Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 293 of 325
Found at i:93466357 original size:54 final size:54
Alignment explanation
Indices: 93466198--93466359 Score: 222
Period size: 54 Copynumber: 3.0 Consensus size: 54
93466188 GCTAGGCTGC
* * *
93466198 CAGATAT-TGTGAC-GAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGACAG-AGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
*
93466251 CAGATATATGTGACAGAGCCACCAGATCAAATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
* * *
93466305 CAGATATATGTGGCAGAGCCACTAGATCAGATAATTGTGGTATAGCCACCAGGA
1 CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
93466359 C
1 C
93466360 GCTTCCTCCA
Statistics
Matches: 98, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
53 11 0.11
54 86 0.88
55 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (54 bp):
CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:93467985 original size:26 final size:26
Alignment explanation
Indices: 93467954--93468061 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
93467944 TGAAATGCCC
*
93467954 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
93467980 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
93468006 ATCATGGAATACTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93468032 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93468058 ATCA
1 ATCA
93468062 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93476817 original size:27 final size:26
Alignment explanation
Indices: 93476777--93476938 Score: 195
Period size: 27 Copynumber: 6.2 Consensus size: 26
93476767 AGGAAGCGTC
*
93476777 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
93476804 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
93476831 CTGGTGGCTCTGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
93476858 CTGGTGGCTCTGCCACA-TATTCTGTT
1 CTGGTGGCTCTGCCACATTA-TCTGAT
*
93476884 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
* * *
93476911 CTGGTGACTC-GTCACA-TATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
93476935 CTGG
1 CTGG
93476939 CAACCTGCTC
Statistics
Matches: 122, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
24 5 0.04
25 8 0.07
26 34 0.28
27 73 0.60
28 2 0.02
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:93476859 original size:54 final size:53
Alignment explanation
Indices: 93476777--93476938 Score: 233
Period size: 54 Copynumber: 3.1 Consensus size: 53
93476767 AGGAAGCGTC
*
93476777 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
93476831 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATAT-TCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
93476884 CTGGTGGCTCTGCCACAATATCTGTATCTGGTGACTC-GTCAC--ATATCTGTT
1 CTGGTGGCTCTGCCACATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGTT
93476935 CTGG
1 CTGG
93476939 CAACCTGCTC
Statistics
Matches: 101, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
50 2 0.02
51 10 0.10
52 11 0.11
53 33 0.33
54 45 0.45
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTCTGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:93484682 original size:91 final size:93
Alignment explanation
Indices: 93484555--93484724 Score: 272
Period size: 92 Copynumber: 1.8 Consensus size: 93
93484545 CCGCCATAAG
*** *
93484555 CGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCGTCCATAAGTGAACTC-GACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
93484619 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
93484647 CGAACTCGGACTC-ACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
93484711 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
93484725 TAACCATCCT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
91 34 0.48
92 37 0.52
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:93484710 original size:46 final size:46
Alignment explanation
Indices: 93484548--93484721 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
93484538 CATGTAACCG
* *** *
93484548 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCGT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
93484594 CCATAAGTGAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
93484643 -C-TCA-CGAACTCGGACTC-ACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
*
93484685 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA
93484722 TGCTAACCAT
Statistics
Matches: 104, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
43 2 0.02
44 2 0.02
45 31 0.30
46 51 0.49
47 7 0.07
48 1 0.01
49 2 0.02
50 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:93485935 original size:35 final size:37
Alignment explanation
Indices: 93485889--93485957 Score: 115
Period size: 35 Copynumber: 1.9 Consensus size: 37
93485879 ATGCATCAAT
*
93485889 TCATAAACCTCAAAATTA-T-AAATAATTATTTCATA
1 TCATAAACCTCAAAATAATTAAAATAATTATTTCATA
93485924 TCATAAACCTCAAAATAATTAAAATAATTATTTC
1 TCATAAACCTCAAAATAATTAAAATAATTATTTC
93485958 TATTCGGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 17 0.55
36 1 0.03
37 13 0.42
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.36
Consensus pattern (37 bp):
TCATAAACCTCAAAATAATTAAAATAATTATTTCATA
Found at i:93533660 original size:93 final size:93
Alignment explanation
Indices: 93533547--93533718 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
93533537 CGCCCATAAG
* *
93533547 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
93533612 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
93533640 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
93533705 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
93533719 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:93533715 original size:46 final size:46
Alignment explanation
Indices: 93533540--93533715 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
93533530 TGTAACCCGC
* * *
93533540 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
93533586 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
93533636 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
93533679 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
93533716 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:93541193 original size:93 final size:93
Alignment explanation
Indices: 93541080--93541251 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
93541070 CGCCCATAAG
* *
93541080 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
93541145 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
93541173 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
93541238 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
93541252 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:93541248 original size:46 final size:46
Alignment explanation
Indices: 93541073--93541248 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
93541063 TGTAACCCGC
* * *
93541073 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
93541119 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
93541169 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
93541212 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
93541249 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:93548516 original size:53 final size:53
Alignment explanation
Indices: 93548435--93548585 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
93548425 CTTACACGGT
* *
93548435 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
93548490 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
93548543 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
93548586 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:93550177 original size:9 final size:9
Alignment explanation
Indices: 93550165--93550191 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
93550155 TAACTCATTT
93550165 ATTATTCAA
1 ATTATTCAA
93550174 ATTATTCAA
1 ATTATTCAA
93550183 ATTATTCAA
1 ATTATTCAA
93550192 TTCAGTTCAA
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:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTATTCAA
Found at i:93552784 original size:42 final size:41
Alignment explanation
Indices: 93552720--93552803 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 41
93552710 AAACAGTTTT
* *
93552720 ACAAGTTGTGTATAAGTGAAGCT-CCATATGTGAGCTTAAGTG
1 ACAAATTGTGTATAAGCGAAGCTCCCAT-TGTGAGCTT-AGTG
* *
93552762 ACAAATTGTGTATCAGCGAAGCTCCCCTTGTGAGCTTAGTG
1 ACAAATTGTGTATAAGCGAAGCTCCCATTGTGAGCTTAGTG
93552803 A
1 A
93552804 TAGGATATAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 5 0.14
42 29 0.78
43 3 0.08
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (41 bp):
ACAAATTGTGTATAAGCGAAGCTCCCATTGTGAGCTTAGTG
Found at i:93555706 original size:50 final size:50
Alignment explanation
Indices: 93555571--93555759 Score: 227
Period size: 50 Copynumber: 3.8 Consensus size: 50
93555561 TAGACAAGGC
* * * **
93555571 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACC-AAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAAT
* * * *
93555620 TATCCGGTACATGTAGTAGGCTGCACTTAGTACTACACACGTGACCAAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAAT
* * * *
93555670 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAAAT
* *
93555721 TATCTGGTACACATAGTAGCCTGCACTTAGTACTGCACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
93555760 TGCGACCTCA
Statistics
Matches: 117, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
49 38 0.32
50 41 0.35
51 38 0.32
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAAT
Found at i:93560732 original size:5 final size:5
Alignment explanation
Indices: 93560722--93560758 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
93560712 CTGTGTGTTC
93560722 TTTAT TTTA- TTT-T TTTATT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTT
93560759 TCACAAAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 6 0.21
5 18 0.62
6 5 0.17
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTAT
