Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01018787.1 Corchorus olitorius cultivar O-4 contig18820, 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: 10361
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Found at i:4603 original size:35 final size:35
Alignment explanation
Indices: 4557--5537 Score: 734
Period size: 35 Copynumber: 27.6 Consensus size: 35
4547 ATTTCAGATG
** * *
4557 CTTCAGTTTATTTCAACTGACCCAGGGTGGTCTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGATCTTT
* * *
4592 CTTCAATTTATTTCAGCTGACCTAGGGCGGA-CTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGC-GATCTTT
* * * * * *
4627 CTTCAATTCATTTCAGTTGACCCAAGGTGGTCCTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGATCTTT
* *
4662 ATTCAGTTTATTTCAGTTGATCCAGGGCGATCTTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGATC-TTT
* * * * *
4698 CTTCAGTTGATTTCCATTTGATCTAGGGCGACCTTT
1 CTTCAGTTTATTT-CAGTTGACCCAGGGCGATCTTT
* * * * * *
4734 ATTCAATTCATTTCAGTTGACCAAGGGTGGT-TCTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGATCT-TT
* * * *
4769 ATTCAGTTTATTTCAATTTGATCCAGTGCGATCTTTT
1 CTTCAGTTTATTTC-AGTTGACCCAGGGCGATC-TTT
* * * *
4806 CTTCATTTTACTTCAGTTGATCCAGGGTGATCCTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGAT-CTTT
* * * *
4842 CTTCAGTTTATTTCAGCTGACCTAGGGTGGTCTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGATCTTT
* * * ** *
4877 CTTCAATTCATTTCAGCTGACTTAGGGCGGTCTCTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGATCT-TT
* * * * *
4913 -TTCAATTCATTTCAGTTGACCCAGGGTGGTCCTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGATCTTT
* *
4947 ATTCAGTTTATTTCAGTTGATCCA-GGCGATCTTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGATC-TTT
*
4982 CTTCAGTTTATTTCGATTTG-CTCCAGGGCGATCTTT
1 CTTCAGTTTATTTC-AGTTGAC-CCAGGGCGATCTTT
* * * * * * *
5018 ATTCAATTCATTTTAGTTGACCCAGGGTGGTCCTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGATCTTT
* * *
5053 ATTTAGTTTATTTCAGTTTGATCCAGGGCGATCTTTT
1 CTTCAGTTTATTTCAG-TTGACCCAGGGCGATC-TTT
* * * *
5090 CTTCATTTTACTTCAGTTGATCCAGGGTGATCCTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGAT-CTTT
* *
5126 CTTCAGTTTATTTCAGTTGATCCAGGGCGATTTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGATCTTT
* * * * * *
