Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008448.1 Hibiscus syriacus cultivar Beakdansim tig00111253_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: 805563
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:767693 original size:32 final size:32
Alignment explanation
Indices: 767657--767727 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
767647 GCACTATCTG
767657 AATGCAAAA-CTAACTCTATCGTGCATTACCTA
1 AATGCAAAATC-AACTCTATCGTGCATTACCTA
* *
767689 AATGCAATATCGACTCTATCGTGCATTACCTA
1 AATGCAAAATCAACTCTATCGTGCATTACCTA
767721 AATGCAA
1 AATGCAA
767728 TATTGACTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 35 0.97
33 1 0.03
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (32 bp):
AATGCAAAATCAACTCTATCGTGCATTACCTA
Found at i:767728 original size:32 final size:32
Alignment explanation
Indices: 767669--767735 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
767659 TGCAAAACTA
767669 ACTCTATCGTGCATTACCTAAATGCAATATCG
1 ACTCTATCGTGCATTACCTAAATGCAATATCG
*
767701 ACTCTATCGTGCATTACCTAAATGCAATATTG
1 ACTCTATCGTGCATTACCTAAATGCAATATCG
767733 ACT
1 ACT
767736 TTTGTTTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (32 bp):
ACTCTATCGTGCATTACCTAAATGCAATATCG
Found at i:770723 original size:17 final size:18
Alignment explanation
Indices: 770701--770739 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
770691 TGAAAAGAAT
*
770701 TATTGATCTGC-TAAAAC
1 TATTGATCTGCATAAAAA
*
770718 TATTGATGTGCATAAAAA
1 TATTGATCTGCATAAAAA
770736 TATT
1 TATT
770740 AGTTTTACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (18 bp):
TATTGATCTGCATAAAAA
Found at i:772457 original size:24 final size:24
Alignment explanation
Indices: 772335--772450 Score: 146
Period size: 24 Copynumber: 4.8 Consensus size: 24
772325 TTCGATTTGA
772335 ATTCTGATATGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
*
772359 ATTCTGATTTGATA-TCTGACATGG
1 ATTCTGATATGATACT-TGACATGG
* *
772383 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATATGATACTTGACATGG
* * *
772407 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATATGATACTTGACATGG
772430 ATTTCTGATATGATACTTGAC
1 A-TTCTGATATGATACTTGAC
772451 CTGATTTATG
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 3 0.04
24 78 0.95
25 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:774561 original size:18 final size:18
Alignment explanation
Indices: 774538--774578 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
774528 ACCGGTCAGA
774538 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
774556 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
774574 ACCCG
1 ACCCG
774579 TTGACCGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.51, G:0.22, T:0.10
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:774576 original size:8 final size:8
Alignment explanation
Indices: 774565--774626 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
774555 GACCCGACCC
774565 GACCCGTT
1 GACCCGTT
774573 GACCCGTT
1 GACCCGTT
774581 GA-CCGTT
1 GACCCGTT
* *
774588 AACCCATT
1 GACCCGTT
774596 GA-CCGTT
1 GACCCGTT
774603 GACCGGCGTT
1 GACC--CGTT
774613 GACCACTGTT
1 GACC-C-GTT
774623 GACC
1 GACC
774627 AAAACTTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
7 12 0.27
8 16 0.36
9 1 0.02
10 15 0.34
ACGTcount: A:0.18, C:0.34, G:0.24, T:0.24
Consensus pattern (8 bp):
