Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167866.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_135, 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: 68447
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.28
File 2 of 2
Found at i:39719 original size:12 final size:11
Alignment explanation
Indices: 39695--39750 Score: 55
Period size: 10 Copynumber: 5.1 Consensus size: 11
39685 GAAAAACTAT
39695 AAAATAG-AAA
1 AAAATAGAAAA
39705 AAAATAGCAAAA
1 AAAATAG-AAAA
*
39717 AAAA-AGATAA
1 AAAATAGAAAA
39727 AAAATAAGAAAA
1 AAAAT-AGAAAA
39739 TAAAATA-AAAA
1 -AAAATAGAAAA
39750 A
1 A
39751 GATTCACAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 15 0.38
11 6 0.15
12 13 0.33
13 5 0.13
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (11 bp):
AAAATAGAAAA
Found at i:39727 original size:30 final size:29
Alignment explanation
Indices: 39693--39753 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
39683 TTGAAAAACT
*
39693 ATAAAATAGAAAAAAATAGCAAA-AAAAAAG
1 ATAAAAAAGAAAAAAATA--AAATAAAAAAG
* *
39723 ATAAAAAATAAGAAAATAAAATAAAAAAG
1 ATAAAAAAGAAAAAAATAAAATAAAAAAG
39752 AT
1 AT
39754 TCACAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 3 0.11
29 9 0.33
30 15 0.56
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.13
Consensus pattern (29 bp):
ATAAAAAAGAAAAAAATAAAATAAAAAAG
Found at i:39875 original size:15 final size:15
Alignment explanation
Indices: 39855--39888 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
39845 AATATAAACG
39855 AAAAAAAAAATACTA
1 AAAAAAAAAATACTA
* *
39870 AAAAAATAACTACTA
1 AAAAAAAAAATACTA
39885 AAAA
1 AAAA
39889 TAAACAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAAAAAAATACTA
Found at i:40082 original size:24 final size:23
Alignment explanation
Indices: 40055--40106 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
40045 AAGGATATAA
40055 AAAATTAAAGACAAAAAATAAAAT
1 AAAATTAAAGACAAAAAAT-AAAT
* * * *
40079 AAAAGTCAATACAAAATATAAAT
1 AAAATTAAAGACAAAAAATAAAT
40102 AAAAT
1 AAAAT
40107 CAAAAGGAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.19
Consensus pattern (23 bp):
AAAATTAAAGACAAAAAATAAAT
Found at i:40504 original size:20 final size:20
Alignment explanation
Indices: 40449--40510 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
40439 AAAAAATAAC
*
40449 AAAAATTAACAATAAAAAA-T
1 AAAAATAAACAA-AAAAAATT
40469 -AAAATAAGTACTAAAAAAAATT
1 AAAAATAA--AC-AAAAAAAATT
*
40491 AAAAATAAACAAAAACAATT
1 AAAAATAAACAAAAAAAATT
40511 TTAAAAAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
19 6 0.17
20 9 0.26
21 10 0.29
22 3 0.09
23 7 0.20
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAAATAAACAAAAAAAATT
Found at i:40559 original size:33 final size:34
Alignment explanation
Indices: 40513--40598 Score: 83
Period size: 33 Copynumber: 2.6 Consensus size: 34
40503 AAACAATTTT
*
40513 AAAAAAGTAAG-AAAATGAAAAAA-TGAGTCAAAAG
1 AAAAAAGTAAGAAAAAT-AAAAAACT-AGTAAAAAG
* *
40547 AAAAAA-TTAGAAAAATAAAAAACTAGTAAAAAT
1 AAAAAAGTAAGAAAAATAAAAAACTAGTAAAAAG
*
40580 AAAAAA-AAAGAAAAA-AAAA
1 AAAAAAGTAAGAAAAATAAAA
