Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01012854.1 Corchorus olitorius cultivar O-4 contig12887, 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: 28409
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Found at i:4424 original size:24 final size:24
Alignment explanation
Indices: 4397--4445 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
4387 TAATACTTTA
4397 CATGTTTAAAAATTGGTCTTTTGT
1 CATGTTTAAAAATTGGTCTTTTGT
4421 CATGTTTAAAAATTGGTCTTTTGT
1 CATGTTTAAAAATTGGTCTTTTGT
4445 C
1 C
4446 GAGGTTGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.49
Consensus pattern (24 bp):
CATGTTTAAAAATTGGTCTTTTGT
Found at i:5805 original size:332 final size:330
Alignment explanation
Indices: 4601--9741 Score: 3317
Period size: 333 Copynumber: 15.5 Consensus size: 330
4591 ATAAAAAAAA
* *
4601 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTAG-AAAAATAAGAAA
1 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAA
* * * **
4665 TACGATATTAAAAGCGTGAAAAGCCCTCCAATCATTTTGAAGTTGAATTATATA-TTTTTATGAG
66 AACGATATTAAAAGCGTGAAAA-CCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAG
*
4729 TATTTTAGCCAAAAATT---G----A--------GTCAATTTTT-CTAAAATTTTAGCAGAAATC
130 TATTTTAGCCAAAAATTGAGGAAATATCTTTCGGGTCAATTTTTGC-AAAATTTTAGCCGAAATC
* * * * * * * *
4778 ATGTACTAACTAACCATTACAGTTTTTGGCTAAAAAAGCGTTGC-GGAGACCCGTCTCAATTTTG
194 --GT-GTAA-TAATCATCACAGTTTTTGGCTAAAAACGCGTTTCAGG-GCCCCGACTCAGTTTTG
* * * * ** * *
4842 CATGATTTTCGCCTCCGAGGTTACTTGAAATATCCATATTCATCTAATCAAATCTCAGCCACATT
254 CATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATT
4907 GCATTTAAGAATT
319 GCATTTAAG-ATT
* * *
4920 TGTTTTTACGAGCATCTGAATATTGTTTCGATTTAATTAGAAATTAATT-AGGAAAAATAGGAAA
1 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAA
* * * * *
4984 AAAGATATTAGAAA-CGTCAAAAGCCGTTCAATCCTTTTGGCGTTGAAATATATA-TTTTTATGA
66 AACGATATTA-AAAGCGTGAAAA-CCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGA
*
5047 GTATTTTAGCCAAAAA-T---GAAATATCTTT-GGAGTCAATTTTTACAAAATTTTAGCCGAAAT
129 GTATTTTAGCCAAAAATTGAGGAAATATCTTTCGG-GTCAATTTTTGCAAAATTTTAGCCGAAAT
* * * * ** *
5107 CGTGTAATAACCATCACAGTTTTTGGCTAAAAAAGTGTTTC-GTGACCCCGGTTGAGTTTTGCAT
193 CGTGTAATAATCATCACAGTTTTTGGCTAAAAACGCGTTTCAG-GGCCCCGACTCAGTTTTGCAT
* * * *
5171 GATTTTTGGAGCCAAGACTCCTTGAGATATCCATATTCATCTAATCAAATCTCAGCCACATTGGA
257 GATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGCA
5236 TTTAAGAATT
322 TTTAAG-ATT
* * * * *
5246 TGATTTTACGAGCATATGAATCTCGTTTCGATTTAATTAAAAATTAATTCAAAAAAATATATGAA
1 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAA-ATATGAA
* * * ** * *
5311 CAACGATATCAAAAGCGTGAAAAGTCC-TCAAATCTTTTTTACGTTAAATTATATATATTTTATG
