Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01018057.1 Corchorus olitorius cultivar O-4 contig18090, 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: 9306
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Found at i:2488 original size:16 final size:16
Alignment explanation
Indices: 2467--2497 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2457 GCAAATGCAT
2467 TCATGCAAAGCATCAG
1 TCATGCAAAGCATCAG
*
2483 TCATGCAAATCATCA
1 TCATGCAAAGCATCA
2498 TAAGTATCTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (16 bp):
TCATGCAAAGCATCAG
Found at i:5066 original size:2 final size:2
Alignment explanation
Indices: 5061--5095 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5051 GGTGTGTGTG
5061 TA TA TA TA TA 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 TA TA TA TA TA T
5096 TCAGGTCGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5503 original size:19 final size:19
Alignment explanation
Indices: 5481--5520 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
5471 ACATGCTTTC
5481 AAAAAAG-GATTTTTCCAAA
1 AAAAAAGTGATTTTT-CAAA
*
5500 AAAAAAGTGGTTTTTCAAA
1 AAAAAAGTGATTTTTCAAA
5519 AA
1 AA
5521 TGGTTTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (19 bp):
AAAAAAGTGATTTTTCAAA
Found at i:7120 original size:35 final size:35
Alignment explanation
Indices: 7064--7671 Score: 489
Period size: 35 Copynumber: 17.5 Consensus size: 35
7054 CGGATGCTTT
* * *
7064 AGTTCATTTCAGTTGACCCAGGGCGGTC-TTCATTC
1 AGTTTATTTCAGTTGATCCAGGGCGATCTTTC-TTC
*
7099 AGTTTATTTCAGTTGATCCAGGGCGATCTTTATTC
1 AGTTTATTTCAGTTGATCCAGGGCGATCTTTCTTC
*
7134 AAG-TTATTTTAGTTGATCCAGGGCGATCTTTCCTTC
1 -AGTTTATTTCAGTTGATCCAGGGCGATCTTT-CTTC
* * * * *
7170 AATTTATTTTAGCTGACCCAGGGC-AGTCATTCTTC
1 AGTTTATTTCAGTTGATCCAGGGCGA-TCTTTCTTC
* *
7205 AAG-TTATTTCAGTTGACCCAGGGCGGTCTTTCTTC
1 -AGTTTATTTCAGTTGATCCAGGGCGATCTTTCTTC
* * * * *
7240 AATTCATTTCAATTTATCCAGGGCGATCTTACTTC
1 AGTTTATTTCAGTTGATCCAGGGCGATCTTTCTTC
* *
7275 AAG-ATATTTTAGTTGATCCAGGGCGATCTTTTCTTC
1 -AGTTTATTTCAGTTGATCCAGGGCGATC-TTTCTTC
*
7311 AGTTTA---C--TTGA-CCAAGGGCGGTCTTTCTTC
1 AGTTTATTTCAGTTGATCC-AGGGCGATCTTTCTTC
* * * *
7341 AATTCATTTCAATTGATCCAGGGCGATCTTACTTC
1 AGTTTATTTCAGTTGATCCAGGGCGATCTTTCTTC
*
7376 AAG-TTATTTTAGTTGATCCAGGGCGATCTTTCCTTC
1 -AGTTTATTTCAGTTGATCCAGGGCGATCTTT-CTTC
* * * * * * *
7412 AATTTGTTTTAGCTGACCCAGGGCGGTCATTCTTC
1 AGTTTATTTCAGTTGATCCAGGGCGATCTTTCTTC
* *
7447 AAG-TTATTTCAGTTGACCCAGGGCGGTCTTTCTTC
