Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168337.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_56, 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: 149304
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
File 4 of 4
Found at i:139560 original size:35 final size:33
Alignment explanation
Indices: 139488--139561 Score: 78
Period size: 35 Copynumber: 2.2 Consensus size: 33
139478 AATTATTATT
* *
139488 TATAAATTATTTAAAATTTATATTAATAAAAAT
1 TATAAATTATTAAAAATTTATATTAATAAAAAG
* *
139521 TATAAATTTATTAATAAATTTATGATTACT-ATAAG
1 TATAAA-TTATTAA-AAATTTAT-ATTAATAAAAAG
139556 TATAAA
1 TATAAA
139562 GTATCATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
33 6 0.18
34 6 0.18
35 17 0.50
36 5 0.15
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (33 bp):
TATAAATTATTAAAAATTTATATTAATAAAAAG
Found at i:139673 original size:42 final size:42
Alignment explanation
Indices: 139609--139701 Score: 177
Period size: 42 Copynumber: 2.2 Consensus size: 42
139599 ATTAATTTAC
*
139609 TAATCTAATGAACATTATTACTTTTGATTAAAGTATTATCAA
1 TAATATAATGAACATTATTACTTTTGATTAAAGTATTATCAA
139651 TAATATAATGAACATTATTACTTTTGATTAAAGTATTATCAA
1 TAATATAATGAACATTATTACTTTTGATTAAAGTATTATCAA
139693 TAATATAAT
1 TAATATAAT
139702 CAAAATAGAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (42 bp):
TAATATAATGAACATTATTACTTTTGATTAAAGTATTATCAA
Found at i:139828 original size:23 final size:23
Alignment explanation
Indices: 139795--139869 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
139785 TTCTATTGTT
*
139795 TAATATTAAATTGATAAATTATAA
1 TAAT-TTAAATTAATAAATTATAA
* *
139819 TAATTTAAA-TACATAAACTAAAA
1 TAATTTAAATTA-ATAAATTATAA
* *
139842 TAATTT-TATTAATATAGTTATAA
1 TAATTTAAATTAATA-AATTATAA
139865 TAATT
1 TAATT
139870 GAGTAATTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
22 5 0.12
23 32 0.78
24 4 0.10
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.43
Consensus pattern (23 bp):
TAATTTAAATTAATAAATTATAA
Found at i:139898 original size:30 final size:30
Alignment explanation
Indices: 139842--139899 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
139832 TAAACTAAAA
*
139842 TAATTTTATTAATATAGTTATAATAATTGAG
1 TAATTTTACTAATATAG-TATAATAATTGAG
*
139873 TAATTTATACTAATATA-TATTATAATT
1 TAATTT-TACTAATATAGTATAATAATT
139900 TAAGAGGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.38
31 6 0.25
32 9 0.38
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (30 bp):
TAATTTTACTAATATAGTATAATAATTGAG
Found at i:139968 original size:19 final size:21
Alignment explanation
Indices: 139935--139974 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
139925 AATAATAGTT
139935 TTATAATTTATTAATTTAATA
1 TTATAATTTATTAATTTAATA
139956 TTATAA-TTA-TAATTTAATA
1 TTATAATTTATTAATTTAATA
139975 ATATTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 3 0.16
21 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATAATTTATTAATTTAATA
Found at i:140143 original size:9 final size:9
Alignment explanation
Indices: 140131--140192 Score: 54
Period size: 9 Copynumber: 6.4 Consensus size: 9
140121 AATTATATTT
140131 TAATAAATA
1 TAATAAATA
*
140140 TAATATATA
1 TAATAAATA
140149 T-ATAAATTTA
1 TAATAAA--TA
140159 TAATAAATA
1 TAATAAATA
140168 TAATATATAATA
1 T-A-ATA-AATA
