Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000542.1 Hibiscus syriacus cultivar Beakdansim tig00001052_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: 715625
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 3 of 3
Found at i:659016 original size:15 final size:15
Alignment explanation
Indices: 658996--659029 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
658986 ACAAACAATT
658996 TCTTTTTCAAACTCA
1 TCTTTTTCAAACTCA
**
659011 TCTTTTTCACTCTCA
1 TCTTTTTCAAACTCA
659026 TCTT
1 TCTT
659030 CTTTTTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.53
Consensus pattern (15 bp):
TCTTTTTCAAACTCA
Found at i:660107 original size:25 final size:25
Alignment explanation
Indices: 660070--660120 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
660060 TATTGGTCCC
* **
660070 CCCGTCCCCGTCCCCGTTTAAAAAA
1 CCCGTACCCGTCCCCACTTAAAAAA
*
660095 CCCGTACCTGTCCCCACTTAAAAAA
1 CCCGTACCCGTCCCCACTTAAAAAA
660120 C
1 C
660121 TGTGGGGGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.43, G:0.10, T:0.20
Consensus pattern (25 bp):
CCCGTACCCGTCCCCACTTAAAAAA
Found at i:661135 original size:20 final size:20
Alignment explanation
Indices: 661110--661147 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
661100 TTATACATTT
661110 AAAAGATAAATAAAACAATC
1 AAAAGATAAATAAAACAATC
661130 AAAAGATAAATAAAACAA
1 AAAAGATAAATAAAACAA
661148 ACTCTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (20 bp):
AAAAGATAAATAAAACAATC
Found at i:662430 original size:29 final size:29
Alignment explanation
Indices: 662366--662423 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
662356 CAATAGACTG
662366 AAATAAATACAACATACAAATTAGAAACC
1 AAATAAATACAACATACAAATTAGAAACC
*
662395 AAATAAATACAAGATACAAATTAGAAACC
1 AAATAAATACAACATACAAATTAGAAACC
662424 GATTAAACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.62, C:0.16, G:0.05, T:0.17
Consensus pattern (29 bp):
AAATAAATACAACATACAAATTAGAAACC
Found at i:670616 original size:9 final size:10
Alignment explanation
Indices: 670590--670615 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
670580 AAATTTTGGC
670590 TTTTTTTGTT
1 TTTTTTTGTT
670600 TTTTTTTGTT
1 TTTTTTTGTT
670610 TTTTTT
1 TTTTTT
670616 GAAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:670989 original size:15 final size:16
Alignment explanation
Indices: 670969--671005 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
670959 GATTAGAATA
670969 AAATAAACAAAAGAT-
1 AAATAAACAAAAGATG
*
670984 AAATAAACGAAAGATG
1 AAATAAACAAAAGATG
671000 AAATAA
1 AAATAA
671006 GATAATAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.14
Consensus pattern (16 bp):
AAATAAACAAAAGATG
Found at i:672900 original size:5 final size:5
Alignment explanation
Indices: 672875--672930 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
672865 TTGGAGTGCA
* *
672875 AAAAG AAAGAA AAAGAG AAAAG AAAAG AAAA- ATCAAAA AAAAG AAAAG
1 AAAAG AAA-AG AAA-AG AAAAG AAAAG AAAAG A--AAAG AAAAG AAAAG
672923 AAAAG AAA
1 AAAAG AAA
672931 TTCAAAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
4 1 0.02
5 30 0.68
6 12 0.27
7 1 0.02
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:675829 original size:2 final size:2
Alignment explanation
Indices: 675822--675857 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
675812 AATTATTTTC
675822 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
675858 CCTATAGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:677732 original size:17 final size:17
Alignment explanation
Indices: 677710--677781 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 17
677700 AATTAAGTGT
677710 TAGTTT-ATTAAATGAAC
1 TAGTTTAATT-AATGAAC
* *
677727 TAGTTTGATGAATGAAC
1 TAGTTTAATTAATGAAC
*
677744 TACTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
*
677761 TAACTTT-ATTCAATGAAC
1 T-AGTTTAATT-AATGAAC
677779 TAG
1 TAG
677782 ATGCATGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
17 32 0.68
18 15 0.32
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:677768 original size:18 final size:18
Alignment explanation
Indices: 677737--677780 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
677727 TAGTTTGATG
677737 AATGAACT-ACTTTAATT-
1 AATGAACTAACTTT-ATTC
677754 AATGAACTAACTTTATTC
1 AATGAACTAACTTTATTC
677772 AATGAACTA
1 AATGAACTA
677781 GATGCATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (18 bp):
AATGAACTAACTTTATTC
Found at i:679770 original size:17 final size:17
Alignment explanation
Indices: 679748--679800 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
679738 AATTCAGAGT
679748 TAGTTT-ATTAAATGAAC
1 TAGTTTAATT-AATGAAC
* *
679765 TAGTTTGATGAATGAAC
1 TAGTTTAATTAATGAAC
679782 TAGTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
679799 TA
1 TA
