Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168079.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_327, 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: 34426
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.37
Found at i:3130 original size:33 final size:33
Alignment explanation
Indices: 3093--3206 Score: 149
Period size: 33 Copynumber: 3.5 Consensus size: 33
3083 AACTATAGTA
* *
3093 GCTTCAGAGGCAGATGAAAAAATCTCAGAAGTT
1 GCTTCAGAGGCTGATGAAAAGATCTCAGAAGTT
*
3126 GCTTCAGAGTCTGATGAAAAGATCTCAGAAG-T
1 GCTTCAGAGGCTGATGAAAAGATCTCAGAAGTT
* *
3158 GACTTCAGAGGCTGATGAAAAGATCTCAGTAGTG
1 G-CTTCAGAGGCTGATGAAAAGATCTCAGAAGTT
* *
3192 GCTTTAAAGGCTGAT
1 GCTTCAGAGGCTGAT
3207 TGGTTGATGG
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
32 2 0.03
33 68 0.96
34 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (33 bp):
GCTTCAGAGGCTGATGAAAAGATCTCAGAAGTT
Found at i:7330 original size:29 final size:31
Alignment explanation
Indices: 7298--7376 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 31
7288 TTATATAAAA
7298 AAATAAATTCTTAATTTTTAATATCAT-TC-
1 AAATAAATTCTTAATTTTTAATATCATATCT
* * * *
7327 AAAT-AATT-TTTATTTTTTATTTTATATCT
1 AAATAAATTCTTAATTTTTAATATCATATCT
7356 AAATAAATTCTTAAATTTTTA
1 AAATAAATTCTT-AATTTTTA
7377 TTTTTATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
27 13 0.33
28 6 0.15
29 8 0.21
30 4 0.10
31 2 0.05
32 6 0.15
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.54
Consensus pattern (31 bp):
AAATAAATTCTTAATTTTTAATATCATATCT
Found at i:7391 original size:30 final size:29
Alignment explanation
Indices: 7240--7391 Score: 87
Period size: 30 Copynumber: 5.1 Consensus size: 29
7230 AAAATAATAA
*
7240 AAATTTTTAAATTTTTTATTTTGT-TTAAAT
1 AAATTCTTAAA-TTTTTATTTT-TATTAAAT
* * * * **
7270 AAACTTTTTATATTTTTGTTATATAAAAAAAT
1 AAA-TTCTTAAATTTTTATT-T-TTATTAAAT
* * *
7302 AAATTCTT-AATTTTTAATATCATTCAAAT
1 AAATTCTTAAATTTTTATTTTTATT-AAAT
* *
7331 -AATT-TTTATTTTTTATTTTATATCTAAAT
1 AAATTCTTAAATTTTTATTTT-TAT-TAAAT
7360 AAATTCTTAAATTTTTATTTTTATATAAAT
1 AAATTCTTAAATTTTTATTTTTAT-TAAAT
7390 AA
1 AA
7392 GTTACTAATA
Statistics
Matches: 92, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
27 2 0.02
28 15 0.16
29 10 0.11
30 32 0.35
31 25 0.27
32 8 0.09
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (29 bp):
AAATTCTTAAATTTTTATTTTTATTAAAT
Found at i:9587 original size:23 final size:21
Alignment explanation
Indices: 9507--9580 Score: 97
Period size: 18 Copynumber: 3.8 Consensus size: 21
9497 ATCATGCAAC
9507 ATCATGCAATAATATAATAT-
1 ATCATGCAATAATATAATATA
*
9527 ATCATACAAT--TATAATATA
1 ATCATGCAATAATATAATATA
9546 ATCATGCAA-AA-A-AATATA
1 ATCATGCAATAATATAATATA
9564 ATCATGCAATAATATAA
1 ATCATGCAATAATATAA
9581 CATATAAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
18 23 0.50
19 11 0.24
20 10 0.22
21 2 0.04
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.31
Consensus pattern (21 bp):
ATCATGCAATAATATAATATA
Found at i:9624 original size:21 final size:21
Alignment explanation
Indices: 9582--9625 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
