Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002070.1 Hibiscus syriacus cultivar Beakdansim tig00004227_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: 812484
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:784591 original size:39 final size:38
Alignment explanation
Indices: 784498--784630 Score: 157
Period size: 36 Copynumber: 3.6 Consensus size: 38
784488 CATCTCAAAG
* * *
784498 GAAAAATGTCTCAAGCGAGACTAAATTTG-TTTTGAGA
1 GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAAGA
*
784535 G-AAATTGTCTCAAGCGAGACAAAATTTGTTTTTTTAGA
1 GAAAATTGTCTCAAGCGAGACAAAATTTG-TTTTTAAGA
* *
784573 GAAAACTATCTCAAGCGAGACAAAA-TTGCTTTTTAAGA
1 GAAAATTGTCTCAAGCGAGACAAAATTTG-TTTTTAAGA
*
784611 -AAAATTGTCTCTAGCGAGAC
1 GAAAATTGTCTCAAGCGAGAC
784631 GATACTTAGT
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
36 25 0.30
37 18 0.22
38 19 0.23
39 21 0.25
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (38 bp):
GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAAGA
Found at i:784627 original size:37 final size:36
Alignment explanation
Indices: 784498--784630 Score: 144
Period size: 39 Copynumber: 3.6 Consensus size: 36
784488 CATCTCAAAG
* *
784498 GAAAAA-TGTCTCAAGCGAGACTAAATT-TGTTTTGA
1 GAAAAATTGTCTCAAGCGAGACAAAATTGT-TTTTAA
* *
784533 GAGAAATTGTCTCAAGCGAGACAAAATTTGTTTTTTTA
1 GAAAAATTGTCTCAAGCGAGACAAAA-TTG-TTTTTAA
* *
784571 GAGAAAACTATCTCAAGCGAGACAAAATTGCTTTTTAA
1 GA-AAAATTGTCTCAAGCGAGACAAAATTG-TTTTTAA
*
784609 GAAAAATTGTCTCTAGCGAGAC
1 GAAAAATTGTCTCAAGCGAGAC
784631 GATACTTAGT
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
35 5 0.06
36 18 0.22
37 19 0.23
38 18 0.22
39 22 0.27
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (36 bp):
GAAAAATTGTCTCAAGCGAGACAAAATTGTTTTTAA
Found at i:791836 original size:3 final size:3
Alignment explanation
Indices: 791828--791858 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
791818 TATGTAAAGC
791828 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
791859 AGTAGAACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:792631 original size:40 final size:41
Alignment explanation
Indices: 792575--792704 Score: 142
Period size: 42 Copynumber: 3.1 Consensus size: 41
792565 AATTAGCGGC
**
792575 GTTTATACCACAAACGCCACAATAGATTAACATATAGTGGT
1 GTTTATACCACAAACGCCGTAATAGATTAACATATAGTGGT
*
792616 GTTT-TAGCCA-AAACGCCGTAATAGATCGATAA-AT-TAGCGGT
1 GTTTATA-CCACAAACGCCGTAATAGAT---TAACATATAGTGGT
* *
792657 GTTTATACCACAAACGTCGTAATAGATTACACATATAGTGGC
1 GTTTATACCACAAACGCCGTAATAGATTA-ACATATAGTGGT
792699 GTTTAT
1 GTTTAT
792705 TCCTAAAACA
Statistics
Matches: 74, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
39 2 0.03
40 17 0.23
41 22 0.30
42 30 0.41
43 3 0.04
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (41 bp):
GTTTATACCACAAACGCCGTAATAGATTAACATATAGTGGT
Found at i:792635 original size:82 final size:83
Alignment explanation
Indices: 792544--792702 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 83
792534 ATTTTTTAAC
*
792544 AAACACCGTAATAGAGT-GGTAAATTAGCGGCGTTTATACCACAAACGCCACAATAGATTA-ACA
