Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167965.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_224, 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: 46922
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.66
File 2 of 2
Found at i:31636 original size:12 final size:14
Alignment explanation
Indices: 31619--31655 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
31609 CTTTCTTTTG
31619 TTTTAT-TTT-ATT
1 TTTTATCTTTGATT
31631 TTTTATCTTTGATT
1 TTTTATCTTTGATT
31645 TTTATATCTTT
1 TTT-TATCTTT
31656 TTCCTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.27
13 3 0.14
14 6 0.27
15 7 0.32
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTATCTTTGATT
Found at i:31944 original size:1 final size:1
Alignment explanation
Indices: 31909--31935 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
31899 AAGTTCAAAA
31909 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
31936 GCTATTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:32091 original size:28 final size:27
Alignment explanation
Indices: 32056--32109 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
32046 GTTGTTTTAA
* **
32056 AAATTTTTATTTTTTTTTTTTTATTCC
1 AAATTTTTATCTTTTCATTTTTATTCC
*
32083 AAATCTTTTGTCTTTTCATTTTTATTC
1 AAAT-TTTTATCTTTTCATTTTTATTC
32110 TTTTCTTGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.19, C:0.11, G:0.02, T:0.69
Consensus pattern (27 bp):
AAATTTTTATCTTTTCATTTTTATTCC
Found at i:32244 original size:21 final size:19
Alignment explanation
Indices: 32202--32244 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
32192 TTGCATTAAC
* *
32202 TTTTCTCTTTTTTAATTTT
1 TTTTCTCCTTTTTAATTGT
32221 TTTTCTCACTTTTTATATTGT
1 TTTTCTC-CTTTTTA-ATTGT
32242 TTT
1 TTT
32245 ATTATTAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTCTCCTTTTTAATTGT
Found at i:32426 original size:20 final size:20
Alignment explanation
Indices: 32382--32427 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
32372 TTTTTCTTTC
32382 TTTTTTTTATAGTTTCATAAA
1 TTTTTTTTATAGTTTCAT-AA
*
32403 TTTTTGTTA-AGTTTTCA-AA
1 TTTTTTTTATAG-TTTCATAA
32422 TTTTTT
1 TTTTTT
32428 ATTTTTCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 7 0.32
20 2 0.09
21 13 0.59
ACGTcount: A:0.24, C:0.04, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTTTTTATAGTTTCATAA
Found at i:32706 original size:22 final size:21
Alignment explanation
Indices: 32666--32706 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
32656 TTTTTCTCAA
32666 ATTTTATTTTATATATTTTGT
1 ATTTTATTTTATATATTTTGT
* *
32687 ATTTTCATTTTTTATTTTTT
1 ATTTT-ATTTTATATATTTT
32707 TCTTGCTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
ATTTTATTTTATATATTTTGT
Found at i:32848 original size:19 final size:18
Alignment explanation
Indices: 32798--32849 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
32788 GTGCACATTC
*
32798 TTTTATTTTTAT-TTATA
1 TTTTATTTTTATCTTTTA
* *
32815 TTTT-TTATTAACTTTTA
1 TTTTATTTTTATCTTTTA
32832 TTTTATTTTTCATCTTTT
1 TTTTATTTTT-ATCTTTT
32850 TCCTCTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 5 0.19
17 12 0.44
18 4 0.15
19 6 0.22
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTATTTTTATCTTTTA
Found at i:33055 original size:18 final size:18
Alignment explanation
Indices: 33028--33087 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 18
33018 TTTTTTGGTA
33028 TTTTAT-TTAATTTTTTC
1 TTTTATATTAATTTTTTC
*
33045 TTTTATATTAATATTTTC
1 TTTTATATTAATTTTTTC
* *
33063 TCTTA-ATTTATTTTTT-
1 TTTTATATTAATTTTTTC
*
33079 ATTTATATT
1 TTTTATATT
33088 TTAAAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 3 0.09
17 18 0.51
18 14 0.40
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTATATTAATTTTTTC
Found at i:33086 original size:28 final size:30
Alignment explanation
Indices: 33026--33090 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
33016 CCTTTTTTGG
*
33026 TATTTTATTTAATTTTTTCTTTTATATTAA
1 TATTTTATTTAATTTATTCTTTTATATTAA
*
33056 TATTTTCTCTTAATTTATT-TTTTAT-TT-A
1 TATTTTAT-TTAATTTATTCTTTTATATTAA
33084 TATTTTA
1 TATTTTA
33091 AAAAATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 7 0.23
29 2 0.06
30 13 0.42
31 9 0.29