40599 GACAATAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
32 4 0.09
33 29 0.64
34 12 0.27
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (34 bp):
AAAAAAGTAAGAAAAATAAAAAACTAGTAAAAAG
Found at i:40567 original size:17 final size:16
Alignment explanation
Indices: 40542--40609 Score: 66
Period size: 17 Copynumber: 4.1 Consensus size: 16
40532 AAAATGAGTC
* *
40542 AAAAGAAAAAATTAGA
1 AAAATAAAAAAATAGA
*
40558 AAAATAAAAAACTAGTA
1 AAAATAAAAAAATAG-A
*
40575 AAAATAAAAAAAAAGA
1 AAAATAAAAAAATAGA
40591 AAAA-AAAAGACAATAGA
1 AAAATAAAA-A-AATAGA
40608 AA
1 AA
40610 CAATTTTAGT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
15 4 0.09
16 19 0.43
17 21 0.48
ACGTcount: A:0.78, C:0.03, G:0.09, T:0.10
Consensus pattern (16 bp):
AAAATAAAAAAATAGA
Found at i:40935 original size:16 final size:17
Alignment explanation
Indices: 40896--40941 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
40886 AGATTAGTGC
40896 AACAAAAAAATAAAAGT
1 AACAAAAAAATAAAAGT
* * *
40913 AAAAAAAAAATTACA-T
1 AACAAAAAAATAAAAGT
40929 AACAAAAAAATAA
1 AACAAAAAAATAA
40942 TATAATGAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.13
Consensus pattern (17 bp):
AACAAAAAAATAAAAGT
Found at i:41059 original size:13 final size:12
Alignment explanation
Indices: 41042--41073 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
41032 CAAAAAGCTT
41042 TAAAAAAAGAAA
1 TAAAAAAAGAAA
41054 TAAAAAAAGAAA
1 TAAAAAAAGAAA
41066 TAAAAAAA
1 TAAAAAAA
41074 TTCTACAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.09
Consensus pattern (12 bp):
TAAAAAAAGAAA
Found at i:41548 original size:17 final size:17
Alignment explanation
Indices: 41524--41563 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
41514 AAATTTTTAT
41524 AAAAAAATAAAAAA-AA
1 AAAAAAATAAAAAATAA
41540 AACAAAAATAAAAAATAA
1 AA-AAAAATAAAAAATAA
41558 AAAAAA
1 AAAAAA
41564 GGAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.09
17 16 0.73
18 4 0.18
ACGTcount: A:0.90, C:0.03, G:0.00, T:0.07
Consensus pattern (17 bp):
AAAAAAATAAAAAATAA
Found at i:41767 original size:45 final size:44
Alignment explanation
Indices: 41712--41797 Score: 104
Period size: 44 Copynumber: 1.9 Consensus size: 44
41702 ACTAATAAAA
41712 ATTTAAAAAATA-AAGA-AAAAAATGACAAAAAGAAAACAAATATTT
1 ATTTAAAAAATACAA-ACAAAAAAT-A-AAAAAGAAAACAAATATTT
* * *
41757 ATTTATAAAATACAAACAAAAAATAAAAAATATAACAAATA
1 ATTTAAAAAATACAAACAAAAAATAAAAAAGAAAACAAATA
41798 ATAAGATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
44 14 0.39
45 13 0.36
46 9 0.25
ACGTcount: A:0.70, C:0.06, G:0.03, T:0.21
Consensus pattern (44 bp):
ATTTAAAAAATACAAACAAAAAATAAAAAAGAAAACAAATATTT
Found at i:41808 original size:17 final size:16
Alignment explanation
Indices: 41777--41819 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
41767 TACAAACAAA
41777 AAATAAAAAATATAAC
1 AAATAAAAAATATAAC
*
41793 AAATAATAAGATATAA-
1 AAATAA-AAAATATAAC
*
41809 AGATAAAAAAT
1 AAATAAAAAAT
41820 TAAAAGAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 4 0.17
16 11 0.48
17 8 0.35
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (16 bp):
