Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000512.1 Hibiscus syriacus cultivar Beakdansim tig00000976_pilon, 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: 79488
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:329 original size:13 final size:13
Alignment explanation
Indices: 297--338 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
287 AAAGTAATTT
297 ATTAGAATTTT-AA
1 ATTA-AATTTTAAA
310 A-TAAATTTTAAA
1 ATTAAATTTTAAA
*
322 ATTAAATTTTAAT
1 ATTAAATTTTAAA
335 ATTA
1 ATTA
339 TGAATAGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 6 0.23
12 5 0.19
13 15 0.58
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (13 bp):
ATTAAATTTTAAA
Found at i:3930 original size:46 final size:46
Alignment explanation
Indices: 3851--3944 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 46
3841 AAAAATTTAG
* **
3851 GAGCTCGATTCAAGCTTGATTCAAGCAGGAACTCAAACTCGAACTT
1 GAGCTCGATTCAAGCTCGATTCAAGCACAAACTCAAACTCGAACTT
* * * *
3897 GAGCTCGGTTCAAGCTCGATTCAAGCTCAAACTCGAACTCGAATTT
1 GAGCTCGATTCAAGCTCGATTCAAGCACAAACTCAAACTCGAACTT
3943 GA
1 GA
3945 ACCTACAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (46 bp):
GAGCTCGATTCAAGCTCGATTCAAGCACAAACTCAAACTCGAACTT
Found at i:5039 original size:2 final size:2
Alignment explanation
Indices: 5032--5069 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
5022 TGAAAAAGAA
5032 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5070 TAATTAAGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6354 original size:21 final size:21
Alignment explanation
Indices: 6328--6391 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
6318 AGTTGTGTAT
*
6328 AACTTAAACCCTAAACTATAA
1 AACTTAAACCCTAAACCATAA
6349 AACTTAAACCCTAAACCATAA
1 AACTTAAACCCTAAACCATAA
* * *
6370 ATCCTAAACCCTAAACCCTAA
1 AACTTAAACCCTAAACCATAA
6391 A
1 A
6392 CACTATCACA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (21 bp):
AACTTAAACCCTAAACCATAA
Found at i:6363 original size:7 final size:7
Alignment explanation
Indices: 6332--6392 Score: 68
Period size: 7 Copynumber: 8.7 Consensus size: 7
6322 GTGTATAACT
6332 TAAACCC
1 TAAACCC
**
6339 TAAACTA
1 TAAACCC
* *
6346 TAAAACT
1 TAAACCC
6353 TAAACCC
1 TAAACCC
*
6360 TAAACCA
1 TAAACCC
*
6367 TAAATCC
1 TAAACCC
6374 TAAACCC
1 TAAACCC
6381 TAAACCC
1 TAAACCC
6388 TAAAC
1 TAAAC
6393 ACTATCACAT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:7604 original size:31 final size:30
Alignment explanation
Indices: 7548--7607 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
7538 TCCTATATCT
* *
7548 TATGAATTATTGATTCGTTCGATTTAAATA
1 TATGAATTATTGATCCGTTCAATTTAAATA
7578 TATGATATTATTGATCCG-TCTAATTTAAAT
1 TATGA-ATTATTGATCCGTTC-AATTTAAAT
7608 TTATCGGCCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (30 bp):
TATGAATTATTGATCCGTTCAATTTAAATA
Found at i:22001 original size:2 final size:2
Alignment explanation
Indices: 21992--22021 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
21982 AAAATATAAA
21992 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22022 ATCGGGGCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25058 original size:23 final size:23
Alignment explanation
Indices: 25025--25094 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
25015 CATCTTATAT
*
25025 GGCACTTCGGTGCATTTTTACGA
1 GGCACTTCGGTGCATTTATACGA
* * * *
25048 GGCACTACGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTATACGA
*
25071 GGCACTTCGGTGTATTTATACGA
1 GGCACTTCGGTGCATTTATACGA
25094 G
1 G
25095 TTGTGGTGAC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.31