*
140180 TAATAATTA
1 TAATAAATA
140189 TAAT
1 TAAT
140193 GGTTTAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
8 4 0.09
9 19 0.43
10 7 0.16
11 9 0.20
12 5 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TAATAAATA
Found at i:140168 original size:21 final size:20
Alignment explanation
Indices: 140131--140190 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 20
140121 AATTATATTT
140131 TAATA-AATATAATATATATA
1 TAATATAATA-AATATATATA
140151 TAAATTTATAATAAATATAATATA
1 T-AA--TATAATAAATAT-ATATA
*
140175 TAATATAATAATTATA
1 TAATATAATAAATATA
140191 ATGGTTTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
20 2 0.06
21 13 0.38
23 9 0.26
24 10 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATATAATAAATATATATA
Found at i:140171 original size:28 final size:30
Alignment explanation
Indices: 140118--140192 Score: 106
Period size: 28 Copynumber: 2.7 Consensus size: 30
140108 ATATAATTTT
140118 TATAAT-T-ATATTT-TAATAAATATAATA
1 TATAATATAATATTTATAATAAATATAATA
140145 TAT-ATATAA-ATTTATAATAAATATAATA
1 TATAATATAATATTTATAATAAATATAATA
*
140173 TATAATATAATAATTATAAT
1 TATAATATAATATTTATAAT
140193 GGTTTAATAA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
26 2 0.05
27 8 0.19
28 18 0.43
29 6 0.14
30 8 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
TATAATATAATATTTATAATAAATATAATA
Found at i:140184 original size:17 final size:17
Alignment explanation
Indices: 140133--140184 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
140123 TTATATTTTA
140133 ATAA-ATATAATATATAT
1 ATAATATATAATATA-AT
*
140150 ATAAATTTATAATA-AAT
1 AT-AATATATAATATAAT
140167 ATAATATATAATATAAT
1 ATAATATATAATATAAT
140184 A
1 A
140185 ATTATAATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 10 0.33
17 10 0.33
18 3 0.10
19 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAATATATAATATAAT
Found at i:140727 original size:25 final size:27
Alignment explanation
Indices: 140693--140742 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
140683 ATTAACTAAT
*
140693 AATAATTAATATATTAT-ACAATTAAA
1 AATAATTAATAAATTATGACAATTAAA
140719 AATAA-TAATAAATTATGACAATTA
1 AATAATTAATAAATTATGACAATTA
140743 TTATATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (27 bp):
AATAATTAATAAATTATGACAATTAAA
Found at i:140767 original size:20 final size:20
Alignment explanation
Indices: 140738--140776 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
140728 AAATTATGAC
* *
140738 AATTATTATATTATATTAAT
1 AATTAATATATAATATTAAT
140758 AATTAATATATAATATTAA
1 AATTAATATATAATATTAA
140777 ATCAGATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTAATATATAATATTAAT
Found at i:141470 original size:181 final size:180
Alignment explanation
Indices: 141146--141470 Score: 383
Period size: 181 Copynumber: 1.8 Consensus size: 180
141136 TTCAGATAGT
* * * * *
141146 ATAATGATTTCAATTTGTTTGATAAATAGATTTATTTTTAAATCTTTTACTTATTAATTGTCTTA
1 ATAATGATTTAAACTTGTTTGATAAATAGATTCATTTTTAAATCTCTTAATTATTAATTGTCTTA
* *
141211 ATATTAATAAATTTGTATTATTTTATTCAAACTAAGCTTATATGAACAAATAAAATCATTATATG
66 ATATTAATAAATTGGTATTATTTTATTCAAACTAACCTTATATGAACAAATAAAATCATTATATG
* **
141276 ACGAACCAAAAGGTTATAGTGATTCCAAATCAATAATTGTTCAAATGACC
131 ACAAAAAAAAAGGTTATAGTGATTCCAAATCAATAATTGTTCAAATGACC
* *