AAATAAAAAATATAAC
Found at i:42004 original size:17 final size:17
Alignment explanation
Indices: 41945--42005 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
41935 AGAAAAAAGT
* *
41945 TAAAACAAAATAA-AAA
1 TAAAAAAAAACAAGAAA
41961 TAAAAACAAAACAAAGAAGA
1 TAAAAA-AAAAC-AAGAA-A
41981 GTAAAAAAAAAACAAGAAA
1 -T-AAAAAAAAACAAGAAA
42000 TAAAAA
1 TAAAAA
42006 GAATTTTGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
16 5 0.14
17 9 0.24
18 3 0.08
19 3 0.08
20 6 0.16
21 6 0.16
22 5 0.14
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.08
Consensus pattern (17 bp):
TAAAAAAAAACAAGAAA
Found at i:42311 original size:7 final size:7
Alignment explanation
Indices: 42299--42432 Score: 64
Period size: 7 Copynumber: 18.4 Consensus size: 7
42289 ATAAAGAATT
42299 AAATAAA
1 AAATAAA
42306 AAATAATCCA
1 AAATAA---A
42316 AAATAAA
1 AAATAAA
42323 AAAT-AA
1 AAATAAA
42329 AAAT--A
1 AAATAAA
42334 AAATAAGA
1 AAATAA-A
42342 AAA-AAA
1 AAATAAA
*
42348 ATATTAAA
1 A-AATAAA
42356 GCAAA-ACAA
1 --AAATA-AA
*
42365 AAA-AGAT
1 AAATA-AA
42372 AAATAAA
1 AAATAAA
*
42379 ATATAAA
1 AAATAAA
42386 AATATAAA
1 AA-ATAAA
*
42394 ATATAAA
1 AAATAAA
*
42401 ATATAAA
1 AAATAAA
*
42408 AAGTAAGA
1 AAATAA-A
*
42416 AAATCAA
1 AAATAAA
42423 AAATAAA
1 AAATAAA
42430 AAA
1 AAA
42433 AAAGACAAAT
Statistics
Matches: 100, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
5 5 0.05
6 8 0.08
7 56 0.56
8 20 0.20
9 3 0.03
10 8 0.08
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:42433 original size:15 final size:14
Alignment explanation
Indices: 42315--42433 Score: 59
Period size: 15 Copynumber: 8.3 Consensus size: 14
42305 AAAATAATCC
*
42315 AAAATAAAAA-ATA
1 AAAATAAAAATAAA
42328 AAAAT-AAAATAAGA
1 AAAATAAAAATAA-A
*
42342 AAAA-AAATATTAAA
1 AAAATAAA-AATAAA
* *
42356 GCAAAACAAAAA-AGA
1 --AAAATAAAAATAAA
* *
42371 TAAAT-AAAATATA
1 AAAATAAAAATAAA
42384 AAAATATAAAATATAA
1 AAAATA-AAAATA-AA
* *
42400 AATATAAAAAGTAAG
1 AAAATAAAAA-TAAA
42415 AAAATCAAAAATAAA
1 AAAAT-AAAAATAAA
42430 AAAA
1 AAAA
42434 AAGACAAATT
Statistics
Matches: 80, Mismatches: 13, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
12 8 0.10
13 15 0.19
14 8 0.10
15 28 0.35
16 18 0.22
17 3 0.04
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (14 bp):
AAAATAAAAATAAA
Found at i:42437 original size:22 final size:23
Alignment explanation
Indices: 42363--42442 Score: 69
Period size: 22 Copynumber: 3.6 Consensus size: 23
42353 AAAGCAAAAC
*
42363 AAAAAAGATAAATAAAATATAAA
1 AAAAAAGACAAATAAAATATAAA
* *
42386 AATATAA-A-ATATAAAATATAAA
1 AA-AAAAGACAAATAAAATATAAA
**
42408 AAGTAAGA-AAATCAAAA-ATAAA
1 AAAAAAGACAAAT-AAAATATAAA
42430 AAAAAAGACAAAT
1 AAAAAAGACAAAT
42443 TGAATAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
21 3 0.06
22 30 0.64
23 11 0.23
24 3 0.06
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (23 bp):
AAAAAAGACAAATAAAATATAAA
Found at i:43026 original size:8 final size:8
Alignment explanation
Indices: 43015--43096 Score: 62
Period size: 8 Copynumber: 9.9 Consensus size: 8
43005 AAAAAAAGGA
43015 AAAAATAT
1 AAAAATAT
43023 AAAAATAT