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTATACGA
Found at i:25143 original size:16 final size:17
Alignment explanation
Indices: 25122--25155 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25112 GTGCACAACC
25122 TCTATAG-ACTCACATA
1 TCTATAGTACTCACATA
*
25138 TCTATAGTTCTCACATA
1 TCTATAGTACTCACATA
25155 T
1 T
25156 GTACATGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (17 bp):
TCTATAGTACTCACATA
Found at i:25409 original size:14 final size:15
Alignment explanation
Indices: 25385--25417 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
25375 TTTAGTATAG
25385 CATGATAGAACAAAA
1 CATGATAGAACAAAA
25400 CATG-TAGAACAAAA
1 CATGATAGAACAAAA
25414 CATG
1 CATG
25418 CATGCATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.55, C:0.15, G:0.15, T:0.15
Consensus pattern (15 bp):
CATGATAGAACAAAA
Found at i:32268 original size:28 final size:28
Alignment explanation
Indices: 32228--32285 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
32218 ATCTGGATAC
32228 TTAGCTTATTTCATTCTTCTTCTATTGG
1 TTAGCTTATTTCATTCTTCTTCTATTGG
*
32256 TTAGCTTATTTCATTCTTCTTCTCTTGG
1 TTAGCTTATTTCATTCTTCTTCTATTGG
32284 TT
1 TT
32286 CGTGCCTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.12, C:0.19, G:0.10, T:0.59
Consensus pattern (28 bp):
TTAGCTTATTTCATTCTTCTTCTATTGG
Found at i:32932 original size:19 final size:19
Alignment explanation
Indices: 32908--32947 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
32898 ATGTCGAAAT
*
32908 GGTATCGGTACCGA-AGAAG
1 GGTATCGATACC-ATAGAAG
32927 GGTATCGATACCATAGAAG
1 GGTATCGATACCATAGAAG
32946 GG
1 GG
32948 AAATATCGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.33, C:0.15, G:0.35, T:0.17
Consensus pattern (19 bp):
GGTATCGATACCATAGAAG
Found at i:33529 original size:22 final size:23
Alignment explanation
Indices: 33501--33559 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
33491 AGTCGAGGGT
* *
33501 TCTATGTGGTCTTTCGGGA-AAA
1 TCTATGTGGTCCTTCGAGATAAA
* *
33523 TCTATGTGATCCTTCGAGATAAT
1 TCTATGTGGTCCTTCGAGATAAA
33546 TCTATGTGGTCCTT
1 TCTATGTGGTCCTT
33560 AGGGACAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
22 16 0.52
23 15 0.48
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (23 bp):
TCTATGTGGTCCTTCGAGATAAA
Found at i:33580 original size:24 final size:24
Alignment explanation
Indices: 33543--33599 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
33533 CCTTCGAGAT
* *
33543 AATTCTATGTGGTCCTTAGGGACA
1 AATTCTACGCGGTCCTTAGGGACA
*
33567 AATTCTACGCGGTCCTTTGGGACA
1 AATTCTACGCGGTCCTTAGGGACA
33591 AATTCTACG
1 AATTCTACG
33600 TGGCACTTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (24 bp):
AATTCTACGCGGTCCTTAGGGACA
Found at i:39717 original size:29 final size:29
Alignment explanation
Indices: 39620--39858 Score: 195
Period size: 29 Copynumber: 8.3 Consensus size: 29
39610 GATTTATATG
* * *
39620 AATTACAATAGTTACCCATAACTTTTATA
1 AATTACAATAATTGCCCAAAACTTTTATA
* * * *
39649 AATTATAGTAAGTACCCAAAA-TTTTATA
1 AATTACAATAATTGCCCAAAACTTTTATA
39677 AATTACAATAATTGCCCAAAACTTTTATA
1 AATTACAATAATTGCCCAAAACTTTTATA
*
39706 AATTACAATAATTG-CCAAAGACTTTTACA
1 AATTACAATAATTGCCCAAA-ACTTTTATA
* * * * *
39735 AAATAAAATAATGGCCCAAAAGTTTTCTA
1 AATTACAATAATTGCCCAAAACTTTTATA
* **
39764 AATTACAACAA-TGACATAAAACTTTTGA-A
1 AATTACAATAATTG-CCCAAAACTTTT-ATA
* *
39793 AATTACAATAATGGCTCAAAACTTTTATA
1 AATTACAATAATTGCCCAAAACTTTTATA
* *
39822 ATTTA-AATTAATAT-CCCAAATA-TTTTACA
1 AATTACAA-TAAT-TGCCCAAA-ACTTTTATA
39851 AATTACAA