141326 ATAATTATTTAAACTTGTTTGGTAAATAGATTCATTTTTTAAATCTCTTAATTATTAATT-T-TT
1 ATAATGATTTAAACTTGTTTGATAAATAGATTCA-TTTTTAAATCTCTTAATTATTAATTGTCTT
* * * * *
141389 AGAATATTAATAACA-TGGTGTTATTTTATTTCCAA-TAACCTTATATTAACTAAA-ATAAGT-T
65 --AATATTAATAA-ATTGGTATTATTTTA-TTCAAACTAACCTTATATGAAC-AAATA-AAATCA
*
141450 TTTTATGACAAAAAAAAAGGT
124 TTATATGACAAAAAAAAAGGT
141471 CGTAACGATT
Statistics
Matches: 120, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
179 2 0.02
180 30 0.25
181 76 0.63
182 12 0.10
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (180 bp):
ATAATGATTTAAACTTGTTTGATAAATAGATTCATTTTTAAATCTCTTAATTATTAATTGTCTTA
ATATTAATAAATTGGTATTATTTTATTCAAACTAACCTTATATGAACAAATAAAATCATTATATG
ACAAAAAAAAAGGTTATAGTGATTCCAAATCAATAATTGTTCAAATGACC
Found at i:141955 original size:29 final size:29
Alignment explanation
Indices: 141905--141968 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
141895 AAAATTATGT
*** *
141905 TATAATTAATTATTATTTTATTAATAATA
1 TATAATTAATTATTAAAATATTAAAAATA
* *
141934 TATATTTAATTATTAAAATATTAAAAATT
1 TATAATTAATTATTAAAATATTAAAAATA
141963 TATAAT
1 TATAAT
141969 AAATATAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TATAATTAATTATTAAAATATTAAAAATA
Found at i:141991 original size:16 final size:17
Alignment explanation
Indices: 141958--141992 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
141948 AAAATATTAA
141958 AAATTTATAATAAATAT
1 AAATTTATAATAAATAT
*
141975 AAATTTA-AATTAATAT
1 AAATTTATAATAAATAT
141991 AA
1 AA
141993 TAATAATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATTTATAATAAATAT
Found at i:142175 original size:19 final size:20
Alignment explanation
Indices: 142128--142175 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
142118 AATTATATAA
*
142128 ATATTAATATAATATTTATTG
1 ATATT-ATATAATAATTATTG
*
142149 A-ATAATATAATAATTATT-
1 ATATTATATAATAATTATTG
142167 ATATTATAT
1 ATATTATAT
142176 TTTATTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.04
19 19 0.83
20 2 0.09
21 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
ATATTATATAATAATTATTG
Found at i:143015 original size:16 final size:15
Alignment explanation
Indices: 142994--143028 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
142984 TTAATAATTT
142994 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
143010 TATAATAATTAAATG
1 TATAATAATCAAATG
143025 TATA
1 TATA
143029 TGTGAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:143178 original size:14 final size:14
Alignment explanation
Indices: 143161--143205 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
143151 ATAATAAAAA
143161 TTAAATATTTTAAT
1 TTAAATATTTTAAT
*
143175 TTAAATATTTAAAAT
1 TTAAATATTT-TAAT
143190 TTAAA-ATTTTTAAT
1 TTAAATA-TTTTAAT
143204 TT
1 TT
143206 TTAACATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTAAATATTTTAAT
Found at i:143200 original size:29 final size:28
Alignment explanation
Indices: 143147--143205 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
143137 ATATCGATAA
143147 TTAAATAATAAAAATTAAATATTTTAAT
1 TTAAATAATAAAAATTAAATATTTTAAT
* *
143175 TTAAATATTTAAAATTTAAA-ATTTTTAAT
1 TTAAATA-ATAAAAATTAAATA-TTTTAAT
143204 TT
1 TT
143206 TTAACATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
TTAAATAATAAAAATTAAATATTTTAAT
