Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168174.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_412, whole genome shotgun sequence
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: 27923
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Found at i:3278 original size:23 final size:23
Alignment explanation
Indices: 3252--3297 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
3242 GTTCCTCCCC
3252 CAAGTAATAAGATAAATGATTGG
1 CAAGTAATAAGATAAATGATTGG
3275 CAAGTAATAAGATAAATGATTGG
1 CAAGTAATAAGATAAATGATTGG
3298 TTACAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.22, T:0.26
Consensus pattern (23 bp):
CAAGTAATAAGATAAATGATTGG
Found at i:5251 original size:6 final size:6
Alignment explanation
Indices: 5240--5297 Score: 77
Period size: 6 Copynumber: 10.0 Consensus size: 6
5230 GATCTTGAAA
5240 TTATAT TTATAT TTATA- -T-TAT TTATAT TTATAT TTATAT TTATAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
*
5285 ATATTAT TTATAT
1 TTA-TAT TTATAT
5298 AATTATATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
3 2 0.04
4 1 0.02
5 1 0.02
6 37 0.80
7 5 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTATAT
Found at i:5266 original size:21 final size:21
Alignment explanation
Indices: 5240--5306 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
5230 GATCTTGAAA
5240 TTATATTTATATTTATATTAT
1 TTATATTTATATTTATATTAT
5261 TTATATTTATATTTATATT-T
1 TTATATTTATATTTATATTAT
* * *
5281 ATATATAT-TATTTATATAAT
1 TTATATTTATATTTATATTAT
5301 TATATA
1 T-TATA
5307 ATAATGGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.22
20 8 0.20
21 23 0.57
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATATTTATATTTATATTAT
Found at i:5298 original size:27 final size:27
Alignment explanation
Indices: 5240--5297 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
5230 GATCTTGAAA
5240 TTATATTTATATTTATATTATTTATAT
1 TTATATTTATATTTATATTATTTATAT
*
5267 TTATATTTATATTTATA-TATAT-TAT
1 TTATATTTATATTTATATTATTTATAT
5292 TTATAT
1 TTATAT
5298 AATTATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 9 0.30
26 4 0.13
27 17 0.57
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
TTATATTTATATTTATATTATTTATAT
Found at i:5303 original size:27 final size:29
Alignment explanation
Indices: 5238--5305 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 29
5228 GTGATCTTGA
5238 AATTATATTTATATTTATATTATTTATATTT
1 AATTATATTTATA-TTATATTATTTATA-TT
5269 ATATTTATATTTATA-TATATTATTTATA-T
1 A-A-TTATATTTATATTATATTATTTATATT
5298 AATTATAT
1 AATTATAT
5306 AATAATGGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
27 6 0.17
28 1 0.03
29 2 0.06
31 14 0.40
32 1 0.03
33 11 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
AATTATATTTATATTATATTATTTATATT
Found at i:7778 original size:15 final size:15
Alignment explanation
Indices: 7758--7790 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
7748 CAAAGTGAAA
7758 TATAATATTACATAT
1 TATAATATTACATAT
7773 TATAATATTACATAT
1 TATAATATTACATAT
7788 TAT
1 TAT
7791 TAAGATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
TATAATATTACATAT
Found at i:7857 original size:78 final size:78
Alignment explanation
Indices: 7773--8034 Score: 301
Period size: 78 Copynumber: 3.2 Consensus size: 78
7763 TATTACATAT
7773 TATAATATTACATATTATTAAGATAAGACCATTATTACGTATTACATTACGTATTACGCTTCCAC
1 TATAATATTACATATTATTAAGATAAGACCATTATTACGTATTACATTACGTATTACGCTTCCAC
7838 AATCAAAGTGAAA
66 AATCAAAGTGAAA
* * ** * *
7851 TATAATATTACATATTA-TAATATTACATATTATTAAGATAAGACCATTATTACGTATTACATTA
1 TATAATATTACATATTATTAAGA-TA-AGACCATT---AT--TA-C-GTATTAC--A-----TTA
7915 CGTATTACGCTTCCACAATCAAAGTGAAA
50 CGTATTACGCTTCCACAATCAAAGTGAAA
7944 TATAATATTACATATTATTAAGATAAGACCATTATTACGTATTACATTACGTATTACGCTTCCAC
1 TATAATATTACATATTATTAAGATAAGACCATTATTACGTATTACATTACGTATTACGCTTCCAC
*
8009 AATCAAAGCGAAA
66 AATCAAAGTGAAA
*
8022 TATAATTTTACAT
1 TATAATATTACAT
8035 TCTTTTTACT
Statistics
Matches: 153, Mismatches: 14, Indels: 34
0.76 0.07 0.17
Matches are distributed among these distances:
77 4 0.03
78 62 0.41
79 5 0.03
82 2 0.01
83 1 0.01
84 1 0.01
85 7 0.05
86 7 0.05
87 1 0.01
88 1 0.01
89 2 0.01
92 5 0.03
93 51 0.33
94 4 0.03
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (78 bp):
TATAATATTACATATTATTAAGATAAGACCATTATTACGTATTACATTACGTATTACGCTTCCAC
AATCAAAGTGAAA
