Multiple sequence alignment - TraesCS1A01G371300

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS1A01G371300 chr1A 100.000 2138 0 0 1 2138 548453514 548455651 0.000000e+00 3949
1 TraesCS1A01G371300 chr1A 80.936 876 76 39 624 1458 548445184 548446009 1.810000e-170 608
2 TraesCS1A01G371300 chr1A 86.728 324 31 6 1822 2135 548446274 548446595 1.210000e-92 350
3 TraesCS1A01G371300 chr1A 86.719 128 9 6 1001 1127 547949912 547950032 3.700000e-28 135
4 TraesCS1A01G371300 chr1A 81.503 173 20 8 407 573 548444834 548445000 4.790000e-27 132
5 TraesCS1A01G371300 chr1D 93.742 1646 64 8 514 2138 453573185 453574812 0.000000e+00 2433
6 TraesCS1A01G371300 chr1D 79.483 1160 99 49 624 1748 453554854 453555909 0.000000e+00 695
7 TraesCS1A01G371300 chr1D 92.835 321 15 1 1 313 453571720 453572040 1.930000e-125 459
8 TraesCS1A01G371300 chr1D 89.937 318 26 3 1822 2135 453555909 453556224 2.550000e-109 405
9 TraesCS1A01G371300 chr1D 93.706 143 7 2 1 141 350972989 350972847 1.660000e-51 213
10 TraesCS1A01G371300 chr1D 95.726 117 5 0 407 523 453572042 453572158 2.800000e-44 189
11 TraesCS1A01G371300 chr1B 89.369 1759 104 34 408 2135 624018531 624020237 0.000000e+00 2135
12 TraesCS1A01G371300 chr1B 86.471 510 43 18 948 1441 623990647 623991146 8.680000e-149 536
13 TraesCS1A01G371300 chr1B 91.746 315 23 2 1822 2135 623991377 623991689 3.260000e-118 435
14 TraesCS1A01G371300 chr1B 84.802 329 33 7 1822 2135 623996600 623996926 4.430000e-82 315
15 TraesCS1A01G371300 chr1B 84.138 145 11 7 994 1127 623712793 623712936 1.720000e-26 130
16 TraesCS1A01G371300 chr3A 81.409 511 47 30 928 1409 34583350 34582859 7.200000e-100 374
17 TraesCS1A01G371300 chr3D 81.174 494 49 29 899 1357 25190581 25190097 7.260000e-95 357
18 TraesCS1A01G371300 chr3D 93.706 143 7 2 1 141 202630173 202630315 1.660000e-51 213
19 TraesCS1A01G371300 chr3D 93.706 143 7 2 1 141 498439121 498438979 1.660000e-51 213
20 TraesCS1A01G371300 chr3D 94.737 95 5 0 313 407 459484141 459484047 4.750000e-32 148
21 TraesCS1A01G371300 chr3D 86.869 99 7 3 1277 1374 25150939 25150846 2.900000e-19 106
22 TraesCS1A01G371300 chr3B 79.889 542 55 32 903 1409 42707463 42706941 4.370000e-92 348
23 TraesCS1A01G371300 chr3B 81.566 396 29 27 963 1336 42714710 42714337 9.660000e-74 287
24 TraesCS1A01G371300 chr3B 81.194 335 30 19 899 1208 42701223 42700897 2.740000e-59 239
25 TraesCS1A01G371300 chr3B 80.071 281 32 18 913 1170 42690276 42689997 1.010000e-43 187
26 TraesCS1A01G371300 chr3B 94.118 102 4 2 307 407 660704859 660704759 1.020000e-33 154