Found at i:143951 original size:20 final size:19
Alignment explanation
Indices: 143917--143974 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
143907 ATATTATTTA
*
143917 ATAAT-TTAATATAATAAT
1 ATAATATTATTATAATAAT
143935 ACTAATATTATTATAATTAAT
1 A-TAATATTATTATAA-TAAT
* *
143956 ATATTCTTATTATAA-AAT
1 ATAATATTATTATAATAAT
143974 A
1 A
143975 AGAATAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.15
19 4 0.12
20 20 0.59
21 5 0.15
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
ATAATATTATTATAATAAT
Found at i:144190 original size:32 final size:33
Alignment explanation
Indices: 144132--144202 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 33
144122 AATTAAATGA
144132 AAAATAAAATTGATAAATATAGTTAATAATAAT
1 AAAATAAAATTGATAAATATAGTTAATAATAAT
* * *
144165 AAAATTAAATTGA-AATTATAGTTAATTATAAT
1 AAAATAAAATTGATAAATATAGTTAATAATAAT
*
144197 TAAATA
1 AAAATA
144203 GATATATCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
32 21 0.64
33 12 0.36
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (33 bp):
AAAATAAAATTGATAAATATAGTTAATAATAAT
Found at i:145022 original size:12 final size:13
Alignment explanation
Indices: 145007--145039 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
144997 TAAATAATGT
145007 TATAATAAT-AGA
1 TATAATAATAAGA
*
145019 TATAATAATAAGC
1 TATAATAATAAGA
145032 TATAATAA
1 TATAATAA
145040 AATAATAAGC
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:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (13 bp):
TATAATAATAAGA
Found at i:145689 original size:22 final size:22
Alignment explanation
Indices: 145664--145708 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
145654 ACTATTAATA
*
145664 ATAAAATAACTATATAATTATT
1 ATAAAATAAATATATAATTATT
* *
145686 ATAAATTAAATATATTATTATT
1 ATAAAATAAATATATAATTATT
145708 A
1 A
145709 ATAACTTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATAAAATAAATATATAATTATT
Found at i:145924 original size:13 final size:13
Alignment explanation
Indices: 145906--145930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
145896 AATTATTCAT
145906 TTTAAAATTATAC
1 TTTAAAATTATAC
145919 TTTAAAATTATA
1 TTTAAAATTATA
145931 ATGAATTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTAAAATTATAC
Found at i:145983 original size:24 final size:22
Alignment explanation
Indices: 145956--146000 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
145946 TTATTTTAAT
145956 ATTATAACATTAATATAATATAAA
1 ATTATAACATTAAT-T-ATATAAA
* *
145980 ATTATTATATTAATTATATAA
1 ATTATAACATTAATTATATAA
146001 TTAAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 1 0.05
24 12 0.63
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTATAACATTAATTATATAAA
Found at i:146019 original size:25 final size:27
Alignment explanation
Indices: 145958--146022 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 27
145948 ATTTTAATAT
145958 TATAACATTAATATAATATAAAATTATTA
1 TATAA-ATT-ATATAATATAAAATTATTA
*
145987 TATTAATTATATAAT-T-AAATTATT-
1 TATAAATTATATAATATAAAATTATTA
146011 TGATAAATTATA
1 T-ATAAATTATA
146023 ATTTAATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 1 0.03
25 17 0.52
26 1 0.03
27 7 0.21
28 3 0.09
29 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (27 bp):
TATAAATTATATAATATAAAATTATTA
