Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01009495.1 Corchorus olitorius cultivar O-4 contig09527, 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: 9486
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Found at i:781 original size:19 final size:20
Alignment explanation
Indices: 759--804 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
749 AATACTTATA
759 TTTATTTAAAATGGATAG-T
1 TTTATTTAAAATGGATAGTT
*
778 TTTATTTAAAATGGTTAGTT
1 TTTATTTAAAATGGATAGTT
798 TTTATTT
1 TTTATTT
805 TGTTTTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (20 bp):
TTTATTTAAAATGGATAGTT
Found at i:2761 original size:339 final size:336
Alignment explanation
Indices: 2129--2948 Score: 938
Period size: 339 Copynumber: 2.4 Consensus size: 336
2119 AATACTTTAC
* * *
2129 TTCATCTAA-CTAAATCTCAGCAACATTGGATTTAAGAATTTGTTTTTACAAACATCTGAATCTT
1 TTCATCTAATC-AAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTT
* * *
2193 GTTTCGATTTAATTAAAAAATTAATTTAGAAAAATAAGAAATAC-ATTATTAAAAGCGTGAAAAG
65 GTTTCGATTTAATTAAAAAATTAATTAAAAAAAATAAGAAAAACGA-TATTAAAAGCGTGAAAAG
* * *
2257 CCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTATGAGTATTTTAGTCAAAAATTGAGGAGA
129 CCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTATGAGTATTTTAGCCAAAAATCGAGGAAA
* * * *
2322 AATCTTTCGTGCAAATTTTTGCAAAATTTTAGCGGAAATCGTGTACTAACTAACCATCACGGTTT
194 AATATTTCGAGCAAATTTTTACAAAATTTTAGCGGAAATCGTGTACGAACTAACCATCACGG-TT
* * * ** *
2387 TTTTGGCTAAAAACGCGTTCCGGGGATCTGGTTCAATTTTGCATGATTTTTGCCTCCGAGACTAC
258 TTTTGGCTAAAAACGCGTTCCAGGGACCCGGTTCAATTTTGCATGATTTTTGCCAACAAGACTAC
*
2452 TTGAAATATCTACA
323 TTGAAATATCCACA
* * * *
2466 TTCATCTAATCAAATCTCAGCCACGTTGGATTTAAGGATTTATTTTTACGAGCATTTGAATCTTG
1 TTCATCTAATCAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTG
* * *
2531 TTTCGATTTAATTAAAAAATAAATTCGAAAAAAAATAGGAAAAACGATATTAAAAGCGTCAAAAG
66 TTTCGATTTAATTAAAAAATTAATT--AAAAAAAATAAGAAAAACGATATTAAAAGCGTGAAAAG
* * * *
2596 GCCTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTTTAGCCGAAAATCGA-TAA
129 CCCTTCAATCTTTTTGGCGTTGAATTATATA-TTTTTATGAGTATTTTAGCCAAAAATCGAGGAA
* * *** ***
2660 AATATATTTCGAGTC-AATTTTTACAAAATTTTAGCTGAAATCGTGTAAGGGTTTTTGCATCACG
193 AA-ATATTTCGAG-CAAATTTTTACAAAATTTTAGCGGAAATCGTGT-ACGAACTAACCATCACG
* * * *
2724 G-TTTTT-GCATATAAAA-GCGTTCCAGGGCCCCGGTTCAATTTTGTATGATTTTTGGCAATAAG
255 GTTTTTTGGC-TA-AAAACGCGTTCCAGGGACCCGGTTCAATTTTGCATGATTTTTGCCAACAAG
* * *
2786 ACTCCTTGAGATATCCATA
318 ACTACTTGAAATATCCACA
