Multiple sequence alignment - TraesCS5B01G458400

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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 TraesCS5B01G458400 chr5B 100.000 2819 0 0 1 2819 633276467 633279285 0.000000e+00 5206.0
1 TraesCS5B01G458400 chr5B 81.159 759 123 15 1957 2712 604718971 604718230 2.420000e-165 592.0
2 TraesCS5B01G458400 chr5B 73.171 656 118 35 2184 2813 633287018 633287641 1.720000e-42 183.0
3 TraesCS5B01G458400 chr5B 71.900 637 133 26 2184 2800 623114453 623113843 2.930000e-30 143.0
4 TraesCS5B01G458400 chr5B 100.000 50 0 0 393 442 633276811 633276860 2.990000e-15 93.5
5 TraesCS5B01G458400 chr3D 95.945 1455 57 2 391 1843 69660358 69661812 0.000000e+00 2359.0
6 TraesCS5B01G458400 chr3D 94.340 159 8 1 237 394 69660252 69660410 2.810000e-60 243.0
7 TraesCS5B01G458400 chr6A 95.545 1459 60 3 387 1843 502339217 502340672 0.000000e+00 2329.0
8 TraesCS5B01G458400 chr6A 92.050 239 17 1 1 239 532850171 532850407 4.500000e-88 335.0
9 TraesCS5B01G458400 chr6A 94.969 159 7 1 237 394 502339115 502339273 6.030000e-62 248.0
10 TraesCS5B01G458400 chr7B 95.186 1454 66 4 391 1842 84527195 84528646 0.000000e+00 2294.0
11 TraesCS5B01G458400 chr7B 91.102 236 17 1 1 236 84524307 84524538 1.630000e-82 316.0
12 TraesCS5B01G458400 chr3A 95.055 1456 69 3 391 1844 681100938 681099484 0.000000e+00 2287.0
13 TraesCS5B01G458400 chr3A 90.377 239 21 1 1 239 681103831 681103595 2.110000e-81 313.0
14 TraesCS5B01G458400 chr6B 94.777 1455 74 2 391 1843 695056582 695058036 0.000000e+00 2265.0
15 TraesCS5B01G458400 chr6B 91.525 236 16 1 1 236 88881992 88882223 3.500000e-84 322.0
16 TraesCS5B01G458400 chr6B 94.969 159 7 1 237 394 88884777 88884935 6.030000e-62 248.0
17 TraesCS5B01G458400 chr4A 94.505 1456 78 2 391 1844 107232355 107230900 0.000000e+00 2244.0
18 TraesCS5B01G458400 chr4A 94.969 159 7 1 237 394 107232461 107232303 6.030000e-62 248.0
19 TraesCS5B01G458400 chr7A 94.085 1454 84 2 391 1842 96153692 96155145 0.000000e+00 2207.0
20 TraesCS5B01G458400 chr7A 92.339 1462 100 6 393 1843 73942699 73941239 0.000000e+00 2069.0
21 TraesCS5B01G458400 chr7A 95.597 159 6 1 237 394 96153586 96153744 1.300000e-63 254.0
22 TraesCS5B01G458400 chr2B 95.478 1349 59 2 500 1846 717931261 717929913 0.000000e+00 2152.0
23 TraesCS5B01G458400 chr2B 81.544 596 97 11 1942 2528 667422746 667422155 1.960000e-131 479.0