27 TraesCS1A01G371300 chr3B 94.792 96 4 1 313 407 30386205 30386110 4.750000e-32 148
28 TraesCS1A01G371300 chr3B 83.688 141 16 6 1274 1409 42689924 42689786 2.230000e-25 126
29 TraesCS1A01G371300 chrUn 93.706 143 7 2 1 141 246702947 246703089 1.660000e-51 213
30 TraesCS1A01G371300 chrUn 93.706 143 7 2 1 141 266183104 266183246 1.660000e-51 213
31 TraesCS1A01G371300 chrUn 93.151 146 8 2 1 144 275330424 275330279 1.660000e-51 213
32 TraesCS1A01G371300 chr6D 93.706 143 7 2 1 141 370012151 370012293 1.660000e-51 213
33 TraesCS1A01G371300 chr6D 93.706 143 7 2 1 141 430474153 430474295 1.660000e-51 213
34 TraesCS1A01G371300 chr6D 93.939 99 4 1 311 407 5250912 5251010 4.750000e-32 148
35 TraesCS1A01G371300 chr5D 92.593 108 7 1 301 407 377147841 377147948 1.020000e-33 154
36 TraesCS1A01G371300 chr7A 95.745 94 4 0 314 407 21201967 21201874 3.670000e-33 152
37 TraesCS1A01G371300 chr7A 95.652 92 4 0 316 407 29330482 29330391 4.750000e-32 148
38 TraesCS1A01G371300 chr6A 95.699 93 4 0 315 407 596353867 596353775 1.320000e-32 150
39 TraesCS1A01G371300 chr4A 94.792 96 5 0 312 407 615176862 615176957 1.320000e-32 150


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1A01G371300 chr1A 548453514 548455651 2137 False 3949.000000 3949 100.000000 1 2138 1 chr1A.!!$F2 2137
1 TraesCS1A01G371300 chr1A 548444834 548446595 1761 False 363.333333 608 83.055667 407 2135 3 chr1A.!!$F3 1728
2 TraesCS1A01G371300 chr1D 453571720 453574812 3092 False 1027.000000 2433 94.101000 1 2138 3 chr1D.!!$F2 2137
3 TraesCS1A01G371300 chr1D 453554854 453556224 1370 False 550.000000 695 84.710000 624 2135 2 chr1D.!!$F1 1511
4 TraesCS1A01G371300 chr1B 624018531 624020237 1706 False 2135.000000 2135 89.369000 408 2135 1 chr1B.!!$F3 1727
5 TraesCS1A01G371300 chr1B 623990647 623991689 1042 False 485.500000 536 89.108500 948 2135 2 chr1B.!!$F4 1187
6 TraesCS1A01G371300 chr3B 42706941 42707463 522 True 348.000000 348 79.889000 903 1409 1 chr3B.!!$R3 506

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
765 1963 0.175302 CAATGCCTCGCTGTCTCTCT 59.825 55.0 0.0 0.0 0.0 3.1 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1986 3369 0.036388 TCCCATTTCTGTCGTCCAGC 60.036 55.0 0.79 0.0 41.25 4.85 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 56 9.290988 TCAATTAAGGCATTAGTGTTTGTTCTA 57.709 29.630 0.00 0.00 0.00 2.10
176 177 3.885521 GTACGGTCGGAGGCTCGG 61.886 72.222 15.31 15.31 30.66 4.63
186 187 0.602372 GGAGGCTCGGAGCATGATTC 60.602 60.000 29.33 17.35 44.75 2.52