Found at i:146039 original size:23 final size:23
Alignment explanation
Indices: 145996--146042 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
145986 ATATTAATTA
*
145996 TATAATTAAATTATTTGATAAAT
1 TATAATTAAATTAATTGATAAAT
*
146019 TATAATTTAATATAATT-ATAAAT
1 TATAATTAAAT-TAATTGATAAAT
146042 T
1 T
146043 CTTAACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TATAATTAAATTAATTGATAAAT
Found at i:146380 original size:177 final size:175
Alignment explanation
Indices: 146152--146576 Score: 394
Period size: 176 Copynumber: 2.4 Consensus size: 175
146142 ATACAAGCTG
* * * * *
146152 CAGAATAAA-AAATACTAATCTAATAATACTCTGAAAATTAATAACTAAGAGATTTAAAAAATAA
1 CAGAATAAATAAAAACTAATCTATTAATA-TTTCAAAA--ATTAA-TAAGAGATTTAAAAAATAA
* * * * * *
146216 ATTTATTTTCTGAACCAGTTTAAATAGTTAAGATTATATGAATAATTATCTATTTTAAATCATTA
62 ATTTATTTCCT-AACCAGTTCAAATAATTAAGATTATATGAACAATTATCTATTTCAAATAATTA
* * **
146281 TGACCTGTTGTTTTATCATAAAA-TAAT-TTTTTCAATTCATACTAGCTTATT
126 TGACCT-TTGTTTTATCATAAAACAAATGTTTTT--ATCCATAAAAGCTTATT
* *
146332 CAGAATAAA-ATAAAA-TGAATTTATTAATATTTCAAAAATTAATAAGAGATTTAACAAAT-AAT
1 CAGAATAAATA-AAAACT-AATCTATTAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAAT
* ** * * * *
146394 TCTGCTGACCTAACTAGTTCAAATAATTATGATTATTTGAACAATTATTTATTTCAAATAATTAT
64 T-T-ATTTCCTAACCAGTTCAAATAATTAAGATTATATGAACAATTATCTATTTCAAATAATTAT
* * * * *
146459 GACCTTTTTTTTGTCATAAAACAAATGTTTTTGTCCATAAAAGTTTGTT
127 GACCTTTGTTTTATCATAAAACAAATGTTTTTATCCATAAAAGCTTATT
* * * * *
146508 CAGAATAAATAAAAACTAATCTATTAGTATTTTAAAAATTAATAATAGATCTAAAAAATAAATCT
1 CAGAATAAATAAAAACTAATCTATTAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAATTT
146573 ATTT
66 ATTT
146577 AGATGTTTAT
Statistics
Matches: 197, Mismatches: 39, Indels: 23
0.76 0.15 0.09
Matches are distributed among these distances:
175 1 0.01
176 79 0.40
177 75 0.38
178 12 0.06
180 17 0.09
181 13 0.07
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.39
Consensus pattern (175 bp):
CAGAATAAATAAAAACTAATCTATTAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAATTT
ATTTCCTAACCAGTTCAAATAATTAAGATTATATGAACAATTATCTATTTCAAATAATTATGACC
TTTGTTTTATCATAAAACAAATGTTTTTATCCATAAAAGCTTATT
Found at i:146650 original size:18 final size:18
Alignment explanation
Indices: 146602--146650 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
146592 AATAAAAATC
146602 AATAATTAA-AATATTTA
1 AATAATTAATAATATTTA
146619 AATTAA--AATCAATATTTA
1 AA-TAATTAAT-AATATTTA
*
146637 GATAATTAATAATA
1 AATAATTAATAATA
146651 AATTATAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 9
0.72 0.03 0.25
Matches are distributed among these distances:
16 2 0.08
17 5 0.19
18 16 0.62
19 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (18 bp):
AATAATTAATAATATTTA
Found at i:146652 original size:27 final size:28
Alignment explanation
Indices: 146585--146652 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
146575 TTAGATGTTT
146585 ATTAATTAATAAAAATCAATAATTAAAATA
1 ATTAA-TAAT-AAAATCAATAATTAAAATA
* * * *
146615 TTTAA-ATTAAAATCAAT-ATTTAGATA
1 ATTAATAATAAAATCAATAATTAAAATA
146641 ATTAATAATAAA
1 ATTAATAATAAA
146653 TTATAAGTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
26 11 0.35
27 14 0.45
28 2 0.06
30 4 0.13
