Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007275.1 Hibiscus syriacus cultivar Beakdansim tig00019289_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: 72477
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2415 original size:19 final size:19
Alignment explanation
Indices: 2391--2432 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
2381 TAAGAGATGA
2391 ACCTCAAAACAGTAGCGTC
1 ACCTCAAAACAGTAGCGTC
2410 ACCTCAAAACAGTAGCGTC
1 ACCTCAAAACAGTAGCGTC
2429 ACCT
1 ACCT
2433 ATAATTGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.33, G:0.14, T:0.17
Consensus pattern (19 bp):
ACCTCAAAACAGTAGCGTC
Found at i:7791 original size:35 final size:35
Alignment explanation
Indices: 7741--7810 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
7731 TCGATCAATA
7741 GATCGGATACAAATGATTAATTCAAAGATATTAGC
1 GATCGGATACAAATGATTAATTCAAAGATATTAGC
*
7776 GATCGGATA-ACAATGATTAATTCAAATATATTAGC
1 GATCGGATACA-AATGATTAATTCAAAGATATTAGC
7811 AAATTGTGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 1 0.03
35 32 0.97
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (35 bp):
GATCGGATACAAATGATTAATTCAAAGATATTAGC
Found at i:9207 original size:57 final size:57
Alignment explanation
Indices: 9136--9329 Score: 265
Period size: 57 Copynumber: 3.5 Consensus size: 57
9126 AGGTTCCAAA
*
9136 ATCGCAACGTGATTTTCAAATTCGCAACGCTAATTACCGATATAAGTAAACAGTACT
1 ATCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGATATAAGTAAACAGTACT
* * * *
9193 ATCGCAACGCGATTTTCAAATTCGTAACGTTAATTACCGATATAGGTAAACAATACT
1 ATCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGATATAAGTAAACAGTACT
* ** *
9250 ATCGCAACGCGATTTTTAAATTCGCAACGCTAATTAAAGATAT-AG---ATAGTACT
1 ATCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGATATAAGTAAACAGTACT
9303 AT--CAACGCGATTTTCAAATTCGCAACG
1 ATCGCAACGCGATTTTCAAATTCGCAACG
9330 AGATTTTCAT
Statistics
Matches: 123, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
51 24 0.20
53 8 0.07
56 1 0.01
57 90 0.73
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (57 bp):
ATCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGATATAAGTAAACAGTACT
Found at i:9334 original size:20 final size:20
Alignment explanation
Indices: 9305--9349 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
9295 ATAGTACTAT
*
9305 CAACGCGATTTTCAAATTCG
1 CAACGAGATTTTCAAATTCG
*
9325 CAACGAGATTTTCATATTCG
1 CAACGAGATTTTCAAATTCG
*
9345 TAACG
1 CAACG
9350 CTAATTACCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (20 bp):
CAACGAGATTTTCAAATTCG
Found at i:9344 original size:71 final size:73
Alignment explanation
Indices: 9251--9403 Score: 184
Period size: 71 Copynumber: 2.1 Consensus size: 73
9241 AACAATACTA
* * * *
9251 TCGCAACGCGATTTTTAAATTCGCAACGCTAATTAAAGATATAG-ATAGTACTAT-CAACGCGAT
1 TCGCAACGAGATTTTCAAATTCGCAACGCTAATTAAAGATATAGAACAGTACTATCCAACGCAAT
9314 TTTCAAAT
66 TTTCAAAT
* * ** *
9322 TCGCAACGAGATTTTCATATTCGTAACGCTAATTACCGATATAGCTAACAGTATTATCGCAACGC
1 TCGCAACGAGATTTTCAAATTCGCAACGCTAATTAAAGATATAG--AACAGTACTATC-CAACGC
9387 AATTTTCAAAT
63 AATTTTCAAAT
9398 TCGCAA
1 TCGCAA
9404 TACTAATTAC
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
71 38 0.56
74 8 0.12
76 22 0.32
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (73 bp):
TCGCAACGAGATTTTCAAATTCGCAACGCTAATTAAAGATATAGAACAGTACTATCCAACGCAAT
TTTCAAAT
Found at i:9420 original size:34 final size:34
Alignment explanation
Indices: 9382--9450 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
9372 GTATTATCGC
9382 AACGCAATTTTCAAATTCGCAATACTAATTACCG
1 AACGCAATTTTCAAATTCGCAATACTAATTACCG
*
9416 AACGCAATTTTCAAATTCGCAATGCTAATTACCG
1 AACGCAATTTTCAAATTCGCAATACTAATTACCG
9450 A
1 A
