Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007287.1 Hibiscus syriacus cultivar Beakdansim tig00019351_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: 99599
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Found at i:868 original size:19 final size:18
Alignment explanation
Indices: 844--880 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
834 ATTTTAGTTT
844 TTTTAAATATATTATTTTA
1 TTTTAAATA-ATTATTTTA
*
863 TTTTAAATAATTTTTTTA
1 TTTTAAATAATTATTTTA
881 AATTACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTAAATAATTATTTTA
Found at i:2362 original size:22 final size:22
Alignment explanation
Indices: 2332--2390 Score: 84
Period size: 23 Copynumber: 2.7 Consensus size: 22
2322 CTAACATTTT
2332 TTTTA-AGATTTTTTGAAATAC
1 TTTTAGAGATTTTTTGAAATAC
2353 TTTTAGAGATTTTTCTGAAATAC
1 TTTTAGAGATTTTT-TGAAATAC
* *
2376 TTTTAGGGTTTTTTT
1 TTTTAGAGATTTTTT
2391 TATGAAAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 5 0.15
22 9 0.26
23 20 0.59
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (22 bp):
TTTTAGAGATTTTTTGAAATAC
Found at i:3363 original size:24 final size:24
Alignment explanation
Indices: 3312--3363 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
3302 ATCATAATAC
*
3312 AACTGAAACTCATGAAACTATTAT
1 AACTGAAACTCATGAAACTATGAT
3336 AACTGAAA-TGCATGAAACTCATGA-
1 AACTGAAACT-CATGAAACT-ATGAT
3360 AACT
1 AACT
3364 TATGAAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 1 0.04
24 21 0.84
25 3 0.12
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (24 bp):
AACTGAAACTCATGAAACTATGAT
Found at i:13363 original size:69 final size:69
Alignment explanation
Indices: 13251--13389 Score: 226
Period size: 69 Copynumber: 2.0 Consensus size: 69
13241 AACCGTCGTA
* *
13251 AGCAAGGCAATGTTTTCATCAGGAGATATTACAGGGCACGTAAATGCTCAAAATGGTAATCAACA
1 AGCAAGGCAATGTTCTCATCAGGAGATAATACAGGGCACGTAAATGCTCAAAATGGTAATCAACA
13316 TCTC
66 TCTC
* *
13320 AGCAAGGCAATGTTCTCATCCGGAGATAGAT-CAGGGCATGTAAATGCTCAAAATGGTAATCAAC
1 AGCAAGGCAATGTTCTCATCAGGAGATA-ATACAGGGCACGTAAATGCTCAAAATGGTAATCAAC
13384 ATCTC
65 ATCTC
13389 A
1 A
13390 ACTCCCATCT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
69 64 0.98
70 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (69 bp):
AGCAAGGCAATGTTCTCATCAGGAGATAATACAGGGCACGTAAATGCTCAAAATGGTAATCAACA
TCTC
Found at i:15956 original size:26 final size:26
Alignment explanation
Indices: 15927--15980 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
15917 TAAAGAATTC
** *
15927 GATTTCAAAAATCTAAATTTATTAAA
1 GATTTCAAAAAAATAAATTTATAAAA
*
15953 GATTTTAAAAAAATAAATTTATAAAA
1 GATTTCAAAAAAATAAATTTATAAAA
15979 GA
1 GA
15981 GTGATATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (26 bp):
GATTTCAAAAAAATAAATTTATAAAA
Found at i:16690 original size:17 final size:18
Alignment explanation
Indices: 16649--16692 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
16639 CTTGACTTGA
*
16649 TAAAAAATAATAATTTAAT
1 TAAATAATAATAATTT-AT
16668 TAAAATAATAATAATTT-T
1 T-AAATAATAATAATTTAT
16686 TAAATAA
1 TAAATAA
16693 ATTACATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 6 0.26
18 2 0.09
19 1 0.04
20 14 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAATAATAATAATTTAT
Found at i:17616 original size:25 final size:26
Alignment explanation
Indices: 17558--17618 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
17548 TTTGTGTATG
17558 TTTT-TTTTATATAAAACTATTTTGA