GACCCGTT
Found at i:774592 original size:15 final size:15
Alignment explanation
Indices: 774568--774616 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
774558 CCGACCCGAC
774568 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
* *
774583 CCGTTAACCCATTGA
1 CCGTTGACCCGTTGA
774598 CCGTTGACCGGCGTTGA
1 CCGTTGACC--CGTTGA
774615 CC
1 CC
774617 ACTGTTGACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 21 0.75
17 7 0.25
ACGTcount: A:0.16, C:0.35, G:0.24, T:0.24
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:777192 original size:24 final size:24
Alignment explanation
Indices: 777070--777185 Score: 146
Period size: 24 Copynumber: 4.8 Consensus size: 24
777060 TTTGATTTGA
777070 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
777094 ATTCTGATTTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
* *
777118 ATTCTGATCTGATACTTGACTTAG
1 ATTCTGATCTGATACTTGACATGG
* *
777142 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACATGG
*
777165 ATTTCTGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
777186 CTGATTTATG
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
23 3 0.04
24 77 0.95
25 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:777208 original size:24 final size:24
Alignment explanation
Indices: 777122--777195 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
777112 ACATGGATTC
* * *
777122 TGATCTGATACTTGACTTAGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
777146 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
777170 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
777194 TG
1 TG
777196 TTTTGATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.05
24 42 0.95
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:779893 original size:85 final size:84
Alignment explanation
Indices: 779803--780229 Score: 479
Period size: 85 Copynumber: 5.0 Consensus size: 84
779793 TAAAGCTATA
*
779803 CTGTAAATTTGACATGCCCTTGAGCTGAATAG-AATCAAACTCGAAGGTATTTGTTGACAGATAA
1 CTGTAAATTTGATATGCCCTTGAGCTGAAT-GTAATCAAACTCGAAGGT-TTTGTTGACAGATAA
*
779867 CCCTTCTTGCCTTGATTTATG
64 CCCTTCTTGCCTTGAGTTATG
* * * *
779888 CTGTAAATTTGATATGTCCTTGAGCTAAATGTAATCAAACACGAAGGTCTTTGTTGATAGATAAC
1 CTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCAAACTCGAAGGT-TTTGTTGACAGATAAC
* * *
779953 CCTTCTCGCCTTAAGCTATG
65 CCTTCTTGCCTTGAGTTATG
* * * **
779973 CTGTAAATTTGATATGCCCTTGAGCTAAATAG-AATCGAACTCGAAGG-TTTGTTAACAGATAGT
1 CTGTAAATTTGATATGCCCTTGAGCTGAAT-GTAATCAAACTCGAAGGTTTTGTTGACAGATAAC
*
780036 CATTCTCT-CCTTGAGTTATG
65 CCTTCT-TGCCTTGAGTTATG
** * * * *
780056 CTGTAAATTTGATATGTTCTTGAGCTGAATGAAATCAAACTCGAAGGTTTTTTACTAATAGATAA
1 CTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTTGT--TGACAGATAA
780121 CCCTT-TTCGCCTTGA-TCTATG
64 CCCTTCTT-GCCTTGAGT-TATG
* * ** *
780142 CTGTAAAATTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAACCTTTTGGTAGACAGATAAC
1 CTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTT-GTTGACAGATAAC
*
780207 CCTTCTCGCCTTGAGTTATG
65 CCTTCTTGCCTTGAGTTATG
780227 CTG
1 CTG
780230 CGAATAATTC
Statistics
Matches: 287, Mismatches: 42, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
82 1 0.00
83 68 0.24
84 6 0.02
85 143 0.50
86 68 0.24
87 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (84 bp):
CTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTTGTTGACAGATAACC
CTTCTTGCCTTGAGTTATG
Found at i:781717 original size:99 final size:98
Alignment explanation
Indices: 781543--781741 Score: 287
Period size: 99 Copynumber: 2.0 Consensus size: 98
781533 GGACAACTCA
*
781543 ATATTATAATCACCTTTATCAGGCTAACTGAATCTTATCCATAAAGCTGGAGCGTTTAACCAATT
1 ATATTATAATCACCTTTATCAGGCTAACTGAATCTTATCCATAAAGCAGGAGCGTTTAACCAATT
* *
781608 GCTCTTGAGGGACAGCTCAAGCTTTATTGTATAT
66 GCTCTTGAGGGAAAACTCAAGCTTTATTGTA-AT
* * *
781642 ATATTATAATCACCTTTATCAGGC-AAGCTGAATCTTGTCCATAAAGTCAGG-GCTTTTAACTAA
1 ATATTATAATCACCTTTATCAGGCTAA-CTGAATCTTATCCATAAAG-CAGGAGCGTTTAACCAA
781705 TTGCT-TTAGAGGGAAAACTCAAGCTTTATTGTAAT
64 TTGCTCTT-GAGGGAAAACTCAAGCTTTATTGTAAT
781740 AT
1 AT
781742 TAAAATTTGG
Statistics
Matches: 91, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
98 8 0.09
99 80 0.88
100 3 0.03
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (98 bp):
ATATTATAATCACCTTTATCAGGCTAACTGAATCTTATCCATAAAGCAGGAGCGTTTAACCAATT
GCTCTTGAGGGAAAACTCAAGCTTTATTGTAAT
Found at i:782299 original size:35 final size:35
Alignment explanation
Indices: 782225--782300 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 35
782215 ATATCCTTAT
* * * *
782225 AAAAAGAAATATAACAATGTTCAAAAATAGGTTAT
1 AAAAAGAAATATAACAAAGTTCAAAAACAAGTTAC
* *
782260 AAAAAGAAATATAAGAAAGTTTAAGAAACAAGTT-C
1 AAAAAGAAATATAACAAAGTTCAA-AAACAAGTTAC
782295 AAAAAG
1 AAAAAG
782301 GATGCTACAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 27 0.79
36 7 0.21
ACGTcount: A:0.61, C:0.05, G:0.13, T:0.21
Consensus pattern (35 bp):
AAAAAGAAATATAACAAAGTTCAAAAACAAGTTAC
Found at i:784406 original size:45 final size:45
Alignment explanation
Indices: 784314--784702 Score: 363
Period size: 45 Copynumber: 8.6 Consensus size: 45
784304 ATAACCTCCA
* * * * *
784314 TTTATGTTTATAAT-CAACCATTATGCACTTTAAATTATAACAT-CT
1 TTTATGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGCATACT
* * *
784359 TTTATGTTGATAATGCAGCCATATGCACTTCAACTATAGTATACT
1 TTTATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
** * * * *
784404 TTTATGTTGACT-ATTTACCCATATACATTTCAACCATAGTACACT
1 TTTATGTTGA-TAATGCACCCATATGCATTTCAACTATAGCATACT
* * * * *
784449 TTTATGTTGATAATGTACCCACATACATTTCAACTGTAGCATGCT
1 TTTATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
* * * * * *
784494 CTTCTGTTGATAATGCACCTATATGCATTTCAACTCTAACATACA
1 TTTATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
* *
784539 TTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCATACT
1 TTTATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
* * * * *
784584 TTTATTTTGATAATGTACCCATATACATTTCAACCATAGTATACT
1 TTTATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
* * * *
784629 TTTCTGTTGATAATGTACCCATATACATTTCAACTATGGCAT-CT
1 TTTATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
***
784673 TTTAATGCCAATAATGCACCCATATGCATT
1 TTT-ATGTTGATAATGCACCCATATGCATT
784703 AGTATTTTCA
Statistics
Matches: 286, Mismatches: 53, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
44 16 0.06
45 264 0.92
46 6 0.02
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.39
Consensus pattern (45 bp):
TTTATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
Found at i:785294 original size:14 final size:14
Alignment explanation
Indices: 785271--785304 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
785261 CCTATGGTGT
