Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003212.1 Hibiscus syriacus cultivar Beakdansim tig00006763_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: 83104
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:8585 original size:34 final size:35
Alignment explanation
Indices: 8535--8612 Score: 115
Period size: 34 Copynumber: 2.3 Consensus size: 35
8525 TGGCAACCAA
8535 CTTTGAAAAAAGTTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAAGTTTTTCAAAGTTTGGTAAATGTTT
*
8571 CTTTGAAAAA-TTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAGTTTTTCAAAGTTTGGTAAATGTTT
*
8605 -GTTGAAAA
1 CTTTGAAAA
8613 TAGGAATGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
33 7 0.17
34 23 0.57
35 5 0.12
36 5 0.12
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (35 bp):
CTTTGAAAAAGTTTTTCAAAGTTTGGTAAATGTTT
Found at i:22380 original size:2 final size:2
Alignment explanation
Indices: 22373--22411 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
22363 ATTTAAAAAG
22373 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22412 GAAAAAATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22682 original size:64 final size:66
Alignment explanation
Indices: 22609--22736 Score: 215
Period size: 64 Copynumber: 2.0 Consensus size: 66
22599 GTCTAACAAT
*
22609 ATTTAACCCTTAATGATTACGTCTTAATTAAATAAAAACAAAAAA-A-CAAATATTATATATTAA
1 ATTTAACCCTTAATGACTACGTCTTAATTAAATAAAAACAAAAAAGACCAAATATTATATATTAA
22672 C
66 C
*
22673 ATTTAACCCTTAATGACTACGTCTTAATTAAATAAAAATAAAAAATGACCAAATATTATATATT
1 ATTTAACCCTTAATGACTACGTCTTAATTAAATAAAAACAAAAAA-GACCAAATATTATATATT
22737 TTAAATTCAA
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
64 43 0.73
66 1 0.02
67 15 0.25
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.34
Consensus pattern (66 bp):
ATTTAACCCTTAATGACTACGTCTTAATTAAATAAAAACAAAAAAGACCAAATATTATATATTAA
C
Found at i:29758 original size:43 final size:42
Alignment explanation
Indices: 29688--29772 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 42
29678 CACATAGACC
29688 CAGGACATATATATATGTAACTATAAGTATTTAATCAATAAA
1 CAGGACATATATATATGTAACTATAAGTATTTAATCAATAAA
* *
29730 CAGGACATATATATTATGTAATTATAAGTATTTGATCAATAAA
1 CAGGACATATATA-TATGTAACTATAAGTATTTAATCAATAAA
29773 TAATTAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 13 0.32
43 27 0.68
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (42 bp):
CAGGACATATATATATGTAACTATAAGTATTTAATCAATAAA
Found at i:31178 original size:19 final size:18
Alignment explanation
Indices: 31147--31184 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
31137 AAAAATGAAT
31147 AATAAATAATAATAATAA
1 AATAAATAATAATAATAA
31165 AATAAATAAATAATAATAA
1 AATAAAT-AATAATAATAA
31184 A
1 A
31185 TAATGTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AATAAATAATAATAATAA
Found at i:31760 original size:37 final size:36
Alignment explanation
Indices: 31710--31833 Score: 167
Period size: 37 Copynumber: 3.3 Consensus size: 36
31700 ATACTTCTAG
*
31710 ATCCTATTTTTAGGAGTTTGAATCATAGTAGAACTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA-AACTTT
* *
31747 ATCCTATTTTTAGGAGTTTGAATCCTAATAAAATTAT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAACTT-T
31784 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGT-AAACT-TT
* *
31822 ATGCTATGTTTA
1 ATCCTATTTTTA
31834 TTTTCTGAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
36 4 0.05
37 57 0.74
38 15 0.19
39 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.44
Consensus pattern (36 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAACTTT
Found at i:31773 original size:21 final size:21
