Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004859.1 Hibiscus syriacus cultivar Beakdansim tig00010957_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: 60796
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Found at i:700 original size:19 final size:19
Alignment explanation
Indices: 671--723 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
661 AATATTAGAA
*
671 AATTATAAATATTACATTACT
1 AATT-TAAATATTACAATA-T
*
692 -ATTTAAATATACACAATAT
1 AATTTAAATAT-TACAATAT
711 AATTTAAATATTA
1 AATTTAAATATTA
724 AACTAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTTAAATATTACAATAT
Found at i:734 original size:22 final size:20
Alignment explanation
Indices: 692--734 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
682 TTACATTACT
*
692 ATTTAAATATACACAATATA
1 ATTTAAATATAAACAATATA
712 ATTTAAATATTAAACTAATATA
1 ATTTAAATA-TAAAC-AATATA
734 A
1 A
735 AATAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 4 0.20
22 7 0.35
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTTAAATATAAACAATATA
Found at i:1014 original size:18 final size:18
Alignment explanation
Indices: 972--1015 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
962 TAAAATATAA
*
972 AAATAATTTTTTTTGCTC
1 AAATAATATTTTTTGCTC
*
990 TAATAATATTTTTT-CTC
1 AAATAATATTTTTTGCTC
1007 AAACTAATA
1 AAA-TAATA
1016 ATAAAATGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.50
Consensus pattern (18 bp):
AAATAATATTTTTTGCTC
Found at i:26268 original size:20 final size:20
Alignment explanation
Indices: 26245--26291 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
26235 GTTTTCAAAT
*
26245 TCGCAATGCGAATATGTAAA
1 TCGCAACGCGAATATGTAAA
*
26265 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATATGTAAA
26285 TCGCAAC
1 TCGCAAC
26292 ACAGAAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:26323 original size:20 final size:20
Alignment explanation
Indices: 26300--26367 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
26290 ACACAGAAGT
26300 CAAATTCGCAATGCGATTTC
1 CAAATTCGCAATGCGATTTC
* *
26320 CAAATTCGCAACGTGATTTC
1 CAAATTCGCAATGCGATTTC
** *
26340 CAAATTCGCGTTGCGATTTA
1 CAAATTCGCAATGCGATTTC
26360 CAAATTCG
1 CAAATTCG
26368 TAACACTGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (20 bp):
CAAATTCGCAATGCGATTTC
Found at i:26329 original size:40 final size:40
Alignment explanation
Indices: 26285--26400 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 40
26275 AATCTGTAAA
* * *
26285 TCGCAACACAGAAGTCAAATTCGCAATGCGATTTCCAAAT
1 TCGCAACACTGAATTCAAATTCGCAATGCGATTTACAAAT
* * **
26325 TCGCAAC-GTGATTTCCAAATTCGCGTTGCGATTTACAAAT
1 TCGCAACACTGAATT-CAAATTCGCAATGCGATTTACAAAT
*
26365 TCGTAACACTGAATTTCAAATTCGCAACT-CGATTTA
1 TCGCAACACTGAA-TTCAAATTCGCAA-TGCGATTTA
26401 TGAATTCACA
Statistics
Matches: 60, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
39 3 0.05
40 35 0.58
41 19 0.32
42 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (40 bp):
TCGCAACACTGAATTCAAATTCGCAATGCGATTTACAAAT
Found at i:26329 original size:60 final size:61
Alignment explanation
Indices: 26200--26332 Score: 155
Period size: 60 Copynumber: 2.2 Consensus size: 61
26190 AAATGATCAA
* * *** *
26200 CAAATTCGCAACGCGAACTCTAATTTCGCAACTCAGTTTTCAAATTCGCAATGCGAATATG
1 CAAATTCGCAACGCGAACTCTAATATCGCAACACAGAAGTCAAATTCGCAATGCGAATATC
* * *
26261 TAAA-TCGCAACGCGAATCTGTAA-ATCGCAACACAGAAGTCAAATTCGCAATGCG-ATTTC
1 CAAATTCGCAACGCGAA-CTCTAATATCGCAACACAGAAGTCAAATTCGCAATGCGAATATC
26320 CAAATTCGCAACG
1 CAAATTCGCAACG
26333 TGATTTCCAA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
59 6 0.10
60 46 0.77
61 8 0.13
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (61 bp):
CAAATTCGCAACGCGAACTCTAATATCGCAACACAGAAGTCAAATTCGCAATGCGAATATC
Found at i:26398 original size:41 final size:39
Alignment explanation
Indices: 26299--26431 Score: 117
Period size: 40 Copynumber: 3.3 Consensus size: 39
26289 AACACAGAAG
* *
26299 TCAAATTCGCAATGCGATTTCCAAATTCGCAACGTGATT
1 TCAAATTCGCAATGCGATTTACAAATTCGCAACCTGATT
** *
26338 TCCAAATTCGCGTTGCGATTTACAAATTCGTAACACTGAATT
1 T-CAAATTCGCAATGCGATTTACAAATTCGCAAC-CTG-ATT
** *
26380 TCAAATTCGCAACT-CGATTTATGAATTCACAA-CTCGATTT
1 TCAAATTCGCAA-TGCGATTTACAAATTCGCAACCT-GA-TT
*
26420 TCGAATTCGCAA
1 TCAAATTCGCAA
26432 CACGAGTTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
39 4 0.05
40 42 0.55
41 25 0.33
42 5 0.07
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (39 bp):
TCAAATTCGCAATGCGATTTACAAATTCGCAACCTGATT
Found at i:26412 original size:20 final size:20
Alignment explanation
Indices: 26378--26432 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