Found at i:93575251 original size:6 final size:6
Alignment explanation
Indices: 93575240--93575272 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
93575230 GATGGGGGAA
93575240 AATTAC AATTAC AATTAC AATTAC AATTAC AAT
1 AATTAC AATTAC AATTAC AATTAC AATTAC AAT
93575273 AATCTGATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAC
Found at i:93583056 original size:9 final size:9
Alignment explanation
Indices: 93583032--93583093 Score: 88
Period size: 9 Copynumber: 6.8 Consensus size: 9
93583022 AAGCATTAAC
*
93583032 AAACACAATA
1 AAACAC-ATT
93583042 AAACACATT
1 AAACACATT
93583051 AAACACATT
1 AAACACATT
93583060 AAACACATT
1 AAACACATT
93583069 AAACACATT
1 AAACACATT
* *
93583078 AAATACTTT
1 AAACACATT
93583087 AAACACA
1 AAACACA
93583094 AGAAACTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
9 41 0.87
10 6 0.13
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (9 bp):
AAACACATT
Found at i:93583182 original size:34 final size:34
Alignment explanation
Indices: 93583144--93583230 Score: 86
Period size: 34 Copynumber: 2.6 Consensus size: 34
93583134 TAACAATAAA
*
93583144 TTATTCCAGCAATTAAATTAACTAAGAT-AAGTAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAA-TAT
* * * *
93583178 TTATTCTAACAACTCAATTAACTAAGTTGAATAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAATAT
* * *
93583212 TGATTCCAGTAACTTAATT
1 TTATTCCAGCAACTAAATT
93583231 TGATAACTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
34 40 0.95
35 2 0.05
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (34 bp):
TTATTCCAGCAACTAAATTAACTAAGATGAATAT
Found at i:93584530 original size:13 final size:13
Alignment explanation
Indices: 93584509--93584540 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
93584499 ACAACCCTTA
*
93584509 TAATAATCGTAAT
1 TAATTATCGTAAT
93584522 TAATTATCGTAAT
1 TAATTATCGTAAT
93584535 TAATTA
1 TAATTA
93584541 ATTTATCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (13 bp):
TAATTATCGTAAT
Found at i:93584868 original size:24 final size:24
Alignment explanation
Indices: 93584841--93584888 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
93584831 ATAAGAAGTA
93584841 AGTATATTTTATACCAAATTTAAG
1 AGTATATTTTATACCAAATTTAAG
93584865 AGTATATTTTATACCAAATTTAAG
1 AGTATATTTTATACCAAATTTAAG
93584889 GGATAAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (24 bp):
AGTATATTTTATACCAAATTTAAG
Found at i:93585339 original size:6 final size:6
Alignment explanation
Indices: 93585328--93585366 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
93585318 TGATAATAAA
* *
93585328 TTTTAT TTTTAT TTTTAT TTTTAT TAATTAT TTATAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT TTTTAT TT
93585367 AGTTATATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:93585401 original size:22 final size:22
Alignment explanation
Indices: 93585376--93585419 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
93585366 TAGTTATATA
93585376 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
93585398 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
93585420 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:93585455 original size:13 final size:14
Alignment explanation
Indices: 93585439--93585480 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
93585429 TTTCAATTTT
93585439 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
93585452 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
93585467 ATTTTAAATAATAT
1 ATTTT-AATAATAT
93585481 TATTCACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:93585465 original size:16 final size:16
Alignment explanation
Indices: 93585443--93585479 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
93585433 AATTTTATTT
93585443 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
93585460 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
93585475 TAATA
1 TAATA
93585480 TTATTCACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:93585541 original size:19 final size:19
Alignment explanation
Indices: 93585513--93585561 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
93585503 TTCAATATTA
*
93585513 ATATTTTAATAATAAATAT
1 ATATTATAATAATAAATAT
*
93585532 ATATTATAATTATAAATAT
1 ATATTATAATAATAAATAT
*
93585551 AT-TAATAATAA
1 ATATTATAATAA
93585562 ATATTTTGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATTATAATAATAAATAT
Found at i:93585550 original size:15 final size:16
Alignment explanation
Indices: 93585512--93585566 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 16
93585502 ATTCAATATT
93585512 AATATT-TTAATAATA
1 AATATTATTAATAATA
*
93585527 AATATATATTATAATTATA
1 AATAT-TA-T-TAATAATA
93585546 AATA-TATTAATAATA
1 AATATTATTAATAATA
93585561 AATATT
1 AATATT
93585567 TTGTAGTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
15 16 0.48
16 3 0.09
17 2 0.06
18 1 0.03
19 11 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATATTATTAATAATA
Found at i:93587089 original size:31 final size:29
Alignment explanation
Indices: 93587054--93587127 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
93587044 ATTTTTTTTT
* *
93587054 AATTTGGTGCGTAAGTTTTTTTTCTAAGTTC
1 AATTTGGTGCCTAAG--CTTTTTCTAAGTTC
* *
93587085 AATTTGGTACCTAAGCTTTTTCTAAGTTT
1 AATTTGGTGCCTAAGCTTTTTCTAAGTTC
*
93587114 AATTTAGTGCCTAA
1 AATTTGGTGCCTAA
93587128 ACTTGTTAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 24 0.65
31 13 0.35
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.47
Consensus pattern (29 bp):
AATTTGGTGCCTAAGCTTTTTCTAAGTTC
Found at i:93600686 original size:44 final size:43
Alignment explanation
Indices: 93600617--93600750 Score: 146
Period size: 45 Copynumber: 3.0 Consensus size: 43
93600607 CATCATGACG
*
93600617 AATCTTATCTCCCT-AAAGTTACAGTGAAGCAGATTGAAGCCAC
1 AATCTTATCTCCCTGAAA-TTACAGTGAAGCAGATTGAAGCTAC
* * * *
93600660 AAGTCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGATAGC
1 AA-TCTTATCTCCCTGAAATTACAGTGAAGCAGATTGAAGCTA-C
* *
93600705 GAATCTTATTTCCCTGAAGTTACAGTGGAA-CAGATTGAAGCTAC
1 -AATCTTATCTCCCTGAAATTACAGT-GAAGCAGATTGAAGCTAC
93600749 AA
1 AA
93600751 ATGATGGCGA
Statistics
Matches: 75, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
43 4 0.05
44 32 0.43
45 35 0.47
46 4 0.05
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAATTACAGTGAAGCAGATTGAAGCTAC
Found at i:93600721 original size:45 final size:44
Alignment explanation
Indices: 93600614--93600740 Score: 141
Period size: 44 Copynumber: 2.9 Consensus size: 44
93600604 AGTCATCATG
* * *
93600614 ACGAATCTTATCTCCCT-AAAGTTACAGTGAAGCAGATTGAAGCC
1 ACGAATCTTATCTCCCTGAAA-TTACAGTGGAGCAGATTAAAGAC
* *
93600658 AC-AAGTCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGAT
1 ACGAA-TCTTATCTCCCTGAAATTACAGTGGAGCAGATTAAAGAC
* * *
93600702 AGCGAATCTTATTTCCCTGAAGTTACAGTGGAACAGATT
1 A-CGAATCTTATCTCCCTGAAATTACAGTGGAGCAGATT
93600741 GAAGCTACAA
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
43 2 0.03
44 33 0.47
45 33 0.47
46 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
ACGAATCTTATCTCCCTGAAATTACAGTGGAGCAGATTAAAGAC
Found at i:93600813 original size:44 final size:43
Alignment explanation
Indices: 93600764--93600901 Score: 143
Period size: 44 Copynumber: 3.1 Consensus size: 43
93600754 ATGGCGAATC
*
93600764 TTATCTTCCTGAAGTTGCAGTGAAGCAAGTTGAAGTCACTAACT
1 TTATCTTCCTGAAGTTGCAGTGGAGCAAGTTGAAGT-ACTAACT
* *** * *
93600808 TTATCTTCCTGAAGTTGCAATGGAGCAAAAAGATA-TACAAACC
1 TTATCTTCCTGAAGTTGCAGTGGAGCAAGTTGA-AGTACTAACT
* * *
93600851 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAATT
1 TTATCTTCCTGAAGTTGCAGTGGAGCAAGTTGAAG-TACTAACT
93600895 CTTATCT
1 -TTATCT
93600902 CCTTTAAGCT
Statistics
Matches: 74, Mismatches: 16, Indels: 7
0.76 0.16 0.07
Matches are distributed among these distances:
42 1 0.01
43 32 0.43
44 34 0.46
45 7 0.09
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (43 bp):
TTATCTTCCTGAAGTTGCAGTGGAGCAAGTTGAAGTACTAACT
Found at i:93601384 original size:17 final size:17
Alignment explanation
Indices: 93601346--93601384 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
93601336 TTAGCCCAAT
93601346 CCAAACCAAAACTAAAC
1 CCAAACCAAAACTAAAC
* * *
93601363 TCAAACCTAAACTAAGC
1 CCAAACCAAAACTAAAC
93601380 CCAAA
1 CCAAA
93601385 ATTTTACAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.33, G:0.03, T:0.10
Consensus pattern (17 bp):
CCAAACCAAAACTAAAC
Found at i:93609537 original size:16 final size:16
Alignment explanation
Indices: 93609516--93609562 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
93609506 GAAAAACTAT
93609516 ATTTTCTATTATTCTA
1 ATTTTCTATTATTCTA
*
93609532 ATTTTCTATCACTT-TA
1 ATTTTCTATTA-TTCTA
* *
93609548 ATTTTTTATTTTTCT
1 ATTTTCTATTATTCT
93609563 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 2 0.08
16 21 0.84
17 2 0.08
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTTTCTATTATTCTA
Found at i:93609567 original size:13 final size:13
Alignment explanation
Indices: 93609549--93609574 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93609539 ATCACTTTAA
93609549 TTTTTTATTTTTC
1 TTTTTTATTTTTC
93609562 TTTTTTATTTTTC
1 TTTTTTATTTTTC
93609575 ACTTTACCGA
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:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTATTTTTC
Found at i:93610542 original size:168 final size:167
Alignment explanation
Indices: 93610256--93610575 Score: 394
Period size: 168 Copynumber: 1.9 Consensus size: 167
93610246 TATTTAAAAA
* **
93610256 AAATTCTTTTTTTAAAAAAAATTAAACAATAGCGAAAACCAATCCAACTATTGGTTCACACATCA
1 AAATTATTTTTTTAAAAAAAATTAAACAATAGAAAAAACCAATCCAACTATTGGTTCACACATCA
* *
93610321 ACCGATACAACTCTTTATTCTACATAGATACCTCGACCGACCGAATTTTGAATTAACTTTATTTT
66 ACAGATACAACTCTTTATTCTACATAGATACCTCGACCAACCGAATTTTGAATTAACTTTATTTT
* * *
93610386 TTAGAATGTTTTATTATCTTTTTTAATTAAATTGAAT
131 GTAGAATGTATTATTATATTTTTTAATTAAATTGAAT
* * * * * ** *
