Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168018.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_272, 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: 40579
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Found at i:73 original size:24 final size:25
Alignment explanation
Indices: 36--87 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
26 TATTATTAAA
* * *
36 TAATTAAATTAATT-AATTAAAATT
1 TAATTAAATAAATTCAATAAAAAAT
*
60 TAATTAGATAAATTCAATAAAAAAT
1 TAATTAAATAAATTCAATAAAAAAT
85 TAA
1 TAA
88 ATCAAACATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
TAATTAAATAAATTCAATAAAAAAT
Found at i:3259 original size:15 final size:15
Alignment explanation
Indices: 3239--3283 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
3229 AATCAATTCA
3239 ACCATAATAATAAAT
1 ACCATAATAATAAAT
* *
3254 ACCATAGTAA-AAAA
1 ACCATAATAATAAAT
*
3268 ACAATAATAATAAAT
1 ACCATAATAATAAAT
3283 A
1 A
3284 AGTAATTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.64, C:0.11, G:0.02, T:0.22
Consensus pattern (15 bp):
ACCATAATAATAAAT
Found at i:3507 original size:19 final size:20
Alignment explanation
Indices: 3468--3507 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
3458 TCAATCATTG
**
3468 TAATAAATAAATAATTTAAA
1 TAATAAATAAATAATCAAAA
3488 TAAT-AATAAATAATCAAAA
1 TAATAAATAAATAATCAAAA
3507 T
1 T
3508 TAGGATATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
TAATAAATAAATAATCAAAA
Found at i:4350 original size:12 final size:12
Alignment explanation
Indices: 4333--4357 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4323 CAATAATATG
4333 TAAAAAAATTAT
1 TAAAAAAATTAT
4345 TAAAAAAATTAT
1 TAAAAAAATTAT
4357 T
1 T
4358 TATAATTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAAAAAATTAT
Found at i:8220 original size:29 final size:31
Alignment explanation
Indices: 8179--8238 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
8169 TTACATATTA
8179 TAATTTATATAAA-TATAAAATA-TATTTTT
1 TAATTTATATAAACTATAAAATATTATTTTT
* * * *
8208 TAATTTTTTTAAACTTTAATATATTATTTTT
1 TAATTTATATAAACTATAAAATATTATTTTT
8239 GTTAAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 11 0.44
30 7 0.28
31 7 0.28
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (31 bp):
TAATTTATATAAACTATAAAATATTATTTTT
Found at i:14556 original size:19 final size:19
Alignment explanation
Indices: 14529--14573 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
14519 AATTACTTTA
*
14529 AAAAT-AAATTAAAAAACT
1 AAAATAAAATGAAAAAACT
*
14547 AAAATAAAATGAAAAAATT
1 AAAATAAAATGAAAAAACT
14566 ATAAATAA
1 A-AAATAA
14574 GATATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 5 0.22
19 12 0.52
20 6 0.26
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAATAAAATGAAAAAACT
Found at i:19903 original size:21 final size:22
Alignment explanation
Indices: 19879--19924 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
19869 TTTTGGACTA
* *
19879 TTTAAAAT-TGTTTTTTTTTTT
1 TTTAAAATATGTTTTTATTTAT
*
19900 TTTAAATTATGTTTTTATTTAT
1 TTTAAAATATGTTTTTATTTAT
19922 TTT
1 TTT
19925 GTTTTGTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (22 bp):
TTTAAAATATGTTTTTATTTAT
Found at i:24836 original size:15 final size:13
Alignment explanation
Indices: 24815--24848 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