26368 TAACACTGAA
*
26378 TTTCAAATTCGCAACTCGAT
1 TTTCGAATTCGCAACTCGAT
*
26398 TTAT-GAATTCACAACTCGAT
1 TT-TCGAATTCGCAACTCGAT
26418 TTTCGAATTCGCAAC
1 TTTCGAATTCGCAAC
26433 ACGAGTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.35
Consensus pattern (20 bp):
TTTCGAATTCGCAACTCGAT
Found at i:26459 original size:18 final size:19
Alignment explanation
Indices: 26425--26473 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
26415 GATTTTCGAA
26425 TTCGCAACACGAGTTTTAAT
1 TTCGCAACAC-AGTTTTAAT
*
26445 TTCGCAACA-AGTTTTATT
1 TTCGCAACACAGTTTTAAT
*
26463 TTCGTAACACA
1 TTCGCAACACA
26474 AATATTTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 16 0.62
19 1 0.04
20 9 0.35
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (19 bp):
TTCGCAACACAGTTTTAAT
Found at i:26644 original size:16 final size:16
Alignment explanation
Indices: 26609--26647 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
26599 TCCCCATCTC
*
26609 TAATTTT-TTTTTACA
1 TAATTTTATTTCTACA
*
26624 TAATTTTATTTCTATA
1 TAATTTTATTTCTACA
26640 TAATTTTA
1 TAATTTTA
26648 CAATGATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (16 bp):
TAATTTTATTTCTACA
Found at i:27411 original size:24 final size:24
Alignment explanation
Indices: 27384--27430 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
27374 AGTCAGTATT
27384 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATCTTGGTCAATACC
*
27408 CGAACTTTGATCTTGGTCAATAC
1 CGAAATTTGATCTTGGTCAATAC
27431 TCAGATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAAATTTGATCTTGGTCAATACC
Found at i:27442 original size:24 final size:24
Alignment explanation
Indices: 27389--27435 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
27379 GTATTCGAAA
*
27389 TTTGATCTTGGTCAATACCCGAAC
1 TTTGATCTTGGTCAATACCAGAAC
27413 TTTGATCTTGGTCAATACTCAGA
1 TTTGATCTTGGTCAATAC-CAGA
27436 TTTTGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCAGAAC
Found at i:30142 original size:25 final size:25
Alignment explanation
Indices: 30104--30153 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
30094 AAATCAATTA
*
30104 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
30129 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
30154 GAAAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:31258 original size:64 final size:63
Alignment explanation
Indices: 31172--31332 Score: 191
Period size: 64 Copynumber: 2.5 Consensus size: 63
31162 ATTTTTTAAG
* * *
31172 ATGCATCGATGCACATGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATAGGA-TT
1 ATGCATCGATGCACAAGCAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAAT-GCATTT
31235 T
63 T
* * *
31236 ATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCATTTT
1 ATGCATCGATGCACAAGCAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATGCATTTT
* * *
31300 ATGCACCGATACACAAGTAGTGCATCGATGCAT
1 ATGCATCGATGCACAAGCAGTGCATCGATGCAT
31333 ACATTCATTG
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
63 2 0.02
64 74 0.88
65 7 0.08
66 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (63 bp):
ATGCATCGATGCACAAGCAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATGCATTTT
Found at i:32047 original size:30 final size:30
Alignment explanation
Indices: 32011--32074 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
32001 AAGGAACATA
* *
32011 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
32041 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
32071 TGGA
1 TGGA
32075 CAGGTCCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:33308 original size:64 final size:63
Alignment explanation
Indices: 33222--33382 Score: 191
Period size: 64 Copynumber: 2.5 Consensus size: 63
33212 ATTTTTTAAG
* * *
33222 ATGCATCGATGCACATGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATAGGA-TT
1 ATGCATCGATGCACAAGCAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAAT-GCATTT
33285 T
63 T
* * *
33286 ATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCATTTT
1 ATGCATCGATGCACAAGCAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATGCATTTT
* * *
33350 ATGCACCGATACACAAGTAGTGCATCGATGCAT
1 ATGCATCGATGCACAAGCAGTGCATCGATGCAT
33383 ACATTCATTG
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
63 2 0.02
64 74 0.88
65 7 0.08
66 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (63 bp):
ATGCATCGATGCACAAGCAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATGCATTTT
Found at i:34097 original size:30 final size:30
Alignment explanation
Indices: 34061--34124 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
34051 AAGGAACATA
* *
34061 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