1 AAAAATAT
*
43031 AAAAATAC
1 AAAAATAT
43039 AAAACATTAT
1 AAAA-A-TAT
*
43049 AAAAATTT
1 AAAAATAT
43057 AAGAAAATAT
1 -A-AAAATAT
*
43067 AAATAA-AG
1 AAA-AATAT
43075 AAAGAA-AT
1 AAA-AATAT
43083 AAAAA-AT
1 AAAAATAT
43090 AAAAATA
1 AAAAATA
43097 AAATAAAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
7 9 0.15
8 34 0.56
9 6 0.10
10 12 0.20
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (8 bp):
AAAAATAT
Found at i:43035 original size:18 final size:17
Alignment explanation
Indices: 42999--43189 Score: 77
Period size: 18 Copynumber: 10.8 Consensus size: 17
42989 CAACAACGAT
* *
42999 AAATAAAAAAAAAGGAAA
1 AAATATAAAAAAA-TAAA
*
43017 AAATATAAAAATAT-AA
1 AAATATAAAAAAATAAA
* * *
43033 AAATACAAAACATTATAA
1 AAATATAAAAAAATA-AA
*
43051 AAATTTAAGAAAATATAAA
1 AAATATAA-AAAA-ATAAA
* * *
43070 TAA-AGAAAGAAATAAA
1 AAATATAAAAAAATAAA
*
43086 AAATAAAAATAAAATAAA
1 AAATATAAA-AAAATAAA
* *
43104 AAAT-TAATGCAAAACAAA
1 AAATATAA--AAAAATAAA
*
43122 AAAGATAAATAAAATACAAA
1 AAATATAAA-AAAAT--AAA
* *
43142 AAATCTAAAATAAA-CAA
1 AAATATAAAA-AAATAAA
*
43159 AAATACAATAAAAAGTAAA
1 AAATATAA-AAAAA-TAAA
43178 AAA-ATAAAAAAA
1 AAATATAAAAAAA
43190 CACAAATGAA
Statistics
Matches: 126, Mismatches: 31, Indels: 33
0.66 0.16 0.17
Matches are distributed among these distances:
16 19 0.15
17 25 0.20
18 51 0.40
19 16 0.13
20 15 0.12
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.17
Consensus pattern (17 bp):
AAATATAAAAAAATAAA
Found at i:43186 original size:26 final size:26
Alignment explanation
Indices: 43126--43187 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
43116 AACAAAAAAG
*
43126 ATAAAT-AAAATACAAAAAATCTAAA
1 ATAAATAAAAATACAAAAAAACTAAA
* *
43151 ATAAACAAAAATACAATAAAAAGTAAA
1 ATAAATAAAAATACAA-AAAAACTAAA
43178 A-AAATAAAAA
1 ATAAATAAAAA
43188 AACACAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 5 0.16
26 17 0.55
27 9 0.29
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (26 bp):
ATAAATAAAAATACAAAAAAACTAAA
Found at i:43486 original size:21 final size:21
Alignment explanation
Indices: 43462--43501 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
43452 TTTGTTAATT
*
43462 AAATAAATTACACGATAAATA
1 AAATAAATTACAAGATAAATA
*
43483 AAATAAATTTCAAGATAAA
1 AAATAAATTACAAGATAAA
43502 ATACAAGACG
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:0.62, C:0.07, G:0.05, T:0.25
Consensus pattern (21 bp):
AAATAAATTACAAGATAAATA
Found at i:47053 original size:876 final size:876
Alignment explanation
Indices: 44915--48778 Score: 5963
Period size: 871 Copynumber: 4.5 Consensus size: 876
44905 CATGCCATAG
* * *
44915 AGAGAAAAACAAGAAGAAAACTCCCATACACAGAGCCACACAAATTTTTAATCTTTAAATCCT--
1 AGAGAAAAACAACAAGGAAACTCCCATACACA-A-CCACACAAATTTTTAATCCTTAAATCCTAC
* * * * * *
44978 ACACATAGC--C-ATACAA-CCATAATT---CC--C-CTGCAAGTCATTCTTGGACCACACAACG
64 ACACATA-CAACTTTAGAATCCTTAATTCCCCCTACACTGCAAGTCATTCTTGGAGCACATAGCG
* * *
45033 TATTAAGTTTCATACAGACCATC-AGATCAC-AACCACACT-AA--AAGAACCCAAGGGAATTTT
128 CA-TAAGTTTCATAGAGACCAACGA-ATCACAAACCACACTAAAGGAAGAACCCAA-GGAATTTT
* *
45093 TCAAAGTAAAGTTACAAAACCCTAATTTATGTAAAAATTTAAAAATGACACAAGAAGAATCCAGA
