Multiple sequence alignment - TraesCS3D01G329000

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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 TraesCS3D01G329000 chr3D 100.000 2393 0 0 1 2393 441577510 441579902 0.000000e+00 4420
1 TraesCS3D01G329000 chr3B 89.697 2446 149 39 9 2393 578981871 578979468 0.000000e+00 3025
2 TraesCS3D01G329000 chr3A 91.243 1850 75 25 606 2393 582351633 582353457 0.000000e+00 2438
3 TraesCS3D01G329000 chr3A 90.000 80 4 2 509 588 582351512 582351587 1.510000e-17 100
4 TraesCS3D01G329000 chrUn 88.372 129 11 3 1835 1959 77289092 77288964 4.120000e-33 152
5 TraesCS3D01G329000 chr6B 88.372 129 11 3 1835 1959 126698394 126698266 4.120000e-33 152
6 TraesCS3D01G329000 chr5B 87.597 129 12 3 1835 1959 311559033 311558905 1.920000e-31 147
7 TraesCS3D01G329000 chr2D 86.822 129 13 3 1835 1959 406277940 406278068 8.920000e-30 141


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 TraesCS3D01G329000 chr3D 441577510 441579902 2392 False 4420 4420 100.0000 1 2393 1 chr3D.!!$F1 2392
1 TraesCS3D01G329000 chr3B 578979468 578981871 2403 True 3025 3025 89.6970 9 2393 1 chr3B.!!$R1 2384
2 TraesCS3D01G329000 chr3A 582351512 582353457 1945 False 1269 2438 90.6215 509 2393 2 chr3A.!!$F1 1884

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
172 174 0.249073 CGGGTGTCGCTATCCTCTTG 60.249 60.0 0.0 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2161 2275 0.855598 ATCCCAGCATACCAGCCATT 59.144 50.0 0.0 0.0 34.23 3.16 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
36 37 3.686691 GCTTAGATGTGGATTTGGAGGCT 60.687 47.826 0.00 0.00 0.00 4.58
41 42 1.358787 TGTGGATTTGGAGGCTTGGAT 59.641 47.619 0.00 0.00 0.00 3.41
42 43 2.225343 TGTGGATTTGGAGGCTTGGATT 60.225 45.455 0.00 0.00 0.00 3.01
132 134 1.662026 GCGAAAACTCCGCGATTTGTT 60.662 47.619 8.23 3.80 43.28 2.83
133 135 1.969256 CGAAAACTCCGCGATTTGTTG 59.031 47.619 8.23 0.00 0.00 3.33
141 143 0.857311 CGCGATTTGTTGTCGATGGC 60.857 55.000 0.00 0.00 41.40 4.40
172 174 0.249073 CGGGTGTCGCTATCCTCTTG 60.249 60.000 0.00 0.00 0.00 3.02
178 180 1.137086 GTCGCTATCCTCTTGAAGGCA 59.863 52.381 0.00 0.00 45.78 4.75
181 183 2.224137 CGCTATCCTCTTGAAGGCATCA 60.224 50.000 0.00 0.00 45.78 3.07
186 188 4.842531 TCCTCTTGAAGGCATCATTGTA 57.157 40.909 0.00 0.00 45.78 2.41
199 201 1.920351 TCATTGTAGTTCCCCTTCCCC 59.080 52.381 0.00 0.00 0.00 4.81
200 202 1.063942 CATTGTAGTTCCCCTTCCCCC 60.064 57.143 0.00 0.00 0.00 5.40
202 204 2.689771 TAGTTCCCCTTCCCCCGC 60.690 66.667 0.00 0.00 0.00 6.13