1 -AGTTTATTTCAGTTGATCCAGGGCGATCTTTCTTC
* * * *
7482 AATTCATTTCAATTGATCCAGGGCGATCTTACTTC
1 AGTTTATTTCAGTTGATCCAGGGCGATCTTTCTTC
* *
7517 AAG-ATATTTTAGTTGATCCAGGGCGATCTTTTCTTC
1 -AGTTTATTTCAGTTGATCCAGGGCGATC-TTTCTTC
*
7553 AGTTTA---C--TTGACCCAGGGCGATCTTTTCTTC
1 AGTTTATTTCAGTTGATCCAGGGCGATC-TTTCTTC
* * * **
7584 AATTTATTTCAATGGATCCAGGGTAATCTTTTCTTC
1 AGTTTATTTCAGTTGATCCAGGGCGATC-TTTCTTC
* * * *
7620 AGTTTATTTTAATTGATCCAGGGTGATCTTTTCTGC
1 AGTTTATTTCAGTTGATCCAGGGCGATC-TTTCTTC
7656 AGTTTATTTCAGTTGA
1 AGTTTATTTCAGTTGA
7672 CCGCAAATTG
Statistics
Matches: 463, Mismatches: 79, Indels: 61
0.77 0.13 0.10
Matches are distributed among these distances:
30 13 0.03
31 40 0.09
33 1 0.00
34 3 0.01
35 261 0.56
36 145 0.31
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (35 bp):
AGTTTATTTCAGTTGATCCAGGGCGATCTTTCTTC
Found at i:7345 original size:101 final size:105
Alignment explanation
Indices: 7111--7620 Score: 446
Period size: 106 Copynumber: 4.9 Consensus size: 105
7101 TTTATTTCAG
* * * * * * *
7111 TTGATCCAGGGCGATCTTTATTCAAGTT-ATTTTAGTTGATCCAGGGCGATCTTTCCTTCAATTT
1 TTGACCCAGGGCGGTCTTTCTTCAA-TTCATTTCAATTGATCCAGGGCGATC-TTACTTCAAGTT
* * *
7175 ATTTTAGCTGACCCAGGGC-AGTCATT-CTTCAA-GTTATTTCAG-
64 ATTTTAGTTGATCCAGGGCGA-TCTTTCCTTCAATG-T-TTT-AGC
* *
7217 TTGACCCAGGGCGGTCTTTCTTCAATTCATTTCAATTTATCCAGGGCGATCTTACTTCAAGATAT
1 TTGACCCAGGGCGGTCTTTCTTCAATTCATTTCAATTGATCCAGGGCGATCTTACTTCAAGTTAT
*
7282 TTTAGTTGATCCAGGGCGATCTTTTCTTC-A-G-TTTA-C
66 TTTAGTTGATCCAGGGCGATCTTTCCTTCAATGTTTTAGC
*
7318 TTGACCAAGGGCGGTCTTTCTTCAATTCATTTCAATTGATCCAGGGCGATCTTACTTCAAGTTAT
1 TTGACCCAGGGCGGTCTTTCTTCAATTCATTTCAATTGATCCAGGGCGATCTTACTTCAAGTTAT
7383 TTTAGTTGATCCAGGGCGATCTTTCCTTCAATTTGTTTTAGC
66 TTTAGTTGATCCAGGGCGATCTTTCCTTCAA--TGTTTTAGC
* * * * *
7425 -TGACCCAGGGCGGTCATTCTTCAAGTT-ATTTCAGTTGACCCAGGGCGGTCTTTCTTCAA-TTC
1 TTGACCCAGGGCGGTCTTTCTTCAA-TTCATTTCAATTGATCCAGGGCGATCTTACTTCAAGTT-
* * * *
7487 ATTTCAATTGATCCAGGGCGATC-TTACTTCAAGATATTTTAG-
64 ATTTTAGTTGATCCAGGGCGATCTTTCCTTC-A-ATGTTTTAGC
* * * * * *
7529 TTGATCCAGGGCGATC-TT-TTC--TTCAGTTT-ACTTGACCCAGGGCGATCTTTTCTTCAATTT
1 TTGACCCAGGGCGGTCTTTCTTCAATTCA-TTTCAATTGATCCAGGGCGATC-TTACTTCAAGTT
* * * ** *
7589 ATTTCAATGGATCCAGGGTAATCTTTTCTTCA
64 ATTTTAGTTGATCCAGGGCGATCTTTCCTTCA
7621 GTTTATTTTA
Statistics
Matches: 350, Mismatches: 34, Indels: 44
0.82 0.08 0.10
Matches are distributed among these distances:
100 2 0.01
101 108 0.31
102 37 0.11
103 11 0.03
104 2 0.01
105 63 0.18
106 123 0.35
