Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015844.1 Corchorus olitorius cultivar O-4 contig15877, 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: 39108
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Found at i:937 original size:32 final size:32
Alignment explanation
Indices: 896--956 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
886 AAATATGTTT
*
896 GAAAAATAAGGATATAATGGTCGATTCAATTA
1 GAAAAATAAGGATATAATAGTCGATTCAATTA
928 GAAAAATAAGGATATAATAGTCGATTCAA
1 GAAAAATAAGGATATAATAGTCGATTCAA
957 AAGTTTTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (32 bp):
GAAAAATAAGGATATAATAGTCGATTCAATTA
Found at i:5473 original size:331 final size:329
Alignment explanation
Indices: 4664--5474 Score: 858
Period size: 332 Copynumber: 2.5 Consensus size: 329
4654 ATATATATAT
* * *
4664 ATATATAATTCAACGCCAAAAAGATCG-AAGGTTTTTTCA--CTTTTAATATCGTTTTTC-ATTT
1 ATATATAATTCAACGCCAAAAAGAT-GAAAGGCTTTTTCACGCTTCTAATATCGTTTTCCTATTT
* * * * *
4725 TTTTCTGAATTAATTTCTGATTAAATCGATACAAGATTCAG-ATGCACATAAAAACAAATCGTTA
65 TTTTCCGAATTAATTTCTGATTAAATCAAAACAAGATTCAGAATTC-C-TAAAAACAAATCCTTA
* * * * *
4789 AATCCAATGTGGCTGAGATTTTATTAGATGAATAAAGATATCTCAAGGAGTCTTGGCGCCAAAAT
128 AAT-CAATGTGGCTGAGATTTGATTAAATGAATAAAGAAATCTCAAGGAGTCTTGACACCAAAAT
* * * **
4854 CATGCAAAACAGAGCCGTGGCCTTGGAACGCGTTTTTAGCCAAAAATCGTGATGGAACGTACACG
192 CATACAAAACAGAGCCGAGACCCCGGAACGCGTTTTTAGCCAAAAATCGTGATGGAACGTACACG
** * * *
4919 ATTTTGGCTAAAATTTTACAAAAATTGACCCGAAAGACATTTCCTCAATTTTTGACTGAAATACT
257 ATTTCAGCTAAAATTTTACAAAAATTAACCCGAAAAACATTTCCTCAATTTTAGACTGAAATACT
4984 CATAAAAA
322 CATAAAAA
* ** *** * * * *
4992 ATATATGATTTGATATCAAAAAGATTGAAGGGC-TTTTAACGCTTCTAATATTGTTTTTCCTCTT
1 ATATATAATTCAACGCCAAAAAGA-TGAAAGGCTTTTTCACGCTTCTAATATCG-TTTTCCTATT
* * * * * *
5056 TCTTTCCGAATTAATTTCTAATTATATCTAAACAAGATTCA-TATGCTCGTAAAAACAAATCCTT
64 TTTTTCCGAATTAATTTCTGATTAAATCAAAACAAGATTCAGAAT--TCCTAAAAACAAATCCTT
* * * *
5120 AAATCTAATGTGGCTAAGATTTGGTTAAATGAATATAGAAATTTCAAGGAGTCTTGACACCAAAA
127 AAATC-AATGTGGCTGAGATTTGATTAAATGAATAAAGAAATCTCAAGGAGTCTTGACACC-AAA
* * * * *
5185 ATCATACAAAACTGAGTC-AGACCCCGGAACGTGTTTTTAGCCGAAAA-CTGTGATGGTTA-GTA
190 ATCATACAAAACAGAGCCGAGACCCCGGAACGCGTTTTTAGCCAAAAATC-GTGATGG-AACGTA
* ** *
5247 CACGATTTCAGCTAAAATTTTCCAAAAATTAACCC-AAAAATTTTTTCCTCGATTTCTAG-C-GA
253 CACGATTTCAGCTAAAATTTTACAAAAATTAACCCGAAAAA-CATTTCCTCAATTT-TAGACTGA
*
5309 AATACTTATAAAAA
316 AATACTCATAAAAA
*
5323 ATATATAATTCAACGCCAAAAA-ATGAAAGCCTTTTTCACGCTTCTAATATCGTTTTACCTATTT
1 ATATATAATTCAACGCCAAAAAGATGAAAGGCTTTTTCACGCTTCTAATATCGTTTT-CCTATTT
* *
5387 TATTTCCAAATTAATTTCTGATTAAATCAAAACAAGATTTAGAAATTCCTAAAAACAAATCCTTA
65 T-TTTCCGAATTAATTTCTGATTAAATCAAAACAAGATTCAG-AATTCCTAAAAACAAATCCTTA
5452 AATACAATGTGGCTGAGATTTGA
128 AAT-CAATGTGGCTGAGATTTGA
5475 GCCGGACACT
Statistics
Matches: 390, Mismatches: 72, Indels: 39
