Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003394.1 Hibiscus syriacus cultivar Beakdansim tig00007140_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: 51327
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:4266 original size:19 final size:20
Alignment explanation
Indices: 4242--4291 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
4232 AATGACCAAT
* *
4242 AAATTCGCAACGCGATCT-C
1 AAATTCGCAACACGAACTCC
4261 AAATTCGCAACACGAACTCC
1 AAATTCGCAACACGAACTCC
*
4281 AATTTCGCAAC
1 AAATTCGCAAC
4292 TCAGTTTCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.36, C:0.32, G:0.12, T:0.20
Consensus pattern (20 bp):
AAATTCGCAACACGAACTCC
Found at i:4328 original size:20 final size:20
Alignment explanation
Indices: 4304--4351 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
4294 AGTTTCCAAT
4304 TTCGCAACGCGAATCTGTCAA
1 TTCGCAACGCGAATCTGT-AA
* *
4325 -TCGCAACGTGAATTTGTAA
1 TTCGCAACGCGAATCTGTAA
4344 TTCGCAAC
1 TTCGCAAC
4352 ACAGAAGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (20 bp):
TTCGCAACGCGAATCTGTAA
Found at i:6498 original size:42 final size:42
Alignment explanation
Indices: 6451--6547 Score: 194
Period size: 42 Copynumber: 2.3 Consensus size: 42
6441 CACCTCACCC
6451 AGAGCCATCACCTGATCGAGTCGATTATACACCTCCACAACG
1 AGAGCCATCACCTGATCGAGTCGATTATACACCTCCACAACG
6493 AGAGCCATCACCTGATCGAGTCGATTATACACCTCCACAACG
1 AGAGCCATCACCTGATCGAGTCGATTATACACCTCCACAACG
6535 AGAGCCATCACCT
1 AGAGCCATCACCT
6548 ATTCTGTCAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.31, C:0.34, G:0.16, T:0.19
Consensus pattern (42 bp):
AGAGCCATCACCTGATCGAGTCGATTATACACCTCCACAACG
Found at i:6752 original size:21 final size:21
Alignment explanation
Indices: 6728--6802 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 21
6718 TGATGCATGG
*
6728 CGTGATGAGGTACGGTCTTTA
1 CGTGATGAGGTAAGGTCTTTA
* *
6749 CGTGGTAAGGTAGAGGT-TTTA
1 CGTGATGAGGTA-AGGTCTTTA
* *
6770 CGCGATGA--CAATGGTGCTTTA
1 CGTGATGAGGTAA-GGT-CTTTA
6791 CGTGATGAGGTA
1 CGTGATGAGGTA
6803 GTCGCTCTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
18 1 0.03
19 4 0.10
21 30 0.77
22 3 0.08
23 1 0.03
ACGTcount: A:0.23, C:0.12, G:0.35, T:0.31
Consensus pattern (21 bp):
CGTGATGAGGTAAGGTCTTTA
Found at i:7115 original size:18 final size:19
Alignment explanation
Indices: 7092--7129 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
7082 AAGCCTCTCC
7092 TATCA-TTCAAGAGACCCT
1 TATCACTTCAAGAGACCCT
7110 TATCATCCTTCAAGAGACCC
1 TATCA--CTTCAAGAGACCC
7130 CTCCCACCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
21 12 0.71
ACGTcount: A:0.32, C:0.32, G:0.11, T:0.26
Consensus pattern (19 bp):
TATCACTTCAAGAGACCCT
Found at i:7121 original size:21 final size:21
Alignment explanation
Indices: 7097--7167 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
7087 TCTCCTATCA
*
7097 TTCAAGAGACCCTTATCATCC
1 TTCAAGAGACCCCTATCATCC
**
7118 TTCAAGAGACCCCTCCCA-CC
1 TTCAAGAGACCCCTATCATCC
* *
7138 GTTCAAGAGACCCCTGTCATCG
1 -TTCAAGAGACCCCTATCATCC
7160 TTCAAGAG
1 TTCAAGAG
7168 TTCTCTCCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
20 2 0.05
21 39 0.93
22 1 0.02
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (21 bp):
TTCAAGAGACCCCTATCATCC
Found at i:7167 original size:42 final size:42
Alignment explanation
Indices: 7066--7188 Score: 140
Period size: 42 Copynumber: 2.9 Consensus size: 42
7056 GCCCAATTCA
* * *
7066 CCTGTCATCGTTCAAGA-AGCCTCTCCTATCATTCAAGAGACC
1 CCTGTCATCGTTCAAGAGA-CCTCTCCCACCGTTCAAGAGACC
* * * *
