Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016353.1 Corchorus olitorius cultivar O-4 contig16386, 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: 130359
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:5002 original size:23 final size:25
Alignment explanation
Indices: 4976--5023 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
4966 TGTTATCGCT
* *
4976 TAATTTATTG-AATA-AAGATAAAA
1 TAATATATTGCAATATAAGAAAAAA
4999 TAATATATTGCAATATAAGAAAAAA
1 TAATATATTGCAATATAAGAAAAAA
5024 CCATCATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 4 0.19
25 8 0.38
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.31
Consensus pattern (25 bp):
TAATATATTGCAATATAAGAAAAAA
Found at i:21200 original size:31 final size:31
Alignment explanation
Indices: 21162--21235 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
21152 CTAAAGGTTT
21162 AAATAAGGGCCTAAACTATCATAAAAATCTC
1 AAATAAGGGCCTAAACTATCATAAAAATCTC
* *
21193 AAATAAGGGCTTGAACTATCATAAAAATCTC
1 AAATAAGGGCCTAAACTATCATAAAAATCTC
21224 AAATAAGGGCCT
1 AAATAAGGGCCT
21236 CAAAACACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.23
Consensus pattern (31 bp):
AAATAAGGGCCTAAACTATCATAAAAATCTC
Found at i:21679 original size:8 final size:8
Alignment explanation
Indices: 21661--21717 Score: 55
Period size: 8 Copynumber: 7.1 Consensus size: 8
21651 ATATGATCAC
21661 ATTATATT
1 ATTATATT
21669 ATTAT-TAT
1 ATTATAT-T
*
21677 ATTAAATT
1 ATTATATT
21685 ATTATATT
1 ATTATATT
*
21693 A-AATTATT
1 ATTA-TATT
*
21701 AATATATT
1 ATTATATT
21709 ATTATATT
1 ATTATATT
21717 A
1 A
21718 ATTCTATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
7 2 0.05
8 36 0.90
9 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
ATTATATT
Found at i:21680 original size:16 final size:16
Alignment explanation
Indices: 21661--21710 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
21651 ATATGATCAC
21661 ATTATATTATTATTAT
1 ATTATATTATTATTAT
21677 ATTA-A--ATTATTAT
1 ATTATATTATTATTAT
* *
21690 ATTAAATTATTAATAT
1 ATTATATTATTATTAT
21706 ATTAT
1 ATTAT
21711 TATATTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 12 0.41
14 1 0.03
15 1 0.03
16 15 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATATTATTATTAT
Found at i:22812 original size:13 final size:13
Alignment explanation
Indices: 22794--22819 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22784 GAAAATCCAT
22794 AAGTGTTTTTCAG
1 AAGTGTTTTTCAG
22807 AAGTGTTTTTCAG
1 AAGTGTTTTTCAG
22820 TTGTTTTTGA
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:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
AAGTGTTTTTCAG
Found at i:25791 original size:21 final size:23
Alignment explanation
Indices: 25744--25791 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
25734 AGATACTTAT
*
25744 ATTTA-TACTTGAATTAAATAAC
1 ATTTATTACTTGAAATAAATAAC
25766 A-TTATTA-TTGAAATAAA-AAC
1 ATTTATTACTTGAAATAAATAAC
25786 ATTTAT
1 ATTTAT
