Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007139.1 Hibiscus syriacus cultivar Beakdansim tig00018672_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: 74951
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Found at i:8098 original size:21 final size:20
Alignment explanation
Indices: 8069--8109 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
8059 AAATTATGGT
*
8069 GAAGGAAGAAGAAGAACAAGA
1 GAAGAAAGAAGAAGAA-AAGA
*
8090 GAAGAAAGATGAAGAAAAGA
1 GAAGAAAGAAGAAGAAAAGA
8110 ATGAAATGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.63, C:0.02, G:0.32, T:0.02
Consensus pattern (20 bp):
GAAGAAAGAAGAAGAAAAGA
Found at i:15649 original size:14 final size:14
Alignment explanation
Indices: 15630--15656 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15620 AGGATCTTGA
15630 GTTTCCTCATCTTC
1 GTTTCCTCATCTTC
15644 GTTTCCTCATCTT
1 GTTTCCTCATCTT
15657 TTGTTTCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.33, G:0.07, T:0.52
Consensus pattern (14 bp):
GTTTCCTCATCTTC
Found at i:25659 original size:24 final size:24
Alignment explanation
Indices: 25632--25683 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
25622 AACGGATATA
25632 TCAAAAATCAAAACACAAATCAGG
1 TCAAAAATCAAAACACAAATCAGG
** * * *
25656 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACACAAATCAGG
25680 TCAA
1 TCAA
25684 GTAACATATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (24 bp):
TCAAAAATCAAAACACAAATCAGG
Found at i:25746 original size:24 final size:24
Alignment explanation
Indices: 25655--25746 Score: 123
Period size: 24 Copynumber: 3.8 Consensus size: 24
25645 CACAAATCAG
* *
25655 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAA
* *
25679 GTCAAGTAACATATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAA
*
25703 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAA
25727 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
25747 TCAAATCGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
23 3 0.05
24 59 0.95
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.24
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAA
Found at i:25762 original size:48 final size:48
Alignment explanation
Indices: 25656--25764 Score: 114
Period size: 48 Copynumber: 2.3 Consensus size: 48
25646 ACAAATCAGG
* * * *
25656 TCAAGTATCATATCAGAAATCAGGTCAAGTAACATATCAGAATCCAAG
1 TCAAGAATCAGATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAAA
* * * *
25704 TCAAGTATCAGATCAG-AATCCATGTCAAGTATCAGATCAGAATTCAAA
1 TCAAGAATCAGATCAGAAAT-CAGGTCAAGTAACAGATCAGAATCCAAA
25752 TCGAA-AATCAGAT
1 TC-AAGAATCAGAT
25765 AAAATATTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 3 0.06
48 47 0.90
49 2 0.04
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (48 bp):
TCAAGAATCAGATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAAA
Found at i:28251 original size:13 final size:13
Alignment explanation
Indices: 28233--28257 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28223 GTCAACGGGT
28233 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
28246 CGGGTCGGGTCA
1 CGGGTCGGGTCA
28258 GGTTATGACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:30364 original size:24 final size:25
Alignment explanation
Indices: 30337--30434 Score: 105
Period size: 24 Copynumber: 4.1 Consensus size: 25
30327 ATCAAAAAAT
*
30337 AAAT-CAGGTCAAGTATCATATCAG
1 AAATCCAGGTCAAGTATCAGATCAG
* * * *
30361 AAAT-TAGGTAAAGTAACATATCA-
1 AAATCCAGGTCAAGTATCAGATCAG
*
30384 AAATCCAAGTCAAGTATCAGATCAG
1 AAATCCAGGTCAAGTATCAGATCAG
*
30409 -AATCCATGTCAAGTATCAGATCAG
1 AAATCCAGGTCAAGTATCAGATCAG
30433 AA
1 AA
30435 TTCAAATCGA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
23 4 0.06
24 57 0.92
25 1 0.02