210 212 4.351054 CTTCCCCCGCCAGTGCTT 62.351 66.667 0.00 0.00 34.43 3.91
211 213 3.868200 CTTCCCCCGCCAGTGCTTT 62.868 63.158 0.00 0.00 34.43 3.51
216 218 3.058160 CCGCCAGTGCTTTGAGGG 61.058 66.667 0.00 0.00 34.43 4.30
222 224 1.479389 CCAGTGCTTTGAGGGGAAACT 60.479 52.381 0.00 0.00 0.00 2.66
229 231 3.812167 GCTTTGAGGGGAAACTCATGTCT 60.812 47.826 0.00 0.00 46.07 3.41
237 239 3.339141 GGAAACTCATGTCTGTCCCTTC 58.661 50.000 0.00 0.00 0.00 3.46
238 240 3.244561 GGAAACTCATGTCTGTCCCTTCA 60.245 47.826 0.00 0.00 0.00 3.02
246 248 1.216710 CTGTCCCTTCAGACTCGGC 59.783 63.158 0.00 0.00 37.66 5.54
261 263 3.645286 GGCAACGGTTACGCTTCA 58.355 55.556 0.00 0.00 46.04 3.02
275 277 0.896226 GCTTCACCTCGTTACCCTCT 59.104 55.000 0.00 0.00 0.00 3.69
310 313 3.547567 AGCTCAGGTGCTCATTGAC 57.452 52.632 0.00 0.00 39.34 3.18
311 314 0.689055 AGCTCAGGTGCTCATTGACA 59.311 50.000 0.00 0.00 39.34 3.58
312 315 1.281287 AGCTCAGGTGCTCATTGACAT 59.719 47.619 0.00 0.00 39.34 3.06
313 316 2.089980 GCTCAGGTGCTCATTGACATT 58.910 47.619 0.00 0.00 0.00 2.71
314 317 2.159421 GCTCAGGTGCTCATTGACATTG 60.159 50.000 0.00 0.00 0.00 2.82
325 328 0.880441 TTGACATTGTCATGGCGTGG 59.120 50.000 19.63 0.00 42.18 4.94
332 335 4.673298 TCATGGCGTGGCGTCGTT 62.673 61.111 6.90 0.00 32.50 3.85
338 341 2.549282 CGTGGCGTCGTTTTCTGG 59.451 61.111 0.00 0.00 0.00 3.86
342 345 2.677979 GGCGTCGTTTTCTGGCTCC 61.678 63.158 0.00 0.00 0.00 4.70
344 347 2.861006 GTCGTTTTCTGGCTCCGC 59.139 61.111 0.00 0.00 0.00 5.54
347 350 1.961277 CGTTTTCTGGCTCCGCAGT 60.961 57.895 0.00 0.00 0.00 4.40
374 377 1.801913 CTGGCAGCGTAGTCGTGTC 60.802 63.158 0.00 0.00 39.49 3.67
378 381 0.453282 GCAGCGTAGTCGTGTCGTTA 60.453 55.000 0.00 0.00 39.49 3.18
383 386 2.461842 GCGTAGTCGTGTCGTTATTAGC 59.538 50.000 0.00 0.00 39.49 3.09
384 387 3.031812 CGTAGTCGTGTCGTTATTAGCC 58.968 50.000 0.00 0.00 0.00 3.93
390 393 3.680937 TCGTGTCGTTATTAGCCCTTTTG 59.319 43.478 0.00 0.00 0.00 2.44
391 394 3.726782 CGTGTCGTTATTAGCCCTTTTGC 60.727 47.826 0.00 0.00 0.00 3.68
393 396 2.417586 GTCGTTATTAGCCCTTTTGCGT 59.582 45.455 0.00 0.00 36.02 5.24
398 401 3.508744 ATTAGCCCTTTTGCGTGATTG 57.491 42.857 0.00 0.00 36.02 2.67
407 412 2.697431 TTGCGTGATTGTTTAGGTGC 57.303 45.000 0.00 0.00 0.00 5.01
411 416 2.159572 GCGTGATTGTTTAGGTGCGATT 60.160 45.455 0.00 0.00 0.00 3.34
431 436 7.538334 TGCGATTTATGTTGTTCAATTTCTCTG 59.462 33.333 0.00 0.00 0.00 3.35
438 443 6.962686 TGTTGTTCAATTTCTCTGTGATCTG 58.037 36.000 0.00 0.00 0.00 2.90