* * * * *
2805 TTCATAC-AATAAAATCTCACCCACACTGGATTTATGAATTTGTTTTTACGAGAATCTGAATCTT
1 TTCAT-CTAATCAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTT
* * * * *
2869 GTTTCAATTTAATT-AGAAATTAATATAGAAAAAATATGAAAGACGATATTAAAAGCGTGAAAAG
65 GTTTCGATTTAATTAAAAAATTAAT-TAAAAAAAATAAGAAAAACGATATTAAAAGCGTGAAAAG
* *
2933 TCCTCCAATCTTTTTG
129 CCCTTCAATCTTTTTG
2949 ATATTAATTT
Statistics
Matches: 407, Mismatches: 64, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
337 128 0.31
338 11 0.03
339 188 0.46
340 69 0.17
341 11 0.03
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.36
Consensus pattern (336 bp):
TTCATCTAATCAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTG
TTTCGATTTAATTAAAAAATTAATTAAAAAAAATAAGAAAAACGATATTAAAAGCGTGAAAAGCC
CTTCAATCTTTTTGGCGTTGAATTATATATTTTTATGAGTATTTTAGCCAAAAATCGAGGAAAAA
TATTTCGAGCAAATTTTTACAAAATTTTAGCGGAAATCGTGTACGAACTAACCATCACGGTTTTT
TGGCTAAAAACGCGTTCCAGGGACCCGGTTCAATTTTGCATGATTTTTGCCAACAAGACTACTTG
AAATATCCACA
Found at i:3372 original size:132 final size:134
Alignment explanation
Indices: 3131--3388 Score: 385
Period size: 133 Copynumber: 1.9 Consensus size: 134
3121 CGATACTCCT
* *
3131 TGAAATATCTATATTCATCTAATAAAATCTTAGCCACATTGCATCTAAGGATTTGTTTTTATCAG
1 TGAAATATCTATATTCATCTAATAAAATCTCAGCCACATTGCATCTAAGAATTTGTTTTTATCAG
* *
3196 CATCTAAATCTTGTTTCAATTTAATTAGAAAGTAATTTAAAAAAA-TATGAAAAACGATATCAAA
66 CATCTAAATCTTGTTTCAATTTAATTAGAAAGTAATTCAAAAAAAGTAGGAAAAACGATATCAAA
3260 AGCA
131 AGCA
* * * *
3264 TGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGAATTT-TTTTTATGAG
1 TGAAATATCTATATTCATCTAATAAAATCTCAGCCACATTGCATCTAAGAATTTGTTTTTATCAG
* * ** *
3328 CATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAGTAGGAAAATCGATAT
66 CATCTAAATCTTGTTTCAATTTAATTAGAAAGTAATTCAAAAAAAGTAGGAAAAACGATAT
3389 TAGAAGCGTA
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
132 49 0.44
133 62 0.56
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.36
Consensus pattern (134 bp):
TGAAATATCTATATTCATCTAATAAAATCTCAGCCACATTGCATCTAAGAATTTGTTTTTATCAG
CATCTAAATCTTGTTTCAATTTAATTAGAAAGTAATTCAAAAAAAGTAGGAAAAACGATATCAAA
AGCA
Found at i:4450 original size:133 final size:134
Alignment explanation
Indices: 4209--4476 Score: 394
Period size: 133 Copynumber: 2.0 Consensus size: 134
4199 CGAGACTCCT
* * * * *
4209 TGAAATATCTATATTTATCTAATAAAATCTTAGTCACATTGCATTTAAGGATTTGTTTTTATGCG
1 TGAAATATCTATATTTATCTAATAAAATCTCAGCCACATTGCATTTAAGAATATGTTTTTATGAG
* *