1 AATTACAA
39859 GAAAAACATA
Statistics
Matches: 166, Mismatches: 33, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
28 33 0.20
29 124 0.75
30 9 0.05
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.33
Consensus pattern (29 bp):
AATTACAATAATTGCCCAAAACTTTTATA
Found at i:39840 original size:87 final size:84
Alignment explanation
Indices: 39639--39858 Score: 221
Period size: 87 Copynumber: 2.5 Consensus size: 84
39629 AGTTACCCAT
* * * * *
39639 AACTTTTATAAATTATAGTAAGTACCCAAAATTTTATAAATTACAATAATTGCCCAAAACTTTTA
1 AACTTTTATAAATTAAAATAA-TACCCAAAATTTTCTAAATTACAACAATTGCACAAAACTTTTA
*
39704 TAAATTACAATAATTGCCAA
65 TAAATTACAATAATGGCCAA
* * * *
39724 AGACTTTTACAAAATAAAATAATGGCCCAAAAGTTTTCTAAATTACAACAA-TGACATAAAACTT
1 A-ACTTTTATAAATTAAAATAAT-ACCCAAAA-TTTTCTAAATTACAACAATTG-CACAAAACTT
39788 TTGA-AAATTACAATAATGGCTCAA
62 TT-ATAAATTACAATAATGGC-CAA
* *
39812 AACTTTTATAATTTAAATTAATATCCCAAATATTTTAC-AAATTACAA
1 AACTTTTATAAATTAAAATAATA-CCCAAA-ATTTT-CTAAATTACAA
39859 GAAAAACATA
Statistics
Matches: 111, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
85 2 0.02
86 25 0.23
87 77 0.69
88 7 0.06
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (84 bp):
AACTTTTATAAATTAAAATAATACCCAAAATTTTCTAAATTACAACAATTGCACAAAACTTTTAT
AAATTACAATAATGGCCAA
Found at i:39868 original size:87 final size:86
Alignment explanation
Indices: 39694--39890 Score: 204
Period size: 87 Copynumber: 2.3 Consensus size: 86
39684 ATAATTGCCC
* *
39694 AAAACTTTTATAAATTACAATAATTGCCAAAGACTTTTACAAAATAAAATAATGGCCCAAAAGTT
1 AAAACTTTTA-AAATTACAATAATGGCCAAAGACTTTTACAAAATAAAATAATAGCCCAAAAGTT
**
39759 TTCTAAATTACAACAATGACAT
65 TTCTAAATTACAACAAAAACAT
* ** * *
39781 AAAACTTTTGAAAATTACAATAATGGCTCAAA-ACTTTTATAATTTAAATTAATATCCCAAATA-
1 AAAACTTTT-AAAATTACAATAATGGC-CAAAGACTTTTACAAAATAAAATAATAGCCCAAA-AG
*
39844 TTTTAC-AAATTACAAGAAAAACAT
63 TTTT-CTAAATTACAACAAAAACAT
*
39868 -ATACATTTTAAATATTACAATAA
1 AAAAC-TTTTAAA-ATTACAATAA
39891 AGACTCATCT
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
86 6 0.06
87 80 0.86
88 7 0.08
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.32
Consensus pattern (86 bp):
AAAACTTTTAAAATTACAATAATGGCCAAAGACTTTTACAAAATAAAATAATAGCCCAAAAGTTT
TCTAAATTACAACAAAAACAT
Found at i:39912 original size:28 final size:29
Alignment explanation
Indices: 39843--39914 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
39833 TATCCCAAAT
39843 ATTTTACAAATTACAAGAAAAACATATAC
1 ATTTTACAAATTACAAGAAAAACATATAC
* *
39872 ATTTTA-AATATTACAATAAAGAC-TCAT-C
1 ATTTTACAA-ATTACAAGAAAAACAT-ATAC
*
39900 TTTTTACAAATTACA
1 ATTTTACAAATTACA
39915 TTAATGTGCT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 15 0.41
29 22 0.59
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.35
Consensus pattern (29 bp):
ATTTTACAAATTACAAGAAAAACATATAC
Found at i:41743 original size:28 final size:28
Alignment explanation
Indices: 41711--41768 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
41701 TGAAATAAAT
41711 AAAATATAAAATTATTTTAAAAATT-TAA
1 AAAATATAAAA-TATTTTAAAAATTATAA
* *
41739 AAAATATTAAATCTTTTAAAAATTATAA
1 AAAATATAAAATATTTTAAAAATTATAA
41767 AA
1 AA
41769 CAAAAACTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (28 bp):
AAAATATAAAATATTTTAAAAATTATAA
Found at i:42114 original size:35 final size:35
Alignment explanation
Indices: 42075--42150 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
42065 AAAGCAGTCC
* * *
42075 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAGT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