34091 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
34121 TGGA
1 TGGA
34125 CAGGTCCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:35069 original size:24 final size:24
Alignment explanation
Indices: 35018--35070 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
35008 TTTCATATGT
* * *
35018 AATTGGAGTTTGAATTTCAATTTC
1 AATTTGAGTTTGAATTTCAATATA
*
35042 AATTTGAGTTTGAATTTTAATATA
1 AATTTGAGTTTGAATTTCAATATA
35066 AATTT
1 AATTT
35071 CGGCTCCAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTCAATATA
Found at i:36267 original size:18 final size:18
Alignment explanation
Indices: 36232--36267 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36222 AAGTAAAAGG
*
36232 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
*
36250 AAATCAAAATCCCTATCA
1 AAATCAAAATCCCAATCA
36268 CAACTGGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.25, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:36471 original size:29 final size:29
Alignment explanation
Indices: 36438--36494 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
36428 CAGATTTTTT
*
36438 GTTGCGATTGTTGCGAAAGTCAAATTCGC
1 GTTGCGATTGTTGCAAAAGTCAAATTCGC
36467 GTTGCGATTGTTGCAAAAGTCAAATTCG
1 GTTGCGATTGTTGCAAAAGTCAAATTCG
36495 AAATTCGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (29 bp):
GTTGCGATTGTTGCAAAAGTCAAATTCGC
Found at i:47691 original size:16 final size:16
Alignment explanation
Indices: 47654--47685 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
47644 TAGTACTACC
47654 AGTAATATATATATAT
1 AGTAATATATATATAT
47670 AGTAATATATATATAT
1 AGTAATATATATATAT
47686 TATAATGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
AGTAATATATATATAT
Found at i:53923 original size:13 final size:13
Alignment explanation
Indices: 53899--53955 Score: 60
Period size: 13 Copynumber: 4.1 Consensus size: 13
53889 CATCAATGGC
53899 ATTTATTTTAAATT
1 ATTTA-TTTAAATT
*
53913 ATTTATTTAAATC
1 ATTTATTTAAATT
53926 ATTTCATATTCAAATT
1 ATTT-AT-TT-AAATT
*
53942 AATTATTTAAATT
1 ATTTATTTAAATT
53955 A
1 A
53956 AGTTGAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 17 0.46
14 9 0.24
15 4 0.11
16 7 0.19
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTATTTAAATT
Found at i:56356 original size:23 final size:24
Alignment explanation
Indices: 56329--56393 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 24
56319 ACCAAATAAC
*
56329 AAAAAAAACGTGTCATAAAAG-CA
1 AAAAAAAACATGTCATAAAAGACA
* *
56352 GAAAAAAATCATATCAT-AAAGACA
1 -AAAAAAAACATGTCATAAAAGACA
56376 AAAAAAAACATGTCATAA
1 AAAAAAAACATGTCATAA
56394 CGGTAGAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 18 0.53
24 16 0.47
ACGTcount: A:0.63, C:0.12, G:0.09, T:0.15
Consensus pattern (24 bp):
AAAAAAAACATGTCATAAAAGACA
Found at i:57074 original size:24 final size:25
Alignment explanation
Indices: 57033--57082 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
57023 TCTTAATTTA
57033 TTATGAGAAAAAAAATAATCTCTAAC
1 TTATGAG-AAAAAAATAATCTCTAAC
*
57059 TTATGAG-AAAAAATAATCTTTAAC
1 TTATGAGAAAAAAATAATCTCTAAC
57083 ATAGAAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.70
26 7 0.30
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.30
Consensus pattern (25 bp):
TTATGAGAAAAAAATAATCTCTAAC
Found at i:57090 original size:21 final size:23
Alignment explanation
Indices: 57042--57091 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
57032 ATTATGAGAA
57042 AAAAAATAATCTCTAACTTATGAG
1 AAAAAATAATCTCTAAC-TATGAG
*
57066 AAAAAATAATCTTTAAC-AT-AG
1 AAAAAATAATCTCTAACTATGAG
57087 AAAAA
1 AAAAA
57092 CACTTTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 7 0.28
22 2 0.08
24 16 0.64
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.26
Consensus pattern (23 bp):
AAAAAATAATCTCTAACTATGAG
Found at i:59035 original size:14 final size:15
Alignment explanation
Indices: 59016--59044 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
59006 TCAAGCATTT
59016 AACAATCCA-AAACA
1 AACAATCCAGAAACA
59030 AACAATCCAGAAACA
1 AACAATCCAGAAACA
59045 TAAAAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.28, G:0.03, T:0.07
Consensus pattern (15 bp):
AACAATCCAGAAACA
Found at i:59401 original size:21 final size:21
Alignment explanation
Indices: 59377--59420 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
59367 CCAGAGGAAG
*
59377 AGGAGGAGCACGAGAAGAGCT
1 AGGAGCAGCACGAGAAGAGCT
* * *
59398 AGGATCAGCTCGTGAAGAGCT
1 AGGAGCAGCACGAGAAGAGCT
59419 AG
1 AG
59421 CTCCCGGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.16, G:0.39, T:0.11
Consensus pattern (21 bp):
AGGAGCAGCACGAGAAGAGCT
Done.