5161 CTTCAATTCATTTCAGTTGACCCAGTGTGGTCCTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGATCTTT
* * * * *
5196 ATTCAGTTTATTTCAATTGATCTAGGGTGATCGTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGATC-TTT
* *
5232 CTTCAGTTTATTTCGATTTGACCTAGGGCGATCTTT
1 CTTCAGTTTATTTC-AGTTGACCCAGGGCGATCTTT
* * * * ** *
5268 ATTCAATTCATTTCAGTTGACCTA-GGATAGTCCTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGA-TCTTT
* *
5303 ATTCAGTTTATTTCAGTTTGATCCAGGGCGATCTTTT
1 CTTCAGTTTATTTCAG-TTGACCCAGGGCGATC-TTT
* * * *
5340 CTTCAATTTACTTCAGTTGATCCAGGGTGATCCTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGAT-CTTT
* *
5376 CTTCAGTTTATTTCAGTTGATCCAGGGCGATTTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGATCTTT
* * **
5411 CTTCAGTATATTTCAGTTGACCGAGGGCGGCCTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGATCTTT
* * * *
5446 CTTCAATTTATTTCAGTGGATCCATGGCGATCTTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGATC-TTT
* * *
5482 CTTCAGTTTATTTCAGTTGATCTAGGGCAATCTTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGATC-TTT
*
5518 CTGT-AGTTTATTCCAGTTGA
1 CT-TCAGTTTATTTCAGTTGA
5538 ACGCAAATTG
Statistics
Matches: 758, Mismatches: 160, Indels: 55
0.78 0.16 0.06
Matches are distributed among these distances:
34 12 0.02
35 364 0.48
36 294 0.39
37 87 0.11
38 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (35 bp):
CTTCAGTTTATTTCAGTTGACCCAGGGCGATCTTT
Found at i:4789 original size:71 final size:69
Alignment explanation
Indices: 4558--5509 Score: 455
Period size: 71 Copynumber: 13.4 Consensus size: 69
4548 TTTCAGATGC
** * * ** * * * *
4558 TTCAGTTTATTTCAACTGACCCAGGGTGGTCTTTCTTCAATTTATTTCAGCTGACCTAGGGCGGA
1 TTCAGTTTATTTCATTTGATCCAGGGCGACCTTTCTTCAATTCATTTCAGTTGACC-AGGGTGGT
* *
4623 CTTTC
65 CCTTA
* * * * * * * * *
4628 TTCAATTCATTTCAGTTGACCCAAGGTG-GTCC-TTATTCAGTTTATTTCAGTTGATCCAGGGCG
1 TTCAGTTTATTTCATTTGATCC-AGG-GCGACCTTTCTTCAATTCATTTCAGTTGA-CCAGGGTG
* * *
4691 ATCTTTTC
63 GTC-CTTA
* * *
4699 TTCAGTTGATTTCCATTTGATCTAGGGCGACCTTTATTCAATTCATTTCAGTTGACCAAGGGTGG
1 TTCAGTTTATTT-CATTTGATCCAGGGCGACCTTTCTTCAATTCATTTCAGTTGACC-AGGGTGG
*
4764 TTCTTA
64 TCCTTA
* * * * *
4770 TTCAGTTTATTTCAATTTGATCCAGTGCGATCTTTTCTTCATTTTACTTCAGTTGATCCAGGGTG
1 TTCAGTTTATTTC-ATTTGATCCAGGGCGA-CCTTTCTTCAATTCATTTCAGTTGA-CCAGGGTG
* *
4835 ATCCTTTC
63 GTCC-TTA