9572 ATAATATAAC
* * *
9582 ATATAAATTATCATGTAGTTA
1 ATATAAAATATCATGCAATTA
9603 ATATAAAATATCATGCAATTA
1 ATATAAAATATCATGCAATTA
9624 AT
1 AT
9626 TAATAATCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (21 bp):
ATATAAAATATCATGCAATTA
Found at i:9713 original size:3 final size:3
Alignment explanation
Indices: 9707--9735 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9697 TTTTATTAAT
9707 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
9736 TAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:9791 original size:19 final size:19
Alignment explanation
Indices: 9758--9805 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
9748 TGTAACACAT
*
9758 AAAAAAAAT--AGAGAATG
1 AAAAAAAATAAAGAGAAAG
* *
9775 GAAATAAATAAAGAGAAAG
1 AAAAAAAATAAAGAGAAAG
9794 AAAAAAAATAAA
1 AAAAAAAATAAA
9806 AAATAAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 7 0.29
19 17 0.71
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (19 bp):
AAAAAAAATAAAGAGAAAG
Found at i:11419 original size:17 final size:17
Alignment explanation
Indices: 11399--11595 Score: 59
Period size: 17 Copynumber: 11.5 Consensus size: 17
11389 CAAATTTTGT
*
11399 AAAGATTCAAGATTCAC
1 AAAGATTCAAGATTCGC
* *
11416 AAAGGTTTCTAGATTCGC
1 AAA-GATTCAAGATTCGC
* *
11434 -AAGAATTCAAGTTTCGT
1 AAAG-ATTCAAGATTCGC
*
11451 AAAGATTCCAA-AGTTCGT
1 AAAGATT-CAAGA-TTCGC
* *
11469 AAATGACTCAAGATTCTC
1 AAA-GATTCAAGATTCGC
* * *
11487 AGAAGTTTC-ACATTCAC
1 A-AAGATTCAAGATTCGC
* * * *
11504 AAAGATTCCATATTTGT
1 AAAGATTCAAGATTCGC
* *
11521 AATA-ATCCAAGTTTCGC
1 AA-AGATTCAAGATTCGC
* * *
11538 AGAGGTTTCAA-ATTCGT
1 A-AAGATTCAAGATTCGC
*
11555 AAAGATTCCAA-ATTCGT
1 AAAGATT-CAAGATTCGC
11572 AAAGATTTCAA-ATTCGC
1 AAAGA-TTCAAGATTCGC
11589 -AAGATTC
1 AAAGATTC
11596 TAACTTTCAC
Statistics
Matches: 132, Mismatches: 34, Indels: 30
0.67 0.17 0.15
Matches are distributed among these distances:
15 3 0.02
16 15 0.11
17 65 0.49
18 43 0.33
19 6 0.05
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (17 bp):
AAAGATTCAAGATTCGC
Found at i:11588 original size:51 final size:51
Alignment explanation
Indices: 11386--11589 Score: 148
Period size: 51 Copynumber: 3.9 Consensus size: 51
11376 TTTGTAATGA
* ** * *
11386 TTTCAAATTTTGTAAAGATT-CAAGATTCACAAAGGTTTCTAGATTCGCAAGAA-
1 TTTCAAA-TTCGTAAAGATTCCAA-ATTCGTAAA-GATTCAAGATTCGC-AGAAG
* * *
11439 -TTCAAGTTTCGTAAAGATTCCAAAGTTCGTAAATGACTCAAGATTCTCAGAAG
1 TTTCAA-ATTCGTAAAGATTCCAAA-TTCGTAAA-GATTCAAGATTCGCAGAAG
* ** * * * * *
11492 TTTCACATTCACAAAGATTCCATATTTGTAATA-ATCCAAGTTTCGCAGAGG
1 TTTCAAATTCGTAAAGATTCCAAATTCGTAA-AGATTCAAGATTCGCAGAAG
11543 TTTCAAATTCGTAAAGATTCCAAATTCGTAAAGATTTCAA-ATTCGCA
1 TTTCAAATTCGTAAAGATTCCAAATTCGTAAAGA-TTCAAGATTCGCA
11590 AGATTCTAAC
Statistics
Matches: 116, Mismatches: 27, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
50 1 0.01
51 46 0.40
52 31 0.27
53 34 0.29
54 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (51 bp):
TTTCAAATTCGTAAAGATTCCAAATTCGTAAAGATTCAAGATTCGCAGAAG
Found at i:11594 original size:16 final size:17