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.23
Consensus pattern (25 bp):
AAATCCAGGTCAAGTATCAGATCAG
Found at i:33947 original size:24 final size:24
Alignment explanation
Indices: 33920--33971 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
33910 AACGGATATA
*
33920 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
33944 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
33968 TCAA
1 TCAA
33972 GTAACATATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:34034 original size:24 final size:24
Alignment explanation
Indices: 33943--34034 Score: 114
Period size: 24 Copynumber: 3.8 Consensus size: 24
33933 CATAAATCAG
* *
33943 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAA
* *
33967 GTCAAGTAACATATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAA
*
33991 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAA
*
34015 GTCAAGTATTAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
34035 TCAAATCGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
23 3 0.05
24 58 0.95
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAA
Found at i:38359 original size:24 final size:24
Alignment explanation
Indices: 38332--38431 Score: 78
Period size: 24 Copynumber: 4.2 Consensus size: 24
38322 TATATCAAAA
*
38332 ATCAAAACATAAATCAGGTCAAGT
1 ATCAAAACAGAAATCAGGTCAAGT
* *
38356 ATCATATCAGAAATCAGGTCAAGT
1 ATCAAAACAGAAATCAGGTCAAGT
* * * *
38380 AACATATCAG-AATCCAAGTCAAGT
1 ATCAAAACAGAAAT-CAGGTCAAGT
* * *
38404 ATCAGATCA-AAATCCATGTCAAGT
1 ATCAAAACAGAAAT-CAGGTCAAGT
38428 ATCA
1 ATCA
38432 GATCAGAATT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
23 3 0.05
24 63 0.95
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (24 bp):
ATCAAAACAGAAATCAGGTCAAGT
Found at i:38425 original size:48 final size:48
Alignment explanation
Indices: 38349--38440 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
38339 CATAAATCAG
* *
38349 GTCAAGTATCATATCAGAAATCAGGTCAAGTAACATATCAGAATCCAA
1 GTCAAGTATCAGATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAA
* *
38397 GTCAAGTATCAGATCA-AAATCCATGTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAAT-CAGGTCAAGTAACAGATCAGAAT
38441 TCAAATCGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 4 0.10
48 35 0.90
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAA
Found at i:38432 original size:24 final size:24
Alignment explanation
Indices: 38349--38436 Score: 106
Period size: 24 Copynumber: 3.7 Consensus size: 24
38339 CATAAATCAG
* *
38349 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCA-AAATCCAA
* * *
38373 GTCAAGTAACATATCAGAATCCAA
1 GTCAAGTATCAGATCAAAATCCAA
*
38397 GTCAAGTATCAGATCAAAATCCAT
1 GTCAAGTATCAGATCAAAATCCAA
38421 GTCAAGTATCAGATCA
1 GTCAAGTATCAGATCA
38437 GAATTCAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
23 3 0.05
24 53 0.95
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (24 bp):
GTCAAGTATCAGATCAAAATCCAA
Found at i:38456 original size:48 final size:47
Alignment explanation
Indices: 38350--38463 Score: 115
Period size: 48 Copynumber: 2.4 Consensus size: 47
38340 ATAAATCAGG
* * * *
38350 TCAAGTATCATATCAGAAATCAGGTCAAGTAACATATCAGAATCCAAG
1 TCAAGAATCAGATCA-AAATCAGGTCAAGTAACAGATCAGAATCCAAA
* * * *
38398 TCAAGTATCAGATCAAAATCCATGTCAAGTATCAGATCAGAATTCAAA
1 TCAAGAATCAGATCAAAAT-CAGGTCAAGTAACAGATCAGAATCCAAA
38446 TCGAA-AATCAGAT-AAAAT
1 TC-AAGAATCAGATCAAAAT
38464 ATTCATGTGA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
47 9 0.16
48 46 0.81
49 2 0.04
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.24
Consensus pattern (47 bp):
TCAAGAATCAGATCAAAATCAGGTCAAGTAACAGATCAGAATCCAAA
Found at i:39851 original size:24 final size:23
Alignment explanation