** * ** * * *
4843 TTCAGTTTATTTCAGCTGA-CCTAGGGTGGTCTTTCTTCAATTCATTTCAGCTGACTTAGGGCGG
1 TTCAGTTTATTTCATTTGATCC-AGGGCGACCTTTCTTCAATTCATTTCAGTTGAC-CAGGGTGG
4907 TCTCTT-
64 TC-CTTA
* * * * * * * * * * *
4913 TTCAATTCATTTCAGTTGACCCAGGGTGGTCC-TTATTCAGTTTATTTCAGTTGATCCA-GGCGA
1 TTCAGTTTATTTCATTTGATCCAGGG-CGACCTTTCTTCAATTCATTTCAGTTGA-CCAGGGTGG
* *
4976 TCTTTTC
64 TC-CTTA
* * * *
4983 TTCAGTTTATTTCGATTTGCTCCAGGGCGATCTTTATTCAATTCATTTTAGTTGACCCAGGGTGG
1 TTCAGTTTATTTC-ATTTGATCCAGGGCGACCTTTCTTCAATTCATTTCAGTTGA-CCAGGGTGG
5048 TCCTTA
64 TCCTTA
* * * * *
5054 TTTAGTTTATTTCAGTTTGATCCAGGGCGATCTTTTCTTCATTTTACTTCAGTTGATCCAGGGTG
1 TTCAGTTTATTTCA-TTTGATCCAGGGCGA-CCTTTCTTCAATTCATTTCAGTTGA-CCAGGGTG
* *
5119 ATCCTTTC
63 GTCC-TTA
* ** *
5127 TTCAGTTTATTTCAGTTGATCCAGGGCGATTTTTCTTCAATTCATTTCAGTTGACCCAGTGTGGT
1 TTCAGTTTATTTCATTTGATCCAGGGCGACCTTTCTTCAATTCATTTCAGTTGA-CCAGGGTGGT
5192 CCTTA
65 CCTTA
* * * * * * * *
5197 TTCAGTTTATTTCAATTGATCTAGGGTGATCGTTTCTTCAGTTTATTTCGATTTGACCTAGGGCG
1 TTCAGTTTATTTCATTTGATCCAGGGCGA-CCTTTCTTCAATTCATTTC-AGTTGACC-AGGGTG
* *
5262 ATCTTTA
63 GTCCTTA
* * * ** * * * * *
5269 TTCAATTCATTTCAGTTGA-CCTAGGATAGTCC-TTATTCAGTTTATTTCAGTTTGATCCAGGGC
1 TTCAGTTTATTTCATTTGATCC-AGG-GCGACCTTTCTTCAATTCATTTCAG-TTGA-CCAGGGT
* * *
5332 GATCTTTTC
62 GGTC-CTTA
* * * * * * * *
5341 TTCAATTTACTTCAGTTGATCCAGGGTGATCCTTTCTTCAGTTTATTTCAGTTGATCCAGGGCGA
1 TTCAGTTTATTTCATTTGATCCAGGGCGA-CCTTTCTTCAATTCATTTCAGTTGA-CCAGGGTGG
** *
5406 TTTTTC
64 TCCTTA
* * * * * * * *
5412 TTCAGTATATTTCAGTTGA-CCGAGGGCGGCCTTTCTTCAATTTATTTCAGTGGATCCATGGCGA
1 TTCAGTTTATTTCATTTGATCC-AGGGCGACCTTTCTTCAATTCATTTCAGTTGA-CCAGGGTGG
* *
5476 TCTTTTC
64 TC-CTTA
* *
5483 TTCAGTTTATTTCAGTTGATCTAGGGC
1 TTCAGTTTATTTCATTTGATCCAGGGC
5510 AATCTTTTCT
Statistics
Matches: 702, Mismatches: 141, Indels: 77
0.76 0.15 0.08
Matches are distributed among these distances:
69 9 0.01
70 164 0.23
71 281 0.40
72 196 0.28
73 52 0.07
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (69 bp):
TTCAGTTTATTTCATTTGATCCAGGGCGACCTTTCTTCAATTCATTTCAGTTGACCAGGGTGGTC
CTTA
Found at i:5537 original size:250 final size:249
Alignment explanation
Indices: 4807--5516 Score: 977
Period size: 250 Copynumber: 2.9 Consensus size: 249
4797 CGATCTTTTC
* * * * * * *
4807 TTCATTTTACTTCAG-TTGATCCAGGGTGATCCTTTCTTCAGTTTATTTCAGCTGA-CCTAGGGT