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (28 bp):
ATTAATAATAAAATCAATAATTAAAATA
Found at i:146653 original size:26 final size:27
Alignment explanation
Indices: 146587--146653 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
146577 AGATGTTTAT
146587 TAATTAATAA-AAATCAATAATTAAAA
1 TAATTAATAATAAATCAATAATTAAAA
* * * *
146613 TATTTAA-ATTAAAATCAAT-ATTTAGA
1 TAATTAATAAT-AAATCAATAATTAAAA
146639 TAATTAATAATAAAT
1 TAATTAATAATAAAT
146654 TATAAGTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
25 1 0.03
26 21 0.66
27 10 0.31
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.37
Consensus pattern (27 bp):
TAATTAATAATAAATCAATAATTAAAA
Found at i:146672 original size:23 final size:25
Alignment explanation
Indices: 146643--146692 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
146633 TTTAGATAAT
*
146643 TAATAATAAATT-A-TAAGTATTTA
1 TAATAATAAATTAATTAAATATTTA
*
146666 TAATAATAATTTAATTAAATATTTA
1 TAATAATAAATTAATTAAATATTTA
146691 TA
1 TA
146693 TTTTAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 11 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TAATAATAAATTAATTAAATATTTA
Found at i:146709 original size:24 final size:26
Alignment explanation
Indices: 146672--146721 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
146662 TTTATAATAA
146672 TAATTTAATTAAAT-AT-TTATATTT
1 TAATTTAATTAAATAATATTATATTT
146696 TAATTT-ATTCAAATAATATTATATTT
1 TAATTTAATT-AAATAATATTATATTT
146722 GTTATAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 3 0.13
24 10 0.43
25 2 0.09
26 8 0.35
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TAATTTAATTAAATAATATTATATTT
Found at i:146820 original size:17 final size:17
Alignment explanation
Indices: 146795--146833 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
146785 TTTAATTATT
*
146795 TTATTATAAATATATAA
1 TTATAATAAATATATAA
146812 TTATAATAAATATATAA
1 TTATAATAAATATATAA
146829 -TATAA
1 TTATAA
146834 CCACTATGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTATAATAAATATATAA
Found at i:147266 original size:180 final size:180
Alignment explanation
Indices: 146883--147304 Score: 415
Period size: 180 Copynumber: 2.3 Consensus size: 180
146873 TGATAAACTG
* * * *
146883 ATTTATGTTTTAAATCTCTAACTTATCAATTTTTAT-AATATTAATAAAGTAATATTATTTTATT
1 ATTTATTTTTTAAATC-CTTACTTATCAATTTTT-TGAATATTAATAAATTAGTATTATTTTATT
* * * * * ** *
146947 TCAGATAAGCTTTTATGAATTGAAACAATTGTTTTATGATAAAATATAAGGTCATAACGATTTTA
64 TCAAATAAGCCTGTATGAATTGAAACAATTATTTTATGATAAAATATAAGGTCAAAAAAATTTGA
* *** * *
147012 AATAGATAATTGTTCAAATAGTCCAAAATATTTGAACTTGTTCGGTAAATAG
129 AATAGATAATTGTTCAAATAGTCCAAAATATTTGAACTTATTCAACAAACAC
* * *
147064 ATTT-TTTTTCTAATTTCTTACTTAAT-AATTTTTTGAATGTTAATAAATTAGTATTATTTTATT
1 ATTTATTTTT-TAAATCCTTACTT-ATCAATTTTTTGAATATTAATAAATTAGTATTATTTTATT
* * *
147127 TCAAATAAGCCTGTATGAGTTGAAGCAATTATTTTATGACTAAACA-A-AAGGTTAAAAAAATTT
64 TCAAATAAGCCTGTATGAATTGAAACAATTATTTTATGA-TAAA-ATATAAGGTCAAAAAAATTT
* ** ** *
147190 GAAATAGATAATTGTTCTAATAGTCTTAGCTATTTGAA-TTAATTCAACAAACCC
127 GAAATAGATAATTGTTCAAATAGTCCAAAATATTTGAACTT-ATTCAACAAACAC
* * * * * *
147244 ATTTATTTTTTAAATCCTTACTTATGAATGTTTAGAATATTACTAATTTAGTAATATTTTA
1 ATTTATTTTTTAAATCCTTACTTATCAATTTTTTGAATATTAATAAATTAGTATTATTTTA
147305 CTCTGAATAA
Statistics