785271 AGGTACTGTTCTAA
1 AGGTACTGTTCTAA
* *
785285 AGGTATTGTTCTAT
1 AGGTACTGTTCTAA
785299 AGGTAC
1 AGGTAC
785305 CGATACCCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (14 bp):
AGGTACTGTTCTAA
Found at i:788704 original size:3 final size:3
Alignment explanation
Indices: 788690--788767 Score: 52
Period size: 3 Copynumber: 25.3 Consensus size: 3
788680 TAAAACAAAA
* * *
788690 AAT AATT AAT AAT AAT AA- AAA AAC ATAT AAT GAAA AAT AA- ATAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT A-AT AAT -AAT AAT AAT A-AT AAT
* * *
788737 AAT AAT AAT AAT AAC AAC AAC AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
788768 TATATATATA
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
2 3 0.05
3 52 0.83
4 8 0.13
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:788733 original size:16 final size:15
Alignment explanation
Indices: 788701--788738 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
788691 ATAATTAATA
788701 ATAATAAAAAAACAT
1 ATAATAAAAAAACAT
788716 ATAATGAAAAATAA-AT
1 ATAAT-AAAAA-AACAT
788732 ATAATAA
1 ATAATAA
788739 TAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 12 0.57
17 2 0.10
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (15 bp):
ATAATAAAAAAACAT
Found at i:788813 original size:22 final size:23
Alignment explanation
Indices: 788772--788815 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
788762 ATAATATATA
788772 TATATAAAAATATTTCCAAAAAC
1 TATATAAAAATATTTCCAAAAAC
* *
788795 TATAT-AATATATTTTCAAAAA
1 TATATAAAAATATTTCCAAAAA
788816 TGTTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (23 bp):
TATATAAAAATATTTCCAAAAAC
Found at i:788854 original size:12 final size:12
Alignment explanation
Indices: 788803--788861 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
788793 ACTATATAAT
788803 ATATTTTCAAAA
1 ATATTTTCAAAA
*
788815 ATGTTTT-AAAA
1 ATATTTTCAAAA
* * *
788826 CTATATT-ATATA
1 ATATTTTCA-AAA
*
788838 ATATTTTTAAAA
1 ATATTTTCAAAA
788850 ATATTTTCAAAA
1 ATATTTTCAAAA
788862 CTATATATTA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
11 9 0.25
12 26 0.72
13 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (12 bp):
ATATTTTCAAAA
Found at i:788887 original size:36 final size:35
Alignment explanation
Indices: 788777--789163 Score: 379
Period size: 35 Copynumber: 10.9 Consensus size: 35
788767 ATATATATAT
*
788777 AAAAATATTTCCAAAAACTATATA--ATATATTTTC
1 AAAAATATTTTC-AAAACTATATATTATATATTTTC
* *
788811 AAAAATGTTTT-AAAACTATAT-TATATAATATTTTT
1 AAAAATATTTTCAAAACTATATAT-TAT-ATATTTTC
788846 AAAAATATTTTCAAAACTATATATTATATAGTTTTC
1 AAAAATATTTTCAAAACTATATATTATATA-TTTTC
* *
788882 GAAAATGTTTT-AAAACTATATATTATATATTTTC
1 AAAAATATTTTCAAAACTATATATTATATATTTTC
788916 AAAAAATATTTTC-AAACTATATATTATATATGTTTC
1 -AAAAATATTTTCAAAACTATATATTATATAT-TTTC
* *
788952 AAAAATGTTTTTAAAACTATATATTATATAAGTTTTC
1 AAAAATATTTTCAAAACTATATATTATAT-A-TTTTC
*
788989 -AAAATGA-TTTCAAAACTATATATTACATATGTTTTC
1 AAAAAT-ATTTTCAAAACTATATATT--ATATATTTTC
* * *
789025 -AAAATGA-TTTCAATACTATATACTATATAAGTTTTTT
1 AAAAAT-ATTTTCAAAACTATATATTATAT-A--TTTTC
*
789062 AAAAATGTTTTCAAAAACTATATATTATATA-TTTC
1 AAAAATATTTTC-AAAACTATATATTATATATTTTC
789097 -AAAATATTTTCAAAAAACTATATATTATATTTATTTT-
1 AAAAATATTTTC--AAAACTATATATTATA--TATTTTC
*
789134 -AAAATATTTTAAAAACTATATATTATATAT
1 AAAAATATTTTCAAAACTATATATTATATAT
789164 ATATTTCAAA
