Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168333.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_556, 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: 22996
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Found at i:3727 original size:22 final size:22
Alignment explanation
Indices: 3701--3744 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
3691 TGTATATTTA
*
3701 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
3723 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
3745 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:7582 original size:22 final size:22
Alignment explanation
Indices: 7556--7599 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
7546 TGTATATTTA
*
7556 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7578 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7600 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:12547 original size:22 final size:20
Alignment explanation
Indices: 12517--12556 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
12507 AGAAATATAC
12517 ATATATATGTGTGTGTGTGTCT
1 ATATATATGTG-GTG-GTGTCT
*
12539 ATATGTATGTGGTGGTGT
1 ATATATATGTGGTGGTGT
12557 ATTATCTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 3 0.18
22 10 0.59
ACGTcount: A:0.17, C:0.03, G:0.33, T:0.47
Consensus pattern (20 bp):
ATATATATGTGGTGGTGTCT
Found at i:13918 original size:82 final size:82
Alignment explanation
Indices: 13781--13934 Score: 254
Period size: 82 Copynumber: 1.9 Consensus size: 82
13771 ACTCATTCTA
* *
13781 AAATCTGCTTATATGCCAAAACATGCAATTTTAGAACAATTATTGTTCATCTCTTTCTATTTTAG
1 AAATCTGCTTATATCCCAAAACATACAATTTTAGAACAATTATTGTTCATCTCTTTCTATTTTAG
13846 TGTTTTTAATTTTTTTT
66 TGTTTTTAATTTTTTTT
** * *
13863 AAATCTGCTTATATCCCAAAACATACAATTTTAGAATGATTATTTTTCATCTCTTTCTCTTTTAG
1 AAATCTGCTTATATCCCAAAACATACAATTTTAGAACAATTATTGTTCATCTCTTTCTATTTTAG
13928 TGTTTTT
66 TGTTTTT
13935 TTTTTCCTTG
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 66 1.00
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (82 bp):
AAATCTGCTTATATCCCAAAACATACAATTTTAGAACAATTATTGTTCATCTCTTTCTATTTTAG
TGTTTTTAATTTTTTTT
Found at i:16376 original size:21 final size:23
Alignment explanation
Indices: 16333--16380 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
16323 ATATAATTTA
* *
16333 AAATGTTAATAAAAATTATAAAT
1 AAATGTTAATAAAAATAAAAAAT
16356 AAAT-TTAAT-AAAATAAAAAAT
1 AAATGTTAATAAAAATAAAAAAT
16377 AAAT
1 AAAT
16381 ATTTTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 14 0.61
22 5 0.22
23 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
AAATGTTAATAAAAATAAAAAAT
Found at i:16430 original size:15 final size:15
Alignment explanation
Indices: 16412--16441 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16402 TTTTTACAAA
16412 ATAAATTATCAATAT
1 ATAAATTATCAATAT
16427 ATAAATTATCAATAT
1 ATAAATTATCAATAT
16442 TTTATATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAATTATCAATAT
Found at i:17364 original size:21 final size:21
Alignment explanation
Indices: 17340--17379 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17330 TATATATATT
17340 TAAAAAAATAATTTTATCTAA
1 TAAAAAAATAATTTTATCTAA
* *
17361 TAAATAAATTATTTTATCT
1 TAAAAAAATAATTTTATCT
17380 TAATTTTCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAAAAAATAATTTTATCTAA
Found at i:17432 original size:5 final size:5
Alignment explanation
Indices: 17418--17458 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
17408 AAATTGATAA
*
17418 TATTT AATTT TATTT TATTT ATAATTT TATTT TATTT TATT
1 TATTT TATTT TATTT TATTT -T-ATTT TATTT TATTT TATT
17459 ATAATCTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 26 0.81
6 2 0.06
7 4 0.12
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (5 bp):
TATTT
Found at i:17444 original size:17 final size:17
Alignment explanation