Found at i:7871 original size:15 final size:15
Alignment explanation
Indices: 7851--7883 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
7841 CAAAGTGAAA
7851 TATAATATTACATAT
1 TATAATATTACATAT
7866 TATAATATTACATAT
1 TATAATATTACATAT
7881 TAT
1 TAT
7884 TAAGATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
TATAATATTACATAT
Found at i:7992 original size:93 final size:93
Alignment explanation
Indices: 7685--7961 Score: 554
Period size: 93 Copynumber: 3.0 Consensus size: 93
7675 TTAAGACCAT
7685 TATTACATATTATTAAGATAAGACCATTATTACGTATTACATTACGTATTACGCTTCCACAATCA
1 TATTACATATTATTAAGATAAGACCATTATTACGTATTACATTACGTATTACGCTTCCACAATCA
7750 AAGTGAAATATAATATTACATATTATAA
66 AAGTGAAATATAATATTACATATTATAA
7778 TATTACATATTATTAAGATAAGACCATTATTACGTATTACATTACGTATTACGCTTCCACAATCA
1 TATTACATATTATTAAGATAAGACCATTATTACGTATTACATTACGTATTACGCTTCCACAATCA
7843 AAGTGAAATATAATATTACATATTATAA
66 AAGTGAAATATAATATTACATATTATAA
7871 TATTACATATTATTAAGATAAGACCATTATTACGTATTACATTACGTATTACGCTTCCACAATCA
1 TATTACATATTATTAAGATAAGACCATTATTACGTATTACATTACGTATTACGCTTCCACAATCA
7936 AAGTGAAATATAATATTACATATTAT
66 AAGTGAAATATAATATTACATATTAT
7962 TAAGATAAGA
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 184 1.00
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.37
Consensus pattern (93 bp):
TATTACATATTATTAAGATAAGACCATTATTACGTATTACATTACGTATTACGCTTCCACAATCA
AAGTGAAATATAATATTACATATTATAA
Found at i:9857 original size:18 final size:18
Alignment explanation
Indices: 9834--9871 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
9824 AGAGAATTCC
9834 ATTGTAAAGCCGTATGCA
1 ATTGTAAAGCCGTATGCA
9852 ATTGTAAAGCCGTATGCA
1 ATTGTAAAGCCGTATGCA
9870 AT
1 AT
9872 GCGCAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (18 bp):
ATTGTAAAGCCGTATGCA
Found at i:10212 original size:18 final size:18
Alignment explanation
Indices: 10189--10422 Score: 397
Period size: 18 Copynumber: 13.1 Consensus size: 18
10179 CAGAATCGAG
10189 ACCTATAGTGAATGAAAA
1 ACCTATAGTGAATGAAAA
10207 ACCTATAGTGAATGAAAA
1 ACCTATAGTGAATGAAAA
10225 ACCTATAGTGAATGAAAA
1 ACCTATAGTGAATGAAAA
10243 ACCTATAGTGAATGAAAA
1 ACCTATAGTGAATGAAAA
10261 ACCTATAGTGAAT-AACAA
1 ACCTATAGTGAATGAA-AA
10279 ACCTATAGTGAATGAAAA
1 ACCTATAGTGAATGAAAA
10297 ACCTATAGTGAATGAAAA
1 ACCTATAGTGAATGAAAA
10315 ACCTATAGTGAATGAAAA
1 ACCTATAGTGAATGAAAA
10333 ACCTATAGTGAATGAAAA
1 ACCTATAGTGAATGAAAA
10351 ACCTATAGTGAAT-AACAA
1 ACCTATAGTGAATGAA-AA
10369 ACCTATAGTGAAT-AACAA
1 ACCTATAGTGAATGAA-AA
10387 ACCTATAGTGAAT-AACAA
1 ACCTATAGTGAATGAA-AA
10405 ACCTATAGTGAAT-AAAA
1 ACCTATAGTGAATGAAAA
10422 A
1 A
10423 ATGGAGACTA
Statistics
Matches: 213, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
17 7 0.03
18 204 0.96
19 2 0.01
ACGTcount: A:0.50, C:0.13, G:0.15, T:0.22
Consensus pattern (18 bp):
ACCTATAGTGAATGAAAA
Found at i:10471 original size:30 final size:30
Alignment explanation
Indices: 10437--10776 Score: 680
Period size: 30 Copynumber: 11.3 Consensus size: 30
10427 AGACTAGTTA
10437 ACGACAATGGCAATGGAAGACCACCATTTG
1 ACGACAATGGCAATGGAAGACCACCATTTG
10467 ACGACAATGGCAATGGAAGACCACCATTTG
1 ACGACAATGGCAATGGAAGACCACCATTTG
10497 ACGACAATGGCAATGGAAGACCACCATTTG
1 ACGACAATGGCAATGGAAGACCACCATTTG
10527 ACGACAATGGCAATGGAAGACCACCATTTG
1 ACGACAATGGCAATGGAAGACCACCATTTG
10557 ACGACAATGGCAATGGAAGACCACCATTTG
1 ACGACAATGGCAATGGAAGACCACCATTTG
10587 ACGACAATGGCAATGGAAGACCACCATTTG
1 ACGACAATGGCAATGGAAGACCACCATTTG
10617 ACGACAATGGCAATGGAAGACCACCATTTG
1 ACGACAATGGCAATGGAAGACCACCATTTG
10647 ACGACAATGGCAATGGAAGACCACCATTTG
1 ACGACAATGGCAATGGAAGACCACCATTTG
10677 ACGACAATGGCAATGGAAGACCACCATTTG
1 ACGACAATGGCAATGGAAGACCACCATTTG
10707 ACGACAATGGCAATGGAAGACCACCATTTG
1 ACGACAATGGCAATGGAAGACCACCATTTG
10737 ACGACAATGGCAATGGAAGACCACCATTTG
1 ACGACAATGGCAATGGAAGACCACCATTTG
10767 ACGACAATGG
1 ACGACAATGG
10777 AACACCATTT
Statistics
Matches: 310, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 310 1.00
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (30 bp):
ACGACAATGGCAATGGAAGACCACCATTTG
Found at i:12912 original size:45 final size:44
Alignment explanation
Indices: 12866--12989 Score: 186
Period size: 45 Copynumber: 2.9 Consensus size: 44
12856 GTTTTTTTTA
* *
12866 TTATTGTATTA-TTTA-TTTATTATTTATTTCTTATTTATTTGT
1 TTATTTTATTAGTTTATTTTATTATTTATTTATTATTTATTTGT
12908 TTATTTTATTAGTTTATTTTAATTATTTATTTATTATTTATTTGT