190 CCAAAGTAAAGTTACAAAGCCCTAATTTATGTAAAAATTTAAAAATGACACAAGAAGAATCCAGA
* *
45158 GACAATCTCAATGAGAAAGACATCAACTAAGAGCCTATGACAACATATATTTAGAGTTTCAAAGA
255 GACAATCTCAATGAGAAAGACACCAACTGAGAGCCTATGACAACATATATTTAGAGTTTCAAAGA
*
45223 ATCCAGCAAAAAGAAATAATCTTCCTTTCAAGCATTCAACCACAATGCATATCAAAATTAAATTA
320 ATCCAGCAAAAGGAAATAATCTTCCTTTCAAGCATTCAACCACAATGCATATCAAAATTAAATTA
45288 CAGAAATTGAACCTAGCAAACCAATCTGCCCTGTAACAAATAGAGTGAAACCAACAAAATAAAAA
385 CAGAAATTGAACCTAGCAAACCAATCTGCCCTGTAACAAATAGAGTGAAACCAACAAAATAAAAA
* *
45353 CCTCCCTAAACACATACCTACACACACAAGAGGCACAGAAATTGAATTCACTGCTTGAAACACAC
450 CCTCCCTAAACACATACCTACACACACAAGAGGCACAAAAATTGAATTCACTGCTTGAAGCACAC
* * *
45418 AAGGAGAAAAACAATAGGAAAACTCCCAT-ACACAGCTACATAAATTTTTAATCCTTAAATGCTA
515 AAGGAGAAAAGCAACAGGAAAACTCCCATAACACAGCCACA-AAATTTTTAATCCTTAAATGCTA
45482 CACAACCATAGAAATTTAGAATCCTTAATTCTCCCTACACTAC-AA--AACAAGGAAACTCCCAT
579 CACAACCATAGAAATTTAGAATCCTTAATTC-CCCTACACTACAAAGCAACAAGGAAACTCCCAT
*
45544 ACACATTTAGAGTTTCAAAGAATCCAGTAAAAGGAAATAATCTTCCTTTTAAACATTTGACCACA
643 ACACATTTAGAGTTTCAAAGAATCCAGCAAAAGGAAATAATCTTCCTTTTAAACATTTGACCACA
45609 ATGCATGTCAAAATTAAGTTTCAAAAATTGAACCCAACAAACCAACCTATTCTGTAACAAACAGA
708 ATGCATGTCAAAATTAAGTTTCAAAAATTGAACCCAACAAACCAACCTATTCTGTAACAAACAGA
* *
45674 GTGAAATCAACAAAACAAAAAACTCCTAAAATACACCT--ACACACATCAGACACAAAAATTGAA
773 GTGAAATCAACAAAACAAAAAACTCCCAAAATACACCTACACACACATCAGACACAGAAATTGAA
45737 TTCAGCTAATCATGCAAGCCATTAGCTTAGAGCACACAA
838 TTCAGCTAATCATGCAAGCCATTAGCTTAGAGCACACAA
* *
45776 ATAGAAAAACAACAAGGAAACTCCCATACACAGCCACACAAATTTTTAATCCTTAAATCCT--AC
1 AGAGAAAAACAACAAGGAAACTCCCATACACAACCACACAAATTTTTAATCCTTAAATCCTACAC
* * * *
45839 ACATACAACTTTAGAATACTTAATTCTCCCTACACTGTAAGTCATTCTTGGAGCAC--AGCGCAC
66 ACATACAACTTTAGAATCCTTAATTCCCCCTACACTGCAAGTCATTCTTGGAGCACATAGCGCAT
* *
45902 AAGTTTCATAGAGACCAACAAATCACAAACCACACTAAAGGAAGAACAACCCAAGCAATTTTCCA
131 AAGTTTCATAGAGACCAACGAATCACAAACCACACTAAAGGAAG---AACCCAAGGAATTTTCCA
* * *
45967 AAGTAAAATTACAAAGCCCTAATTTATGTAAAAATTTAAAAATGACACAAGAAAAATCCAGAGAT
193 AAGTAAAGTTACAAAGCCCTAATTTATGTAAAAATTTAAAAATGACACAAGAAGAATCCAGAGAC
* *
46032 TATCTCAATGAGAAAGACATCAACTGAGAGCCTATGACAACATATATTTAGAGTTTCAAAGAATC
258 AATCTCAATGAGAAAGACACCAACTGAGAGCCTATGACAACATATATTTAGAGTTTCAAAGAATC
*
46097 CAGCAAAAGAAAATAATCTTCCTTTCAAGCATTCAACCACAATGCATATCAAAATTAAATTACAG
323 CAGCAAAAGGAAATAATCTTCCTTTCAAGCATTCAACCACAATGCATATCAAAATTAAATTACAG
* *
46162 AAATTGAACCTAGCAAACCAATCTGTCCTGTAACAAATAGAGTAAAACCAACAAAATAAAAACCT
388 AAATTGAACCTAGCAAACCAATCTGCCCTGTAACAAATAGAGTGAAACCAACAAAATAAAAACCT
46227 CCCTAAACACATACCTACACACACAAGAGGCACAAAAATTGAATTCACTGCTTGAAGCACACAAG
453 CCCTAAACACATACCTACACACACAAGAGGCACAAAAATTGAATTCACTGCTTGAAGCACACAAG
* *
46292 GAGAAAAGCAACAGGGAATCTCCCAT-ACACAGCCAC-AAATTTTTAATCCTTAAATGCTACACA
518 GAGAAAAGCAACAGGAAAACTCCCATAACACAGCCACAAAATTTTTAATCCTTAAATGCTACACA
* *
46355 ACCATAGAAATTTAGAATCCTTGATTCCCCTACACTACAAAGCAACAAGAAAACTCCCATACACA
583 ACCATAGAAATTTAGAATCCTTAATTCCCCTACACTACAAAGCAACAAGGAAACTCCCATACAC-
* *
46420 TATTTAGAGTTTCAAAAAATCCAGCAAAAGGAAATAATCTTCCTTCTAAACATTTGACCACAATG