679801 ACCTTATTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 30 0.94
18 2 0.06
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:679911 original size:9 final size:9
Alignment explanation
Indices: 679899--679929 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
679889 GATGCTTTGA
679899 ATGCAATGC
1 ATGCAATGC
679908 ATGCAATGC
1 ATGCAATGC
679917 ATGCAATGC
1 ATGCAATGC
679926 ATGC
1 ATGC
679930 TTAATGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (9 bp):
ATGCAATGC
Found at i:679911 original size:18 final size:18
Alignment explanation
Indices: 679890--679931 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
679880 AATGAACTAG
679890 ATGCTTTGAATGCAATGC
1 ATGCTTTGAATGCAATGC
** *
679908 ATGCAATGCATGCAATGC
1 ATGCTTTGAATGCAATGC
679926 ATGCTT
1 ATGCTT
679932 AATGAAAAAC
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (18 bp):
ATGCTTTGAATGCAATGC
Found at i:683108 original size:17 final size:16
Alignment explanation
Indices: 683086--683157 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 16
683076 AATTAAGAGT
683086 TAGTTTATTAAATGAAC
1 TAGTTTATT-AATGAAC
*
683103 TAGTTTAATGAATGAAC
1 TAGTTT-ATTAATGAAC
*
683120 TACTTTAATTAATGAAC
1 TAGTTT-ATTAATGAAC
*
683137 TAACTTTATTCAATGAAC
1 T-AGTTTATT-AATGAAC
683155 TAG
1 TAG
683158 ATGCATGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
17 33 0.69
18 15 0.31
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (16 bp):
TAGTTTATTAATGAAC
Found at i:683144 original size:18 final size:17
Alignment explanation
Indices: 683096--683156 Score: 79
Period size: 17 Copynumber: 3.5 Consensus size: 17
683086 TAGTTTATTA
* *
683096 AATGAACTAGTTTAATG
1 AATGAACTACTTTAATT
683113 AATGAACTACTTTAATT
1 AATGAACTACTTTAATT
683130 AATGAACTAACTTT-ATT
1 AATGAACT-ACTTTAATT
683147 CAATGAACTA
1 -AATGAACTA
683157 GATGCATGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
17 27 0.68
18 13 0.32
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (17 bp):
AATGAACTACTTTAATT
Found at i:689049 original size:30 final size:31
Alignment explanation
Indices: 688997--689056 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
688987 CAGAGCTTTA
**
688997 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
689027 TATTATGTTTGCATTTCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
689057 GGCAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:689993 original size:18 final size:20
Alignment explanation
Indices: 689964--690013 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 20
689954 CGGCCAAGAG
* *
689964 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
689983 CA-GTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
690002 CATGTATTTTCA
1 CATGTATTTTCA
690014 AAGGGGTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 9 0.33
19 9 0.33
20 9 0.33
ACGTcount: A:0.36, C:0.16, G:0.06, T:0.42
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:690752 original size:8 final size:8
Alignment explanation
Indices: 690741--690781 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
690731 GAGAAAAATC
690741 AGAAAAGA
1 AGAAAAGA
690749 AGAAAAGA
1 AGAAAAGA
690757 AGAAAAGAAA
1 AGAAAAG--A
690767 AGAAAAGA
1 AGAAAAGA
690775 A-AAAAGA
1 AGAAAAGA
690782 GAAGTTCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
7 6 0.19
8 17 0.55
10 8 0.26
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (8 bp):
AGAAAAGA
Found at i:690754 original size:16 final size:16
Alignment explanation
Indices: 690741--690781 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 16
690731 GAGAAAAATC
690741 AGAAAAGAAGAAAAGA
1 AGAAAAGAAGAAAAGA
690757 AGAAAAGAAAAGAAAAGA
1 AGAAAAG--AAGAAAAGA
690775 A-AAAAGA
1 AGAAAAGA
690782 GAAGTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 7 0.30
17 5 0.22
18 10 0.43
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AGAAAAGAAGAAAAGA
Found at i:690764 original size:13 final size:13
Alignment explanation
Indices: 690741--690781 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
690731 GAGAAAAATC
690741 AGAAAAGAAGAAA
1 AGAAAAGAAGAAA
690754 AGAAGAA-AAGAAA
1 AGAA-AAGAAGAAA
690767 AGAAAAGAA-AAA
1 AGAAAAGAAGAAA
690779 AGA
1 AGA
690782 GAAGTTCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.31
13 16 0.62
14 2 0.08
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AGAAAAGAAGAAA
Found at i:690771 original size:18 final size:17
Alignment explanation
Indices: 690748--690781 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
690738 ATCAGAAAAG
690748 AAGAAAAGAAGAAAAGAA
1 AAGAAAAGAA-AAAAGAA
690766 AAGAAAAGAAAAAAGA
1 AAGAAAAGAAAAAAGA
690782 GAAGTTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAGAAAAGAAAAAAGAA
Found at i:697906 original size:21 final size:21
Alignment explanation