24805 AGAAATGTTA
24815 AAGAAGGCTAGAAG
1 AAGAAGGCTA-AAG
24829 AGAGAAGGCTAAAG
1 A-AGAAGGCTAAAG
24843 AAGAAG
1 AAGAAG
24849 AAAGATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 5 0.26
15 9 0.47
ACGTcount: A:0.53, C:0.06, G:0.35, T:0.06
Consensus pattern (13 bp):
AAGAAGGCTAAAG
Found at i:30812 original size:42 final size:41
Alignment explanation
Indices: 30699--30827 Score: 195
Period size: 41 Copynumber: 3.1 Consensus size: 41
30689 ATGATTGTCA
* * *
30699 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTTGAGCCTCTGTTTAG
*
30740 AGGAGCAATTTACTTTTCAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTTGAGCCTCTGTTTAG
* *
30781 AGGAGCCATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTA-CTTTTCAAAGTCGTTGAGCCTCTGTTTAG
30823 AGGAG
1 AGGAG
30828 TTTTGATCAA
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 48 0.60
42 32 0.40
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTTGAGCCTCTGTTTAG
Found at i:31051 original size:24 final size:23
Alignment explanation
Indices: 31014--31097 Score: 64
Period size: 23 Copynumber: 3.5 Consensus size: 23
31004 TGTATTTTAC
* *
31014 ATTTTTTTTTTATTTTTATTATT
1 ATTTTTATATTATTTTTATTATT
* *
31037 GTTTTTATATATATTTTTCTT-TT
1 ATTTTTATAT-TATTTTTATTATT
*
31060 ATTTTTATCTTATCTATTTATTATTT
1 ATTTTTATATTAT-T-TTTATTA-TT
31086 ATTTATT-TATTA
1 ATTT-TTATATTA
31098 CTACTATTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
22 3 0.06
23 18 0.38
24 14 0.30
26 10 0.21
27 2 0.04
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (23 bp):
ATTTTTATATTATTTTTATTATT
Found at i:31087 original size:15 final size:15
Alignment explanation
Indices: 31059--31110 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
31049 ATTTTTCTTT
31059 TATTT-TTATCTTATC
1 TATTTATTAT-TTATC
*
31074 TATTTATTATTTATT
1 TATTTATTATTTATC
*
31089 TATTTATTA-CTA-C
1 TATTTATTATTTATC
31102 TATTTATTA
1 TATTTATTA
31111 ATATATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 9 0.27
14 2 0.06
15 18 0.55
16 4 0.12
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTATTATTTATC
Found at i:31220 original size:12 final size:12
Alignment explanation
Indices: 31182--31221 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
31172 TTATACGTTA
31182 TAATTTATCTGT
1 TAATTTATCTGT
31194 T-ATTTAAT-T-T
1 TAATTT-ATCTGT
31204 TAATTTATCTGT
1 TAATTTATCTGT
31216 TAATTT
1 TAATTT
31222 TTTTATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (12 bp):
TAATTTATCTGT
Found at i:31229 original size:20 final size:21
Alignment explanation
Indices: 31182--31243 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
31172 TTATACGTTA
31182 TAATTTATCTGTTATTTAATTT
1 TAATTTATCTGTTATTT-ATTT
31204 TAATTTATCTGTTAATTT-TTT
1 TAATTTATCTGTT-ATTTATTT
31225 T-ATTTATC--TTATTTATTT
1 TAATTTATCTGTTATTTATTT
31243 T
1 T
31244 CATTAATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.11
18 6 0.16
20 7 0.18
21 4 0.11
22 13 0.34
23 4 0.11
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (21 bp):
TAATTTATCTGTTATTTATTT
Found at i:31822 original size:18 final size:18
Alignment explanation
Indices: 31799--31843 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
31789 CAAAAAGTTT
31799 AGAAAGAAAGAG-GAGAAG
1 AGAAAGAAAGAGAGAG-AG
*
31817 AGAAAGGAAGAGAGAGAG
1 AGAAAGAAAGAGAGAGAG