Alignment explanation
Indices: 11543--11587 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
11533 TTCGCAGAGG
11543 TTTCAAATTCGTAAAGA
1 TTTCAAATTCGTAAAGA
*
11560 TTCCAAATTCGTAAAGA
1 TTTCAAATTCGTAAAGA
11577 TTTCAAATTCG
1 TTTCAAATTCG
11588 CAAGATTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (17 bp):
TTTCAAATTCGTAAAGA
Found at i:11943 original size:44 final size:43
Alignment explanation
Indices: 11893--12029 Score: 139
Period size: 44 Copynumber: 3.1 Consensus size: 43
11883 ATTCACTTGC
* * *
11893 TTTCATTCAAAAATTTTATAAATTTACACCCAAAAGTTAAAAAT
1 TTTCATTCAAAAATTTTA-AAATTCACATCCAAAAGTTAAAGAT
* * *
11937 TTTCATTTAAAAAATTTAAAGATTCACATCCAAAATTTCAAAGAT
1 TTTCATTCAAAAATTTTAAA-ATTCACATCCAAAAGTT-AAAGAT
** * *
11982 TCACATTCGAAAAATTTTAGATATTCACATTCAAAAGTTAAAGAT
1 TTTCATTC-AAAAATTTTA-AAATTCACATCCAAAAGTTAAAGAT
12027 TTT
1 TTT
12030 TATTTGAAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
43 2 0.03
44 30 0.41
45 17 0.23
46 24 0.32
47 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.36
Consensus pattern (43 bp):
TTTCATTCAAAAATTTTAAAATTCACATCCAAAAGTTAAAGAT
Found at i:11979 original size:22 final size:21
Alignment explanation
Indices: 11947--12027 Score: 81
Period size: 22 Copynumber: 3.7 Consensus size: 21
11937 TTTCATTTAA
11947 AAAATTTAAAGATTCACATCC
1 AAAATTTAAAGATTCACATCC
*
11968 AAAATTTCAAAGATTCACATTCGA
1 AAAATTT-AAAGATTCACA-TC-C
* * *
11992 AAAATTTTAGATATTCACATTC
1 AAAA-TTTAAAGATTCACATCC
*
12014 AAAAGTTAAAGATT
1 AAAATTTAAAGATT
12028 TTTATTTGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 14 0.29
22 15 0.31
23 3 0.06
24 13 0.27
25 3 0.06
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAATTTAAAGATTCACATCC
Found at i:12017 original size:90 final size:89
Alignment explanation
Indices: 11896--12093 Score: 254
Period size: 90 Copynumber: 2.2 Consensus size: 89
11886 CACTTGCTTT
* * * *
11896 CATTCAAAAATTTTATAAATTTACACCCAAAAGTTAAAAATTTTCATTTAAAAAATTTAAAGATT
1 CATTCAAAAATTTTAGATATTCACACCCAAAAGTTAAAAATTTTCATTTAAAAAACTTAAAGATT
*
11961 CACATCCAAAA-TTTCAAAGATTCA
66 CACAT-AAAAACTTTCAAAGATTCA
** * * * *
11985 CATTCGAAAAATTTTAGATATTCACATTCAAAAGTTAAAGATTTTTATTTGAAAAACTTAGAGAT
1 CATTC-AAAAATTTTAGATATTCACACCCAAAAGTTAAAAATTTTCATTTAAAAAACTTAAAGAT
*
12050 TCAGATAAAAACTTTCAAAGATTCA
65 TCACATAAAAACTTTCAAAGATTCA
12075 CATTCAAAAAATTTTAGAT
1 CATTC-AAAAATTTTAGAT
12094 TCATATCCAA
Statistics
Matches: 94, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
89 9 0.10
90 85 0.90
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (89 bp):
CATTCAAAAATTTTAGATATTCACACCCAAAAGTTAAAAATTTTCATTTAAAAAACTTAAAGATT
CACATAAAAACTTTCAAAGATTCA
Found at i:13210 original size:13 final size:13
Alignment explanation
Indices: 13178--13215 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
13168 ACCTTTTTTA
*
13178 TTTTTTTGCACATC
1 TTTTTTT-CTCATC
13192 -TTTTTTCTCATC
1 TTTTTTTCTCATC
13204 TTTTTTTCTCAT
1 TTTTTTTCTCAT
13216 TTCTCCTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.11, C:0.21, G:0.03, T:0.66
Consensus pattern (13 bp):
TTTTTTTCTCATC