1 TTATTTTATTAGTTTATTTT-ATTATTTATTTATTATTTATTTGT
12953 TTATTTTATTAGTTTATTTTATTA-TTA--TATTATTTAT
1 TTATTTTATTAGTTTATTTTATTATTTATTTATTATTTAT
12990 AGATATTTAT
Statistics
Matches: 77, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
41 10 0.13
42 10 0.13
43 7 0.09
44 7 0.09
45 43 0.56
ACGTcount: A:0.24, C:0.01, G:0.04, T:0.71
Consensus pattern (44 bp):
TTATTTTATTAGTTTATTTTATTATTTATTTATTATTTATTTGT
Found at i:12983 original size:13 final size:13
Alignment explanation
Indices: 12899--12976 Score: 82
Period size: 13 Copynumber: 6.5 Consensus size: 13
12889 TTATTTCTTA
*
12899 TTTATTTGTTTAT
1 TTTATTAGTTTAT
12912 TTTATTAGTTTAT
1 TTTATTAGTTTAT
12925 TTTAATTA-TTTA-
1 TTT-ATTAGTTTAT
12937 TTTATTA-TTTA-
1 TTTATTAGTTTAT
12948 --T-TT-GTTTAT
1 TTTATTAGTTTAT
12957 TTTATTAGTTTAT
1 TTTATTAGTTTAT
12970 TTTATTA
1 TTTATTA
12977 TTATATTATT
Statistics
Matches: 57, Mismatches: 1, Indels: 14
0.79 0.01 0.19
Matches are distributed among these distances:
8 6 0.11
9 1 0.02
11 9 0.16
12 5 0.09
13 32 0.56
14 4 0.07
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (13 bp):
TTTATTAGTTTAT
Found at i:13002 original size:4 final size:4
Alignment explanation
Indices: 12862--12989 Score: 85
Period size: 4 Copynumber: 32.2 Consensus size: 4
12852 CTTTGTTTTT
* *
12862 TTTA -TTA TTGTA -TTA TTTA TTTA -TTA TTTA TTT- CTTA TTTA TTTG
1 TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
12907 TTTA TTT- TATTA GTTTA TTTTA ATTA TTTA TTTA -TTA TTTA TTTG TTTA
1 TTTA TTTA T-TTA -TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
12956 TTT- TATTA GTTTA TTT- TATTA -TTA TATTA TTTA T
1 TTTA T-TTA -TTTA TTTA T-TTA TTTA T-TTA TTTA T
12990 AGATATTTAT
Statistics
Matches: 99, Mismatches: 9, Indels: 32
0.71 0.06 0.23
Matches are distributed among these distances:
3 19 0.19
4 62 0.63
5 16 0.16
6 2 0.02
ACGTcount: A:0.24, C:0.01, G:0.04, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:13040 original size:35 final size:35
Alignment explanation
Indices: 13001--13124 Score: 176
Period size: 35 Copynumber: 3.3 Consensus size: 35
12991 GATATTTATT
13001 TAAATATAATTTCATATTTTAATATATTTAATATA
1 TAAATATAATTTCATATTTTAATATATTTAATATA
13036 TAAATATAATTTCATATTTTAATATATTTAATATATAAAATA
1 TAAATATAATTTCATATTTTAATATA-TT--TA-AT---ATA
*
13078 TAAATATAATTTAATATTTTAATATATTTAATATA
1 TAAATATAATTTCATATTTTAATATATTTAATATA
13113 TAAATATAATTT
1 TAAATATAATTT
13125 AAATAAATAT
Statistics
Matches: 81, Mismatches: 1, Indels: 14
0.84 0.01 0.15
Matches are distributed among these distances:
35 41 0.51
36 2 0.02
38 4 0.05
39 4 0.05
41 2 0.02
42 28 0.35
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (35 bp):
TAAATATAATTTCATATTTTAATATATTTAATATA
Found at i:13095 original size:42 final size:42
Alignment explanation
Indices: 13014--13121 Score: 166
Period size: 42 Copynumber: 2.6 Consensus size: 42
13004 ATATAATTTC
* *
13014 ATAT-TTTAATATATTTAATATATAAATATAATTTCATATTTTA
1 ATATATTTAATATA--TAAAATATAAATATAATTTAATATTTTA
13057 ATATATTTAATATATAAAATATAAATATAATTTAATATTTTA
1 ATATATTTAATATATAAAATATAAATATAATTTAATATTTTA
13099 ATATATTTAATATAT-AAATATAA
1 ATATATTTAATATATAAAATATAA
13122 TTTAAATAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
41 8 0.13
42 41 0.66
43 4 0.06
44 9 0.15
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (42 bp):
ATATATTTAATATATAAAATATAAATATAATTTAATATTTTA
Found at i:13171 original size:77 final size:77
Alignment explanation
Indices: 13014--13171 Score: 187
Period size: 77 Copynumber: 2.1 Consensus size: 77
13004 ATATAATTTC
* * * *
13014 ATATTTTAATATATTTAATATATAAATATAATTTCATATTTTAATATATTTAATATATAAAATAT
1 ATATTTTAATATATTTAATATATAAATATAATTTCATATATAAATATATATAATATATAAAACAT
* *
13079 AAATATAATTTA
66 AAATATAAATAA
* * *
13091 ATATTTTAATATATTTAATATATAAATATAATTT-A-A-ATAAATATCTATAACTGTGATAATAC
1 ATATTTTAATATATTTAATATATAAATATAATTTCATATATAAATATATATAA-TAT-ATAAAAC
13153 ATAAATAATAAATAA
64 ATAAAT-ATAAATAA
13168 ATAT
1 ATAT
13172 AATTTATAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
74 10 0.14
75 3 0.04
76 12 0.17
77 44 0.64
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (77 bp):
ATATTTTAATATATTTAATATATAAATATAATTTCATATATAAATATATATAATATATAAAACAT
AAATATAAATAA
Found at i:13180 original size:17 final size:18
Alignment explanation
Indices: 13001--13189 Score: 79