24 TraesCS5B01G458400 chr2B 91.286 241 18 1 1 241 775663853 775664090 2.710000e-85 326.0
25 TraesCS5B01G458400 chr2B 90.795 239 19 1 1 239 775732742 775732977 1.630000e-82 316.0
26 TraesCS5B01G458400 chr2B 95.597 159 6 1 237 394 137914014 137914172 1.300000e-63 254.0
27 TraesCS5B01G458400 chr2B 94.969 159 7 1 237 394 137904028 137903870 6.030000e-62 248.0
28 TraesCS5B01G458400 chr2B 83.088 136 23 0 2577 2712 667422142 667422007 1.060000e-24 124.0
29 TraesCS5B01G458400 chr5D 93.458 963 53 7 1867 2819 501430288 501429326 0.000000e+00 1421.0
30 TraesCS5B01G458400 chrUn 91.286 241 18 1 1 241 178822700 178822937 2.710000e-85 326.0
31 TraesCS5B01G458400 chrUn 91.286 241 18 1 1 241 258650332 258650569 2.710000e-85 326.0
32 TraesCS5B01G458400 chr3B 90.377 239 20 1 1 239 21805244 21805009 7.580000e-81 311.0
33 TraesCS5B01G458400 chr3B 94.969 159 7 1 237 394 21802482 21802324 6.030000e-62 248.0
34 TraesCS5B01G458400 chr1A 94.340 159 8 1 237 394 551943096 551942938 2.810000e-60 243.0
35 TraesCS5B01G458400 chr2A 81.119 143 18 9 2577 2712 699527691 699527551 3.840000e-19 106.0


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 TraesCS5B01G458400 chr5B 633276467 633279285 2818 False 2649.75 5206 100.0000 1 2819 2 chr5B.!!$F2 2818
1 TraesCS5B01G458400 chr5B 604718230 604718971 741 True 592.00 592 81.1590 1957 2712 1 chr5B.!!$R1 755
2 TraesCS5B01G458400 chr3D 69660252 69661812 1560 False 1301.00 2359 95.1425 237 1843 2 chr3D.!!$F1 1606
3 TraesCS5B01G458400 chr6A 502339115 502340672 1557 False 1288.50 2329 95.2570 237 1843 2 chr6A.!!$F2 1606
4 TraesCS5B01G458400 chr7B 84524307 84528646 4339 False 1305.00 2294 93.1440 1 1842 2 chr7B.!!$F1 1841
5 TraesCS5B01G458400 chr3A 681099484 681103831 4347 True 1300.00 2287 92.7160 1 1844 2 chr3A.!!$R1 1843
6 TraesCS5B01G458400 chr6B 695056582 695058036 1454 False 2265.00 2265 94.7770 391 1843 1 chr6B.!!$F1 1452
7 TraesCS5B01G458400 chr6B 88881992 88884935 2943 False 285.00 322 93.2470 1 394 2 chr6B.!!$F2 393
8 TraesCS5B01G458400 chr4A 107230900 107232461 1561 True 1246.00 2244 94.7370 237 1844 2 chr4A.!!$R1 1607
9 TraesCS5B01G458400 chr7A 73941239 73942699 1460 True 2069.00 2069 92.3390 393 1843 1 chr7A.!!$R1 1450
10 TraesCS5B01G458400 chr7A 96153586 96155145 1559 False 1230.50 2207 94.8410 237 1842 2 chr7A.!!$F1 1605