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.71
Consensus pattern (30 bp):
TATTTTATTTAATTTATTCTTTTATATTAA
Found at i:33151 original size:12 final size:12
Alignment explanation
Indices: 33134--33175 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
33124 TTTCATTTTC
33134 CTATTTTTTTGT
1 CTATTTTTTTGT
33146 CTATTTTTTTG-
1 CTATTTTTTTGT
33157 CTA-TTTTTTGTT
1 CTATTTTTTTG-T
33169 CTATTTT
1 CTATTTT
33176 ATAAATTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 14 0.52
13 3 0.11
ACGTcount: A:0.10, C:0.10, G:0.07, T:0.74
Consensus pattern (12 bp):
CTATTTTTTTGT
Found at i:33152 original size:11 final size:11
Alignment explanation
Indices: 33138--33175 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
33128 ATTTTCCTAT
33138 TTTTTTGTCTA
1 TTTTTTGTCTA
33149 TTTTTT-TGCTA
1 TTTTTTGT-CTA
33160 TTTTTTGTTCTA
1 TTTTTTG-TCTA
33172 TTTT
1 TTTT
33176 ATAAATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.04
11 15 0.62
12 7 0.29
13 1 0.04
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTTTGTCTA
Found at i:33155 original size:23 final size:23
Alignment explanation
Indices: 33129--33175 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
33119 TATTTTTTCA
33129 TTTTCCTATTTTTT-TGTCTATTT
1 TTTTCCTATTTTTTGT-TCTATTT
*
33152 TTTTGCTATTTTTTGTTCTATTT
1 TTTTCCTATTTTTTGTTCTATTT
33175 T
1 T
33176 ATAAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.09, C:0.11, G:0.06, T:0.74
Consensus pattern (23 bp):
TTTTCCTATTTTTTGTTCTATTT
Found at i:34343 original size:19 final size:18
Alignment explanation
Indices: 34316--34365 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
34306 CCATTTTTGG
34316 TATTT-TATTTTATTTTT
1 TATTTATATTTTATTTTT
* *
34333 TCTTTTATATTACTATTTTT
1 T-ATTTATATT-TTATTTTT
34353 TATTTATATTTTA
1 TATTTATATTTTA
34366 AAATTTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 5 0.19
19 12 0.46
20 8 0.31
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTATATTTTATTTTT
Found at i:34704 original size:12 final size:14
Alignment explanation
Indices: 34687--34723 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
34677 CTTTCTTTTG
34687 TTTTTAT-TTT-AT
1 TTTTTATCTTTGAT
34699 TTTTTATCTTTGAT
1 TTTTTATCTTTGAT
*
34713 TTTATATCTTT
1 TTTTTATCTTT
34724 CCTATATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTTATCTTTGAT
Found at i:34991 original size:12 final size:12
Alignment explanation
Indices: 34974--35006 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
34964 AAGTTCAAAA
34974 TTTTTTTTTATT
1 TTTTTTTTTATT
*
34986 TTTTTTTTTCTT
1 TTTTTTTTTATT
34998 TTTTTTTTT
1 TTTTTTTTT
35007 GCTATTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.03, G:0.00, T:0.94
Consensus pattern (12 bp):
TTTTTTTTTATT
Found at i:34992 original size:13 final size:13
Alignment explanation
Indices: 34974--35006 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
34964 AAGTTCAAAA
*
34974 TTTTTTTTT-ATT
1 TTTTTTTTTCTTT
34986 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
34999 TTTTTTTT
1 TTTTTTTT
35007 GCTATTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.03, C:0.03, G:0.00, T:0.94
Consensus pattern (13 bp):
TTTTTTTTTCTTT
Found at i:35014 original size:13 final size:12
Alignment explanation
Indices: 34973--35015 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
34963 AAAGTTCAAA
*
34973 ATTTTTTTTTAT
1 ATTTTTTTTTCT
*
34985 TTTTTTTTTTCT
1 ATTTTTTTTTCT
*
34997 TTTTTTTTTTGCT
1 ATTTTTTTTT-CT
35010 ATTTTT
1 ATTTTT
35016 GTTCTACTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 20 0.74
13 7 0.26
ACGTcount: A:0.07, C:0.05, G:0.02, T:0.86
Consensus pattern (12 bp):
ATTTTTTTTTCT
Found at i:35441 original size:23 final size:22
Alignment explanation
Indices: 35386--35446 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
35376 TATTTTTGTT
*
35386 TTTTTTCTTTT-TTGTGCTTTA
1 TTTTTTCTTTTCTTTTGCTTTA
35407 TTTATCTT-TTTTCTTTTGCTTTAA
1 TTT-T-TTCTTTTCTTTTGCTTT-A
35431 TTTTTTCTTTTCTTTT
1 TTTTTTCTTTTCTTTT
35447 TTTATAGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 3 0.09
22 7 0.21
23 20 0.59
24 4 0.12
ACGTcount: A:0.07, C:0.11, G:0.05, T:0.77
Consensus pattern (22 bp):
TTTTTTCTTTTCTTTTGCTTTA
Found at i:35750 original size:21 final size:21