Period size: 17 Copynumber: 10.4 Consensus size: 18
12991 GATATTTATT
* **
13001 TAAATATAATTTCATATT
1 TAAATATAATTTAATAAA
* *
13019 TTAATAT-ATTTAATATA
1 TAAATATAATTTAATAAA
*
13036 TAAATATAATTTCATATTTTAA
1 TAAATATAATTT-A-A--TAAA
* *
13058 TATATTTAATATATAA-AATA
1 TAAATATAAT-T-TAATAA-A
**
13078 TAAATATAATTTAATATT
1 TAAATATAATTTAATAAA
* *
13096 TTAATAT-ATTTAATATA
1 TAAATATAATTTAATAAA
13113 TAAATATAATTTAAATAAA
1 TAAATATAATTT-AATAAA
** * *
13132 TATCTATAACTGTGAT-AA
1 TAAATATAA-TTTAATAAA
*
13150 TACATA-AA--TAATAAA
1 TAAATATAATTTAATAAA
13165 TAAATATAATTT-ATAAA
1 TAAATATAATTTAATAAA
*
13182 TATATATA
1 TAAATATA
13190 GAACCGACAC
Statistics
Matches: 129, Mismatches: 26, Indels: 33
0.69 0.14 0.18
Matches are distributed among these distances:
14 3 0.02
15 7 0.05
16 2 0.02
17 43 0.33
18 30 0.23
19 18 0.14
20 12 0.09
22 11 0.09
23 2 0.02
24 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (18 bp):
TAAATATAATTTAATAAA
Found at i:13225 original size:19 final size:19
Alignment explanation
Indices: 13201--13282 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 19
13191 AACCGACACG
* *
13201 AAAATAATAAATAATTAAT
1 AAAATAAGAAATAAATAAT
13220 AAAATAAGAAATAAATAAT
1 AAAATAAGAAATAAATAAT
* * *
13239 GAAATATAGTAATAAAT-AC
1 AAAATA-AGAAATAAATAAT
* *
13258 AAAATATAGTAATAACTAA-
1 AAAATA-AGAAATAAATAAT
13277 AAAATA
1 AAAATA
13283 TAGTAATGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
19 44 0.81
20 10 0.19
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (19 bp):
AAAATAAGAAATAAATAAT
Found at i:13283 original size:19 final size:19
Alignment explanation
Indices: 13210--13296 Score: 95
Period size: 19 Copynumber: 4.5 Consensus size: 19
13200 GAAAATAATA
* *
13210 AATAATTAATAAAATA-AGA
1 AATAAATAA-AAAATATAGT
*
13229 AATAAATAATGAAATATAGT
1 AATAAATAA-AAAATATAGT
*
13249 AATAAATACAAAATATAGT
1 AATAAATAAAAAATATAGT
*
13268 AATAACTAAAAAATATAGT
1 AATAAATAAAAAATATAGT
*
13287 AATGAATAAA
1 AATAAATAAA
13297 TCATACAATA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
19 48 0.83
20 10 0.17
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.26
Consensus pattern (19 bp):
AATAAATAAAAAATATAGT
Found at i:13313 original size:17 final size:17
Alignment explanation
Indices: 13291--13324 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13281 TATAGTAATG
*
13291 AATAAATCATACAATAT
1 AATAAATAATACAATAT
13308 AATAAATAATACAATAT
1 AATAAATAATACAATAT
13325 TAACAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAATAATACAATAT
Found at i:13343 original size:15 final size:15
Alignment explanation
Indices: 13323--13372 Score: 73
Period size: 15 Copynumber: 3.1 Consensus size: 15
13313 ATAATACAAT
13323 ATTAACAATATTAAA
1 ATTAACAATATTAAA
13338 ATTAACAACAATATTAAA
1 ATT---AACAATATTAAA
13356 ATTAACAATATTAAA
1 ATTAACAATATTAAA
13371 AT
1 AT
13373 AATCATTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 17 0.53
18 15 0.47
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (15 bp):
ATTAACAATATTAAA
Found at i:13349 original size:18 final size:18
Alignment explanation
Indices: 13326--13363 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
13316 ATACAATATT
13326 AACAATATTAAAATTAAC
1 AACAATATTAAAATTAAC
13344 AACAATATTAAAATTAAC
1 AACAATATTAAAATTAAC
13362 AA
1 AA
13364 TATTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (18 bp):
AACAATATTAAAATTAAC
Found at i:13486 original size:25 final size:25
Alignment explanation
Indices: 13458--13509 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
13448 TCCAACTCCT
*
13458 AATCATTCGAAGACTGTAAACTAAA
1 AATCATTCGAAGACGGTAAACTAAA
13483 AATCATTCGAAGACGGTAAACTAAA
1 AATCATTCGAAGACGGTAAACTAAA
13508 AA
1 AA
13510 AATAAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.50, C:0.15, G:0.13, T:0.21
Consensus pattern (25 bp):
AATCATTCGAAGACGGTAAACTAAA
Found at i:13577 original size:17 final size:16
Alignment explanation
Indices: 13548--13596 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
13538 AAAAATTATT
13548 AAAAAAATAAGAACTAA
1 AAAAAAATAAGAA-TAA
13565 ATAAAAAAT-AGAATAA
1 A-AAAAAATAAGAATAA
*
13581 AAAAAATAAAAGAATA
1 AAAAAA-ATAAGAATA
13597 TTGATACAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 5 0.18
16 5 0.18
17 11 0.39
18 7 0.25
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (16 bp):
AAAAAAATAAGAATAA