Alignment explanation
Indices: 31710--31773 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 21
31700 ATACTTCTAG
31710 ATCCTATTTTTAGGAGTTTGA
1 ATCCTATTTTTAGGAGTTTGA
** * *
31731 AT-C-A-TAGTAGAACTTT--
1 ATCCTATTTTTAGGAGTTTGA
31747 ATCCTATTTTTAGGAGTTTGA
1 ATCCTATTTTTAGGAGTTTGA
31768 ATCCTA
1 ATCCTA
31774 ATAAAATTAT
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
16 2 0.07
17 1 0.03
18 9 0.30
19 9 0.30
20 1 0.03
21 8 0.27
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (21 bp):
ATCCTATTTTTAGGAGTTTGA
Found at i:32490 original size:83 final size:83
Alignment explanation
Indices: 32292--32563 Score: 291
Period size: 83 Copynumber: 3.3 Consensus size: 83
32282 AGCTGAATGG
** ** * * *
32292 AATCGAACTCGAAAAT-TTTGTTGGCAGATAGCCCTTATTGCCTTGAGCTATGCTGCAAATTTGA
1 AATCGAACTCGAAGGTCTTTGTTGATAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAA--TGA
* * **
32356 TTTGCCTCT-GAGTTGAATGT
64 TGTGCCT-TGGAGCTGAGCGT
* *
32376 AATCGAACTTGAAGGTCTTTGATGACT-GATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTGTTGA-TAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGAT
32440 GTGCCTTGGAGCTGAGCGT
65 GTGCCTTGGAGCTGAGCGT
* * * *
32459 AGTCGAACTCAAAGGTCTTTGTTGATAGATAACTCTTCTAGCCTTGAGTTATGCTGCAAATGATG
1 AATCGAACTCGAAGGTCTTTGTTGATAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATG
* * *
32524 TGCCCTCGAAGCTAAGCGT
66 TG-CCTTGGAGCTGAGCGT
32543 AATCGAACTCGAAGG-CTTTGT
1 AATCGAACTCGAAGGTCTTTGT
32564 GTTTCAAGAT
Statistics
Matches: 159, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
82 2 0.01
83 82 0.52
84 39 0.25
85 36 0.23
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (83 bp):
AATCGAACTCGAAGGTCTTTGTTGATAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATG
TGCCTTGGAGCTGAGCGT
Found at i:32722 original size:37 final size:36
Alignment explanation
Indices: 32629--32744 Score: 126
Period size: 36 Copynumber: 3.2 Consensus size: 36
32619 GTTTTTTTGT
* * * *
32629 GTTTCAAGAGAAACTGTCTCAATAGGGACAAAATTT
1 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTA
* *
32665 GTTTCAAAAGAAATTATCTCAAGAGAGACAAAACTTA
1 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAA-TTA
* * *
32702 G-TTCTAAAAGAAACTGTCTCAAGGGAGACGAAATTT
1 GTTTC-AAAAGAAACTGTCTCAAGAGAGACAAAATTA
32738 GTTTCAA
1 GTTTCAA
32745 GGAAAAGATA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
36 36 0.55
37 30 0.45
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (36 bp):
GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTA
Found at i:33788 original size:32 final size:32
Alignment explanation
Indices: 33687--33781 Score: 145
Period size: 32 Copynumber: 2.9 Consensus size: 32
33677 ATTCCCAAAG
* *
33687 ATGCCCCAATATTCGATGTTGAATCTCAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTCAAAAA
* *
33719 ATGTCCCAACATTTGATGTTAAATCTCAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTCAAAAA
33751 ATGCCCCAACATTTGATGTTGAATCTTCAAA
1 ATGCCCCAACATTTGATGTTGAATC-TCAAA
33782 GATGCCCTCA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
32 51 0.91
33 5 0.09
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.31
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTCAAAAA
Found at i:34880 original size:25 final size:25
Alignment explanation
Indices: 34840--34890 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 25
34830 TTTTTCTTCA
34840 ATTTTCCTTTG-TTTTTCTCTTTTT
1 ATTTTCCTTTGCTTTTTCTCTTTTT
34864 ATTTTCTCTTTGCTTTTTTCTCTTTTT
1 ATTTTC-CTTTGC-TTTTTCTCTTTTT
34891 GTCCTTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 6 0.25
25 5 0.21
27 13 0.54
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.75