Alignment explanation
Indices: 35726--35765 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
35716 TTTTTCTCAA
35726 ATTTT-ATTTTATATATTTTGT
1 ATTTTCATTTT-TATATTTTGT
*
35747 ATTTTCATTTTTATTTTTT
1 ATTTTCATTTTTATATTTT
35766 TCTTGCTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (21 bp):
ATTTTCATTTTTATATTTTGT
Found at i:36097 original size:22 final size:23
Alignment explanation
Indices: 36061--36103 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
36051 ACTTTTTATT
* *
36061 TTTTCTTTTTGTATTTTATTTAA
1 TTTTCTTTTTATATTATATTTAA
36084 TTTTC-TTTTATATTATATTT
1 TTTTCTTTTTATATTATATTT
36104 TTCTTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTCTTTTTATATTATATTTAA
Found at i:36110 original size:27 final size:26
Alignment explanation
Indices: 36072--36132 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
36062 TTTCTTTTTG
36072 TATTTTATTTAATTT-TCTTTTATATTA
1 TATTTT-TTTAATTTATCTTTTAT-TTA
*
36099 TATTTTTCTTAATTTATTTTTTATTTA
1 TATTTTT-TTAATTTATCTTTTATTTA
36126 TATTTTT
1 TATTTTT
36133 AAAAATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 1 0.03
27 23 0.74
28 7 0.23
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (26 bp):
TATTTTTTTAATTTATCTTTTATTTA
Found at i:36145 original size:18 final size:18
Alignment explanation
Indices: 36122--36168 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
36112 TTATTTTTTA
36122 TTTATATTTTTAAAAATT
1 TTTATATTTTTAAAAATT
** *
36140 TTTATAAAGTTCAAAAATT
1 TTTAT-ATTTTTAAAAATT
36159 TTTAT-TTTTT
1 TTTATATTTTT
36169 CATTTCCTAT
Statistics
Matches: 22, Mismatches: 6, Indels: 3
0.71 0.19 0.10
Matches are distributed among these distances:
17 2 0.09
18 5 0.23
19 15 0.68
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTATATTTTTAAAAATT
Found at i:36170 original size:18 final size:19
Alignment explanation
Indices: 36122--36170 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
36112 TTATTTTTTA
36122 TTTATATTTTT-AAAAATT
1 TTTATATTTTTCAAAAATT
***
36140 TTTATAAAGTTCAAAAATT
1 TTTATATTTTTCAAAAATT
36159 TTTAT-TTTTTCA
1 TTTATATTTTTCA
36171 TTTCCTATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTATATTTTTCAAAAATT
Found at i:36184 original size:24 final size:23
Alignment explanation
Indices: 36157--36215 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 23
36147 AGTTCAAAAA
36157 TTTT-TATTTTTTCATTTCCTATTTT
1 TTTTCTATTTTTT--TTTCCTA-TTT
*
36182 TTTGTCTA-TTTTTTTTGCTATTT
1 TTT-TCTATTTTTTTTTCCTATTT
36205 TTTTCTATTTT
1 TTTTCTATTTT
36216 ATAAATTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
22 4 0.13
23 9 0.30
24 6 0.20
25 3 0.10
26 6 0.20
27 2 0.07
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.76
Consensus pattern (23 bp):
TTTTCTATTTTTTTTTCCTATTT
Found at i:36194 original size:13 final size:12
Alignment explanation
Indices: 36178--36208 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
36168 TCATTTCCTA
36178 TTTTTTTGTCTAT
1 TTTTTTTG-CTAT
36191 TTTTTTTGCTAT
1 TTTTTTTGCTAT
36203 TTTTTT
1 TTTTTT
36209 CTATTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTTTTTGCTAT
Found at i:36692 original size:16 final size:16
Alignment explanation
Indices: 36651--36699 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
36641 ATTTCTACTT
36651 TTTATATTTTATTTTG
1 TTTATATTTTATTTTG
* *
36667 TTCATCTTTTATTTTGG
1 TTTATATTTTATTTT-G
*
36684 TTTATTTTTTTATTTT
1 TTTA-TATTTTATTTT
36700 ATCATTGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 13 0.48
17 4 0.15
18 10 0.37
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (16 bp):
TTTATATTTTATTTTG
Found at i:37390 original size:19 final size:18
Alignment explanation
Indices: 37363--37412 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
37353 CCATTTTTGG
37363 TATTT-TATTTTATTTTT
1 TATTTATATTTTATTTTT
* *
37380 TCTTTTATATTACTATTTTT
1 T-ATTTATATT-TTATTTTT
37400 TATTTATATTTTA
1 TATTTATATTTTA
37413 AAATTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 5 0.19
19 12 0.46
20 8 0.31
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTATATTTTATTTTT
Found at i:38060 original size:18 final size:18
Alignment explanation
Indices: 38039--38074 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