1 TTTTATTTTATATAAAACTATTTTGA
* *
17583 TTTACATTTTATATAACA-TAGTTTT-A
1 TTT-TATTTTATATAAAACTA-TTTTGA
17609 TTTTATTTTA
1 TTTTATTTTA
17619 AATTAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 9 0.30
26 6 0.20
27 15 0.50
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (26 bp):
TTTTATTTTATATAAAACTATTTTGA
Found at i:18270 original size:17 final size:17
Alignment explanation
Indices: 18243--18286 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
18233 TCTAACACAT
18243 GAATAAAAAAATATAAAA
1 GAAT-AAAAAATATAAAA
*
18261 GAATAAAAAATTTAAAA
1 GAATAAAAAATATAAAA
18278 -ATATAAAAA
1 GA-ATAAAAA
18287 TAAATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 19 0.79
18 4 0.17
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (17 bp):
GAATAAAAAATATAAAA
Found at i:19936 original size:2 final size:2
Alignment explanation
Indices: 19929--19955 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19919 GTTTTACTTA
19929 AT 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 A
19956 ATCACATAAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21227 original size:40 final size:40
Alignment explanation
Indices: 21183--21455 Score: 108
Period size: 40 Copynumber: 6.4 Consensus size: 40
21173 TTGACATGAC
21183 TCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACGGT
1 TCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACGGT
* ** * * *
21223 TCCTACGCGATGAGGACAGATGGCCATCTTTAGGAAGTGTGATAACACGAT
1 TCCTACGTGATGAGG--AGAT---C-T-GGT-CG--GTG-GATGACACGGT
* ***
21274 TCCAACGTGATGAGGATGA-CTGGTTATCTAGG-GG-TGACACTAC
1 TCCTACGTGATGAGGA-GATCTGG---TC--GGTGGATGACACGGT
* * *
21317 TCCAACGTGATGAGGATATCTGGTCGGTGGATGAAACGGT
1 TCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACGGT
* *
21357 TCCTACGTGATGAGGATAAT-TGGTTATCTAGG-GG-TGACACGGC
1 TCCTACGTGATGAGGA-GATCTGG---TC--GGTGGATGACACGGT
* * * *
21400 TCCAATGTGATGAGGAGGTCTGGTCGGTGGATGACATGGT
1 TCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACGGT
* *
21440 TACTACATGATGAGGA
1 TCCTACGTGATGAGGA
21456 CAGTTGGTTA
Statistics
Matches: 171, Mismatches: 33, Indels: 58
0.65 0.13 0.22
Matches are distributed among these distances:
38 4 0.02
39 4 0.02
40 60 0.35
41 2 0.01
42 6 0.04
43 52 0.30
44 3 0.02
45 5 0.03
46 3 0.02
47 2 0.01
48 2 0.01
49 1 0.01
50 5 0.03
51 22 0.13
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (40 bp):
TCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACGGT
Found at i:21340 original size:43 final size:44
Alignment explanation
Indices: 21274--21415 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 44
21264 ATAACACGAT
* **
21274 TCCAACGTGATGAGGATGA-CTGGTTATCTAGGGGTGACACTAC
1 TCCAACGTGATGAGGATAATCTGGTTATCTAGGGGTGACACGGC
* *
21317 TCCAACGTGATGAGGAT-ATCTGG---TC--GGTGGATGAAACGGT
1 TCCAACGTGATGAGGATAATCTGGTTATCTAGG-GG-TGACACGGC
*
21357 TCCTACGTGATGAGGATAAT-TGGTTATCTAGGGGTGACACGGC
1 TCCAACGTGATGAGGATAATCTGGTTATCTAGGGGTGACACGGC
*
21400 TCCAATGTGATGAGGA
1 TCCAACGTGATGAGGA
21416 GGTCTGGTCG
Statistics
Matches: 81, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
38 2 0.02
39 2 0.02
40 26 0.32
41 2 0.02
42 1 0.01
43 44 0.54
44 2 0.02
45 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (44 bp):
TCCAACGTGATGAGGATAATCTGGTTATCTAGGGGTGACACGGC
Found at i:21422 original size:83 final size:83
Alignment explanation
Indices: 21267--21610 Score: 355
Period size: 83 Copynumber: 4.1 Consensus size: 83