65 AAACGATATTAAAAGCGTGAAAA-CCCTTC-AATCTTTTTGGCGTTGAATTATATATTTTTTATG
* * * * * *
5375 AGTATTTTATCCAAGAATTGAGGAAA-ATTTGTTCCGGTC-ATTTATTGCAAAATTTTAGTCAAA
128 AGTATTTTAGCCAAAAATTGAGGAAATATCT-TTCGGGTCAATTT-TTGCAAAATTTTAGCCGAA
* *
5438 ATCGTGTACTAACCATCAC-GATTTTTGGCTAAAAACGCGTTTCAGGGCCCCGACTCAGTTTTGC
191 ATCGTGTAATAATCATCACAG-TTTTTGGCTAAAAACGCGTTTCAGGGCCCCGACTCAGTTTTGC
* * * * * *
5502 ATGATTTTTGGCGCCGAGATTCCCTGAAATATCTATATTCATCTAATAAAATCTTAGCCAGATTG
255 ATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTG
*
5567 CATTTGAAGATA
320 CATTT-AAGATT
* *
5579 TGTTTTTACGAGCATTTGAATCTTGATTT-AATTTAATTAGAAATTAATTCAGAAAAAATATGAA
1 TGTTTTTACGAGCATCTGAATCTTG-TTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAA
* * * * *
5643 AAACGATATGAAAAGTGTGAAAACTCCTTCAATCTTTTTGGCATTGAATTTTATATTTTTAATGA
65 AAACGATATTAAAAGCGTGAAAAC-CCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGA
* * * * *
5708 GTATTGTGGCTAAAAATTGAGTG-GATATCTTTCGGGTCAATTTTTGCAAAATTTTAGACGAAAT
129 GTATTTTAGCCAAAAATTGAG-GAAATATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAAT
* * * **
5772 CATGTAATAATCATCACAGTTTTTGGCTAAAAACGCG-TTCCGGGGCCCGGTTCAGTTTTGCATG
193 CGTGTAATAATCATCACAGTTTTTGGCTAAAAACGCGTTTCAGGGCCCCGACTCAGTTTTGCATG
* * * *
5836 ATTTTTTGTGCCGAA-ACTCCTTGAAATATTTATATTCATCTAACCAAA--T---CC-CA--GC-
258 ATTTTTGGCGCC-AAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGCA
*
5891 -----CA-T
322 TTTAAGATT
* * * * *
5894 TGTTTTTACAAGCATCAGAATCATGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAAATAGGA
1 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC--AGAAAAAATATGA
* *
5959 AACAACGATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTAGCGTTGAATTATATATTTTTTAT
64 AA-AACGATATTAAAAGCGTGAAAA-CCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTAT
* * * * * * **
6024 GAGTACTGTGGCCAAAACA-TGAGGAAAAATATTTCGGGTCAACTTTTGCAAAACATTAGCCGAA
127 GAGTATTTTAGCCAAAA-ATTGAGGAAATATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAA
* ** ***** * * * *
6088 ATCTTGT-ACCATCATGGTTTTTTTTTGTTGCTAAAAACGCGTTCCGGGGCCCC-AGGTCGGTTT
191 ATCGTGTAATAATCAT-CACAGTTTTTG--GCTAAAAACGCGTTTCAGGGCCCCGA-CTCAGTTT
* * * *
6151 TACATGATTTTTGGCGTCAAGACTCCTTGAAATATCTATATTCATTTAATCAAATCTCAGCAACA
252 TGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACA
*
6216 TTGGATTTAAGGATT
317 TTGCATTTAA-GATT
* * * * * *
6231 TGTTTTTTCAAGAATCT-AATTCTTGATTT-GATTTAATATATAAGAAATTAATT-TGGAAAAGT
1 TGTTTTTACGAGCATCTGAA-TCTTG-TTTCGATTT-A-AT-T-AGAAATTAATTCAGAAAAAAT
* * * * * *
6293 AGGAAAAACGATATTAGAAGCGTAAAAAACCCTTCAGTATTATTGGCGTTGAATTATATATTTTT
60 ATGAAAAACGATATTAAAAGCGT-GAAAACCCTTCAATCTTTTTGGCGTTGAATTATATA-TTTT