38029 AAGTTCAAAA
38039 TTTTTTTTTTTTATTTTT
1 TTTTTTTTTTTTATTTTT
38057 TTTTTTTTTTTTATTTTT
1 TTTTTTTTTTTTATTTTT
38075 GTTCTACTTT
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:0.06, C:0.00, G:0.00, T:0.94
Consensus pattern (18 bp):
TTTTTTTTTTTTATTTTT
Found at i:38093 original size:1 final size:1
Alignment explanation
Indices: 38039--38074 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
38029 AAGTTCAAAA
* *
38039 TTTTTTTTTTTTATTTTTTTTTTTTTTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
38075 GTTCTACTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.06, C:0.00, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:38370 original size:21 final size:19
Alignment explanation
Indices: 38328--38370 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
38318 TTGCATTAAC
* *
38328 TTTTCTCTTTTTTAATTTT
1 TTTTCTCCTTTTTAATTGT
38347 TTTTCTCACTTTTTATATTGT
1 TTTTCTC-CTTTTTA-ATTGT
38368 TTT
1 TTT
38371 ATTATTAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTCTCCTTTTTAATTGT
Found at i:38414 original size:16 final size:17
Alignment explanation
Indices: 38395--38434 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
38385 ATGTTTTTCA
*
38395 ATTTTTTTCCTTTTT-T
1 ATTTTTTTACTTTTTAT
*
38411 ATTTTCTTACTTTTTAT
1 ATTTTTTTACTTTTTAT
38428 ATTTTTT
1 ATTTTTT
38435 GTTGTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTTTACTTTTTAT
Found at i:38684 original size:15 final size:16
Alignment explanation
Indices: 38666--38698 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38656 TTTATGTGCT
*
38666 TTCA-TTTTTTTTTTG
1 TTCACTTTTTTCTTTG
38681 TTCACTTTTTTCTTTG
1 TTCACTTTTTTCTTTG
38697 TT
1 TT
38699 TTAAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.76
Consensus pattern (16 bp):
TTCACTTTTTTCTTTG
Found at i:38766 original size:47 final size:48
Alignment explanation
Indices: 38730--38820 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
38720 TTTCTTTTTG
*
38730 TTTTATTTCATAT-TTTTGCCTCTTCATTTTTTATTTTTTT-TCTCAAA
1 TTTTATTTCATATATTTTGCATCTTCATTTTTTATTTTTTTCT-TCAAA
* * *
38777 TTTTATTTTATATATTTTGTATTTTCATTTTTTATTTTTTTCTT
1 TTTTATTTCATATATTTTGCATCTTCATTTTTTATTTTTTTCTT
38821 GCTTTTTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
47 12 0.32
48 25 0.66
49 1 0.03
ACGTcount: A:0.16, C:0.10, G:0.02, T:0.71
Consensus pattern (48 bp):
TTTTATTTCATATATTTTGCATCTTCATTTTTTATTTTTTTCTTCAAA
Found at i:38816 original size:22 final size:21
Alignment explanation
Indices: 38776--38816 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
38766 TTTTTCTCAA
38776 ATTTTATTTTATATATTTTGT
1 ATTTTATTTTATATATTTTGT
* *
38797 ATTTTCATTTTTTATTTTTT
1 ATTTT-ATTTTATATATTTT
38817 TCTTGCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
ATTTTATTTTATATATTTTGT
Found at i:38920 original size:6 final size:6
Alignment explanation
Indices: 38909--38933 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
38899 GTGCACATTC
38909 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
38934 AACTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:39248 original size:11 final size:11
Alignment explanation
Indices: 39232--39273 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
39222 TTTTCATTTC
39232 CTATTTTTTGT
1 CTATTTTTTGT
39243 CTATTTTTT-T
1 CTATTTTTTGT
39253 CGCTATTTTTTGTT
1 --CTATTTTTTG-T
39267 CTATTTT
1 CTATTTT
39274 ATAAATTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 1 0.04
11 9 0.33
12 16 0.59
14 1 0.04
ACGTcount: A:0.10, C:0.12, G:0.07, T:0.71
Consensus pattern (11 bp):
CTATTTTTTGT
Found at i:39262 original size:23 final size:23
Alignment explanation
Indices: 39228--39273 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
39218 TATTTTTTCA
39228 TTTCCTATTTTTTG-TCTATTTT
1 TTTCCTATTTTTTGTTCTATTTT
39250 TTTCGCTATTTTTTGTTCTATTTT
1 TTTC-CTATTTTTTGTTCTATTTT
39274 ATAAATTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 4 0.18
23 10 0.45
24 8 0.36
ACGTcount: A:0.09, C:0.13, G:0.07, T:0.72
Consensus pattern (23 bp):
TTTCCTATTTTTTGTTCTATTTT
Found at i:40459 original size:19 final size:18
Alignment explanation
Indices: 40432--40480 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
40422 CCATTTTTGG