4274 CATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTTAGAAAAAATATGAAAAACGATATCAAA
66 CATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATAGGAAAAACGATATCAAA
4339 AGCG
131 AGCG
* * *
4343 TGAAATATCTATATTTATCTAATCAAATCTCAGCCATATTGGATTTAAGAATAT-TTTTTATGAG
1 TGAAATATCTATATTTATCTAATAAAATCTCAGCCACATTGCATTTAAGAATATGTTTTTATGAG
* * * * *
4407 CATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAGTAGGAAAAATGATATTAGA
66 CATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATAGGAAAAACGATATCAAA
4472 AGCG
131 AGCG
4476 T
1 T
4477 AAAAAACCCT
Statistics
Matches: 119, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
133 72 0.61
134 47 0.39
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (134 bp):
TGAAATATCTATATTTATCTAATAAAATCTCAGCCACATTGCATTTAAGAATATGTTTTTATGAG
CATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATAGGAAAAACGATATCAAA
AGCG
Found at i:6377 original size:289 final size:285
Alignment explanation
Indices: 5862--6382 Score: 701
Period size: 289 Copynumber: 1.8 Consensus size: 285
5852 TACGCCAAGG
* * * * *
5862 CTCCTTGACATATCCATATTCATCTAATCAAATCTCAGACACATTGTATTTAAGGATTTGTTTTT
1 CTCCTTGAAATATCCATATCCATCTAATCAAATATCAGACACATTGCATTTAAGAATTTGTTTTT
* * *
5927 ACGAGCATTTAAATCTTGTTTTGATTTAATTATAAATTAATTCAGAAAAATATGAAAAACGATAT
66 ACGAGCATCTAAATCTTGTTTCGATTTAA-TAT-AAGT-ATTCAGAAAAATATGAAAAACGATAT
*
5992 GAAAAGCATGAAAACTCCTCCAATCTTTTTGGCATTAAATTATATATTTCATAGGTATTTTAGCC
128 GAAAAGCATGAAAACTCCTCCAATCTTTTTGGCATTAAATTATATATTTCATAGGTATTTTAGCA
* *
6057 CAAAATTGAGGAAAAATTTTAGGCTAATTTTTTGCAAAACTAGAAACGCGTTTCGGGGCCCCGGC
193 AAAAATTGAGGAAAAATTTTAGGATAA-TTTTTGCAAAACTAGAAACGCGTTTCGGGGCCCCGGC
6122 TTAGTTTTGCCTGATTTTTGACGTCGATA
257 TTAGTTTTGCCTGATTTTTGACGTCGATA
* *
6151 CTCCTTGAAATATCTATATCCATCTAATCAAATATCAGCCACATTGCATTTAAGAATTTGTTTTT
1 CTCCTTGAAATATCCATATCCATCTAATCAAATATCAGACACATTGCATTTAAGAATTTGTTTTT
* *
6216 ACGAGCATCTAGATCTTGTTTCGATTTAA-AT-AGT-TTCAGAAAAATATGAAAAACGATATTAA
66 ACGAGCATCTAAATCTTGTTTCGATTTAATATAAGTATTCAGAAAAATATGAAAAACGATATGAA
* * * * *
6278 AAGCGTGAAAAGTCCTCCAATCTTTTT-GTAGTTGAATTATATATATT-TTATGAGTATTTTAGC
131 AAGCATGAAAACTCCTCCAATCTTTTTGGCA-TTAAATTATATAT-TTCATA-G-GTATTTTAGC
**
6341 AAAAAAAATTGAGGAAAAATATTTCTGATCAATTTTTGCAAA
192 --AAAAAATTGAGGAAAAAT-TTTAGGAT-AATTTTTGCAAA
6383 CTATTAGCCG
Statistics
Matches: 202, Mismatches: 22, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
282 2 0.01
283 66 0.33
284 3 0.01
285 12 0.06
287 18 0.09
288 15 0.07
289 86 0.43