7108 CTTATCATCCTTCAAGAGACCCCTCCCACCGTTCAAGAGACC
1 CCTGTCATCGTTCAAGAGACCTCTCCCACCGTTCAAGAGACC
** *
7150 CCTGTCATCGTTCAAGAGTTCTCTCCCACCGTTCGAGAG
1 CCTGTCATCGTTCAAGAGACCTCTCCCACCGTTCAAGAG
7189 CCTGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 65 0.98
43 1 0.02
ACGTcount: A:0.24, C:0.36, G:0.15, T:0.25
Consensus pattern (42 bp):
CCTGTCATCGTTCAAGAGACCTCTCCCACCGTTCAAGAGACC
Found at i:7182 original size:21 final size:21
Alignment explanation
Indices: 7118--7188 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
7108 CTTATCATCC
7118 TTCAAGAGACCCCTCCCACCG
1 TTCAAGAGACCCCTCCCACCG
** *
7139 TTCAAGAGACCCCTGTCATCG
1 TTCAAGAGACCCCTCCCACCG
** *
7160 TTCAAGAGTTCTCTCCCACCG
1 TTCAAGAGACCCCTCCCACCG
*
7181 TTCGAGAG
1 TTCAAGAG
7189 CCTGATTCAC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (21 bp):
TTCAAGAGACCCCTCCCACCG
Found at i:8554 original size:13 final size:13
Alignment explanation
Indices: 8536--8561 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8526 TATTTTTTGC
8536 TTGTTTAATTGAT
1 TTGTTTAATTGAT
8549 TTGTTTAATTGAT
1 TTGTTTAATTGAT
8562 GTGTAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (13 bp):
TTGTTTAATTGAT
Found at i:8556 original size:50 final size:50
Alignment explanation
Indices: 8494--8598 Score: 156
Period size: 50 Copynumber: 2.1 Consensus size: 50
8484 TTTGTAAAAG
8494 TTGATTTATTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAA
1 TTGATTTATTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAA
* * * ***
8544 TTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTTTTGCTTGTTTAA
1 TTGATTTATTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAA
8594 TTGAT
1 TTGAT
8599 CTGTAAAAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.28, C:0.03, G:0.15, T:0.54
Consensus pattern (50 bp):
TTGATTTATTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAA
Found at i:8939 original size:16 final size:16
Alignment explanation
Indices: 8917--8956 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
8907 AAAATCATTG
*
8917 AAAAATTATATAGAAA
1 AAAAATTATATAAAAA
* *
8933 TAAAATTATGTAAAAA
1 AAAAATTATATAAAAA
8949 AAAAATTA
1 AAAAATTA
8957 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (16 bp):
AAAAATTATATAAAAA
Found at i:9137 original size:20 final size:18
Alignment explanation
Indices: 9093--9140 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
9083 CAAAACATTT
9093 GTGTTGCGAAAATAAAAC
1 GTGTTGCGAAAATAAAAC
* *
9111 ATGTTGCGAAATTAAAATTC
1 GTGTTGCGAAAATAAAA--C
9131 GTGTTGCGAA
1 GTGTTGCGAA
9141 TTCAGAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.60
20 10 0.40
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (18 bp):
GTGTTGCGAAAATAAAAC
Found at i:9183 original size:20 final size:20
Alignment explanation
Indices: 9133--9188 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
9123 TAAAATTCGT
**
9133 GTTGCGAATTCAGAAATCGC
1 GTTGCGAATTTGGAAATCGC
9153 GTTGCGAATTTGGAAATCGC
1 GTTGCGAATTTGGAAATCGC
9173 GTTGCGAATTTGGAAA
1 GTTGCGAATTTGGAAA
9189 ATCAAAACGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (20 bp):
GTTGCGAATTTGGAAATCGC
Found at i:14073 original size:23 final size:22
Alignment explanation
Indices: 14047--14089 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
14037 TATAAAAAAT
14047 TATTTTTTATTAAATATTTTTGG
1 TATTTTTTATTAAAT-TTTTTGG
*
14070 TATTTTTTATTTAATTTTTT
1 TATTTTTTATTAAATTTTTT
14090 AAATAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (22 bp):
TATTTTTTATTAAATTTTTTGG
Found at i:20514 original size:47 final size:48