Indices: 39817--39865 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
39807 CAAATACATA
* *
39817 AATAATAATATTAAACCTCAAAT
1 AATAATAATATAAAAACTCAAAT
*
39840 AATAATACATATAAAAATTCAAAT
1 AATAATA-ATATAAAAACTCAAAT
39864 AA
1 AA
39866 GAAGTTCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (23 bp):
AATAATAATATAAAAACTCAAAT
Found at i:40420 original size:17 final size:19
Alignment explanation
Indices: 40384--40422 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
40374 ACATAATCAA
40384 ATATTTTGAATGCACAACAT
1 ATATTTTGAA-GCACAACAT
40404 ATATTTTGAA-C-CAACAT
1 ATATTTTGAAGCACAACAT
40421 AT
1 AT
40423 CAACATAGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 1 0.05
20 10 0.53
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (19 bp):
ATATTTTGAAGCACAACAT
Found at i:42203 original size:30 final size:30
Alignment explanation
Indices: 42167--42232 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
42157 AGAACCGGTA
* *
42167 GAACCGGCTGAGAACCGACAAAACTGGGGT
1 GAACCGGCTGAAAACCGACAAAACCGGGGT
* * *
42197 GAACCGGCTGAAAACTGGCAAAACCGGTGT
1 GAACCGGCTGAAAACCGACAAAACCGGGGT
42227 GAACCG
1 GAACCG
42233 CCGGTTCTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.24, G:0.32, T:0.11
Consensus pattern (30 bp):
GAACCGGCTGAAAACCGACAAAACCGGGGT
Found at i:55587 original size:81 final size:81
Alignment explanation
Indices: 55433--55587 Score: 238
Period size: 81 Copynumber: 1.9 Consensus size: 81
55423 CCGTTAGACA
* * *
55433 TTTAGTCTTTTACCCAAAGGCATTTAACCTTTCATCTAAGTGGCATGATTGACACCTTTCTGCCC
1 TTTAGTCTTTTACCCAAAGGCATTTAACCTTTCATATAACTGGCATGATTGACACCTTTCTGCCA
*
55498 AAGGCACAGATAAGTT
66 AAGACACAGATAAGTT
* * *
55514 TTTAGTCTTTTACTCAAAGGTATTTAACCTTTCATATAACTGGCATGATTGACACCTTTCTGTCA
1 TTTAGTCTTTTACCCAAAGGCATTTAACCTTTCATATAACTGGCATGATTGACACCTTTCTGCCA
*
55579 AATACACAG
66 AAGACACAG
55588 CTAGGCCATT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (81 bp):
TTTAGTCTTTTACCCAAAGGCATTTAACCTTTCATATAACTGGCATGATTGACACCTTTCTGCCA
AAGACACAGATAAGTT
Found at i:55604 original size:81 final size:81
Alignment explanation
Indices: 55438--55604 Score: 208
Period size: 81 Copynumber: 2.1 Consensus size: 81
55428 AGACATTTAG
* * * *
55438 TCTTTTACCCAAAGGCATTTAACCTTTCATCTAAGTGGCATGATTGACACCTTTCTGCCCAAGGC
1 TCTTTTACCCAAAGGCATTTAACCTTTCATATAACTGGCATGATTGACACCTTTCTGCCAAAGAC
*** *
55503 ACAGATAAGTTTTTAG
66 ACAGATAAGCCATTAA
* * * *
55519 TCTTTTACTCAAAGGTATTTAACCTTTCATATAACTGGCATGATTGACACCTTTCTGTCAAATAC
1 TCTTTTACCCAAAGGCATTTAACCTTTCATATAACTGGCATGATTGACACCTTTCTGCCAAAGAC
* *
55584 ACAGCTAGGCCATTAA
66 ACAGATAAGCCATTAA
55600 TCTTT
1 TCTTT
55605 ATTTTATAAT
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (81 bp):
TCTTTTACCCAAAGGCATTTAACCTTTCATATAACTGGCATGATTGACACCTTTCTGCCAAAGAC
ACAGATAAGCCATTAA
Found at i:56005 original size:46 final size:46
Alignment explanation
Indices: 55948--56191 Score: 398
Period size: 46 Copynumber: 5.3 Consensus size: 46
55938 TTATTCGTTA
55948 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* * * *
55994 ATTTAATTTATGACATCCTTTCATGTCATAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
*
56040 ATTTCATTTATGGCATCCTTTCATGGCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
56086 ATTTCATTTATGGCAATCATTTCATGCCTTAATGTATCCTTTCATGC
1 ATTTCATTTATGGC-ATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
56133 ATTTCATTTATGGCATCCTTTCATGCCTAAATGCATCATTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
56179 ATTTCATTTATGG
1 ATTTCATTTATGG
56192 ATTTGTTTTA
Statistics
Matches: 182, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 139 0.76
47 43 0.24
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.44
Consensus pattern (46 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