439 444 5.618056 TGTTCAATTTCTCTGTGATCTGC 57.382 39.130 0.00 0.00 0.00 4.26
444 449 5.766670 TCAATTTCTCTGTGATCTGCTTTGT 59.233 36.000 0.00 0.00 0.00 2.83
445 450 6.936335 TCAATTTCTCTGTGATCTGCTTTGTA 59.064 34.615 0.00 0.00 0.00 2.41
446 451 7.445096 TCAATTTCTCTGTGATCTGCTTTGTAA 59.555 33.333 0.00 0.00 0.00 2.41
466 471 1.202818 AGCAGGACGAAAGCCTTTTCT 60.203 47.619 0.00 0.00 40.43 2.52
474 479 6.149640 AGGACGAAAGCCTTTTCTATTCTTTC 59.850 38.462 0.00 0.00 40.43 2.62
480 485 6.729391 AGCCTTTTCTATTCTTTCTCGAAC 57.271 37.500 0.00 0.00 0.00 3.95
485 490 7.116519 CCTTTTCTATTCTTTCTCGAACGTTCT 59.883 37.037 24.80 6.44 0.00 3.01
488 493 4.974103 ATTCTTTCTCGAACGTTCTGTG 57.026 40.909 24.80 17.77 0.00 3.66
490 495 3.113322 TCTTTCTCGAACGTTCTGTGTG 58.887 45.455 24.80 9.97 0.00 3.82
494 499 1.255342 CTCGAACGTTCTGTGTGTGTG 59.745 52.381 24.80 7.16 0.00 3.82
496 501 1.266842 CGAACGTTCTGTGTGTGTGTG 60.267 52.381 24.80 2.12 0.00 3.82
498 503 1.803334 ACGTTCTGTGTGTGTGTGTT 58.197 45.000 0.00 0.00 0.00 3.32
499 504 2.147958 ACGTTCTGTGTGTGTGTGTTT 58.852 42.857 0.00 0.00 0.00 2.83
501 506 2.908009 CGTTCTGTGTGTGTGTGTTTTG 59.092 45.455 0.00 0.00 0.00 2.44
502 507 2.627863 TCTGTGTGTGTGTGTTTTGC 57.372 45.000 0.00 0.00 0.00 3.68
504 509 0.875059 TGTGTGTGTGTGTTTTGCGA 59.125 45.000 0.00 0.00 0.00 5.10
506 511 2.287608 TGTGTGTGTGTGTTTTGCGAAA 60.288 40.909 0.00 0.00 0.00 3.46
507 512 2.341168 GTGTGTGTGTGTTTTGCGAAAG 59.659 45.455 0.00 0.00 0.00 2.62
519 524 1.593196 TGCGAAAGGAAGGTTCTGTG 58.407 50.000 0.00 0.00 0.00 3.66
522 527 2.357952 GCGAAAGGAAGGTTCTGTGTTT 59.642 45.455 0.00 0.00 0.00 2.83
549 554 4.245251 AGGTACAACCAAACAAACTCCT 57.755 40.909 0.00 0.00 41.95 3.69
600 621 9.186837 TGCGGTTTATTAATTCCCTACATTTAA 57.813 29.630 0.00 0.00 0.00 1.52
731 764 1.166531 GCGGAACAAGACAAGGCAGT 61.167 55.000 0.00 0.00 0.00 4.40
1430 1488 2.236395 CCCCTTCCTGTAATTGACGTCT 59.764 50.000 17.92 0.00 0.00 4.18
1431 1489 3.522553 CCCTTCCTGTAATTGACGTCTC 58.477 50.000 17.92 3.09 0.00 3.36
1452 1510 0.258774 CCCCTCCCCACAATTGGTAG 59.741 60.000 10.83 0.00 42.10 3.18
1580 1639 9.330063 GGATGTCACACAATTCTTTCATAGATA 57.670 33.333 0.00 0.00 31.54 1.98
1734 1795 7.391554 TGTGCTTGTCTATAAATTTCAGCTTCT 59.608 33.333 0.00 0.00 0.00 2.85
1815 1876 1.482593 GAGCTAGCTTCCTAAGGCACA 59.517 52.381 20.42 0.00 0.00 4.57
1823 1884 1.123077 TCCTAAGGCACATGAGCGAT 58.877 50.000 9.09 3.04 34.64 4.58
1826 1887 2.554142 CTAAGGCACATGAGCGATTGA 58.446 47.619 9.09 0.00 34.64 2.57
1930 2024 1.945819 GCATGGACCTGACACGTTCAT 60.946 52.381 0.00 0.00 32.17 2.57