Consensus pattern (25 bp):
ATTTTCCTTTGCTTTTTCTCTTTTT
Found at i:34882 original size:14 final size:12
Alignment explanation
Indices: 34841--34890 Score: 57
Period size: 13 Copynumber: 4.0 Consensus size: 12
34831 TTTTCTTCAA
*
34841 TTTTC-CTTTGT
1 TTTTCTCTTTTT
34852 TTTTCTCTTTTT
1 TTTTCTCTTTTT
34864 ATTTTCTCTTTGCTT
1 -TTTTCTCTTT--TT
34879 TTTTCTCTTTTT
1 TTTTCTCTTTTT
34891 GTCCTTGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
11 5 0.15
12 7 0.21
13 10 0.29
14 10 0.29
15 2 0.06
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.76
Consensus pattern (12 bp):
TTTTCTCTTTTT
Found at i:36932 original size:34 final size:31
Alignment explanation
Indices: 36880--36948 Score: 93
Period size: 34 Copynumber: 2.1 Consensus size: 31
36870 CCTTACAAAC
*
36880 TCCCTAGTTTTCCGGGCTAAACTAGAATCTT
1 TCCCTAGTTTTCCGGGCTAAACTAGAACCTT
*
36911 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTT-C-CGGGCTAAACTAGAACCTT
36945 TCCC
1 TCCC
36949 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 7 0.21
32 4 0.12
33 1 0.03
34 21 0.64
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (31 bp):
TCCCTAGTTTTCCGGGCTAAACTAGAACCTT
Found at i:37257 original size:21 final size:21
Alignment explanation
Indices: 37231--37293 Score: 108
Period size: 21 Copynumber: 3.0 Consensus size: 21
37221 CCAGAATGGG
*
37231 GGGAATCGGTACCCCTTTATA
1 GGGAATCGGTACCCCTTCATA
37252 GGGAATCGGTACCCCTTCATA
1 GGGAATCGGTACCCCTTCATA
*
37273 GGGAATCGATACCCCTTCATA
1 GGGAATCGGTACCCCTTCATA
37294 ATATTCAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (21 bp):
GGGAATCGGTACCCCTTCATA
Found at i:37480 original size:35 final size:35
Alignment explanation
Indices: 37407--37521 Score: 196
Period size: 35 Copynumber: 3.3 Consensus size: 35
37397 AACCATGCAA
* * *
37407 GGGGAATCTGTACCTGAGGAATCGATA-CCCCTGG
1 GGGGAATCTGTTCCCGGGGAATCGATACCCCCTGG
37441 GGGGAATCTGTTCCCGGGGAATCGATACCCCCTGG
1 GGGGAATCTGTTCCCGGGGAATCGATACCCCCTGG
37476 GGGGAATCTGTTCCCGGGGAATCGATACCCCCTGG
1 GGGGAATCTGTTCCCGGGGAATCGATACCCCCTGG
37511 GGGGAATCTGT
1 GGGGAATCTGT
37522 ACCCCCTGGA
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
34 24 0.31
35 53 0.69
ACGTcount: A:0.19, C:0.25, G:0.35, T:0.21
Consensus pattern (35 bp):
GGGGAATCTGTTCCCGGGGAATCGATACCCCCTGG
Found at i:37481 original size:20 final size:20
Alignment explanation
Indices: 37456--37530 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
37446 ATCTGTTCCC
37456 GGGGAATC-GATACCCCCTGG
1 GGGGAATCTG-TACCCCCTGG
*
37476 GGGGAATCTGT--TCCC---
1 GGGGAATCTGTACCCCCTGG
37491 GGGGAATC-GATACCCCCTGG
1 GGGGAATCTG-TACCCCCTGG
37511 GGGGAATCTGTACCCCCTGG
1 GGGGAATCTGTACCCCCTGG
37531 ACAATCTGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 16
0.71 0.03 0.25
Matches are distributed among these distances:
14 1 0.02
15 9 0.20
17 3 0.07
18 3 0.07
20 27 0.60
21 2 0.04
ACGTcount: A:0.17, C:0.29, G:0.35, T:0.19
Consensus pattern (20 bp):
GGGGAATCTGTACCCCCTGG
Found at i:39521 original size:14 final size:15
Alignment explanation
Indices: 39504--39534 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
39494 TTCTTCTTGT
39504 TTTTCTTC-TCTTCC
1 TTTTCTTCATCTTCC
39518 TTTTCTTCATCTTCC
1 TTTTCTTCATCTTCC
39533 TT
1 TT
39535 CACCATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTCTTCATCTTCC
Found at i:41019 original size:20 final size:20
Alignment explanation
Indices: 40994--41034 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
40984 AAACCATGCA
40994 GGGGGAATC-GATACCCCCTG
1 GGGGGAATCTG-TACCCCCTG
41014 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
41034 G
1 G