25792 AAATTCCCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 16 0.70
22 3 0.13
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (23 bp):
ATTTATTACTTGAAATAAATAAC
Found at i:31246 original size:21 final size:19
Alignment explanation
Indices: 31221--31276 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
31211 GCTGCTCTAA
31221 TAATCTCATCTGTACAGTACC
1 TAATCTCATCTGTACAGT--C
* *
31242 TAATCTAATCTGTACAGTG
1 TAATCTCATCTGTACAGTC
31261 TAATCTCATCTGTACA
1 TAATCTCATCTGTACA
31277 ATTGCTAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 15 0.47
21 17 0.53
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (19 bp):
TAATCTCATCTGTACAGTC
Found at i:36693 original size:17 final size:17
Alignment explanation
Indices: 36671--36706 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
36661 TTTCAGCTTA
36671 AGCAGGTCTTAGATTCG
1 AGCAGGTCTTAGATTCG
36688 AGCAGGTCTTAGATTCG
1 AGCAGGTCTTAGATTCG
36705 AG
1 AG
36707 ATCTTGTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.28
Consensus pattern (17 bp):
AGCAGGTCTTAGATTCG
Found at i:48631 original size:17 final size:16
Alignment explanation
Indices: 48609--48649 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
48599 TTGCAACTAT
48609 AAGGAACTCAAAAAAAA
1 AAGGAACT-AAAAAAAA
48626 AAGGAA--AAAAAAAA
1 AAGGAACTAAAAAAAA
*
48640 AAGAAACTAA
1 AAGGAACTAA
48650 CAGGAAGGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
14 13 0.62
16 2 0.10
17 6 0.29
ACGTcount: A:0.76, C:0.07, G:0.12, T:0.05
Consensus pattern (16 bp):
AAGGAACTAAAAAAAA
Found at i:52847 original size:46 final size:46
Alignment explanation
Indices: 52794--52886 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
52784 ATCTAGTAAG
* * *
52794 CTACCAGCAAAACATATAACAAATTTGTTAAACCTGATAGGATAAA
1 CTACCAGCAAAAAATATAACAAATATGTTAAACCTAATAGGATAAA
52840 CTACCAGCAAAAAATATAACAAATATGTTAAACCTAATAGGATAAA
1 CTACCAGCAAAAAATATAACAAATATGTTAAACCTAATAGGATAAA
52886 C
1 C
52887 ATGTATTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.51, C:0.17, G:0.10, T:0.23
Consensus pattern (46 bp):
CTACCAGCAAAAAATATAACAAATATGTTAAACCTAATAGGATAAA
Found at i:60174 original size:4 final size:4
Alignment explanation
Indices: 60165--60200 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
60155 AAAAGATGCT
60165 TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA
60201 AAAATTCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:60714 original size:2 final size:2
Alignment explanation
Indices: 60709--60764 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
60699 TTTTTTTTAA
*
60709 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TA TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
60751 TC TC TA TC TC TC TC
1 TC TC TC TC TC TC TC
60765 CGGGCTATGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.04, C:0.46, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:61758 original size:2 final size:2