Found at i:56156 original size:93 final size:92
Alignment explanation
Indices: 55948--56191 Score: 398
Period size: 93 Copynumber: 2.6 Consensus size: 92
55938 TTATTCGTTA
* * *
55948 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTAATTTATGACATCCT
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCAT
*
56013 TTCATGTCATAATGCATCCTTTCATGC
66 TTCATGCCATAATGCATCCTTTCATGC
*
56040 ATTTCATTTATGGCATCCTTTCATGGCTTAATGCATCCTTTCATGCATTTCATTTATGGCAATCA
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGC-ATCA
* *
56105 TTTCATGCCTTAATGTATCCTTTCATGC
65 TTTCATGCCATAATGCATCCTTTCATGC
* *
56133 ATTTCATTTATGGCATCCTTTCATGCCTAAATGCATCATTTCATGCATTTCATTTATGG
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGG
56192 ATTTGTTTTA
Statistics
Matches: 141, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
92 57 0.40
93 84 0.60
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.44
Consensus pattern (92 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCAT
TTCATGCCATAATGCATCCTTTCATGC
Found at i:56688 original size:42 final size:41
Alignment explanation
Indices: 56615--56707 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 41
56605 CCCTACCATG
* * * **
56615 GTATCGATACTTCTATACTATGTTACCGATACCTTTCTCTCA
1 GTATCGATACTACTACACTATGGTACCGATA-CTCCCTCTCA
** *
56657 GTATCGATACTACTACACTATGGTATTGATACTCCCTTTCA
1 GTATCGATACTACTACACTATGGTACCGATACTCCCTCTCA
56698 GTATCGATAC
1 GTATCGATAC
56708 CATTTTGACA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 17 0.40
42 26 0.60
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.38
Consensus pattern (41 bp):
GTATCGATACTACTACACTATGGTACCGATACTCCCTCTCA
Found at i:60002 original size:28 final size:28
Alignment explanation
Indices: 59962--60022 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
59952 GACAAAAATT
59962 GAAAACCCATGAGAGGATTTTTGTAAGA
1 GAAAACCCATGAGAGGATTTTTGTAAGA
59990 GAAAACCCATGAGAGGATTTTTGTAAGA
1 GAAAACCCATGAGAGGATTTTTGTAAGA
60018 GAAAA
1 GAAAA
60023 ACCAAAAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.43, C:0.10, G:0.25, T:0.23
Consensus pattern (28 bp):
GAAAACCCATGAGAGGATTTTTGTAAGA
Found at i:65783 original size:20 final size:21
Alignment explanation
Indices: 65730--65791 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
65720 ATTCCCCTGT
65730 GGGGGGAATCGGTTCCACTTCAA
1 GGGGGGAATCGGTTCC-C-TCAA
*
65753 AGGGGGAATCGGTTCCCTC-A
1 GGGGGGAATCGGTTCCCTCAA
* *
65773 GGGGGGGATCGATTCCCTC
1 GGGGGGAATCGGTTCCCTC
65792 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.49
21 2 0.06
22 1 0.03
23 15 0.43
ACGTcount: A:0.18, C:0.24, G:0.37, T:0.21
Consensus pattern (21 bp):
GGGGGGAATCGGTTCCCTCAA
Found at i:72742 original size:45 final size:46
Alignment explanation
Indices: 72693--72781 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
72683 ACATCGAATA
* *
72693 CATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAGTG
1 CATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAGTG
*
72738 CATTTGATGCATCGATGCACAAGACTATGCATCGATGCACTCAG
1 CATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
72782 GCTTTTTCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 19 0.47
46 21 0.52
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (46 bp):
CATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAGTG
Found at i:73065 original size:17 final size:16
Alignment explanation
Indices: 73035--73068 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
73025 GAAGTCATTG
73035 ATCAACAACAAGAAAC
1 ATCAACAACAAGAAAC
*
73051 ATCAAGCAACTAGAAAC
1 ATCAA-CAACAAGAAAC
73068 A
1 A
73069 AGAGAGAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.59, C:0.24, G:0.09, T:0.09
Consensus pattern (16 bp):
ATCAACAACAAGAAAC
Done.