304 313 0.523335 GGCGTGCATTTCGTGAATCC 60.523 55.000 0.00 0.00 0.00 3.01
306 315 0.857311 CGTGCATTTCGTGAATCCGC 60.857 55.000 0.00 0.00 0.00 5.54
313 322 4.730613 GCATTTCGTGAATCCGCATTACTT 60.731 41.667 0.00 0.00 0.00 2.24
314 323 5.331902 CATTTCGTGAATCCGCATTACTTT 58.668 37.500 0.00 0.00 0.00 2.66
315 324 5.365403 TTTCGTGAATCCGCATTACTTTT 57.635 34.783 0.00 0.00 0.00 2.27
316 325 5.365403 TTCGTGAATCCGCATTACTTTTT 57.635 34.783 0.00 0.00 0.00 1.94
340 349 3.750501 TTGAAAAGGAGGATTACCCCC 57.249 47.619 0.00 0.00 36.73 5.40
341 350 1.562475 TGAAAAGGAGGATTACCCCCG 59.438 52.381 0.00 0.00 36.73 5.73
342 351 0.924090 AAAAGGAGGATTACCCCCGG 59.076 55.000 0.00 0.00 36.73 5.73
343 352 1.642513 AAAGGAGGATTACCCCCGGC 61.643 60.000 0.00 0.00 36.73 6.13
344 353 3.567209 GGAGGATTACCCCCGGCC 61.567 72.222 0.00 0.00 36.73 6.13
345 354 2.770904 GAGGATTACCCCCGGCCA 60.771 66.667 2.24 0.00 36.73 5.36
346 355 3.094498 AGGATTACCCCCGGCCAC 61.094 66.667 2.24 0.00 36.73 5.01
347 356 3.094498 GGATTACCCCCGGCCACT 61.094 66.667 2.24 0.00 0.00 4.00
348 357 2.192175 GATTACCCCCGGCCACTG 59.808 66.667 2.24 0.00 0.00 3.66
349 358 4.123545 ATTACCCCCGGCCACTGC 62.124 66.667 2.24 0.00 0.00 4.40
355 364 4.100084 CCCGGCCACTGCATCTGA 62.100 66.667 2.24 0.00 40.13 3.27
356 365 2.046023 CCGGCCACTGCATCTGAA 60.046 61.111 2.24 0.00 40.13 3.02
357 366 2.401766 CCGGCCACTGCATCTGAAC 61.402 63.158 2.24 0.00 40.13 3.18
358 367 2.743752 CGGCCACTGCATCTGAACG 61.744 63.158 2.24 0.00 40.13 3.95
359 368 1.375908 GGCCACTGCATCTGAACGA 60.376 57.895 0.00 0.00 40.13 3.85
360 369 0.745845 GGCCACTGCATCTGAACGAT 60.746 55.000 0.00 0.00 40.13 3.73
368 377 2.836479 CATCTGAACGATGCATGCAA 57.164 45.000 26.68 8.49 42.75 4.08
369 378 2.447250 CATCTGAACGATGCATGCAAC 58.553 47.619 26.68 21.63 42.75 4.17
370 379 0.804364 TCTGAACGATGCATGCAACC 59.196 50.000 26.68 18.06 0.00 3.77
371 380 0.522626 CTGAACGATGCATGCAACCA 59.477 50.000 26.68 14.17 0.00 3.67
372 381 1.133598 CTGAACGATGCATGCAACCAT 59.866 47.619 26.68 12.14 0.00 3.55
373 382 1.545136 TGAACGATGCATGCAACCATT 59.455 42.857 26.68 17.27 0.00 3.16
374 383 2.029200 TGAACGATGCATGCAACCATTT 60.029 40.909 26.68 13.57 0.00 2.32
375 384 2.747396 ACGATGCATGCAACCATTTT 57.253 40.000 26.68 5.83 0.00 1.82
376 385 3.865011 ACGATGCATGCAACCATTTTA 57.135 38.095 26.68 0.00 0.00 1.52
377 386 4.389890 ACGATGCATGCAACCATTTTAT 57.610 36.364 26.68 4.06 0.00 1.40
378 387 4.757594 ACGATGCATGCAACCATTTTATT 58.242 34.783 26.68 3.17 0.00 1.40
379 388 5.900425 ACGATGCATGCAACCATTTTATTA 58.100 33.333 26.68 0.00 0.00 0.98