2029 2140 8.605947 ACTCTCTCTCTGATCTATAATAGCAGT 58.394 37.037 0.00 0.00 0.00 4.40
2161 2275 3.055819 GTGCATCCTAGAGGTGTTCTTCA 60.056 47.826 0.00 0.00 37.36 3.02
2217 2332 1.537202 GTTGATGCTTCTGGTGGTGTC 59.463 52.381 0.88 0.00 0.00 3.67
2303 2419 3.375299 GGCAATATCGAAGCTCTTGTGTT 59.625 43.478 0.00 0.00 0.00 3.32
2334 2450 3.196685 AGTCTGGTGAGCACTATTCCTTC 59.803 47.826 0.16 0.00 0.00 3.46
2369 2488 8.950210 CATTGTTTCCTTGTAGATAACACTGAT 58.050 33.333 0.00 0.00 38.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.124411 TCTAAGCAATACCCTCCACCC 58.876 52.381 0.00 0.00 0.00 4.61
1 2 3.136626 ACATCTAAGCAATACCCTCCACC 59.863 47.826 0.00 0.00 0.00 4.61
2 3 4.130118 CACATCTAAGCAATACCCTCCAC 58.870 47.826 0.00 0.00 0.00 4.02
3 4 3.136443 CCACATCTAAGCAATACCCTCCA 59.864 47.826 0.00 0.00 0.00 3.86
4 5 3.391296 TCCACATCTAAGCAATACCCTCC 59.609 47.826 0.00 0.00 0.00 4.30
5 6 4.689612 TCCACATCTAAGCAATACCCTC 57.310 45.455 0.00 0.00 0.00 4.30
6 7 5.653255 AATCCACATCTAAGCAATACCCT 57.347 39.130 0.00 0.00 0.00 4.34
7 8 5.010012 CCAAATCCACATCTAAGCAATACCC 59.990 44.000 0.00 0.00 0.00 3.69
13 14 3.889815 CCTCCAAATCCACATCTAAGCA 58.110 45.455 0.00 0.00 0.00 3.91
14 15 2.620585 GCCTCCAAATCCACATCTAAGC 59.379 50.000 0.00 0.00 0.00 3.09
36 37 1.271707 GGAAGACCCACCGAAATCCAA 60.272 52.381 0.00 0.00 34.14 3.53
57 58 1.002868 CACTGAGCCCACCCTTGAG 60.003 63.158 0.00 0.00 0.00 3.02
155 157 2.815478 CTTCAAGAGGATAGCGACACC 58.185 52.381 0.00 0.00 0.00 4.16
172 174 2.952310 GGGGAACTACAATGATGCCTTC 59.048 50.000 0.00 0.00 0.00 3.46
178 180 2.514160 GGGGAAGGGGAACTACAATGAT 59.486 50.000 0.00 0.00 0.00 2.45
181 183 1.305886 GGGGGAAGGGGAACTACAAT 58.694 55.000 0.00 0.00 0.00 2.71
202 204 0.961753 GTTTCCCCTCAAAGCACTGG 59.038 55.000 0.00 0.00 0.00 4.00
210 212 2.711009 ACAGACATGAGTTTCCCCTCAA 59.289 45.455 0.00 0.00 44.21 3.02
211 213 2.303022 GACAGACATGAGTTTCCCCTCA 59.697 50.000 0.00 0.00 45.06 3.86
216 218 3.244561 TGAAGGGACAGACATGAGTTTCC 60.245 47.826 0.00 0.00 0.00 3.13
229 231 1.118965 TTGCCGAGTCTGAAGGGACA 61.119 55.000 0.00 0.00 38.57 4.02
237 239 1.342082 CGTAACCGTTGCCGAGTCTG 61.342 60.000 0.00 0.00 35.63 3.51
238 240 1.080974 CGTAACCGTTGCCGAGTCT 60.081 57.895 0.00 0.00 35.63 3.24
246 248 0.788391 GAGGTGAAGCGTAACCGTTG 59.212 55.000 0.00 0.00 41.61 4.10
253 255 0.527565 GGGTAACGAGGTGAAGCGTA 59.472 55.000 0.00 0.00 40.23 4.42
283 286 1.451567 CACCTGAGCTCCATGGCAG 60.452 63.158 12.15 8.52 34.17 4.85