Found at i:16679 original size:2 final size:2
Alignment explanation
Indices: 16674--16712 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
16664 AGTAGGCATA
*
16674 AT AT AT AT AT AT AT AT AT AT AT AT AT AG A- AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16713 AATACAAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:16768 original size:23 final size:24
Alignment explanation
Indices: 16742--16790 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
16732 AAGGGTTAGT
16742 ATGC-AAATAATATATACAAA-AAA
1 ATGCTAAATAA-ATATACAAACAAA
* *
16765 ATGCTATATAAATTTACAAACAAA
1 ATGCTAAATAAATATACAAACAAA
16789 AT
1 AT
16791 AAACATCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.59, C:0.10, G:0.04, T:0.27
Consensus pattern (24 bp):
ATGCTAAATAAATATACAAACAAA
Found at i:18088 original size:19 final size:19
Alignment explanation
Indices: 18057--18115 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 19
18047 ATGCAATAAT
*
18057 ATAATAT-ATCATACAATT
1 ATAATATAATCATACAATA
* *
18075 ATAATTTAATCATACAAAA
1 ATAATATAATCATACAATA
*
18094 ATAATATAATCATGCAATA
1 ATAATATAATCATACAATA
18113 ATA
1 ATA
18116 TAATATATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
18 6 0.18
19 28 0.82
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (19 bp):
ATAATATAATCATACAATA
Found at i:18146 original size:21 final size:21
Alignment explanation
Indices: 18120--18188 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
18110 ATAATATAAT
* *
18120 ATATAAATTATGATGCAATTA
1 ATATAAATTATCATGCAAATA
* *
18141 ATATAAAATATCATGCAAGTA
1 ATATAAATTATCATGCAAATA
* *
18162 AT-T-AATAATCATGCAAAAA
1 ATATAAATTATCATGCAAATA
18181 ATATAAAT
1 ATATAAAT
18189 AAAAACAACA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 14 0.36
20 2 0.05
21 23 0.59
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (21 bp):
ATATAAATTATCATGCAAATA
Found at i:18254 original size:3 final size:3
Alignment explanation
Indices: 18246--18341 Score: 57
Period size: 3 Copynumber: 32.0 Consensus size: 3
18236 TTCTTTTAAC
* * * * * * *
18246 TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA CAA CAA CAA CAA CAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * *
18294 CAA TAA CAA TAA CAA TAA CAA CAA CAA CAA CAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18342 AAAAATGGAA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.18
Consensus pattern (3 bp):
TAA
Found at i:18257 original size:6 final size:6
Alignment explanation
Indices: 18242--18341 Score: 83
Period size: 6 Copynumber: 16.5 Consensus size: 6
18232 TTCATTCTTT
* * * * * * *
18242 TAACTAA TAATAA TAATAA TAATAA TAATAA CAACAA CAACAA CAACAA
1 TAAC-AA TAACAA TAACAA TAACAA TAACAA TAACAA TAACAA TAACAA
* * * * *
18291 CAACAA TAACAA TAACAA TAACAA CAACAA CAACAA TAATAA TAATAA
1 TAACAA TAACAA TAACAA TAACAA TAACAA TAACAA TAACAA TAACAA
18339 TAA
1 TAA
18342 AAAAATGGAA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
6 83 0.97
7 3 0.03
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.18
Consensus pattern (6 bp):
TAACAA