380 389 6.336566 ACGATGCATGCAACCATTTTATTAA 58.663 32.000 26.68 0.00 0.00 1.40
381 390 6.985645 ACGATGCATGCAACCATTTTATTAAT 59.014 30.769 26.68 1.78 0.00 1.40
382 391 7.495279 ACGATGCATGCAACCATTTTATTAATT 59.505 29.630 26.68 1.01 0.00 1.40
383 392 8.976471 CGATGCATGCAACCATTTTATTAATTA 58.024 29.630 26.68 0.00 0.00 1.40
484 495 9.052759 AGATTAAGCTTTGTTTAGAAGAACGAA 57.947 29.630 3.20 0.00 33.17 3.85
488 499 5.007724 AGCTTTGTTTAGAAGAACGAACAGG 59.992 40.000 0.00 0.00 33.61 4.00
501 512 7.042797 AGAACGAACAGGTTAAGTTGTAGTA 57.957 36.000 9.29 0.00 0.00 1.82
507 518 5.243207 ACAGGTTAAGTTGTAGTACATGGC 58.757 41.667 3.28 0.00 0.00 4.40
559 1614 9.354673 AGAAAAGATTATTGTTCCTGAAGTTGA 57.645 29.630 0.00 0.00 0.00 3.18
587 1751 9.474313 AGTAAAATTTCCTGATGCTAAATGGTA 57.526 29.630 0.00 0.00 0.00 3.25
599 1763 8.564574 TGATGCTAAATGGTATAATCGGAAAAC 58.435 33.333 0.00 0.00 0.00 2.43
751 1949 0.822532 CCCATCTCTCTGCCCAATGC 60.823 60.000 0.00 0.00 41.77 3.56
761 1959 2.270205 CCCAATGCCTCGCTGTCT 59.730 61.111 0.00 0.00 0.00 3.41
762 1960 1.817099 CCCAATGCCTCGCTGTCTC 60.817 63.158 0.00 0.00 0.00 3.36
763 1961 1.220206 CCAATGCCTCGCTGTCTCT 59.780 57.895 0.00 0.00 0.00 3.10
764 1962 0.809241 CCAATGCCTCGCTGTCTCTC 60.809 60.000 0.00 0.00 0.00 3.20
765 1963 0.175302 CAATGCCTCGCTGTCTCTCT 59.825 55.000 0.00 0.00 0.00 3.10
766 1964 1.406898 CAATGCCTCGCTGTCTCTCTA 59.593 52.381 0.00 0.00 0.00 2.43
767 1965 1.769026 ATGCCTCGCTGTCTCTCTAA 58.231 50.000 0.00 0.00 0.00 2.10
792 2008 8.764524 ATCTCTATCACCAGATTTTTATACGC 57.235 34.615 0.00 0.00 35.67 4.42
836 2052 1.079543 ATGTGAGCGAGCCTGTCAC 60.080 57.895 8.44 8.44 40.89 3.67
887 2103 1.080366 CACGCCAAATGCTGCACAT 60.080 52.632 3.57 0.00 42.30 3.21
969 2228 1.687493 GCCCTCCAGCTCACCTAGT 60.687 63.158 0.00 0.00 0.00 2.57
999 2258 1.123861 TCCTGCTCTGTTCAGCCAGT 61.124 55.000 14.25 0.00 38.80 4.00
1212 2500 1.809547 TCTTTGGTGTGTGTGTGTGTG 59.190 47.619 0.00 0.00 0.00 3.82
1213 2501 1.539388 CTTTGGTGTGTGTGTGTGTGT 59.461 47.619 0.00 0.00 0.00 3.72
1214 2502 0.877743 TTGGTGTGTGTGTGTGTGTG 59.122 50.000 0.00 0.00 0.00 3.82
1215 2503 0.250510 TGGTGTGTGTGTGTGTGTGT 60.251 50.000 0.00 0.00 0.00 3.72
1216 2504 0.167908 GGTGTGTGTGTGTGTGTGTG 59.832 55.000 0.00 0.00 0.00 3.82
1217 2505 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
1297 2612 4.592485 TGTTGAAGTTTTGTGTGGTGTT 57.408 36.364 0.00 0.00 0.00 3.32
1416 2746 7.999450 AGAAGATCTCTGAAAAAGCAAGAAT 57.001 32.000 0.00 0.00 31.12 2.40
1418 2748 9.165035 AGAAGATCTCTGAAAAAGCAAGAATAG 57.835 33.333 0.00 0.00 31.12 1.73