Indices: 17422--17454 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
17412 TGATAATATT
17422 TAATTTTATTTTATTTA
1 TAATTTTATTTTATTTA
17439 TAATTTTATTTTATTT
1 TAATTTTATTTTATTT
17455 TATTATAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TAATTTTATTTTATTTA
Found at i:17462 original size:21 final size:22
Alignment explanation
Indices: 17414--17468 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
17404 AAATAAATTG
17414 ATAATATTTAATTTTATTTTATTT
1 ATAAT-TTT-ATTTTATTTTATTT
17438 ATAATTTTATTTTATTTTA-TT
1 ATAATTTTATTTTATTTTATTT
*
17459 ATAATCTTAT
1 ATAATTTTAT
17469 ATATCTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 11 0.37
22 11 0.37
23 3 0.10
24 5 0.17
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
ATAATTTTATTTTATTTTATTT
Found at i:18005 original size:16 final size:16
Alignment explanation
Indices: 17980--18013 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
17970 AATTGAATAA
17980 TAAATATA-TTTAAAT
1 TAAATATATTTTAAAT
17995 TAAATTATATTTTAAAT
1 TAAA-TATATTTTAAAT
18012 TA
1 TA
18014 TTAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAATATATTTTAAAT
Found at i:18083 original size:20 final size:22
Alignment explanation
Indices: 18058--18097 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18048 TTATCTAATA
18058 AAATA-TC-AAAATATTATATT
1 AAATATTCTAAAATATTATATT
*
18078 AAATATTCTAATATATTATA
1 AAATATTCTAAAATATTATA
18098 AAATAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 2 0.12
22 10 0.59
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATATTCTAAAATATTATATT
Found at i:18101 original size:20 final size:18
Alignment explanation
Indices: 18055--18102 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 18
18045 AAATTATCTA
18055 ATAAAATATCAAAATATT
1 ATAAAATATCAAAATATT
*
18073 ATATTAAATATTCTAATATATT
1 ATA--AAATA-TC-AAAATATT
18095 ATAAAATA
1 ATAAAATA
18103 AAATAATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 3 0.12
20 10 0.40
21 2 0.08
22 10 0.40
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAAATATCAAAATATT
Found at i:18378 original size:16 final size:15
Alignment explanation
Indices: 18351--18381 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
18341 TTAAATTATA
18351 TTTTAAATTTTAAAT
1 TTTTAAATTTTAAAT
18366 TTTTAATATTTTAAAT
1 TTTTAA-ATTTTAAAT
18382 AAATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTAAATTTTAAAT
Found at i:19215 original size:42 final size:42
Alignment explanation
Indices: 19132--19216 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
19122 TTTGGAGGAG
* ***
19132 TCTTAGGGAGACGAGGAAGCTTAGGAAGGGGAGGGCTTGGCT
1 TCTTAGGGAAACGAGGAAGCTTAGGAAGGGGAGGAAGTGGCT
* * * *
19174 TCTTAGGGAAAGGAGGAATCTTTGGAAGTGGAGGAAGTGGCT
1 TCTTAGGGAAACGAGGAAGCTTAGGAAGGGGAGGAAGTGGCT
19216 T
1 T
19217 GTGAGGAATG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.26, C:0.09, G:0.42, T:0.22
Consensus pattern (42 bp):
TCTTAGGGAAACGAGGAAGCTTAGGAAGGGGAGGAAGTGGCT
Found at i:19307 original size:24 final size:24
Alignment explanation
Indices: 19280--19333 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
19270 GTGGAGGAAG
19280 TGGCTTGCAAGGA-GGGAGAGGGCA
1 TGGCTTGCAAGGACGGG-GAGGGCA
*
19304 TGGCTCGCAAGGACGGGGAGGGCA
1 TGGCTTGCAAGGACGGGGAGGGCA
19328 TGGCTT
1 TGGCTT
19334 CTTAGGGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.20, C:0.17, G:0.48, T:0.15
Consensus pattern (24 bp):
TGGCTTGCAAGGACGGGGAGGGCA
Found at i:19324 original size:69 final size:69
Alignment explanation
Indices: 19154--19305 Score: 195
Period size: 69 Copynumber: 2.2 Consensus size: 69
19144 GAGGAAGCTT
* * * *
19154 AGGAAGGGGAGGGCTTGGCTTCTTAGGGAAAGGAGGAA---TCTTTGGAAGTGGAGGAAGTGGCT
1 AGGAAGGGGAGGGCATGACTTCCTAAGGAAAGGAGGAATCTTCTTTGGAAGTGGAGGAAGTGGCT
**
19216 TGTG
66 TGCA
* *
19220 AGGAATGGGAGGGCATGACTTCCTAAGGAAAGGAGGAATCTTCTTTGGATGTGGAGGAAGTGGCT