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (285 bp):
CTCCTTGAAATATCCATATCCATCTAATCAAATATCAGACACATTGCATTTAAGAATTTGTTTTT
ACGAGCATCTAAATCTTGTTTCGATTTAATATAAGTATTCAGAAAAATATGAAAAACGATATGAA
AAGCATGAAAACTCCTCCAATCTTTTTGGCATTAAATTATATATTTCATAGGTATTTTAGCAAAA
AATTGAGGAAAAATTTTAGGATAATTTTTGCAAAACTAGAAACGCGTTTCGGGGCCCCGGCTTAG
TTTTGCCTGATTTTTGACGTCGATA
Found at i:6765 original size:332 final size:327
Alignment explanation
Indices: 6112--8344 Score: 1687
Period size: 332 Copynumber: 6.7 Consensus size: 327
6102 ACGCGTTTCG
* * * * * *
6112 GGGCCCCGGCTTAGTTTTGCCTGATTTTTGACGTCGATACTCCTTGAAATATCTATATCCATCTA
1 GGGCCCCGG-TTAATTTTGCATGATTTTTGGCGTCCAAACTCCTTGAAATATCTATATTCATCTA
* *
6177 ATCAAATATCAGCCACATTGCATTTAAGAATTTGTTTTTACGAGCATCT-AGATCTTGTTTCGA-
65 ATCAAATATCAGCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGA-ATCTTGTTTCGAT
* * *
6240 -T--TTAAATAGT--TTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATC
129 TTAATTAAAAATTAATTCAGAAAAATATGAAAAACGATATTAGAAGCGTGAAAAGTCCT-CAATC
** * * *
6300 TTTTTGTAGTTGAATTATAT-ATATTTTATGAGTATTTTAGCAAAAAAAATTGAGGAAAAATATT
193 TTTTTGGCGTTGAATTATATAAT-TTTTATGAGTATTGTGGC--TAAAAATTGAGGAAAAA-ATT
* * * * **
6364 TCTGA-TCAATTTTTGCAAACTATTAGCCGAAATCGTGTACATTAGTCGAAATCACAGGGTTTGG
254 TC-GAGTCAATTTTTGCAAAATTTTAGCTGAAATCGTGTA-A-TAATC---ATCACA-TTTTTGG
*
6428 CTAAAAACGAATTCCA
312 CTAAAAACGCATTCCA
* * * * *
6444 AGGCCCCGGTTCAATGTTGCATGATTTTTGGTGTCGAAACTCCTTGAAGTATCTATATTCATCTA
1 GGGCCCCGGTT-AATTTTGCATGATTTTTGGCGTCCAAACTCCTTGAAATATCTATATTCATCTA
* * * *** * * *
6509 ACCAAATATCAGCTACATTGAATTTAAGGTTTTG-TAAAACAAACATCTGAATCATGTTTCGATT
65 ATCAAATATCAGCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATT
* *
6573 TAATTAAAAATTAATTC-GAAAAATAATAGGAAAAACGATATTAGAAGCATGAAAAGCCCATCAA
130 TAATTAAAAATTAATTCAGAAAAAT-AT--GAAAAACGATATTAGAAGCGTGAAAAGTCC-TCAA
* * * * *
6637 TCATTTTAGCGTTGAATTATATAATTTTTATGAGTAATGTGGCTAAAAATTGAGGAAGTAACTTT
191 TCTTTTTGGCGTTGAATTATATAATTTTTATGAGTATTGTGGCTAAAAATTGAGGAA-AAAATTT
* *
6702 CGAGTCAATTTTTGCAAAATTTCAGCTGAAATCGTGTAATAATCATCACTATTTTTTGCTAAAAA
255 CGAGTCAATTTTTGCAAAATTTTAGCTGAAATCGTGTAATAATCATCAC-ATTTTTGGCTAAAAA
*
6767 CGCATTCTA
319 CGCATTCCA
* * * * * * * * *
6776 GGGACCCGGCTAAGTTTTACATCATTTTTGGC-ACCAAGGCTCTTTAAAATATCCATATTCATCT
1 GGGCCCCGGTTAA-TTTTGCATGATTTTTGGCGTCCAA-ACTCCTTGAAATATCTATATTCATCT
* ** * *
6840 AATCAAATATCAGCTACATTG-ATTTAATAATTTGTTTTTACGAGCATCTTAATCTTGTTTCGAC