42110 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
42145 TCAATT
1 TCAATT
42151 CAATTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:42693 original size:130 final size:130
Alignment explanation
Indices: 42547--42794 Score: 406
Period size: 130 Copynumber: 1.9 Consensus size: 130
42537 TATTTATATA
* **
42547 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
42612 TTAGCATATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
42677 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * * *
42742 TTAATACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
42795 GAAGAAAATT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 108 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:42825 original size:130 final size:129
Alignment explanation
Indices: 42561--42825 Score: 291
Period size: 130 Copynumber: 2.0 Consensus size: 129
42551 ATTTGGTCCT
* ** * *
42561 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCATATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
42626 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
*
42691 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAATACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * * *
42756 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
42820 -A
128 CA
42821 AAATT
1 AAATT
42826 TGGGTCTTGG
Statistics
Matches: 111, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
130 98 0.88
132 8 0.07
133 5 0.05
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:43273 original size:15 final size:17
Alignment explanation
Indices: 43253--43284 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
43243 ATTTCTTATT
43253 AAAATA-AAAT-ATTCA
1 AAAATATAAATGATTCA
43268 AAAATATAAATGATTCA
1 AAAATATAAATGATTCA
43285 TACATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAATATAAATGATTCA
Found at i:43338 original size:18 final size:16
Alignment explanation
Indices: 43315--43353 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
43305 TATTTTTATT
43315 TATACATCTAAATATAAA
1 TATACAT-T-AATATAAA
*
43333 TATACATTTATATAAA
1 TATACATTAATATAAA
43349 TATAC
1 TATAC
43354 TTTTATTCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 1 0.05
18 7 0.35
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (16 bp):
TATACATTAATATAAA
Found at i:43347 original size:16 final size:16
Alignment explanation
Indices: 43326--43359 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
43316 ATACATCTAA
43326 ATATAAATATACATTT
1 ATATAAATATACATTT
*
43342 ATATAAATATACTTTT
1 ATATAAATATACATTT
43358 AT
1 AT
43360 TCGTATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATAAATATACATTT
Found at i:45038 original size:29 final size:30
Alignment explanation
Indices: 44991--45061 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
44981 TCTACAAGCC
* * **
44991 TTAGAAAATTTGGGGACC-ATTTTGTAATT
1 TTAGAAAAGTTGGGAACCAATTCAGTAATT
*
45020 TTTGAAAAGTTGGGAACCAATTCAGTAATT
1 TTAGAAAAGTTGGGAACCAATTCAGTAATT
45050 TTAGAAAAGTTG
1 TTAGAAAAGTTG
45062 TTAATAATTG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
29 15 0.43
30 20 0.57
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (30 bp):
TTAGAAAAGTTGGGAACCAATTCAGTAATT
Found at i:51306 original size:4 final size:4
Alignment explanation
Indices: 51297--51321 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
51287 TAAATATTTG
51297 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
51322 AATTAAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:52428 original size:66 final size:65