11 TraesCS5B01G458400 chr2B 717929913 717931261 1348 True 2152.00 2152 95.4780 500 1846 1 chr2B.!!$R2 1346
12 TraesCS5B01G458400 chr2B 667422007 667422746 739 True 301.50 479 82.3160 1942 2712 2 chr2B.!!$R3 770
13 TraesCS5B01G458400 chr5D 501429326 501430288 962 True 1421.00 1421 93.4580 1867 2819 1 chr5D.!!$R1 952
14 TraesCS5B01G458400 chr3B 21802324 21805244 2920 True 279.50 311 92.6730 1 394 2 chr3B.!!$R1 393

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
405 2959 0.105593 TGGCGGAGATCTCATGAAGC 59.894 55.0 23.85 18.09 0.0 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1961 4540 0.036732 GATCCAGCACAACCCAGTCA 59.963 55.0 0.0 0.0 0.0 3.41 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
76 77 4.951715 TGGATGCTAGCTTGATGTTTTGAT 59.048 37.500 17.23 0.00 0.00 2.57
82 83 5.298777 GCTAGCTTGATGTTTTGATGAGGAT 59.701 40.000 7.70 0.00 0.00 3.24
83 84 6.183360 GCTAGCTTGATGTTTTGATGAGGATT 60.183 38.462 7.70 0.00 0.00 3.01
120 121 2.904434 ACCTGTTGTCCCCTAGTGTTAG 59.096 50.000 0.00 0.00 0.00 2.34
122 123 3.195825 CCTGTTGTCCCCTAGTGTTAGAG 59.804 52.174 0.00 0.00 0.00 2.43
137 138 3.072476 TGTTAGAGCTAGGGTTTGCTGTT 59.928 43.478 0.00 0.00 39.91 3.16
170 171 4.142609 ACAGCTGTCTGAGAGTTTTTCA 57.857 40.909 15.25 0.00 42.95 2.69
179 180 6.483307 TGTCTGAGAGTTTTTCATTCATCGTT 59.517 34.615 0.00 0.00 0.00 3.85
186 187 4.718858 TTTTCATTCATCGTTCGTCGTT 57.281 36.364 0.00 0.00 40.80 3.85
191 192 1.681825 TCATCGTTCGTCGTTGTCTG 58.318 50.000 11.16 0.00 39.41 3.51
194 195 1.198397 CGTTCGTCGTTGTCTGCAC 59.802 57.895 0.00 0.00 34.52 4.57
213 214 1.736645 CGACCGGACGCAATGAAGT 60.737 57.895 14.33 0.00 0.00 3.01
293 2847 1.067516 GCATGGCGCCTTATTGACAAT 59.932 47.619 29.70 6.09 32.94 2.71
325 2879 3.750371 TGTGTGTGTTGATCCTTAAGGG 58.250 45.455 21.53 3.20 35.41 3.95
342 2896 7.784550 TCCTTAAGGGGAAATATTTTCCTGATG 59.215 37.037 22.43 15.68 36.03 3.07
343 2897 7.784550 CCTTAAGGGGAAATATTTTCCTGATGA 59.215 37.037 22.43 7.48 36.03 2.92
344 2898 9.200817 CTTAAGGGGAAATATTTTCCTGATGAA 57.799 33.333 22.43 9.52 36.03 2.57
345 2899 7.666063 AAGGGGAAATATTTTCCTGATGAAG 57.334 36.000 22.43 0.00 36.03 3.02
346 2900 6.985225 AGGGGAAATATTTTCCTGATGAAGA 58.015 36.000 22.43 0.00 36.03 2.87
347 2901 7.599170 AGGGGAAATATTTTCCTGATGAAGAT 58.401 34.615 22.43 0.00 36.03 2.40