93610423 AAATTATTATTTTTAAAAAAATTTAAACAATAGAAAAAATCAATTCAATTGTTGGTTTGCACGTC
1 AAATTATT-TTTTTAAAAAAAATTAAACAATAGAAAAAACCAATCCAACTATTGGTTCACACATC
* * * **
93610488 AACAGATCCAAC-CTTTTATTCTGGAC-TAG-TATCTCGACCAACCGATTTTTGAATTATTTTTA
65 AACAGATACAACTC-TTTATTCT--ACATAGATACCTCGACCAACCGAATTTTGAATTAACTTTA
93610550 TTTTGTAGAATGTATTATTATATTTT
127 TTTTGTAGAATGTATTATTATATTTT
93610576 ATTCTTTATA
Statistics
Matches: 128, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
167 8 0.06
168 115 0.90
169 3 0.02
170 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (167 bp):
AAATTATTTTTTTAAAAAAAATTAAACAATAGAAAAAACCAATCCAACTATTGGTTCACACATCA
ACAGATACAACTCTTTATTCTACATAGATACCTCGACCAACCGAATTTTGAATTAACTTTATTTT
GTAGAATGTATTATTATATTTTTTAATTAAATTGAAT
Found at i:93610667 original size:16 final size:18
Alignment explanation
Indices: 93610628--93610668 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
93610618 TAATTTAATA
*
93610628 ATTTTTTATATTTTCTAT
1 ATTTTTTATATGTTCTAT
*
93610646 AATTTTTAT-TGTTCT-T
1 ATTTTTTATATGTTCTAT
93610662 ATTTTTT
1 ATTTTTT
93610669 TGAATATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 7 0.35
17 5 0.25
18 8 0.40
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTTTTATATGTTCTAT
Found at i:93610867 original size:14 final size:14
Alignment explanation
Indices: 93610848--93610874 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
93610838 TATTCTAAAA
93610848 AATTTCAATTTTTG
1 AATTTCAATTTTTG
93610862 AATTTCAATTTTT
1 AATTTCAATTTTT
93610875 TTATAATTCT
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:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (14 bp):
AATTTCAATTTTTG
Found at i:93611417 original size:8 final size:8
Alignment explanation
Indices: 93611404--93611438 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
93611394 CGAAGGAAAG
93611404 AAAATTAA
1 AAAATTAA
93611412 AAAATTAA
1 AAAATTAA
*
93611420 AAAATTGA
1 AAAATTAA
93611428 AAAATTGAA
1 AAAATT-AA
93611437 AA
1 AA
93611439 GGTGGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 21 0.88
9 3 0.12
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (8 bp):
AAAATTAA
Found at i:93613423 original size:13 final size:13
Alignment explanation
Indices: 93613405--93613430 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93613395 TAGGAAGCTC
93613405 ATTATGAATTATG
1 ATTATGAATTATG
93613418 ATTATGAATTATG
1 ATTATGAATTATG
93613431 TGTATTCTGT
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:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
ATTATGAATTATG
Found at i:93616183 original size:3 final size:3
Alignment explanation
Indices: 93616175--93616440 Score: 136
Period size: 3 Copynumber: 89.3 Consensus size: 3
93616165 GTACTGCTTC
*
93616175 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * *
93616221 TAT TAT TTT TCA- TACA TAT ATAT TAT TAT TAT T-T ATAT TAT TAC TAT
1 TAT TAT TAT T-AT TA-T TAT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT
** * * * * *
93616268 CCT T-T TCAT TCT TAT TTT TAT TAA TAT TAT TAT TA- TAA TCT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * *
93616312 T-T TAT AAC TAT TAT CAT T-T TTT TAA AAT TAT TGT TAC TAT TAT TCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
93616358 T-T TAC CAT T-T AAT ACAT TAT TAT TAC TAT TTT TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
93616402 TAT TAC TAT T-G TAT TAT TAC TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
93616441 TTTTGTATTT
Statistics
Matches: 194, Mismatches: 53, Indels: 32
0.70 0.19 0.11
Matches are distributed among these distances:
2 14 0.07
3 167 0.86
4 13 0.07
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:93616323 original size:11 final size:14
Alignment explanation
Indices: 93616277--93616318 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
93616267 TCCTTTTCAT
*
93616277 TCTTATTTTTATTAA
1 TCTTATTATTA-TAA
*
93616292 TATTATTATTATAA
1 TCTTATTATTATAA
93616306 TCTTATT-TTATAA
1 TCTTATTATTATAA
93616319 CTATTATCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 6 0.25
14 9 0.38
15 9 0.38
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (14 bp):
TCTTATTATTATAA
Found at i:93616613 original size:3 final size:3
Alignment explanation
Indices: 93616592--93616841 Score: 202
Period size: 3 Copynumber: 82.7 Consensus size: 3
93616582 TCAACTTTAG
* * **
93616592 ATT ATTT ATT ATT -TGT ATT ATT GTT ATT ATT ACT ATTT ATT ATT ACC
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * * *
93616639 ATT ATT ATT ACT ATT ACT ATT ACT ATT ACTT -TT ACTT -TT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT A-TT ATT ATT ATT
* * * * * * *
93616684 ATC ACT A-T ATT ATT TTT ATT TTT ATT TTCT ATT ACT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
* * * * * *
93616729 ATT ATT ATT ACT AAT ATT AAT ATT CTT ATT ATT ACT ATT ATT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
93616777 ATT AGT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
93616825 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
93616842 CATTGTCATT
Statistics
Matches: 191, Mismatches: 46, Indels: 20
0.74 0.18 0.08
Matches are distributed among these distances:
2 7 0.04
3 172 0.90
4 12 0.06
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:93623631 original size:64 final size:64
Alignment explanation
Indices: 93623552--93623677 Score: 182
Period size: 64 Copynumber: 2.0 Consensus size: 64
93623542 ATTCAAGACG
* *
93623552 CATCTAGTTAGGAGCATTGGATTCATTTCGATCATAGCGTCCTAATTA-TTTGACATAAGCATTA
1 CATCTAGCTAGGAGCATTGGATTCATTTCGATCATAGCATCCTAATTATTTTG-CATAAGCATTA
* * * *
93623616 CATCTAGCTAGGAGCATTTGATTCATTTCGATTATCGTATCCTAATTATTTTGCATAAGCAT
1 CATCTAGCTAGGAGCATTGGATTCATTTCGATCATAGCATCCTAATTATTTTGCATAAGCAT
93623678 AGATACATGA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 51 0.93
65 4 0.07
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (64 bp):
CATCTAGCTAGGAGCATTGGATTCATTTCGATCATAGCATCCTAATTATTTTGCATAAGCATTA
Found at i:93623879 original size:88 final size:88
Alignment explanation
Indices: 93623730--93624124 Score: 524
Period size: 88 Copynumber: 4.5 Consensus size: 88
93623720 TGAATTTACT
* * * *
93623730 AGCCTTAACCCCCTAATCAGTAGGGTAACAGGCTAAAAATTACAAATCTTGTCTCCTTAAGTCGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGTAGT
*
93623795 AGCGGAGCAGATCGAACACTGTG
66 AGCGGAGCAGATCGAAGACTGTG
** *
93623818 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTTTCTAAGTAAT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGTAGT
** *
93623883 AGCGGAGCAGATAAAAGACGGTG
66 AGCGGAGCAGATCGAAGACTGTG
* * *
93623906 AGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTACAAATTACAGATCTTGTCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGTAGT
* **
93623971 AGCGGAGAAGATCGAAGACAATG
66 AGCGGAGCAGATCGAAGACTGTG
** * * * *
93623994 AGCCTTAA-CCCCTAAAAAGTAGGGAAACAGGCTGAAAATTATAGATCTTATCTCCCTAAGTAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGTAGT
* *
93624058 AGTGGAGCAGATCGAAGA-TGATA
66 AGCGGAGCAGATCGAAGACTG-TG
* *
93624081 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAGAAATTACA
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACA
93624125 ATTCGTATCT
Statistics
Matches: 263, Mismatches: 42, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
87 72 0.27
88 191 0.73
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (88 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGTAGT
AGCGGAGCAGATCGAAGACTGTG
Found at i:93624105 original size:175 final size:176
Alignment explanation
Indices: 93623730--93624125 Score: 528
Period size: 175 Copynumber: 2.3 Consensus size: 176
93623720 TGAATTTACT
*
93623730 AGCCTTAACCCCCTAA-TCAGTAGGGTAACAGGCTAAAAATTACAAATCTTGTCTCCTTAAGTCG
1 AGCCTTAACCCCCTAAGT-AGTAGGGTAACAGGCTAAAAATTACAAATCTTGTCTCCCTAAGTCG
* ** ** *
93623794 TAGCGGAGCAGATCGAACACTGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATT
65 TAGCGGAGAAGATCGAACACAATGAGCCTTAACCCCCTAAAAAGTAGGGAAACAGGCTAAAAATT
* ** * *
93623859 ACAGATCTTGTCTTTCTAAGTAATAGCGGAGCAGATAAAAGACGGTG
130 ACAGATCTTATCTCCCTAAGTAATAGCGGAGCAGATAAAAGACGATA
* * * *
93623906 AGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTACAAATTACAGATCTTGTCTCCCTAAG-CAG
1 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTACAAATCTTGTCTCCCTAAGTC-G
* *
93623970 TAGCGGAGAAGATCGAAGACAATGAGCCTTAA-CCCCTAAAAAGTAGGGAAACAGGCTGAAAATT
65 TAGCGGAGAAGATCGAACACAATGAGCCTTAACCCCCTAAAAAGTAGGGAAACAGGCTAAAAATT
* * * ** *
93624034 ATAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGATA
130 ACAGATCTTATCTCCCTAAGTAATAGCGGAGCAGATAAAAGACGATA
*
93624081 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAGAAATTACAA
1 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTACAA
93624126 TTCGTATCTC
Statistics
Matches: 190, Mismatches: 28, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
175 106 0.56
176 84 0.44
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (176 bp):
AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTACAAATCTTGTCTCCCTAAGTCGT
AGCGGAGAAGATCGAACACAATGAGCCTTAACCCCCTAAAAAGTAGGGAAACAGGCTAAAAATTA
CAGATCTTATCTCCCTAAGTAATAGCGGAGCAGATAAAAGACGATA
Found at i:93624220 original size:88 final size:88
Alignment explanation
Indices: 93624122--93624716 Score: 913
Period size: 88 Copynumber: 6.8 Consensus size: 88
93624112 GCTAGAAATT
* *
93624122 ACAATTCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* *
93624187 TGGCACTAGAGCA-ACTCGAAGCC
66 TGGCACTGGAG-AGGCTCGAAGCC
* * * * * *
93624210 ACAATTCGTATCTCCTTGAAGTTTCGGTGAAGTAGATCGGAGCTACAAATCTCTTCTCCTTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
93624275 TGGCACTGGAGAGGCTCAAAGCC
66 TGGCACTGGAGAGGCTCGAAGCC
* * * *
93624298 ACAATTCGTATCTCCTTGAAGTTCCAGTGGAGTACATCAAAGCTATAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* *
93624363 TGGCACTAGAGAGGCTTGAAGCC
66 TGGCACTGGAGAGGCTCGAAGCC
* *
93624386 ACAATTAGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