Alignment explanation
Indices: 52279--52455 Score: 306
Period size: 66 Copynumber: 2.8 Consensus size: 65
52269 GCTTTGCAGG
*
52279 TATATATAGAGGTAAGATTATGAATCTACCATTTCAT--AA-AAGAAGAAGAAGATTTTTTTAAG
1 TATATATAGAGGTAAGATTATGAATCTACCATTTCATAAAAGAAGAAGAAGAAGATTTTTTTAAA
*
52341 TATATATAGAGGTAAGATTATGAATATACCATTTCATAAAAGAAGAAGAAGAAGATTTTTTTTAA
1 TATATATAGAGGTAAGATTATGAATCTACCATTTCATAAAAGAAGAAGAAGAAGA-TTTTTTTAA
52406 A
65 A
52407 TATATATAGAGGTAAGATTATGAATCTACCATTTCATAAAAGAAGAAGA
1 TATATATAGAGGTAAGATTATGAATCTACCATTTCATAAAAGAAGAAGA
52456 TTTTTTTAAG
Statistics
Matches: 108, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
62 36 0.33
64 2 0.02
65 13 0.12
66 57 0.53
ACGTcount: A:0.46, C:0.06, G:0.16, T:0.32
Consensus pattern (65 bp):
TATATATAGAGGTAAGATTATGAATCTACCATTTCATAAAAGAAGAAGAAGAAGATTTTTTTAAA
Found at i:57844 original size:19 final size:19
Alignment explanation
Indices: 57820--57858 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
57810 CATATATCTC
* *
57820 TAAATTATTATTTTAATTT
1 TAAATTAGTATTTAAATTT
57839 TAAATTAGTATTTAAATTT
1 TAAATTAGTATTTAAATTT
57858 T
1 T
57859 TGAATATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TAAATTAGTATTTAAATTT
Found at i:57905 original size:60 final size:60
Alignment explanation
Indices: 57835--57964 Score: 156
Period size: 60 Copynumber: 2.2 Consensus size: 60
57825 TATTATTTTA
* * * * *
57835 ATTTTAAATTAGTATTTAAATTTTTGAATATT-CTAATTTCATCCTCAAACTATGAT-ACTC
1 ATTTTAAATTAGTACTTAAACTTTTGAACATTCCAAATTT-ATCCACAAACTATGATCA-TC
* *
57895 ATTTTAAATTAGTCCTTAAACTTTTGAACATTCCAAATTTATCCACAAATTATGATCATC
1 ATTTTAAATTAGTACTTAAACTTTTGAACATTCCAAATTTATCCACAAACTATGATCATC
*
57955 ATTCTAAATT
1 ATTTTAAATT
57965 GGCCCCAAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 53 0.88
61 7 0.12
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.44
Consensus pattern (60 bp):
ATTTTAAATTAGTACTTAAACTTTTGAACATTCCAAATTTATCCACAAACTATGATCATC
Found at i:59501 original size:110 final size:110
Alignment explanation
Indices: 59304--59526 Score: 383
Period size: 110 Copynumber: 2.0 Consensus size: 110
59294 ATAGTTACAG
* * *
59304 TATATCGGTTTAACTTCTTATCGTGCTCGTTGAATGAAAGCTTGTTGAGTGTGATAATTTACTTC
1 TATATCGGTTTAACTTCATATCGTGCTCGTTGAATGAAAGCTTGTTAAGCGTGATAATTTACTTC
* *
59369 CTATTTATATGTAACGTGTAGAGAGTTGATTCATACATTTGCGGA
66 CGATTTATATGTAACGTGTAGAGAGCTGATTCATACATTTGCGGA
*
59414 TATATCGGTTTAACTTCATATCGTGCTCGTTGAATGAAAGCTTGTTAAGCGTGATAGTTTACTTC
1 TATATCGGTTTAACTTCATATCGTGCTCGTTGAATGAAAGCTTGTTAAGCGTGATAATTTACTTC
*
59479 CGATTTATATGTAACGTTTAGAGAGCTGATTCATACATTTGCGGA
66 CGATTTATATGTAACGTGTAGAGAGCTGATTCATACATTTGCGGA
59524 TAT
1 TAT
59527 TCAGTTTTTT
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
110 106 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (110 bp):
TATATCGGTTTAACTTCATATCGTGCTCGTTGAATGAAAGCTTGTTAAGCGTGATAATTTACTTC
CGATTTATATGTAACGTGTAGAGAGCTGATTCATACATTTGCGGA
Found at i:62374 original size:3 final size:3
Alignment explanation
Indices: 62368--62399 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
62358 TTTATTTAAT
62368 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
62400 TTGAAATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:64990 original size:17 final size:17
Alignment explanation
Indices: 64944--64992 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
64934 GTACTGTGCG
64944 AATGTTTTTTCTT-AAA
1 AATGTTTTTTCTTAAAA
* * *
64960 GATG-ATTGTCTTAAAA
1 AATGTTTTTTCTTAAAA
64976 AATGTTTTTTCTTAAAA
1 AATGTTTTTTCTTAAAA