348 2902 7.727634 AGGGGAAATATTTTCCTGATGAAGATC 59.272 37.037 22.43 4.60 36.03 2.75
349 2903 7.727634 GGGGAAATATTTTCCTGATGAAGATCT 59.272 37.037 22.43 0.00 36.03 2.75
350 2904 8.791675 GGGAAATATTTTCCTGATGAAGATCTC 58.208 37.037 17.20 0.00 38.61 2.75
351 2905 9.347240 GGAAATATTTTCCTGATGAAGATCTCA 57.653 33.333 10.99 0.00 35.60 3.27
356 2910 7.860918 TTTTCCTGATGAAGATCTCATGAAG 57.139 36.000 11.03 8.75 45.23 3.02
357 2911 4.958509 TCCTGATGAAGATCTCATGAAGC 58.041 43.478 11.03 0.00 45.23 3.86
358 2912 4.407945 TCCTGATGAAGATCTCATGAAGCA 59.592 41.667 11.03 4.30 45.23 3.91
359 2913 5.104652 TCCTGATGAAGATCTCATGAAGCAA 60.105 40.000 11.03 0.00 45.23 3.91
360 2914 5.007823 CCTGATGAAGATCTCATGAAGCAAC 59.992 44.000 11.03 0.00 45.23 4.17
361 2915 5.742063 TGATGAAGATCTCATGAAGCAACT 58.258 37.500 11.03 0.00 45.23 3.16
362 2916 6.178324 TGATGAAGATCTCATGAAGCAACTT 58.822 36.000 11.03 0.00 45.23 2.66
363 2917 6.657966 TGATGAAGATCTCATGAAGCAACTTT 59.342 34.615 11.03 0.00 45.23 2.66
364 2918 7.825761 TGATGAAGATCTCATGAAGCAACTTTA 59.174 33.333 11.03 0.00 45.23 1.85
365 2919 7.984422 TGAAGATCTCATGAAGCAACTTTAA 57.016 32.000 0.00 0.00 0.00 1.52
366 2920 8.394971 TGAAGATCTCATGAAGCAACTTTAAA 57.605 30.769 0.00 0.00 0.00 1.52
367 2921 8.849168 TGAAGATCTCATGAAGCAACTTTAAAA 58.151 29.630 0.00 0.00 0.00 1.52
368 2922 9.683069 GAAGATCTCATGAAGCAACTTTAAAAA 57.317 29.630 0.00 0.00 0.00 1.94
404 2958 2.224233 ACATGGCGGAGATCTCATGAAG 60.224 50.000 23.85 11.07 39.27 3.02
405 2959 0.105593 TGGCGGAGATCTCATGAAGC 59.894 55.000 23.85 18.09 0.00 3.86
406 2960 0.105593 GGCGGAGATCTCATGAAGCA 59.894 55.000 23.85 0.00 0.00 3.91
408 2962 1.596727 GCGGAGATCTCATGAAGCAAC 59.403 52.381 23.85 2.66 0.00 4.17
409 2963 2.741228 GCGGAGATCTCATGAAGCAACT 60.741 50.000 23.85 0.00 0.00 3.16
412 2966 5.111989 CGGAGATCTCATGAAGCAACTTTA 58.888 41.667 23.85 0.00 0.00 1.85
483 3042 3.633525 ACGCTCAGACGTGGGTATATTTA 59.366 43.478 0.00 0.00 46.28 1.40
795 3354 5.583457 CAGAATGGGAATTTCAATTTGAGCC 59.417 40.000 0.00 1.11 0.00 4.70
834 3393 1.821136 GGGAGCTTCAAACCCATCTTG 59.179 52.381 2.53 0.00 42.81 3.02
915 3475 1.542108 GCGCTCCAGAATGCTATTCCT 60.542 52.381 0.00 0.00 31.97 3.36
1039 3599 0.889186 GGCAATGGACGTGTGGAAGT 60.889 55.000 0.00 0.00 0.00 3.01
1171 3731 0.790814 GCCGAAGTTCAGAGAAACGG 59.209 55.000 3.32 0.00 41.44 4.44
1218 3778 4.095610 GGTATGAAAGGCGAAAATTGACG 58.904 43.478 0.00 0.00 0.00 4.35