1 AGGAAGGGGAGGGCATGACTTCCTAAGGAAAGGAGGAATCTTCTTTGGAAGTGGAGGAAGTGGCT
19285 TGCA
66 TGCA
19289 AGG-AGGGAGAGGGCATG
1 AGGAAGGG-GAGGGCATG
19306 GCTCGCAAGG
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
66 33 0.45
68 3 0.04
69 37 0.51
ACGTcount: A:0.26, C:0.09, G:0.43, T:0.21
Consensus pattern (69 bp):
AGGAAGGGGAGGGCATGACTTCCTAAGGAAAGGAGGAATCTTCTTTGGAAGTGGAGGAAGTGGCT
TGCA
Found at i:19343 original size:93 final size:92
Alignment explanation
Indices: 19226--19677 Score: 582
Period size: 93 Copynumber: 4.9 Consensus size: 92
19216 TGTGAGGAAT
* * *
19226 GGGAGGGCATGACTTCCTAAGGAAAGGAGGAATCTTCTTTGGATGTGGAGGAAGTGGCTTGCAAG
1 GGGAGGGCATGGCTTCTTAGGGAAAGGAGGAATCTTCTTTGGATGTGGAGGAAGTGGCTTGCAAG
*
19291 GAGGGAGAGGGCATGGCTCGCAAGGACG
66 GAGGG-GAGGGCATGGCTCGCAAGGAGG
*
19319 GGGAGGGCATGGCTTCTTAGGGAAAGGAGGAATCTTCTTTGGATGTGGAGGAAGTGGCTTGCACG
1 GGGAGGGCATGGCTTCTTAGGGAAAGGAGGAATCTTCTTTGGATGTGGAGGAAGTGGCTTGCAAG
19384 GAGGGGGAGGGCATGGCAT-GCAAGGAGG
66 GA-GGGGAGGGCATGGC-TCGCAAGGAGG
*
19412 GGGAGGGCATGGCTTCTTAGGGAAAGGAGGAATCTTCTTTGGATGTGGAGGAAGTGGC--G-GA-
1 GGGAGGGCATGGCTTCTTAGGGAAAGGAGGAATCTTCTTTGGATGTGGAGGAAGTGGCTTGCAAG
*
19473 GA-GGAAGGGCATGGCTCGCAAGGAGG
66 GAGGGGAGGGCATGGCTCGCAAGGAGG
* * *
19499 GGGAGGGCATGGCTTCTCAGGGAAAGGAGGAA---TCTTTGGATGTGGAGGATGTGGCTCGCAAG
1 GGGAGGGCATGGCTTCTTAGGGAAAGGAGGAATCTTCTTTGGATGTGGAGGAAGTGGCTTGCAAG
* * *
19561 GAAGGGGA-GACAATGGCTTGCAAGGAAG
66 G-AGGGGAGGGC-ATGGCTCGCAAGGAGG
** *
19589 GGGAGGGCATGGCTTCTTAGGGAAAGGAGGAATCTTTGGACGTGGAGGATGTGGAGGATGTGGCT
1 GGGAGGGCATGGCTTCTTAGGGAAAGGAGGAATC-TT---C-T-TTGGATGTGGAGGAAGTGGCT
19654 TGCAAGGAAGGGGAGGGCATGGCT
60 TGCAAGG-AGGGGAGGGCATGGCT
19678 TCTTAGGGAA
Statistics
Matches: 319, Mismatches: 20, Indels: 34
0.86 0.05 0.09
Matches are distributed among these distances:
84 22 0.07
86 2 0.01
87 53 0.17
88 1 0.00
89 5 0.02
90 48 0.15
91 1 0.00
93 140 0.44
94 5 0.02
97 1 0.00
98 1 0.00
99 38 0.12
100 2 0.01
ACGTcount: A:0.24, C:0.12, G:0.45, T:0.19
Consensus pattern (92 bp):
GGGAGGGCATGGCTTCTTAGGGAAAGGAGGAATCTTCTTTGGATGTGGAGGAAGTGGCTTGCAAG
GAGGGGAGGGCATGGCTCGCAAGGAGG
Found at i:19392 original size:24 final size:23
Alignment explanation
Indices: 19365--19417 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
19355 CTTTGGATGT
* *
19365 GGAGGAAGTGGCTTGCACGGAGGG
1 GGAGGAA-TGGCATGCAAGGAGGG
*
19389 GGAGGGCATGGCATGCAAGGAGGG
1 GGA-GGAATGGCATGCAAGGAGGG
19413 GGAGG
1 GGAGG
19418 GCATGGCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.08
24 20 0.80
25 3 0.12
ACGTcount: A:0.23, C:0.11, G:0.57, T:0.09
Consensus pattern (23 bp):
GGAGGAATGGCATGCAAGGAGGG
Found at i:19418 original size:24 final size:24
Alignment explanation
Indices: 19373--19424 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
19363 GTGGAGGAAG
* *
19373 TGGCTTGCACGGAGGGGGAGGGCA
1 TGGCATGCAAGGAGGGGGAGGGCA
19397 TGGCATGCAAGGAGGGGGAGGGCA
1 TGGCATGCAAGGAGGGGGAGGGCA
19421 TGGC
1 TGGC
19425 TTCTTAGGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.19, C:0.15, G:0.54, T:0.12
Consensus pattern (24 bp):
TGGCATGCAAGGAGGGGGAGGGCA
Found at i:19617 original size:177 final size:183
Alignment explanation
Indices: 19197--19677 Score: 602
Period size: 177 Copynumber: 2.6 Consensus size: 183
19187 AGGAATCTTT
* ** * * * *
19197 GGAAGTGGAGGA-AGTGGCTTGTGAGGAATGGGAGGGCATGACTTCCTAAGGAAAGGAGGAATCT
1 GGAAGGGGAGGACA-TGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGGAATCT
19261 TCTTTGGATGTGGAGGAAGTGGCTTGCAAGGAGGGAGAGGGCATGGCTCGCAAGGACGGGGAGGG
65 TCTTTGGATGTGGAGGAAGTGGC-TGCAAGGAGGGAGAGGGCATGGCTCGCAAGGACGGGGAGGG
* * *
19326 CATGGCTTCTTAGGGAAAGGAGGAATCTTCTTTGGATGTGGAGGAAGTGGCTTGCAC
129 CATGGCTTCTCAGGGAAAGGAGGAA--TTCTTTGGATGTGGAGGAAGTGGCTCGCAA
* * * *
19383 GGAGGGGGAGGGCATGGCATGCAAGGAGGGGGAGGGCATGGCTTCTTAGGGAAAGGAGGAATCTT
1 GGAAGGGGAGGACATGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGGAATCTT
* *
19448 CTTTGGATGTGGAGGAAGTGGC-G-GA-GA-GGA-AGGGCATGGCTCGCAAGGAGGGGGAGGGCA
66 CTTTGGATGTGGAGGAAGTGGCTGCAAGGAGGGAGAGGGCATGGCTCGCAAGGACGGGGAGGGCA
*
19508 TGGCTTCTCAGGGAAAGGAGGAA-TCTTTGGATGTGGAGGATGTGGCTCGCAA
131 TGGCTTCTCAGGGAAAGGAGGAATTCTTTGGATGTGGAGGAAGTGGCTCGCAA
19560 GGAAGGGGA-GACAATGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGGAATCT
1 GGAAGGGGAGGAC-ATGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGGAATC-
** *
19624 TTGGACGTGGAGGATGTGGAGGATGTGGCTTGCAAGGAAGGG-GAGGGCATGGCT
64 TT---C-T-TTGGATGTGGAGGAAGTGGC-TGCAAGG-AGGGAGAGGGCATGGCT
19678 TCTTAGGGAA
Statistics
Matches: 255, Mismatches: 25, Indels: 27
0.83 0.08 0.09
Matches are distributed among these distances:
176 2 0.01
177 82 0.32
178 2 0.01
180 51 0.20
181 4 0.02
182 3 0.01
183 18 0.07
184 1 0.00
185 1 0.00
186 75 0.29
187 2 0.01
188 1 0.00
189 13 0.05
ACGTcount: A:0.25, C:0.11, G:0.45, T:0.19
Consensus pattern (183 bp):
GGAAGGGGAGGACATGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGGAATCTT
CTTTGGATGTGGAGGAAGTGGCTGCAAGGAGGGAGAGGGCATGGCTCGCAAGGACGGGGAGGGCA
TGGCTTCTCAGGGAAAGGAGGAATTCTTTGGATGTGGAGGAAGTGGCTCGCAA
Found at i:19746 original size:15 final size:15
Alignment explanation
Indices: 19728--19759 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19718 TGGCTTGCAA
19728 GGAGGAGGAGGGCAT
1 GGAGGAGGAGGGCAT
*
19743 GGAGGGGGAGGGCAT
1 GGAGGAGGAGGGCAT
19758 GG
1 GG
19760 CTTCTCAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.66, T:0.06
Consensus pattern (15 bp):
GGAGGAGGAGGGCAT
Found at i:19839 original size:150 final size:150
Alignment explanation
Indices: 19635--19912 Score: 538
Period size: 150 Copynumber: 1.9 Consensus size: 150
19625 TGGACGTGGA
19635 GGATGTGGAGGATGTGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTT
1 GGATGTGGAGGATGTGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTT
*
19700 CTTTGGATGTGGAGGAAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCATGGCTTCT
66 CTTTGGATGTGGAGGAAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCACGGCTTCT
19765 CAGGGAAAGGAGGGATCTTT
131 CAGGGAAAGGAGGGATCTTT
19785 GGATGTGGAGGATGTGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTT
1 GGATGTGGAGGATGTGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTT
*
19850 CTTTGGATGTGGAGGAAGTGGCTTGCAGGGAGGAGGAGGGCATGGAGGGGGAGGGCACGGCTT
66 CTTTGGATGTGGAGGAAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCACGGCTT
19913 GCAAGGAGGG
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
150 126 1.00
ACGTcount: A:0.23, C:0.10, G:0.47, T:0.20
Consensus pattern (150 bp):
GGATGTGGAGGATGTGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTT
CTTTGGATGTGGAGGAAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCACGGCTTCT
CAGGGAAAGGAGGGATCTTT
Found at i:19890 original size:69 final size:66
Alignment explanation
Indices: 19747--19894 Score: 208
Period size: 69 Copynumber: 2.2 Consensus size: 66
19737 GGGCATGGAG
* *
19747 GGGGAGGGCATGGCTTCTCAGGGAAAGGAGGGATCTTTGGATGTGGAGGATGTGGCTTGCAAGGA
1 GGGGAGGGCATGGCTTCTCAGGGAAAGGAGGGATCTTTGGATGTGGAGGAAGTGGCTTGCAAGGG
19812 A
66 A
* * *
19813 GGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTTCTTTGGATGTGGAGGAAGTGGCTTGC-A
1 GGGGAGGGCATGGCTTCTCAGGGAAAGGAG---GGATCTTTGGATGTGGAGGAAGTGGCTTGCAA
19877 GGGA
63 GGGA
19881 GGAGGAGGGCATGG
1 GG-GGAGGGCATGG
19895 AGGGGGAGGG
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
66 29 0.40
68 6 0.08
69 38 0.52
ACGTcount: A:0.22, C:0.10, G:0.47, T:0.21
Consensus pattern (66 bp):
GGGGAGGGCATGGCTTCTCAGGGAAAGGAGGGATCTTTGGATGTGGAGGAAGTGGCTTGCAAGGG
A
Found at i:19915 original size:108 final size:108
Alignment explanation
Indices: 19800--20020 Score: 415
Period size: 108 Copynumber: 2.0 Consensus size: 108
19790 TGGAGGATGT
19800 GGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTTCTTTGGATGTGGAGG
1 GGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTTCTTTGGATGTGGAGG
*
19865 AAGTGGCTTGCAGGGAGGAGGAGGGCATGGAGGGGGAGGGCAC
66 AAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCAC
*
19908 GGCTTGCAAGGAGGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTTCTTTGGATGTGGAGG
1 GGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTTCTTTGGATGTGGAGG
*
19973 AAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCAT
66 AAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCAC
20016 GGCTT
1 GGCTT
20021 CTTAGGGAAA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 110 1.00
ACGTcount: A:0.23, C:0.11, G:0.48, T:0.19
Consensus pattern (108 bp):
GGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTTCTTTGGATGTGGAGG
AAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCAC
Found at i:19971 original size:258 final size:258
Alignment explanation
Indices: 19383--20668 Score: 2036
Period size: 258 Copynumber: 5.0 Consensus size: 258
19373 TGGCTTGCAC
* * * *
19383 GGAGGGGGAGGGCATGGCATGCAAGGAGGGGGAGGGCATGGCTTCTTAGGGAAAGGAGGAATCTT
1 GGAGGGGGAGGGCACGGCTTGCAAGGAGGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTT
* * *
19448 CTTTGGATGTGGAGGAAGTGGC--GGAGAGGAAGG-GCATGGCTCGCAAGGAGGGGGAGGGCATG
66 CTTTGGATGTGGAGGAAGTGGCTTGCA-AGG-AGGAGGA-GG---GCATGGAGGGGGAGGGCATG
* * * *
19510 GCTTCTCAGGGAAAGGAGGAATCTTTGGATGTGGAGGATGTGGCTCGCAAGGAAGGGGA-GACAA
125 GCTTCTTAGGGAAAGGAGGGATCTTTGGATGTGGAGGATGTGGCTTGCAAGGAAGGGGAGGGC-A
* * ** ** *
19574 TGGCTTGC--AAGGAAGGGGAGGGC-ATGGCTTCTTAGGGA-AAGGAGGAA-T--CTT---TGGA
189 TGGCTT-CTTAGGGAA-AGGA--GCAAT-G-TTCTT-TCGATGTGGAGGAAGTGGCTTGCAAGGA
* *
19629 CGTGGA-GG-AT
247 GGGGGAGGGCAT
* * * * *
19639 -GTGGAGGA-TG--TGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTT
1 GGAGGGGGAGGGCACGGCTTGCAAGGAGGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTT
19700 CTTTGGATGTGGAGGAAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCATGGCTTCT
66 CTTTGGATGTGGAGGAAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCATGGCTTCT
*
19765 CAGGGAAAGGAGGGATCTTTGGATGTGGAGGATGTGGCTTGCAAGGAAGGGGAGGGCATGGCTTC
131 TAGGGAAAGGAGGGATCTTTGGATGTGGAGGATGTGGCTTGCAAGGAAGGGGAGGGCATGGCTTC
* * *
19830 TTAGGGAAAGGAGCAATGTTCTTTGGATGTGGAGGAAGTGGCTTGCAGGGAGGAGGAGGGCAT
196 TTAGGGAAAGGAGCAATGTTCTTTCGATGTGGAGGAAGTGGCTTGCAAGGAGGGGGAGGGCAT
19893 GGAGGGGGAGGGCACGGCTTGCAAGGAGGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTT
1 GGAGGGGGAGGGCACGGCTTGCAAGGAGGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTT
19958 CTTTGGATGTGGAGGAAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCATGGCTTCT
66 CTTTGGATGTGGAGGAAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCATGGCTTCT
20023 TAGGGAAAGGAGGGATCTTTGGATGTGGAGGATGTGGCTTGCAAGGAAGGGGAGGGCATGGCTTC
131 TAGGGAAAGGAGGGATCTTTGGATGTGGAGGATGTGGCTTGCAAGGAAGGGGAGGGCATGGCTTC
20088 TTAGGGAAAGGAGCAATGTTCTTTCGATGTGGAGGAAGTGGCTTGCAAGGAGGGGGAGGGCAT
196 TTAGGGAAAGGAGCAATGTTCTTTCGATGTGGAGGAAGTGGCTTGCAAGGAGGGGGAGGGCAT
20151 GGAGGGGGAGGGCACGGCTTGCAAGGAGGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTT
1 GGAGGGGGAGGGCACGGCTTGCAAGGAGGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTT
20216 CTTTGGATGTGGAGGAAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCATGGCTTCT
66 CTTTGGATGTGGAGGAAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCATGGCTTCT
20281 TAGGGAAAGGAGGGATCTTTGGATGTGGAGGATGTGGCTTGCAAGGAAGGGGAGGGCATGGCTTC
131 TAGGGAAAGGAGGGATCTTTGGATGTGGAGGATGTGGCTTGCAAGGAAGGGGAGGGCATGGCTTC
20346 TTAGGGAAAGGAGCAATGTTCTTTCGATGTGGAGGAAGTGGCTTGCAAGGAGGGGGAGGGCAT
196 TTAGGGAAAGGAGCAATGTTCTTTCGATGTGGAGGAAGTGGCTTGCAAGGAGGGGGAGGGCAT
20409 GGAGGGGGAGGGCACGGCTTGCAAGGAGGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTT
1 GGAGGGGGAGGGCACGGCTTGCAAGGAGGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTT
20474 CTTTGGATGTGGAGGAAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCATGGCTTCT
66 CTTTGGATGTGGAGGAAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCATGGCTTCT
20539 TAGGGAAAGGAGGGATCTTTGGATGTGGAGGATGTGGCTTGCAAGGAAGGGGAGGGCATGGCTTC
131 TAGGGAAAGGAGGGATCTTTGGATGTGGAGGATGTGGCTTGCAAGGAAGGGGAGGGCATGGCTTC
*
20604 TTAGGGAAAGGAGCAATGTTCCTTCGATGTGGAGGAAGTGGCTTGCAAGGAGGGGGAGGGCAT
196 TTAGGGAAAGGAGCAATGTTCTTTCGATGTGGAGGAAGTGGCTTGCAAGGAGGGGGAGGGCAT
20667 GG
1 GG
20669 TTCGCAAGGA
Statistics
Matches: 979, Mismatches: 31, Indels: 38
0.93 0.03 0.04
Matches are distributed among these distances:
245 3 0.00
246 12 0.01
247 4 0.00
248 3 0.00
249 89 0.09
250 7 0.01
252 81 0.08
253 7 0.01
254 5 0.01
255 12 0.01
256 1 0.00
258 755 0.77
ACGTcount: A:0.23, C:0.11, G:0.47, T:0.19
Consensus pattern (258 bp):
GGAGGGGGAGGGCACGGCTTGCAAGGAGGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTT
CTTTGGATGTGGAGGAAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCATGGCTTCT
TAGGGAAAGGAGGGATCTTTGGATGTGGAGGATGTGGCTTGCAAGGAAGGGGAGGGCATGGCTTC
TTAGGGAAAGGAGCAATGTTCTTTCGATGTGGAGGAAGTGGCTTGCAAGGAGGGGGAGGGCAT
Found at i:19992 original size:150 final size:148
Alignment explanation
Indices: 19883--20162 Score: 411
Period size: 150 Copynumber: 1.9 Consensus size: 148
19873 TGCAGGGAGG
* *
19883 AGGAGGG-C-ATGGAGGGGGAGGGCACGGCTTGCAAGGAGGGGGAGGGCATGGCTTCTTAGGGAA
1 AGGAGGGACTATGGAGGGGGAGGACACGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAA
* *
19946 AGGAGCAATGTTCTTTGGATGTGGAGGAAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAG
66 AGGAGCAATGTTCTTTCGATGTGGAGGAAGTGGCTTGCAAGGAGGAGAAGGGCATGGAGGGGGAG
*
20011 GGCATGGCTTCTTAGGGAA
131 GGAATGGCTTC-TAGGGAA
* * * ***
20030 AGGAGGGATCTTTGGATGTGGAGGATGTGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGA
1 AGGAGGGA-CTATGGAGGGGGAGGACACGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGA
* *
20095 AAGGAGCAATGTTCTTTCGATGTGGAGGAAGTGGCTTGCAAGGAGGGGGAGGGCATGGAGGGGGA
65 AAGGAGCAATGTTCTTTCGATGTGGAGGAAGTGGCTTGCAAGGAGGAGAAGGGCATGGAGGGGGA
20160 GGG
130 GGG
20163 CACGGCTTGC
Statistics
Matches: 120, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
147 7 0.06
149 1 0.01
150 112 0.93
ACGTcount: A:0.23, C:0.10, G:0.49, T:0.19
Consensus pattern (148 bp):
AGGAGGGACTATGGAGGGGGAGGACACGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAA
AGGAGCAATGTTCTTTCGATGTGGAGGAAGTGGCTTGCAAGGAGGAGAAGGGCATGGAGGGGGAG
GGAATGGCTTCTAGGGAA
Found at i:20004 original size:15 final size:15
Alignment explanation
Indices: 19986--20017 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19976 TGGCTTGCAA
19986 GGAGGAGGAGGGCAT
1 GGAGGAGGAGGGCAT
*
20001 GGAGGGGGAGGGCAT
1 GGAGGAGGAGGGCAT
20016 GG
1 GG
20018 CTTCTTAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.66, T:0.06
Consensus pattern (15 bp):
GGAGGAGGAGGGCAT
Found at i:20154 original size:15 final size:15
Alignment explanation
Indices: 20136--20164 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20126 TGGCTTGCAA
20136 GGAGGGGGAGGGCAT
1 GGAGGGGGAGGGCAT
20151 GGAGGGGGAGGGCA
1 GGAGGGGGAGGGCA
20165 CGGCTTGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.69, T:0.03
Consensus pattern (15 bp):
GGAGGGGGAGGGCAT
Found at i:20183 original size:108 final size:108
Alignment explanation
Indices: 20058--20278 Score: 406
Period size: 108 Copynumber: 2.0 Consensus size: 108
20048 TGGAGGATGT
20058 GGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTTCTTTCGATGTGGAGG
1 GGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTTCTTTCGATGTGGAGG
*
20123 AAGTGGCTTGCAAGGAGGGGGAGGGCATGGAGGGGGAGGGCAC
66 AAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCAC
* *
20166 GGCTTGCAAGGAGGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTTCTTTGGATGTGGAGG
1 GGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTTCTTTCGATGTGGAGG
*