64 AATCAAATATCAGCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGAT
* * * *
6904 TTAATTCAAAATTAATTCAGAAAAATATGAAAAACAATATT-GAAAGCATGAAAAGTCCTAAATC
129 TTAATTAAAAATTAATTCAGAAAAATATGAAAAACGATATTAG-AAGCGTGAAAAGTCCTCAATC
* * * * * * *
6968 TTTTTGGTGTTAAATTATATATATATTTA--AATATT-TAAGCCAAAAATTG-GAGAAAAACTTT
193 TTTTTGGCGTTGAATTATATA-ATTTTTATGAGTATTGT-GGCTAAAAATTGAG-GAAAAA-ATT
* * * * * * *
7029 TCGGGTCATTTTTTTACGAAATTTTAGTTGAAATCGTGT-ATAAGCCATCACGATTGTTT-ACTA
254 TCGAGTCA-ATTTTTGCAAAATTTTAGCTGAAATCGTGTAATAA-TCATCAC-ATT-TTTGGCTA
* *
7092 AAAACGCATTTCG
315 AAAACGCATTCCA
*
7105 GGGCCCCGGCTTAGTTTTGCATGATTTTTGGCG-CCAAGACTCCTTGAAATATCTATATTCATCT
1 GGGCCCCGG-TTAATTTTGCATGATTTTTGGCGTCCAA-ACTCCTTGAAATATCTATATTCATCT
* *
7169 AATCAAATCTCAGGCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGAT
64 AATCAAATATCAGCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGAT
* * *
7234 TTAATTAGAAATTAATTCAGAAAAATATGAAAAATGATATTAAAAGCGTGAAAAGTCCTCCAATC
129 TTAATTAAAAATTAATTCAGAAAAATATGAAAAACGATATTAGAAGCGTGAAAAGTCCT-CAATC
*
7299 TTTTTGGCGTTGAATTATAT-ATATTTTATGAGTATTGTGACTAAAAATTGAGGAAAAATATTTC
193 TTTTTGGCGTTGAATTATATAAT-TTTTATGAGTATTGTGGCTAAAAATTGAGGAAAAA-ATTTC
* * * * *
7363 GAGTCAATTTTTGCAAAATTTTAGATGAAATCATGTACT-ATCA-CGGC-TTTTTGGCAAAAAAC
256 GAGTCAATTTTTGCAAAATTTTAGCTGAAATCGTGTAATAATCATC-ACATTTTTGGCTAAAAA-
* *
7425 CTCGTTCC-
319 CGCATTCCA
* * * * * * *
7433 GGGACCCTAGGTCAGTTTTGCATGATATTTTGTG-GT-AAAATTTCTTGAAATATCTATATTTAT
1 GGG-CCC-CGGTTAATTTTGCATGAT-TTTTG-GCGTCCAAACTCCTTGAAATATCTATATTCAT
* * * * ** * *
7496 CTAACCAAATCTTAGCCACATTGGACCTAAAGATTTGTTTTTACGAGCATTTGAAT-TATGTTTC
62 CTAATCAAATATCAGCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCT-TGTTTC
* * * * * *
7560 GATTTAATTAGAAATTAATATGAAAAACAATA-GAAAAAATCGATATTAGAAGCGGGAGAAGCCC
126 GATTTAATTAAAAATTAAT-TCAGAAA-AATATG-AAAAA-CGATATTAGAAGCGTGAAAAGTCC
* * *
7624 TTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGCATTGTGCCTAAAAATTGA-GAAAAT
187 -TCAATCTTTTTGGCGTTGAATTATATAATTTTTATGAGTATTGTGGCTAAAAATTGAGGAAAA-
* * * *
7688 TATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTG---T-ACCATCACAGTTTTTGAGC
250 AATTTCGAGTCAATTTTTGCAAAATTTTAGCTGAAATCGTGTAATAATCATCACA-TTTTTG-GC
* * *
7749 TAAAAACGCGTTGCG
313 TAAAAACGCATTCCA
* * * * * *
7764 GGGCCCCGGGTCAGTTTTGCAT-TTTTTTGGTG-CCAAGACTCCTTCAAATATATCTATATTTAT
1 GGGCCCC-GGTTAATTTTGCATGATTTTTGGCGTCCAA-ACTCCTT-GAA-ATATCTATATTCAT
* * * * * *
7827 CAAAGCAAATCTCAGCCACATTGTATTTAAGGATTTGTTTTTACGAGTATATCT-ATATTTTGTT