1 TTCAGTTTATTTCAGTTTGATCCAGGGCGATCTTTTCTTCAATTTACTTCAGTTGATCC-AGGGT
* * * * * * *
4870 GGT-CTTTCTTCAATTCATTTCAGCTGA-CTTAGGGCGGTCTCTT-TTCAATTCATTTCAGTTGA
65 GATCCTTTCTTCAGTTTATTTCAGTTGATC-CAGGGCGAT-TTTTCTTCAATTCATTTCAGTTGA
4932 CCCAGGGTGGTCCTTATTCAGTTTATTTCAGTTGATCCAGGCGATCTTTTCTTCAGTTTATTTCG
128 CCCAGGGTGGTCCTTATTCAGTTTATTTCAGTTGATCCAGGCGATCTTTTCTTCAGTTTATTTCG
* * * * *
4997 ATTTGCTCCAGGGCGATCTTTATTCAATTCATTTTAGTTGACCCAGGGTGGTCCTTA
193 ATTTGATCTAGGGCGATCTTTATTCAATTCATTTCAGTTGACCCAGGATAGTCCTTA
* *
5054 TTTAGTTTATTTCAGTTTGATCCAGGGCGATCTTTTCTTCATTTTACTTCAGTTGATCCAGGGTG
1 TTCAGTTTATTTCAGTTTGATCCAGGGCGATCTTTTCTTCAATTTACTTCAGTTGATCCAGGGTG
5119 ATCCTTTCTTCAGTTTATTTCAGTTGATCCAGGGCGATTTTTCTTCAATTCATTTCAGTTGACCC
66 ATCCTTTCTTCAGTTTATTTCAGTTGATCCAGGGCGATTTTTCTTCAATTCATTTCAGTTGACCC
* * * * *
5184 AGTGTGGTCCTTATTCAGTTTATTTCAATTGATCTAGGGTGATCGTTTCTTCAGTTTATTTCGAT
131 AGGGTGGTCCTTATTCAGTTTATTTCAGTTGATCCA-GGCGATCTTTTCTTCAGTTTATTTCGAT
* *
5249 TTGACCTAGGGCGATCTTTATTCAATTCATTTCAGTTGACCTAGGATAGTCCTTA
195 TTGATCTAGGGCGATCTTTATTCAATTCATTTCAGTTGACCCAGGATAGTCCTTA
5304 TTCAGTTTATTTCAGTTTGATCCAGGGCGATCTTTTCTTCAATTTACTTCAGTTGATCCAGGGTG
1 TTCAGTTTATTTCAGTTTGATCCAGGGCGATCTTTTCTTCAATTTACTTCAGTTGATCCAGGGTG
*
5369 ATCCTTTCTTCAGTTTATTTCAGTTGATCCAGGGCGATTTTTCTTCAGTAT-ATTTCAGTTGACC
66 ATCCTTTCTTCAGTTTATTTCAGTTGATCCAGGGCGATTTTTCTTCAAT-TCATTTCAGTTGACC
* * * * *
5433 GAGGGCGG-CCTTTCTTCAATTTATTTCAGTGGATCCATGGCGATCTTTTCTTCAGTTTATTTC-
130 CAGGGTGGTCC-TTATTCAGTTTATTTCAGTTGATCCA-GGCGATCTTTTCTTCAGTTTATTTCG
* *
5496 AGTTGATCTAGGGCAATCTTT
193 ATTTGATCTAGGGCGATCTTT
5517 TCTGTAGTTT
Statistics
Matches: 411, Mismatches: 44, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
247 12 0.03
248 45 0.11
249 105 0.26
250 248 0.60
251 1 0.00
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.43
Consensus pattern (249 bp):
TTCAGTTTATTTCAGTTTGATCCAGGGCGATCTTTTCTTCAATTTACTTCAGTTGATCCAGGGTG
ATCCTTTCTTCAGTTTATTTCAGTTGATCCAGGGCGATTTTTCTTCAATTCATTTCAGTTGACCC
AGGGTGGTCCTTATTCAGTTTATTTCAGTTGATCCAGGCGATCTTTTCTTCAGTTTATTTCGATT
TGATCTAGGGCGATCTTTATTCAATTCATTTCAGTTGACCCAGGATAGTCCTTA
Found at i:5961 original size:30 final size:29
Alignment explanation
Indices: 5927--6021 Score: 118
Period size: 30 Copynumber: 3.2 Consensus size: 29
