Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006087.1 Hibiscus syriacus cultivar Beakdansim tig00014433_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: 67552
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:8963 original size:23 final size:23
Alignment explanation
Indices: 8930--8997 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
8920 ATTATTATAT
8930 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
8953 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* * *
8976 GGTACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
8998 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:13912 original size:25 final size:26
Alignment explanation
Indices: 13883--13937 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
13873 GAGCGCTTAT
*
13883 TTAATT-ATTTTTAAAAATTAAAAAA
1 TTAATTAATTTTCAAAAATTAAAAAA
* *
13908 TTAATTAATTTTCAAATATTAAAATA
1 TTAATTAATTTTCAAAAATTAAAAAA
13934 TTAA
1 TTAA
13938 AAACAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
TTAATTAATTTTCAAAAATTAAAAAA
Found at i:16947 original size:26 final size:25
Alignment explanation
Indices: 16901--16981 Score: 76
Period size: 25 Copynumber: 3.1 Consensus size: 25
16891 ATACAAAAAC
16901 AAAAAATATTAAATTCAAAAATAAAT
1 AAAAAATATTAAATTCAAAAAT-AAT
16927 AAAAAA-ATTAAATT-ATTAAAATAAT
1 AAAAAATATTAAATTCA--AAAATAAT
**
16952 AAAAATACTATTAAAATAAAAAAATAAT
1 AAAAA-A-TATT-AAATTCAAAAATAAT
16980 AA
1 AA
16982 GTTATAAAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
24 1 0.02
25 16 0.34
26 12 0.26
28 13 0.28
29 4 0.09
30 1 0.02
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (25 bp):
AAAAAATATTAAATTCAAAAATAAT
Found at i:16965 original size:20 final size:19
Alignment explanation
Indices: 16940--16977 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
16930 AAAATTAAAT
16940 TATTAAAATAATAAAAATAC
1 TATTAAAATAA-AAAAATAC
16960 TATTAAAATAAAAAAATA
1 TATTAAAATAAAAAAATA
16978 ATAAGTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (19 bp):
TATTAAAATAAAAAAATAC
Found at i:29254 original size:31 final size:31
Alignment explanation
Indices: 29219--29291 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
29209 TGGATTTATA
* * *
29219 GGTTAAATTGATATT-TGATCTAAAATTTAA-G
1 GGTTAAATTAATATTCT-ACCTAAAA-TAAAGG
29250 GGTTAAATTAATATTCTACCTAAAATAAAGG
1 GGTTAAATTAATATTCTACCTAAAATAAAGG
29281 GGTTAAATTAA
1 GGTTAAATTAA
29292 AATTTAACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 3 0.08
31 33 0.89
32 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.37
Consensus pattern (31 bp):
GGTTAAATTAATATTCTACCTAAAATAAAGG
Found at i:33320 original size:25 final size:26
Alignment explanation
Indices: 33292--33346 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 26
33282 AAACAATATT
33292 TTCAAAAATATAAGAATATATG-AAA
1 TTCAAAAATATAAGAATATATGAAAA
33317 TTCAAAAATATAAGAATATATGAAAA
1 TTCAAAAATATAAGAATATATGAAAA
33343 TTCA
1 TTCA
33347 TAACTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 22 0.76
26 7 0.24
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.29
Consensus pattern (26 bp):
TTCAAAAATATAAGAATATATGAAAA
Found at i:46121 original size:50 final size:50
Alignment explanation
Indices: 46061--46183 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 50
46051 GTCAGATTAG
* * * *
46061 GTATAGCGCGGATCAGGGGGTGCACTATACCCACGTGGCGCCAGATCACC
1 GTATAGCGCGGATCAGGGGGTGCACTATACCCAAGTGACGCCAAATCAAC
* ** * *
46111 GTATATCGCGGGGCAGGGGGCGCGCTATACCCAAGTGACGCCAAATCAAC
1 GTATAGCGCGGATCAGGGGGTGCACTATACCCAAGTGACGCCAAATCAAC
46161 GTATAGCGC-GATTCAGGGGGTGC
1 GTATAGCGCGGA-TCAGGGGGTGC
46184 GCTTTACTGC
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