0.78 0.14 0.08
Matches are distributed among these distances:
328 24 0.06
329 14 0.04
330 35 0.09
331 113 0.29
332 180 0.46
333 23 0.06
334 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.33
Consensus pattern (329 bp):
ATATATAATTCAACGCCAAAAAGATGAAAGGCTTTTTCACGCTTCTAATATCGTTTTCCTATTTT
TTTCCGAATTAATTTCTGATTAAATCAAAACAAGATTCAGAATTCCTAAAAACAAATCCTTAAAT
CAATGTGGCTGAGATTTGATTAAATGAATAAAGAAATCTCAAGGAGTCTTGACACCAAAATCATA
CAAAACAGAGCCGAGACCCCGGAACGCGTTTTTAGCCAAAAATCGTGATGGAACGTACACGATTT
CAGCTAAAATTTTACAAAAATTAACCCGAAAAACATTTCCTCAATTTTAGACTGAAATACTCATA
AAAA
Found at i:6082 original size:329 final size:325
Alignment explanation
Indices: 5494--6727 Score: 1180
Period size: 310 Copynumber: 3.8 Consensus size: 325
5484 TGGAACGCAT
* * * *
5494 TTTTAGCCTAAAAAACCATGATGGTACACGATTTTGGCTGAAATTTTGCAAAAATTAACCCGAAA
1 TTTTAG-C-AAAAAACCGTGATGGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAA
* * * *
5559 TATTTTTCTCAATTTTTAGCCACAATACTCATAAAAAAATAAAATTCAACGCCAAAAAGATTGAA
64 TATTTTTCTCAATTTTTAGCCACAACACTCATAAAAATATATAATTCAACACCAAAAAGATTGAA
* * * * *
5624 GGGCTTCTCACGCTTCTAATATCATTTTTCCTT-TTTTTTTCAAATTAATTTCTAATTAAATCGA
129 GGACTTTTCACGCTTCTAATATCGTTTTTCATTATTTTTCT-AAATTAATTTCTAATTAAATCGA
* * * * *
5688 AACATGATTCAAATGCTCGCAAAAACAAATCCTTAAAT-CAAGTGTGGCT-AAGGTTTGGTTAGA
193 AACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAA-TGTGGCTGAA-ATTTGATTAGA
* * * * *
5751 TGAATATAGATATTTCAAGGAGTTTTGCCACCGAAAATCATGCAAAACTGACTTGGGGCCCCGGA
256 TGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAC-TGGGGCCCCGAA
5816 ACGCGA
320 ACGCGA
* * *
5822 TTTTAACAAAAAAAACTGTGATGGTACACGATTTCGGCCAAAATTTTGCAAAAATTGACCCGAAA
1 TTTTAGC--AAAAAACCGTGATGGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAA
* *
5887 TATTTTGTCTCAATTTTCAGCCACAACACTCATAAAATATATATAATTCAACACCAAAAAGACTG
64 TATTTT-TCTCAATTTTTAGCCACAACACTCATAAAA-ATATATAATTCAACACCAAAAAGATTG
* *
5952 GAGGACTTTTCACGCTTTTAATATCGTTTTTCA-TATTTTTCTAAATTAATTTCTAATTAAATCG
127 AAGGACTTTTCACGCTTCTAATATCGTTTTTCATTATTTTTCTAAATTAATTTCTAATTAAATCG
* *
6016 AAACAAGATTCAGAGGCTCGTAAAAACAAATCCTTAAATTCAATGTGGCTGAAATTTGATTAGAT
192 AAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAAATTTGATTAGAT
* * ** * *
6081 GAATATAGATATTTCAAGAAGTCTCGGCGTAAAAAATCATGCAAAACTAAACCT-GGGCCTCGAA
257 GAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACT-GA-CTGGGGCCCCGAA
*
6145 ACGCGT
320 ACGCGA
* * * *
6151 TTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCAGCTAAAATTTTGCAAAAGTTGACCCGA
1 TTTTAGCAAAAAACCGTGAT-G---GTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGA
* * *
6216 AAAATTTTTCTGACAATTTTT-G---------GC-T---AA-A-AT-ATT---CA-TAAAAAGAT
62 AATATTTTTCT--CAATTTTTAGCCACAACACTCATAAAAATATATAATTCAACACCAAAAAGAT
* * * *
6260 TGGAA-AACTTTTCACGCTTTTAATATCGTTTTT-ATTATTTTTCTGAATTAATTTTTAATTAAA
125 T-GAAGGACTTTTCACGCTTCTAATATCGTTTTTCATTATTTTTCTAAATTAATTTCTAATTAAA