5917 TTTATCAGTC
5927 TCATTTCGATCCGGATTGAGGATCATTGCT
1 TCATTTCGATCCGG-TTGAGGATCATTGCT
*
5957 TCATTTCGATCCTGGTTAAGGATCATTGCT
1 TCATTTCGATCC-GGTTGAGGATCATTGCT
* ** *
5987 TTATTTAAATTCTGGTTGAGGATCATTGCT
1 TCATTTCGA-TCCGGTTGAGGATCATTGCT
6017 TCATT
1 TCATT
6022 ATAATCCTGA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
30 52 0.93
31 4 0.07
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (29 bp):
TCATTTCGATCCGGTTGAGGATCATTGCT
Found at i:6039 original size:30 final size:30
Alignment explanation
Indices: 5945--6698 Score: 872
Period size: 30 Copynumber: 24.4 Consensus size: 30
5935 ATCCGGATTG
* ** *
5945 AGGATCATTGCTTCATTTCGATCCTGGTTA
1 AGGATCATTGCTTTATTTTAATCCTGGTTT
* * *
5975 AGGATCATTGCTTTATTTAAATTCTGGTTG
1 AGGATCATTGCTTTATTTTAATCCTGGTTT
* * *
6005 AGGATCATTGCTTCATTATAATCCTGATTT
1 AGGATCATTGCTTTATTTTAATCCTGGTTT
*
6035 AGGAT-ATTTGCTTTATTAGTTTTATTCCAATCCTGATTT
1 AGGATCA-TTGC--T-TTA---TT-TT--AATCCTGGTTT
* * *
6074 AGGATTATTGTTTTGTCAGTTTTATTTCGATCCTGATTT
1 AGGATCATTG-CTT-T-A-TTTTA-----ATCCTGGTTT
*
6113 AGGATCATTGCTTTATTGTAATCCTGGTTT
1 AGGATCATTGCTTTATTTTAATCCTGGTTT
*
6143 AGGATCATTGCTTTGTTTTAATCCTGGTTT
1 AGGATCATTGCTTTATTTTAATCCTGGTTT
* *
6173 AGGATTATTGCTTAATTTTAATCCTGGTTT
1 AGGATCATTGCTTTATTTTAATCCTGGTTT
6203 AGGATCATTGCTTTATTTTAATCC-GGATTT
1 AGGATCATTGCTTTATTTTAATCCTGG-TTT
* *
6233 AGGATTATTGCTTAATTTTAATCCTGGTTT
1 AGGATCATTGCTTTATTTTAATCCTGGTTT
* **
6263 AAGATCATTGCTTTATTTTAATCCTTCTTT
1 AGGATCATTGCTTTATTTTAATCCTGGTTT
**
6293 AGGATCATTGCTTTATTTTTAATTTTGGTTT
1 AGGATCATTGCTTTA-TTTTAATCCTGGTTT
* *
6324 AGGATCATTACTTTAGTTTAATCCTGGTTT
1 AGGATCATTGCTTTATTTTAATCCTGGTTT
* *
6354 AAGATCATTGCTTTATTTTAATCCTGATTT
1 AGGATCATTGCTTTATTTTAATCCTGGTTT
* *
6384 AGGATCATTGCTTTGTTTTAATCCTGGTTA
1 AGGATCATTGCTTTATTTTAATCCTGGTTT
6414 AGGAT-AGTTG-TTTCATTTTAATCCTGGTTT
1 AGGATCA-TTGCTTT-ATTTTAATCCTGGTTT
* *
6444 TGGATCATTGCTTTATTTTTAATCCTGGTTC
1 AGGATCATTGCTTTA-TTTTAATCCTGGTTT
*
6475 AGGATCATTGTTTTATTTTAATCCTGGTTT
1 AGGATCATTGCTTTATTTTAATCCTGGTTT
*
6505 AGGATCATTGCTTTATTTTAATCCTGGTTG
1 AGGATCATTGCTTTATTTTAATCCTGGTTT
*
6535 AGGATCGTTG-TTTCATTTTAATCCTGGTTT
1 AGGATCATTGCTTT-ATTTTAATCCTGGTTT
*
6565 CGGATCATTGCTTTATTTTTAATCCTGGTTT
1 AGGATCATTGCTTTA-TTTTAATCCTGGTTT
*
6596 AGGATCATTGCTTTATTTTAATCATGGTTT
1 AGGATCATTGCTTTATTTTAATCCTGGTTT