21257 AAGTGTGATA
* * ** **
21267 ACACGATTCCAACGTGATGAGGATGACTGGTTATCTAGGGGTGACACTACTCCAACGTGATGAGG
1 ACACGGTTCCTACGTGATGAGGACAACTGGTTATCTAGGGGTGACACGGCTCCAACGTGATGAGG
**
21332 ATATCTGGTCGGTGGATG
66 AGGTCTGGTCGGTGGATG
* * * *
21350 AAACGGTTCCTACGTGATGAGGATAATTGGTTATCTAGGGGTGACACGGCTCCAATGTGATGAGG
1 ACACGGTTCCTACGTGATGAGGACAACTGGTTATCTAGGGGTGACACGGCTCCAACGTGATGAGG
21415 AGGTCTGGTCGGTGGATG
66 AGGTCTGGTCGGTGGATG
* * * ** ** *
21433 ACATGGTTACTACATGATGAGGACAGTTGGTTATCTAGGGGTGACACATCTCCTACGTGATGAGG
1 ACACGGTTCCTACGTGATGAGGACAACTGGTTATCTAGGGGTGACACGGCTCCAACGTGATGAGG
* * *
21498 AGGCCTGATCAGTGGATG
66 AGGTCTGGTCGGTGGATG
* * * * * * * * * *
21516 ACATGATTCATATGTGATGAGGACGACTGATTATCTAAGGGTGACATGGCTCCTACGTAATGAGG
1 ACACGGTTCCTACGTGATGAGGACAACTGGTTATCTAGGGGTGACACGGCTCCAACGTGATGAGG
* * *
21581 AGGTATAGTCGGGGGATG
66 AGGTCTGGTCGGTGGATG
*
21599 ACACAGTTCCTA
1 ACACGGTTCCTA
21611 TACGATAAGG
Statistics
Matches: 214, Mismatches: 47, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
83 214 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (83 bp):
ACACGGTTCCTACGTGATGAGGACAACTGGTTATCTAGGGGTGACACGGCTCCAACGTGATGAGG
AGGTCTGGTCGGTGGATG
Found at i:21479 original size:166 final size:166
Alignment explanation
Indices: 21294--21601 Score: 393
Period size: 166 Copynumber: 1.9 Consensus size: 166
21284 TGAGGATGAC
* * * * *
21294 TGGTTATCTAGGGGTGACAC-TACTCCAACGTGATGAGGATATCTGGTCGGTGGATGAAACGGTT
1 TGGTTATCTAGGGGTGACACAT-CTCCAACGTGATGAGGAGACCTGATCAGTGGATGAAACGATT
* * * * * * * * *
21358 CCTACGTGATGAGGATAATTGGTTATCTAGGGGTGACACGGCTCCAATGTGATGAGGAGGTCTGG
65 CATACGTGATGAGGACAACTGATTATCTAAGGGTGACACGGCTCCAACGTAATGAGGAGGTATAG
*
21423 TCGGTGGATGACATGGTTACTACATGATGAGGACAGT
130 TCGGGGGATGACATGGTTACTACATGATGAGGACAGT
* * * *
21460 TGGTTATCTAGGGGTGACACATCTCCTACGTGATGAGGAGGCCTGATCAGTGGATGACATGATTC
1 TGGTTATCTAGGGGTGACACATCTCCAACGTGATGAGGAGACCTGATCAGTGGATGAAACGATTC
* * * *
21525 ATATGTGATGAGGACGACTGATTATCTAAGGGTGACATGGCTCCTACGTAATGAGGAGGTATAGT
66 ATACGTGATGAGGACAACTGATTATCTAAGGGTGACACGGCTCCAACGTAATGAGGAGGTATAGT
21590 CGGGGGATGACA
131 CGGGGGATGACA
21602 CAGTTCCTAT
Statistics
Matches: 118, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
166 117 0.99
167 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (166 bp):
TGGTTATCTAGGGGTGACACATCTCCAACGTGATGAGGAGACCTGATCAGTGGATGAAACGATTC
ATACGTGATGAGGACAACTGATTATCTAAGGGTGACACGGCTCCAACGTAATGAGGAGGTATAGT
CGGGGGATGACATGGTTACTACATGATGAGGACAGT
Found at i:21730 original size:67 final size:67
Alignment explanation
Indices: 21646--21830 Score: 257
Period size: 66 Copynumber: 2.8 Consensus size: 67
21636 TAGGGATTTA
* **
21646 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGAAAACAAACTCAAAGATTTG
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACAAACTCAAAGATGGG
21711 TG
66 TG
* * * ** * *
21713 TTTCAAGAGAAATTGTCTCAAGGGAGA-AAAAATTCGTTTCAAGGGAAATGATCTCAAATATGGG
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACAAACTCAAAGATGGG
21777 TG
66 TG
*
21779 TTTCAGGAGAAACTGTCTCAAGGGAGACAAAAC-TTGTTTCAAGGGAAACAAA
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACAAA
21831 ACTTGTTTCA
Statistics
Matches: 100, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
66 70 0.70
67 30 0.30
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (67 bp):
TTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACAAACTCAAAGATGGG
TG
Found at i:21821 original size:21 final size:21