* * * * *
6358 TTATGAGTATTTCACCCAAAAAATGAGGAAATTTCTTTCGGGTCAATTTTTGCAAAATATTAGCC
123 TTATGAGTATTTTAGCCAAAAATTGAGGAAATATCTTTCGGGTCAATTTTTGCAAAATTTTAGCC
* * * * *
6423 GAAATCGTGTAATAATCATCACGGTTTTTTTTTTTGCTAAAAAGGCGTTCCATGGCCCCGGA-TC
188 GAAATCGTGTAATAATCATCACAG-----TTTTTGGCTAAAAACGCGTTTCAGGGCCCC-GACTC
* * * * *
6487 AGTTTTGTATGATTTTTGGCACCAAGACTCCTTGAGATATCCATATTCATCTAATTAAATCTCAG
247 AGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAG
* *
6552 CCACATTCCATTTAAGAAT
312 CCACATTGCATTTAAGATT
* * * *
6571 T-TTTTTATGAGCATGTGAATCTTATTTTGATTTAATTAGAAATTAATTCAGAAAAAAATATGAA
1 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAG-AAAAAATATGAA
* * * * ** *
6635 AAACGATATGAAAAGCGTGAAAAGTCC-TCTGATCTTTTTGGCGTTAAATTATATACATTTCATG
65 AAACGATATTAAAAGCGTGAAAA-CCCTTC-AATCTTTTTGGCGTTGAATTATATATTTTTTATG
* ** **
6699 AGTAATTTAGCCAAAAATTGAGGTAAGGATCTTT-GGGTCTTTTTTTGCAAAATTTTAGCCGAAA
128 AGTATTTTAGCCAAAAATTGAGG-AAATATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAA
* * * * ** * * * **** * *
6763 TCG-ATATTTTATGAGGAAAAATATTTCTGGCCAATTTTTGCAAAATATT-A--G--CCGAAATC
192 TCGTGTA-ATAATCA-TCACAGT-TTT-TGGCTAA-AAACGC---GT-TTCAGGGCCCCG-ACTC
* * ** * * * * ** **** *
6822 -GTGTTAGTCGAAATTACGGTTTTTGGC-TAAAAACGCATTTCG-GA-GCCCCGGTTCAGTGTTG
247 AGT-TT--T-G-CA-T--GATTTTTGGCGCCAAGACTC-CTT-GAAATATCTATATTCA-T-CT-
* * * * * * * *
6883 CATGATATTTTGC-GCCGAGACT-C-CTTAAAATAT
299 AATCA-AATCT-CAGCC-ACATTGCATTTAAGAT-T
* * * * * * * *
6916 CTATATTTATCTAAGCAAATCTCAGTCACATTGTATTTAAGGATTTGTAA-AACAAGCATTTGAA
1 -TGTTTTTA-C-GAGC--ATCTGAAT--C-TTG--TTT--CGA-TT-TAATTAGAA--A-TT-AA
*** * * * * *
6980 -TCATGTTTCGATTTAAT-TAGAAATTAATTCGGAAAATAATAAGAAAAACGAT-ATTTGAAGCA
48 TTCA------GAAAAAATAT-GAAA--AA--C-G---AT-AT--TAAAAGCG-TGA---AAACCC
** * ******* *** *
7042 TGAAAAGCCCTTCAAAATTTTTGGCGTTGAATTATATATTTTTTATGAGTATTGCGGCTAAAAAT
91 T-TCAA--TCTTTTTGGCGT-------TGAATTATATATTTTTTATGAGTATTTTAGCCAAAAAT
* ** *
7107 TGAGAAAATAAATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAATCATCACG
146 TGAGGAAATATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAATCATCACA
* * * * *
7172 GTTTTTTGGCTAAAACCGCG-TTCCGGGTCCC-AGCTAAGTTTTGCATGATTTTTGGCGTCAAGA
211 G-TTTTTGGCTAAAAACGCGTTTCAGGGCCCCGA-CTCAGTTTTGCATGATTTTTGGCGCCAAGA
* * * * * * * *
7235 CTCTTTGAGATATCCATATTCATCTAATCAAATTTCAGCTACGTTGGATTTAGAAATT
274 CTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGCATTTA-AGATT
* * ** *
7293 T-TTGTTTACGAGTATCTGAATCTTGTTTCGATTTAATTAGAAATTCATTTGGAAAGAATA-GAA
1 TGTT-TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATG-A
*
7356 AAAACGATATTAGAAA-CGTCAAAAGCCCTTCAATCTTTTTGGCGTTGAAATATATATATATATA