93624451 TGGCACTGGAGAGGCTCGAAGCC
66 TGGCACTGGAGAGGCTCGAAGCC
*
93624474 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTTCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * *
93624539 TGACACCGGAGAGTCTCGAAGCC
66 TGGCACTGGAGAGGCTCGAAGCC
*
93624562 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTTCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* *
93624627 TGACACTGGAGAGGCTTGAAGCC
66 TGGCACTGGAGAGGCTCGAAGCC
* * *
93624650 ACAATTCGTATCTCCTTGAATTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
93624715 TG
66 TG
93624717 ACATTGGAAC
Statistics
Matches: 465, Mismatches: 41, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
87 1 0.00
88 464 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (88 bp):
ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
TGGCACTGGAGAGGCTCGAAGCC
Found at i:93624312 original size:44 final size:44
Alignment explanation
Indices: 93624264--93624669 Score: 245
Period size: 44 Copynumber: 9.2 Consensus size: 44
93624254 ACAAATCTCT
* *
93624264 TCTCCTTGAAATGGCACTGGAGAGGCTCAAAGCCACAATTCGTA
1 TCTCCTTGAAATGCCACTGGAGAGGCTCGAAGCCACAATTCGTA
* * * * * *
93624308 TCTCCTTGAAGTTCCAGTGGAGTA--CATCAAAGCTATAAATCTC-T-
1 TCTCCTTGAAATGCCACTGGAG-AGGC-TCGAAGCCA-CAAT-TCGTA
* * * * *
93624352 TCTCCCTGAAATGGCACTAGAGAGGCTTGAAGCCACAATTAGTA
1 TCTCCTTGAAATGCCACTGGAGAGGCTCGAAGCCACAATTCGTA
* * * *
93624396 TCTCCTTGAAGTTCCAGC-GGAGTA-GATCGAAGCTACAAATCTC-T-
1 TCTCCTTGAAATGCCA-CTGGAG-AGGCTCGAAGCCAC-AAT-TCGTA
*
93624440 TCTCCTTGAAATGGCACTGGAGAGGCTCGAAGCCACAATTCGTA
1 TCTCCTTGAAATGCCACTGGAGAGGCTCGAAGCCACAATTCGTA
* * * *
93624484 TCTCCTTGAAGTTCCAGC-GGAGTA-GATCGAAGCTACAAATCTC-T-
1 TCTCCTTGAAATGCCA-CTGGAG-AGGCTCGAAGCCAC-AAT-TCGTA
* * *
93624528 TCTTCC-TGAAATGACACCGGAGAGTCTCGAAGCCACAATTCGTA
1 TC-TCCTTGAAATGCCACTGGAGAGGCTCGAAGCCACAATTCGTA
* * * *
93624572 TCTCCTTGAAGTTCCAGC-GGAGTA-GATCGAAGCTACAAATCTC-T-
1 TCTCCTTGAAATGCCA-CTGGAG-AGGCTCGAAGCCAC-AAT-TCGTA
* *
93624616 TCTTCC-TGAAATGACACTGGAGAGGCTTGAAGCCACAATTCGTA
1 TC-TCCTTGAAATGCCACTGGAGAGGCTCGAAGCCACAATTCGTA
93624660 TCTCCTTGAA
1 TCTCCTTGAA
93624670 TTTCCAGCAG
Statistics
Matches: 272, Mismatches: 54, Indels: 72
0.68 0.14 0.18
Matches are distributed among these distances:
42 7 0.03
43 30 0.11
44 198 0.73
45 30 0.11
46 7 0.03
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.26
Consensus pattern (44 bp):
TCTCCTTGAAATGCCACTGGAGAGGCTCGAAGCCACAATTCGTA
Found at i:93626331 original size:3 final size:3
Alignment explanation
Indices: 93626323--93626577 Score: 96
Period size: 3 Copynumber: 85.3 Consensus size: 3
93626313 GTACTGCTTC
* * *
93626323 TAT TAT TAT TAT TAT TAT TAT TAT TATT TAC TAT TAT TTT TTT TCA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT T-AT
* * ** *
93626369 TACA TAT ATAT TATT TAT T-T ATAT TAT TAC TAT CCT T-T TCAT TCT
1 TA-T TAT -TAT TA-T TAT TAT -TAT TAT TAT TAT TAT TAT T-AT TAT
* * * * * *
93626414 TAT TTT TAT TAA TAT TAT TAT TA- TAA TCT TAT T-T TAT AAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * * *
93626460 CAT T-T TTT TAA AAT TAT TGT TAC TAT TAT TCT T-T TAC CAT T-T AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
93626505 ACAT TAT TAT TAC TAT TTT TGT TAT TAT TAT TAT TAC TAT T-G TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
93626550 TAT TAC TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
93626578 TGTATTTACT
Statistics
Matches: 182, Mismatches: 53, Indels: 34
0.68 0.20 0.13
Matches are distributed among these distances:
2 14 0.08
3 152 0.84
4 16 0.09
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:93626457 original size:11 final size:14
Alignment explanation
Indices: 93626411--93626452 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
93626401 TCCTTTTCAT
*
93626411 TCTTATTTTTATTAA
1 TCTTATTATTA-TAA
*
93626426 TATTATTATTATAA
1 TCTTATTATTATAA
93626440 TCTTATT-TTATAA
1 TCTTATTATTATAA
93626453 CTATTATCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 6 0.25
14 9 0.38
15 9 0.38
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (14 bp):
TCTTATTATTATAA
Found at i:93626745 original size:3 final size:3
Alignment explanation
Indices: 93626725--93626967 Score: 197
Period size: 3 Copynumber: 80.7 Consensus size: 3
93626715 TCAACTTTAG
* * * **
93626725 ATT ATTT ATT ATT TTT ATT ATT GTT ATT ATT ACT ATTT ATT ATT ACC
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * * *
93626772 ATT ATT ATT ACT ATT ACT ATT ACT ATT ACTT -TT ACTT -TT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT A-TT ATT ATT ATT
* * * * *
93626817 ATC ACT A-T ATT ATT ATT ATT -TT TTCT ATT ACT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
* * * * * *
93626861 ATT ATT ACT AAT ATT AAT ATT CTT ATT ATT ACT ATT ATT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
93626909 AGT ATT ATT ATT ATT ACT ATT ATT ATT ACT ATT ATT ATT AAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
93626957 ATT ATT ATT AT
1 ATT ATT ATT AT
93626968 CGTTCTCATT
Statistics
Matches: 186, Mismatches: 45, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
2 8 0.04
3 167 0.90
4 11 0.06
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:93630932 original size:14 final size:13
Alignment explanation
Indices: 93630889--93630945 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
93630879 CCCATCACAT
93630889 CAAAACCCAATA-
1 CAAAACCCAATAC
*
93630901 CAAAGACCCACAAAC
1 CAAA-ACCCA-ATAC
93630916 CAAAACCCAATATC
1 CAAAACCCAATA-C
*
93630930 CAATACCCAAATAC
1 CAAAACCC-AATAC
93630944 CA
1 CA
93630946 GGTCAGCCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 4 0.11
13 7 0.19
14 18 0.49
15 8 0.22
ACGTcount: A:0.53, C:0.37, G:0.02, T:0.09
Consensus pattern (13 bp):
CAAAACCCAATAC
Found at i:93631415 original size:26 final size:24
Alignment explanation
Indices: 93631384--93631433 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
93631374 AAATAAAAAA
*
93631384 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
93631410 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
93631434 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:93631453 original size:21 final size:21
Alignment explanation
Indices: 93631404--93631462 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
93631394 ATAATAAATC
*
93631404 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
93631424 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
93631446 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
93631463 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:93632575 original size:12 final size:12
Alignment explanation
Indices: 93632537--93632597 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
93632527 TTTCGTTTCT
93632537 TTATTAAATATTA
1 TTATT-AATATTA
** *
93632550 TTATTTGTAATA
1 TTATTAATATTA
93632562 TTATTAATATTA
1 TTATTAATATTA
*
93632574 TTACT-ATAATTA
1 TTATTAAT-ATTA
*
93632586 TTATTAAAATTA
1 TTATTAATATTA
93632598 ATGTATATTT
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
11 2 0.05
12 29 0.78
13 6 0.16
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (12 bp):
TTATTAATATTA
Found at i:93634276 original size:4 final size:4
Alignment explanation
Indices: 93634267--93634301 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
93634257 ACCATCTGTT
*
93634267 TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
93634302 GTTTTTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:93639917 original size:18 final size:18
Alignment explanation
Indices: 93639890--93639982 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
93639880 TACGACCGTT
93639890 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* * *
93639908 TACGGCACTATTTACATA
1 TACGGTACTATTCACGTA
*
93639926 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
93639944 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
93639962 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
93639980 TAC
1 TAC
93639983 AGTAGTTGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:93645414 original size:21 final size:21
Alignment explanation
Indices: 93645390--93645429 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
93645380 AGTATTTGTA
93645390 AATTTGAAATTTA-AAATTTTT
1 AATTT-AAATTTATAAATTTTT
*
93645411 AATTTAATTTTATAAATTT
1 AATTTAAATTTATAAATTT
93645430 AATTCCTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
AATTTAAATTTATAAATTTTT
Found at i:93652023 original size:15 final size:15
Alignment explanation
Indices: 93652005--93652040 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
93651995 TGATGAAAGG
93652005 GAAGAACAAGAACAA
1 GAAGAACAAGAACAA
*
93652020 GAAGAACAAGAAGAA
1 GAAGAACAAGAACAA
93652035 GAAGAA
1 GAAGAA
93652041 GATGATGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.67, C:0.08, G:0.25, T:0.00
Consensus pattern (15 bp):
GAAGAACAAGAACAA
Found at i:93652026 original size:9 final size:9
Alignment explanation
Indices: 93652012--93652042 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
93652002 AGGGAAGAAC
93652012 AAGAACAAG
1 AAGAACAAG
93652021 AAGAACAAG
1 AAGAACAAG
*
93652030 AAGAAGAAG
1 AAGAACAAG
93652039 AAGA
1 AAGA
93652043 TGATGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.68, C:0.06, G:0.26, T:0.00
Consensus pattern (9 bp):
AAGAACAAG
Found at i:93652047 original size:3 final size:3
Alignment explanation
Indices: 93652041--93652069 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
93652031 AGAAGAAGAA
93652041 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
93652070 GAATGGAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:93654332 original size:23 final size:22
Alignment explanation
Indices: 93654289--93654338 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 22
93654279 CAAATAAGAA
93654289 AATTATTTATTTTAATATTTAT
1 AATTATTTATTTTAATATTTAT
93654311 AATTATTT-TTTTACAATATTTAT
1 AATTATTTATTTT--AATATTTAT