Alignment explanation
Indices: 21788--21851 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
21778 GTTTCAGGAG
* *
21788 AAAC-TGTCTCAAGGGAGACA
1 AAACTTGTTTCAAGGGAAACA
21808 AAACTTGTTTCAAGGGAAACA
1 AAACTTGTTTCAAGGGAAACA
21829 AAACTTGTTTCAAGGGAAACA
1 AAACTTGTTTCAAGGGAAACA
21850 AA
1 AA
21852 TTAAAAGGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 4 0.10
21 37 0.90
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (21 bp):
AAACTTGTTTCAAGGGAAACA
Found at i:21845 original size:87 final size:88
Alignment explanation
Indices: 21725--21917 Score: 216
Period size: 87 Copynumber: 2.2 Consensus size: 88
21715 TCAAGAGAAA
* ** * * **
21725 TTGTCTCAAGGGAGAA-AAAATTCGTTTCAAGGGAAA-TGATCTCAAATATGGGTGTTTC-AGGA
1 TTGTTTCAAGGGA-AACAAAATTCGTTTCAAGGGAAACAAAT-TAAAAGATGGGCATTTCAAGG-
*
21787 GAAACTGTCTCAAGGGAGACAAAAC-
63 GAAACCGTCTCAAGGGAGACAAAACT
* *
21812 TTGTTTCAAGGGAAACAAAACTT-GTTTCAAGGGAAACAAATTAAAAGGTTGGCATTTCAAGGGA
1 TTGTTTCAAGGGAAACAAAA-TTCGTTTCAAGGGAAACAAATTAAAAGATGGGCATTTCAAGGGA
21876 AACCGTCTCAAGGGAGACAAAACT
65 AACCGTCTCAAGGGAGACAAAACT
*
21900 TTGTTTCAAGAGAAACAA
1 TTGTTTCAAGGGAAACAA
21918 CTTCAAAGTT
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
86 2 0.02
87 64 0.71
88 24 0.27
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (88 bp):
TTGTTTCAAGGGAAACAAAATTCGTTTCAAGGGAAACAAATTAAAAGATGGGCATTTCAAGGGAA
ACCGTCTCAAGGGAGACAAAACT
Found at i:22156 original size:36 final size:35
Alignment explanation
Indices: 22038--22166 Score: 138
Period size: 36 Copynumber: 3.6 Consensus size: 35
22028 TACCTCAAAG
*
22038 GAAAAA-TGTCTCAAGCGAGA-TGAAATTTGTTTTGA
1 GAAAAACTGTCTCAAGCGAGACT--AATTTGTTTTTA
* * * *
22073 GAAAAATTTGTCTCTAGCAAGACAAAATTTGTTTTTA
1 GAAAAA-CTGTCTCAAGCGAGAC-TAATTTGTTTTTA
*
22110 G-AAAACTGTCTCAAGCGAGACTAATTTTTTTTATA
1 GAAAAACTGTCTCAAGCGAGACTAATTTGTTTT-TA
22145 GAAAAACTGTCTCAAGCGAGAC
1 GAAAAACTGTCTCAAGCGAGAC
22167 GGTACTTTGT
Statistics
Matches: 79, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
34 9 0.11
35 22 0.28
36 24 0.30
37 24 0.30
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (35 bp):
GAAAAACTGTCTCAAGCGAGACTAATTTGTTTTTA
Found at i:22331 original size:32 final size:32
Alignment explanation
Indices: 22268--22331 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
22258 TTCACTTTAG
* * *
22268 GATGTTGAATCTCCAAATATTCCCTAACATTC
1 GATGTTGAATCTCCAAAGATGCCCCAACATTC
* * *
22300 GATGTTGAATGTCCAAAGGTGCCCCACCATTC
1 GATGTTGAATCTCCAAAGATGCCCCAACATTC
22332 ACTATTTCTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAGATGCCCCAACATTC
Found at i:26145 original size:13 final size:13
Alignment explanation
Indices: 26127--26153 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26117 GTCCCTAGCA
26127 GAGTCGCCAAGCT
1 GAGTCGCCAAGCT
26140 GAGTCGCCAAGCT
1 GAGTCGCCAAGCT
26153 G
1 G
26154 TCATAACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.33, T:0.15
Consensus pattern (13 bp):
GAGTCGCCAAGCT
Found at i:26535 original size:14 final size:14
Alignment explanation
Indices: 26513--26556 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
26503 CATTCATGTA
*
26513 ACAAATATGTACAT
1 ACAATTATGTACAT
26527 ACAATTATGTACAT
1 ACAATTATGTACAT
*
26541 ACAATTCATGTTCAT
1 ACAATT-ATGTACAT
26556 A
1 A
26557 TAATAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 19 0.70
15 8 0.30
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (14 bp):