40432 TATTT-TATTTTATTTTT
1 TATTTATATTTTATTTTT
* *
40449 TCTTTTATATTACTATTTTT
1 T-ATTTATATT-TTATTTTT
40469 TATTTATATTTT
1 TATTTATATTTT
40481 TAAAATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 1 0.04
18 4 0.16
19 12 0.48
20 8 0.32
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (18 bp):
TATTTATATTTTATTTTT
Found at i:41124 original size:20 final size:20
Alignment explanation
Indices: 41083--41126 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
41073 AGTTCAAAAT
*
41083 TTTTCTTTTTATTTTTTTTA
1 TTTTCTTTTTATTTTTTCTA
41103 TTTTCTTTTT-TTTTTTGCTA
1 TTTTCTTTTTATTTTTT-CTA
41123 TTTT
1 TTTT
41127 TGTTCTACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.84
Consensus pattern (20 bp):
TTTTCTTTTTATTTTTTCTA
Found at i:41308 original size:570 final size:575
Alignment explanation
Indices: 40207--41354 Score: 1448
Period size: 577 Copynumber: 2.0 Consensus size: 575
40197 CCTCTAACTT
* *
40207 CTTTTTTTGTGCACTTCCTTTTGTTTTTATTCCTTTTTTTGTTAACTTTTATTTTATTTTTTATC
1 CTTTTTTTGTGCACTTCCTTTTGTTTTTATT-CTTATTTTGTTAACTTTGATTTTATTTTTTATC
* * * * * * *
40272 TTTGATTTTTTATATCTTTTTCTTGTATTTGTTTTTTTTTTCTTTAAACTAAAAGTTTTTTCTGT
65 TATGATTTGTTATATCTTTTTCTTGTATTTCTTTGTATATTC-TTAAACTAAAAGTTTTTTCTAT
* * *
40337 TTTATATTTCAAATTTCTATTCATTTTGTCTTTTTATATTTTTTTGATTTGCTAACTTTTTATTT
129 TTTATATTTCAAATTTCTATTCATTTTGTCTTTTTATATTTTTTTGATTCGCTAACTTTTTAATA
* **
40402 TCTTACTTTTTTTTTTTTTTCCATTTTTGGTATTTTATTTTATTTTTTCTTTTATATTACTATTT
194 TCTTAC-TTTTTTTATTTTTCCATTTTTGGTATTTTATTGAATTTTTTCTTTTATATTACTATTT
* *
40467 TTTATTTATATTTTTAAAATTTTATAAAATTTAAAATTTTTATTTTTGAATCTTTTTTCTTTTTT
258 TTTATTTATATTTTAAAAATTTTATAAAATTCAAAATTTTTATTTTTGAATCTTTTTTCTTTTTT
* *
40532 CATTTTCATTTTTTTGTTCTATGTTGTAATTTTTAATAACTTTTTCCCTTCAAAATTTTCTTTCT
323 CATTTTCATATTTTTGTTCTATGTTGTAATTTTTAATAACTTTTTCCCTTCAAAATTTTCCTTCT
* * * *
40597 TTTTGCTTTTTTTTTTTTCATCTGCTTTCAGTGTTGCTTGTTTTAATTTTTTTGTTGTTTTAAAA
388 TTTTGC----TTTTTTTTCATATGCTTTCAGTGTTACTTGTTTTAATTTTTTCGTTATTTTAAAA
*
40662 TTTTTTATATTTCTTTTTCCTTTTTTATTCCAAATCTTTTGTCTTTTCATTTTTATTCTTTTCTT
449 TATTTTATATTTCTTTTT-CTTTTTTATTCCAAATCTTTTGTCTTTTCATTTTTATTCTTTTCTT
40727 GCTTTTCTTA-TTTTTTTCACAAATTTCCTTTCATTTCTTATTTGCATCTTTAAATTATTAGA
513 GCTTTTCTTATTTTTTTTCACAAATTTCCTTTCATTTCTTATTTGCATCTTTAAATTATTAGA
*
40789 CTTTTTTTGTGCACTT-CTTTTGTTTTTATT-TTATTTT-TTATCTTTGATTTTTATATTTTT-T
1 CTTTTTTTGTGCACTTCCTTTTGTTTTTATTCTTATTTTGTTAACTTTGA-TTTTAT-TTTTTAT
* * *
40850 CCTAT-ATTTGTTATAT-TTTTT-TTTTGTTTCTTTGTATATTC-TGAACTAAAAGTTTTTTCTA
64 -CTATGATTTGTTATATCTTTTTCTTGTATTTCTTTGTATATTCTTAAACTAAAAGTTTTTTCTA
* * *
40911 TTTTGTATTTGAAATTT-TATTCA-TTT-TC-TTTTATATTTTTTT-ATTCGCTAATTTTTTAAT
128 TTTTATATTTCAAATTTCTATTCATTTTGTCTTTTTATATTTTTTTGATTCGCTAACTTTTTAAT
* * *
40971 ATCTTAC-TTTTTTATTTTTGCTTTTTTGGTATTTTATTGAATTTTTTCTCTTAATTTATTTTTC
193 ATCTTACTTTTTTTATTTTTCCATTTTTGGTATTTTATTGAA-TTTTT-TC-T--TTTA-TATT-
* * * *
41035 CATTTATTTTTTATTTATATTTTAAAAAATTTTTATAAAGTTCAAAATTTTTCTTTTT-ATTTTT
251 -A-CTATTTTTTATTTATATTTT-AAAAA-TTTTATAAAATTCAAAATTTTTATTTTTGA---AT
* *
41099 TTTATTTTCTTTTTT-TTTTTGC-TATTTTTGTTCTACT-TTGTAATTTTTTAATAACTTTTTCC
309 CTT-TTTTCTTTTTTCATTTT-CATATTTTTGTTCTA-TGTTGTAA-TTTTTAATAACTTTTTCC
* *
41161 CTTCAAAATTTTCCTTCTTTTTGC-TTTTTTTCATATGCTTTCATTTTTACTTGTTTTAATTTTT
370 CTTCAAAATTTTCCTTCTTTTTGCTTTTTTTTCATATGCTTTCAGTGTTACTTGTTTTAATTTTT
41225 TCGTTATTTTAAAA-ATTTT-TA-TT-TTTTT-TTTTTT-TTCCAAATCTTTTGTCTTTTCATTT
435 TCGTTATTTTAAAATATTTTATATTTCTTTTTCTTTTTTATTCCAAATCTTTTGTCTTTTCATTT
* *
41284 TTATTCTTTTCTTGCTTTTCTTATTTTTTTTTCACAAATTTCCTTTCATTTCTTATTTGCGTTTT
500 TTATTCTTTTCTTGCTTTTCTTA-TTTTTTTTCACAAATTTCCTTTCATTTCTTATTTGCATCTT
41349 TAAATT
564 TAAATT
41355 CTCGTACTTT
Statistics
Matches: 499, Mismatches: 44, Indels: 56
0.83 0.07 0.09
Matches are distributed among these distances:
568 29 0.06
569 5 0.01
570 71 0.14
571 21 0.04
572 46 0.09
573 12 0.02
574 11 0.02
575 35 0.07
576 5 0.01
577 81 0.16
578 18 0.04
579 48 0.10
580 8 0.02
581 39 0.08
582 70 0.14
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.66
Consensus pattern (575 bp):
CTTTTTTTGTGCACTTCCTTTTGTTTTTATTCTTATTTTGTTAACTTTGATTTTATTTTTTATCT
ATGATTTGTTATATCTTTTTCTTGTATTTCTTTGTATATTCTTAAACTAAAAGTTTTTTCTATTT