107 4 0.01
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (105 bp):
TTGACCCAGGGCGGTCTTTCTTCAATTCATTTCAATTGATCCAGGGCGATCTTACTTCAAGTTAT
TTTAGTTGATCCAGGGCGATCTTTCCTTCAATGTTTTAGC
Found at i:7495 original size:141 final size:141
Alignment explanation
Indices: 7066--7671 Score: 607
Period size: 141 Copynumber: 4.3 Consensus size: 141
7056 GATGCTTTAG
* * *
7066 TTCATTTCAGTTGACCCAGGGCGGTCTT-CATTC-AGTTTATTTCAGTTGATCCAGGGCGATCTT
1 TTCATTTCAATTGATCCAGGGCGATCTTAC-TTCAAG-TTATTTCAGTTGATCCAGGGCGATCTT
* * * * * * *
7129 TATTCAAGTTATTTTAGTTGATCCAGGGCGATCTTTCCTTCAATTTATTTTAGCTGACCCAGGGC
64 TCTTCAAGTTATTTTAGCTGACCCAGGGCGATCTTTTCTTCAAGTTATTTCAGTTGACCCAGGGC
*
7194 AGTCATTCTTCAA
129 AGTCTTTCTTCAA
* * * * * *
7207 GTT-ATTTCAGTTGACCCAGGGCGGTCTTTCTTCAA-TTCATTTCAATTTATCCAGGGCGATCTT
1 -TTCATTTCAATTGATCCAGGGCGATCTTACTTCAAGTT-ATTTCAGTTGATCCAGGGCGATCTT
* * * * * *
7270 ACTTCAAGATATTTTAGTTGATCCAGGGCGATCTTTTCTTC-AG---TTT-ACTTGACCAAGGGC
64 TCTTCAAGTTATTTTAGCTGACCCAGGGCGATCTTTTCTTCAAGTTATTTCAGTTGACCCAGGGC
*
7330 GGTCTTTCTTCAA
129 AGTCTTTCTTCAA
*
7343 TTCATTTCAATTGATCCAGGGCGATCTTACTTCAAGTTATTTTAGTTGATCCAGGGCGATCTTTC
1 TTCATTTCAATTGATCCAGGGCGATCTTACTTCAAGTTATTTCAGTTGATCCAGGGCGATCTTT-
* * * * *
7408 CTTCAATTTGTTTTAGCTGACCCAGGGCGGTC-ATTCTTCAAGTTATTTCAGTTGACCCAGGGCG
65 CTTCAAGTTATTTTAGCTGACCCAGGGCGATCTTTTCTTCAAGTTATTTCAGTTGACCCAGGGCA
7472 GTCTTTCTTCAA
130 GTCTTTCTTCAA
* *
7484 TTCATTTCAATTGATCCAGGGCGATCTTACTTCAAGATATTTTAGTTGATCCAGGGCGATCTTTT
1 TTCATTTCAATTGATCCAGGGCGATCTTACTTCAAGTTATTTCAGTTGATCCAGGGCGATC-TTT
* * * * *
7549 CTTC-AG----TTTA-CTTGACCCAGGGCGATCTTTTCTTCAATTTATTTCAATGGATCCAGGGT
65 CTTCAAGTTATTTTAGC-TGACCCAGGGCGATCTTTTCTTCAAGTTATTTCAGTTGACCCAGGGC
* *
7608 AATCTTTTCTTCAG
129 AGTC-TTTCTTCAA
* * * * *
7622 TTTATTTTAATTGATCCAGGGTGATCTTTTCTGC-AGTTTATTTCAGTTGA
1 TTCATTTCAATTGATCCAGGGCGATC-TTACTTCAAG-TTATTTCAGTTGA
7672 CCGCAAATTG
Statistics
Matches: 399, Mismatches: 48, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
135 3 0.01
136 96 0.24
137 60 0.15
138 33 0.08
139 16 0.04
140 7 0.02
141 177 0.44
142 7 0.02
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (141 bp):
TTCATTTCAATTGATCCAGGGCGATCTTACTTCAAGTTATTTCAGTTGATCCAGGGCGATCTTTC
TTCAAGTTATTTTAGCTGACCCAGGGCGATCTTTTCTTCAAGTTATTTCAGTTGACCCAGGGCAG
TCTTTCTTCAA
Found at i:7508 original size:242 final size:243
Alignment explanation
Indices: 7076--7673 Score: 970
Period size: 242 Copynumber: 2.5 Consensus size: 243
7066 TTCATTTCAG