* * * * * * *
6323 TCGAAATAAGATTCAGATGTTCATAAAAACAAATTCTTAAATCCAATTTTGCTGATATTTGATTA
189 TCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAAATTTGATTA
* * * * * *
6388 GATGAATATGGATATCTCAAAGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGTGGTCCCG
254 GATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGA-CTGGGGCCCCG
6453 AAACGCGA
318 AAACGCGA
* * * * * * * *
6461 TTTTAGCCAAAAACCGTGATGATTATCAAGCAATTTTGGCTAGAATTTTACAAAAATTGTCTCGA
1 TTTTAGCAAAAAACCGTGATG-GTA-C-A-CGATTTCGGCTAAAATTTTGCAAAAATTGACCCGA
* * * * ** *
6526 AAGT-TATTTCCTCAATTTTTAACCACAACACTCATTAAAATTATATAATTCGATGCCAATAAGA
62 AA-TAT-TTTTCTCAATTTTTAGCCACAACACTCA-TAAAAATATATAATTCAACACCAAAAAGA
* * * *
6590 TTGAAGGGCTTTTCATGCTTCTAATATCGTTTTTCCTATTATTTTTC-GAATTAATTTCTGATTA
124 TTGAAGGACTTTTCACGCTTCTAATATCGTTTTT-C-ATTATTTTTCTAAATTAATTTCTAATTA
* * *** * * *
6654 AATCGAAACATGATTCAGATGCTTGTTTTAA-AAATCCTTAAATCCAATGTGACTGAGATTTGGT
187 AATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAAATTTGAT
6718 TAGATGAATA
252 TAGATGAATA
6728 CCGGGATCCC
Statistics
Matches: 741, Mismatches: 117, Indels: 92
0.78 0.12 0.10
Matches are distributed among these distances:
307 3 0.00
308 1 0.00
309 13 0.02
310 222 0.30
311 9 0.01
314 3 0.00
315 2 0.00
316 1 0.00
317 1 0.00
318 1 0.00
319 1 0.00
321 2 0.00
322 1 0.00
324 1 0.00
325 1 0.00
326 2 0.00
327 14 0.02
328 62 0.08
329 162 0.22
330 69 0.09
331 78 0.11
332 44 0.06
333 38 0.05
334 10 0.01
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (325 bp):
TTTTAGCAAAAAACCGTGATGGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAATA
TTTTTCTCAATTTTTAGCCACAACACTCATAAAAATATATAATTCAACACCAAAAAGATTGAAGG
ACTTTTCACGCTTCTAATATCGTTTTTCATTATTTTTCTAAATTAATTTCTAATTAAATCGAAAC
AAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAAATTTGATTAGATGAAT
ATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGACTGGGGCCCCGAAACGCGA
Found at i:7773 original size:330 final size:329
Alignment explanation
Indices: 6860--8391 Score: 1178
Period size: 330 Copynumber: 4.7 Consensus size: 329
6850 CATAATATAT
** * * * * * *
6860 ACGCCAAAAAGATTTCAGGACTTTTCACACTTTTAATATTGTTTTTCATATTTTTCTGAATTAAT
1 ACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATA-TCTTTTTCATATTTTTTTAAATTAAT
* * *
6925 TTCAAATTAAATCAAAACAAGATTCAGATGCTCGTAAAAACACATCCTTAAATGCAATGTGGCTG
65 TTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA-AAATCCTTAAATGCAATGTGGCTG
* * * * *
6990 AGATTTGATTAGATAAATATAGAT-TTTCCAAGGAGTCTCGACGCCAAAAATAATGCAATACTGA
129 AGATTTGATTAGATGAATATAGATATTT-CAAGGAGTGTTGACGCCAAAAATCATGCAAAACTGA
** ** * * * * * *
7054 GTCGGGG-CCCAAAACACGTTTTTAGC-AAAAAAAAAGTCGTGATGGTGAACACGATTTCTGCTA
193 CCCGGGGCCCCGGAACACGGTTTTGGCAAAAAAAAAACT-GTGAT-AT-TACACGATTTCGGCTA
* * * * * * *
7117 AAATTTTGCAAAAAATGACCATAAAAGT-TTTCCCTCAATTTTGA-CTAAAATACTCATGAAAAT