1 AAACACCGTAATAGA-TCGATAAATTAGCGGCGTTTATACCACAAACGCCACAATAGATTACACA
*
792607 TATAGTGGTGTTTTAGCCA
65 TATAGTGGCGTTTTAGCCA
* * * **
792626 AAACGCCGTAATAGATCGATAAATTAGCGGTGTTTATACCACAAACGTCGTAATAGATTACACAT
1 AAACACCGTAATAGATCGATAAATTAGCGGCGTTTATACCACAAACGCCACAATAGATTACACAT
792691 ATAGTGGCGTTT
66 ATAGTGGCGTTT
792703 ATTCCTAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 1 0.01
82 52 0.76
83 15 0.22
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (83 bp):
AAACACCGTAATAGATCGATAAATTAGCGGCGTTTATACCACAAACGCCACAATAGATTACACAT
ATAGTGGCGTTTTAGCCA
Found at i:792678 original size:42 final size:40
Alignment explanation
Indices: 792542--792683 Score: 146
Period size: 42 Copynumber: 3.5 Consensus size: 40
792532 GCATTTTTTA
* *
792542 ACAAACACCGTAATAGAGTGGTAAATTAGCGGCGTTTATACC
1 ACAAACGCCGTAATAGA-T-GTAAATTAGCGGTGTTTATACC
** *
792584 ACAAACGCCACAATAGAT-TAACATATAGTGGTGTTT-TAGCC
1 ACAAACGCCGTAATAGATGTAA-AT-TAGCGGTGTTTATA-CC
792625 A-AAACGCCGTAATAGATCGATAAATTAGCGGTGTTTATACC
1 ACAAACGCCGTAATAGAT-G-TAAATTAGCGGTGTTTATACC
*
792666 ACAAACGTCGTAATAGAT
1 ACAAACGCCGTAATAGAT
792684 TACACATATA
Statistics
Matches: 83, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
39 3 0.04
40 18 0.22
41 26 0.31
42 33 0.40
43 3 0.04
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (40 bp):
ACAAACGCCGTAATAGATGTAAATTAGCGGTGTTTATACC
Found at i:792703 original size:42 final size:41
Alignment explanation
Indices: 792542--792704 Score: 140
Period size: 42 Copynumber: 3.9 Consensus size: 41
792532 GCATTTTTTA
* *
792542 ACAAACACCGTAATAGAGTGGTAA-AT-TAGCGGCGTTTATACC
1 ACAAACGCCGTAATAGA-T--TAACATATAGTGGCGTTTATACC
** *
792584 ACAAACGCCACAATAGATTAACATATAGTGGTGTTT-TAGCC
1 ACAAACGCCGTAATAGATTAACATATAGTGGCGTTTATA-CC
* *
792625 A-AAACGCCGTAATAGATCGATAA-AT-TAGCGGTGTTTATACC
1 ACAAACGCCGTAATAGAT---TAACATATAGTGGCGTTTATACC
*
792666 ACAAACGTCGTAATAGATTACACATATAGTGGCGTTTAT
1 ACAAACGCCGTAATAGATTA-ACATATAGTGGCGTTTAT
792705 TCCTAAAACA
Statistics
Matches: 99, Mismatches: 11, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
39 5 0.05
40 19 0.19
41 28 0.28
42 44 0.44
43 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (41 bp):
ACAAACGCCGTAATAGATTAACATATAGTGGCGTTTATACC
Found at i:792729 original size:82 final size:80
Alignment explanation
Indices: 792544--792729 Score: 221
Period size: 82 Copynumber: 2.2 Consensus size: 80
792534 ATTTTTTAAC
*
792544 AAACACCGTAATAGAGTGGTAAATTAGCGGCGTTTATACCACAAACGCCACAATAGATTAACATA
1 AAACACCGTAAT--AGTGATAAATTAGCGGCGTTTATACCACAAACGCCACAATAGATTAACATA
*
792609 TAGTGGTGTTTTAGCCA
64 TAGTGGCGTTTTAGCCA
* * * **
792626 AAACGCCGTAATAGATCGATAAATTAGCGGTGTTTATACCACAAACGTCGTAATAGATTACACAT
1 AAACACCGTAATAG-T-GATAAATTAGCGGCGTTTATACCACAAACGCCACAATAGATTA-ACAT
*
792691 ATAGTGGCG-TTTATTCCTA
63 ATAGTGGCGTTTTA-GCC-A
*
792710 AAACACCGCAATAGTGATAA
1 AAACACCGTAATAGTGATAA
792730 TAAATAGTGG
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
80 2 0.02
81 1 0.01
82 58 0.65
83 15 0.17
84 13 0.15
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (80 bp):