93654334 AATTA
1 AATTA
93654339 AATCTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.15
22 8 0.31
23 14 0.54
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
AATTATTTATTTTAATATTTAT
Found at i:93656199 original size:22 final size:20
Alignment explanation
Indices: 93656120--93656211 Score: 73
Period size: 21 Copynumber: 4.6 Consensus size: 20
93656110 TTTTTAGAAT
* * *
93656120 TTTTATATTTTAAAAAATAAA
1 TTTTAAATTTTTAAAAAT-TA
* * *
93656141 TTTTGATTTTTTATAAA-TA
1 TTTTAAATTTTTAAAAATTA
*
93656160 TTTTGAA-TTTTAAAAATTA
1 TTTTAAATTTTTAAAAATTA
93656179 TTTTTAAATTTTTGAAAAATTA
1 -TTTTAAATTTTT-AAAAATTA
93656201 TTTT-AATTTTT
1 TTTTAAATTTTT
93656212 TTTATAATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
18 8 0.14
19 9 0.16
20 13 0.22
21 20 0.34
22 8 0.14
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTTAAATTTTTAAAAATTA
Found at i:93656503 original size:22 final size:21
Alignment explanation
Indices: 93656478--93656519 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
93656468 TATATGCTTT
**
93656478 ATTTAGATTTATTTTAATTTAA
1 ATTTAGAGATATTTT-ATTTAA
93656500 ATTTAGAGATATTTTATTTA
1 ATTTAGAGATATTTTATTTA
93656520 TTAATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
ATTTAGAGATATTTTATTTAA
Found at i:93661596 original size:18 final size:20
Alignment explanation
Indices: 93661561--93661597 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
93661551 TATTATTTTC
*
93661561 TATTATAAAATGTTAGTTTA
1 TATTATAAAATGTAAGTTTA
93661581 TATTA-AAAAT-TAAGTTT
1 TATTATAAAATGTAAGTTT
93661598 TAAGGAGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 6 0.38
19 5 0.31
20 5 0.31
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (20 bp):
TATTATAAAATGTAAGTTTA
Found at i:93661808 original size:27 final size:26
Alignment explanation
Indices: 93661768--93661825 Score: 98
Period size: 27 Copynumber: 2.2 Consensus size: 26
93661758 ATCTCATATT
93661768 AAAAAAAAAAAGTCACATTCTTAAAA
1 AAAAAAAAAAAGTCACATTCTTAAAA
*
93661794 AAAAAAAAAAGAGTCACATTCTTTAAA
1 AAAAAAAAAA-AGTCACATTCTTAAAA
93661821 AAAAA
1 AAAAA
93661826 GTATGTGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.66, C:0.10, G:0.05, T:0.19
Consensus pattern (26 bp):
AAAAAAAAAAAGTCACATTCTTAAAA
Found at i:93672939 original size:177 final size:177
Alignment explanation
Indices: 93672688--93673335 Score: 984
Period size: 177 Copynumber: 3.7 Consensus size: 177
93672678 GCCACAAGTC
* *
93672688 TTAACCCCCTAAGCAGTAGGGTGACAGGCTGAAAATTACAGATCTTATCTCCATGTATCGGCTAT
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCATGTATCGGCTAT
* * *
93672753 GGAGCAGATC-AAAGATGGTGAGTCTTATCTCCATGTATTGGCTATAGAGCAGATTTTAGCCACC
66 GGAGCAGATCGAAA-ATGGCGAGTCTTATCTCCATGTATTGACTATGGAGCAGATTTTAGCCACC
* * * *
93672817 GACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACGAG-T
130 GGCCTTATCTCTTTGATGTAGCAAGAGAGCAGGTTGAAGATACGAGCT
* * *
93672864 CTTAACCCCCTAAGCAGTAGGGTAACAAGC-AGAAAATAAAAGATCTTATCTCCATGTATCGGCT
1 -TTAACCCCCTAAGCAGTAGGGTAACAGGCTA-AAAATTACAGATCTTATCTCCATGTATCGGCT
** *
93672928 ATGGAGCAGATCGAAAATGGCGAGTCTTATCTTTATGTATTGACTATGGAGTAGATTTTAGCCAC
64 ATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATTGACTATGGAGCAGATTTTAGCCAC
93672993 CGGCCTTATCTCTTTGATGTAGCAAGAGAGCAGGTTGAAGATACGAGCT
129 CGGCCTTATCTCTTTGATGTAGCAAGAGAGCAGGTTGAAGATACGAGCT
*
93673042 TTAACCCCCTAAGCAGTAGGGTAATAGGCTAAAAATTACAGATCTTATCTCCATGTATCGGCTAT
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCATGTATCGGCTAT
**
93673107 GGAGCAGATCGAAAATGGCGAGTCTTATCTTTATGTATTGACTATGGAGCAGATTTTAGCCACCG
66 GGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATTGACTATGGAGCAGATTTTAGCCACCG
93673172 GCCTTATCTCTTTGATGTAGCAAGAGAGCAGGTTGAAGATACGAGCT
131 GCCTTATCTCTTTGATGTAGCAAGAGAGCAGGTTGAAGATACGAGCT
* * *
93673219 TTAACCTCCTAAGCAGTAGGGTAATAGGCTAAAAATTGCAGATCTTATCTCCATGTATCGGCTAT
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCATGTATCGGCTAT
* * * * *
93673284 GGAGTAGATC--AAATTGC-AGATCTTATCTCCATGTATCGGCTATGGAGTAGAT
66 GGAGCAGATCGAAAATGGCGAG-TCTTATCTCCATGTATTGACTATGGAGCAGAT
93673336 CGAAGATGGC
Statistics
Matches: 437, Mismatches: 29, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
174 2 0.00
175 33 0.08
177 397 0.91
178 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (177 bp):
TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCATGTATCGGCTAT
GGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATTGACTATGGAGCAGATTTTAGCCACCG
GCCTTATCTCTTTGATGTAGCAAGAGAGCAGGTTGAAGATACGAGCT
Found at i:93673312 original size:43 final size:44
Alignment explanation
Indices: 93673251--93673380 Score: 201
Period size: 43 Copynumber: 3.0 Consensus size: 44
93673241 AATAGGCTAA
93673251 AAATTGCAGATCTTATCTCCATGTATCGGCTATGGAGTAGATC-
1 AAATTGCAGATCTTATCTCCATGTATCGGCTATGGAGTAGATCG
93673294 AAATTGCAGATCTTATCTCCATGTATCGGCTATGGAGTAGATCG
1 AAATTGCAGATCTTATCTCCATGTATCGGCTATGGAGTAGATCG
* * *
93673338 AAGATGGC-GAATCTTATCTCCATGTATCGGTTATGGAGCAGAT
1 AA-ATTGCAG-ATCTTATCTCCATGTATCGGCTATGGAGTAGAT
93673381 TTTAGCCATC
Statistics
Matches: 81, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
43 43 0.53
44 3 0.04
45 35 0.43
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (44 bp):
AAATTGCAGATCTTATCTCCATGTATCGGCTATGGAGTAGATCG
Found at i:93673549 original size:45 final size:45
Alignment explanation
Indices: 93673480--93673602 Score: 185
Period size: 45 Copynumber: 2.7 Consensus size: 45
93673470 CAAATTGCAG
*
93673480 ATCTTATCTCCATGTATCAGCTATGGAGTAGATCGAAAATGGCGA
1 ATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCGA
* * *
93673525 ATCTTATCTCCAGGTATC-GACTATGGAGCAGATTGAAGATGGCGA
1 ATCTTATCTCCATGTATCAG-CTATGGAGCAGATCGAAAATGGCGA
*
93673570 ATCATATCTCCATGTATCAGCTATGGAGCAGAT
1 ATCTTATCTCCATGTATCAGCTATGGAGCAGAT
93673603 TTTAGCCATC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
44 1 0.01
45 68 0.97
46 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (45 bp):
ATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCGA
Found at i:93673615 original size:222 final size:221
Alignment explanation
Indices: 93673083--93674054 Score: 1344
Period size: 222 Copynumber: 4.4 Consensus size: 221
93673073 AAAATTACAG
* * ** *
93673083 ATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTTTATGTAT-TG
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCAG
* * * * *
93673147 ACTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTTTGATGTAGCAAGAGAGCAGGTTGAAGAT
66 -CTATGGAGCAGATTTTAGCCATCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGGT
* * * * * * * * * *
93673212 ACGAG-CTTTAACCTCCT-AAGCAGTAGGGTAA-TAGGCTAAAAATTGCAGATCTTATCTCCATG
130 ACAAGTC-TTATCTTCCTGAGGTAGCAAGG-AAGCAGACT-GAAATTGCAGATCTTATCTCCATG
*
93673274 TATCGGCTATGGAGTAGATC-AAATTGC-A
192 TATCGGCTATGGAGTAGATCAAAATGGCGA
* *
93673302 GATCTTATCTCCATGTATCGGCTATGGAGTAGATCGAAGATGGCGAATCTTATCTCCATGTATCG
1 -ATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCA
* *
93673367 GTTATGGAGCAGATTTTAGCCATCAGCCTTATCTTTCTGAGGTAGCAAGAGAGCAGGTTGAAGGT
65 GCTATGGAGCAGATTTTAGCCATCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGGT
*
93673432 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTCAAATTGCAGATCTTATCTCCATGTAT
130 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAATTGCAGATCTTATCTCCATGTAT
*
93673497 CAGCTATGGAGTAGATCGAAAATGGCGA
195 CGGCTATGGAGTAGATC-AAAATGGCGA
* * * *
93673525 ATCTTATCTCCAGGTATCGACTATGGAGCAGATTGAAGATGGCGAATCATATCTCCATGTATCAG
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCAG
* * *
93673590 CTATGGAGCAGATTTTAGCCATCAGCTTTCTCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAGGTA
66 CTATGGAGCAGATTTTAGCCATCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGGTA
* * *
93673655 CAAGTCTTATCTTCTTGAGGTAGCAAGAAAGCAGACTGAAATTGTAGATCTTATCTCCATGTATC
131 CAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAATTGCAGATCTTATCTCCATGTATC
* *
93673720 GACTATGGAGTAGATCAAAGATGGTGA
196 GGCTATGGAGTAGATCAAA-ATGGCGA
* * * * *
93673747 ATCTTATCTCCATGTATCGGCTATGGAGTAGATCGAAAATGGCGAATCATATCTCAATGTATCGG
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCAG
* *
93673812 CTCTAGAGCAGATTTTAGCCATCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGGTA
66 CTATGGAGCAGATTTTAGCCATCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGGTA
93673877 CAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAATTGCAGATCTTATCTCCATGTATC
131 CAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAATTGCAGATCTTATCTCCATGTATC
* *
93673942 GGCTATGTAGTAGATCGAAGATGGCGA
196 GGCTATGGAGTAGATC-AAAATGGCGA
* * * * *
93673969 ATCTTATCTCTAAGTATCGGCTATGGAGCAGATCGAAGATAGCGAGTCTTATCTCTATGTATCAG
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCAG
*
93674034 CTATAGAGCAGATTTTAGCCA
66 CTATGGAGCAGATTTTAGCCA
93674055 CCGGCCTTGT
Statistics
Matches: 671, Mismatches: 72, Indels: 16
0.88 0.09 0.02
Matches are distributed among these distances:
220 170 0.25
221 16 0.02
222 482 0.72
223 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (221 bp):
ATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCAG
CTATGGAGCAGATTTTAGCCATCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGGTA
CAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAATTGCAGATCTTATCTCCATGTATC
GGCTATGGAGTAGATCAAAATGGCGA
Found at i:93673771 original size:45 final size:45
Alignment explanation
Indices: 93673702--93673813 Score: 172
Period size: 45 Copynumber: 2.5 Consensus size: 45
93673692 GAAATTGTAG
* *
93673702 ATCTTATCTCCATGTATCGACTATGGAGTAGATC-AAAGATGGTGA
1 ATCTTATCTCCATGTATCGGCTATGGAGTAGATCGAAA-ATGGCGA
93673747 ATCTTATCTCCATGTATCGGCTATGGAGTAGATCGAAAATGGCGA
1 ATCTTATCTCCATGTATCGGCTATGGAGTAGATCGAAAATGGCGA
* *
93673792 ATCATATCTCAATGTATCGGCT
1 ATCTTATCTCCATGTATCGGCT
93673814 CTAGAGCAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 59 0.95
46 3 0.05
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (45 bp):
ATCTTATCTCCATGTATCGGCTATGGAGTAGATCGAAAATGGCGA