Found at i:14579 original size:22 final size:22
Alignment explanation
Indices: 14544--14594 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
14534 AAAAACTAAA
14544 TAGAATT-ATTTCTTATATAAT
1 TAGAATTCATTTCTTATATAAT
14565 TAGAATTCATTTCTTATATAAT
1 TAGAATTCATTTCTTATATAAT
*
14587 TATAATTC
1 TAGAATTC
14595 TAAAAACAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (22 bp):
TAGAATTCATTTCTTATATAAT
Found at i:18061 original size:21 final size:21
Alignment explanation
Indices: 18017--18079 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
18007 TATATATTTA
18017 ATTTTAATATTTAA-TTT--T
1 ATTTTAATATTTAATTTTAAT
18035 -TTTTAATATTTAATTTTAAT
1 ATTTTAATATTTAATTTTAAT
18055 ATTTTAATATTTAATTTTAAT
1 ATTTTAATATTTAATTTTAAT
18076 ATTT
1 ATTT
18080 CTTTTTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.32
18 3 0.07
20 1 0.02
21 24 0.59
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTTAATATTTAATTTTAAT
Found at i:18085 original size:13 final size:13
Alignment explanation
Indices: 18010--18079 Score: 85
Period size: 13 Copynumber: 5.5 Consensus size: 13
18000 ATCACAATAT
18010 ATATTTAATTTTA
1 ATATTTAATTTTA
18023 ATATTTAATTTT-
1 ATATTTAATTTTA
18035 -T-TTTAATATTTA
1 ATATTTAAT-TTTA
18047 AT-TTTAATATTTTA
1 ATATTT-A-ATTTTA
18061 ATATTTAATTTTA
1 ATATTTAATTTTA
18074 ATATTT
1 ATATTT
18080 CTTTTTTTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
10 6 0.12
11 4 0.08
13 28 0.55
14 8 0.16
15 5 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATATTTAATTTTA
Found at i:18272 original size:10 final size:10
Alignment explanation
Indices: 18257--18334 Score: 63
Period size: 10 Copynumber: 7.6 Consensus size: 10
18247 GTCCATTACT
18257 TATTATATTA
1 TATTATATTA
18267 TATTATACTTA
1 TATTATA-TTA
18278 T-TTATACTTA
1 TATTATA-TTA
*
18288 TACTTATTTTA
1 TA-TTATATTA
18299 TACTTAT-TTA
1 TA-TTATATTA
*
18309 TACTTATTTTA
1 TA-TTATATTA
*
18320 TACT-TATTA
1 TATTATATTA
18329 TATTAT
1 TATTAT
18335 CCTTATTACT
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
9 7 0.12
10 29 0.49
11 19 0.32
12 4 0.07
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (10 bp):
TATTATATTA
Found at i:18299 original size:27 final size:26
Alignment explanation
Indices: 18259--18326 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 26
18249 CCATTACTTA
18259 TTATATTATATTATACTTATTTATAC
1 TTATATTATATTATACTTATTTATAC
*
18285 TTATACTTATTTTATACTTATTTATAC
1 TTATA-TTATATTATACTTATTTATAC
*
18312 TTATTTTATACTTAT
1 TTATATTATA-TTAT
18327 TATATTATCC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.24
27 28 0.76
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (26 bp):
TTATATTATATTATACTTATTTATAC
Found at i:18301 original size:11 final size:11
Alignment explanation
Indices: 18285--18327 Score: 79
Period size: 11 Copynumber: 4.0 Consensus size: 11
18275 TTATTTATAC
18285 TTATACTTATT
1 TTATACTTATT
18296 TTATACTTA-T
1 TTATACTTATT
18306 TTATACTTATT
1 TTATACTTATT
18317 TTATACTTATT
1 TTATACTTATT
18328 ATATTATCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 10 0.32
11 21 0.68
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (11 bp):
TTATACTTATT
Found at i:18340 original size:20 final size:21
Alignment explanation
Indices: 18325--18382 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
18315 TTTTATACTT
*
18325 ATTATATTATCCTTATTACTT
1 ATTATATTATCTTTATTACTT
**
18346 ATTCGATTA-CTTTATTACTT
1 ATTATATTATCTTTATTACTT
*
18366 ATTCTATTATCTATTAT
1 ATTATATTATCT-TTAT
18383 AATCTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 18 0.58
21 9 0.29
22 4 0.13
ACGTcount: A:0.28, C:0.14, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTATATTATCTTTATTACTT
Found at i:18344 original size:21 final size:21
Alignment explanation
Indices: 18255--18376 Score: 73
Period size: 21 Copynumber: 6.0 Consensus size: 21
18245 TTGTCCATTA
*
18255 CTTATTA--TATTATATTATA
1 CTTATTACTTATTATATTATC
18274 CTTATT--TATACTTATACTTAT-
1 CTTATTACT-TA-TTATA-TTATC
*
18295 TTTA-TACTTATTTATACTTAT-
1 CTTATTACTTA-TTATA-TTATC
*
18316 TTTA-TACTTATTATATTATC
1 CTTATTACTTATTATATTATC
**
18336 CTTATTACTTATTCGATTA-C
1 CTTATTACTTATTATATTATC
* *
18356 TTTATTACTTATTCTATTATC
1 CTTATTACTTATTATATTATC
18377 TATTATAATC
Statistics
Matches: 87, Mismatches: 7, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
19 10 0.11
20 29 0.33
21 43 0.49
22 5 0.06