AAACACCGTAATAGTGATAAATTAGCGGCGTTTATACCACAAACGCCACAATAGATTAACATATA
GTGGCGTTTTAGCCA
Found at i:792825 original size:41 final size:43
Alignment explanation
Indices: 792718--792830 Score: 126
Period size: 41 Copynumber: 2.7 Consensus size: 43
792708 TAAAACACCG
* * *
792718 CAATAGTGATAATAAATAGTGGC-GT-TTTTAGACAAATGCCA
1 CAATAGTGATAATCAATAGTGGCATTGTTTTAGACAAACGCCA
* * *
792759 CTATAGTGTTAATCAATAGTAGCATTGTTTTA-ACAAACGCCA
1 CAATAGTGATAATCAATAGTGGCATTGTTTTAGACAAACGCCA
*
792801 CAATAGTG-TAATCAATTGTGGCATTTGTTT
1 CAATAGTGATAATCAATAGTGGCA-TTGTTT
792831 GTATAAACGT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 32 0.53
42 23 0.38
43 5 0.08
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (43 bp):
CAATAGTGATAATCAATAGTGGCATTGTTTTAGACAAACGCCA
Found at i:794976 original size:42 final size:42
Alignment explanation
Indices: 794927--795006 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
794917 GTTTTTGACG
*
794927 TAAACGCCGCAATTGAGTTGT-T-CTTTAGTGGCGTTTTTTTAA
1 TAAACGCCGC-AGT-AGTTGTATCCTTTAGTGGCGTTTTTTTAA
*
794969 TAAACGCCGCAGTAGTTTTATCCTTTAGTGGCGTTTTT
1 TAAACGCCGCAGTAGTTGTATCCTTTAGTGGCGTTTTT
795007 AATATAAACG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 5 0.15
41 3 0.09
42 26 0.76
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.42
Consensus pattern (42 bp):
TAAACGCCGCAGTAGTTGTATCCTTTAGTGGCGTTTTTTTAA
Found at i:802488 original size:21 final size:21
Alignment explanation
Indices: 802464--802551 Score: 106
Period size: 21 Copynumber: 4.2 Consensus size: 21
802454 CAGTAGACGC
* *
802464 AGCAGCGGAAGCAGAGAAAGA
1 AGCAGCGGAAGCACAGAGAGA
802485 AGCAGCGGCAA-CACAGAGAGA
1 AGCAGCGG-AAGCACAGAGAGA
** *
802506 AGCAATGGCAGCACAGAGAGA
1 AGCAGCGGAAGCACAGAGAGA
*
802527 AGCAGCGGTAGCACAGAGAGA
1 AGCAGCGGAAGCACAGAGAGA
802548 AGCA
1 AGCA
802552 ACATATCAGC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
20 1 0.02
21 54 0.95
22 2 0.04
ACGTcount: A:0.43, C:0.19, G:0.35, T:0.02
Consensus pattern (21 bp):
AGCAGCGGAAGCACAGAGAGA
Found at i:802530 original size:42 final size:42
Alignment explanation
Indices: 802473--802552 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
802463 CAGCAGCGGA
*
802473 AGCAGAGAAAGAAGCAGCGGCAACACAGAGAGAAGCAATGGC
1 AGCACAGAAAGAAGCAGCGGCAACACAGAGAGAAGCAATGGC
* * *
802515 AGCACAGAGAGAAGCAGCGGTAGCACAGAGAGAAGCAA
1 AGCACAGAAAGAAGCAGCGGCAACACAGAGAGAAGCAA
802553 CATATCAGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.45, C:0.19, G:0.34, T:0.03
Consensus pattern (42 bp):
AGCACAGAAAGAAGCAGCGGCAACACAGAGAGAAGCAATGGC
Found at i:802565 original size:42 final size:40
Alignment explanation
Indices: 802473--802566 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 40
802463 CAGCAGCGGA
*
802473 AGCAG-AGAAAGAAGCAGCGGCAACACAGAGAGAAGCAAT
1 AGCAGCAGAGAGAAGCAGCGGCAACACAGAGAGAAGCAAT
* * *
802512 GGCAGCACAGAGAGAAGCAGCGGTAGCACAGAGAGAAGCAACAT
1 AGCAG--CAGAGAGAAGCAGCGGCAACACAGAGAGAAGC-A-AT
*
802556 ATCAGCAGAGA
1 AGCAGCAGAGA
802567 TATGAAGAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
39 4 0.09
42 34 0.77
43 1 0.02
44 5 0.11