Alignment explanation
Indices: 61751--61822 Score: 92
Period size: 2 Copynumber: 36.0 Consensus size: 2
61741 TTTATCTATC
* * *
61751 TA TA TA TA TA TA TA TC TA TA TC TA TA TA TA TA TA TA TA -A GTT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
*
61793 TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61823 AGTTTATTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:61811 original size:34 final size:34
Alignment explanation
Indices: 61759--61829 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
61749 TCTATATATA
** *
61759 TATATATCTATATCTATATATATATATATAAGTT
1 TATATATAGATATATATATATATATATATAAGTT
61793 TATATATAGATATATATATATATATATATAAGTT
1 TATATATAGATATATATATATATATATATAAGTT
61827 TAT
1 TAT
61830 TTTCTTGTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (34 bp):
TATATATAGATATATATATATATATATATAAGTT
Found at i:62301 original size:52 final size:52
Alignment explanation
Indices: 62228--62335 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
62218 GTGGATACAC
*
62228 CTATGCCGACACCTGTTTGTTTACTCAAATCCCTTAGGTTGATTCAGCCTAT
1 CTATGCAGACACCTGTTTGTTTACTCAAATCCCTTAGGTTGATTCAGCCTAT
*
62280 CTATGCAGACACCTGTTTGTTTACTCAAATCCCTTAGGTTGATTCAGCCTCT
1 CTATGCAGACACCTGTTTGTTTACTCAAATCCCTTAGGTTGATTCAGCCTAT
62332 CTAT
1 CTAT
62336 TTTTATTGTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (52 bp):
CTATGCAGACACCTGTTTGTTTACTCAAATCCCTTAGGTTGATTCAGCCTAT
Found at i:80363 original size:13 final size:13
Alignment explanation
Indices: 80333--80357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80323 GTTAGATTTC
80333 AAAAATAAAAATA
1 AAAAATAAAAATA
80346 AAAAATAAAAAT
1 AAAAATAAAAAT
80358 CTAAAACTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:83151 original size:6 final size:6
Alignment explanation
Indices: 83142--83175 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
83132 AAGGGAAACT
* *
83142 GAAAGC GAAAGC GAAAGC GAAAGC AAAAGA GAAA
1 GAAAGC GAAAGC GAAAGC GAAAGC GAAAGC GAAA
83176 CAGATTGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.29, T:0.00
Consensus pattern (6 bp):
GAAAGC
Found at i:89733 original size:24 final size:24
Alignment explanation
Indices: 89706--89807 Score: 143
Period size: 24 Copynumber: 4.2 Consensus size: 24
89696 AGCAACAGCC
* * *
89706 AGCCCCTGTTCATCTTACCACCCA
1 AGCCCCTGTGCTTCTTACAACCCA
*
89730 AGCCCTTGTGCTTCTTACAACCCA
1 AGCCCCTGTGCTTCTTACAACCCA
*
89754 AGCCCTTGTGCTTCTTACAACCCA
1 AGCCCCTGTGCTTCTTACAACCCA
89778 AG-CCCTCGTGCTTCTTACAACCCA
1 AGCCCCT-GTGCTTCTTACAACCCA
89802 AGCCCC
1 AGCCCC
89808 GCATCATCAT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
23 3 0.04
24 65 0.92
25 3 0.04
ACGTcount: A:0.21, C:0.42, G:0.12, T:0.25
Consensus pattern (24 bp):
AGCCCCTGTGCTTCTTACAACCCA
Found at i:93720 original size:28 final size:28
Alignment explanation
Indices: 93679--93741 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
93669 AAAGTAGTGT
* *
93679 TAATCCAGCGATGTCAATAACTCTATCA