1419 2749 7.319142 AGATCTCTGAAAAAGCAAGAATAGC 57.681 36.000 0.00 0.00 0.00 2.97
1436 2771 7.608308 AGAATAGCATGAAAGTTCTCAGAAC 57.392 36.000 9.78 9.78 0.00 3.01
1498 2840 5.483811 TGTTAAATCATGGTTGCGAGTCTA 58.516 37.500 0.00 0.00 0.00 2.59
1511 2853 2.621998 GCGAGTCTATGCCTAGTTACCA 59.378 50.000 0.00 0.00 0.00 3.25
1597 2939 2.416547 CGACTGATTTAGCACACAAGGG 59.583 50.000 0.00 0.00 0.00 3.95
1632 2988 2.158711 TGCATTTTGGGAATTTGTGGCA 60.159 40.909 0.00 0.00 0.00 4.92
1764 3130 2.040813 ACATTTCCCTGATGCTGACAGT 59.959 45.455 3.99 0.00 34.04 3.55
1770 3136 3.152341 CCCTGATGCTGACAGTTTTCTT 58.848 45.455 3.99 0.00 34.04 2.52
1834 3200 4.018960 AGAACTGTAGTGCTCATGGGATTT 60.019 41.667 0.00 0.00 0.00 2.17
1838 3204 4.037222 TGTAGTGCTCATGGGATTTCCTA 58.963 43.478 0.00 0.00 36.20 2.94
1986 3369 2.759538 TTTGGTAAAACCGAACAGCG 57.240 45.000 0.00 0.00 42.58 5.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 9.905713 AATGCCTTAATTGAGTCAGTAAAGATA 57.094 29.630 10.40 2.58 0.00 1.98
25 26 7.230510 ACAAACACTAATGCCTTAATTGAGTCA 59.769 33.333 0.00 0.00 0.00 3.41
39 40 8.572828 TTTGTGCAATAGAACAAACACTAATG 57.427 30.769 0.00 0.00 46.04 1.90
69 70 2.704725 ACGAAGTGCAAAAATGCGAT 57.295 40.000 0.00 0.00 42.51 4.58
141 142 8.060090 CGACCGTACAGATAATAAAAATGGAAC 58.940 37.037 0.00 0.00 0.00 3.62
154 155 0.182061 AGCCTCCGACCGTACAGATA 59.818 55.000 0.00 0.00 0.00 1.98
176 177 3.244044 GGTAGAGACCAGGAATCATGCTC 60.244 52.174 0.00 0.00 46.12 4.26
265 274 2.489329 CCTTCGAGATGGCAATGTGTTT 59.511 45.455 0.00 0.00 0.00 2.83
287 296 0.857311 GCGGATTCACGAAATGCACG 60.857 55.000 0.00 0.00 35.55 5.34
328 337 2.770904 TGGCCGGGGGTAATCCTC 60.771 66.667 2.18 0.00 35.33 3.71
329 338 3.094498 GTGGCCGGGGGTAATCCT 61.094 66.667 2.18 0.00 35.33 3.24
330 339 3.094498 AGTGGCCGGGGGTAATCC 61.094 66.667 2.18 0.00 0.00 3.01
331 340 2.192175 CAGTGGCCGGGGGTAATC 59.808 66.667 2.18 0.00 0.00 1.75
332 341 4.123545 GCAGTGGCCGGGGGTAAT 62.124 66.667 2.18 0.00 0.00 1.89
338 347 3.626996 TTCAGATGCAGTGGCCGGG 62.627 63.158 2.18 0.00 40.13 5.73
339 348 2.046023 TTCAGATGCAGTGGCCGG 60.046 61.111 0.00 0.00 40.13 6.13
340 349 2.743752 CGTTCAGATGCAGTGGCCG 61.744 63.158 0.00 0.00 40.13 6.13
341 350 0.745845 ATCGTTCAGATGCAGTGGCC 60.746 55.000 0.00 0.00 38.36 5.36
342 351 2.772739 ATCGTTCAGATGCAGTGGC 58.227 52.632 0.00 0.00 38.36 5.01
350 359 1.402968 GGTTGCATGCATCGTTCAGAT 59.597 47.619 23.37 0.00 41.01 2.90
351 360 0.804364 GGTTGCATGCATCGTTCAGA 59.196 50.000 23.37 0.00 0.00 3.27
352 361 0.522626 TGGTTGCATGCATCGTTCAG 59.477 50.000 23.37 0.00 0.00 3.02