49 1 0.02
50 58 0.98
ACGTcount: A:0.23, C:0.27, G:0.34, T:0.16
Consensus pattern (50 bp):
GTATAGCGCGGATCAGGGGGTGCACTATACCCAAGTGACGCCAAATCAAC
Found at i:52042 original size:83 final size:79
Alignment explanation
Indices: 51945--52237 Score: 253
Period size: 83 Copynumber: 3.6 Consensus size: 79
51935 TTTAGCGGCA
* * * *
51945 TTTTTTAAACAAACGCCGCAATAGAGTGGTAATTTAGTGGCGTTTATAGCTCAAACGATTCAATA
1 TTTTTTCAACAAACGCCGCAATAGAGTAGTAATTTAGCGGCGTTTATA--TCAAACG-TGCAATA
52010 GAGTTGTTTATAGTGGCG
63 G-GTTGTTTATAGTGGCG
* * * * *
52028 TTTTTTCAACAAACGCCGCAATAGAGTGGTAATTTAGCGGTGTTTTTATACAAACGCCGCGATAG
1 TTTTTTCAACAAACGCCGCAATAGAGTAGTAATTTAGCGGCGTTTATAT-CAAACG-TGCAATAG
* * *
52093 TGTTGTTTATAGAGTCA
64 -GTTGTTTATAGTGGCG
* * * * * * *
52110 TTTGTTCAACAAACGACGCTATTGAGAAGTAATTTAGCGGCGTTTATCAAACAAACGTCGCAAAA
1 TTTTTTCAACAAACGCCGCAATAGAGTAGTAATTTAGCGGCGTTTAT--ATCAAACGT-GCAATA
*
52175 GGTTTGTTTATAGTGGTG
63 GG-TTGTTTATAGTGGCG
* * * * * *
52193 TTTATGCAAAAAACACCGCAATAGAGTAATAATTTAGTGGCGTTT
1 TTTTTTCAACAAACGCCGCAATAGAGTAGTAATTTAGCGGCGTTT
52238 GTCCCACAAA
Statistics
Matches: 167, Mismatches: 38, Indels: 10
0.78 0.18 0.05
Matches are distributed among these distances:
81 1 0.01
82 64 0.38
83 101 0.60
84 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (79 bp):
TTTTTTCAACAAACGCCGCAATAGAGTAGTAATTTAGCGGCGTTTATATCAAACGTGCAATAGGT
TGTTTATAGTGGCG
Found at i:52050 original size:41 final size:41
Alignment explanation
Indices: 51935--52237 Score: 136
Period size: 41 Copynumber: 7.3 Consensus size: 41
51925 AAAATGATAC
* * * *
51935 TTTAGCGGCATTTTTTAAACAAACGCCGCAATAGAGTGGTAA
1 TTTAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTTGT-A
** * ***
51977 TTTAGTGGCGTTTATAGC-TCAAACGATTCAATAGAGTTGT-
1 TTTAGTGGCGTTT-TTTCAACAAACGCCGCAATAGAGTTGTA
*
52017 TTATAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTGGTAA
1 TT-TAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTTGT-A
* * * *
52060 TTTAGCGGTG-TTTTT-ATACAAACGCCGCGATAGTGTTGT-
1 TTTAGTGGCGTTTTTTCA-ACAAACGCCGCAATAGAGTTGTA
* * * * * * * **
52099 TTATAGAGTCATTTGTTCAACAAACGACGCTATTGAGAAGTAA
1 TT-TAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTTGT-A
* * * *
52142 TTTAGCGGCG-TTTATCAAACAAACGTCGCAAAAG-GTTTGT-
1 TTTAGTGGCGTTTTTTC-AACAAACGCCGCAATAGAG-TTGTA
* * * * * **
52182 TTATAGTGGTGTTTATGCAAAAAACACCGCAATAGAGTAATAA
1 TT-TAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTTGT-A
52225 TTTAGTGGCGTTT
1 TTTAGTGGCGTTT
52238 GTCCCACAAA
Statistics
Matches: 187, Mismatches: 56, Indels: 36
0.67 0.20 0.13
Matches are distributed among these distances:
39 2 0.01
40 11 0.06
41 98 0.52
42 69 0.37
43 7 0.04
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTTGTA
Found at i:52443 original size:41 final size:41
Alignment explanation
Indices: 52380--52516 Score: 145
Period size: 41 Copynumber: 3.3 Consensus size: 41
52370 CATTTATGCG
* * *
52380 AAAACGCCGCAATAGCCTTGTAC-TTATCTGGCGTTTGT-GA
1 AAAACGCCGCAATATCCATGTACTTTAGC-GGCGTTTGTAGA
* *
52420 TCAAACGCCACAATATCCATGTACTTTAGCGGCGTTTGTAGA
1 -AAAACGCCGCAATATCCATGTACTTTAGCGGCGTTTGTAGA
* * *
52462 AAAACGCCGTAATATCCATG-ATCTTTAGCGGCGTTTATAAA
1 AAAACGCCGCAATATCCATGTA-CTTTAGCGGCGTTTGTAGA
*
52503 AAAATGCCGCAATA
1 AAAACGCCGCAATA
52517 GTTTAGTCAT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
40 1 0.01
41 74 0.91
42 6 0.07
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (41 bp):
AAAACGCCGCAATATCCATGTACTTTAGCGGCGTTTGTAGA
Found at i:52530 original size:41 final size:42
Alignment explanation
Indices: 52485--52580 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
52475 ATCCATGATC
*
52485 TTTAGCGGCGTTT-ATAAAAAAATGCCGCAATAGTTTAGTCA