64 AAAACGATATTA-AAAGCGTGAAAA-CCCTTCAATCTTTTTGGCGTTG--A-AT-TATATAT-T-
* * * * *
7420 TATTTATAAGTATTTTAGCCAAAAATTGAGGAAAAATATTTCCGGTCAATTTTTACAAAATTTTA
121 T-TTTATGAGTATTTTAGCCAAAAATTGAGGAAATATCTTTCGGGTCAATTTTTGCAAAATTTTA
* * * * * * *
7485 GCCGAAATCGTGAAATAACCATCACAGTTTTTCGCTGAAAA-GCTTTTC-GGGACCCGTCTCAGT
185 GCCGAAATCGTGTAATAATCATCACAGTTTTTGGCTAAAAACGCGTTTCAGGGCCCCGACTCAGT
* * * * * *
7548 TTTGCATGATTTCTAGCACCAAGACTCCTTAAAATATCTTTATTCATCGAATCAAATCTCAGCCA
250 TTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCA
*
7613 CATTGGATTTAAGGATT
315 CATTGCATTTAA-GATT
* * *
7630 TGTTTTTATGTGCATCTGAATCTTGTTTCAATTTAATTAGAAATTAATTCA-AAAAAATATGAAA
1 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAA
* * * * * * * *
7694 AATGATAATAAAAGCGTGAAAAGTCCTCCAATATTTTTGG-GTTTAAATTATATATATTTTAAGA
66 AACGATATTAAAAGCGTGAAAA-CCCTTCAATCTTTTTGGCG-TTGAATTATATATTTTTTATGA
* ** * * *
7758 GTATTTTATCCAAAAATTGTTGAAAAATTTTTTGGGT-AATTTTTTGCAAAATTTT------AA-
129 GTATTTTAGCCAAAAATTGAGGAAATATCTTTCGGGTCAA-TTTTTGCAAAATTTTAGCCGAAAT
* * * * * *
7815 C----------CATCACGGATTTTGGCTAAAAACGCGTTTCGGGGACTCGGCTCAGTTTTGCATG
193 CGTGTAATAATCATCACAGTTTTTGGCTAAAAACGCGTTTCAGGGCCCCGACTCAGTTTTGCATG
* * * * *
7870 CTTTTTGGCCCCGAGACTCCTTGAAATATCTATATTCATCTAATAAAATCTTAGCCACATTGCAT
258 ATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGCAT
7935 TTAAGGATT
323 TTAA-GATT
* *
7944 TTTTTTTACGAGCATATGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAAAAATATG
1 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAG---AAAAAATATG
* * * * *
8009 AAAAACGATATTTAAAGGGT-AAAAGGACATTCAATCTTTTTGGCATTGAATTATATATTTTTTA
63 AAAAACGATATTAAAAGCGTGAAAA--CCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTA
* * * * *
8073 TGAGTATTGTGGCTAAAAATTGAGCAAATATTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAA
126 TGAGTATTTTAGCCAAAAATTGAGGAAATATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAA
* * * *
8138 ATCCTGTAATAATCATCACAGTTTTTGGCTAAAAACGCG-TTCTAGTG-CCTGATTCAGTTTTGC
191 ATCGTGTAATAATCATCACAGTTTTTGGCTAAAAACGCGTTTC-AGGGCCCCGACTCAGTTTTGC
* * *
8201 ATGATTTTTGGCGCCGAGACACCTTGAAATATCTATATTCATCTAACCAAATCT------CA--G
255 ATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTG
8258 C-----A-A-T
320 CATTTAAGATT
* * * * *
8262 TGTTTTTACGAGCATCTGGATCATGTTTCGATTTAATTAGAAATTAATTTAGAAAAAATAGGAAC
1 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAA
* * * * *
8327 AACGATATTAGAAGCGCGAAAAGCCTTTAAATCTTTTTGGCGTTGAATTATATA-TTTTTATGGG
66 AACGATATTAAAAGCGTGAAAA-CCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAG
* * * *
8391 TATTTTATCCAAAAATTGAGGAAAAATATTTCGGGTCAATTTTTGCAAAATATTAGCCGAAATCG