6626 AGGATCATTGCTTTATTTTAATCCTGGTTT
1 AGGATCATTGCTTTATTTTAATCCTGGTTT
*
6656 AGGATCATTG-TTTCAGTTTAATCCTGGTTT
1 AGGATCATTGCTTT-ATTTTAATCCTGGTTT
6686 AGGATCATTGCTT
1 AGGATCATTGCTT
6699 CATCAGTTAA
Statistics
Matches: 625, Mismatches: 67, Indels: 63
0.83 0.09 0.08
Matches are distributed among these distances:
29 13 0.02
30 458 0.73
31 92 0.15
32 1 0.00
33 2 0.00
34 1 0.00
35 4 0.01
36 5 0.01
37 5 0.01
38 4 0.01
39 39 0.06
40 1 0.00
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (30 bp):
AGGATCATTGCTTTATTTTAATCCTGGTTT
Found at i:6067 original size:39 final size:39
Alignment explanation
Indices: 6024--6129 Score: 135
Period size: 39 Copynumber: 2.7 Consensus size: 39
6014 GCTTCATTAT
6024 AATCCTGATTTAGGATATTTGCTTTATTAGTTTTATTCC
1 AATCCTGATTTAGGATATTTGCTTTATTAGTTTTATTCC
* * * *
6063 AATCCTGATTTAGGAT-TATTGTTTTGTCAGTTTTATTTC
1 AATCCTGATTTAGGATAT-TTGCTTTATTAGTTTTATTCC
*
6102 GATCCTGATTTAGGATCA-TTGCTTTATT
1 AATCCTGATTTAGGAT-ATTTGCTTTATT
6130 GTAATCCTGG
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
38 1 0.02
39 55 0.98
ACGTcount: A:0.22, C:0.12, G:0.15, T:0.51
Consensus pattern (39 bp):
AATCCTGATTTAGGATATTTGCTTTATTAGTTTTATTCC
Found at i:6139 original size:168 final size:169
Alignment explanation
Indices: 5855--6219 Score: 479
Period size: 168 Copynumber: 2.2 Consensus size: 169
5845 AATTTTATTT
* *
5855 TAATCCTGATCTAGGAT-TGTTGCTTT-TTCAGTTTTATCCCAATCCTGGTTTAGGATTATCGCT
1 TAATCCTGATTTAGGATAT-TTGCTTTATTCAGTTTTATCCCAATCCTGATTTAGGATTATCGCT
*
5918 TTATCAGTCTCATTTCGATCCGGATTGAGGATCATTGCTTCATTTCGATCCTGGTTAAGGATCAT
65 TTATCAGTCTCATTTCGATCCGGATTGAGGATCATTGCTTCATTTCAATCCTGGTTAAGGATCAT
* *
5983 TGCTTTATTTAAATTCTGGTTGAGGATCATTGCTTCATTA
130 TGCTTTATTTAAATCCTGGTTGAGGATCATTGCTTAATTA
* * *
6023 TAATCCTGATTTAGGATATTTGCTTTATT-AGTTTTATTCCAATCCTGATTTAGGATTATTGTTT
1 TAATCCTGATTTAGGATATTTGCTTTATTCAGTTTTATCCCAATCCTGATTTAGGATTATCGCTT
* * * * * * *
6087 TGTCAGTTTTATTTCGATCCTGATTTAGGATCATTGCTTTATTGT-AATCCTGGTTTAGGATCAT
66 TATCAGTCTCATTTCGATCCGGATTGAGGATCATTGCTTCATT-TCAATCCTGGTTAAGGATCAT
* * * * *
6151 TGCTTTGTTTTAATCCTGGTTTAGGATTATTGCTTAATTT
130 TGCTTTATTTAAATCCTGGTTGAGGATCATTGCTTAATTA
*
6191 TAATCCTGGTTTAGGATCA-TTGCTTTATT
1 TAATCCTGATTTAGGAT-ATTTGCTTTATT
6220 TTAATCCGGA
Statistics