Found at i:18260 original size:9 final size:9
Alignment explanation
Indices: 18242--18341 Score: 71
Period size: 9 Copynumber: 11.3 Consensus size: 9
18232 TTCATTCTTT
18242 TAACTAATAA
1 TAAC-AATAA
*
18252 TAATAATAA
1 TAACAATAA
*
18261 TAATAATAA
1 TAACAATAA
*
18270 TAACAACAA
1 TAACAATAA
* *
18279 CAACAACAA
1 TAACAATAA
* *
18288 CAACAACAA
1 TAACAATAA
18297 TAAC---AA
1 TAACAATAA
18303 TAACAATAA
1 TAACAATAA
* *
18312 CAACAACAA
1 TAACAATAA
*
18321 CAACAATAA
1 TAACAATAA
*
18330 TAATAATAA
1 TAACAATAA
18339 TAA
1 TAA
18342 AAAAATGGAA
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
6 6 0.08
9 68 0.88
10 3 0.04
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.18
Consensus pattern (9 bp):
TAACAATAA
Found at i:19922 original size:2 final size:2
Alignment explanation
Indices: 19915--19945 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19905 TATTACAGTT
19915 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19946 CTAATGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21087 original size:29 final size:29
Alignment explanation
Indices: 21028--21094 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
21018 TGACACTGTA
* *
21028 TTTCAATTTATTGAATTTTATCATTATAC
1 TTTCAATTTATTGAATTTTATCACTACAC
* *
21057 TTTTAATTTAATTGAA-TTTATCACTCCAC
1 TTTCAATTT-ATTGAATTTTATCACTACAC
21086 TTTCAATTT
1 TTTCAATTT
21095 TATTATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 26 0.81
30 6 0.19
ACGTcount: A:0.30, C:0.13, G:0.03, T:0.54
Consensus pattern (29 bp):
TTTCAATTTATTGAATTTTATCACTACAC
Found at i:22062 original size:21 final size:21
Alignment explanation
Indices: 22048--22085 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22038 TTTTTCTATC
22048 ATTTT-TA-TTATTTTTTAAT
1 ATTTTCTAGTTATTTTTTAAT
22067 ATTTTCTAGTTATTTTTTA
1 ATTTTCTAGTTATTTTTTA
22086 TGTTTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (21 bp):
ATTTTCTAGTTATTTTTTAAT
Found at i:23030 original size:1 final size:1
Alignment explanation
Indices: 23024--23049 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
23014 GTTAGAGGAG
23024 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
23050 GGTTTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:24151 original size:50 final size:51
Alignment explanation
Indices: 24007--24178 Score: 181
Period size: 50 Copynumber: 3.4 Consensus size: 51
23997 GATGCTCAAT
* * *
24007 AACTTTAAAAAT-TCTCATCTTGAAAAAGGTTCATCTAAGTAGAGGTTTAAC
1 AACTTTAAAAATCT-TCATCTTGAAAAAAGCTCATCTAAGTAAAGGTTTAAC
* * * * * ** *
24058 AACTTTAAAAATTTTTATCTTGAAAATAA-CTCTTTTAAATAAAGACTTAAT
1 AACTTTAAAAATCTTCATCTTGAAAA-AAGCTCATCTAAGTAAAGGTTTAAC
* *
24109 AA-TTTTAAAATCTTCATCTTGAAAAAAGCTCCTCTAAGTAAAGGTTTAAC
1 AACTTTAAAAATCTTCATCTTGAAAAAAGCTCATCTAAGTAAAGGTTTAAC
24159 AACTTT-AAAATCTTCATCTT
1 AACTTTAAAAATCTTCATCTT
24179 TTCTCGAAAC
Statistics
Matches: 98, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
49 2 0.02
50 52 0.53
51 42 0.43
52 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (51 bp):
AACTTTAAAAATCTTCATCTTGAAAAAAGCTCATCTAAGTAAAGGTTTAAC
Done.