Matches: 195, Mismatches: 38, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
179 5 0.03
180 169 0.87
181 20 0.10
182 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (180 bp):
ATTTATTTTTTAAATCCTTACTTATCAATTTTTTGAATATTAATAAATTAGTATTATTTTATTTC
AAATAAGCCTGTATGAATTGAAACAATTATTTTATGATAAAATATAAGGTCAAAAAAATTTGAAA
TAGATAATTGTTCAAATAGTCCAAAATATTTGAACTTATTCAACAAACAC
Found at i:147664 original size:8 final size:8
Alignment explanation
Indices: 147646--147680 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
147636 ACTTATTAAT
147646 ATTATTATA
1 ATTA-TATA
147655 ATTATATA
1 ATTATATA
147663 ATTATATA
1 ATTATATA
147671 ATTATATA
1 ATTATATA
147679 AT
1 AT
147681 ATAATTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 22 0.85
9 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
ATTATATA
Found at i:147984 original size:15 final size:17
Alignment explanation
Indices: 147922--147992 Score: 57
Period size: 16 Copynumber: 4.5 Consensus size: 17
147912 ATACTATTAA
147922 ATTAATATAGTTAATATT
1 ATTAATATA-TTAATATT
* *
147940 A-TCA-A-A-TAATAAT
1 ATTAATATATTAATATT
147953 ATTAAT-TATTAATATT
1 ATTAATATATTAATATT
147969 ATTAATAT-TTAA-ATT
1 ATTAATATATTAATATT
*
147984 AATAATATA
1 ATTAATATA
147993 ATATATTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
13 7 0.17
14 2 0.05
15 12 0.29
16 17 0.40
17 3 0.07
18 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (17 bp):
ATTAATATATTAATATT
Found at i:148109 original size:21 final size:21
Alignment explanation
Indices: 148052--148110 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
148042 ATATAATGTA
* *
148052 ATATATTAGTAACAAATTAA-
1 ATATATTATTAATAAATTAAT
148072 ATATA--ATTAAT--ATTAAT
1 ATATATTATTAATAAATTAAT
148089 ATATATTATTAATAAATTAAT
1 ATATATTATTAATAAATTAAT
148110 A
1 A
148111 AAATATTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
16 5 0.16
17 5 0.16
18 4 0.12
19 6 0.19
20 5 0.16
21 7 0.22
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
ATATATTATTAATAAATTAAT
Found at i:148242 original size:26 final size:22
Alignment explanation
Indices: 148205--148254 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 22
148195 AATCATGTGA
148205 AATATTTATATTAATAGATATAAT
1 AATATTTATATTAATA-AT-TAAT
148229 AATATATTAGTATTAATAATTAAT
1 AATAT-TTA-TATTAATAATTAAT
148253 AA
1 AA
148255 AAATTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 11 0.46
25 5 0.21
26 8 0.33
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (22 bp):
AATATTTATATTAATAATTAAT
Found at i:148297 original size:15 final size:15
Alignment explanation
Indices: 148277--148330 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
148267 ATTTAACAAT
148277 TTAATATATTTAATA
1 TTAATATATTTAATA
*
148292 TTAATATAATTAATA
1 TTAATATATTTAATA
*
148307 TT-ATATTTTTTAATA
1 TTAATA-TATTTAATA
148322 -TAATA-ATTT
1 TTAATATATTT
148331 TAAATAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 3 0.09
14 4 0.12
15 26 0.79
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAATATATTTAATA
Found at i:148521 original size:8 final size:8
Alignment explanation
Indices: 148468--148531 Score: 58
Period size: 8 Copynumber: 7.6 Consensus size: 8
148458 TAAAATTTTC
148468 TTATTATTA
1 TTATTA-TA
*
148477 TTATTATG
1 TTATTATA
*
148485 CTATTA-A
1 TTATTATA
*