* *
7076 TTGACCCAGGGCGGTC-TTCATTCAGTTTATTTCAGTTGATCCAGGGCGATCTTTA-TTCAAGTT
1 TTGACCCAGGGCGGTCTTTC-TTCAATTTATTTCAATTGATCCAGGGCGATCTTTACTTCAAGTT
7139 ATTTTAGTTGATCCAGGGCGATCTTTCCTTCAATTTATTTTAGCTGACCCAGGGCAGTCATTCTT
65 ATTTTAGTTGATCCAGGGCGATCTTTCCTTCAATTTATTTTAGCTGACCCAGGGCAGTCATTCTT
*
7204 CAAGTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAATTCATTTCAATTTATCCAGGGCGATCT
130 CAAGTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAATTCATTTCAATTGATCCAGGGCGATCT
7269 TACTTCAAGATATTTTAGTTGATCCAGGGCGATCTTTTCTTCAGTTTAC
195 TACTTCAAGATATTTTAGTTGATCCAGGGCGATCTTTTCTTCAGTTTAC
* *
7318 TTGACCAAGGGCGGTCTTTCTTCAATTCATTTCAATTGATCCAGGGCGATC-TTACTTCAAGTTA
1 TTGACCCAGGGCGGTCTTTCTTCAATTTATTTCAATTGATCCAGGGCGATCTTTACTTCAAGTTA
* *
7382 TTTTAGTTGATCCAGGGCGATCTTTCCTTCAATTTGTTTTAGCTGACCCAGGGCGGTCATTCTTC
66 TTTTAGTTGATCCAGGGCGATCTTTCCTTCAATTTATTTTAGCTGACCCAGGGCAGTCATTCTTC
7447 AAGTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAATTCATTTCAATTGATCCAGGGCGATCTT
131 AAGTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAATTCATTTCAATTGATCCAGGGCGATCTT
7512 ACTTCAAGATATTTTAGTTGATCCAGGGCGATCTTTTCTTCAGTTTAC
196 ACTTCAAGATATTTTAGTTGATCCAGGGCGATCTTTTCTTCAGTTTAC
* * ** *
7560 TTGACCCAGGGCGATCTTTTCTTCAATTTATTTCAATGGATCCAGGGTAATCTTTTCTTC-AGTT
1 TTGACCCAGGGCGGTC-TTTCTTCAATTTATTTCAATTGATCCAGGGCGATCTTTACTTCAAG-T
* * * * * * *
7624 TATTTTAATTGATCCAGGGTGATCTTTTCTGCAGTTTATTTCAGTTGACC
64 TATTTTAGTTGATCCAGGGCGATCTTTCCTTCAATTTATTTTAGCTGACC
7674 GCAAATTGGT
Statistics
Matches: 329, Mismatches: 22, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
241 3 0.01
242 241 0.73
243 36 0.11
244 49 0.15
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (243 bp):
TTGACCCAGGGCGGTCTTTCTTCAATTTATTTCAATTGATCCAGGGCGATCTTTACTTCAAGTTA
TTTTAGTTGATCCAGGGCGATCTTTCCTTCAATTTATTTTAGCTGACCCAGGGCAGTCATTCTTC
AAGTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAATTCATTTCAATTGATCCAGGGCGATCTT
ACTTCAAGATATTTTAGTTGATCCAGGGCGATCTTTTCTTCAGTTTAC
Found at i:7556 original size:26 final size:27
Alignment explanation
Indices: 7529--7584 Score: 67
Period size: 31 Copynumber: 1.9 Consensus size: 27
7519 GATATTTTAG
*
7529 TTGATCCAGGGCGATCTTTTCTTCAGTTT
1 TTGACCCAGGGCGATCTTTTCTTCAG--T
7558 ACTTGACCCAGGGCGATCTTTTCTTCA
1 --TTGACCCAGGGCGATCTTTTCTTCA
7585 ATTTATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (27 bp):
TTGACCCAGGGCGATCTTTTCTTCAGT
Found at i:7925 original size:30 final size:30
Alignment explanation