1257 3817 7.012704 ACTCTAAGCGCATGTCAAATCAATATT 59.987 33.333 11.47 0.00 0.00 1.28
1377 3938 4.712122 ATTAAATGTTGACGCGGGATTT 57.288 36.364 12.47 9.36 0.00 2.17
1394 3955 4.495422 GGATTTGATAGTGACACACTCGT 58.505 43.478 8.59 0.00 41.21 4.18
1427 3988 3.555168 GGAGCAGTTATTCGGGACCATAG 60.555 52.174 0.00 0.00 0.00 2.23
1488 4050 0.664767 GCTTCGACTCGTTCACAGCT 60.665 55.000 0.00 0.00 0.00 4.24
1522 4084 5.523369 CAGTGAGGTTTGGTTTGAATCTTC 58.477 41.667 0.00 0.00 0.00 2.87
1620 4182 3.509575 ACTCTTCTTCAGTCGCTTCATCT 59.490 43.478 0.00 0.00 0.00 2.90
1629 4191 9.237187 TCTTCAGTCGCTTCATCTATTATAGAT 57.763 33.333 8.80 8.80 46.06 1.98
1863 4433 6.715347 AAAAAGCTCAAATATATCGCCCTT 57.285 33.333 0.00 0.00 0.00 3.95
1864 4434 5.948992 AAAGCTCAAATATATCGCCCTTC 57.051 39.130 0.00 0.00 0.00 3.46
1865 4435 3.944087 AGCTCAAATATATCGCCCTTCC 58.056 45.455 0.00 0.00 0.00 3.46
1880 4450 3.306613 CCCTTCCTTCCGGTCTATTAGT 58.693 50.000 0.00 0.00 0.00 2.24
1882 4452 4.897670 CCCTTCCTTCCGGTCTATTAGTTA 59.102 45.833 0.00 0.00 0.00 2.24
1890 4460 3.491447 CCGGTCTATTAGTTAACCCACCG 60.491 52.174 15.36 15.36 44.13 4.94
1899 4469 3.946606 AGTTAACCCACCGAAACCATAG 58.053 45.455 0.88 0.00 0.00 2.23
1918 4488 1.767088 AGGTTTAGGGTTAGGGATCGC 59.233 52.381 0.54 0.54 0.00 4.58
1961 4540 2.593956 GGAGACCGTTGCCTTCCCT 61.594 63.158 0.00 0.00 0.00 4.20
2030 4609 1.595993 TAGACAGTGCTCGTGAGGCC 61.596 60.000 0.00 0.00 0.00 5.19
2103 4683 1.140312 TGCTTGTCCTTCACCCTCTT 58.860 50.000 0.00 0.00 0.00 2.85
2126 4709 3.452627 GGATCCTCCAAAGCTCTCTTACA 59.547 47.826 3.84 0.00 36.28 2.41
2140 4723 5.378292 TCTCTTACATCGATATCCACTGC 57.622 43.478 0.00 0.00 0.00 4.40
2240 4827 2.685897 CTCGTCCTCTTCGAAATCTCCT 59.314 50.000 0.00 0.00 36.89 3.69
2252 4839 1.267574 AATCTCCTTGCCGAGCCAGA 61.268 55.000 0.00 0.00 0.00 3.86
2266 4859 2.050351 CAGACGTGCTTCGACGGT 60.050 61.111 0.00 0.00 43.84 4.83
2290 4883 2.619177 CCCGTCAGATCTGTTCGTCTAT 59.381 50.000 26.94 0.00 0.00 1.98
2295 4888 4.272991 GTCAGATCTGTTCGTCTATACCGT 59.727 45.833 21.92 0.00 0.00 4.83
2533 5129 0.827368 AACTCTTCCTCGAGATGCCC 59.173 55.000 15.71 0.00 35.06 5.36
2613 5209 1.071019 GATGTGCTCGCTTTCGACGA 61.071 55.000 0.00 0.00 40.21 4.20
2666 5262 1.291184 CGTCCTGCTGTGCGATTTCA 61.291 55.000 0.00 0.00 0.00 2.69
2676 5272 1.297893 GCGATTTCACCGATGCAGC 60.298 57.895 0.00 0.00 0.00 5.25