353 362 1.175654 ATGGTTGCATGCATCGTTCA 58.824 45.000 23.37 14.14 0.00 3.18
354 363 2.282701 AATGGTTGCATGCATCGTTC 57.717 45.000 23.37 8.75 0.00 3.95
355 364 2.747396 AAATGGTTGCATGCATCGTT 57.253 40.000 23.37 19.89 0.00 3.85
356 365 2.747396 AAAATGGTTGCATGCATCGT 57.253 40.000 23.37 15.17 0.00 3.73
357 366 6.825284 TTAATAAAATGGTTGCATGCATCG 57.175 33.333 23.37 0.00 0.00 3.84
381 390 8.780249 GCTACTTTGTAAGGTCTTTGTGAATAA 58.220 33.333 0.00 0.00 0.00 1.40
382 391 7.934665 TGCTACTTTGTAAGGTCTTTGTGAATA 59.065 33.333 0.00 0.00 0.00 1.75
383 392 6.770785 TGCTACTTTGTAAGGTCTTTGTGAAT 59.229 34.615 0.00 0.00 0.00 2.57
384 393 6.116806 TGCTACTTTGTAAGGTCTTTGTGAA 58.883 36.000 0.00 0.00 0.00 3.18
385 394 5.676552 TGCTACTTTGTAAGGTCTTTGTGA 58.323 37.500 0.00 0.00 0.00 3.58
386 395 6.260050 TCTTGCTACTTTGTAAGGTCTTTGTG 59.740 38.462 0.00 0.00 31.94 3.33
387 396 6.354130 TCTTGCTACTTTGTAAGGTCTTTGT 58.646 36.000 0.00 0.00 31.94 2.83
388 397 6.483640 ACTCTTGCTACTTTGTAAGGTCTTTG 59.516 38.462 0.00 0.00 31.94 2.77
389 398 6.592870 ACTCTTGCTACTTTGTAAGGTCTTT 58.407 36.000 0.00 0.00 31.94 2.52
390 399 6.176014 ACTCTTGCTACTTTGTAAGGTCTT 57.824 37.500 0.00 0.00 31.94 3.01
391 400 5.810080 ACTCTTGCTACTTTGTAAGGTCT 57.190 39.130 0.00 0.00 31.94 3.85
392 401 6.100668 CCTACTCTTGCTACTTTGTAAGGTC 58.899 44.000 0.00 0.00 31.94 3.85
393 402 5.543020 ACCTACTCTTGCTACTTTGTAAGGT 59.457 40.000 0.00 0.00 31.94 3.50
394 403 6.038997 ACCTACTCTTGCTACTTTGTAAGG 57.961 41.667 0.00 0.00 31.94 2.69
395 404 6.128526 GCAACCTACTCTTGCTACTTTGTAAG 60.129 42.308 0.00 0.00 40.79 2.34
396 405 5.699458 GCAACCTACTCTTGCTACTTTGTAA 59.301 40.000 0.00 0.00 40.79 2.41
397 406 5.221561 TGCAACCTACTCTTGCTACTTTGTA 60.222 40.000 4.87 0.00 43.76 2.41
398 407 4.065789 GCAACCTACTCTTGCTACTTTGT 58.934 43.478 0.00 0.00 40.79 2.83
399 408 4.065088 TGCAACCTACTCTTGCTACTTTG 58.935 43.478 4.87 0.00 43.76 2.77
400 409 4.351874 TGCAACCTACTCTTGCTACTTT 57.648 40.909 4.87 0.00 43.76 2.66
401 410 4.351874 TTGCAACCTACTCTTGCTACTT 57.648 40.909 0.00 0.00 43.76 2.24
402 411 4.351874 TTTGCAACCTACTCTTGCTACT 57.648 40.909 0.00 0.00 43.76 2.57
403 412 5.629079 AATTTGCAACCTACTCTTGCTAC 57.371 39.130 0.00 0.00 43.76 3.58
404 413 6.012658 CAAATTTGCAACCTACTCTTGCTA 57.987 37.500 5.01 0.00 43.76 3.49
405 414 4.874970 CAAATTTGCAACCTACTCTTGCT 58.125 39.130 5.01 0.00 43.76 3.91
441 450 2.631418 TCTGCTCGTGTTACAGCTAC 57.369 50.000 0.00 0.00 36.53 3.58
484 495 5.012768 AGCCATGTACTACAACTTAACCTGT 59.987 40.000 0.00 0.00 0.00 4.00