284 287 2.672908 CACCTGAGCTCCATGGCA 59.327 61.111 12.15 0.00 34.17 4.92
286 289 2.996395 AGCACCTGAGCTCCATGG 59.004 61.111 12.15 4.97 42.18 3.66
295 298 3.076621 GACAATGTCAATGAGCACCTGA 58.923 45.455 8.74 0.00 32.09 3.86
304 307 2.521996 CACGCCATGACAATGTCAATG 58.478 47.619 20.64 16.88 45.96 2.82
309 312 2.689785 CGCCACGCCATGACAATGT 61.690 57.895 0.00 0.00 31.27 2.71
310 313 2.100797 CGCCACGCCATGACAATG 59.899 61.111 0.00 0.00 0.00 2.82
311 314 2.359850 ACGCCACGCCATGACAAT 60.360 55.556 0.00 0.00 0.00 2.71
312 315 3.047280 GACGCCACGCCATGACAA 61.047 61.111 0.00 0.00 0.00 3.18
325 328 2.861006 GGAGCCAGAAAACGACGC 59.139 61.111 0.00 0.00 0.00 5.19
356 359 1.801913 GACACGACTACGCTGCCAG 60.802 63.158 0.00 0.00 43.96 4.85
357 360 2.257371 GACACGACTACGCTGCCA 59.743 61.111 0.00 0.00 43.96 4.92
362 365 2.461842 GCTAATAACGACACGACTACGC 59.538 50.000 0.00 0.00 43.96 4.42
374 377 2.417239 TCACGCAAAAGGGCTAATAACG 59.583 45.455 0.00 0.00 0.00 3.18
378 381 2.825532 ACAATCACGCAAAAGGGCTAAT 59.174 40.909 0.00 0.00 0.00 1.73
383 386 3.005367 ACCTAAACAATCACGCAAAAGGG 59.995 43.478 0.00 0.00 0.00 3.95
384 387 3.980775 CACCTAAACAATCACGCAAAAGG 59.019 43.478 0.00 0.00 0.00 3.11
390 393 0.793861 TCGCACCTAAACAATCACGC 59.206 50.000 0.00 0.00 0.00 5.34
391 394 3.740044 AATCGCACCTAAACAATCACG 57.260 42.857 0.00 0.00 0.00 4.35
393 396 6.751514 ACATAAATCGCACCTAAACAATCA 57.248 33.333 0.00 0.00 0.00 2.57
398 401 6.375377 TGAACAACATAAATCGCACCTAAAC 58.625 36.000 0.00 0.00 0.00 2.01
407 412 8.843733 CACAGAGAAATTGAACAACATAAATCG 58.156 33.333 0.00 0.00 0.00 3.34
411 416 9.288576 AGATCACAGAGAAATTGAACAACATAA 57.711 29.630 0.00 0.00 0.00 1.90
439 444 2.095718 GGCTTTCGTCCTGCTTACAAAG 60.096 50.000 0.00 0.00 0.00 2.77
444 449 2.561478 AAAGGCTTTCGTCCTGCTTA 57.439 45.000 6.68 0.00 33.43 3.09
445 450 1.609072 GAAAAGGCTTTCGTCCTGCTT 59.391 47.619 13.76 0.00 33.43 3.91
446 451 1.202818 AGAAAAGGCTTTCGTCCTGCT 60.203 47.619 13.76 0.00 44.83 4.24
448 453 4.938226 AGAATAGAAAAGGCTTTCGTCCTG 59.062 41.667 13.76 0.00 44.83 3.86
449 454 5.167303 AGAATAGAAAAGGCTTTCGTCCT 57.833 39.130 13.76 10.43 44.83 3.85
452 457 6.128526 CGAGAAAGAATAGAAAAGGCTTTCGT 60.129 38.462 13.76 6.13 45.42 3.85
453 458 6.090898 TCGAGAAAGAATAGAAAAGGCTTTCG 59.909 38.462 13.76 7.80 45.42 3.46
455 460 7.571428 CGTTCGAGAAAGAATAGAAAAGGCTTT 60.571 37.037 6.68 6.68 32.25 3.51
456 461 6.128526 CGTTCGAGAAAGAATAGAAAAGGCTT 60.129 38.462 0.00 0.00 32.25 4.35
466 471 5.401376 CACACAGAACGTTCGAGAAAGAATA 59.599 40.000 21.87 0.00 32.25 1.75