ACGTcount: A:0.29, C:0.12, G:0.01, T:0.58
Consensus pattern (21 bp):
CTTATTACTTATTATATTATC
Found at i:18347 original size:27 final size:24
Alignment explanation
Indices: 18257--18341 Score: 95
Period size: 21 Copynumber: 3.5 Consensus size: 24
18247 GTCCATTACT
* *
18257 TATTATATTATATTATACTTATTTA
1 TATTATCTTATTTTATACTTA-TTA
18282 TACTTATACTTATTTTATACTTATT-
1 TA-TTAT-CTTATTTTATACTTATTA
18307 TA-TA-CTTATTTTATACTTATTA
1 TATTATCTTATTTTATACTTATTA
18329 TATTATCCTTATT
1 TATTAT-CTTATT
18342 ACTTATTCGA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
21 17 0.33
22 2 0.04
23 4 0.08
25 10 0.19
26 6 0.12
27 13 0.25
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (24 bp):
TATTATCTTATTTTATACTTATTA
Found at i:18390 original size:17 final size:17
Alignment explanation
Indices: 18368--18401 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
18358 TATTACTTAT
18368 TCTATTATCTATTATAA
1 TCTATTATCTATTATAA
18385 TCTATTATCTATTATAA
1 TCTATTATCTATTATAA
18402 GTAAATCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (17 bp):
TCTATTATCTATTATAA
Found at i:22991 original size:22 final size:22
Alignment explanation
Indices: 22964--23049 Score: 128
Period size: 22 Copynumber: 4.1 Consensus size: 22
22954 TATAATTCGT
22964 ATATTATACTAAGTATATCTAA
1 ATATTATACTAAGTATATCTAA
*
22986 ATATTATACTAAGTATATC--G
1 ATATTATACTAAGTATATCTAA
23006 A-A--ATACTAAGTATATCTAA
1 ATATTATACTAAGTATATCTAA
23025 ATATTATACTAAGTATATCTAA
1 ATATTATACTAAGTATATCTAA
23047 ATA
1 ATA
23050 CTAAGTATAT
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
17 14 0.25
19 2 0.04
20 2 0.04
22 39 0.68
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (22 bp):
ATATTATACTAAGTATATCTAA
Found at i:23013 original size:17 final size:17
Alignment explanation
Indices: 22991--23080 Score: 126
Period size: 17 Copynumber: 5.0 Consensus size: 17
22981 TCTAAATATT
*
22991 ATACTAAGTATATCGAA
1 ATACTAAGTATATCTAA
23008 ATACTAAGTATATCTAAATA
1 ATACTAAGTATATCT--A-A
23028 TTATACTAAGTATATCTAA
1 --ATACTAAGTATATCTAA
23047 ATACTAAGTATATCTAA
1 ATACTAAGTATATCTAA
23064 ATACTAAGTATATCTAA
1 ATACTAAGTATATCTAA
23081 GCGAGTATAT
Statistics
Matches: 67, Mismatches: 1, Indels: 10
0.86 0.01 0.13
Matches are distributed among these distances:
17 48 0.72
19 2 0.03
20 2 0.03
22 15 0.22
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.36
Consensus pattern (17 bp):
ATACTAAGTATATCTAA
Found at i:23021 original size:39 final size:39
Alignment explanation
Indices: 22969--23066 Score: 187
Period size: 39 Copynumber: 2.5 Consensus size: 39
22959 TTCGTATATT
22969 ATACTAAGTATATCTAAATATTATACTAAGTATATCGAA
1 ATACTAAGTATATCTAAATATTATACTAAGTATATCGAA
*
23008 ATACTAAGTATATCTAAATATTATACTAAGTATATCTAA
1 ATACTAAGTATATCTAAATATTATACTAAGTATATCGAA
23047 ATACTAAGTATATCTAAATA
1 ATACTAAGTATATCTAAATA
23067 CTAAGTATAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (39 bp):
ATACTAAGTATATCTAAATATTATACTAAGTATATCGAA
Found at i:23324 original size:22 final size:22
Alignment explanation
Indices: 23296--23339 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
23286 AATTTAATAA
23296 AGAAAGAGTTTATTACAAATTG
1 AGAAAGAGTTTATTACAAATTG
23318 AGAAAGAGTTTATTACAAATTG
1 AGAAAGAGTTTATTACAAATTG
23340 TCGAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (22 bp):
AGAAAGAGTTTATTACAAATTG
Found at i:24263 original size:36 final size:36
Alignment explanation
Indices: 24216--24327 Score: 197
Period size: 36 Copynumber: 3.1 Consensus size: 36
24206 TTTATAGGGC
24216 TCTTCGTCATACTCAAACGGATCAGAATCAATACCA
1 TCTTCGTCATACTCAAACGGATCAGAATCAATACCA
*
24252 TCTTCGTCATACTCAAACGGATAAGAATCAATACCA
1 TCTTCGTCATACTCAAACGGATCAGAATCAATACCA
* *
24288 TCTTCGTCATACTGAAATGGATCAGAATCAATACCA
1 TCTTCGTCATACTCAAACGGATCAGAATCAATACCA
24324 TCTT
1 TCTT
24328 TATCTTTGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 72 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.28
Consensus pattern (36 bp):
TCTTCGTCATACTCAAACGGATCAGAATCAATACCA
Found at i:24346 original size:42 final size:42
Alignment explanation
Indices: 24287--24376 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 42
24277 AATCAATACC
* *
24287 ATCTTCGTCATACTGAAATGGATCAGAATCAATACCATCTTT
1 ATCTTTGTCAAACTGAAATGGATCAGAATCAATACCATCTTT
*
24329 ATCTTTGTCAAACTGAAATGGATCATAATCAATACCATCTTT
1 ATCTTTGTCAAACTGAAATGGATCAGAATCAATACCATCTTT
