Multiple sequence alignment - TraesCS1B01G394200

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 TraesCS1B01G394200 chr1B 100.000 3047 0 0 1 3047 626509735 626512781 0.000000e+00 5627.0
1 TraesCS1B01G394200 chr1B 92.941 425 16 7 954 1366 626500438 626500016 9.340000e-170 606.0
2 TraesCS1B01G394200 chr1B 93.103 348 16 1 1564 1903 626499773 626499426 1.260000e-138 503.0
3 TraesCS1B01G394200 chr1B 83.486 436 56 9 2622 3047 626498465 626498036 2.850000e-105 392.0
4 TraesCS1B01G394200 chr1B 79.429 175 21 11 586 755 573763023 573763187 3.210000e-20 110.0
5 TraesCS1B01G394200 chr1B 86.458 96 12 1 261 355 626506731 626506636 1.490000e-18 104.0
6 TraesCS1B01G394200 chr1B 86.585 82 10 1 1399 1479 626500018 626499937 4.180000e-14 89.8
7 TraesCS1B01G394200 chr1D 90.638 2916 162 46 178 3047 456059445 456062295 0.000000e+00 3770.0
8 TraesCS1B01G394200 chr1D 81.154 1698 225 44 1399 3047 456034645 456032994 0.000000e+00 1275.0
9 TraesCS1B01G394200 chr1D 85.818 550 39 19 824 1366 456035160 456034643 5.740000e-152 547.0
10 TraesCS1B01G394200 chr1D 78.261 184 29 7 579 759 32485693 32485868 1.160000e-19 108.0
11 TraesCS1B01G394200 chr1A 86.996 1784 153 35 824 2574 549589955 549588218 0.000000e+00 1936.0
12 TraesCS1B01G394200 chr1A 92.681 1134 48 4 1526 2650 549604390 549605497 0.000000e+00 1602.0
13 TraesCS1B01G394200 chr1A 81.471 1387 195 32 1686 3040 549621246 549619890 0.000000e+00 1081.0
14 TraesCS1B01G394200 chr1A 89.125 800 56 21 1 783 549603209 549603994 0.000000e+00 966.0
15 TraesCS1B01G394200 chr1A 85.895 553 40 13 824 1366 549622409 549621885 3.430000e-154 555.0
16 TraesCS1B01G394200 chr1A 88.148 405 24 2 973 1374 549604010 549604393 7.700000e-126 460.0
17 TraesCS1B01G394200 chr1A 82.192 511 63 17 2555 3047 549585812 549585312 6.080000e-112 414.0
18 TraesCS1B01G394200 chr1A 81.277 235 24 10 831 1059 549594135 549593915 4.040000e-39 172.0
19 TraesCS1B01G394200 chr1A 81.319 182 23 8 2399 2571 549584253 549584074 1.470000e-28 137.0
20 TraesCS1B01G394200 chr1A 87.379 103 13 0 2483 2585 549618592 549618490 5.340000e-23 119.0
21 TraesCS1B01G394200 chr1A 78.571 196 25 8 1418 1596 549621435 549621240 2.480000e-21 113.0
22 TraesCS1B01G394200 chr1A 78.652 178 26 9 586 761 499945316 499945149 1.160000e-19 108.0
23 TraesCS1B01G394200 chrUn 76.415 424 56 16 1017 1418 334868823 334869224 4.010000e-44 189.0
24 TraesCS1B01G394200 chrUn 85.470 117 17 0 1031 1147 30187859 30187743 4.130000e-24 122.0
25 TraesCS1B01G394200 chr5D 81.366 161 19 6 597 755 390127044 390126893 1.480000e-23 121.0
26 TraesCS1B01G394200 chr3A 79.558 181 23 9 579 757 44609414 44609246 1.920000e-22 117.0
27 TraesCS1B01G394200 chr3B 80.240 167 20 9 600 764 23408555 23408400 2.480000e-21 113.0
28 TraesCS1B01G394200 chr3B 79.191 173 26 7 585 755 448814627 448814463 8.930000e-21 111.0
29 TraesCS1B01G394200 chr7B 79.769 173 20 10 586 755 339615770 339615930 8.930000e-21 111.0
30 TraesCS1B01G394200 chr7A 78.090 178 27 7 586 761 511448295 511448128 5.370000e-18 102.0
31 TraesCS1B01G394200 chr5A 79.221 154 18 9 612 761 37939450 37939307 8.990000e-16 95.3