20231 AAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCAT
66 AAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCAC
20274 GGCTT
1 GGCTT
20279 CTTAGGGAAA
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 109 1.00
ACGTcount: A:0.23, C:0.11, G:0.48, T:0.19
Consensus pattern (108 bp):
GGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTTCTTTCGATGTGGAGG
AAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCAC
Found at i:20250 original size:150 final size:149
Alignment explanation
Indices: 20142--20420 Score: 391
Period size: 150 Copynumber: 1.9 Consensus size: 149
20132 GCAAGGAGGG
* *
20142 GGAGGG-C-ATGGAGGGGGAGGGCACGGCTTGCAAGGAGGGGGAGGGCATGGCTTCTTAGGGAAA
1 GGAGGGACTATGGAGGGGGAGGACACGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAA
* * *
20205 GGAGCAATGTTCTTTGGATGTGGAGGAAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGG
66 GGAGCAATGTTCTTTCGATGTGGAGGAAGTGGCTTGCAAGGAGGAGAAGGGCATCGAGGGGGAGG
* *
20270 GCATGGCTTCTTAGGGAAA
131 GAATGGCTTCTAAGGGAAA
* * * ***
20289 GGAGGGATCTTTGGATGTGGAGGATGTGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAA
1 GGAGGGA-CTATGGAGGGGGAGGACACGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAA
* * *
20354 AGGAGCAATGTTCTTTCGATGTGGAGGAAGTGGCTTGCAAGGAGGGGGAGGGCATGGAGGGGGAG
65 AGGAGCAATGTTCTTTCGATGTGGAGGAAGTGGCTTGCAAGGAGGAGAAGGGCATCGAGGGGGAG
20419 GG
130 GG
20421 CACGGCTTGC
Statistics
Matches: 119, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
147 6 0.05
149 1 0.01
150 112 0.94
ACGTcount: A:0.23, C:0.10, G:0.49, T:0.19
Consensus pattern (149 bp):
GGAGGGACTATGGAGGGGGAGGACACGGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAA
GGAGCAATGTTCTTTCGATGTGGAGGAAGTGGCTTGCAAGGAGGAGAAGGGCATCGAGGGGGAGG
GAATGGCTTCTAAGGGAAA
Found at i:20262 original size:15 final size:15
Alignment explanation
Indices: 20244--20275 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20234 TGGCTTGCAA
20244 GGAGGAGGAGGGCAT
1 GGAGGAGGAGGGCAT
*
20259 GGAGGGGGAGGGCAT
1 GGAGGAGGAGGGCAT
20274 GG
1 GG
20276 CTTCTTAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.66, T:0.06
Consensus pattern (15 bp):
GGAGGAGGAGGGCAT
Found at i:20412 original size:15 final size:15
Alignment explanation
Indices: 20394--20422 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20384 TGGCTTGCAA
20394 GGAGGGGGAGGGCAT
1 GGAGGGGGAGGGCAT
20409 GGAGGGGGAGGGCA
1 GGAGGGGGAGGGCA
20423 CGGCTTGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.69, T:0.03
Consensus pattern (15 bp):
GGAGGGGGAGGGCAT
Found at i:20441 original size:108 final size:108
Alignment explanation
Indices: 20316--20536 Score: 406
Period size: 108 Copynumber: 2.0 Consensus size: 108
20306 TGGAGGATGT
20316 GGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTTCTTTCGATGTGGAGG
1 GGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTTCTTTCGATGTGGAGG
*
20381 AAGTGGCTTGCAAGGAGGGGGAGGGCATGGAGGGGGAGGGCAC
66 AAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCAC
* *
20424 GGCTTGCAAGGAGGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTTCTTTGGATGTGGAGG
1 GGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTTCTTTCGATGTGGAGG
*
20489 AAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCAT
66 AAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCAC
20532 GGCTT
1 GGCTT
20537 CTTAGGGAAA
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 109 1.00
ACGTcount: A:0.23, C:0.11, G:0.48, T:0.19
Consensus pattern (108 bp):
GGCTTGCAAGGAAGGGGAGGGCATGGCTTCTTAGGGAAAGGAGCAATGTTCTTTCGATGTGGAGG
AAGTGGCTTGCAAGGAGGAGGAGGGCATGGAGGGGGAGGGCAC
Found at i:20520 original size:15 final size:15
Alignment explanation
Indices: 20502--20533 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20492 TGGCTTGCAA
20502 GGAGGAGGAGGGCAT
1 GGAGGAGGAGGGCAT
*
20517 GGAGGGGGAGGGCAT
1 GGAGGAGGAGGGCAT
20532 GG
1 GG