24371 ATCTTT
1 ATCTTT
24377 ATCTTTGTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (42 bp):
ATCTTTGTCAAACTGAAATGGATCAGAATCAATACCATCTTT
Found at i:24399 original size:21 final size:21
Alignment explanation
Indices: 24373--24772 Score: 333
Period size: 21 Copynumber: 19.0 Consensus size: 21
24363 CCATCTTTAT
24373 CTTTATCTTTGTCAAACTGAA
1 CTTTATCTTTGTCAAACTGAA
24394 CTTTATCTTTGTCAAACTGAA
1 CTTTATCTTTGTCAAACTGAA
24415 CTTTATCTTTGTCAAACTGAA
1 CTTTATCTTTGTCAAACTGAA
*
24436 CTTTATCTTTGTCATACTGAA
1 CTTTATCTTTGTCAAACTGAA
* *
24457 CTTTATCTTCGTCATACTGAA
1 CTTTATCTTTGTCAAACTGAA
* ** ****
24478 ATGGAATCAGAATCAAA-T-ACCA
1 CT-TTATCTTTGTCAAACTGA--A
*
24500 TCTTTATCTTCGTCAAACTGAA
1 -CTTTATCTTTGTCAAACTGAA
*
24522 CTTTATCTTTGTCATACTGAA
1 CTTTATCTTTGTCAAACTGAA
* *
24543 CTTTATCTTCGTCATACTGAA
1 CTTTATCTTTGTCAAACTGAA
* *
24564 CTTTATC-TCGTCATACTGAA
1 CTTTATCTTTGTCAAACTGAA
* ** **** * *
24584 ATGGATCAGAATCAAGAC-CAT
1 CTTTATCTTTGTCAA-ACTGAA
*
24605 CTTTATCTTTGTTAAACTGAA
1 CTTTATCTTTGTCAAACTGAA
* ** * ** * * *
24626 ATGGATCATAATTAATAC-CAT
1 CTTTATCTTTGTCAA-ACTGAA
*
24647 CTTTATCTTTGTTAAACTGAA
1 CTTTATCTTTGTCAAACTGAA
*
24668 CTTTATCTTTGTCATACTGAA
1 CTTTATCTTTGTCAAACTGAA
24689 CTTTATCTTTGTCAAACTGAA
1 CTTTATCTTTGTCAAACTGAA
*
24710 CTTTATCTTTGTCATACTGAA
1 CTTTATCTTTGTCAAACTGAA
* *
24731 CTTTATCTTCGTCATACTGAA
1 CTTTATCTTTGTCAAACTGAA
* *
24752 CTTTATCTTCGTCATACTGAA
1 CTTTATCTTTGTCAAACTGAA
24773 ATGGATCAGA
Statistics
Matches: 308, Mismatches: 60, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
20 22 0.07
21 262 0.85
22 21 0.07
23 2 0.01
24 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (21 bp):
CTTTATCTTTGTCAAACTGAA
Found at i:24419 original size:48 final size:48
Alignment explanation
Indices: 24323--24465 Score: 147
Period size: 42 Copynumber: 3.1 Consensus size: 48
24313 AATCAATACC
* ** * ** * *
24323 ATCTTTATCTTTGTCAAACTGAAATGGATCATAATCAATAC-CATCTTT
1 ATCTTTATCTTTGTCAAACTGAACTTTATCTTTGTCAA-ACTGAACTTT
24371 ATCTTTATCTTTGTCAAACTGAACTTTATCTTTGTCAAACTG-A----
1 ATCTTTATCTTTGTCAAACTGAACTTTATCTTTGTCAAACTGAACTTT
*
24414 A-CTTTATCTTTGTCAAACTGAACTTTATCTTTGTCATACTGAACTTT
1 ATCTTTATCTTTGTCAAACTGAACTTTATCTTTGTCAAACTGAACTTT
24461 ATCTT
1 ATCTT
24466 CGTCATACTG
Statistics
Matches: 79, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
42 39 0.49
43 2 0.03
47 3 0.04
48 35 0.44
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (48 bp):
ATCTTTATCTTTGTCAAACTGAACTTTATCTTTGTCAAACTGAACTTT
Found at i:24530 original size:128 final size:128
Alignment explanation
Indices: 24325--24583 Score: 380
Period size: 128 Copynumber: 2.0 Consensus size: 128
24315 TCAATACCAT
* *
24325 CTTTATCTTTGTCAAACTGAAATGGATCATAATCAATACCATCTTTATCTTTATCTTTGTCAAAC
1 CTTTATCTTCGTCAAACTGAAATGGATCAGAATCAATACCATCTTTATC-TTATC--TGTCAAAC
* *
24390 TGAACTTTATCTTTGTCAAACTGAACTTTATCTTTGTCAAACTGAACTTTATCTTTGTCATACTG
63 TGAACTTTATCTTTGTCAAACTGAACTTTATCTTCGTCAAACTGAACTTTATC-TCGTCATACTG
24455 AA
127 AA
*
24457 CTTTATCTTCGTCATACTGAAATGGAATCAGAATCAAATACCATCTTTATC-T-TC-GTCAAACT
1 CTTTATCTTCGTCAAACTGAAATGG-ATCAGAATC-AATACCATCTTTATCTTATCTGTCAAACT
* *
24519 GAACTTTATCTTTGTCATACTGAACTTTATCTTCGTCATACTGAACTTTATCTCGTCATACTGAA
64 GAACTTTATCTTTGTCAAACTGAACTTTATCTTCGTCAAACTGAACTTTATCTCGTCATACTGAA
24584 ATGGATCAGA
Statistics
Matches: 118, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
127 12 0.10
128 57 0.48
131 2 0.02
132 24 0.20
133 8 0.07
134 15 0.13
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (128 bp):
CTTTATCTTCGTCAAACTGAAATGGATCAGAATCAATACCATCTTTATCTTATCTGTCAAACTGA
ACTTTATCTTTGTCAAACTGAACTTTATCTTCGTCAAACTGAACTTTATCTCGTCATACTGAA
Found at i:24877 original size:24 final size:24
Alignment explanation
Indices: 24845--25034 Score: 366
Period size: 24 Copynumber: 8.0 Consensus size: 24
24835 TCAATACCAT
24845 CTTCGTCAGAACCATCTTCGTCAG
1 CTTCGTCAGAACCATCTTCGTCAG
24869 CTTCGTCAGAACCATCTTCGTCAG
1 CTTCGTCAGAACCATCTTCGTCAG
24893 CTTCGTCAGAACCATCTTCGTCAG
1 CTTCGTCAGAACCATCTTCGTCAG
24917 CTTCGTCAGAACCATCTTCGTCAG
1 CTTCGTCAGAACCATCTTCGTCAG
24941 CTTCGTCAGAACCATC-TCGTCAG
1 CTTCGTCAGAACCATCTTCGTCAG
24964 CTTCGTCAGAACCATCTTCGTCAG
1 CTTCGTCAGAACCATCTTCGTCAG
24988 CTTCGTCAGAACCATC-TCGTCAG
1 CTTCGTCAGAACCATCTTCGTCAG
25011 CTTCGTCAGAACCATCTTCGTCAG
1 CTTCGTCAGAACCATCTTCGTCAG
25035 ACTGAAATGG