148492 TTAATTATC
1 TT-ATTATA
148501 TTAATTAATA
1 TT-ATT-ATA
148511 TTATTATA
1 TTATTATA
148519 TTATTATA
1 TTATTATA
148527 TTATT
1 TTATT
148532 TTTTATAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
7 1 0.02
8 26 0.57
9 15 0.33
10 4 0.09
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (8 bp):
TTATTATA
Found at i:148524 original size:34 final size:34
Alignment explanation
Indices: 148377--148529 Score: 86
Period size: 34 Copynumber: 4.3 Consensus size: 34
148367 ATAACCTTTA
148377 ATTA-TAATTAATT-TACTTAA--AATATTATT-T
1 ATTATTAATTAATTAT-CTTAATTAATATTATTAT
148407 AATTATTAAATATAATTAAT-TTAATTTAATATTCTATTAAAT
1 -ATTATT-AAT-TAATT-ATCTTAA-TTAATA-T-TATT--AT
* * * *
148449 ATTTAATAATAAAATTTTCTT-ATTATTATTATTAT
1 A-TTATTAAT-TAATTATCTTAATTAATATTATTAT
**
148484 GCTATTAATTAATTATCTTAATTAATATTATTAT
1 ATTATTAATTAATTATCTTAATTAATATTATTAT
148518 ATTATTATATTA
1 ATTATTA-ATTA
148530 TTTTTTATAA
Statistics
Matches: 93, Mismatches: 12, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
31 4 0.04
32 1 0.01
33 11 0.12
34 33 0.35
35 6 0.06
36 1 0.01
37 8 0.09
38 2 0.02
39 9 0.10
40 2 0.02
41 11 0.12
42 5 0.05
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (34 bp):
ATTATTAATTAATTATCTTAATTAATATTATTAT
Found at i:148862 original size:14 final size:15
Alignment explanation
Indices: 148840--148879 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
148830 ATATACTATG
148840 ATATAATTAATTATT
1 ATATAATTAATTATT
148855 AT-TAATTAA-TATT
1 ATATAATTAATTATT
*
148868 TTATAATTAATT
1 ATATAATTAATT
148880 TATAATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 5 0.23
14 14 0.64
15 3 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATAATTAATTATT
Found at i:148871 original size:18 final size:19
Alignment explanation
Indices: 148850--148900 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
148840 ATATAATTAA
148850 TTATTATTAATTAAT-ATT
1 TTATTATTAATTAATAATT
* *
148868 TTATAATTAATTTATAATT
1 TTATTATTAATTAATAATT
*
148887 TATATTATAAATTA
1 T-TATTATTAATTA
148901 TTAAATATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 13 0.50
19 4 0.15
20 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATTATTAATTAATAATT
Found at i:148930 original size:29 final size:30
Alignment explanation
Indices: 148880--148951 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
148870 ATAATTAATT
148880 TATAATT--TATATTATAAATTATT-A-AA
1 TATAATTAATATATTATAAATTATTAATAA
* *
148906 TATAATATAATATATTATGATTTATTAATAA
1 TATAAT-TAATATATTATAAATTATTAATAA
*
148937 TATAATTAAAATATT
1 TATAATTAATATATT
148952 GAATTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
26 6 0.16
27 1 0.03
29 14 0.37
30 9 0.24
31 8 0.21
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (30 bp):
TATAATTAATATATTATAAATTATTAATAA
Found at i:149190 original size:9 final size:9
Alignment explanation
Indices: 149173--149216 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
149163 TACTAATTTA
*
149173 TATATTTAT
1 TATAATTAT
149182 TATAATTAT
1 TATAATTAT
*
149191 TA-AATAAT
1 TATAATTAT
*
149199 TATAATAAT
1 TATAATTAT
149208 TATAATTAT
1 TATAATTAT
149217 ATTAAGGTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
8 7 0.23
9 24 0.77
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TATAATTAT
Done.