647 -ATTTAGAGTTTCAAAGAATCCAGCAAAAGGAAATAATCTTCCTTTTAAACATTTGACCACAATG
* *
46485 CATGTCAAAATTAAGTTTCAAAAATTGAACCCAACAAACCAACCTGTTCAGTAACAAACAGAGTG
711 CATGTCAAAATTAAGTTTCAAAAATTGAACCCAACAAACCAACCTATTCTGTAACAAACAGAGTG
* *
46550 AAATCAACAAAACAAAAAGCTCCCAAAATACACCTACACACACATCAAACACAGAAATTGAATTC
776 AAATCAACAAAACAAAAAACTCCCAAAATACACCTACACACACATCAGACACAGAAATTGAATTC
* *
46615 AACTAATCATGCAAGCCATTAGCTTAGAGTACACAA
841 AGCTAATCATGCAAGCCATTAGCTTAGAGCACACAA
** *
46651 AGAGAAAAACAACAAAAAAACTCACATACACAACCACACAAATTTTTAATCCTTAAATCCTACAC
1 AGAGAAAAACAACAAGGAAACTCCCATACACAACCACACAAATTTTTAATCCTTAAATCCTACAC
* *
46716 ACATACAACTTTAGAATCCTTAATTCCCCCTACGCTACAAGTCATTCTTGGAGCACATAGCGCAT
66 ACATACAACTTTAGAATCCTTAATTCCCCCTACACTGCAAGTCATTCTTGGAGCACATAGCGCAT
* **
46781 AAGTGTCATAGAGACCAACGAATCACAAACCACACTAAAGGAAGAACCCAAAAAATTTTCCAAAG
131 AAGTTTCATAGAGACCAACGAATCACAAACCACACTAAAGGAAGAACCCAAGGAATTTTCCAAAG
46846 TAAAGTTACAAAGCCCTAATTTATGTAAAAATTTAAAAATGACACAAGAAGAATCCAGAGACAAT
196 TAAAGTTACAAAGCCCTAATTTATGTAAAAATTTAAAAATGACACAAGAAGAATCCAGAGACAAT
*
46911 CTCAATAAGAAAGACACCAACTGAGAGCCTATGACAACATATATTTAGAGTTTCAAAGAATCCAG
261 CTCAATGAGAAAGACACCAACTGAGAGCCTATGACAACATATATTTAGAGTTTCAAAGAATCCAG
* *
46976 CAAAAGGAAATAATATTCCTTTCAAGCATTCAACCACAATACATATCAAAATTAAATTACAGAAA
326 CAAAAGGAAATAATCTTCCTTTCAAGCATTCAACCACAATGCATATCAAAATTAAATTACAGAAA
*
47041 TTGAACCTAGCAAACCAATCTGCCCTGTAACAAATAGAGTGAAACCAACAAAATAAAACCCTCCC
391 TTGAACCTAGCAAACCAATCTGCCCTGTAACAAATAGAGTGAAACCAACAAAATAAAAACCTCCC
* * * * *
47106 TAAACACATACCTACAAACACAAAAGGCACAGAAATCGAATTCAGTGCTTGAAGCACACAAGGAG
456 TAAACACATACCTACACACACAAGAGGCACAAAAATTGAATTCACTGCTTGAAGCACACAAGGAG
* * *
47171 -AAA--AACAGGGAAACTCCAATACACACAGCCACATAAATTTTTAATCCTTAAATGCTACATAA
521 AAAAGCAACAGGAAAACTCCCATA-ACACAGCCACA-AAATTTTTAATCCTTAAATGCTACACAA
*
47233 CCATAGAAATTTAGAATCCTTGATTCCCCCTACACTACAAAGCAACAAGGAAACTCCCATACACA
584 CCATAGAAATTTAGAATCCTTAATT-CCCCTACACTACAAAGCAACAAGGAAACTCCCATACAC-
*
47298 TATTTAGAGTTTCAAAGAATCCAGTAAAAGGAAATAATCTTCCTTTTAAACATTTGACCACAATG
647 -ATTTAGAGTTTCAAAGAATCCAGCAAAAGGAAATAATCTTCCTTTTAAACATTTGACCACAATG
*
47363 CATGTCAAAATTAAGTTTCAAAAATTGAACCCAACAAA-CAACCTGTTCTGTAACAAACAGAGTG
711 CATGTCAAAATTAAGTTTCAAAAATTGAACCCAACAAACCAACCTATTCTGTAACAAACAGAGTG
47427 AAATCAACAAAACAAAAAACTCCCAAAATACACCTACACACACATCAGACACAGAAATTGAATTC
776 AAATCAACAAAACAAAAAACTCCCAAAATACACCTACACACACATCAGACACAGAAATTGAATTC
** *
47492 AGCTAATCATATAAGCCATTAGCTTAAAGCACACAA
841 AGCTAATCATGCAAGCCATTAGCTTAGAGCACACAA
47528 AGAG--AAA-AACAAGGAAACTCCCATACACAACCACACAAATTTTTAATCCTTAAATCCTACAC
1 AGAGAAAAACAACAAGGAAACTCCCATACACAACCACACAAATTTTTAATCCTTAAATCCTACAC
* * * *
47590 ACATACAACTTTAGAATCCTTAATTCTCCTTACACTGCAAGTCGTTCTTGGAGCATATAGCGCAT
66 ACATACAACTTTAGAATCCTTAATTCCCCCTACACTGCAAGTCATTCTTGGAGCACATAGCGCAT
* *
47655 AAGTTTCATAGAGACCAATGAATCACAAACCGCACTAAAGGAAGAACCCAAGGAATTTTCC----
131 AAGTTTCATAGAGACCAACGAATCACAAACCACACTAAAGGAAGAACCCAAGGAATTTTCCAAAG
* *
47716 -AAAGTTACAAAGCCCTAATTTATGTAAAAATTTAAAAATGACATAAGAAGAATCCATAGACAAT