Indices: 7882--8243 Score: 423
Period size: 30 Copynumber: 12.2 Consensus size: 30
7872 ACTATTCTAC
* * * *
7882 ATCATTACCTTATTTTAATCATGTTTGAGG
1 ATCATTGCTTTATTTTAATCCTGGTTGAGG
7912 ATCATTGCTTTATTTTAATCCTGGTTGAGG
1 ATCATTGCTTTATTTTAATCCTGGTTGAGG
* *
7942 ATCATTACTTCATTTTAATCCTGGTTGAGG
1 ATCATTGCTTTATTTTAATCCTGGTTGAGG
*
7972 AT-ATTTGCTTTACTTTAATCCTGGTTGAGG
1 ATCA-TTGCTTTATTTTAATCCTGGTTGAGG
*
8002 AT-ATTTGCTTTACTTTAATCCTGGTTGAGG
1 ATCA-TTGCTTTATTTTAATCCTGGTTGAGG
* * *
8032 ATAATTGCTTCA---T--TCCTGGTTGAAG
1 ATCATTGCTTTATTTTAATCCTGGTTGAGG
* * * * *
8057 ATCGTTACTTCATTTTAATCTTGTTTGAGG
1 ATCATTGCTTTATTTTAATCCTGGTTGAGG
* *
8087 ATCGTTGCTTTATTTTAATCCTAGTTGAGG
1 ATCATTGCTTTATTTTAATCCTGGTTGAGG
* *
8117 ATAATTGCTTTACTTTAATCCTGGTTGAGG
1 ATCATTGCTTTATTTTAATCCTGGTTGAGG
*
8147 ATCGTTGCTTTATTTTAATCCTGGTTGAGG
1 ATCATTGCTTTATTTTAATCCTGGTTGAGG
*
8177 ATCATTGCTTCATTTTAATCCTGGTTGAGG
1 ATCATTGCTTTATTTTAATCCTGGTTGAGG
* * * *
8207 ATCATTGCTTTATTCTAACCCTGATTTAGG
1 ATCATTGCTTTATTTTAATCCTGGTTGAGG
8237 ATCATTG
1 ATCATTG
8244 TTTCATCAGT
Statistics
Matches: 289, Mismatches: 36, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
25 20 0.07
27 1 0.00
28 1 0.00
29 1 0.00
30 265 0.92
31 1 0.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.45
Consensus pattern (30 bp):
ATCATTGCTTTATTTTAATCCTGGTTGAGG
Found at i:8067 original size:25 final size:25
Alignment explanation
Indices: 8011--8070 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
8001 GATATTTGCT
* * *
8011 TTACTTTAATCCTGGTTGAGGATAA
1 TTACTTCATTCCTGGTTGAAGATAA
* **
8036 TTGCTTCATTCCTGGTTGAAGATCG
1 TTACTTCATTCCTGGTTGAAGATAA
8061 TTACTTCATT
1 TTACTTCATT
8071 TTAATCTTGT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (25 bp):
TTACTTCATTCCTGGTTGAAGATAA
Found at i:8131 original size:145 final size:145
Alignment explanation
Indices: 7923--8190 Score: 437
Period size: 145 Copynumber: 1.8 Consensus size: 145
7913 TCATTGCTTT
* *
7923 ATTTTAATCCTGGTTGAGGATCATTACTTCATTTTAATCCTGGTTGAGGATATTTGCTTTACTTT
1 ATTTTAATCCTGGTTGAGGATCATTACTTCATTTTAATCCTAGTTGAGGATAATTGCTTTACTTT
*
7988 AATCCTGGTTGAGGATATTTGCTTTACTTTAATCCTGGTTGAGGATAATTGCTTCATTCCTGGTT
66 AATCCTGGTTGAGGATAGTTGCTTTACTTTAATCCTGGTTGAGGATAATTGCTTCATTCCTGGTT
8053 GAAGATCGTTACTTC
131 GAAGATCGTTACTTC
* * * * *
8068 ATTTTAATCTTGTTTGAGGATCGTTGCTTTATTTTAATCCTAGTTGAGGATAATTGCTTTACTTT
1 ATTTTAATCCTGGTTGAGGATCATTACTTCATTTTAATCCTAGTTGAGGATAATTGCTTTACTTT
* * *
8133 AATCCTGGTTGAGGATCGTTGCTTTATTTTAATCCTGGTTGAGGATCATTGCTTCATT