ACAATTATGTACAT
Found at i:28785 original size:7 final size:7
Alignment explanation
Indices: 28773--28813 Score: 73
Period size: 7 Copynumber: 5.7 Consensus size: 7
28763 TTTCACATAT
28773 GAAGAAG
1 GAAGAAG
28780 GAAGAAG
1 GAAGAAG
28787 GAAGAAG
1 GAAGAAG
28794 GAAGAAG
1 GAAGAAG
28801 GAAGAAG
1 GAAGAAG
28808 AGAAGA
1 -GAAGA
28814 GAAGAGAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 28 0.85
8 5 0.15
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (7 bp):
GAAGAAG
Found at i:33076 original size:27 final size:27
Alignment explanation
Indices: 33052--33107 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
33042 AAATAATACG
*
33052 CATTTT-ATATTTATTT-AGATAAATAA
1 CATTTTAATAATTATTTAAGA-AAATAA
33078 CATTTTAATAATTATTTAAGAAAATAA
1 CATTTTAATAATTATTTAAGAAAATAA
33105 CAT
1 CAT
33108 CAGAAAGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 6 0.22
27 18 0.67
28 3 0.11
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (27 bp):
CATTTTAATAATTATTTAAGAAAATAA
Found at i:43753 original size:15 final size:16
Alignment explanation
Indices: 43730--43763 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
43720 TGTTTGGTCG
43730 AAAAATAAA-GAAAGT
1 AAAAATAAACGAAAGT
*
43745 AAAATTAAACGAAAGT
1 AAAAATAAACGAAAGT
43761 AAA
1 AAA
43764 TCTTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.71, C:0.03, G:0.12, T:0.15
Consensus pattern (16 bp):
AAAAATAAACGAAAGT
Found at i:47835 original size:3 final size:3
Alignment explanation
Indices: 47822--47876 Score: 56
Period size: 3 Copynumber: 17.3 Consensus size: 3
47812 TTTCGTCTGG
* * *
47822 TTA TCTA TTA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTAA TTAA TTT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TT-A TTA
47870 TTA TTA T
1 TTA TTA T
47877 ATGTTTACAG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
3 34 0.77
4 10 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:49866 original size:22 final size:23
Alignment explanation
Indices: 49794--49890 Score: 119
Period size: 23 Copynumber: 4.3 Consensus size: 23
49784 TCGAGGGTTC
* *
49794 TATGTGGTCATTTGGGACAAAAA
1 TATGTGGTCATTCGGGACAAAAT
* *
49817 TATGTGGTCCTTCGGGACAAAACC
1 TATGTGGTCATTCGGGACAAAA-T
*
49841 TATGTGGTCCTTCGGGA-AAAAT
1 TATGTGGTCATTCGGGACAAAAT
49863 TATGTGGTCATTCGGGAC--AAT
1 TATGTGGTCATTCGGGACAAAAT
49884 TATGTGG
1 TATGTGG
49891 CACTTCGATG
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
21 10 0.15
22 16 0.24
23 24 0.36
24 17 0.25
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (23 bp):
TATGTGGTCATTCGGGACAAAAT
Found at i:49877 original size:46 final size:47
Alignment explanation
Indices: 49793--49882 Score: 137
Period size: 46 Copynumber: 1.9 Consensus size: 47
49783 GTCGAGGGTT
* *
49793 CTATGTGGTCATTTGGGACAAAAATATGTGGTCCTTCGGGACAAAAC
1 CTATGTGGTCATTCGGGACAAAAATATGTGGTCATTCGGGACAAAAC
* *
49840 CTATGTGGTCCTTCGGGA-AAAATTATGTGGTCATTCGGGACAA
1 CTATGTGGTCATTCGGGACAAAAATATGTGGTCATTCGGGACAA
49883 TTATGTGGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 23 0.59
47 16 0.41
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (47 bp):
CTATGTGGTCATTCGGGACAAAAATATGTGGTCATTCGGGACAAAAC
Found at i:54355 original size:19 final size:19
Alignment explanation
Indices: 54333--54370 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
54323 ATAGAGATCC
54333 CATATTTACTTCGAGATTT
1 CATATTTACTTCGAGATTT
*
54352 CATATTTACTTTGAGATTT