62 CTAATCAAATATCAGCCACATTGAATTTAAGGATTTGTTTTTACGAG--CATCTGA-ATCTTGTT
* * * * * *
7891 TCGATTTAATTAAAAATTAATTTAGAAATAGAATAGGAAAAATGATATTAAAAGCGCGAAAAAGA
124 TCGATTTAATTAAAAATTAATTCAG-AA-A-AATATGAAAAACGATATTAGAAGCGTG-AAAAGT
* * * *
7956 CTTTCAATTTTTTTGGCGTTGAATTATGTATATATATATATATATATATATATATTGTGTGTATT
185 C-CTCAATCTTTTTGGCGTTG-A--AT-TATATA-AT-T-T-T-TAT-GA-GTA-T-TGTG----
* * * * * * **
8021 TTCGCTACAAATTGAGGAAAAATCTTTCGGGTCAATTTTTACAAAATTTTAACCGAAATTTTGTA
232 ---GCTAAAAATTGAGGAAAAA-ATTTCGAGTCAATTTTTGCAAAATTTTAGCTGAAATCGTGTA
* * * * * *
8086 CTAACCATTACGGTTTTCGGCTAAAAACGCGTTCCA
293 ATAATCATCAC-ATTTTTGGCTAAAAACGCATTCCA
* * * * * *
8122 GAG-CCCGGCTCAGTTTTGCATGATTTTTTGTGT-CATGACTCCTTGAAATATCTATATTCATCT
1 GGGCCCCGG-TTAATTTTGCATGATTTTTGGCGTCCA-AACTCCTTGAAATATCTATATTCATCT
* * * * * *
8185 AATCAAATCTCAGCCACATTG-GTTTAAGGATTTGATTTTACAAGTATCTAAATCTTGTTTCGAT
64 AATCAAATATCAGCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGAT
* * ** * * *
8249 TTAATTAGAAATTAATTCGGAAAAA-AT-AGGAA--ATAATAGAAGCGTTAAAAGCCCTTCAATC
129 TTAATTAAAAATTAATTCAGAAAAATATGAAAAACGATATTAGAAGCGTGAAAAGTCC-TCAATC
* **
8310 TTTTTGACGTCAAATTATAT-ATTTTTATGAGTATT
193 TTTTTGGCGTTGAATTATATAATTTTTATGAGTATT
8345 TTTACCCAAA
Statistics
Matches: 1542, Mismatches: 251, Indels: 217
0.77 0.12 0.11
Matches are distributed among these distances:
327 8 0.01
328 55 0.04
329 265 0.17
330 182 0.12
331 201 0.13
332 313 0.20
333 59 0.04
334 34 0.02
335 16 0.01
336 11 0.01
337 55 0.04
338 9 0.01
339 66 0.04
340 4 0.00
341 6 0.00
342 3 0.00
343 3 0.00
344 2 0.00
345 21 0.01
346 11 0.01
347 4 0.00
348 3 0.00
349 1 0.00
350 2 0.00
351 1 0.00
352 2 0.00
353 34 0.02
354 11 0.01
355 60 0.04
356 36 0.02
357 17 0.01
358 35 0.02
359 12 0.01
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.36
Consensus pattern (327 bp):
GGGCCCCGGTTAATTTTGCATGATTTTTGGCGTCCAAACTCCTTGAAATATCTATATTCATCTAA
TCAAATATCAGCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTT
AATTAAAAATTAATTCAGAAAAATATGAAAAACGATATTAGAAGCGTGAAAAGTCCTCAATCTTT
TTGGCGTTGAATTATATAATTTTTATGAGTATTGTGGCTAAAAATTGAGGAAAAAATTTCGAGTC
AATTTTTGCAAAATTTTAGCTGAAATCGTGTAATAATCATCACATTTTTGGCTAAAAACGCATTC
CA
Found at i:7991 original size:2 final size:2
Alignment explanation
Indices: 7984--8010 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7974 TTGAATTATG
7984 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 T
8011 TGTGTGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.