64993 TTGTTTTTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
15 6 0.24
16 9 0.36
17 10 0.40
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (17 bp):
AATGTTTTTTCTTAAAA
Found at i:64997 original size:16 final size:15
Alignment explanation
Indices: 64944--65000 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 15
64934 GTACTGTGCG
64944 AATGTTTTTTCTTAA
1 AATGTTTTTTCTTAA
* *
64959 AGATG-ATTGTCTTAAAA
1 A-ATGTTTTTTCTT--AA
64976 AATGTTTTTTCTTAA
1 AATGTTTTTTCTTAA
64991 AATTGTTTTT
1 AA-TGTTTTT
65001 AAAAGACGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
15 11 0.33
16 13 0.39
17 9 0.27
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (15 bp):
AATGTTTTTTCTTAA
Found at i:69825 original size:16 final size:16
Alignment explanation
Indices: 69789--69828 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
69779 AATTGAGAAA
**
69789 ACATACATCAATGCAT
1 ACATACATCAACACAT
*
69805 GCATACATCAACACAT
1 ACATACATCAACACAT
69821 ACATACAT
1 ACATACAT
69829 ACATATTACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
ACATACATCAACACAT
Found at i:70339 original size:103 final size:104
Alignment explanation
Indices: 70221--70570 Score: 413
Period size: 103 Copynumber: 3.3 Consensus size: 104
70211 CTTGAGACAA
*
70221 TTTCT-TTCAAAACAAATTTCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAAATTTGAATT
1 TTTCTCTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAAATTTGAATT
* * *
70285 TGTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGC
66 TGTTTCACATTAAACAAAGTTAATCTCACTTGAGATCGT
* * * * *
70324 TTTCTCTT-AAAACAAACTTCATCTTGCTTGAGACATTTTTTCCTTTGATATACAAATTTTGAAT
1 TTTCTCTTCAAAACAAATTTCGTCTCGCTTGAGACA-TTTTTCCTTTGAGATACAAAATTTGAAT
* * * *
70388 TTGATTCAC-TTGAAACAAATATTAATCCCACTTGAGATTGTTAT
65 TTGTTTCACATT-AAACAAA-GTTAATCTCACTTGAGATCG---T
* * *
70432 TTTTTTTTCAAAACAAATTTCGTCTCGTTTGAGACATTTTTCCTTTGAGATACAAAATTTGAATT
1 TTTCTCTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAAATTTGAATT
*
70497 TGTTTTCACATTAAACAAAGTTAATCTCACTTGAGATCAT
66 TG-TTTCACATTAAACAAAGTTAATCTCACTTGAGATCGT
* * * *
70537 TTTCTC--AAAAACAATTTTCGTATCGTTTGAGACA
1 TTTCTCTTCAAAACAAATTTCGTCTCGCTTGAGACA
70571 ATTTCTCTAA
Statistics
Matches: 206, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
103 55 0.27
104 43 0.21
105 20 0.10
108 51 0.25
109 35 0.17
110 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (104 bp):
TTTCTCTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAAATTTGAATT
TGTTTCACATTAAACAAAGTTAATCTCACTTGAGATCGT
Found at i:70496 original size:108 final size:104
Alignment explanation
Indices: 70221--70534 Score: 400
Period size: 108 Copynumber: 3.0 Consensus size: 104
70211 CTTGAGACAA
*
70221 TTTC-TTTCAAAACAAATTTCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAAATTTGAATT
1 TTTCTTTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAAATTTGAATT
* *
70285 TGTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGC
66 TGTTTCACATTAAACAAAGTTAATCTCACTTGAGATCGC
* * * * * *
70324 TTTCTCTT-AAAACAAACTTCATCTTGCTTGAGACATTTTTTCCTTTGATATACAAATTTTGAAT
1 TTTCTTTTCAAAACAAATTTCGTCTCGCTTGAGACA-TTTTTCCTTTGAGATACAAAATTTGAAT
* * * * *
70388 TTGATTCAC-TTGAAACAAATATTAATCCCACTTGAGATTGTTAT
65 TTGTTTCACATT-AAACAAA-GTTAATCTCACTTGAGATCG---C
* *
70432 TTTTTTTTCAAAACAAATTTCGTCTCGTTTGAGACATTTTTCCTTTGAGATACAAAATTTGAATT
1 TTTCTTTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAAATTTGAATT
70497 TGTTTTCACATTAAACAAAGTTAATCTCACTTGAGATC
66 TG-TTTCACATTAAACAAAGTTAATCTCACTTGAGATC
70535 ATTTTCTCAA
Statistics