TATATTTCAAATTTCTATTCATTTTGTCTTTTTATATTTTTTTGATTCGCTAACTTTTTAATATC
TTACTTTTTTTATTTTTCCATTTTTGGTATTTTATTGAATTTTTTCTTTTATATTACTATTTTTT
ATTTATATTTTAAAAATTTTATAAAATTCAAAATTTTTATTTTTGAATCTTTTTTCTTTTTTCAT
TTTCATATTTTTGTTCTATGTTGTAATTTTTAATAACTTTTTCCCTTCAAAATTTTCCTTCTTTT
TGCTTTTTTTTCATATGCTTTCAGTGTTACTTGTTTTAATTTTTTCGTTATTTTAAAATATTTTA
TATTTCTTTTTCTTTTTTATTCCAAATCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCTTTTCT
TATTTTTTTTCACAAATTTCCTTTCATTTCTTATTTGCATCTTTAAATTATTAGA
Found at i:41545 original size:19 final size:18
Alignment explanation
Indices: 41506--41551 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
41496 TCTTTGCTCC
41506 TTTTTATTTTTCTGTACT
1 TTTTTATTTTTCTGTACT
*
41524 TTTTATATTTTGTTTGTA-T
1 TTTT-TATTTT-TCTGTACT
41543 TTTTT-TTTT
1 TTTTTATTTT
41552 CTTTTTTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 4 0.16
18 5 0.20
19 11 0.44
20 5 0.20
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTTCTGTACT
Found at i:41551 original size:41 final size:42
Alignment explanation
Indices: 41506--41597 Score: 109
Period size: 41 Copynumber: 2.2 Consensus size: 42
41496 TCTTTGCTCC
41506 TTTTTATTTTTCTGTACTTT-TTATATTTTGTTTG-TATT-TTT
1 TTTTTATTTTTCTGTACTTTATTAT-TTTTGTTTGCT-TTATTT
* * * *
41547 TTTTTCTTTTTTTGTGCTTTATTATTTTTTTTTGCTTTATTT
1 TTTTTATTTTTCTGTACTTTATTATTTTTGTTTGCTTTATTT
41589 TTTTTATTT
1 TTTTTATTT
41598 ATTTTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
41 27 0.63
42 16 0.37
ACGTcount: A:0.10, C:0.05, G:0.07, T:0.78
Consensus pattern (42 bp):
TTTTTATTTTTCTGTACTTTATTATTTTTGTTTGCTTTATTT
Found at i:41576 original size:18 final size:17
Alignment explanation
Indices: 41553--41593 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
41543 TTTTTTTTTC
41553 TTTTTTTGTGCTTTATT
1 TTTTTTTGTGCTTTATT
*
41570 ATTTTTTTTTGCTTTATT
1 -TTTTTTTGTGCTTTATT
41588 TTTTTT
1 TTTTTT
41594 ATTTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.80
Consensus pattern (17 bp):
TTTTTTTGTGCTTTATT
Found at i:41586 original size:15 final size:14
Alignment explanation
Indices: 41564--41624 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
41554 TTTTTTGTGC
41564 TTTA-TTATTTTTT
1 TTTATTTATTTTTT
*
41577 TTTGCTTTA-TTTTT
1 TTT-ATTTATTTTTT
41591 TTTATTTATTTTTT
1 TTTATTTATTTTTT
* * *
41605 TTTAATTCTTTCTT
1 TTTATTTATTTTTT
41619 TTTATT
1 TTTATT
41625 AGTTTGCATA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
13 7 0.18
14 29 0.74
15 3 0.08
ACGTcount: A:0.13, C:0.05, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTATTTATTTTTT
Found at i:41599 original size:28 final size:28
Alignment explanation
Indices: 41540--41607 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
41530 ATTTTGTTTG
*
41540 TATTTTTTTTTTCTTTTTTTGTGCTTTAT
1 TATTTTTTTTTGCTTTTTTTGT-CTTTAT
41569 TATTTTTTTTTGCTTTATTTT-T-TTTATT
1 TATTTTTTTTTGCTTT-TTTTGTCTTTA-T
41597 TATTTTTTTTT
1 TATTTTTTTTT
41608 AATTCTTTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 4 0.11
28 12 0.33
29 16 0.44
30 4 0.11
ACGTcount: A:0.09, C:0.04, G:0.04, T:0.82
Consensus pattern (28 bp):
TATTTTTTTTTGCTTTTTTTGTCTTTAT
Found at i:41620 original size:28 final size:28
Alignment explanation
Indices: 41564--41624 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
41554 TTTTTTGTGC
** *
41564 TTTA-TTATTTTTTTTTGCTTTATTTTT
1 TTTATTTATTTTTTTTTAATTTATTCTT
41591 TTTATTTATTTTTTTTTAATTCT-TTCTT
1 TTTATTTATTTTTTTTTAATT-TATTCTT
41619 TTTATT
1 TTTATT
41625 AGTTTGCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 4 0.14
28 24 0.83
29 1 0.03
ACGTcount: A:0.13, C:0.05, G:0.02, T:0.80
Consensus pattern (28 bp):
TTTATTTATTTTTTTTTAATTTATTCTT
Found at i:41905 original size:22 final size:21
Alignment explanation
Indices: 41875--41915 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
41865 TTTTTTTCAA
41875 ATTTTATTTTATATATTTTGT
1 ATTTTATTTTATATATTTTGT
* *
41896 ATTTTCATTTTTTATTTTTT
1 ATTTT-ATTTTATATATTTT
41916 TCTTGCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
ATTTTATTTTATATATTTTGT
Found at i:42387 original size:16 final size:16
Alignment explanation
Indices: 42368--42405 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
42358 GATTTGCTAA
*