9451 TATAGGTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (34 bp):
AACGCAATTTTCAAATTCGCAATACTAATTACCG
Found at i:9485 original size:57 final size:57
Alignment explanation
Indices: 9416--9541 Score: 189
Period size: 57 Copynumber: 2.2 Consensus size: 57
9406 CTAATTACCG
* * * ** *
9416 AACGCAATTTTCAAATTCGCAATGCTAATTACCGATATAGGTAAATAGTACTATGGC
1 AACGCGATTTTCAAATTCGCAATGATAATTACCGATATAGGTAAACACAACTATCGC
9473 AACGCGATTTTCAAATTCGCAATGATAATTACCGATATAGGTAAACACAACTATCGC
1 AACGCGATTTTCAAATTCGCAATGATAATTACCGATATAGGTAAACACAACTATCGC
*
9530 AACGCGAATTTC
1 AACGCGATTTTC
9542 GCAAATCGAA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 62 1.00
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (57 bp):
AACGCGATTTTCAAATTCGCAATGATAATTACCGATATAGGTAAACACAACTATCGC
Found at i:9502 original size:91 final size:90
Alignment explanation
Indices: 9332--9507 Score: 255
Period size: 91 Copynumber: 1.9 Consensus size: 90
9322 TCGCAACGAG
* * *
9332 ATTTTCATATTCGTAACGCTAATTACCGATATAGCTAACAGTATTATCGCAACGCAATTTTCAAA
1 ATTTTCAAATTCGCAACGCTAATTACCGATATAGCTAACAGTACTATCGCAACGCAATTTTCAAA
9397 TTCGCAATACTAATTACCGAACGCA
66 TTCGCAATACTAATTACCGAACGCA
* * * * *
9422 ATTTTCAAATTCGCAATGCTAATTACCGATATAGGTAAATAGTACTATGGCAACGCGATTTTCAA
1 ATTTTCAAATTCGCAACGCTAATTACCGATATAGCT-AACAGTACTATCGCAACGCAATTTTCAA
9487 ATTCGCAATGA-TAATTACCGA
65 ATTCGCAAT-ACTAATTACCGA
9508 TATAGGTAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
90 32 0.42
91 43 0.57
92 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (90 bp):
ATTTTCAAATTCGCAACGCTAATTACCGATATAGCTAACAGTACTATCGCAACGCAATTTTCAAA
TTCGCAATACTAATTACCGAACGCA
Found at i:9669 original size:57 final size:56
Alignment explanation
Indices: 9561--9669 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 56
9551 ATTCGCCAAT
* * * *
9561 TTCGCAACTTAATTACCGACATAGGTAAACAGTACTATCGCAACGCGATTTTCAAA
1 TTCGCAACCTAATTACCGACATAGGTAAACAATACTATCGCAACACAATTTTCAAA
* *
9617 TTCGCAACGCTAATTACCGATATAGGTAAACAATACTATCGCAACATAATTTT
1 TTCGCAAC-CTAATTACCGACATAGGTAAACAATACTATCGCAACACAATTTT
9670 GGAAACTATG
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
56 8 0.17
57 38 0.83
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (56 bp):
TTCGCAACCTAATTACCGACATAGGTAAACAATACTATCGCAACACAATTTTCAAA
Found at i:31349 original size:17 final size:17
Alignment explanation
Indices: 31327--31360 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
31317 CTAAAGTAGG
31327 GAAGATCAACAGGCAAT
1 GAAGATCAACAGGCAAT
*
31344 GAAGATCAACATGCAAT
1 GAAGATCAACAGGCAAT
31361 CTACAGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (17 bp):
GAAGATCAACAGGCAAT
Found at i:39819 original size:18 final size:18
Alignment explanation
Indices: 39793--39828 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
39783 TCGAAAGGAC
*
39793 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
39811 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
39829 CGGATGGAAG
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:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:41051 original size:24 final size:24
Alignment explanation
Indices: 40955--41063 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
40945 GAATATTTTA
* *
40955 TCTGATTTCTGATTTGAATTATGT
1 TCTGATATCTGATCTGAATTATGT
* * * *
40979 TTTGACATCTGATCTGAAATCTGT
1 TCTGATATCTGATCTGAATTATGT
* * * *
41003 TCTGAT-TCCTAACCTGGATTCTGT
1 TCTGATAT-CTGATCTGAATTATGT
41027 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTATGT
* *
41051 TTTGATTTCTGAT
1 TCTGATATCTGAT
41064 ATCTCTGTTT
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 63 0.97
25 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTATGT
Found at i:41231 original size:2 final size:2
Alignment explanation
Indices: 41224--41248 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
41214 CGGATGGGGG
41224 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 T
41249 GTTTTAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47280 original size:23 final size:23
Alignment explanation
Indices: 47254--47322 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
47244 CACCACAGCT
*
47254 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
47277 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
* *
47300 CGTAGAATTGCACTGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
47323 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:51329 original size:42 final size:42
Alignment explanation
Indices: 51282--51433 Score: 123
Period size: 42 Copynumber: 3.6 Consensus size: 42
51272 AGGTTAAACA
51282 ATAGCGGCGTTTATAGTAAAAACGCCGCAATATAGTAGATAT
1 ATAGCGGCGTTTATAGTAAAAACGCCGCAATATAGTAGATAT
* * * *
51324 GTAGCGGCGTTT-TAGCT-AAAATGCCGCAATATATTTA-ACAT
1 ATAGCGGCGTTTATAG-TAAAAACGCCGCAATATA-GTAGATAT
* * ** * * *
51365 TTAGCGTCGTTTATACCAAAAATGCCGCAATAGAGTAG-TAAA
1 ATAGCGGCGTTTATAGTAAAAACGCCGCAATATAGTAGAT-AT
* * *
51407 ATAGCGGCGTTTTTTGTATAAACGCCG
1 ATAGCGGCGTTTATAGTAAAAACGCCG
51434 TAAAAAACAT
Statistics
Matches: 84, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
41 33 0.39
42 51 0.61
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (42 bp):
ATAGCGGCGTTTATAGTAAAAACGCCGCAATATAGTAGATAT
Found at i:51370 original size:41 final size:42
Alignment explanation
Indices: 51283--51402 Score: 129
Period size: 41 Copynumber: 2.9 Consensus size: 42
51273 GGTTAAACAA
* *
51283 TAGCGGCGTTTATAG-TAAAAACGCCGCAATATAGTAGATATG
1 TAGCGGCGTTTATAGCT-AAAATGCCGCAATATAGTAGACATG
* *
51325 TAGCGGCGTTT-TAGCTAAAATGCCGCAATATATTTA-ACATT
1 TAGCGGCGTTTATAGCTAAAATGCCGCAATATA-GTAGACATG
* * * *
51366 TAGCGTCGTTTATACCAAAAATGCCGCAATAGAGTAG
1 TAGCGGCGTTTATAGCTAAAATGCCGCAATATAGTAG
51403 TAAAATAGCG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 33 0.51
42 32 0.49
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (42 bp):
TAGCGGCGTTTATAGCTAAAATGCCGCAATATAGTAGACATG
Found at i:52299 original size:24 final size:24
Alignment explanation
Indices: 52272--52322 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
52262 TATACTGTAG
52272 GTGGAGGGTCGTTATCTGTTTCAA
1 GTGGAGGGTCGTTATCTGTTTCAA
52296 GTGGAGGGTCGTTATCTGTTTCAA
1 GTGGAGGGTCGTTATCTGTTTCAA
52320 GTG
1 GTG
52323 AAGCACTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.16, C:0.12, G:0.35, T:0.37
Consensus pattern (24 bp):
GTGGAGGGTCGTTATCTGTTTCAA
Found at i:52659 original size:51 final size:52
Alignment explanation
Indices: 52516--52673 Score: 282
Period size: 52 Copynumber: 3.1 Consensus size: 52
52506 TACTGAACAA
52516 TATGGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
1 TATGGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
*
52568 TATGTTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
1 TATGGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
* *
52620 TATGGTGAAGACTG-TTATGTATAAGTATTTTAATGTTTCTAAATTATAATG
1 TATGGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
52671 TAT
1 TAT
52674 TTTATTGTTA
Statistics
Matches: 102, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 38 0.37
52 64 0.63
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.44
Consensus pattern (52 bp):
TATGGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
Found at i:52998 original size:43 final size:42
Alignment explanation
Indices: 52941--53021 Score: 112
Period size: 41 Copynumber: 1.9 Consensus size: 42
52931 TCGCGTTCTT
*