Matches: 175, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
103 29 0.17
104 43 0.25
105 15 0.09
108 51 0.29
109 35 0.20
110 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.42
Consensus pattern (104 bp):
TTTCTTTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAAATTTGAATT
TGTTTCACATTAAACAAAGTTAATCTCACTTGAGATCGC
Found at i:70672 original size:32 final size:32
Alignment explanation
Indices: 70648--70707 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
70638 AACAAACATT
*
70648 ATATTTGAGTC-GTTTCTTTTGAAAC-AAAGG
1 ATATTTGAGTCTATTTCTTTTGAAACAAAAGG
*
70678 ATCTTTGAGTCTATTTCTTTTGAAACAAAA
1 ATATTTGAGTCTATTTCTTTTGAAACAAAA
70708 CTTTGACTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 10 0.38
31 13 0.50
32 3 0.12
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.42
Consensus pattern (32 bp):
ATATTTGAGTCTATTTCTTTTGAAACAAAAGG
Found at i:70858 original size:63 final size:65
Alignment explanation
Indices: 70781--70949 Score: 202
Period size: 63 Copynumber: 2.6 Consensus size: 65
70771 TGAAATTTTT
* * *
70781 TTTGAGTATATTTCTTTGATAACAAAATTTTGTCTCTTTTGAAAAAGTTTCTTTTG-A-AAGAAT
1 TTTGAGTATGTTTCTTTGA-AACAAAATTTTGTCTCTTTTGAAAAAGTTCCTTTTGAAGAAAAAT
70844 C
65 C
* *
70845 -TTGAGTATGTTTCTTTGGAAACAAAATTTTGTCTCTTTTGAGACAGTTCCTTTTGAAGAAAAAT
1 TTTGAGTATGTTTCTTT-GAAACAAAATTTTGTCTCTTTTGAAAAAGTTCCTTTTGAAGAAAAAT
70909 C
65 C
* * *
70910 TTTAAGTATGTTT-TTATGAAAAAAAAGGTTTGTCTCTTTT
1 TTTGAGTATGTTTCTT-TGAAACAAAA-TTTTGTCTCTTTT
70950 AAGACAATTT
Statistics
Matches: 91, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
63 48 0.53
64 3 0.03
65 16 0.18
66 24 0.26
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (65 bp):
TTTGAGTATGTTTCTTTGAAACAAAATTTTGTCTCTTTTGAAAAAGTTCCTTTTGAAGAAAAATC
Found at i:71116 original size:28 final size:29
Alignment explanation
Indices: 70993--71116 Score: 135
Period size: 29 Copynumber: 4.2 Consensus size: 29
70983 ACTGATTCCC
* *
70993 TTGAAACAAAACGTATCTTTAAGTTTGTTTCTC
1 TTGAAACAAAA---ATCTTTGAG-TTGTTTCTT
* *
71026 TTGAAACAAAAGTCTGTGAGTTGTTTCTT
1 TTGAAACAAAAATCTTTGAGTTGTTTCTT
*
71055 TTGAAATAAAAATCTTTGAGTTGTTTCTT
1 TTGAAACAAAAATCTTTGAGTTGTTTCTT
*
71084 TTG-AA-AAAATTCTTTGAGTCTGTTTCTT
1 TTGAAACAAAAATCTTTGAGT-TGTTTCTT
71112 TTGAA
1 TTGAA
71117 CTAAAGTTTT
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
27 13 0.16
28 13 0.16
29 38 0.47
30 6 0.07
33 11 0.14
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.45
Consensus pattern (29 bp):
TTGAAACAAAAATCTTTGAGTTGTTTCTT
Found at i:71185 original size:29 final size:30
Alignment explanation
Indices: 71152--71209 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
71142 ATTTCGTGAA
71152 AAAATCTTTGAG-TCATTTCTTTTGAAACC
1 AAAATCTTTGAGTTCATTTCTTTTGAAACC
*
71181 AAAATCTTTGAGTTTATTTCTTTTGAAAC
1 AAAATCTTTGAGTTCATTTCTTTTGAAAC
71210 AAAGTTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (30 bp):
AAAATCTTTGAGTTCATTTCTTTTGAAACC
Found at i:71212 original size:29 final size:29
Alignment explanation
Indices: 71152--71212 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
71142 ATTTCGTGAA
**
71152 AAAATCTTTGAG-TCATTTCTTTTGAAACC
1 AAAATCTTTGAGTTTGTTTCTTTTGAAA-C
*
71181 AAAATCTTTGAGTTTATTTCTTTTGAAAC
1 AAAATCTTTGAGTTTGTTTCTTTTGAAAC
71210 AAA
1 AAA
71213 GTTTTGTCTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (29 bp):
AAAATCTTTGAGTTTGTTTCTTTTGAAAC
Found at i:71215 original size:91 final size:90
Alignment explanation
Indices: 71062--71273 Score: 268
Period size: 91 Copynumber: 2.3 Consensus size: 90
71052 CTTTTGAAAT
* *