42368 TTTTTTAT-TTTCTTGC
1 TTTTTTATCTTT-TTCC
42384 TTTTTTATCTTTTTCC
1 TTTTTTATCTTTTTCC
42400 TTTTTT
1 TTTTTT
42406 GGTATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.05, C:0.13, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTTTATCTTTTTCC
Found at i:42446 original size:28 final size:27
Alignment explanation
Indices: 42384--42454 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 27
42374 ATTTTCTTGC
* **
42384 TTTTTTATCTTTTTCCTTTTTTGGTAT
1 TTTTTTATTTTTTTCCTTTTTTACTAT
42411 TTTATTTATTTTTTTCCTTTATATTACTA-
1 TTT-TTTATTTTTTTCCTTT-T-TTACTAT
42440 TTTTTTATTTGTTTT
1 TTTTTTATTT-TTTT
42455 TTATTCATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 3 0.08
28 22 0.59
29 8 0.22
30 4 0.11
ACGTcount: A:0.13, C:0.08, G:0.04, T:0.75
Consensus pattern (27 bp):
TTTTTTATTTTTTTCCTTTTTTACTAT
Found at i:42639 original size:17 final size:19
Alignment explanation
Indices: 42619--42660 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
42609 ATGCTTTCAG
42619 TTTTAC-TTGTTTT-AATT
1 TTTTACGTTGTTTTAAATT
42636 TTTT-CGTTGTTTTAAAATT
1 TTTTACGTTGTTTT-AAATT
42655 TTTTAC
1 TTTTAC
42661 ATTTCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.05
17 11 0.52
19 8 0.38
20 1 0.05
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTTACGTTGTTTTAAATT
Found at i:43747 original size:19 final size:18
Alignment explanation
Indices: 43720--43769 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
43710 CCATTTTTGG
43720 TATTT-TATTTTATTTTT
1 TATTTATATTTTATTTTT
* *
43737 TCTTTTATATTACTATTTTT
1 T-ATTTATATT-TTATTTTT
43757 TATTTATATTTTA
1 TATTTATATTTTA
43770 AAAATTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 5 0.19
19 12 0.46
20 8 0.31
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTATATTTTATTTTT
Found at i:44135 original size:15 final size:14
Alignment explanation
Indices: 44101--44138 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
44091 ACTTTTTTTG
44101 TTTTTAT-TTT-AT
1 TTTTTATCTTTGAT
44113 TTTTTATCTTTGAT
1 TTTTTATCTTTGAT
44127 TTTTATATCTTT
1 TTTT-TATCTTT
44139 TTCCTATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 3 0.13
14 6 0.26
15 7 0.30
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTTATCTTTGAT
Found at i:44417 original size:10 final size:10
Alignment explanation
Indices: 44388--44416 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
44378 AAAGTTCAAA
44388 ATTTTTTTTT
1 ATTTTTTTTT
44398 ATTTTTTTTT
1 ATTTTTTTTT
44408 -TTTTTTTTT
1 ATTTTTTTTT
44417 TGCTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.07, C:0.00, G:0.00, T:0.93
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:44722 original size:21 final size:19
Alignment explanation
Indices: 44680--44722 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
44670 TTGCATTAAC
* *
44680 TTTTCTCTTTTTTAATTTT
1 TTTTCTCCTTTTTAATTGT
44699 TTTTCTCACTTTTTATATTGT
1 TTTTCTC-CTTTTTA-ATTGT
44720 TTT
1 TTT
44723 ATTATTAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTCTCCTTTTTAATTGT
Found at i:44766 original size:16 final size:17
Alignment explanation
Indices: 44747--44786 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
44737 ATGTTTTTCA
*
44747 ATTTTTTTCCTTTTT-T
1 ATTTTTTTACTTTTTAT
*
44763 ATTTTCTTACTTTTTAT
1 ATTTTTTTACTTTTTAT
44780 ATTTTTT
1 ATTTTTT
44787 GTTGTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTTTACTTTTTAT
Found at i:45041 original size:15 final size:16
Alignment explanation
Indices: 45023--45055 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45013 TTTATGTGCT
*
45023 TTCA-TTTTTTTTTTG
1 TTCACTTTTTTCTTTG
45038 TTCACTTTTTTCTTTG
1 TTCACTTTTTTCTTTG
45054 TT
1 TT
45056 TTAAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.76
Consensus pattern (16 bp):
TTCACTTTTTTCTTTG
Found at i:45522 original size:18 final size:18
Alignment explanation
Indices: 45501--45567 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 18
45491 TTTTTTTCCT
45501 TTTTTGTATTTTAT-TTAA
1 TTTTT-TATTTTATATTAA
*
45519 TTTTTTCTTTTATATTAA
1 TTTTTTATTTTATATTAA
* * * *
45537 TATTTTCTCTTA-ATTTA
1 TTTTTTATTTTATATTAA
45554 -TTTTTA-TTTATATT
1 TTTTTTATTTTATATT
45568 TTAAAAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
15 3 0.08