20534 CTTCTTAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.66, T:0.06
Consensus pattern (15 bp):
GGAGGAGGAGGGCAT
Found at i:20661 original size:24 final size:23
Alignment explanation
Indices: 20634--20727 Score: 91
Period size: 24 Copynumber: 3.9 Consensus size: 23
20624 CCTTCGATGT
20634 GGAGGAAGTGGCTT-GCAAGGAGGG
1 GGAGGAA-TGG-TTCGCAAGGAGGG
*
20658 GGAGGGCATGGTTCGCAAGGAGGG
1 GGA-GGAATGGTTCGCAAGGAGGG
* **
20682 GGAGGGCATGGTTCGCAAGGAGAC
1 GGA-GGAATGGTTCGCAAGGAGGG
*
20706 GGAGGGCATGGTTCGCAAGGAG
1 GGA-GGAATGGTTCGCAAGGAG
20728 ACGGAGGGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
23 2 0.03
24 60 0.92
25 3 0.05
ACGTcount: A:0.23, C:0.13, G:0.51, T:0.13
Consensus pattern (23 bp):
GGAGGAATGGTTCGCAAGGAGGG
Found at i:20728 original size:24 final size:24
Alignment explanation
Indices: 20648--20740 Score: 141
Period size: 24 Copynumber: 3.9 Consensus size: 24
20638 GAAGTGGCTT
**
20648 GCAAGGAGGGGGAGGGCATGGTTC
1 GCAAGGAGACGGAGGGCATGGTTC
**
20672 GCAAGGAGGGGGAGGGCATGGTTC
1 GCAAGGAGACGGAGGGCATGGTTC
20696 GCAAGGAGACGGAGGGCATGGTTC
1 GCAAGGAGACGGAGGGCATGGTTC
*
20720 GCAAGGAGACGGAGGGTATGG
1 GCAAGGAGACGGAGGGCATGG
20741 CTTCTTAGGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.24, C:0.13, G:0.52, T:0.12
Consensus pattern (24 bp):
GCAAGGAGACGGAGGGCATGGTTC
Found at i:20985 original size:33 final size:32
Alignment explanation
Indices: 20891--21031 Score: 112
Period size: 33 Copynumber: 4.3 Consensus size: 32
20881 GCTTATATGT
20891 TGGAGGAGGAAGTGGTTTCTTGTATGCTGGAAC
1 TGGAGGAGGAAGTGGTTTCTTGTA-GCTGGAAC
***
20924 TGGAGGAGGTTTATAGACTGGAGGCTTGTAGACTGGAAC
1 TGGAGGAGG---A-AG--TGGTTTCTTGTAG-CTGGAAC
*
20963 TGGAGGAGGAAGTGGTTTCTTGT---T--TAC
1 TGGAGGAGGAAGTGGTTTCTTGTAGCTGGAAC
* *
20990 TGGAGGAGGAAGTGGTTTCTTGTATACCGGAAC
1 TGGAGGAGGAAGTGGTTTCTTGTA-GCTGGAAC
21023 TGGAGGAGG
1 TGGAGGAGG
21032 TTTGTAGATT
Statistics
Matches: 86, Mismatches: 9, Indels: 26
0.71 0.07 0.21
Matches are distributed among these distances:
27 25 0.29
29 1 0.01
33 28 0.33
35 2 0.02
36 2 0.02
37 2 0.02
38 1 0.01
39 25 0.29
ACGTcount: A:0.23, C:0.09, G:0.40, T:0.28
Consensus pattern (32 bp):
TGGAGGAGGAAGTGGTTTCTTGTAGCTGGAAC
Found at i:20992 original size:27 final size:27
Alignment explanation
Indices: 20961--21012 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
20951 GTAGACTGGA
20961 ACTGGAGGAGGAAGTGGTTTCTTGTTT
1 ACTGGAGGAGGAAGTGGTTTCTTGTTT
20988 ACTGGAGGAGGAAGTGGTTTCTTGT
1 ACTGGAGGAGGAAGTGGTTTCTTGT
21013 ATACCGGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.08, G:0.38, T:0.35
Consensus pattern (27 bp):
ACTGGAGGAGGAAGTGGTTTCTTGTTT
Found at i:20993 original size:72 final size:72
Alignment explanation
Indices: 20891--21163 Score: 246
Period size: 72 Copynumber: 3.6 Consensus size: 72
20881 GCTTATATGT
* *
20891 TGGAGGAGGAAGTGGTTTCTTGTATGCTGGAACTGGAGGAGGTTTATAGACTGGAGGCTTGTAGA
1 TGGAGGAGGAAGTGGTTTCTTGTATACTGGAACTGGAGGAGGTTTATAGACTGGAGGTTTGTAGA
*
20956 CTGGAAC
66 TTGGAAC
* *** * *
20963 TGGAGGAGGAAGTGGTTTCTTGTTTACTGGAGGAGGAAGTGGTTTCTTGTATACCGGAACTGGAG
1 TGGAGGAGGAAGTGGTTTCTTGTATACTGGAACTGGAGGAGG----TT-TATA---G-ACT---G
21028 GAGGTTTGTAGATTGGAA-
54 GAGGTTTGTAGATTGGAAC
* * *
21046 TGAGAGGAGGAAGTGGTTT-TTGGTATACTGGAACGGGAGGAGGTTTATAGACAGGAGATTTGTA
1 TG-GAGGAGGAAGTGGTTTCTT-GTATACTGGAACTGGAGGAGGTTTATAGACTGGAGGTTTGTA
21110 GATTGGAAC
64 GATTGGAAC
* * * *
21119 CGGAGG-GAGATGTGGTTTCTCGTATACTGGAACTGGTGGAGGTTT
1 TGGAGGAG-GAAGTGGTTTCTTGTATACTGGAACTGGAGGAGGTTT
21164 GTATATTGGG
Statistics
Matches: 162, Mismatches: 22, Indels: 34
0.74 0.10 0.16
Matches are distributed among these distances:
71 1 0.01
72 88 0.54
73 2 0.01
75 2 0.01
76 3 0.02
77 4 0.02
79 4 0.02
80 3 0.02
81 3 0.02
83 4 0.02
84 48 0.30
ACGTcount: A:0.24, C:0.08, G:0.39, T:0.29
Consensus pattern (72 bp):
TGGAGGAGGAAGTGGTTTCTTGTATACTGGAACTGGAGGAGGTTTATAGACTGGAGGTTTGTAGA
TTGGAAC
Done.