32 TraesCS1B01G394200 chr4A 77.193 171 24 11 601 766 699978215 699978375 5.410000e-13 86.1
33 TraesCS1B01G394200 chr2D 80.357 112 20 2 1070 1180 5085916 5085806 1.950000e-12 84.2
34 TraesCS1B01G394200 chr2A 88.679 53 6 0 644 696 36671596 36671648 7.050000e-07 65.8


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 TraesCS1B01G394200 chr1B 626509735 626512781 3046 False 5627.000000 5627 100.000000 1 3047 1 chr1B.!!$F2 3046
1 TraesCS1B01G394200 chr1B 626498036 626500438 2402 True 397.700000 606 89.028750 954 3047 4 chr1B.!!$R2 2093
2 TraesCS1B01G394200 chr1D 456059445 456062295 2850 False 3770.000000 3770 90.638000 178 3047 1 chr1D.!!$F2 2869
3 TraesCS1B01G394200 chr1D 456032994 456035160 2166 True 911.000000 1275 83.486000 824 3047 2 chr1D.!!$R1 2223
4 TraesCS1B01G394200 chr1A 549603209 549605497 2288 False 1009.333333 1602 89.984667 1 2650 3 chr1A.!!$F1 2649
5 TraesCS1B01G394200 chr1A 549584074 549594135 10061 True 664.750000 1936 82.946000 824 3047 4 chr1A.!!$R2 2223
6 TraesCS1B01G394200 chr1A 549618490 549622409 3919 True 467.000000 1081 83.329000 824 3040 4 chr1A.!!$R3 2216

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
886 4245 0.389948 CTTCACTAGTCCACCGCCAC 60.39 60.0 0.0 0.0 0.0 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2755 9538 0.65784 GACACACACAAGCTGGACAC 59.342 55.0 0.0 0.0 0.0 3.67 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
35 36 2.048503 CGGTCGGTTCACCTGGAC 60.049 66.667 0.00 0.00 33.77 4.02
53 58 0.841289 ACTTTGGGGACGGTTTGAGA 59.159 50.000 0.00 0.00 0.00 3.27
82 87 8.296713 CCTGACTATAGATGCTTTTAGTCTCTC 58.703 40.741 6.78 0.00 40.64 3.20
91 96 4.345257 TGCTTTTAGTCTCTCTTGTGAGGT 59.655 41.667 0.00 0.00 40.58 3.85
125 130 5.681639 TGTCTCGTAGGACTGAGATATGAA 58.318 41.667 0.00 0.00 42.73 2.57
288 298 9.211485 AGAAATGCTGAATTGTTTAAATCCAAG 57.789 29.630 0.00 0.00 0.00 3.61
304 314 2.816087 TCCAAGCTTTGAGCATGACTTC 59.184 45.455 0.00 0.00 42.02 3.01
577 596 7.707624 AATTTGAAGAGGCATACTGAATCAA 57.292 32.000 0.00 0.00 0.00 2.57
640 660 9.416794 CTAGAGATTTCAATACGAACTATGCAT 57.583 33.333 3.79 3.79 31.73 3.96
642 662 7.712639 AGAGATTTCAATACGAACTATGCATGT 59.287 33.333 10.16 2.51 31.73 3.21
645 665 9.533983 GATTTCAATACGAACTATGCATGTATG 57.466 33.333 10.16 4.63 31.73 2.39
689 709 5.251081 CGTAGATTCACTCATTTTGCTTCG 58.749 41.667 0.00 0.00 0.00 3.79
693 713 6.779117 AGATTCACTCATTTTGCTTCGTATG 58.221 36.000 0.00 0.00 0.00 2.39
695 715 7.549134 AGATTCACTCATTTTGCTTCGTATGTA 59.451 33.333 0.00 0.00 0.00 2.29
850 4209 2.125106 AAATGTCTCGCGGCCTCC 60.125 61.111 6.13 0.00 0.00 4.30
851 4210 2.954684 AAATGTCTCGCGGCCTCCA 61.955 57.895 6.13 0.00 0.00 3.86
864 4223 4.148825 CTCCACCGCCCTCTTCCG 62.149 72.222 0.00 0.00 0.00 4.30
869 4228 3.391382 CCGCCCTCTTCCGGTCTT 61.391 66.667 0.00 0.00 39.67 3.01
886 4245 0.389948 CTTCACTAGTCCACCGCCAC 60.390 60.000 0.00 0.00 0.00 5.01
910 4269 4.827481 GCAATGGCAATGAGCTGG 57.173 55.556 6.76 0.00 44.79 4.85
924 4298 2.225293 TGAGCTGGTCAGGGTAACTAGT 60.225 50.000 5.28 0.00 0.00 2.57