16 7 0.17
17 11 0.28
18 19 0.47
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.72
Consensus pattern (18 bp):
TTTTTTATTTTATATTAA
Found at i:45621 original size:25 final size:23
Alignment explanation
Indices: 45593--45653 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 23
45583 AAGTTCAAAA
45593 TTTTTTATTTTTTCATTTTCCTATT
1 TTTTTTATTTTTT--TTTTCCTATT
* *
45618 TTTTTGTCTATTTTTTTTTGCTATT
1 TTTTT-TAT-TTTTTTTTTCCTATT
*
45643 TTTTGTATTTT
1 TTTTTTATTTT
45654 ATAAATTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
23 3 0.10
24 2 0.07
25 18 0.60
26 2 0.07
27 5 0.17
ACGTcount: A:0.10, C:0.08, G:0.05, T:0.77
Consensus pattern (23 bp):
TTTTTTATTTTTTTTTTCCTATT
Found at i:45630 original size:12 final size:13
Alignment explanation
Indices: 45613--45646 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
45603 TTTCATTTTC
45613 CTATTTTTTTGT-
1 CTATTTTTTTGTG
*
45625 CTATTTTTTTTTG
1 CTATTTTTTTGTG
45638 CTATTTTTT
1 CTATTTTTT
45647 GTATTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.76
Consensus pattern (13 bp):
CTATTTTTTTGTG
Found at i:45634 original size:13 final size:13
Alignment explanation
Indices: 45616--45646 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
45606 CATTTTCCTA
45616 TTTTTTTGTCTATT
1 TTTTTTTG-CTATT
45630 TTTTTTTGCTATT
1 TTTTTTTGCTATT
45643 TTTT
1 TTTT
45647 GTATTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.81
Consensus pattern (13 bp):
TTTTTTTGCTATT
Found at i:46029 original size:19 final size:19
Alignment explanation
Indices: 46007--46059 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 19
45997 TTTTTGTATT
46007 TTTTGAACTTTTTT-TTTTA
1 TTTTG-ACTTTTTTATTTTA
*
46026 TTTTGTCTTTTTTA-TTT-
1 TTTTGACTTTTTTATTTTA
*
46043 TCTT-ACTTTTTTATTTT
1 TTTTGACTTTTTTATTTT
46060 TTACTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 8 0.28
17 6 0.21
18 10 0.34
19 5 0.17
ACGTcount: A:0.11, C:0.08, G:0.04, T:0.77
Consensus pattern (19 bp):
TTTTGACTTTTTTATTTTA
Found at i:46051 original size:16 final size:15
Alignment explanation
Indices: 46019--46077 Score: 84
Period size: 16 Copynumber: 3.9 Consensus size: 15
46009 TTGAACTTTT
*
46019 TTTTTTATTTTGT-C
1 TTTTTTATTTTTTAC
46033 TTTTTTATTTTCTTAC
1 TTTTTTATTTT-TTAC
46049 TTTTTTATTTTTTAC
1 TTTTTTATTTTTTAC
46064 TTTTTATATTTTTT
1 TTTTT-TATTTTTT
46078 GTTTTTGTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
14 11 0.27
15 10 0.24
16 20 0.49
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTTTATTTTTTAC
Found at i:46083 original size:16 final size:16
Alignment explanation
Indices: 46017--46083 Score: 57
Period size: 15 Copynumber: 4.3 Consensus size: 16
46007 TTTTGAACTT
* * *
46017 TTTTTTTTATTTTGTC
1 TTTTTTATATTTTTTA
*
46033 TTTTTTAT-TTTCTTA
1 TTTTTTATATTTTTTA
*
46048 CTTTTT-TATTTTTTA
1 TTTTTTATATTTTTTA
* *
46063 CTTTTTATATTTTTTG
1 TTTTTTATATTTTTTA
46079 TTTTT
1 TTTTT
46084 GTTCATCTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
14 1 0.02
15 21 0.51
16 19 0.46
ACGTcount: A:0.10, C:0.06, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTTTATATTTTTTA
Found at i:46111 original size:17 final size:16
Alignment explanation
Indices: 46036--46117 Score: 60
Period size: 16 Copynumber: 4.9 Consensus size: 16
46026 TTTTGTCTTT
*
46036 TTTATTTTCTTACTTT-
1 TTTATTTT-TTATTTTG
46052 TTTATTTTTTACTTTT-
1 TTTATTTTTTA-TTTTG
* *
46068 TATATTTTTTGTTTTTG
1 TTTATTTTTT-ATTTTG
* *
46085 TTCATCTTTTATTTTGG
1 TTTATTTTTTATTTT-G
46102 TTTATTTTTTTATTTT
1 TTTA-TTTTTTATTTT
46118 ATCATTGTTG
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
15 3 0.06
16 28 0.54
17 11 0.21
18 10 0.19
ACGTcount: A:0.12, C:0.06, G:0.05, T:0.77
Consensus pattern (16 bp):
TTTATTTTTTATTTTG
Found at i:46809 original size:19 final size:18
Alignment explanation
Indices: 46782--46830 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
46772 CCATTTTTGG
46782 TATTT-TATTTTATTTTT
1 TATTTATATTTTATTTTT
* *
46799 TCTTTTATATTACTATTTTT
1 T-ATTTATATT-TTATTTTT
46819 TATTTATATTTT
1 TATTTATATTTT
46831 TAAAAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 1 0.04
18 4 0.16
19 12 0.48
20 8 0.32
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (18 bp):
TATTTATATTTTATTTTT
Done.