*
31835 AGAGAGAAA
1 AGAAAGAAA
31844 AGGCTCGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAGAGAGAGAG
Found at i:32126 original size:4 final size:4
Alignment explanation
Indices: 32104--32141 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
32094 TTCCAGGTTT
* *
32104 TTTA TTTA TATA TAT- TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
32142 TATTAGATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 2 0.06
4 29 0.94
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:32134 original size:23 final size:21
Alignment explanation
Indices: 32104--32145 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 21
32094 TTCCAGGTTT
32104 TTTATTTATATATATTTTATTTA
1 TTTATTTAT-T-TATTTTATTTA
32127 TTTATTTATTTATTTTATT
1 TTTATTTATTTATTTTATT
32146 AGATTAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 1 0.05
23 9 0.47
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTATTTATTTATTTTATTTA
Found at i:32143 original size:5 final size:5
Alignment explanation
Indices: 32103--32259 Score: 71
Period size: 5 Copynumber: 30.8 Consensus size: 5
32093 GTTCCAGGTT
*
32103 TTTTA -TTTA TATATA TTTTA -TTTA -TTTA -TTTA -TTTA TTTTA TTAGATTA
1 TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT---TTA
* * * * *
32152 GGTTTA TTTAA TATTC TTTTA TTTTTA TCTTTA TTTTA TTTTTA TTTTTG
1 -TTTTA TTTTA TTTTA TTTTA -TTTTA T-TTTA TTTTA -TTTTA -TTTTA
* *
32202 TTTTA CTTTT- CTTTA TTTT- TTTTA TTTTCA CTTTTA TTTTG TTTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT-A -TTTTA TTTTA TTTTA
32248 --TTA TTTTA TTTT
1 TTTTA TTTTA TTTT
32260 CTTTAAATAA
Statistics
Matches: 119, Mismatches: 16, Indels: 34
0.70 0.09 0.20
Matches are distributed among these distances:
3 3 0.03
4 27 0.23
5 48 0.40
6 33 0.28
7 4 0.03
8 3 0.03
9 1 0.01
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:32179 original size:6 final size:6
Alignment explanation
Indices: 32168--32259 Score: 66
Period size: 6 Copynumber: 15.5 Consensus size: 6
32158 TTTAATATTC
* * * *
32168 TTTTAT TTTTAT CTTTA- TTTTAT TTTTAT TTTT-G TTTTAC TTTTCT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * *
32214 TTATTTT TTTTAT TTTCAC TTTTAT TTTGT-T TTATTA- TTTTAT TTT
1 TT-TTAT TTTTAT TTTTAT TTTTAT TTT-TAT TT-TTAT TTTTAT TTT
32260 CTTTAAATAA
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
5 11 0.16
6 49 0.73
7 7 0.10
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:32188 original size:11 final size:10
Alignment explanation
Indices: 32169--32229 Score: 52
Period size: 11 Copynumber: 5.8 Consensus size: 10
32159 TTAATATTCT
32169 TTTATTTTTATC
1 TTTA-TTTT-TC
*
32181 TTTATTTTATT
1 TTTATTTT-TC
*
32192 TTTATTTTTGT
1 TTTATTTTT-C
*
32203 TTTACTTTTC
1 TTTATTTTTC
32213 TTTATTTTT-
1 TTTATTTTTC
32222 TTTATTTT
1 TTTATTTT
32230 CACTTTTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
9 8 0.18
10 9 0.20
11 23 0.52
12 4 0.09
ACGTcount: A:0.13, C:0.05, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTATTTTTC
Found at i:32188 original size:17 final size:17
Alignment explanation
Indices: 32168--32259 Score: 70
Period size: 17 Copynumber: 5.5 Consensus size: 17
32158 TTTAATATTC
32168 TTTTATTTTTATCTTTA
1 TTTTATTTTTATCTTTA
* *
32185 TTTTATTTTTATTTTTG
1 TTTTATTTTTATCTTTA
*
32202 TTTTA-CTTT-TCTTTA
1 TTTTATTTTTATCTTTA