196 TAAAGTTACAAAGCCCTAATTTATGTAAAAATTTAAAAATGACACAAGAAGAATCCAGAGACAAT
* *
47780 CTCAATGAGAAAGACA-C--C-GAGAGCCTATGACAACATATATTTAGAGTTTCAAAGAATCAAA
261 CTCAATGAGAAAGACACCAACTGAGAGCCTATGACAACATATATTTAGAGTTTCAAAGAATCCAG
* *
47841 CAAAAGGAAATAATCTTCCTTTCAAGCATTCAACCACAATGCACATCAAAATTAAATTACAAAAA
326 CAAAAGGAAATAATCTTCCTTTCAAGCATTCAACCACAATGCATATCAAAATTAAATTACAGAAA
*
47906 TTGAACCTAACAAACCAATCTGCCCTGTAACAAATAGAGTGAAACCAACAAAATAAAAACCTCCC
391 TTGAACCTAGCAAACCAATCTGCCCTGTAACAAATAGAGTGAAACCAACAAAATAAAAACCTCCC
* *
47971 TAAACACATACCTACACACACAAGAGGCACAAAAATTGAATTCACTACTTAAAGCACACAAGGAG
456 TAAACACATACCTACACACACAAGAGGCACAAAAATTGAATTCACTGCTTGAAGCACACAAGGAG
* *
48036 AAAAGCAACAGGAAATCTCCCATACACACAACCACATAAATTTTTAATCCTTAAATGCTACACAA
521 AAAAGCAACAGGAAAACTCCCATA-ACACAGCCACA-AAATTTTTAATCCTTAAATGCTACACAA
*
48101 CCATAGAAATTTAGAATCCTTAATTCCCGCTACACTACAAAACAACAAGGAAACTCCCATACACA
584 CCATAGAAATTTAGAATCCTTAATTCCC-CTACACTACAAAGCAACAAGGAAACTCCCATACACA
48166 TTTAGAGTTTCAAAGAATCCAGCAAAAGGAAATAATCTTCCTTTTAAACATTTGACCACAATGCA
648 TTTAGAGTTTCAAAGAATCCAGCAAAAGGAAATAATCTTCCTTTTAAACATTTGACCACAATGCA
* *
48231 CGTCAAAATTAAGTTTCAGAAATTGAACCCAACAAACCAACCTATTCTGTAACAAACAGAGTGAA
713 TGTCAAAATTAAGTTTCAAAAATTGAACCCAACAAACCAACCTATTCTGTAACAAACAGAGTGAA
* *
48296 ATCAACAAAACAAAAAACTTCCAAAATACACCTACACACACATCAGGCACAGAAATTGAATTCAG
778 ATCAACAAAACAAAAAACTCCCAAAATACACCTACACACACATCAGACACAGAAATTGAATTCAG
48361 CTAATCATGCAAGCCATTAGCTTAGAGCACACAA
843 CTAATCATGCAAGCCATTAGCTTAGAGCACACAA
* **
48395 AGAGAAAAACAACAAGGAAACTCCCACACACAGTCACAC--ATTTTTAATCCTTAAATCCTACAC
1 AGAGAAAAACAACAAGGAAACTCCCATACACAACCACACAAATTTTTAATCCTTAAATCCTACAC
* * *
48458 ACATACAACTTTAGAATCCTTAATTCCCCCTATACTGCAAGTCGTTCTTGGAGCACATCGCGCAT
66 ACATACAACTTTAGAATCCTTAATTCCCCCTACACTGCAAGTCATTCTTGGAGCACATAGCGCAT
*
48523 AAGTTTCATAGAGACCAACGAATCACAAACCACACTAAAGGAAGAA--C----AA----CCCAAG
131 AAGTTTCATAGAGACCAACGAATCACAAACCACACTAAAGGAAGAACCCAAGGAATTTTCCAAAG
* ** * * *
48578 GAATTTTCCAAAGCCCTAATTTATGTAAAAGTTTAAAAATGAAACAAGAAGAAT-CA-AGACAAT
196 TAAAGTTACAAAGCCCTAATTTATGTAAAAATTTAAAAATGACACAAGAAGAATCCAGAGACAAT
*
48641 CTCAATGAGAAAGACACCAACTGAGAGGCTATG-------ATATTTAGAGTTTCAAAGAATCCAG
261 CTCAATGAGAAAGACACCAACTGAGAGCCTATGACAACATATATTTAGAGTTTCAAAGAATCCAG
* * * **
48699 CAAAAGGAAATAATCTTCCTTTTAAGCATTCAAGCC-CAATGCATGTCAAAATTAAGTTTTAGAA
326 CAAAAGGAAATAATCTTCCTTTCAAGCATTCAA-CCACAATGCATATCAAAATTAAATTACAGAA
* *
48763 ATTTAACCTAACAAAC
390 ATTGAACCTAGCAAAC
48779 AGAGTGAAAC
Statistics
Matches: 2781, Mismatches: 170, Indels: 107
0.91 0.06 0.03
Matches are distributed among these distances:
858 95 0.03
859 36 0.01
860 1 0.00
861 56 0.02
862 11 0.00
863 47 0.02
864 1 0.00
865 257 0.09
866 118 0.04
867 131 0.05
868 272 0.10
869 138 0.05
870 26 0.01
871 373 0.13
872 7 0.00
873 172 0.06
874 167 0.06
875 132 0.05
876 327 0.12
877 228 0.08
878 138 0.05
879 48 0.02
ACGTcount: A:0.45, C:0.23, G:0.11, T:0.22
Consensus pattern (876 bp):
AGAGAAAAACAACAAGGAAACTCCCATACACAACCACACAAATTTTTAATCCTTAAATCCTACAC
ACATACAACTTTAGAATCCTTAATTCCCCCTACACTGCAAGTCATTCTTGGAGCACATAGCGCAT