1 TAATCCAGCAATGTCAATAACTCAATCA
*
93707 TAATCCATCAATGTCAATAACTCAATCA
1 TAATCCAGCAATGTCAATAACTCAATCA
93735 TAATCCA
1 TAATCCA
93742 AGTTCCAGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.29
Consensus pattern (28 bp):
TAATCCAGCAATGTCAATAACTCAATCA
Found at i:95162 original size:23 final size:24
Alignment explanation
Indices: 95119--95168 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
95109 AAAAGCTCAA
*
95119 AAGAATGAAGAAATTATAGCTATT
1 AAGAATGAAGAAAGTATAGCTATT
95143 AAGAA-GAAGAGAAGTA-AGCTATT
1 AAGAATGAAGA-AAGTATAGCTATT
95166 AAG
1 AAG
95169 CAAGTTCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.52, C:0.04, G:0.22, T:0.22
Consensus pattern (24 bp):
AAGAATGAAGAAAGTATAGCTATT
Found at i:97727 original size:68 final size:68
Alignment explanation
Indices: 97618--97757 Score: 280
Period size: 68 Copynumber: 2.1 Consensus size: 68
97608 ACTCAGATGC
97618 ACCATCATACATTGATGTACTAGAAATGCCACTGTTGTGCCTTTTAGCATTCAAAAAAAATGCCA
1 ACCATCATACATTGATGTACTAGAAATGCCACTGTTGTGCCTTTTAGCATTCAAAAAAAATGCCA
97683 TGT
66 TGT
97686 ACCATCATACATTGATGTACTAGAAATGCCACTGTTGTGCCTTTTAGCATTCAAAAAAAATGCCA
1 ACCATCATACATTGATGTACTAGAAATGCCACTGTTGTGCCTTTTAGCATTCAAAAAAAATGCCA
97751 TGT
66 TGT
97754 ACCA
1 ACCA
97758 AAATATCTTA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 72 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.30
Consensus pattern (68 bp):
ACCATCATACATTGATGTACTAGAAATGCCACTGTTGTGCCTTTTAGCATTCAAAAAAAATGCCA
TGT
Found at i:98509 original size:203 final size:203
Alignment explanation
Indices: 97963--98643 Score: 1151
Period size: 203 Copynumber: 3.4 Consensus size: 203
97953 CTCATTGCAC
* * *
97963 AATAAGAGTTCCAAAAAAATTACATAAACTGGCACCACTATACCTTTATGTATAGTAGGAATGCC
1 AATAAGAGTTCCAAATATATTACATGAACTGGCACCACTATACCTTTATGTATAGTAGGAATGCC
* * *
98028 ACCACATTGTGCCTTTAACTGCATAAAAAGAATTCTCATTACCAACCTTTGTTTGGATGCACCAT
66 ACGACATTGTGCCTTTAACTGCATACAAAGAATTCTCATTACCAACCTTTATTTGGATGCACCAT
98093 TATACCTTGATGTATAATAGGAATG-ACATCCCTTTTGCTGCAAATAGAGATTCTCATCACCAAC
131 TATACCTTGATGTATAATAGGAATGCA-ATCCCTTTTGCTGCAAATAGAGATTCTCATCACCAAC
98157 TTTTATTTA
195 TTTTATTTA
* *
98166 AATAAGAGTTCC----A-A-TACATAAATTGGCACCACTATACCTTTCATGTATAGTAGGAATGC
1 AATAAGAGTTCCAAATATATTACATGAACTGGCACCACTATACCTTT-ATGTATAGTAGGAATGC
*
98225 CACGACATTGTGACTTTAACTGCATACAAAGAATTCTCATTACCAACCTTTATTTGGATGCACCA
65 CACGACATTGTGCCTTTAACTGCATACAAAGAATTCTCATTACCAACCTTTATTTGGATGCACCA
* *
98290 TTATACCTTGATGTATAATAGGAATGCAATCCCTTTTGCTGCAAATAGAGCTTCTCATCACCGAC
130 TTATACCTTGATGTATAATAGGAATGCAATCCCTTTTGCTGCAAATAGAGATTCTCATCACCAAC
98355 TTTTATTTA
195 TTTTATTTA
*
98364 AATAAGAGTTCCAAATATATTACACGAACTGGCACCACTATACCTTTATGTATAGTAGGAATGCC
1 AATAAGAGTTCCAAATATATTACATGAACTGGCACCACTATACCTTTATGTATAGTAGGAATGCC
*
98429 ACGACATTGTGCCTTTAACTGCATACAAAGAATTATCATTACCAACCTTTATTTGGATGCACCAT
66 ACGACATTGTGCCTTTAACTGCATACAAAGAATTCTCATTACCAACCTTTATTTGGATGCACCAT
* *