1 TTTAGCGGCGTTTCATAAAAAAACGCCGCAATAGTTTAGTCA
* * * * * * *
52526 TTTAGTGGCGTTTCTTTAATAAACGCCGCAGTAGTTTTGTCC
1 TTTAGCGGCGTTTCATAAAAAAACGCCGCAATAGTTTAGTCA
*
52568 TTTAGGGGCGTTT
1 TTTAGCGGCGTTT
52581 TTGTAATAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 12 0.27
42 33 0.73
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.38
Consensus pattern (42 bp):
TTTAGCGGCGTTTCATAAAAAAACGCCGCAATAGTTTAGTCA
Found at i:52562 original size:42 final size:42
Alignment explanation
Indices: 52508--52604 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
52498 ATAAAAAAAT
* *
52508 GCCGCAATAGTTTAGTCATTTAGTGGCGTTTCTT-TAATAAAC
1 GCCGCAGTAGTTTAGTCATTTAGGGGCGTTT-TTGTAATAAAC
* *
52550 GCCGCAGTAGTTTTGTCCTTTAGGGGCGTTTTTGTAATAAAC
1 GCCGCAGTAGTTTAGTCATTTAGGGGCGTTTTTGTAATAAAC
* *
52592 ACCGCAGAAGTTT
1 GCCGCAGTAGTTT
52605 GGTCCCTTAG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 2 0.04
42 46 0.96
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.36
Consensus pattern (42 bp):
GCCGCAGTAGTTTAGTCATTTAGGGGCGTTTTTGTAATAAAC
Found at i:56667 original size:21 final size:21
Alignment explanation
Indices: 56639--56688 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
56629 ATGACTACAT
56639 AATA-ATAACA-ATAATAATTA
1 AATATATAACATATAA-AATTA
56659 AATATATAAACATATAAAATTA
1 AATATAT-AACATATAAAATTA
56681 AAT-TATAA
1 AATATATAA
56689 ATAAACAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 6 0.22
21 5 0.19
22 12 0.44
23 4 0.15
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (21 bp):
AATATATAACATATAAAATTA
Found at i:56689 original size:21 final size:22
Alignment explanation
Indices: 56645--56689 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
56635 ACATAATAAT
56645 AACAATAATAATTAAATATATA
1 AACAATAATAATTAAATATATA
56667 AACATATAA-AATTAAAT-TATA
1 AACA-ATAATAATTAAATATATA
56688 AA
1 AA
56690 TAAACAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.27
22 12 0.55
23 4 0.18
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
AACAATAATAATTAAATATATA
Found at i:56711 original size:37 final size:37
Alignment explanation
Indices: 56670--56757 Score: 158
Period size: 37 Copynumber: 2.4 Consensus size: 37
56660 ATATATAAAC
*
56670 ATATAAAATTAAATTATAAATAAACAATGACTAAAAT
1 ATATAAAATTAAAATATAAATAAACAATGACTAAAAT
56707 ATATAAAATTAAAATATAAATAAACAATGACTAAAAT
1 ATATAAAATTAAAATATAAATAAACAATGACTAAAAT
*
56744 AAATAAAATTAAAA
1 ATATAAAATTAAAA
56758 AGTAATAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (37 bp):
ATATAAAATTAAAATATAAATAAACAATGACTAAAAT
Found at i:56741 original size:22 final size:22
Alignment explanation
Indices: 56679--56744 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
56669 CATATAAAAT
*
56679 TAAATTATAAATAAACAATGAC
1 TAAAATATAAATAAACAATGAC
56701 TAAAATAT--AT-AA-AAT---
1 TAAAATATAAATAAACAATGAC
56716 TAAAATATAAATAAACAATGAC
1 TAAAATATAAATAAACAATGAC
56738 TAAAATA
1 TAAAATA
56745 AATAAAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
15 8 0.22
17 2 0.06
18 5 0.14
19 5 0.14
20 2 0.06
22 14 0.39
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (22 bp):
TAAAATATAAATAAACAATGAC
Found at i:56747 original size:20 final size:20
Alignment explanation
Indices: 56685--56750 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
56675 AAATTAAATT
56685 ATAAATAAACAATGACTAAA
1 ATAAATAAACAATGACTAAA
* *
56705 ATATAT-AA-AATTA--AAA
1 ATAAATAAACAATGACTAAA
56721 TATAAATAAACAATGACTAAA
1 -ATAAATAAACAATGACTAAA
56742 ATAAATAAA
1 ATAAATAAA
56751 ATTAAAAAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
16 3 0.08
17 5 0.14
18 6 0.16
19 6 0.16
20 14 0.38
21 3 0.08