488 499 6.037172 CCATGAGCCATGTACTACAACTTAAC 59.963 42.308 12.36 0.00 39.94 2.01
534 1589 9.399403 GTCAACTTCAGGAACAATAATCTTTTC 57.601 33.333 0.00 0.00 0.00 2.29
546 1601 7.648112 GGAAATTTTACTGTCAACTTCAGGAAC 59.352 37.037 0.00 0.00 35.76 3.62
559 1614 8.253113 CCATTTAGCATCAGGAAATTTTACTGT 58.747 33.333 18.65 6.07 34.02 3.55
587 1751 2.684881 CTGCTGCCAGTTTTCCGATTAT 59.315 45.455 0.00 0.00 34.31 1.28
599 1763 1.605753 ATATGTGATGCTGCTGCCAG 58.394 50.000 13.47 0.00 42.13 4.85
751 1949 3.476552 AGAGATTAGAGAGACAGCGAGG 58.523 50.000 0.00 0.00 0.00 4.63
766 1964 9.209175 GCGTATAAAAATCTGGTGATAGAGATT 57.791 33.333 0.00 0.00 40.02 2.40
767 1965 7.542477 CGCGTATAAAAATCTGGTGATAGAGAT 59.458 37.037 0.00 0.00 31.70 2.75
792 2008 0.798776 CACCTCTTTGCCTACTTGCG 59.201 55.000 0.00 0.00 0.00 4.85
887 2103 1.674764 CTGCTGTGGTTGTGGCCAAA 61.675 55.000 7.24 0.00 40.68 3.28
969 2228 2.530151 AGCAGGAGGGTGGCTGAA 60.530 61.111 0.00 0.00 36.34 3.02
999 2258 2.265367 TGGCTCTTCACCTTGTCCATA 58.735 47.619 0.00 0.00 0.00 2.74
1032 2291 0.836400 TTCCTCTTCCTGACCGCCTT 60.836 55.000 0.00 0.00 0.00 4.35
1212 2500 5.061179 ACAACTTACACCCTATGAACACAC 58.939 41.667 0.00 0.00 0.00 3.82
1213 2501 5.298989 ACAACTTACACCCTATGAACACA 57.701 39.130 0.00 0.00 0.00 3.72
1214 2502 5.761234 TGAACAACTTACACCCTATGAACAC 59.239 40.000 0.00 0.00 0.00 3.32
1215 2503 5.931294 TGAACAACTTACACCCTATGAACA 58.069 37.500 0.00 0.00 0.00 3.18
1216 2504 6.228258 TCTGAACAACTTACACCCTATGAAC 58.772 40.000 0.00 0.00 0.00 3.18
1217 2505 6.428083 TCTGAACAACTTACACCCTATGAA 57.572 37.500 0.00 0.00 0.00 2.57
1297 2612 2.766263 CAGGACTTAGGAGCACCACATA 59.234 50.000 2.07 0.00 38.94 2.29
1416 2746 4.245660 CCGTTCTGAGAACTTTCATGCTA 58.754 43.478 21.61 0.00 0.00 3.49
1418 2748 2.808543 ACCGTTCTGAGAACTTTCATGC 59.191 45.455 21.61 0.00 0.00 4.06
1419 2749 6.591834 AGATAACCGTTCTGAGAACTTTCATG 59.408 38.462 21.61 6.27 0.00 3.07
1436 2771 1.140852 TGGGATGCCAAGAGATAACCG 59.859 52.381 2.13 0.00 0.00 4.44
1482 2824 1.473257 GGCATAGACTCGCAACCATGA 60.473 52.381 0.00 0.00 0.00 3.07
1498 2840 3.652057 AGCAATGTGGTAACTAGGCAT 57.348 42.857 0.00 0.00 37.61 4.40
1597 2939 5.163513 CCAAAATGCACACCTTTGAGATAC 58.836 41.667 11.82 0.00 32.87 2.24
1632 2988 3.627395 TGCCAGTTTCACCTCGATATT 57.373 42.857 0.00 0.00 0.00 1.28
1986 3369 0.036388 TCCCATTTCTGTCGTCCAGC 60.036 55.000 0.79 0.00 41.25 4.85
2003 3386 1.956477 TGCAAGTTCCTTGAAGCTTCC 59.044 47.619 23.42 7.00 43.42 3.46
2100 3493 3.364621 GCCATGAAAATAACAACGCACAG 59.635 43.478 0.00 0.00 0.00 3.66


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.