1 CATATTTACTTCGAGATTT
54371 TAGAAGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (19 bp):
CATATTTACTTCGAGATTT
Found at i:56749 original size:22 final size:21
Alignment explanation
Indices: 56697--56769 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 21
56687 TCAAGGGTTC
* *
56697 TATGTGGTCCTTCAGGACAAAACC
1 TATGTGGTCCTTC-GG-GAAAA-T
56721 TATGTGGTCCTTCGGGAAACAT
1 TATGTGGTCCTTCGGGAAA-AT
* *
56743 TATGTGGTCATT-GGGACAAT
1 TATGTGGTCCTTCGGGAAAAT
56763 TATGTGG
1 TATGTGG
56770 CACTTCGATG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
20 9 0.20
21 5 0.11
22 14 0.32
23 3 0.07
24 13 0.30
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGAAAAT
Found at i:58323 original size:29 final size:27
Alignment explanation
Indices: 58288--58355 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 27
58278 AATATGTTTA
* *
58288 TTTATTTATTTTTATTTGGCCATGCA-AT
1 TTTATTTATTTTAATTTAGCCA--CACAT
58316 TTTAATTTATTTTAATTTAGCCACACAT
1 TTT-ATTTATTTTAATTTAGCCACACAT
58344 TTTATTTATTTT
1 TTTATTTATTTT
58356 CATATTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
27 11 0.31
28 8 0.22
29 17 0.47
ACGTcount: A:0.25, C:0.10, G:0.06, T:0.59
Consensus pattern (27 bp):
TTTATTTATTTTAATTTAGCCACACAT
Found at i:64884 original size:43 final size:42
Alignment explanation
Indices: 64775--64929 Score: 186
Period size: 43 Copynumber: 3.6 Consensus size: 42
64765 TGAGAACAAA
* * * *
64775 AAACACCGCAACAGGTGAAGATCTATAACGACGTTTTTGGAAC
1 AAACGCCGCAAAAGGTG-AGATCTATAGCGGCGTTTTTGGAAC
* *
64818 -AACGCCGCAAAAGGTCGATATCTATAGCGGCATTTTTGGAAC
1 AAACGCCGCAAAAGGT-GAGATCTATAGCGGCGTTTTTGGAAC
** *
64860 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTGCGGAAT
1 AAACGCCGCAAAAGGT-GAGATCTATAGCGGCGTTTTTGGAAC
*
64903 AAACGCCGCAAAAGGTTAGATCTATAG
1 AAACGCCGCAAAAGGTGAGATCTATAG
64930 TGTCCTTTTT
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
42 44 0.45
43 54 0.55
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (42 bp):
AAACGCCGCAAAAGGTGAGATCTATAGCGGCGTTTTTGGAAC
Found at i:64939 original size:85 final size:86
Alignment explanation
Indices: 64775--64957 Score: 192
Period size: 85 Copynumber: 2.1 Consensus size: 86
64765 TGAGAACAAA
* * ** * *
64775 AAACACCGCAACAGGTGAAGATCTATAACGACGTTTTTGGAACAACGCCGCAAAAGGTCGATATC
1 AAACGCCGCAAAAGGTGAAGATCTATAACGACGTTTGCGGAAAAACGCCGCAAAAGGTCGAGATC
64840 TATAGCGGCA-TTTTTGGAAC
66 TATAGCGGCATTTTTTGGAAC
* * *
64860 AAACGCCGCAAAAGGTCG-AGATCTATAGCGGCGTTTGCGGAATAAACGCCGCAAAAGGT-TAGA
1 AAACGCCGCAAAAGGT-GAAGATCTATAACGACGTTTGCGGAA-AAACGCCGCAAAAGGTCGAGA
* * * ** *
64923 TCTATAGTGTCCTTTTTTGTCAT
64 TCTATAGCGGCATTTTTTGGAAC
64946 AAACGCCGCAAA
1 AAACGCCGCAAA
64958 TTATCTAAAC
Statistics
Matches: 80, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
85 45 0.56
86 35 0.44
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (86 bp):
AAACGCCGCAAAAGGTGAAGATCTATAACGACGTTTGCGGAAAAACGCCGCAAAAGGTCGAGATC
TATAGCGGCATTTTTTGGAAC
Found at i:66948 original size:3 final size:3
Alignment explanation
Indices: 66942--67048 Score: 151
Period size: 3 Copynumber: 35.7 Consensus size: 3
66932 TTTTTATCCA
* ** *
66942 TAT TAT TAT TAT TAA TAT TAT TAT TAT CCT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
66990 TAT TAT CAT TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
67038 TAT TAT TAT TA
1 TAT TAT TAT TA
67049 AATATATTAA