2729 5325 1.829222 GAGGACAAGATTACCCCGACA 59.171 52.381 0.00 0.00 0.00 4.35
2731 5327 2.236395 AGGACAAGATTACCCCGACAAG 59.764 50.000 0.00 0.00 0.00 3.16
2747 5343 1.336148 ACAAGCGACACATTGCAATGG 60.336 47.619 35.85 27.36 40.70 3.16
2770 5366 3.635331 CCTCGCGAATTATTACCGAAGA 58.365 45.455 11.33 0.00 0.00 2.87
2771 5367 4.235360 CCTCGCGAATTATTACCGAAGAT 58.765 43.478 11.33 0.00 0.00 2.40
2791 5387 0.681887 TGTCCATCAGCCAAGGCATG 60.682 55.000 14.40 8.97 44.88 4.06
2801 5397 1.659622 CCAAGGCATGATGCGCTTCA 61.660 55.000 25.82 25.82 46.21 3.02
2814 5410 0.298707 CGCTTCATCGACATTGACCG 59.701 55.000 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 0.952497 ACCTCGTGCTGTGATTGCAG 60.952 55.000 0.00 0.00 41.41 4.41
120 121 2.351455 GAGAACAGCAAACCCTAGCTC 58.649 52.381 0.00 0.00 39.50 4.09
122 123 1.454201 GGAGAACAGCAAACCCTAGC 58.546 55.000 0.00 0.00 0.00 3.42
170 171 2.661675 CAGACAACGACGAACGATGAAT 59.338 45.455 18.51 7.84 45.29 2.57
186 187 3.986006 GTCCGGTCGGTGCAGACA 61.986 66.667 9.36 0.00 42.62 3.41
194 195 2.433491 TTCATTGCGTCCGGTCGG 60.433 61.111 22.18 2.52 0.00 4.79
293 2847 0.828022 ACACACACAAAGAGTCCGGA 59.172 50.000 0.00 0.00 0.00 5.14
325 2879 9.347240 TGAGATCTTCATCAGGAAAATATTTCC 57.653 33.333 12.85 12.85 38.86 3.13
342 2896 9.683069 TTTTTAAAGTTGCTTCATGAGATCTTC 57.317 29.630 0.00 0.00 0.00 2.87
365 2919 7.201732 CCGCCATGTATATGAAGTCTTCTTTTT 60.202 37.037 13.67 2.46 36.36 1.94
366 2920 6.260936 CCGCCATGTATATGAAGTCTTCTTTT 59.739 38.462 13.67 5.58 36.36 2.27
367 2921 5.760253 CCGCCATGTATATGAAGTCTTCTTT 59.240 40.000 13.67 4.34 36.36 2.52
368 2922 5.070446 TCCGCCATGTATATGAAGTCTTCTT 59.930 40.000 13.67 9.81 36.36 2.52
369 2923 4.588951 TCCGCCATGTATATGAAGTCTTCT 59.411 41.667 13.67 2.56 36.36 2.85
370 2924 4.883083 TCCGCCATGTATATGAAGTCTTC 58.117 43.478 5.58 5.58 36.36 2.87
371 2925 4.588951 TCTCCGCCATGTATATGAAGTCTT 59.411 41.667 0.25 0.00 36.36 3.01
372 2926 4.152647 TCTCCGCCATGTATATGAAGTCT 58.847 43.478 0.25 0.00 36.36 3.24
373 2927 4.521130 TCTCCGCCATGTATATGAAGTC 57.479 45.455 0.25 0.00 36.36 3.01
374 2928 4.774726 AGATCTCCGCCATGTATATGAAGT 59.225 41.667 0.25 0.00 36.36 3.01
375 2929 5.105595 TGAGATCTCCGCCATGTATATGAAG 60.106 44.000 20.03 0.00 36.36 3.02
376 2930 4.772100 TGAGATCTCCGCCATGTATATGAA 59.228 41.667 20.03 0.00 36.36 2.57
