
1 GAGCTTACCGATTCTCAGCTCATGA
* *
36365243 TGAGCTTACCAATT-TCCAACTCATGA
1 -GAGCTTACCGATTCT-CAGCTCATGA
*
36365269 GAGCATACCGATTC
1 GAGCTTACCGATTC
36365283 ATAGCTCGTA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
24 12 0.24
25 38 0.75
26 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (25 bp):
GAGCTTACCGATTCTCAGCTCATGA
Found at i:36365289 original size:50 final size:49
Alignment explanation
Indices: 36365183--36365297 Score: 151
Period size: 50 Copynumber: 2.3 Consensus size: 49
36365173 GCGGACACAC
* * * * *
36365183 CATAGCTTGTATGAGCTTTCCAATTTCAGCTCATGAGAGCTTACTGATT
1 CATAGCTCGTATGAGCTTACCAATTTCAACTCATGAGAGCATACCGATT
*
36365232 C-TCAGCTCATATGAGCTTACCAATTTCCAACTCATGAGAGCATACCGATT
1 CAT-AGCTCGTATGAGCTTACCAATTT-CAACTCATGAGAGCATACCGATT
36365282 CATAGCTCGTATGAGC
1 CATAGCTCGTATGAGC
36365298 ATACATGTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
48 1 0.02
49 21 0.38
50 33 0.59
51 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (49 bp):
CATAGCTCGTATGAGCTTACCAATTTCAACTCATGAGAGCATACCGATT
Found at i:36367420 original size:51 final size:50
Alignment explanation
Indices: 36367296--36367476 Score: 247
Period size: 51 Copynumber: 3.6 Consensus size: 50
36367286 CATTCGATAT
* *
36367296 ACGTAGTAGCCTTCACATAGTACTACACATGTGATC-AAACTTTCCGGTTC
1 ACGTAGTAGCCTGCACATAGTACTACACATGTGATCAAAACTTT-CGGTAC
*
36367346 ACGTAGTAGCCTGCACATAGTACTACACATGTGACCAAAACCTTTCGGTAC
1 ACGTAGTAGCCTGCACATAGTACTACACATGTGATCAAAA-CTTTCGGTAC
* * * * *
36367397 ACATAGTAGCCTGCACATAGTACTACACATGTGATCATTATCTATCGATAC
1 ACGTAGTAGCCTGCACATAGTACTACACATGTGATCA-AAACTTTCGGTAC
*
36367448 ACGTAGTAGCCTGCACTTAGTACTACACA
1 ACGTAGTAGCCTGCACATAGTACTACACA
36367477 CGTGTTTATA
Statistics
Matches: 117, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
50 34 0.29
51 78 0.67
52 5 0.04
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
ACGTAGTAGCCTGCACATAGTACTACACATGTGATCAAAACTTTCGGTAC
Done.