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 90 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:69222 original size:18 final size:18
Alignment explanation
Indices: 69175--69223 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
69165 CTTTTCATTC
69175 TTTTTA-TTTATTTATTA
1 TTTTTATTTTATTTATTA
**
69192 TTTTTATAATATTTA-TA
1 TTTTTATTTTATTTATTA
69209 TGTTTTATTTTATTT
1 T-TTTTATTTTATTT
69224 GCAAGTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTTATTTTATTTATTA
Found at i:69244 original size:12 final size:14
Alignment explanation
Indices: 69217--69249 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
69207 TATGTTTTAT
69217 TTTATTTGCAAGTA
1 TTTATTTGCAAGTA
69231 TTTATTT-C-AGTA
1 TTTATTTGCAAGTA
69243 TTTATTT
1 TTTATTT
69250 TCTGTCAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 1 0.05
14 7 0.37
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.61
Consensus pattern (14 bp):
TTTATTTGCAAGTA
Found at i:79425 original size:7 final size:7
Alignment explanation
Indices: 79410--79484 Score: 68
Period size: 7 Copynumber: 10.7 Consensus size: 7
79400 TTGAAGAGAA
79410 AAAAGAAG
1 AAAA-AAG
79418 AAAAAAG
1 AAAAAAG
79425 AAAAAA-
1 AAAAAAG
79431 AGAAAAA-
1 A-AAAAAG
*
79438 AAAATAG
1 AAAAAAG
*
79445 -AAAATG
1 AAAAAAG
79451 AAAAAA-
1 AAAAAAG
79457 AAAAAAGG
1 AAAAAA-G
79465 AAAAAAGG
1 AAAAAA-G
79473 AAAAAAG
1 AAAAAAG
79480 AAAAA
1 AAAAA
79485 GGGGGTCAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
6 15 0.26
7 25 0.43
8 18 0.31
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:79429 original size:8 final size:8
Alignment explanation
Indices: 79403--79484 Score: 64
Period size: 8 Copynumber: 10.0 Consensus size: 8
79393 ATTATGCTTG
79403 AAGAGAAAA
1 AAGA-AAAA
79412 AAGAAGAAAA
1 AAG-A-AAAA
79422 AAGAAAAA
1 AAGAAAAA
79430 AAGAAAAA
1 AAGAAAAA
79438 AA-AATAGAA
1 AAGAA-A-AA
79447 AATG--AAA
1 AA-GAAAAA
79454 AA-AAAAA
1 AAGAAAAA
*
79461 AAGGAAAA
1 AAGAAAAA
*
79469 AAGGAAAA
1 AAGAAAAA
79477 AAGAAAAA
1 AAGAAAAA
79485 GGGGGTCAAG
Statistics
Matches: 63, Mismatches: 2, Indels: 17
0.77 0.02 0.21
Matches are distributed among these distances:
7 11 0.17
8 35 0.56
9 8 0.13
10 9 0.14
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (8 bp):
AAGAAAAA
Found at i:80820 original size:83 final size:82
Alignment explanation
Indices: 80609--81034 Score: 762
Period size: 82 Copynumber: 5.2 Consensus size: 82
80599 AAACATTAAA
*
80609 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGC
1 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAAC
*
80674 AGAACAGTCATTGAATT
66 AGAACAATCATTGAATT
80691 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAAC
1 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAAC
80756 AGAACCAATCATTGAATT
66 AGAA-CAATCATTGAATT
80774 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAAC
1 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAAC
80839 AGAACCAATCATTGAATT
66 AGAA-CAATCATTGAATT
*
80857 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGC
1 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAAC
80922 AGAACAATCATTGAATT
66 AGAACAATCATTGAATT
* * * **
80939 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAAC
81004 AGAACAATCATTGAATT
66 AGAACAATCATTGAATT
81021 TGGAAGATGAATTT
1 TGGAAGATGAATTT
81035 GCTCATAGTA
Statistics
Matches: 333, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
82 170 0.51
83 163 0.49
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (82 bp):
TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAAC
AGAACAATCATTGAATT
Found at i:81850 original size:113 final size:113
Alignment explanation
Indices: 81652--82422 Score: 1276
Period size: 113 Copynumber: 6.8 Consensus size: 113
81642 CAAAGATTCA
* * *
81652 AATCCATCATTTGATGGAACAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
81717 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
*
81765 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
81830 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
* * *
81878 AATCCATCATTTGATGGAACAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
81943 AGGAAGAAGAAATTCATAATGAGAAGAATTTGCTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
*
81991 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
82056 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
*
82104 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
82169 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
* * * * *
82217 AATTCATCATTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAC
1 AATCCATCATTTGATGGATCATCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
82281 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
* * * *
82330 AATTCATCATTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATCATTTGATGGATCATCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG
*
82394 AAGGAAGAAAAAGTTCATAATGAGAAGAA
65 AAGGAAGAAGAAGTTCATAATGAGAAGAA
82423 CTCATCAAGA
Statistics
Matches: 630, Mismatches: 27, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
112 1 0.00
113 629 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (113 bp):
AATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
Found at i:82680 original size:3 final size:3
Alignment explanation
Indices: 82674--82777 Score: 154
Period size: 3 Copynumber: 34.7 Consensus size: 3
82664 TTTTTATCCA
* ** *
82674 TAT TAT TAT TAT TAA TAT TAT TAT TAT CCT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
82722 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
82770 TAT TAT TA
1 TAT TAT TA
82778 AATATATTAA
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:89088 original size:13 final size:13
Alignment explanation
Indices: 89054--89080 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
89044 TTCTCCTATG
89054 CGTGTTCATCAAC
1 CGTGTTCATCAAC
89067 CGTGTTCATCAAC
1 CGTGTTCATCAAC
89080 C
1 C
89081 TTTATCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (13 bp):
CGTGTTCATCAAC
Found at i:92890 original size:19 final size:19
Alignment explanation
Indices: 92839--92895 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
92829 AATGTGCTTA
92839 TTTTC-ACTCTCAATTCTC
1 TTTTCAACTCTCAATTCTC
92857 TTTTCAATGCTCTCAATGTCT-
1 TTTTCAA--CTCTCAAT-TCTC
*
92878 TTTTCAACTCTCATTTCT
1 TTTTCAACTCTCAATTCT
92896 TCTTCTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 8 0.24
19 8 0.24
21 15 0.44
22 3 0.09
ACGTcount: A:0.18, C:0.28, G:0.04, T:0.51
Consensus pattern (19 bp):
TTTTCAACTCTCAATTCTC
Found at i:93741 original size:20 final size:20
Alignment explanation
Indices: 93716--93753 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
93706 TCCCTCTTTA
93716 AACTTTTTTCTTT-TTTTTCG
1 AACTTTTTT-TTTCTTTTTCG
93736 AACTTTTTTTTTCTTTTT
1 AACTTTTTTTTTCTTTTT
93754 TTACTAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.11, C:0.13, G:0.03, T:0.74
Consensus pattern (20 bp):
AACTTTTTTTTTCTTTTTCG
Done.