377 2931 4.344104 TGAGATCTCCGCCATGTATATGA 58.656 43.478 20.03 0.00 36.36 2.15
378 2932 4.725790 TGAGATCTCCGCCATGTATATG 57.274 45.455 20.03 0.00 0.00 1.78
379 2933 4.958581 TCATGAGATCTCCGCCATGTATAT 59.041 41.667 20.03 0.00 38.00 0.86
380 2934 4.344104 TCATGAGATCTCCGCCATGTATA 58.656 43.478 20.03 0.00 38.00 1.47
381 2935 3.168292 TCATGAGATCTCCGCCATGTAT 58.832 45.455 20.03 1.26 38.00 2.29
382 2936 2.597455 TCATGAGATCTCCGCCATGTA 58.403 47.619 20.03 0.00 38.00 2.29
383 2937 1.417288 TCATGAGATCTCCGCCATGT 58.583 50.000 20.03 0.00 38.00 3.21
384 2938 2.414806 CTTCATGAGATCTCCGCCATG 58.585 52.381 20.03 16.27 38.12 3.66
385 2939 1.270732 GCTTCATGAGATCTCCGCCAT 60.271 52.381 20.03 4.55 0.00 4.40
386 2940 0.105593 GCTTCATGAGATCTCCGCCA 59.894 55.000 20.03 2.05 0.00 5.69
387 2941 0.105593 TGCTTCATGAGATCTCCGCC 59.894 55.000 20.03 3.56 0.00 6.13
388 2942 1.596727 GTTGCTTCATGAGATCTCCGC 59.403 52.381 20.03 13.87 0.00 5.54
389 2943 3.176552 AGTTGCTTCATGAGATCTCCG 57.823 47.619 20.03 11.21 0.00 4.63
483 3042 2.894731 TCTCACCATCACCAACTCTCT 58.105 47.619 0.00 0.00 0.00 3.10
569 3128 7.716998 AGAAACTCTAGAAAGAAGATTGTTGCA 59.283 33.333 0.00 0.00 0.00 4.08
814 3373 1.821136 CAAGATGGGTTTGAAGCTCCC 59.179 52.381 0.29 0.29 41.41 4.30
834 3393 3.383825 AGTTCCATACCGAGTCCATGTAC 59.616 47.826 0.00 0.00 0.00 2.90
905 3465 5.719085 AGGATAGATCGACAAGGAATAGCAT 59.281 40.000 0.00 0.00 0.00 3.79
915 3475 6.572509 GCTTATTAGCCAGGATAGATCGACAA 60.573 42.308 0.00 0.00 41.74 3.18
1119 3679 5.067674 CACTTGGATTTGTTGTTCTGGAAGA 59.932 40.000 0.00 0.00 44.68 2.87
1171 3731 4.025401 CCAAGCCGTCGTTGCCAC 62.025 66.667 0.00 0.00 0.00 5.01
1218 3778 3.241804 CGCTTAGAGTTTCTTCGTCATGC 60.242 47.826 0.00 0.00 0.00 4.06
1310 3870 0.389817 CCAAGCATCTGAACGGACGA 60.390 55.000 0.00 0.00 0.00 4.20
1345 3905 6.575942 GCGTCAACATTTAATTTCACGTAACT 59.424 34.615 0.00 0.00 0.00 2.24
1377 3938 3.078837 TGCTACGAGTGTGTCACTATCA 58.921 45.455 4.27 0.00 45.44 2.15
1394 3955 5.163764 CGAATAACTGCTCCAAATGTTGCTA 60.164 40.000 0.00 0.00 0.00 3.49
1488 4050 1.985473 ACCTCACTGCAATTGCTTCA 58.015 45.000 29.37 10.25 42.66 3.02
1522 4084 3.735237 ACTGCATCCGACAGTATTAGG 57.265 47.619 0.00 0.00 46.32 2.69
1845 4415 3.944087 AGGAAGGGCGATATATTTGAGC 58.056 45.455 0.00 0.00 0.00 4.26
1846 4416 4.938226 GGAAGGAAGGGCGATATATTTGAG 59.062 45.833 0.00 0.00 0.00 3.02
1847 4417 4.562757 CGGAAGGAAGGGCGATATATTTGA 60.563 45.833 0.00 0.00 0.00 2.69