Matches: 172, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
168 167 0.97
169 5 0.03
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.47
Consensus pattern (169 bp):
TAATCCTGATTTAGGATATTTGCTTTATTCAGTTTTATCCCAATCCTGATTTAGGATTATCGCTT
TATCAGTCTCATTTCGATCCGGATTGAGGATCATTGCTTCATTTCAATCCTGGTTAAGGATCATT
GCTTTATTTAAATCCTGGTTGAGGATCATTGCTTAATTA
Found at i:6390 original size:121 final size:121
Alignment explanation
Indices: 6103--6698 Score: 878
Period size: 121 Copynumber: 4.9 Consensus size: 121
6093 TTTTATTTCG
* * *
6103 ATCCTGATTTAGGATCATTGCTTTATTGTAATCCTGGTTTAGGATCATTGCTTTGTTTTAATCCT
1 ATCCTGGTTTAGGATCATTGCTTTATTTTAATCCTGGTTTAGGATCATTGCTTTATTTTAATCCT
* * *
6168 GGTTTAGGATTATTGCTTAATTTTAATCCTGGTTTAGGATCATTGCTTTA-TTTTA
66 GGTTTAGGATCATTGTTTCATTTTAATCCTGGTTTAGGATCATTGCTTTATTTTTA
* * *
6223 ATCC-GGATTTAGGATTATTGCTTAATTTTAATCCTGGTTTAAGATCATTGCTTTATTTTAATCC
1 ATCCTGG-TTTAGGATCATTGCTTTATTTTAATCCTGGTTTAGGATCATTGCTTTATTTTAATCC
** ** * *
6287 TTCTTTAGGATCATTGCTTT-ATTTTTAATTTTGGTTTAGGATCATTACTTTA-GTTTA
65 TGGTTTAGGATCATTG-TTTCA-TTTTAATCCTGGTTTAGGATCATTGCTTTATTTTTA
* * *
6344 ATCCTGGTTTAAGATCATTGCTTTATTTTAATCCTGATTTAGGATCATTGCTTTGTTTTAATCCT
1 ATCCTGGTTTAGGATCATTGCTTTATTTTAATCCTGGTTTAGGATCATTGCTTTATTTTAATCCT
* *
6409 GGTTAAGGAT-AGTTGTTTCATTTTAATCCTGGTTTTGGATCATTGCTTTATTTTTA
66 GGTTTAGGATCA-TTGTTTCATTTTAATCCTGGTTTAGGATCATTGCTTTATTTTTA
* *
6465 ATCCTGGTTCAGGATCATTGTTTTATTTTAATCCTGGTTTAGGATCATTGCTTTATTTTAATCCT
1 ATCCTGGTTTAGGATCATTGCTTTATTTTAATCCTGGTTTAGGATCATTGCTTTATTTTAATCCT
* * *
6530 GGTTGAGGATCGTTGTTTCATTTTAATCCTGGTTTCGGATCATTGCTTTATTTTTA
66 GGTTTAGGATCATTGTTTCATTTTAATCCTGGTTTAGGATCATTGCTTTATTTTTA
*
6586 ATCCTGGTTTAGGATCATTGCTTTATTTTAATCATGGTTTAGGATCATTGCTTTATTTTAATCCT
1 ATCCTGGTTTAGGATCATTGCTTTATTTTAATCCTGGTTTAGGATCATTGCTTTATTTTAATCCT
*
6651 GGTTTAGGATCATTGTTTCAGTTTAATCCTGGTTTAGGATCATTGCTT
66 GGTTTAGGATCATTGTTTCATTTTAATCCTGGTTTAGGATCATTGCTT
6699 CATCAGTTAA
Statistics
Matches: 425, Mismatches: 43, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
119 1 0.00
120 100 0.24
121 322 0.76
122 2 0.00
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.50
Consensus pattern (121 bp):
ATCCTGGTTTAGGATCATTGCTTTATTTTAATCCTGGTTTAGGATCATTGCTTTATTTTAATCCT
GGTTTAGGATCATTGTTTCATTTTAATCCTGGTTTAGGATCATTGCTTTATTTTTA
Done.