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.24
Consensus pattern (20 bp):
ATAAATAAACAATGACTAAA
Found at i:56758 original size:16 final size:16
Alignment explanation
Indices: 56702--56782 Score: 56
Period size: 19 Copynumber: 4.6 Consensus size: 16
56692 AACAATGACT
*
56702 AAAATATATAAAATTA
1 AAAATAAATAAAATTA
*
56718 AAATATAAATAAACAATGA
1 AAA-ATAAAT-AA-AATTA
56737 CTAAAATAAATAAAATTA
1 --AAAATAAATAAAATTA
56755 AAAAGT-AATAAAACTTGTA
1 AAAA-TAAATAAAA--T-TA
56774 AAAATAAAT
1 AAAATAAAT
56783 GAAAGTAATG
Statistics
Matches: 52, Mismatches: 3, Indels: 17
0.72 0.04 0.24
Matches are distributed among these distances:
16 14 0.27
17 6 0.12
18 8 0.15
19 15 0.29
20 6 0.12
21 3 0.06
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.26
Consensus pattern (16 bp):
AAAATAAATAAAATTA
Found at i:58044 original size:2 final size:2
Alignment explanation
Indices: 58037--58073 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
58027 TTATTAAATA
58037 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
58074 ATAATAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:58106 original size:13 final size:13
Alignment explanation
Indices: 58088--58114 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58078 TAATAATGAT
58088 AAAAATAAAAATA
1 AAAAATAAAAATA
58101 AAAAATAAAAATA
1 AAAAATAAAAATA
58114 A
1 A
58115 TTTTAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:58359 original size:73 final size:73
Alignment explanation
Indices: 58271--58790 Score: 826
Period size: 73 Copynumber: 7.0 Consensus size: 73
58261 GGTCTTATGA
* *
58271 ATGACCCTGAGGCTTTAAGATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACAGTAGG
1 ATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGG
*
58336 TCTTGCAG
66 TCTTACAG
* *
58344 ATGACCCTGAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTTTTTTTTAAAACATCATGCACTGTA
1 ATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGC--TTTTTGAAAACATCATGCACTGTA
58409 GGTCTTACAG
64 GGTCTTACAG
* * *
58419 ATGACCCTAAGGTTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTATAGG
1 ATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGG
58484 TCTTACAG
66 TCTTACAG
* *
58492 ATGACCCTGAGGCTTTAAGATCAAAAAGCTCCTGAAGGCTTTTTGAGAACATCATGCACTGTAGG
1 ATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGG
58557 TCTTACAG
66 TCTTACAG
*
58565 ATGACCCTGAGGCTTT-AGAATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACAGTAG
1 ATGACCCTGAGGCTTTAAG-ATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAG
58629 GTCTTACAG
65 GTCTTACAG
* *
58638 ATGACCCTGAGGCTTTAAAATCAAAAAGCTCCCGAAGGTTTTTTGAAAACATCATGCACTGTAGG
1 ATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGG
*
58703 TTTTACAG
66 TCTTACAG
*
58711 ATGACCCTGAGGCTTTAAAAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTG
1 ATGACCCTGAGGCTTT----AAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTG
*
58776 TAGGTCTTATAG
62 TAGGTCTTACAG
58788 ATG
1 ATG
58791 TGGGAAATAA
Statistics
Matches: 413, Mismatches: 26, Indels: 12
0.92 0.06 0.03
Matches are distributed among these distances:
72 2 0.00
73 287 0.69
74 1 0.00
75 67 0.16
77 56 0.14
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (73 bp):
ATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGG
TCTTACAG
Found at i:59479 original size:22 final size:22
Alignment explanation
Indices: 59451--59505 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
59441 AATAAAGTGT
*
59451 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAAAATCTA
59473 TCATCTTTGAAAAGAAAATCTA
1 TCATCTTTGAAAAGAAAATCTA
59495 TCATCTTTGAA
1 TCATCTTTGAA
59506 GAGTGTAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAAAATCTA
Done.