ACGTcount: A:0.45, C:0.19, G:0.32, T:0.04
Consensus pattern (40 bp):
AGCAGCAGAGAGAAGCAGCGGCAACACAGAGAGAAGCAAT
Found at i:803069 original size:42 final size:43
Alignment explanation
Indices: 802955--803119 Score: 190
Period size: 43 Copynumber: 3.9 Consensus size: 43
802945 CCTTTACTGG
* * *
802955 CGTTTTT-AGCAAAAACGTCGTAAAACATCAATACCTACTGCGG
1 CGTTTTTGAG-AAAAACGTCGCAAAACATCAAAACCTACTGCGA
* * *
802998 CGTTTATGAGAAAAACGTTGCAAAACATCAAAACCTATTGCGA
1 CGTTTTTGAGAAAAACGTCGCAAAACATCAAAACCTACTGCGA
** * *
803041 CGTTTTTG-GGGAAACGCCGCAAAACATCAACACCTACTGCGA
1 CGTTTTTGAGAAAAACGTCGCAAAACATCAAAACCTACTGCGA
* * *
803083 CGTTTTAGAGAAAAACGTCGCTAAACATCATAACCTA
1 CGTTTTTGAGAAAAACGTCGCAAAACATCAAAACCTA
803120 TTACAGTGTT
Statistics
Matches: 100, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 35 0.35
43 63 0.63
44 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (43 bp):
CGTTTTTGAGAAAAACGTCGCAAAACATCAAAACCTACTGCGA
Found at i:803150 original size:31 final size:31
Alignment explanation
Indices: 803101--803161 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
803091 AGAAAAACGT
803101 CGCTAAACATCATAACCTATTACAGTGTTTG
1 CGCTAAACATCATAACCTATTACAGTGTTTG
* * *
803132 CGCTAAATATCA-ACACCTATTGCGGTGTTT
1 CGCTAAACATCATA-ACCTATTACAGTGTTT
803162 TTATGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (31 bp):
CGCTAAACATCATAACCTATTACAGTGTTTG
Found at i:803193 original size:43 final size:43
Alignment explanation
Indices: 803132--803284 Score: 175
Period size: 43 Copynumber: 3.6 Consensus size: 43
803122 ACAGTGTTTG
** *
803132 CGCTAAATATCAACACCTATTGCGGTGTTTTTATGAAAAACGC
1 CGCTAAATATCAACACCTATTGCGACGTTTTTATGAAAAATGC
* * * * *
803175 CGCTAAATATCAAAACCTATTACGACATTTTTCTGACAAATGC
1 CGCTAAATATCAACACCTATTGCGACGTTTTTATGAAAAATGC
* *
803218 CACTAAATATCAACACCTATTGCGACG--TTTATCACACAAATGC
1 CGCTAAATATCAACACCTATTGCGACGTTTTTATGA-A-AAATGC
*
803261 CGCTAAATATCAATACCTATTGCG
1 CGCTAAATATCAACACCTATTGCG
803285 GCATTTTTTT
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 5 0.05
43 86 0.95
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (43 bp):
CGCTAAATATCAACACCTATTGCGACGTTTTTATGAAAAATGC
Found at i:803279 original size:86 final size:85
Alignment explanation
Indices: 803134--803292 Score: 221
Period size: 86 Copynumber: 1.8 Consensus size: 85
803124 AGTGTTTGCG
** *
803134 CTAAATATCAACACCTATTGCGGTGTTTTTATGAAAAACGCCGCTAAATATCAAAACCTATTACG
1 CTAAATATCAACACCTATTGCGACG-TTTTATCAAAAACGCCGCTAAATATCAAAACCTATTACG
803199 ACATTTTTCTGACAAATGCCA
65 ACATTTTTCTGACAAATGCCA
* * *
803220 CTAAATATCAACACCTATTGCGACG-TTTATCACACAAATGCCGCTAAATATCAATACCTATTGC
1 CTAAATATCAACACCTATTGCGACGTTTTATCA-A-AAACGCCGCTAAATATCAAAACCTATTAC
*
803284 GGCATTTTT
64 GACATTTTT
803293 TTTAACAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
84 6 0.09
85 1 0.02
86 57 0.89
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (85 bp):
CTAAATATCAACACCTATTGCGACGTTTTATCAAAAACGCCGCTAAATATCAAAACCTATTACGA
CATTTTTCTGACAAATGCCA
Found at i:804998 original size:32 final size:32
Alignment explanation
Indices: 804954--805110 Score: 156