Statistics
Matches: 164, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
23 46 0.28
24 118 0.72
ACGTcount: A:0.21, C:0.34, G:0.17, T:0.28
Consensus pattern (24 bp):
CTTCGTCAGAACCATCTTCGTCAG
Found at i:24979 original size:47 final size:48
Alignment explanation
Indices: 24845--25034 Score: 366
Period size: 47 Copynumber: 4.0 Consensus size: 48
24835 TCAATACCAT
24845 CTTCGTCAGAACCATCTTCGTCAGCTTCGTCAGAACCATCTTCGTCAG
1 CTTCGTCAGAACCATCTTCGTCAGCTTCGTCAGAACCATCTTCGTCAG
24893 CTTCGTCAGAACCATCTTCGTCAGCTTCGTCAGAACCATCTTCGTCAG
1 CTTCGTCAGAACCATCTTCGTCAGCTTCGTCAGAACCATCTTCGTCAG
24941 CTTCGTCAGAACCATC-TCGTCAGCTTCGTCAGAACCATCTTCGTCAG
1 CTTCGTCAGAACCATCTTCGTCAGCTTCGTCAGAACCATCTTCGTCAG
24988 CTTCGTCAGAACCATC-TCGTCAGCTTCGTCAGAACCATCTTCGTCAG
1 CTTCGTCAGAACCATCTTCGTCAGCTTCGTCAGAACCATCTTCGTCAG
25035 ACTGAAATGG
Statistics
Matches: 142, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
47 78 0.55
48 64 0.45
ACGTcount: A:0.21, C:0.34, G:0.17, T:0.28
Consensus pattern (48 bp):
CTTCGTCAGAACCATCTTCGTCAGCTTCGTCAGAACCATCTTCGTCAG
Found at i:25066 original size:36 final size:36
Alignment explanation
Indices: 25021--25114 Score: 179
Period size: 36 Copynumber: 2.6 Consensus size: 36
25011 CTTCGTCAGA
25021 ACCATCTTCGTCAGACTGAAATGGATCATAATCAAT
1 ACCATCTTCGTCAGACTGAAATGGATCATAATCAAT
25057 ACCATCTTCGTCAGACTGAAATGGATCATAATCAAT
1 ACCATCTTCGTCAGACTGAAATGGATCATAATCAAT
*
25093 ACCATCTTCGTCATACTGAAAT
1 ACCATCTTCGTCAGACTGAAAT
25115 TCAATGGGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (36 bp):
ACCATCTTCGTCAGACTGAAATGGATCATAATCAAT
Found at i:25370 original size:36 final size:36
Alignment explanation
Indices: 25330--25553 Score: 432
Period size: 36 Copynumber: 6.2 Consensus size: 36
25320 TAGGCCTTTC
25330 TAAATCATTACCATTTGCGCAACTTTCTTTTAGAGT
1 TAAATCATTACCATTTGCGCAACTTTCTTTTAGAGT
25366 TAAATCATTACCATTTGCGCAACTTTCTTTTAGAGT
1 TAAATCATTACCATTTGCGCAACTTTCTTTTAGAGT
25402 TAAATCATTACCATTTGCGCAACTTTCTTTTAGAGT
1 TAAATCATTACCATTTGCGCAACTTTCTTTTAGAGT
25438 TAAATCATTACCATTTGCGCAACTTTC-TTTAGAGT
1 TAAATCATTACCATTTGCGCAACTTTCTTTTAGAGT
25473 TAAATCATTACCATTTGCGCAACTTTCTTTTAGAGT
1 TAAATCATTACCATTTGCGCAACTTTCTTTTAGAGT
25509 TAAATCATTACCATTTGCGCAACTTTCTTTTAGAGT
1 TAAATCATTACCATTTGCGCAACTTTCTTTTAGAGT
*
25545 TAAACCATT
1 TAAATCATT
25554 GTCTTCACTA
Statistics
Matches: 186, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
35 35 0.19
36 151 0.81
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.41
Consensus pattern (36 bp):
TAAATCATTACCATTTGCGCAACTTTCTTTTAGAGT
Found at i:25517 original size:107 final size:108
Alignment explanation
Indices: 25330--25553 Score: 432
Period size: 107 Copynumber: 2.1 Consensus size: 108
25320 TAGGCCTTTC
25330 TAAATCATTACCATTTGCGCAACTTTCTTTTAGAGTTAAATCATTACCATTTGCGCAACTTTCTT
1 TAAATCATTACCATTTGCGCAACTTTCTTTTAGAGTTAAATCATTACCATTTGCGCAACTTTCTT
25395 TTAGAGTTAAATCATTACCATTTGCGCAACTTTCTTTTAGAGT
66 TTAGAGTTAAATCATTACCATTTGCGCAACTTTCTTTTAGAGT
25438 TAAATCATTACCATTTGCGCAACTTTC-TTTAGAGTTAAATCATTACCATTTGCGCAACTTTCTT
1 TAAATCATTACCATTTGCGCAACTTTCTTTTAGAGTTAAATCATTACCATTTGCGCAACTTTCTT
25502 TTAGAGTTAAATCATTACCATTTGCGCAACTTTCTTTTAGAGT
66 TTAGAGTTAAATCATTACCATTTGCGCAACTTTCTTTTAGAGT
*
25545 TAAACCATT
1 TAAATCATT
25554 GTCTTCACTA
Statistics
Matches: 115, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
107 88 0.77
108 27 0.23
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.41
Consensus pattern (108 bp):
TAAATCATTACCATTTGCGCAACTTTCTTTTAGAGTTAAATCATTACCATTTGCGCAACTTTCTT
TTAGAGTTAAATCATTACCATTTGCGCAACTTTCTTTTAGAGT
Found at i:25827 original size:18 final size:18
Alignment explanation
Indices: 25806--25841 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
25796 ATAGAGAATA
25806 ATTATCCTGATTACTATC
1 ATTATCCTGATTACTATC
25824 ATTATCCTGATTACTATC
1 ATTATCCTGATTACTATC
25842 CTAATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (18 bp):
ATTATCCTGATTACTATC
Found at i:26448 original size:23 final size:23
Alignment explanation
Indices: 26422--26470 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
26412 ACCTTTTTCG
26422 TAAAATATCGTCTACTAATACAA
1 TAAAATATCGTCTACTAATACAA
*
26445 TAAAATCTCGTCTACTAATACAA
1 TAAAATATCGTCTACTAATACAA
26468 TAA
1 TAA
26471 GTTTCTATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
TAAAATATCGTCTACTAATACAA
Done.