Found at i:93673988 original size:45 final size:45
Alignment explanation
Indices: 93673924--93674046 Score: 174
Period size: 45 Copynumber: 2.7 Consensus size: 45
93673914 GAAATTGCAG
* * * *
93673924 ATCTTATCTCCATGTATCGGCTATGTAGTAGATCGAAGATGGCGA
1 ATCTTATCTCTATGTATCGGCTATGGAGCAGATCGAAGATAGCGA
*
93673969 ATCTTATCTCTAAGTATCGGCTATGGAGCAGATCGAAGATAGCGA
1 ATCTTATCTCTATGTATCGGCTATGGAGCAGATCGAAGATAGCGA
* * *
93674014 GTCTTATCTCTATGTATCAGCTATAGAGCAGAT
1 ATCTTATCTCTATGTATCGGCTATGGAGCAGAT
93674047 TTTAGCCACC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (45 bp):
ATCTTATCTCTATGTATCGGCTATGGAGCAGATCGAAGATAGCGA
Found at i:93677768 original size:93 final size:93
Alignment explanation
Indices: 93677659--93677830 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
93677649 GCCCATAAGT
* * * *
93677659 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCAA
93677724 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
93677752 GAACTCAGACTCAACTCAACGAGTTCGGACGCTCTCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
93677817 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
93677831 CAAATATCCC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:93677819 original size:46 final size:46
Alignment explanation
Indices: 93677651--93677826 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
93677641 TGTAACCCGC
* * * *
93677651 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCTCAT
* *
93677697 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATGC-CT-AGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCTCA--T
* *** * *
93677743 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACGCTCTCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCTCAT
* *
93677790 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
93677827 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 67 0.64
47 33 0.31
48 2 0.02
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCTCAT
Found at i:93684600 original size:20 final size:21
Alignment explanation
Indices: 93684573--93684616 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
93684563 TGTTAGGTTA
*
93684573 TTTTTAAA-ATTA-TTTTATT
1 TTTTTAAACATGATTTTTATT
93684592 TTTTATAAACATGATTTTTATT
1 TTTT-TAAACATGATTTTTATT
93684614 TTT
1 TTT
93684617 ATTTTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 4 0.19
21 3 0.14
22 10 0.48
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTTAAACATGATTTTTATT
Found at i:93691412 original size:30 final size:31
Alignment explanation
Indices: 93691378--93691455 Score: 81
Period size: 30 Copynumber: 2.5 Consensus size: 31
93691368 AGTGAAAGTG
93691378 AAAAATAATAAATAATAATAACT-TAGTATA-
1 AAAAATAATAAATAATAA-AACTATAGTATAT
* ** *
93691408 AAAAATATTCGATAA-AAAACTATGGTATAT
1 AAAAATAATAAATAATAAAACTATAGTATAT
93691438 AAAAATAATAAAATAATA
1 AAAAATAAT-AAATAATA
93691456 TAGTAGGTCT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
28 4 0.11
29 8 0.22
30 20 0.54
31 4 0.11
32 1 0.03
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (31 bp):
AAAAATAATAAATAATAAAACTATAGTATAT
Found at i:93691900 original size:15 final size:14
Alignment explanation
Indices: 93691880--93691927 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
93691870 TGAAAATGGT
93691880 ATAATAAGTATAAAA
1 ATAATAA-TATAAAA
*
93691895 ATAAT-ATACAAAA
1 ATAATAATATAAAA
93691908 A-AATAATATAATAA
1 ATAATAATATAA-AA
93691922 ATAATA
1 ATAATA
93691928 GGAAAATCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 3 0.11
13 12 0.43
14 4 0.14
15 9 0.32
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (14 bp):
ATAATAATATAAAA
Found at i:93691973 original size:22 final size:23
Alignment explanation
Indices: 93691945--93691992 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
93691935 CGCTAAAATG
93691945 ATAGTAAAAATAAATAAATAA-A
1 ATAGTAAAAATAAATAAATAATA
* * *
93691967 ATAGTAATAATAGATTAATAATA
1 ATAGTAAAAATAAATAAATAATA
93691990 ATA
1 ATA
93691993 ATATAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (23 bp):
ATAGTAAAAATAAATAAATAATA
Found at i:93693326 original size:46 final size:46
Alignment explanation
Indices: 93693260--93693356 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 46
93693250 AGTGGGGTGG
* * * *
93693260 GATCTGCTGAAATCTGATCTGCTCCGCTCCTGTTCAGTGAAGATAA
1 GATCTACTGAAATCTGATCTGCTCCACTCCTGCTCAGTAAAGATAA
* * * *
93693306 GATCTACTGTAATTTGATCTGCTTCACTCCTGCTCAGTAAAGATGA
1 GATCTACTGAAATCTGATCTGCTCCACTCCTGCTCAGTAAAGATAA
93693352 GATCT
1 GATCT
93693357 GGTATGTTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (46 bp):
GATCTACTGAAATCTGATCTGCTCCACTCCTGCTCAGTAAAGATAA
Found at i:93693518 original size:135 final size:135
Alignment explanation
Indices: 93693316--93693673 Score: 495
Period size: 135 Copynumber: 2.7 Consensus size: 135
93693306 GATCTACTGT
* * * *
93693316 AATTTGATCTGCTTCACTCCTGCTCAGTAAAGATGAGATCTGGTATGTTTAGCCTGTTTCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
* * * *
93693381 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGTTCCATTGCCGATACATGGAGATAAGACTC
66 TGCTCAGTGAAGATAAGGCTGATGACTGAAATCTGCTCCATCGCCGATACATGGAGATAAGACTC
93693446 GCCAA
131 GCCAA
* *
93693451 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAGCCTACTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
* * * * * * *
93693516 TGCTCAGTGAAGATAAGGTTGATGATTGGAATCTGCTCCATCGTCGGTACGTGGAGATAAGATTC
66 TGCTCAGTGAAGATAAGGCTGATGACTGAAATCTGCTCCATCGCCGATACATGGAGATAAGACTC
*
93693581 TCCAA
131 GCCAA
* * *
93693586 AATTCGATCTGCTTCACTCCTGCCCAGTGAAGATAAGATCTGGTA--TTTATCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
* *
93693649 TGCCCAGTGAAGATAAGGCTAATGA
66 TGCTCAGTGAAGATAAGGCTGATGA
93693674 TATCTGTAAT
Statistics
Matches: 197, Mismatches: 26, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
133 38 0.19
135 159 0.81
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (135 bp):
AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
TGCTCAGTGAAGATAAGGCTGATGACTGAAATCTGCTCCATCGCCGATACATGGAGATAAGACTC
GCCAA
Found at i:93693620 original size:46 final size:43
Alignment explanation
Indices: 93693570--93693665 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 43
93693560 CGGTACGTGG
*
93693570 AGATAAGATTCTCCAAAATTCGAT-CTGCTTCACTCCTGCCCAGTGA
1 AGATAAGA-TCT--AAAATT-GATCCTGCTCCACTCCTGCCCAGTGA
*** *
93693616 AGATAAGATCTGGTATTTATCCTGCTCCACTCCTGCCCAGTGA
1 AGATAAGATCTAAAATTGATCCTGCTCCACTCCTGCCCAGTGA
93693659 AGATAAG
1 AGATAAG
93693666 GCTAATGATA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
42 2 0.05
43 31 0.70
45 3 0.07
46 8 0.18
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
AGATAAGATCTAAAATTGATCCTGCTCCACTCCTGCCCAGTGA
Found at i:93700947 original size:43 final size:42
Alignment explanation
Indices: 93700886--93700980 Score: 156
Period size: 43 Copynumber: 2.2 Consensus size: 42
93700876 AGATGGCGCT
93700886 GCTAAAGGTCGAGACCTTTAGCGGCGCTTTTC-CAACAAACGCC
1 GCTAAAGGTCGAGACCTTTAGCGGCGCTTTTCTC-AC-AACGCC
*
93700929 GCTAAAGGTCGGGACCTTTAGCGGCGCTTTTCTCACAACGCC
1 GCTAAAGGTCGAGACCTTTAGCGGCGCTTTTCTCACAACGCC
93700971 GCTAAAGGTC
1 GCTAAAGGTC
93700981 ATAAAAATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
42 16 0.32
43 33 0.66
44 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (42 bp):
GCTAAAGGTCGAGACCTTTAGCGGCGCTTTTCTCACAACGCC
Found at i:93706086 original size:21 final size:21
Alignment explanation
Indices: 93706030--93706087 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
93706020 ATCTAAACCC
*
93706030 TAAACCTCTTAACTCCTATCCTA
1 TAAACC-CTTAAC-CCTAACCTA
* *
93706053 TAAACACTAAACCCTAACCTA
1 TAAACCCTTAACCCTAACCTA
*
93706074 TTAACCCTTAACCC
1 TAAACCCTTAACCC
93706088 CAAACCCTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
21 19 0.66
22 5 0.17
23 5 0.17
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAACCCTTAACCCTAACCTA
Found at i:93706103 original size:21 final size:20
Alignment explanation
Indices: 93706075--93706128 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
93706065 CCTAACCTAT
93706075 TAAC-CCTTAACCCCAAACCC
1 TAACACCTTAACCCC-AACCC
* *
93706095 TTACACCTTAAACTCCAACCC
1 TAACACCTT-AACCCCAACCC
*
93706116 TAACACCTAAACC
1 TAACACCTTAACC
93706129 TTAAATCATA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 6 0.22
21 16 0.59
22 5 0.19
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.19
Consensus pattern (20 bp):
TAACACCTTAACCCCAACCC
Found at i:93706219 original size:21 final size:21
Alignment explanation
Indices: 93706193--93706277 Score: 80
Period size: 21 Copynumber: 3.9 Consensus size: 21
93706183 ACTCTTAAAC
*
93706193 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* *
93706214 CTTAAACCATAGTTAACTTATAAAT
1 CTTAAACCATA---AAC-CATATAT
* *
93706239 CATAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
*
93706260 ATTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
93706278 AACTATAATG
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
21 30 0.60
22 3 0.06
24 3 0.06
25 14 0.28
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.28
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:93706229 original size:46 final size:46
Alignment explanation
Indices: 93706177--93706270 Score: 145
Period size: 46 Copynumber: 2.0 Consensus size: 46
93706167 CTTCAAATAC
* *
93706177 TAGTTAACTCT-TAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACT-TATAAACCATAAACCCTAAACCATATATATTAAACCA
*
93706223 TAGTTAACTTATAAATCATAAACCCTAAACCATATATATTAAACCA
1 TAGTTAACTTATAAACCATAAACCCTAAACCATATATATTAAACCA
93706269 TA
1 TA
93706271 AACCATAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 1 0.02
46 43 0.98
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (46 bp):
TAGTTAACTTATAAACCATAAACCCTAAACCATATATATTAAACCA
Found at i:93706487 original size:41 final size:40
Alignment explanation
Indices: 93706442--93706621 Score: 198