255 AAATTTTGCAAAAATTGACCAAAAAAATATTT-CCTCAATTTTTAGCCAAAATACTAAT-AAAAA
**
7180 ATATATAATTTA
318 ATATATAATTCG
** * * *
7192 ATACCAAAAAGATTGGAGGAGGACTTTTCACGCTTTTCATATCGTTTTTCATATTTTTTTTTTAA
1 ACGCCAAAAAGATT-GA--AGGGCTTTTCACGCTTCTAATATC-TTTTTCATA---TTTTTTTAA
* * ** * * *
7257 ATTAATTTGTAATTAAATCAAAACAAGAAACAGATGCTCGTAAAAACAAATCATTAAATACAGTG
59 ATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA-AAATCCTTAAATGCAATG
* * * ** * * * *
7322 TGGATGAGATTTGTTTAGATTAATACGGATATCTCAAGGATTGTTAACACCAAAAATCATGCAAA
123 TGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTGTTGACGCCAAAAATCATGCAAA
** * * **** * *
7387 ACTGACATGGGG-CCCTGAA-ACGTGTTTT--TAACCTGAAACCGTGACGATTATTACACGATTT
188 ACTGACCCGGGGCCCCGGAACACG-GTTTTGGCAAAAAAAAAAC-TG-TGA-TATTACACGATTT
* * * *
7448 CGGCTAAAATTTTGCAAAAATTGACCGAAAAAAATATTTCATCATTTTTTGGCTAAAATACTAAT
249 CGGCTAAAATTTTGCAAAAATTGACC-AAAAAAATATTTCCTCAATTTTTAGCCAAAATACTAAT
7513 AAAAAAATATATAATTC-
313 -AAAAAATATATAATTCG
* * * * **
7530 ATCGCCAAAAATATTGAAGGGTTTTTTACGCTTCT-A-AT-TTTTTCCTACTTTTTCCAAATTAA
1 A-CGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCTTTTTCATA-TTTTTTTAAATTAA
* * *
7592 TTTCTAATTAAATCGAAACAAGATTTAGATGCTCGTTAAAAAAAATCCTTAATTCCAATGTGGCT
64 TTTCTAATTAAATCGAAACAAGATTCAGATGCTCG-TAAAAAAAATCCTTAAATGCAATGTGGCT
* * * * *
7657 GAGATTTGATTAGATGAATATAGATATTT-ACATGATTTTTTACGCCGAAAATCATGCAAAACTG
128 GAGATTTGATTAGATGAATATAGATATTTCA-AGGAGTGTTGACGCCAAAAATCATGCAAAACTG
** * *
7721 ACCCGGGGCCCCGGAATGCGGTTTTGGCAAAAAAAAAACTGTGATGTTACACGATTTCGGCTAAT
192 ACCCGGGGCCCCGGAACACGGTTTTGGCAAAAAAAAAACTGTGATATTACACGATTTCGGCTAAA
* * * * * * *
7786 ATTTTGCAAAAAATTGACCCAGAATATTTTTCCTCAACTTTTAGCCACAATACTCATAAAAAATA
257 ATTTTGC-AAAAATTGACCAAAAAAATATTTCCTCAATTTTTAGCCAAAATACTAATAAAAAATA
7851 TATAATTCG
321 TATAATTCG
* *
7860 ACGCCAAAAAGATTGAAGGGCTTTTCATGCTTCTAATATCATTTTTCTTATTTTTTTTTAAATTA
1 ACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATC-TTTTTC--ATATTTTTTTAAATTA
* * * * **
7925 AATTCTAATTAAAACGGAACATGATTCAGATG--C-T--------T--TTAAAAACAA--TGGCT
63 ATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAATCCTTAAATGCAATGTGGCT
* * * * * *
7975 G-GAATTTGGTTATACGAATATAGATATTTCAAGGAGT-TTCGGCGCCAAAAATAATTCAAAACT
128 GAG-ATTTGATTAGATGAATATAGATATTTCAAGGAGTGTT-GACGCCAAAAATCATGCAAAACT
* * * * * **** * * *
8038 GAACC-GGGCGCCGGAACGCGTTTTTAGTCAAAAATCGTGA-TAT-TTATTACACGATTTCGACT
191 GACCCGGGGCCCCGGAACACGGTTTT-GGCAAAAA-AAAAACTGTGATATTACACGATTTCGGCT
* ** * * * *
8100 AAAATTTTGCAAAAGTTGACCTGAAAGATATTTCTTCAATTTTTATCCATAATACTCAAT---AA
254 AAAATTTTGCAAAAATTGACCAAAAAAATATTTCCTCAATTTTTAGCCAAAATACT-AATAAAAA
8162 ATATATAATTCG
318 ATATATAATTCG
* * * *
8174 ACGCCAAAAAGATTGAAGGGATTTTCGCGCTTTTAATATCGTTTTTCATATTTTTTCAGAATTAA
1 ACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATC-TTTTTCATATTTTTTTA-AATTAA
* ** *
8239 TTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAACAAATCCTTAAATGCAATGTTACTA