Statistics
Matches: 303, Mismatches: 24, Indels: 53
0.80 0.06 0.14
Matches are distributed among these distances:
32 10 0.03
33 3 0.01
34 30 0.10
35 111 0.37
36 94 0.31
37 22 0.07
38 18 0.06
39 15 0.05
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (35 bp):
AAAAATATTTTCAAAACTATATATTATATATTTTC
Found at i:789045 original size:72 final size:71
Alignment explanation
Indices: 788776--789200 Score: 409
Period size: 71 Copynumber: 5.9 Consensus size: 71
788766 TATATATATA
*
788776 TAAAAATATTTCCAAAAACTATATA--ATATA--TTTTCAAAAATG-TTTTAAAACTATAT-TAT
1 TAAAAATATTTTC-AAAACTATATATTATATATGTTTTC-AAAATGATTTTAAAACTATATAT-T
*
788835 ATAATATTTT
63 AT-ATAATTT
788845 TAAAAATATTTTCAAAACTATATATTATATA-GTTTTCGAAAATG-TTTTAAAACTATATATTAT
1 TAAAAATATTTTCAAAACTATATATTATATATGTTTTC-AAAATGATTTTAAAACTATATATTAT
788908 AT-ATTT
65 ATAATTT
*
788914 TCAAAAAATATTTTC-AAACTATATATTATATATG-TTTCAAAAATGTTTTTAAAACTATATATT
1 T--AAAAATATTTTCAAAACTATATATTATATATGTTTTC-AAAATGATTTTAAAACTATATATT
788977 ATATAAGTTT
63 ATATAA-TTT
* * * * *
788987 TCAAAATGA-TTTCAAAACTATATATTACATATGTTTTCAAAATGATTTCAATACTATATACTAT
1 TAAAAAT-ATTTTCAAAACTATATATTATATATGTTTTCAAAATGATTTTAAAACTATATATTAT
789051 ATAAGTTTTT
65 ATAA---TTT
*
789061 TAAAAATGTTTTCAAAAACTATATATTATATA---TTTCAAAAT-ATTTTCAAAAAACTATATAT
1 TAAAAATATTTTC-AAAACTATATATTATATATGTTTTCAAAATGATTTT---AAAACTATATAT
*
789122 TATATTTATTT
62 TATA-TAATTT
* * * *
789133 T-AAAATATTTTAAAAACTATATATTATATATATATTTCAAACATCATTTGT-AAACTATATAAT
1 TAAAAATATTTTCAAAACTATATATTATATATGT-TTTCAAA-ATGATTT-TAAAACTATATATT
789196 ATATA
63 ATATA
789201 TATATATATA
Statistics
Matches: 306, Mismatches: 22, Indels: 53
0.80 0.06 0.14
Matches are distributed among these distances:
68 11 0.04
69 16 0.05
70 52 0.17
71 84 0.27
72 61 0.20
73 22 0.07
74 34 0.11
75 21 0.07
76 4 0.01
77 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (71 bp):
TAAAAATATTTTCAAAACTATATATTATATATGTTTTCAAAATGATTTTAAAACTATATATTATA
TAATTT
Found at i:792270 original size:107 final size:106
Alignment explanation
Indices: 792077--792292 Score: 396
Period size: 107 Copynumber: 2.0 Consensus size: 106
792067 ATCGGTCGTT
*
792077 TTGGCTGTTGGTTGGAAGCGATGTTATTAATCATTGTCTTGCTTATTAGAGGGTCGTGAGTCCAT
1 TTGGCTGTTGGTTGGAAGCGATGTTATTAATCATTGTCTTGCTTATTAGAGGGTCGCGAGTCCAT
792142 GTCAACAATTAATAAGACAGTGATTGTACTTATTGCTAAAC
66 GTCAACAATTAATAAGACAGTGATTGTACTTATTGCTAAAC
*
792183 TTGGCTGTTGGTTGGAAGCGATGTTATTAATCTTTGTCTTGCTTTATTAGAGGGTCGCGAGTCCA
1 TTGGCTGTTGGTTGGAAGCGATGTTATTAATCATTGTCTTGC-TTATTAGAGGGTCGCGAGTCCA
*
792248 TGTCAACATTTAATAAGACAGTGATTGTACTTATTGCTAAAC
65 TGTCAACAATTAATAAGACAGTGATTGTACTTATTGCTAAAC
792290 TTG
1 TTG
792293 TTAATCCTGT
Statistics
Matches: 106, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
106 41 0.39
107 65 0.61
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (106 bp):
TTGGCTGTTGGTTGGAAGCGATGTTATTAATCATTGTCTTGCTTATTAGAGGGTCGCGAGTCCAT
GTCAACAATTAATAAGACAGTGATTGTACTTATTGCTAAAC
Found at i:792838 original size:14 final size:14
Alignment explanation
Indices: 792819--792850 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
792809 ATGCCCAAAA
792819 TTTCAGGTTAAGAG
1 TTTCAGGTTAAGAG
792833 TTTCAGGTTAAGAG
1 TTTCAGGTTAAGAG
792847 TTTC
1 TTTC
792851 GAGTTTCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.41
Consensus pattern (14 bp):
TTTCAGGTTAAGAG
Done.