71062 AAAAATCTTTGAGTTGTTTCTTTTGAAAAAATTCTTTGAGTCTGTTTCTTTTGAACTAAAGTTTT
1 AAAAATCTTTGAG-TGTTTCTTTTGAAAAAAATCTTTGAGTCTATTTCTTTTGAACTAAAGTTTT
71127 ATCTCTCTTAAGACA-ATTTCGTGA-
65 ATCTCTCTTAAGACAGATTTCGTGAG
* *
71151 AAAAATCTTTGAGTCATTTCTTTTGAAACCAAAATCTTTGAGTTTATTTCTTTTGAAAC-AAAGT
1 AAAAATCTTTGAGT-GTTTCTTTTGAAA--AAAATCTTTGAGTCTATTTCTTTTG-AACTAAAGT
* * * *
71215 TTTGTCTCTCTTGAGACAGTTTTTCTTGAG
62 TTTATCTCTCTTAAGACAG-ATTTCGTGAG
*
71245 AAAAATCTTTGAGTGTTCCTTTTGAAAAA
1 AAAAATCTTTGAGTGTTTCTTTTGAAAAA
71274 TCTTGAAATT
Statistics
Matches: 106, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
88 1 0.01
89 25 0.24
91 45 0.42
92 3 0.03
93 18 0.17
94 14 0.13
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (90 bp):
AAAAATCTTTGAGTGTTTCTTTTGAAAAAAATCTTTGAGTCTATTTCTTTTGAACTAAAGTTTTA
TCTCTCTTAAGACAGATTTCGTGAG
Found at i:71775 original size:133 final size:133
Alignment explanation
Indices: 71493--71833 Score: 495
Period size: 133 Copynumber: 2.5 Consensus size: 133
71483 AATCATTATC
* * * * ** * *
71493 CCTAAAGATGGTCAGAACTCTTCGTCATGTGTGAGCTGTGTCATCTACTGACCAGATCTCTTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGC-GTGTCATCCCCCGACCAGATCTCCTCAT
* * *
71558 CACGTAGGAGTCGTGTCACCCCTAGATAACCAGACGTCCTCATCATGTAGGAACCGTGTTATCGC
65 CACGTAGGAGTCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGAGTTATCAC
71623 CCTT
130 CCTT
71627 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCCGACCAGATCTCCTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAG-CGTGTCATCCCCCGACCAGATCTCCTCAT
* * *
71692 CGCGTAGGAGTCGTGTC-CCCCTAGATAACCAGCCGTCCTCATCGCGTAGGAACCGAGTTATCAC
65 CACGTAGGAGTCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGAGTTATCAC
71756 CCTT
130 CCTT
* *
71760 CCTAAAGATGACCAGAACTCTTCATCACGTATGAGACGTGTCATCCCCCGACCAGATTTCCTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAG-CGTGTCATCCCCCGACCAGATCTCCTCAT
*
71825 CACGAAGGA
65 CACGTAGGA
71834 ACTGTGTCAC
Statistics
Matches: 187, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
133 115 0.61
134 71 0.38
135 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (133 bp):
CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCGTGTCATCCCCCGACCAGATCTCCTCATC
ACGTAGGAGTCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGAGTTATCACC
CTT
Found at i:78242 original size:27 final size:27
Alignment explanation
Indices: 78212--78291 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
78202 TGGATAATCT
78212 ATGCTTTTACTGTCTAGATGATAAATA
1 ATGCTTTTACTGTCTAGATGATAAATA
** ** *
78239 ATGC-TAAAAGGT-T-G--GAT-AATCT
1 ATGCTTTTACTGTCTAGATGATAAAT-A
78261 ATGCTTTTACTGTCTAGATGATAAATA
1 ATGCTTTTACTGTCTAGATGATAAATA
78288 ATGC
1 ATGC
78292 CATTGTTTCA
Statistics
Matches: 36, Mismatches: 10, Indels: 14
0.60 0.17 0.23
Matches are distributed among these distances:
21 3 0.08
22 7 0.19
23 4 0.11
24 2 0.06
25 2 0.06
26 4 0.11
27 11 0.31
28 3 0.08
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (27 bp):
ATGCTTTTACTGTCTAGATGATAAATA
Found at i:78264 original size:49 final size:49
Alignment explanation
Indices: 78192--78291 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
78182 GAAGCAAAAA
78192 GCTAAAAGGTTGGATAATCTATGCTTTTACTGTCTAGATGATAAATAAT
1 GCTAAAAGGTTGGATAATCTATGCTTTTACTGTCTAGATGATAAATAAT
78241 GCTAAAAGGTTGGATAATCTATGCTTTTACTGTCTAGATGATAAATAAT
1 GCTAAAAGGTTGGATAATCTATGCTTTTACTGTCTAGATGATAAATAAT
78290 GC
1 GC
78292 CATTGTTTCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (49 bp):
GCTAAAAGGTTGGATAATCTATGCTTTTACTGTCTAGATGATAAATAAT
Done.