64 TTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAATCCTTAAATGCAATGTGGCTG
* *
8304 AGATTTTATTAGATGAATATAGATATTTCAAGGAGTGTTTG-TGCCAAAAATCATGCAAAACTGA
129 AGATTTGATTAGATGAATATAGATATTTCAAGGAGTG-TTGACGCCAAAAATCATGCAAAACTGA
* * * *
8368 GCGGGGGCCCCGAAACACGTTTTT
193 CCCGGGGCCCCGGAACACGGTTTT
8392 TAGTCAAAAA
Statistics
Matches: 951, Mismatches: 192, Indels: 117
0.75 0.15 0.09
Matches are distributed among these distances:
312 9 0.01
313 33 0.03
314 56 0.06
315 1 0.00
316 37 0.04
317 47 0.05
318 64 0.07
319 2 0.00
320 7 0.01
322 1 0.00
324 1 0.00
326 8 0.01
328 54 0.06
329 65 0.07
330 176 0.19
331 32 0.03
332 25 0.03
333 12 0.01
334 41 0.04
335 31 0.03
336 14 0.01
337 41 0.04
338 152 0.16
339 42 0.04
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (329 bp):
ACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCTTTTTCATATTTTTTTAAATTAATT
TCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAATCCTTAAATGCAATGTGGCTGAG
ATTTGATTAGATGAATATAGATATTTCAAGGAGTGTTGACGCCAAAAATCATGCAAAACTGACCC
GGGGCCCCGGAACACGGTTTTGGCAAAAAAAAAACTGTGATATTACACGATTTCGGCTAAAATTT
TGCAAAAATTGACCAAAAAAATATTTCCTCAATTTTTAGCCAAAATACTAATAAAAAATATATAA
TTCG
Found at i:9619 original size:2 final size:2
Alignment explanation
Indices: 9612--9659 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
9602 AGATAGTAAG
* * *
9612 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9654 AT AT AT
1 AT AT AT
9660 GTTACATTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9783 original size:42 final size:42
Alignment explanation
Indices: 9730--9810 Score: 137
Period size: 42 Copynumber: 1.9 Consensus size: 42
9720 TCTCTCTGAC
*
9730 GTTCCTATTTAATTG-TCTACTTTTGGTCAAAACATCCTCTCT
1 GTTCCCATTTAATTGTTC-ACTTTTGGTCAAAACATCCTCTCT
9772 GTTCCCATTTAATTGTTCACTTTTGGTCAAAACATCCTC
1 GTTCCCATTTAATTGTTCACTTTTGGTCAAAACATCCTC
9811 ATCTTTGATC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
42 35 0.95
43 2 0.05
ACGTcount: A:0.22, C:0.25, G:0.10, T:0.43
Consensus pattern (42 bp):
GTTCCCATTTAATTGTTCACTTTTGGTCAAAACATCCTCTCT
Found at i:10157 original size:26 final size:26
Alignment explanation
Indices: 10121--10172 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
10111 TGTATTCTAT
10121 TTCAATATCATGTTTATAAATAGCAA
1 TTCAATATCATGTTTATAAATAGCAA
10147 TTCAATATCATGTTTATAAATAGCAA
1 TTCAATATCATGTTTATAAATAGCAA
10173 AAACATCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (26 bp):
TTCAATATCATGTTTATAAATAGCAA
Found at i:18869 original size:15 final size:17
Alignment explanation
Indices: 18838--18869 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18828 AACTTGCGGG
18838 TAAAGAGTGGGGAGGAA
1 TAAAGAGTGGGGAGGAA
18855 TAAAGAG-GGGG-GGAA
1 TAAAGAGTGGGGAGGAA
18870 GGAAGTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.50, T:0.09
Consensus pattern (17 bp):
TAAAGAGTGGGGAGGAA
Done.