41035 ACAATATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.17, C:0.29, G:0.37, T:0.17
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:42619 original size:19 final size:20
Alignment explanation
Indices: 42573--42619 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
42563 AAGAAAAAAT
* *
42573 AAACAAAATGGTAGATGACA
1 AAACAAAATAGTAAATGACA
*
42593 AAATAAAATAGTAAATG-CA
1 AAACAAAATAGTAAATGACA
42612 AAACAAAA
1 AAACAAAA
42620 AGAAAAAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.64, C:0.09, G:0.13, T:0.15
Consensus pattern (20 bp):
AAACAAAATAGTAAATGACA
Found at i:42656 original size:18 final size:20
Alignment explanation
Indices: 42623--42666 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
42613 AACAAAAAGA
42623 AAAAATGAATAATAAATAAT
1 AAAAATGAATAATAAATAAT
*
42643 AAAAATAAAATAAATAAATAAT
1 AAAAAT-GAAT-AATAAATAAT
42665 AA
1 AA
42667 TATATAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 3 0.14
22 12 0.57
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAAATGAATAATAAATAAT
Found at i:43247 original size:37 final size:37
Alignment explanation
Indices: 43192--43266 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
43182 ATGTTTCTGG
43192 ATCATATTTTTAGAAGTTTGAATCCTAATAAAACTCT
1 ATCATATTTTTAGAAGTTTGAATCCTAATAAAACTCT
* *
43229 ATCATATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCATATTTTTAGAAGTTTGAATCCTAATAAAACTCT
43266 A
1 A
43267 ACGCTATGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (37 bp):
ATCATATTTTTAGAAGTTTGAATCCTAATAAAACTCT
Found at i:45033 original size:16 final size:18
Alignment explanation
Indices: 44993--45034 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 18
44983 AATTTTAACC
44993 TTAAAC-CCATTAATATT
1 TTAAACTCCATTAATATT
45010 TCTAAACTCCATT-A-ATT
1 T-TAAACTCCATTAATATT
45027 TTAAACTC
1 TTAAACTC
45035 AAATAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 7 0.30
17 5 0.22
18 6 0.26
19 5 0.22
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAACTCCATTAATATT
Found at i:45221 original size:31 final size:29
Alignment explanation
Indices: 45186--45243 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 29
45176 TTATCATTTA
45186 AATGAACAAACATGAACAAGTTAAATTTCTT
1 AATGAACAAACATGAACAAG--AAATTTCTT
*
45217 AATGAACAAACATGCACAAGAAATTTC
1 AATGAACAAACATGAACAAGAAATTTC
45244 ATTTGTTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 7 0.27
31 19 0.73
ACGTcount: A:0.50, C:0.16, G:0.10, T:0.24
Consensus pattern (29 bp):
AATGAACAAACATGAACAAGAAATTTCTT
Found at i:57361 original size:2 final size:2
Alignment explanation
Indices: 57354--57410 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
57344 TTCATACATG
57354 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57396 AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT
57411 TAAAAAAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:58258 original size:2 final size:2
Alignment explanation
Indices: 58251--58317 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
58241 GAAAATGTAA
58251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58293 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 A
58318 CACATGGTAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:63079 original size:13 final size:14
Alignment explanation
Indices: 63051--63083 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
63041 CAGAGTGTGG
*
63051 CGGCGGACGGCTGA
1 CGGCGGACGGCAGA
63065 CGGCGG-CGGCAGA
1 CGGCGGACGGCAGA
63078 CGGCGG
1 CGGCGG
63084 GCGGTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.12, C:0.30, G:0.55, T:0.03
Consensus pattern (14 bp):
CGGCGGACGGCAGA
Done.