Period size: 41 Copynumber: 4.4 Consensus size: 40
93706432 GTTATATGAC
* *
93706442 TTTTAGCAGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCT-AT
93706483 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTAT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTAT
* * * *
93706523 TTTTCGCGGTGTTTTTACCAAAAACGCCGCTATTGCTCTAT
1 TTTTAGCGGCGTTTTT-CCAAAAGCGCCGCTAATGCTCTAT
* ** ** * *
93706564 TTTTCGCGGCGTTTTTTGGTAAAAATGCTGCTATTGCTCTAT
1 TTTTAGCGGCG-TTTTT-CCAAAAGCGCCGCTAATGCTCTAT
*
93706606 TTTTAGTGGCGTTTTT
1 TTTTAGCGGCGTTTTT
93706622 GGTAAAACGC
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 15 0.12
41 74 0.60
42 34 0.28
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTAT
Found at i:93706597 original size:42 final size:41
Alignment explanation
Indices: 93706460--93706641 Score: 188
Period size: 41 Copynumber: 4.4 Consensus size: 41
93706450 GCGTTTTTCC
* * * * **
93706460 AAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTT-CC
1 AAAAACGCCGCTATTGCTCT-ATTTTTCGCGGCGTTTTTGGT
* * * ***
93706501 AAAAGCGCCGCTAATGCTCTATTTTTCGCGGTGTTTTTACC
1 AAAAACGCCGCTATTGCTCTATTTTTCGCGGCGTTTTTGGT
93706542 AAAAACGCCGCTATTGCTCTATTTTTCGCGGCGTTTTTTGGT
1 AAAAACGCCGCTATTGCTCTATTTTTCGCGGCG-TTTTTGGT
* * * *
93706584 AAAAATGCTGCTATTGCTCTATTTTTAGTGGCGTTTTTGGT
1 AAAAACGCCGCTATTGCTCTATTTTTCGCGGCGTTTTTGGT
93706625 -AAAACGCCGCTATTGCT
1 AAAAACGCCGCTATTGCT
93706642 ATGTGTTTTA
Statistics
Matches: 124, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
40 30 0.24
41 60 0.48
42 34 0.27
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
AAAAACGCCGCTATTGCTCTATTTTTCGCGGCGTTTTTGGT
Found at i:93706690 original size:12 final size:12
Alignment explanation
Indices: 93706675--93706712 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
93706665 GTTTTTTAAT
93706675 AAAACGCCGCTA
1 AAAACGCCGCTA
*
93706687 AAAACACCGCTA
1 AAAACGCCGCTA
93706699 AAAACGCCGCTA
1 AAAACGCCGCTA
93706711 AA
1 AA
93706713 GATCTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.47, C:0.32, G:0.13, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:93707412 original size:21 final size:21
Alignment explanation
Indices: 93707386--93707430 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
93707376 GCTGGCTCAT
*
93707386 CATGTTGTTCTGTGACTCCAG
1 CATGTTGTTCTGGGACTCCAG
*
93707407 CATGTTTTTCTGGGACTCCAG
1 CATGTTGTTCTGGGACTCCAG
93707428 CAT
1 CAT
93707431 TTGATCCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (21 bp):
CATGTTGTTCTGGGACTCCAG
Found at i:93712092 original size:15 final size:14
Alignment explanation
Indices: 93712044--93712117 Score: 59
Period size: 13 Copynumber: 5.3 Consensus size: 14
93712034 ATTAAATGAA
93712044 AATAA-ATAAAAAT
1 AATAATATAAAAAT
93712057 AATAATGA-AAATGATAT
1 AATAAT-ATAAA--A-AT
93712074 AATAAGTATAAAAAT
1 AATAA-TATAAAAAT
93712089 AAT-ATATAAAAAT
1 AATAATATAAAAAT
*
93712102 AAT-ATA-ATAAAT
1 AATAATATAAAAAT
93712114 AATA
1 AATA
93712118 GGAAAATCGC
Statistics
Matches: 52, Mismatches: 1, Indels: 16
0.75 0.01 0.23
Matches are distributed among these distances:
12 8 0.15
13 20 0.38
14 4 0.08
15 6 0.12
16 2 0.04
17 8 0.15
18 4 0.08
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (14 bp):
AATAATATAAAAAT
Found at i:93712098 original size:13 final size:13
Alignment explanation
Indices: 93712080--93712117 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
93712070 ATATAATAAG
93712080 TATAAAAATAATA
1 TATAAAAATAATA
93712093 TATAAAAATAATA
1 TATAAAAATAATA
*
93712106 TA-ATAAATAATA
1 TATAAAAATAATA
93712118 GGAAAATCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TATAAAAATAATA
Found at i:93712099 original size:12 final size:11
Alignment explanation
Indices: 93712042--93712117 Score: 61
Period size: 12 Copynumber: 6.8 Consensus size: 11
93712032 AAATTAAATG
93712042 AAAATAA-ATA
1 AAAATAATATA
*
93712052 AAAATAATAATG
1 AAAATAAT-ATA
*
93712064 AAAATGATAT-
1 AAAATAATATA
93712074 --AATAAGTATA
1 AAAATAA-TATA
93712084 AAAATAATATATA
1 AAAAT-A-ATATA
93712097 AAAATAATATA
1 AAAATAATATA
93712108 ATAAATAATA
1 A-AAATAATA
93712118 GGAAAATCGC
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
8 4 0.07
9 3 0.06
10 7 0.13
11 8 0.15
12 21 0.39
13 10 0.19
14 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (11 bp):
AAAATAATATA
Found at i:93712107 original size:33 final size:32
Alignment explanation
Indices: 93712049--93712111 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
93712039 ATGAAAATAA
* *
93712049 ATAAAAATAATAATGAAAATGATATAATAAGT
1 ATAAAAATAATAATAAAAATAATATAATAAGT
93712081 ATAAAAATAATATATAAAAATAATATAATAA
1 ATAAAAATAATA-ATAAAAATAATATAATAA
93712112 ATAATAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (32 bp):
ATAAAAATAATAATAAAAATAATATAATAAGT
Found at i:93716349 original size:19 final size:20
Alignment explanation
Indices: 93716325--93716366 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
93716315 TATAAATAAA
*
93716325 ATAATAAATATGTA-ATTAT
1 ATAATAAAAATGTATATTAT
93716344 ATAATAAAAATGTATATTAT
1 ATAATAAAAATGTATATTAT
93716364 ATA
1 ATA
93716367 TATCATTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
ATAATAAAAATGTATATTAT
Found at i:93719729 original size:25 final size:24
Alignment explanation
Indices: 93719701--93719757 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
93719691 ATAAAAAAGG
*
93719701 TTTAAAATAGATACTAAAAAAACAA
1 TTTAAAATAAATACT-AAAAAACAA
* * *
93719726 TTTAAAGTAAATAGTATAAAACAA
1 TTTAAAATAAATACTAAAAAACAA
93719750 TTTAAAAT
1 TTTAAAAT
93719758 CATTAATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 15 0.56
25 12 0.44
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (24 bp):
TTTAAAATAAATACTAAAAAACAA
Found at i:93719767 original size:24 final size:24
Alignment explanation
Indices: 93719672--93719768 Score: 68
Period size: 24 Copynumber: 3.9 Consensus size: 24
93719662 AATCAACGAT
* * *
93719672 AATTTTAAATGAATAATATATAAAA
1 AATTTAAAATAAATAATATA-AAAC
* * *
93719697 AAGGTTTAAAATAGATACTAAAAAAAC
1 AA--TTTAAAATAAATAAT-ATAAAAC
* *
93719724 AATTTAAAGTAAATAGTATAAAAC
1 AATTTAAAATAAATAATATAAAAC
* *
93719748 AATTTAAAATCATTAATATAA
1 AATTTAAAATAAATAATATAA
93719769 TATGTGAAAA
Statistics
Matches: 55, Mismatches: 14, Indels: 7
0.72 0.18 0.09
Matches are distributed among these distances:
24 23 0.42
25 14 0.25
27 16 0.29
28 2 0.04
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (24 bp):
AATTTAAAATAAATAATATAAAAC
Found at i:93719821 original size:30 final size:31
Alignment explanation
Indices: 93719762--93719844 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 31
93719752 TAAAATCATT
* * * *
93719762 AATATAATATGTGAAAAATAAAT-TTTAAAAT
1 AATATAATATAT-AAAAATATATGTATAAAAC
93719793 AA-ATAATATATAAAAATATATGTATAAAAC
1 AATATAATATATAAAAATATATGTATAAAAC
* *
93719823 AATTTAATATA-AATAATATATG
1 AATATAATATATAAAAATATATG
93719845 AAATCTTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 9 0.20
30 26 0.59
31 9 0.20
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (31 bp):
AATATAATATATAAAAATATATGTATAAAAC
Found at i:93719905 original size:19 final size:21
Alignment explanation
Indices: 93719856--93719898 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
93719846 AATCTTAAAG
93719856 TAAAT-AATAATAAAAAGGAT
1 TAAATAAATAATAAAAAGGAT
93719876 TACAATAAATAATAAAAAGGAT
1 TA-AATAAATAATAAAAAGGAT
93719898 T
1 T
93719899 TAAAATAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 3 0.14
22 16 0.76
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (21 bp):
TAAATAAATAATAAAAAGGAT
Found at i:93720049 original size:26 final size:26
Alignment explanation
Indices: 93719944--93720062 Score: 98
Period size: 26 Copynumber: 4.5 Consensus size: 26
93719934 AACATATAAG
93719944 AAATAAATAATATATATACGAAATGGTTTA
1 AAATAAATAATATATATA--AAA--GTTTA
*** *
93719974 AAATAAA-AAGGGATATAAAAATTTCA
1 AAATAAATAATATATATAAAAGTTT-A
* * *
93720000 AAATAAATAATATGTATGATAGTTTA
1 AAATAAATAATATATATAAAAGTTTA
*
93720026 GAATAAATAATATATATAAAAG-TTA
1 AAATAAATAATATATATAAAAGTTTA
*
93720051 AAATGAATAATA
1 AAATAAATAATA
93720063 GTTTAAAATA
Statistics
Matches: 70, Mismatches: 17, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
25 16 0.23
26 27 0.39
27 13 0.19
29 7 0.10
30 7 0.10
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (26 bp):
AAATAAATAATATATATAAAAGTTTA
Found at i:93720077 original size:17 final size:16
Alignment explanation
Indices: 93720037--93720079 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
93720027 AATAAATAAT
*
93720037 ATATATAAAAGTTAAA
1 ATATATAATAGTTAAA
93720053 ATGA-ATAATAGTTTAAA
1 AT-ATATAATAG-TTAAA
93720070 ATATATAATA
1 ATATATAATA
93720080 TGTAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (16 bp):
ATATATAATAGTTAAA
Found at i:93720102 original size:42 final size:42
Alignment explanation
Indices: 93720018--93720157 Score: 109
Period size: 42 Copynumber: 3.1 Consensus size: 42
93720008 AATATGTATG
* * * *
93720018 ATAGTTTAGAATAAATAATATATATAAAAGTTAAAATGAATA
1 ATAGTTTAAAATAAATAATATATAAAAAAATTAAAATAAATA
* *
93720060 ATAGTTTAAAATATATAATATGTAAAAAAATTAAATTAAATAACGATA
1 ATAGTTTAAAATAAATAATATATAAAAAAATT--A--AAATAA--ATA
* *
93720108 AAACGATTTAAAATAAATAATATAAGAAAACAAACTTAAAATAAATA
1 ATA-G-TTTAAAATAAATAATAT-ATAAAA-AAA-TTAAAATAAATA
93720155 ATA
1 ATA
93720158 AGACAGTTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
42 27 0.36
44 1 0.01
46 5 0.07
47 5 0.07
48 5 0.07
49 7 0.09
50 16 0.21
51 5 0.07
52 3 0.04
53 2 0.03
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (42 bp):
ATAGTTTAAAATAAATAATATATAAAAAAATTAAAATAAATA
Found at i:93728413 original size:12 final size:12
Alignment explanation
Indices: 93728382--93728436 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
93728372 TCTCTCAAAC
93728382 TCTTTTTC-ATT
1 TCTTTTTCAATT
*
93728393 CTCTGTTTCAATT
1 -TCTTTTTCAATT
93728406 TCTTTTTCAATT
1 TCTTTTTCAATT
* * *
93728418 TCATTTTCACTC