474 479 1.255342 CACACACACAGAACGTTCGAG 59.745 52.381 21.87 19.82 0.00 4.04
480 485 2.892373 AAACACACACACACAGAACG 57.108 45.000 0.00 0.00 0.00 3.95
485 490 0.875059 TCGCAAAACACACACACACA 59.125 45.000 0.00 0.00 0.00 3.72
488 493 1.917303 CCTTTCGCAAAACACACACAC 59.083 47.619 0.00 0.00 0.00 3.82
490 495 2.553079 TCCTTTCGCAAAACACACAC 57.447 45.000 0.00 0.00 0.00 3.82
494 499 2.863401 ACCTTCCTTTCGCAAAACAC 57.137 45.000 0.00 0.00 0.00 3.32
496 501 3.181490 ACAGAACCTTCCTTTCGCAAAAC 60.181 43.478 0.00 0.00 0.00 2.43
498 503 2.357637 CACAGAACCTTCCTTTCGCAAA 59.642 45.455 0.00 0.00 0.00 3.68
499 504 1.946768 CACAGAACCTTCCTTTCGCAA 59.053 47.619 0.00 0.00 0.00 4.85
501 506 1.594331 ACACAGAACCTTCCTTTCGC 58.406 50.000 0.00 0.00 0.00 4.70
502 507 4.632538 AAAACACAGAACCTTCCTTTCG 57.367 40.909 0.00 0.00 0.00 3.46
522 527 7.148035 GGAGTTTGTTTGGTTGTACCTAGAAAA 60.148 37.037 0.00 0.00 39.58 2.29
526 531 5.238650 CAGGAGTTTGTTTGGTTGTACCTAG 59.761 44.000 0.00 0.00 39.58 3.02
527 532 5.127491 CAGGAGTTTGTTTGGTTGTACCTA 58.873 41.667 0.00 0.00 39.58 3.08
549 554 6.674694 AAAGCACAACATTAAATTTGCACA 57.325 29.167 0.00 0.00 32.24 4.57
600 621 7.378181 ACGAACAAATGCAAAAAGGATCTAAT 58.622 30.769 0.00 0.00 0.00 1.73
622 655 0.674581 TTCGCCTCTAAGGACGACGA 60.675 55.000 0.00 1.84 41.23 4.20
755 788 2.890474 CGTATGCAGACGTGGGGC 60.890 66.667 24.92 0.00 38.04 5.80
785 818 1.639280 CTTCGAGAGAGAGCAAAGGC 58.361 55.000 0.00 0.00 43.69 4.35
786 819 1.821753 TCCTTCGAGAGAGAGCAAAGG 59.178 52.381 0.00 0.00 43.69 3.11
1580 1639 2.564062 CACCAAGCCAACCAATCTCATT 59.436 45.455 0.00 0.00 0.00 2.57
1644 1703 5.407387 GCTGTTTTACACGATCTCAACCTAA 59.593 40.000 0.00 0.00 0.00 2.69
1780 1841 1.018148 AGCTCGTCTGTCGACCATAG 58.982 55.000 14.12 3.88 44.01 2.23
1883 1976 9.672673 TCAAGTTATAGCTGCTCTTCTATTTTT 57.327 29.630 4.91 0.00 0.00 1.94
1930 2024 6.191657 ACCTCTGATTACATCCATTATGCA 57.808 37.500 0.00 0.00 39.39 3.96
2029 2140 5.721000 ACATAAAATGGGAAGGCATTGAGAA 59.279 36.000 0.00 0.00 33.60 2.87
2067 2178 5.391256 TCTGTTTTACTCCTCCTCACACTA 58.609 41.667 0.00 0.00 0.00 2.74
2161 2275 0.855598 ATCCCAGCATACCAGCCATT 59.144 50.000 0.00 0.00 34.23 3.16
2217 2332 1.060937 GCTATTGCTGCACCGTTCG 59.939 57.895 0.00 0.00 36.03 3.95
2293 2409 6.310197 CAGACTAAATAAGCAACACAAGAGC 58.690 40.000 0.00 0.00 0.00 4.09
2303 2419 4.020218 AGTGCTCACCAGACTAAATAAGCA 60.020 41.667 0.00 0.00 36.26 3.91
2334 2450 7.479980 TCTACAAGGAAACAATGACAAAACAG 58.520 34.615 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.