1848 4418 3.684788 CGGAAGGAAGGGCGATATATTTG 59.315 47.826 0.00 0.00 0.00 2.32
1849 4419 3.939066 CGGAAGGAAGGGCGATATATTT 58.061 45.455 0.00 0.00 0.00 1.40
1850 4420 3.611766 CGGAAGGAAGGGCGATATATT 57.388 47.619 0.00 0.00 0.00 1.28
1865 4435 5.354767 GTGGGTTAACTAATAGACCGGAAG 58.645 45.833 9.46 0.00 32.91 3.46
1880 4450 2.643801 ACCTATGGTTTCGGTGGGTTAA 59.356 45.455 0.00 0.00 27.29 2.01
1882 4452 1.069775 ACCTATGGTTTCGGTGGGTT 58.930 50.000 0.00 0.00 27.29 4.11
1899 4469 1.202734 GGCGATCCCTAACCCTAAACC 60.203 57.143 0.00 0.00 0.00 3.27
1902 4472 1.697432 CATGGCGATCCCTAACCCTAA 59.303 52.381 0.00 0.00 0.00 2.69
1940 4519 1.446272 GAAGGCAACGGTCTCCTCG 60.446 63.158 2.22 0.00 46.39 4.63
1961 4540 0.036732 GATCCAGCACAACCCAGTCA 59.963 55.000 0.00 0.00 0.00 3.41
1970 4549 2.494445 CCGTAGCGATCCAGCACA 59.506 61.111 0.00 0.00 40.15 4.57
1994 4573 0.098376 CTAGGTCGTCGTGGCAGTAC 59.902 60.000 0.00 0.00 0.00 2.73
2030 4609 1.344942 CGGTCTTCTTCTCGTTGGCG 61.345 60.000 0.00 0.00 39.92 5.69
2036 4615 0.243907 TCAAGGCGGTCTTCTTCTCG 59.756 55.000 0.00 0.00 32.41 4.04
2083 4663 1.140312 AGAGGGTGAAGGACAAGCAA 58.860 50.000 0.00 0.00 0.00 3.91
2126 4709 1.188219 AGCGGGCAGTGGATATCGAT 61.188 55.000 2.16 2.16 0.00 3.59
2252 4839 2.354305 GTCACCGTCGAAGCACGT 60.354 61.111 0.00 0.00 43.13 4.49
2266 4859 0.526211 CGAACAGATCTGACGGGTCA 59.474 55.000 29.27 1.05 38.06 4.02
2290 4883 3.443045 GAAGGACCCGCGACGGTA 61.443 66.667 8.23 0.00 46.80 4.02
2447 5040 3.134458 CGGAATAATTGTCAGAGCCCTC 58.866 50.000 0.00 0.00 0.00 4.30
2613 5209 3.322466 CCCAGCAGAGGAACCGGT 61.322 66.667 0.00 0.00 0.00 5.28
2690 5286 1.599797 CGGGGAAAGGCACGAAGTT 60.600 57.895 0.00 0.00 41.61 2.66
2718 5314 0.390735 GTGTCGCTTGTCGGGGTAAT 60.391 55.000 0.00 0.00 39.05 1.89
2729 5325 0.244450 CCCATTGCAATGTGTCGCTT 59.756 50.000 31.87 0.00 34.60 4.68
2731 5327 1.806758 GCCCATTGCAATGTGTCGC 60.807 57.895 31.87 23.77 40.77 5.19
2747 5343 0.788391 CGGTAATAATTCGCGAGGCC 59.212 55.000 9.59 0.00 0.00 5.19
2770 5366 0.040058 TGCCTTGGCTGATGGACAAT 59.960 50.000 13.18 0.00 42.77 2.71
2771 5367 0.040058 ATGCCTTGGCTGATGGACAA 59.960 50.000 13.18 0.00 41.27 3.18
2801 5397 4.201951 GCCACGGTCAATGTCGAT 57.798 55.556 5.89 0.00 0.00 3.59


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

AutoCloner maintained by Alex Coulton.