Period size: 32 Copynumber: 4.8 Consensus size: 32
804944 TAATTAACTT
*
804954 ACTAACATTCTAACCTTTATTTTATTGTTCGA
1 ACTAACATTCTAACTTTTATTTTATTGTTCGA
* ** *
804986 ACTAACACTCTAACAATTATTTTATCGTTCGA
1 ACTAACATTCTAACTTTTATTTTATTGTTCGA
* *
805018 ACTAATATTCTAACTTTTA-TTTATTGTT-TA
1 ACTAACATTCTAACTTTTATTTTATTGTTCGA
**
805048 TACTAACATTACTAACTTTTATTTTTATTGTTCTT
1 -ACTAACATT-CTAACTTTTA-TTTTATTGTTCGA
* * *
805083 ACTATCATACAAACATTTTATTTTATTG
1 ACTAACATTCTAAC-TTTTATTTTATTG
805111 CACAAACTAA
Statistics
Matches: 104, Mismatches: 15, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
30 1 0.01
31 16 0.15
32 53 0.51
33 12 0.12
34 21 0.20
35 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.04, T:0.49
Consensus pattern (32 bp):
ACTAACATTCTAACTTTTATTTTATTGTTCGA
Found at i:809888 original size:25 final size:24
Alignment explanation
Indices: 809828--809895 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 24
809818 TTTTTATTTC
*
809828 AAAAAAATTGAAAAATATCAATTA
1 AAAAAAATTGAAAAATATCAATCA
** * *
809852 AAATAATTTTGAGAAATGATTAATCA
1 AAA-AAAATTGAAAAAT-ATCAATCA
*
809878 AAAAAAATTGAAATATAT
1 AAAAAAATTGAAAAATAT
809896 TGCCCCTTTC
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
24 5 0.15
25 19 0.58
26 9 0.27
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.29
Consensus pattern (24 bp):
AAAAAAATTGAAAAATATCAATCA
Found at i:810884 original size:8 final size:9
Alignment explanation
Indices: 810860--810885 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
810850 ATTTTTCATT
810860 TCCTTTTTC
1 TCCTTTTTC
810869 TCCTTTTTC
1 TCCTTTTTC
810878 TCCTTTTT
1 TCCTTTTT
810886 TATTTTTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (9 bp):
TCCTTTTTC
Found at i:810892 original size:46 final size:47
Alignment explanation
Indices: 810819--810917 Score: 123
Period size: 46 Copynumber: 2.1 Consensus size: 47
810809 ACTTTATTTA
* * *
810819 TTTTCTCACTTTTTTCTTTTTTCTTTTTCCTATTTTTC-ATTTC-CT
1 TTTTCTCACTTTTTTCTTTTTTATTTTTCCAATCTTTCTATTTCTCT
*
810864 TTTTCTC-CTTTTTCTCCTTTTTTATTTTTCCAATCTTTCTTTTTCTCT
1 TTTTCTCACTTTTT-T-CTTTTTTATTTTTCCAATCTTTCTATTTCTCT
810912 TTTTCT
1 TTTTCT
810918 TCTTCTTTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
44 6 0.13
45 8 0.17
46 20 0.43
47 4 0.09
48 8 0.17
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (47 bp):
TTTTCTCACTTTTTTCTTTTTTATTTTTCCAATCTTTCTATTTCTCT
Found at i:810916 original size:14 final size:14
Alignment explanation
Indices: 810829--810923 Score: 52
Period size: 15 Copynumber: 6.5 Consensus size: 14
810819 TTTTCTCACT
810829 TTTTTCT-TTTTTC
1 TTTTTCTCTTTTTC
*
810842 TTTTTCCTATTTTTC
1 TTTTT-CTCTTTTTC
* *
810857 ATTTCCT-TTTTCTCC
1 TTTTTCTCTTTT-T-C
*
810872 TTTTTCTCCTTTTTTA
1 TTTTTCT-C-TTTTTC
*
810888 TTTTTC-CAATCTTTC
1 TTTTTCTC--TTTTTC
810903 TTTTTCTCTTTTTC
1 TTTTTCTCTTTTTC
*
810917 TTCTTCT
1 TTTTTCT
810924 TTTCCTCGCT
Statistics
Matches: 63, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
13 9 0.14
14 17 0.27
15 25 0.40
16 7 0.11
17 1 0.02
18 4 0.06
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTCTCTTTTTC
Done.