1 TCTTTTTCAATT
93728430 TCTTTTT
1 TCTTTTT
93728437 GTTCTTTTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
12 33 0.92
13 3 0.08
ACGTcount: A:0.13, C:0.22, G:0.02, T:0.64
Consensus pattern (12 bp):
TCTTTTTCAATT
Found at i:93729481 original size:12 final size:12
Alignment explanation
Indices: 93729464--93729492 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
93729454 TTTAACACAC
93729464 TTTTTTGAATTT
1 TTTTTTGAATTT
93729476 TTTTTTGAATTT
1 TTTTTTGAATTT
93729488 TTTTT
1 TTTTT
93729493 ACTTACGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (12 bp):
TTTTTTGAATTT
Found at i:93736463 original size:13 final size:13
Alignment explanation
Indices: 93736445--93736491 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
93736435 ATGTAAAAAT
93736445 AATTTAAAATATA
1 AATTTAAAATATA
* *
93736458 AATTTATTAATAAA
1 AATTTA-AAATATA
93736472 CAATTTAAAATATA
1 -AATTTAAAATATA
93736486 AATTTA
1 AATTTA
93736492 TTAACAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 12 0.43
14 10 0.36
15 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTTAAAATATA
Found at i:93736469 original size:24 final size:24
Alignment explanation
Indices: 93736442--93736500 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 24
93736432 TATATGTAAA
93736442 AATAATTTAAAATATAAATTTATT
1 AATAATTTAAAATATAAATTTATT
93736466 AATAAACAATTTAAAATATAAATTTATT
1 AAT----AATTTAAAATATAAATTTATT
*
93736494 AACAATT
1 AATAATT
93736501 GAGTATTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
24 7 0.23
28 23 0.77
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (24 bp):
AATAATTTAAAATATAAATTTATT
Found at i:93736638 original size:15 final size:14
Alignment explanation
Indices: 93736608--93736645 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
93736598 CCAGAAAAGT
*
93736608 AAATCATTTTTCAA
1 AAATTATTTTTCAA
93736622 AAATTATTTTTCAA
1 AAATTATTTTTCAA
*
93736636 AAAATATTTT
1 AAATTATTTT
93736646 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:93739184 original size:27 final size:23
Alignment explanation
Indices: 93739128--93739171 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
93739118 ATATACATAC
93739128 TTATCTTATCATTATAAAAGTAGA
1 TTAT-TTATCATTATAAAAGTAGA
93739152 -TA-TTATCATTATAAAAGTAG
1 TTATTTATCATTATAAAAGTAG
93739172 CGAATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 18 0.90
23 2 0.10
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (23 bp):
TTATTTATCATTATAAAAGTAGA
Found at i:93741233 original size:7 final size:7
Alignment explanation
Indices: 93741221--93741253 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
93741211 ACCATCCCAA
93741221 TATTTTT
1 TATTTTT
93741228 TATTTTT
1 TATTTTT
93741235 TATTTTT
1 TATTTTT
93741242 TATTTTT
1 TATTTTT
93741249 TATTT
1 TATTT
93741254 ATGCTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:93741360 original size:23 final size:24
Alignment explanation
Indices: 93741315--93741372 Score: 93
Period size: 23 Copynumber: 2.5 Consensus size: 24
93741305 AATATAAACA
93741315 AAGAGAAAGTACTATTTTTTGTGT
1 AAGAGAAAGTACTATTTTTTGTGT
93741339 AAGAGAAAGTACTA-TTTTTGTGT
1 AAGAGAAAGTACTATTTTTTGTGT
93741362 AAGCA-AAAGTA
1 AAG-AGAAAGTA
93741373 TACCTAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
23 18 0.55
24 15 0.45
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (24 bp):
AAGAGAAAGTACTATTTTTTGTGT
Found at i:93744475 original size:24 final size:25
Alignment explanation
Indices: 93744435--93744485 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
93744425 ATTCATTTAT
93744435 TTATTTTAAAATATTTTATTAT-ATG
1 TTATTTTAAAATATTTTA-TATGATG
93744460 TTATTTT-AAATATTTTATATGATG
1 TTATTTTAAAATATTTTATATGATG
93744484 TT
1 TT
93744486 TACGTTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 3 0.12
24 15 0.60
25 7 0.28
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (25 bp):
TTATTTTAAAATATTTTATATGATG
Found at i:93749262 original size:6 final size:6
Alignment explanation
Indices: 93749240--93749279 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
93749230 CCTTTCATTA
*
93749240 TTTATT TATTCTT TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT T-TTATT TTTATT TTTATT TTTATT TTTATT TTT
93749280 GGGTTGAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:93752920 original size:4 final size:4
Alignment explanation
Indices: 93752906--93752940 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
93752896 TTTAAATTTA
*
93752906 AATT AATTT AATT AATA AATT AATT AATT AATT AA
1 AATT AA-TT AATT AATT AATT AATT AATT AATT AA
93752941 AAATTATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:93753000 original size:23 final size:23
Alignment explanation
Indices: 93752945--93753000 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
93752935 AATTAAAAAT
93752945 TATTCTAAAATATTTAAAATTTAA
1 TATT-TAAAATATTTAAAATTTAA
* * *
93752969 TAATAAAAATTTTTAAACA-TTAA
1 TATTTAAAATATTTAAA-ATTTAA
93752992 TATTTAAAA
1 TATTTAAAA
93753001 AGATTACTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TATTTAAAATATTTAAAATTTAA
Found at i:93753283 original size:16 final size:17
Alignment explanation
Indices: 93753264--93753301 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
93753254 AAACACTCTC
93753264 GTAATAATA-AAACTTT
1 GTAATAATATAAACTTT
93753280 GTAA-AATATAAACTTT
1 GTAATAATATAAACTTT
93753296 G-AATAA
1 GTAATAA
93753302 CTTCCAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (17 bp):
GTAATAATATAAACTTT
Found at i:93754551 original size:16 final size:16
Alignment explanation
Indices: 93754527--93754557 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
93754517 TAAATTATGT
*
93754527 ATATTAAAATAAAAAC
1 ATATAAAAATAAAAAC
93754543 ATATAAAAATAAAAA
1 ATATAAAAATAAAAA
93754558 TGAAGTTTTG
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:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
ATATAAAAATAAAAAC
Found at i:93759274 original size:11 final size:11
Alignment explanation
Indices: 93759258--93759286 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
93759248 AAAAAATTGG
93759258 ATGATGACATT
1 ATGATGACATT
93759269 ATGATGACATT
1 ATGATGACATT
93759280 ATGATGA
1 ATGATGA
93759287 TTTGATCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (11 bp):
ATGATGACATT
Found at i:93764420 original size:3 final size:3
Alignment explanation
Indices: 93764412--93764452 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
93764402 GATAATAGAA
93764412 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
93764453 ATTAATAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:93764565 original size:3 final size:3
Alignment explanation
Indices: 93764552--93764903 Score: 127
Period size: 3 Copynumber: 116.3 Consensus size: 3
93764542 ATAGGTAAAA
* * * *
93764552 AAT ATAT AAT AAT AAT AAT AAT -AT AAT AGT AAT AAT AAT TAC AAA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
93764597 AAT GAT AAT AA- AAT AA- AAT GAT AAT AAG AAT AAT AAT AAT AA- AGCA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT
* * ** *
93764643 AAG AAT AATT AA- AAT GAT ACCGG AAT AAT GAA- AAT AAT ACCTT AAT
1 AAT AAT AA-T AAT AAT AAT A--AT AAT AAT -AAT AAT AAT A--AT AAT
* * ** * * * *
93764689 AAC AAT GAT -AT GGT AAT AAT AAT AGT AAT AGAG AAC AAC AAT ACATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT A-A-T
* *
93764736 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATGT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * * **
93764782 AAGG GA- AAT AAT AAT -AT AGT AA- AAT AAT AAT AAT -AT GTT AAT
1 AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
93764824 AAG AGT AAT AGT AGT AGT AAT AAT AGTT AAT GAT AAT AAA AAT ACAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT A-AT
* * *
93764871 AAT AAT AGT AA- AAC AAT AAT AGT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
93764904 TATTAAATTG
Statistics
Matches: 260, Mismatches: 61, Indels: 56
0.69 0.16 0.15
Matches are distributed among these distances:
2 23 0.09
3 210 0.81
4 22 0.08
5 5 0.02
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:93764690 original size:20 final size:20
Alignment explanation
Indices: 93764645--93764683 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
93764635 ATAAAGCAAA
* *
93764645 GAATAATTAAAATGATACCG
1 GAATAATGAAAATAATACCG
93764665 GAATAATGAAAATAATACC
1 GAATAATGAAAATAATACC
93764684 TTAATAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.23
Consensus pattern (20 bp):
GAATAATGAAAATAATACCG
Found at i:93778388 original size:127 final size:127
Alignment explanation
Indices: 93778248--93778574 Score: 439
Period size: 127 Copynumber: 2.6 Consensus size: 127
93778238 AACGAAAAAC
93778248 CGAAACCCAGCACGGTAGGGCACGATTCCTCG-ATCTTCCAAACATTGAACATTGCCTTG-CTTA
1 CGAAACCCAGCACGGTAGGGCACGATTCC-CGAAT-TTCCAAACATTGAACATTGCCTTGTCTTA
* *
93778311 GAAATTTATAAAACATGAGTGAAATAT-TAAAGGAACATTC-AATTATTTGGAACAAACCGGAAA
64 GAAATTTAGAAAACACGAGTGAAAT-TCTAAAGGAACATTCGAA-TATTTGGAACAAACCGGAAA
93778374 T
127 T
* * *
93778375 CGAAACCCCGCACGATAGGGCACGATTCCCCGAATTTCCAAACATTGAACATTGCCTTGTTTTAG
1 CGAAACCCAGCACGGTAGGGCACGATT-CCCGAATTTCCAAACATTGAACATTGCCTTGTCTTAG
* * * *
93778440 -AATTTGGAAAACACGAGTGAAATTCTAAAGGAATATTCGAATATTTTGAACAAACGGGAAAT
65 AAATTTAGAAAACACGAGTGAAATTCTAAAGGAACATTCGAATATTTGGAACAAACCGGAAAT
* **
93778502 CGAAACCCAGCACGGTAGGGCACGACTTCCCGAATTTCCAAGCATCAAACATTGCCTTCGTCTTA
1 CGAAACCCAGCACGGTAGGGCACGA-TTCCCGAATTTCCAAACATTGAACATTGCCTT-GTCTT-
93778567 AGAAATTT
63 AGAAATTT
93778575 TCAAACGAAT
Statistics
Matches: 176, Mismatches: 15, Indels: 15
0.85 0.07 0.07
Matches are distributed among these distances:
126 1 0.01
127 152 0.86
128 16 0.09
129 2 0.01
130 5 0.03
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (127 bp):
CGAAACCCAGCACGGTAGGGCACGATTCCCGAATTTCCAAACATTGAACATTGCCTTGTCTTAGA
AATTTAGAAAACACGAGTGAAATTCTAAAGGAACATTCGAATATTTGGAACAAACCGGAAAT
Done.