Alignment explanation
Indices: 20432--20541 Score: 177
Period size: 47 Copynumber: 2.3 Consensus size: 48
20422 GGAAAGTGGT
* *
20432 CCTCTATGTTCATGCATCCATTGTTTGTTTTTTTACACAGTTTGGGTC
1 CCTCCATGTGCATGCATCCATTGTTTGTTTTTTTACACAGTTTGGGTC
* *
20480 CCTCCATGTGCATGCATCTATTGTTTG-TTTTTTACACCGTTTGGGTC
1 CCTCCATGTGCATGCATCCATTGTTTGTTTTTTTACACAGTTTGGGTC
20527 CCTCCATGTGCATGC
1 CCTCCATGTGCATGC
20542 TAACATTCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 34 0.59
48 24 0.41
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (48 bp):
CCTCCATGTGCATGCATCCATTGTTTGTTTTTTTACACAGTTTGGGTC
Found at i:32261 original size:18 final size:18
Alignment explanation
Indices: 32235--32327 Score: 93
Period size: 18 Copynumber: 5.3 Consensus size: 18
32225 AATTCTAAAT
32235 ATTTATAGTTATCAGATG
1 ATTTATAGTTATCAGATG
*
32253 ATTTTTAGTTATC--ATG
1 ATTTATAGTTATCAGATG
* *
32269 TATTTACAGTTATCAAATG
1 -ATTTATAGTTATCAGATG
* *
32288 ATTTTTAGTTCTCAGATG
1 ATTTATAGTTATCAGATG
*
32306 -TTTACAGTTATCAGATG
1 ATTTATAGTTATCAGATG
*
32323 TTTTA
1 ATTTA
32328 CAATTATCAA
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
16 3 0.05
17 25 0.41
18 30 0.49
19 3 0.05
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (18 bp):
ATTTATAGTTATCAGATG
Found at i:32273 original size:35 final size:35
Alignment explanation
Indices: 32233--32326 Score: 129
Period size: 35 Copynumber: 2.7 Consensus size: 35
32223 CGAATTCTAA
*
32233 ATATTTATAGTTATCAGATGATTTTTAGTTATCATG
1 ATATTTACAGTTATCAGATGATTTTTAGTTATCA-G
* *
32269 -TATTTACAGTTATCAAATGATTTTTAGTTCTCAG
1 ATATTTACAGTTATCAGATGATTTTTAGTTATCAG
*
32303 ATGTTTACAGTTATCAGATG-TTTT
1 ATATTTACAGTTATCAGATGATTTT
32327 ACAATTATCA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
34 5 0.10
35 47 0.90
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.49
Consensus pattern (35 bp):
ATATTTACAGTTATCAGATGATTTTTAGTTATCAG
Found at i:32303 original size:53 final size:51
Alignment explanation
Indices: 32231--32338 Score: 128
Period size: 53 Copynumber: 2.1 Consensus size: 51
32221 GACGAATTCT
** *
32231 AAATATTTATAGTTATCAGATGATTTTTAGTTATC-ATGTATTTACAGTTATC
1 AAATATTTATAGTTATCAGATG-TTTACAGTTATCAATGT-TTTACAATTATC
* *
32283 AAATGATTTTTAGTTCTCAGATGTTTACAGTTATCAGATGTTTTACAATTATC
1 AAAT-ATTTATAGTTATCAGATGTTTACAGTTATCA-ATGTTTTACAATTATC
32336 AAA
1 AAA
32339 CGTAGATTAG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
52 14 0.29
53 30 0.62
54 4 0.08
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.45
Consensus pattern (51 bp):
AAATATTTATAGTTATCAGATGTTTACAGTTATCAATGTTTTACAATTATC
Found at i:35152 original size:21 final size:21
Alignment explanation
Indices: 35126--35166 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
35116 AGCTCACCAA
35126 CTTCTATTAACAGACTAACCT
1 CTTCTATTAACAGACTAACCT
35147 CTTCTATTAACAGACTAACC
1 CTTCTATTAACAGACTAACC
35167 ACCTAGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (21 bp):
CTTCTATTAACAGACTAACCT
Found at i:35439 original size:71 final size:71
Alignment explanation
Indices: 35323--35466 Score: 236
Period size: 71 Copynumber: 2.0 Consensus size: 71
35313 AGATGAACAA
* *
35323 TTGAATCGAAAGTGCGGATGCTTCCTTCAGTTCACTTGAATCGAAAGTGTCGATGCTTCATTTTG
1 TTGAATCGAAAGTGCGGATGCTTCCTTCAGTTCACTTGAATCGAAAGTGCCGATGCTTCATTTCG
35388 TTCTTC
66 TTCTTC
* *
35394 TTGAATCGAAAGTGTC-GATGCTTCCTTCCGTTCACTTGAATCGAAAGTGCCGATGCTTCCTTTC
1 TTGAATCGAAAGTG-CGGATGCTTCCTTCAGTTCACTTGAATCGAAAGTGCCGATGCTTCATTTC
35458 GTTCTTC
65 GTTCTTC
35465 TT
1 TT