32217 -TTT-TTTTTAT-TTTCA
1 TTTTATTTTTATCTTT-A
*
32232 CTTTTATTTTGT-TTTATTA
1 -TTTTATTTT-TATCT-TTA
32251 TTTTATTTT
1 TTTTATTTT
32260 CTTTAAATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 17
0.72 0.07 0.20
Matches are distributed among these distances:
14 9 0.15
15 6 0.10
16 3 0.05
17 23 0.38
18 14 0.23
19 3 0.05
20 2 0.03
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTATTTTTATCTTTA
Found at i:32357 original size:57 final size:57
Alignment explanation
Indices: 32274--32603 Score: 349
Period size: 57 Copynumber: 5.7 Consensus size: 57
32264 AAATAAAATC
*
32274 CAAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 CAAAAAAAA-A-TTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
* *
32333 CAAAAAAAAATTTT-GAGGAAAAGTT-AGAAGTATCAATTTTCCTTAAAAATAAACTTT
1 CAAAAAAAAATTTTGGA-GAAAAGTTGA-AAGTATCAATTTTTCTTAAAAATAAATTTT
* * * * * ** * **
32390 CTAAAAATATTTTTGGGGTAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAGGTTT
1 CAAAAAAAAATTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
* * *
32447 CTAAAAAATATTTTTGGAGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTT
1 C-AAAAAAAAATTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
*** * * ** * * *
32505 CAAAAAAGGTTTTTGAAGAAAAGTTGAAAGTACCAATTTTTCTCGAGATTAAAATTT
1 CAAAAAAAAATTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
* *
32562 CTAAAAAATATTTTGGAGAAAAGTTGAAAGTATCAATTTTTC
1 CAAAAAAAAATTTTGGAGAAAAGTTGAAAGTATCAATTTTTC
32604 CTGCACAGAA
Statistics
Matches: 229, Mismatches: 37, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
56 3 0.01
57 166 0.72
58 51 0.22
59 9 0.04
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (57 bp):
CAAAAAAAAATTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
Found at i:32396 original size:115 final size:114
Alignment explanation
Indices: 32277--32601 Score: 411
Period size: 115 Copynumber: 2.8 Consensus size: 114
32267 TAAAATCCAA
* ** * *
32277 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
1 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTCAAAAAAAA
32342 ATTTT-GAGGAAAAGTTAGAAGTATCAATTTTCCTTAAAAATAAACTTTC
66 ATTTTGGA-GAAAAGTTAGAAGTATCAATTTTCCTTAAAAATAAACTTTC
* * * ** *
32391 TAAAAATATTTTTGGGGTAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAGGTTTCTAAAAAAT
1 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTC-AAAAAAA
* * * *
32456 ATTTTTGGAGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTC
65 AATTTTGGAGAAAAGTTAGAAGTATCAATTTTCCTTAAAAATAAACTTTC
** * * * * *
32506 AAAAAAGGTTTTTGAAGAAAAGTTGAAAGTACCAATTTTTCTCGAGATTAAAATTTCTAAAAAAT
1 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTCAAAAAAAA
32571 ATTTTGGAGAAAAGTT-GAAAGTATCAATTTT
66 ATTTTGGAGAAAAGTTAG-AAGTATCAATTTT
32602 TCCTGCACAG
Statistics
Matches: 179, Mismatches: 29, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
114 81 0.45
115 96 0.54
116 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (114 bp):
AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTCAAAAAAAA
ATTTTGGAGAAAAGTTAGAAGTATCAATTTTCCTTAAAAATAAACTTTC
Found at i:32565 original size:172 final size:172
Alignment explanation
Indices: 32277--32603 Score: 487
Period size: 172 Copynumber: 1.9 Consensus size: 172
32267 TAAAATCCAA
*
32277 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
1 AAAAAATATTTTTGGAGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
* * * *
32342 ATTTTGAGGAAAAGTTAGAAGTATCAATTTTCCTTAAAAATAAACTTTCT-AAAAATATTTTTGG
66 ATTTTGAAGAAAAGTTAGAAGTACCAATTTTCCTCAAAAATAAAATTTCTAAAAAATA-TTTTGG
* *
32406 GGTAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAGGTTTCT
130 AGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAGGTTTCT
* **
32449 AAAAAATATTTTTGGAGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGG
1 AAAAAATATTTTTGGAGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
* * * * *
32514 TTTTTGAAGAAAAGTT-GAAAGTACCAATTTTTCTCGAGATTAAAATTTCTAAAAAATATTTTGG
66 ATTTTGAAGAAAAGTTAG-AAGTACCAATTTTCCTCAAAAATAAAATTTCTAAAAAATATTTTGG
32578 AGAAAAGTTGAAAGTATCAATTTTTC
130 AGAAAAGTTGAAAGTATCAATTTTTC
32604 CTGCACAGAA
Statistics
Matches: 138, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
171 1 0.01
172 130 0.94
173 7 0.05
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (172 bp):
AAAAAATATTTTTGGAGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
ATTTTGAAGAAAAGTTAGAAGTACCAATTTTCCTCAAAAATAAAATTTCTAAAAAATATTTTGGA
GAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAGGTTTCT
Found at i:34427 original size:55 final size:54
Alignment explanation
Indices: 34318--34453 Score: 118
Period size: 55 Copynumber: 2.5 Consensus size: 54
34308 TGAATCCGCA
* *
34318 TATTATTAAAATAATAATGAA-AATAATAAAACAAAAATAGTATTTTGAAAATATT-
1 TATTTTTAAAA-AATAA-GAATAATAATAAAACAAAAATAG-AATTTGAAAATATTG
*
34373 TATTTTTAAAAGAATAAGAATAATAATAAAACCAAAACGATA-AATTT-AATATATTG
1 TATTTTTAAAA-AATAAGAATAATAATAAAA-CAAAA--ATAGAATTTGAAAATATTG
* * * *
34429 AATTTTTCAAAAATTACAATAATAA
1 TATTTTTAAAAAATAAGAATAATAA
34454 AATTTAACCT
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
54 3 0.04
55 44 0.65
56 18 0.26
58 3 0.04
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (54 bp):
TATTTTTAAAAAATAAGAATAATAATAAAACAAAAATAGAATTTGAAAATATTG
Found at i:37059 original size:20 final size:19
Alignment explanation
Indices: 37034--37077 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
37024 ATCCCATGAG
*
37034 ATTTTTCCAATTTCATTTTC
1 ATTTTTCAAATTTC-TTTTC
*
37054 ATTTTTTTAAATTTCTTTTC
1 A-TTTTTCAAATTTCTTTTC
37074 ATTT
1 ATTT
37078 ATCTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 3 0.14
20 7 0.33
21 11 0.52
ACGTcount: A:0.20, C:0.14, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTTTCAAATTTCTTTTC
Found at i:37099 original size:27 final size:26
Alignment explanation
Indices: 37044--37112 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 26
37034 ATTTTTCCAA
*
37044 TTTCATTTTC-ATTTTTTTAAATTTCT
1 TTTCATTTTCTATTTTTTTAAA-TTAT
37070 TTTCATTTATCTATTTTTTGTAAA-TAT
1 TTTCATTT-TCTATTTTTT-TAAATTAT
*
37097 TTTCATTTTATATTTT
1 TTTCATTTTCTATTTT
37113 CTCTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 15 0.39
27 12 0.32
28 7 0.18
29 4 0.11
ACGTcount: A:0.22, C:0.09, G:0.01, T:0.68
Consensus pattern (26 bp):
TTTCATTTTCTATTTTTTTAAATTAT
Found at i:38042 original size:2 final size:2
Alignment explanation
Indices: 38035--38061 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38025 ATGAACTTCC
38035 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 T
38062 CTCACTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.