52941 ATAACAAACGCCGCAAAATATTTGTATT-TTATTGGCGTTTTTAA
1 ATAACAAACGCCGCAAAA-A-TTGT-TTATTAATGGCGTTTTTAA
52985 ATAA-AAACGCCGCAAAAATTGTTTATTAATGGCGTTT
1 ATAACAAACGCCGCAAAAATTGTTTATTAATGGCGTTT
53022 ATAACAATCG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
40 2 0.06
41 15 0.43
42 1 0.03
43 13 0.37
44 4 0.11
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (42 bp):
ATAACAAACGCCGCAAAAATTGTTTATTAATGGCGTTTTTAA
Found at i:56647 original size:39 final size:40
Alignment explanation
Indices: 56579--56668 Score: 155
Period size: 39 Copynumber: 2.3 Consensus size: 40
56569 GAGAAGAAGT
*
56579 GTGTTTAAGTATGTGTTTTTTAAAATGATAAATGGGAGAA
1 GTGTTAAAGTATGTGTTTTTTAAAATGATAAATGGGAGAA
*
56619 GTGTTAAAGTGTGTG-TTTTTAAAATGATAAATGGGAGAA
1 GTGTTAAAGTATGTGTTTTTTAAAATGATAAATGGGAGAA
56658 GTGTTAAAGTA
1 GTGTTAAAGTA
56669 AGGGGGAGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 34 0.72
40 13 0.28
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.38
Consensus pattern (40 bp):
GTGTTAAAGTATGTGTTTTTTAAAATGATAAATGGGAGAA
Found at i:59386 original size:21 final size:21
Alignment explanation
Indices: 59362--59420 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
59352 TGATTTATTA
**
59362 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
59383 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
59404 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
59421 ATTGGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.05, G:0.20, T:0.56
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:59618 original size:43 final size:43
Alignment explanation
Indices: 59532--59644 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
59522 GAGGTAATTA
* *
59532 GCGGCGTTTGTATCT-TAAAACGCCGCTATAGATATGATATTTT
1 GCGGCGTTTGT-TCTAAAAAACGCCGCTATAGACATGATATTTT
* *
59575 GCGGCGTTTGTTCTAAAAAACGCCGCTATATACCA-GATCTTTT
1 GCGGCGTTTGTTCTAAAAAACGCCGCTATAGA-CATGATATTTT
* *
59618 GCGGTGTTTG-T-GAGAAAAACGCCGCTA
1 GCGGCGTTTGTTCTA-AAAAACGCCGCTA
59645 AATCTGAAGA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
41 1 0.02
42 17 0.28
43 42 0.69
44 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (43 bp):
GCGGCGTTTGTTCTAAAAAACGCCGCTATAGACATGATATTTT
Found at i:59663 original size:43 final size:43
Alignment explanation
Indices: 59573--59798 Score: 231
Period size: 43 Copynumber: 5.3 Consensus size: 43
59563 ATATGATATT
** * * * * *
59573 TTGCGGCGTTTGTTCTAAAAAACGCCGCTATATA-CCAGATCTT
1 TTGCGGCGTTTGTT-GGAAAAACGCCGCTAAATATCAACACCTA
* * * *
59616 TTGCGGTGTTTG-TGAGAAAAACGCCGCTAAATCTGAAGACCTA
1 TTGCGGCGTTTGTTG-GAAAAACGCCGCTAAATATCAACACCTA
* *
59659 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATATTAACACCTA
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
* * *
59702 TTGCGACGTTTGTTGGAAAAATGCCGCCAAATATCAACACCTA
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
* * ***
59745 TTGCGGCGTTTGTTGGACAAACGCCGCTATATATCGTTACCTA
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
59788 TTGCGGCGTTT
1 TTGCGGCGTTT
59799 TTTGTTACCA
Statistics
Matches: 153, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
42 16 0.10
43 136 0.89
44 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (43 bp):
TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
Found at i:70116 original size:21 final size:20
Alignment explanation
Indices: 70086--70126 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
70076 TTAGGCTATT
*
70086 TTGTAAGGGTAGTATCGATA
1 TTGTAAGGGTAGTACCGATA
70106 TTGTAGAGGGTAGTACCGATA
1 TTGTA-AGGGTAGTACCGATA
70127 CTAATTAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.29, C:0.07, G:0.32, T:0.32
Consensus pattern (20 bp):
TTGTAAGGGTAGTACCGATA
Done.