35467 ATTCGCCTTC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
71 67 0.99
72 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.38
Consensus pattern (71 bp):
TTGAATCGAAAGTGCGGATGCTTCCTTCAGTTCACTTGAATCGAAAGTGCCGATGCTTCATTTCG
TTCTTC
Found at i:35461 original size:35 final size:35
Alignment explanation
Indices: 35323--35461 Score: 190
Period size: 35 Copynumber: 3.9 Consensus size: 35
35313 AGATGAACAA
*
35323 TTGAATCGAAAGTGCGGATGCTTCC-TTCAGTTCAC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTC-GTTCAC
* * * *
35358 TTGAATCGAAAGTGTCGATGCTTCATTTTGTTCTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC-AC
* *
35394 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCAC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCAC
35429 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC
35462 TTCTTATTCG
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
35 58 0.64
36 33 0.36
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (35 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCAC
Found at i:36593 original size:21 final size:21
Alignment explanation
Indices: 36567--36607 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
36557 AGCTCACCAA
36567 CTTCTATTAACAGACTAACCT
1 CTTCTATTAACAGACTAACCT
36588 CTTCTATTAACAGACTAACC
1 CTTCTATTAACAGACTAACC
36608 ACCTAGCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (21 bp):
CTTCTATTAACAGACTAACCT
Found at i:37891 original size:66 final size:66
Alignment explanation
Indices: 37710--37899 Score: 188
Period size: 66 Copynumber: 2.9 Consensus size: 66
37700 TACATTTTAG
* * * * ***
37710 GCTCGAATTTCAAGA-TTAGGGATATTCTCCGTTACGTTTCAATCTCTATTCAGACCTATATTTT
1 GCTCGAATTTCAAGATTTAGGGATATTCT-CGTTACGTTTCAACCTCAATTCGGACATATAGCGT
37774 AA
65 AA
* * * * * *
37776 GCTCGATTTTCAAGATTT-GGGGTATTCTTCATTACATATCAACCCCAATTCGGACATATAAGCG
1 GCTCGAATTTCAAGATTTAGGGATATTC-TCGTTACGTTTCAACCTCAATTCGGACATAT-AGCG
37840 T-A
64 TAA
* * *
37842 GCTCGAATTTCAAGATTTAGGGATACTCTCGCTACGTTTCGACCTCAATTCGGACATA
1 GCTCGAATTTCAAGATTTAGGGATATTCTCGTTACGTTTCAACCTCAATTCGGACATA
37900 CTTTAATCGT
Statistics
Matches: 98, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
66 86 0.88
67 12 0.12
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (66 bp):
GCTCGAATTTCAAGATTTAGGGATATTCTCGTTACGTTTCAACCTCAATTCGGACATATAGCGTA
A
Found at i:42558 original size:12 final size:12
Alignment explanation
Indices: 42537--42576 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
42527 AGTATCTAAC
*
42537 AATAACAAAATT
1 AATAACAAAAAT
*
42549 AATAAAAAAAAT
1 AATAACAAAAAT
*
42561 AATAACAAAACT
1 AATAACAAAAAT
42573 AATA
1 AATA
42577 TTATATTGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.20
Consensus pattern (12 bp):
AATAACAAAAAT
Found at i:43768 original size:2 final size:2
Alignment explanation
Indices: 43761--43824 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
43751 GAACAAATTA
43761 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
43803 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
43825 GTGTGTGTGT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44537 original size:3 final size:3
Alignment explanation
Indices: 44529--44570 Score: 57
Period size: 3 Copynumber: 13.3 Consensus size: 3
44519 GAGTTTATAC
*
44529 ATT ATT ATT ATT ATT ATT ATTT ATCT AAT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A-TT AT-T ATT ATT ATT ATT ATT A
44571 ATTTTTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 30 0.86
4 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Done.