130 TATTTTAGCCAAAAATTGAGGAAATATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCG
* * * ** * **
8456 TG---T-ACCATCACGGTTTTTTGGCAAAAAAACGCAATCCAGGGCCCCGGGTCAGTTTTGCATG
195 TGTAATAATCATCACAG-TTTTTGGC-TAAAAACGCGTTTCAGGGCCCCGACTCAGTTTTGCATG
* * * * * * * * * *
8517 ATTTTTTGTGGCAAAACTCCTTGAAATGTCTTTATTTATCTAACCAAATCTGAGCCACATTGGAT
258 ATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGCAT
8582 TTAAAGATT
323 TT-AAGATT
* * * * * * * * *
8591 TGATTTTACGAGCATTTTAATCATGTGTCGATTTAATTTGAAATTAATT-TGAAAAATAATAGGC
1 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAG-AAAA-AATATGA
* * *
8655 AAAACGATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAATTATATA-TTTTTATC
64 AAAACGATATTAAAAGCGTGA-AAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATG
* * * * * *
8719 AGTATTGTGGCTAAAAATTGAGAAAATAT-TTT-GAGTCAATTTTTGCAAAATTTTAGCAGAAAT
128 AGTATTTTAGCCAAAAATTGAGGAAATATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAAT
* * * * ** *
8782 --TGT-GT-ATCATTACAGTTTTTTGGCTAAAAGCGCGTTTCGGGGCTTC-AGGTCAGTTTTGCA
193 CGTGTAATAATCATCACAG-TTTTTGGCTAAAAACGCGTTTCAGGGCCCCGA-CTCAGTTTTGCA
* * * * * *
8842 TGATTTTTTGCACCAAGACTCCTTAAATTATATCTATATTCATTTAACCAAATCTCGGCCACATT
256 TGATTTTTGGCGCCAAGACTCCTTGAA--ATATCTATATTCATCTAATCAAATCTCAGCCACATT
*
8907 GTATTTAAGGATT
319 GCATTTAA-GATT
* * * * * * * *
8920 TGTTTTTTCAAGTATCTAAATCTTATTTCGATTTAATCAGAAATTAATTTAGAAATAAA-ATAGG
1 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAA-AAATAT-GA
* * * * * * *
8984 AAAACGATATTAGAAGTGTGAAAAAGGCTTTGAATTTTTTTGGCATTGAATTATAT-TTTTTTAT
64 AAAACGATATTAAAAGCGTG-AAAA-CCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTAT
* * * *
9048 GAGTATTTTCGCTAGAAAA-TGAGGAAAAATCTTTCGGGTCAATTTTTGTAAAATTTTAGCCGAA
127 GAGTATTTTAGCCA-AAAATTGAGGAAATATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAA
* * ** * * * * * *
9112 ATCGTTTACT-ATCCATCATGGTTTTCGACTAAAAACGCGTTCCGGGGCCCAG-CTCAGTTTTGA
191 ATCGTGTAATAAT-CATCACAGTTTTTGGCTAAAAACGCGTTTCAGGGCCCCGACTCAGTTTTGC
* * * *
9175 ATGATTTTTGGTGTCAAGAGTCCTTGAAATATC--TA---A-C----CAAATCTCAGCCTCATTG
255 ATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTG
*
9230 GATTTAAGGATT
320 CATTTAA-GATT
* * * * *
9242 TGTTTTTACGAGCATTTGCATCTTGTTTCGATTTAATTAGAAATTAATTCGGGGAAAAAAAAAGA
1 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC--AGAAAAAATATGA
* * * ** * *
9307 AAAACAATAGTAAAAGCGTTAAAAGCCCTTCAATCATTTTT-ATGTCGAATTATATATTTTTTTT
64 AAAACGATATTAAAAGCGTGAAAA-CCCTTCAATC-TTTTTGGCGTTGAATTATATATTTTTTAT
* * * * **
9371 GAATATTTTAACCAAAAATTGAGGAAATATCTTTTGGCTCAATTTTTATAAAATTTTAGCCGAAA
127 GAGTATTTTAGCCAAAAATTGAGGAAATATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAA
* * * * * *
9436 TCGTGTATTAACCATCATAGTTTTTGGCT-AAAACGCG-TTCCGAGGCCACGTCTCTA-TTTTGC
192 TCGTGTAATAATCATCACAGTTTTTGGCTAAAAACGCGTTTCAG-GGCCCCGACTC-AGTTTTGC
* * * * * * *
9498 ATGATTTTTTGCGCCAATAATCCTTGAAATATCTTTATTCATCTAATCAATTCTCAGCTATATTG
255 ATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTG
*
9563 GATTTAAGGATT
320 CATTTAA-GATT
* * *
9575 TGTTTTTAC-ATGCCTCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAAATCTAA
1 TGTTTTTACGA-GCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAG-AAAAAATATGA
* * ** * *
9639 AAAACGATATTAAAAGCGTGAAAAATCCTCCAATCTTTTTTCCGTTGAATTATATATATATTATG
64 AAAACGATATTAAAAGCGTG-AAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATG
*
9704 AGTACTTTT-GCCAAAAATTGAGGAAAAATCTTTCGGGT
128 AGTA-TTTTAGCCAAAAATTGAGGAAATATCTTTCGGGT
9742 TATTTTTACC
Statistics
Matches: 3777, Mismatches: 737, Indels: 603
0.74 0.14 0.12
Matches are distributed among these distances:
310 8 0.00
311 9 0.00
312 29 0.01
313 66 0.02
314 200 0.05
315 93 0.02
316 5 0.00
317 24 0.01
318 270 0.07
319 132 0.03
320 17 0.00
321 63 0.02
322 108 0.03
323 145 0.04
324 9 0.00
325 4 0.00
326 162 0.04
327 66 0.02
328 100 0.03
329 230 0.06
330 169 0.04
331 77 0.02
332 263 0.07
333 283 0.07
334 117 0.03
335 77 0.02
336 126 0.03
337 249 0.07
338 109 0.03
339 110 0.03
340 8 0.00
341 117 0.03
342 16 0.00
343 9 0.00
344 12 0.00
345 11 0.00
346 7 0.00
347 7 0.00
349 3 0.00
350 1 0.00
351 6 0.00
353 3 0.00
354 3 0.00
355 8 0.00
356 3 0.00
358 2 0.00
359 5 0.00
360 4 0.00
361 4 0.00
362 6 0.00
363 5 0.00
364 5 0.00
365 2 0.00
366 1 0.00
367 11 0.00
368 1 0.00
369 5 0.00
370 1 0.00
371 1 0.00
372 7 0.00
374 2 0.00
375 7 0.00
376 13 0.00
377 7 0.00
378 14 0.00
379 16 0.00
380 13 0.00
381 4 0.00
382 3 0.00
383 5 0.00
384 1 0.00
385 2 0.00
386 3 0.00
387 6 0.00
388 6 0.00
389 10 0.00
390 69 0.02
391 2 0.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (330 bp):
TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAA
AACGATATTAAAAGCGTGAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGT
ATTTTAGCCAAAAATTGAGGAAATATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGT
GTAATAATCATCACAGTTTTTGGCTAAAAACGCGTTTCAGGGCCCCGACTCAGTTTTGCATGATT
TTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGCATTTA
AGATT
Found at i:27165 original size:19 final size:19
Alignment explanation
Indices: 27141--27178 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
27131 TTTTTGGTGA
27141 TTTTCAATCAAAATTACCC
1 TTTTCAATCAAAATTACCC
27160 TTTTCAATCAAAATTACCC
1 TTTTCAATCAAAATTACCC
27179 AGAAGTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (19 bp):
TTTTCAATCAAAATTACCC
Done.