98494 TATACCTTGATGTATAATAGGAATGCCATCCCTTTTGCTGCAAATAGAGATTCTAATCACCAACT
131 TATACCTTGATGTATAATAGGAATGCAATCCCTTTTGCTGCAAATAGAGATTCTCATCACCAACT
*
98559 TTTATCTA
196 TTTATTTA
98567 AATAAGAGTTCCAAATATATTACATGAACTGGCACCACTATACCTTTATGTATAGTAGGAATGCC
1 AATAAGAGTTCCAAATATATTACATGAACTGGCACCACTATACCTTTATGTATAGTAGGAATGCC
98632 ACGACATTGTGC
66 ACGACATTGTGC
98644 TAATGCACCA
Statistics
Matches: 452, Mismatches: 18, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
197 26 0.06
198 161 0.36
199 2 0.00
202 1 0.00
203 238 0.53
204 24 0.05
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.32
Consensus pattern (203 bp):
AATAAGAGTTCCAAATATATTACATGAACTGGCACCACTATACCTTTATGTATAGTAGGAATGCC
ACGACATTGTGCCTTTAACTGCATACAAAGAATTCTCATTACCAACCTTTATTTGGATGCACCAT
TATACCTTGATGTATAATAGGAATGCAATCCCTTTTGCTGCAAATAGAGATTCTCATCACCAACT
TTTATTTA
Found at i:99746 original size:74 final size:73
Alignment explanation
Indices: 99617--99756 Score: 208
Period size: 74 Copynumber: 1.9 Consensus size: 73
99607 AGCATAATAT
* * ** *
99617 GAATTTGGGTCATATGCTCAGTCGGTAAAATTCATAGGGTTTTGAAATTTCAGAAAACCCTTGTC
1 GAATTTGGGTCATATGCTCAGCCGATAAAAAACATAGGGTTTTGAAATTTCAGAAAAACCTTGTC
99682 ACACTCAA
66 ACACTCAA
* *
99690 GAATTTGGGTCATATGCTCCGCCGATAAAAAAACATAGGGTTTTGAAATTTCAGAAAAACTTTGT
1 GAATTTGGGTCATATGCTCAGCCGAT-AAAAAACATAGGGTTTTGAAATTTCAGAAAAACCTTGT
99755 CA
65 CA
99757 AAACCAAATT
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
73 23 0.39
74 36 0.61
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (73 bp):
GAATTTGGGTCATATGCTCAGCCGATAAAAAACATAGGGTTTTGAAATTTCAGAAAAACCTTGTC
ACACTCAA
Found at i:119567 original size:30 final size:30
Alignment explanation
Indices: 119531--119590 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
119521 TGTAACAGTT
119531 TCAAGAAATAAGAATACGTCTCTCTCCCTG
1 TCAAGAAATAAGAATACGTCTCTCTCCCTG
119561 TCAAGAAATAAGAATACGTCTCTCTCCCTG
1 TCAAGAAATAAGAATACGTCTCTCTCCCTG
119591 CCCGTGGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (30 bp):
TCAAGAAATAAGAATACGTCTCTCTCCCTG
Found at i:121030 original size:96 final size:96
Alignment explanation
Indices: 120866--121056 Score: 296
Period size: 96 Copynumber: 2.0 Consensus size: 96
120856 AGCTCAAGTT
* * * *
120866 GACCAACACCTTGGCTCTCTTTCTCAGCATCAGAGCACCCATCTGGTGAAGTTCTTTTAGAGATA
1 GACCAACACCTTGGCTCTCTTTCTCAGCATCAGAGCACCCATCTCGTGAAGTCCTTTCAAAGATA
120931 GGTGGTGCATCCTTTCCAGCCA-ACTTTGAAG
66 GGTGGTGCATCCTTTCCAGCCAGA-TTTGAAG
* *
120962 GACCAACATCTTGGCTCTGTTTCTCAGCATCA-ATGCACCCATCTCGTGAAGTCCTTTCAAAGAT
1 GACCAACACCTTGGCTCTCTTTCTCAGCATCAGA-GCACCCATCTCGTGAAGTCCTTTCAAAGAT
121026 AGGTGGTGCATCCTTTCCAGCCAGATTTGAA
65 AGGTGGTGCATCCTTTCCAGCCAGATTTGAA
121057 TCCTTCGAAC
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.01
96 85 0.98
97 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (96 bp):
GACCAACACCTTGGCTCTCTTTCTCAGCATCAGAGCACCCATCTCGTGAAGTCCTTTCAAAGATA
GGTGGTGCATCCTTTCCAGCCAGATTTGAAG
Done.