AAGTTTCATAGAGACCAACGAATCACAAACCACACTAAAGGAAGAACCCAAGGAATTTTCCAAAG
TAAAGTTACAAAGCCCTAATTTATGTAAAAATTTAAAAATGACACAAGAAGAATCCAGAGACAAT
CTCAATGAGAAAGACACCAACTGAGAGCCTATGACAACATATATTTAGAGTTTCAAAGAATCCAG
CAAAAGGAAATAATCTTCCTTTCAAGCATTCAACCACAATGCATATCAAAATTAAATTACAGAAA
TTGAACCTAGCAAACCAATCTGCCCTGTAACAAATAGAGTGAAACCAACAAAATAAAAACCTCCC
TAAACACATACCTACACACACAAGAGGCACAAAAATTGAATTCACTGCTTGAAGCACACAAGGAG
AAAAGCAACAGGAAAACTCCCATAACACAGCCACAAAATTTTTAATCCTTAAATGCTACACAACC
ATAGAAATTTAGAATCCTTAATTCCCCTACACTACAAAGCAACAAGGAAACTCCCATACACATTT
AGAGTTTCAAAGAATCCAGCAAAAGGAAATAATCTTCCTTTTAAACATTTGACCACAATGCATGT
CAAAATTAAGTTTCAAAAATTGAACCCAACAAACCAACCTATTCTGTAACAAACAGAGTGAAATC
AACAAAACAAAAAACTCCCAAAATACACCTACACACACATCAGACACAGAAATTGAATTCAGCTA
ATCATGCAAGCCATTAGCTTAGAGCACACAA
Found at i:59756 original size:8 final size:8
Alignment explanation
Indices: 59743--59767 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
59733 TTACAGCTGG
59743 TTGTAATC
1 TTGTAATC
59751 TTGTAATC
1 TTGTAATC
59759 TTGTAATC
1 TTGTAATC
59767 T
1 T
59768 GTATATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (8 bp):
TTGTAATC
Found at i:59802 original size:22 final size:22
Alignment explanation
Indices: 59777--59820 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
59767 TGTATATTTA
*
59777 TATTTGTATATCTAGAATTAAG
1 TATTTGTATACCTAGAATTAAG
*
59799 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATACCTAGAATTAAG
59821 GAAGATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATACCTAGAATTAAG
Found at i:63701 original size:22 final size:22
Alignment explanation
Indices: 63676--63719 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
63666 TGTATATTTA
*
63676 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
63698 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
63720 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:66082 original size:164 final size:160
Alignment explanation
Indices: 65798--66104 Score: 465
Period size: 163 Copynumber: 1.9 Consensus size: 160
65788 ATGTTAAAAC
* * *
65798 TTCAACCATTAAGGAACTAGTAGAATGAGACAGGAAAAGGTTCTGTGGCGGTAGACCAGAAAGTA
1 TTCAACCATTAAGGAACTAGTAGAATGAGACAGGAAAAGGATCTGTGGCGATAGACCAGAAACTA
*
65863 TCAATTCAAGGTGGTTGATTCTTACAGGATAATGAGAATGAAAGGATCAAATCAGACTGGTTGCT
66 TCAATTCAAGGTGGTTGATTCTTACAGGATAATGAGAACGAAAGGATCAAATCAGACTGG-T--T
65928 TCTGATTATATTACTTGTCATTCTATAAACACT
128 TCTGATTATATTACTTGTCATTCTATAAACACT
* *
65961 TTCAACACATTAAGGAACTAGTAGAATGAGAGA-TAAAAGGATCTG-GTGCGATAGACCAGAAAC
1 TTCAAC-CATTAAGGAACTAGTAGAATGAGACAGGAAAAGGATCTGTG-GCGATAGACCAGAAAC
* * *
66024 TATCAATTCAAGGTGGTTGCTTGTTACAGTATAATGAGAACGTAAAGGATCAAATCAGACTGGTT
64 TATCAATTCAAGGTGGTTGATTCTTACAGGATAATGAGAACG-AAAGGATCAAATCAGACTGGTT
66089 TCTGATTATATTACTT
128 TCTGATTATATTACTT
66105 ATGTTTTAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
161 17 0.13
162 1 0.01
163 69 0.52
164 45 0.34
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (160 bp):
TTCAACCATTAAGGAACTAGTAGAATGAGACAGGAAAAGGATCTGTGGCGATAGACCAGAAACTA
TCAATTCAAGGTGGTTGATTCTTACAGGATAATGAGAACGAAAGGATCAAATCAGACTGGTTTCT
GATTATATTACTTGTCATTCTATAAACACT
Done.