66 AATCCTGGTTGAGGATAGTTGCTTTACTTTAATCCTGGTTGAGGATAATTGCTTCATT
8191 TTAATCCTGG
Statistics
Matches: 112, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
145 112 1.00
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.46
Consensus pattern (145 bp):
ATTTTAATCCTGGTTGAGGATCATTACTTCATTTTAATCCTAGTTGAGGATAATTGCTTTACTTT
AATCCTGGTTGAGGATAGTTGCTTTACTTTAATCCTGGTTGAGGATAATTGCTTCATTCCTGGTT
GAAGATCGTTACTTC
Found at i:8196 original size:175 final size:175
Alignment explanation
Indices: 7893--8221 Score: 516
Period size: 175 Copynumber: 1.9 Consensus size: 175
7883 TCATTACCTT
* * *
7893 ATTTTAATCATGTTTGAGGATCATTGCTTTATTTTAATCCTGGTTGAGGATCATTACTTCATTTT
1 ATTTTAATCATGTTTGAGGATCATTGCTTTATTTTAATCCTAGTTGAGGATAATTACTTCACTTT
* *
7958 AATCCTGGTTGAGGATATTTGCTTTACTTTAATCCTGGTTGAGGATATTTGCTTTACTTTAATCC
66 AATCCTGGTTGAGGATAGTTGCTTTACTTTAATCCTGGTTGAGGATATTTGCTTCACTTTAATCC
8023 TGGTTGAGGATAATTGCTTCATTCCTGGTTGAAGATCGTTACTTC
131 TGGTTGAGGATAATTGCTTCATTCCTGGTTGAAGATCGTTACTTC
* * * *
8068 ATTTTAATCTTGTTTGAGGATCGTTGCTTTATTTTAATCCTAGTTGAGGATAATTGCTTTACTTT
1 ATTTTAATCATGTTTGAGGATCATTGCTTTATTTTAATCCTAGTTGAGGATAATTACTTCACTTT
* * *
8133 AATCCTGGTTGAGGATCGTTGCTTTATTTTAATCCTGGTTGAGGATCA-TTGCTTCATTTTAATC
66 AATCCTGGTTGAGGATAGTTGCTTTACTTTAATCCTGGTTGAGGAT-ATTTGCTTCACTTTAATC
* *
8197 CTGGTTGAGGATCATTGCTTTATTC
130 CTGGTTGAGGATAATTGCTTCATTC
8222 TAACCCTGAT
Statistics
Matches: 139, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
175 138 0.99
176 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.46
Consensus pattern (175 bp):
ATTTTAATCATGTTTGAGGATCATTGCTTTATTTTAATCCTAGTTGAGGATAATTACTTCACTTT
AATCCTGGTTGAGGATAGTTGCTTTACTTTAATCCTGGTTGAGGATATTTGCTTCACTTTAATCC
TGGTTGAGGATAATTGCTTCATTCCTGGTTGAAGATCGTTACTTC
Found at i:8832 original size:27 final size:27
Alignment explanation
Indices: 8768--8894 Score: 166
Period size: 27 Copynumber: 4.7 Consensus size: 27
8758 GTCATTCAGG
* * *
8768 GGGGCATTTTGGTCATTTTTCA-ATTACA
1 GGGGCATTTTAGTCA-TTTGCACA-TCCA
*
8796 GGGGCATTTTGGTCATTTGCACATCCA
1 GGGGCATTTTAGTCATTTGCACATCCA
*
8823 GGGGCATTTTAGTCATTTGCACGTCCA
1 GGGGCATTTTAGTCATTTGCACATCCA
*
8850 GGGGCATTTTAGTCATTTGCACGTCCA
1 GGGGCATTTTAGTCATTTGCACATCCA
*
8877 GGGGCATTCTAGTCATTT
1 GGGGCATTTTAGTCATTT
8895 TAAGTTCACA
Statistics
Matches: 93, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
27 77 0.83
28 16 0.17
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (27 bp):
GGGGCATTTTAGTCATTTGCACATCCA
Done.