Indices: 697878--697939 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
697868 CATTTTGGTG
697878 CAGAGGGAATCGATCCCCCC-
1 CAGAGGGAATCGATCCCCCCA
*
697898 CATGAGGGAACCGATTCCCCCCA
1 CA-GAGGGAATCGA-TCCCCCCA
*
697921 CAG-GGGAATCGATACCCCC
1 CAGAGGGAATCGATCCCCCC
697940 TGGGGTTCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 8 0.22
21 18 0.50
22 8 0.22
23 2 0.06
ACGTcount: A:0.26, C:0.39, G:0.24, T:0.11
Consensus pattern (21 bp):
CAGAGGGAATCGATCCCCCCA
Found at i:702343 original size:30 final size:31
Alignment explanation
Indices: 702291--702350 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
702281 CTTAGCTTTA
**
702291 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
702321 TATTATGTTTGCATTTCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
702351 GGCAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:703283 original size:19 final size:20
Alignment explanation
Indices: 703259--703309 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
703249 CGGCTAAGAG
* *
703259 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
703278 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
703298 CATGTATTTTCA
1 CATGTATTTTCA
703310 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:703752 original size:18 final size:20
Alignment explanation
Indices: 703729--703765 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
703719 TATTTATCTC
703729 ATTTCATT-CTTAT-TATTT
1 ATTTCATTACTTATATATTT
703747 ATTTCATTACTTATATATT
1 ATTTCATTACTTATATATT
703766 ATCCCCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 5 0.29
20 4 0.24
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTCATTACTTATATATTT
Found at i:704175 original size:35 final size:37
Alignment explanation
Indices: 704129--704208 Score: 128
Period size: 35 Copynumber: 2.2 Consensus size: 37
704119 TTTGAGAATT
*
704129 TGGTGATGATATAGGCGTGAT-ATGG-TGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
704164 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
704201 TGGTGATG
1 TGGTGATG
704209 GAAAGTATCT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 21 0.51
36 4 0.10
37 16 0.39
ACGTcount: A:0.28, C:0.04, G:0.38, T:0.31
Consensus pattern (37 bp):
TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
Found at i:707612 original size:20 final size:20
Alignment explanation
Indices: 707573--707611 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
707563 CCCTCTTTAA
707573 ATTTTCCTTTTTTTCTTTTT
1 ATTTTCCTTTTTTTCTTTTT
707593 ATTTT-CTTTTTTTCTTTTT
1 ATTTTCCTTTTTTTCTTTTT
707612 TTACTAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (20 bp):
ATTTTCCTTTTTTTCTTTTT
Found at i:709157 original size:43 final size:43
Alignment explanation
Indices: 709096--709180 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
709086 TACAACCTTG
709096 ACTTCACCATCCATCCAAGTGAGGCTAGGTTGAACTGTATCAT
1 ACTTCACCATCCATCCAAGTGAGGCTAGGTTGAACTGTATCAT
709139 ACTTCACCATCCATCCAAGTGAGGCTAGGTTGAACTGTATCA
1 ACTTCACCATCCATCCAAGTGAGGCTAGGTTGAACTGTATCA
709181 GCCTTCAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
ACTTCACCATCCATCCAAGTGAGGCTAGGTTGAACTGTATCAT
Found at i:709651 original size:17 final size:18
Alignment explanation
Indices: 709631--709673 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
709621 TAGTTAGATG
709631 AATGAACT-ACTTTAATT-
1 AATGAACTAACTTT-ATTC
709648 AATGAACTAACTTTATTC
1 AATGAACTAACTTTATTC
709666 AATGAACT
1 AATGAACT
709674 GGATGCATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (18 bp):
AATGAACTAACTTTATTC
Found at i:711744 original size:12 final size:13
Alignment explanation
Indices: 711728--711760 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
711718 TTAAATTTTC
711728 CTTTTCTTTATTT
1 CTTTTCTTTATTT
*
711741 -TTTTCTTTTTTT
1 CTTTTCTTTATTT
711753 CTTTTCTT
1 CTTTTCTT
711761 ACTAACCCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (13 bp):
CTTTTCTTTATTT
Found at i:714410 original size:43 final size:43
Alignment explanation
Indices: 714349--714433 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
714339 TACAACCTTG
714349 ACTTCACCATCCATCCAAGTGAGGCTAGGTTGAACTGTATCAT
1 ACTTCACCATCCATCCAAGTGAGGCTAGGTTGAACTGTATCAT
714392 ACTTCACCATCCATCCAAGTGAGGCTAGGTTGAACTGTATCA
1 ACTTCACCATCCATCCAAGTGAGGCTAGGTTGAACTGTATCA
714434 GCCTTCAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
ACTTCACCATCCATCCAAGTGAGGCTAGGTTGAACTGTATCAT
Found at i:714904 original size:17 final size:18
Alignment explanation
Indices: 714884--714926 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
714874 TAGTTAGATG
714884 AATGAACT-ACTTTAATT-
1 AATGAACTAACTTT-ATTC
714901 AATGAACTAACTTTATTC
1 AATGAACTAACTTTATTC
714919 AATGAACT
1 AATGAACT
714927 GGATGCATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (18 bp):
AATGAACTAACTTTATTC
Done.