925 4299 2.427812 GAGCTGGTCAGGGTAACTAGTC 59.572 54.545 0.00 0.00 0.00 2.59
926 4300 2.176889 GCTGGTCAGGGTAACTAGTCA 58.823 52.381 0.00 0.00 0.00 3.41
927 4301 2.166664 GCTGGTCAGGGTAACTAGTCAG 59.833 54.545 0.00 0.00 0.00 3.51
928 4302 2.761208 CTGGTCAGGGTAACTAGTCAGG 59.239 54.545 0.00 0.00 0.00 3.86
929 4303 2.108970 GGTCAGGGTAACTAGTCAGGG 58.891 57.143 0.00 0.00 0.00 4.45
930 4304 2.559252 GGTCAGGGTAACTAGTCAGGGT 60.559 54.545 0.00 0.00 0.00 4.34
931 4305 3.309410 GGTCAGGGTAACTAGTCAGGGTA 60.309 52.174 0.00 0.00 0.00 3.69
932 4306 4.347607 GTCAGGGTAACTAGTCAGGGTAA 58.652 47.826 0.00 0.00 0.00 2.85
933 4307 4.159321 GTCAGGGTAACTAGTCAGGGTAAC 59.841 50.000 0.00 0.00 0.00 2.50
934 4308 4.045079 TCAGGGTAACTAGTCAGGGTAACT 59.955 45.833 0.00 0.00 0.00 2.24
935 4309 5.253798 TCAGGGTAACTAGTCAGGGTAACTA 59.746 44.000 0.00 0.00 0.00 2.24
937 4311 4.340666 GGGTAACTAGTCAGGGTAACTAGC 59.659 50.000 9.59 0.00 46.67 3.42
938 4312 4.952335 GGTAACTAGTCAGGGTAACTAGCA 59.048 45.833 9.59 0.00 46.67 3.49
947 4321 5.069781 GTCAGGGTAACTAGCATCTTCAGAT 59.930 44.000 0.00 0.00 34.56 2.90
989 4364 0.591170 AGAAAATCAACACCCACGCG 59.409 50.000 3.53 3.53 0.00 6.01
990 4365 0.589223 GAAAATCAACACCCACGCGA 59.411 50.000 15.93 0.00 0.00 5.87
992 4367 2.102070 AAATCAACACCCACGCGATA 57.898 45.000 15.93 0.00 0.00 2.92
1221 4611 6.504279 TCCTGTCCTCTTATTAGGGTTTTCTT 59.496 38.462 0.00 0.00 37.24 2.52
1357 4747 1.000607 GCTCGCCGGTCAGAATACATA 60.001 52.381 1.90 0.00 0.00 2.29
1374 4764 2.280628 CATAGTGCCCCTCTTTCGTTC 58.719 52.381 0.00 0.00 0.00 3.95
1381 4771 0.389948 CCCTCTTTCGTTCCTGTCCG 60.390 60.000 0.00 0.00 0.00 4.79
1383 4773 1.669211 CCTCTTTCGTTCCTGTCCGTC 60.669 57.143 0.00 0.00 0.00 4.79
1384 4774 0.039798 TCTTTCGTTCCTGTCCGTCG 60.040 55.000 0.00 0.00 0.00 5.12
1385 4775 0.039798 CTTTCGTTCCTGTCCGTCGA 60.040 55.000 0.00 0.00 0.00 4.20
1386 4776 0.318107 TTTCGTTCCTGTCCGTCGAC 60.318 55.000 5.18 5.18 39.66 4.20
1479 5307 7.865385 GCTAAATGTCAGTTTTGTTGGTCATTA 59.135 33.333 0.00 0.00 0.00 1.90
1543 5445 3.619483 GTGCCGTTTTATATTTTTGGGGC 59.381 43.478 0.00 0.00 38.48 5.80
1602 5515 0.801251 GATGTCACTGTTGCTGCCTC 59.199 55.000 0.00 0.00 0.00 4.70
1737 5651 0.961019 GTCCAGCTTGTGAATGCCAA 59.039 50.000 0.00 0.00 0.00 4.52
1864 5787 4.825422 TGAGCACACTTCTGGAGATTTAG 58.175 43.478 0.00 0.00 0.00 1.85
1907 5830 6.665992 AAAGCGAACCTATGAGACCATATA 57.334 37.500 0.00 0.00 34.96 0.86
2011 5934 9.434420 GTAAGAAGGATGATGAGATTGGAATAG 57.566 37.037 0.00 0.00 0.00 1.73
2110 6033 6.378280 GGATAAGGACATTGACATCCAAAAGT 59.622 38.462 0.00 0.00 38.43 2.66
2271 6203 6.051717 ACCATACACAATCAGTAGAGAATGC 58.948 40.000 0.00 0.00 0.00 3.56
2356 6289 8.045507 TCTAGAACCGAGTTGATCTAGAGTTTA 58.954 37.037 14.33 0.00 43.20 2.01
2380 6316 9.551734 TTAACGAGAATATACTAGCACTACTGA 57.448 33.333 0.00 0.00 0.00 3.41
2381 6317 8.447924 AACGAGAATATACTAGCACTACTGAA 57.552 34.615 0.00 0.00 0.00 3.02
2384 6320 7.094975 CGAGAATATACTAGCACTACTGAAGCT 60.095 40.741 0.00 0.00 42.14 3.74
2385 6321 9.221933 GAGAATATACTAGCACTACTGAAGCTA 57.778 37.037 0.00 0.00 39.68 3.32
2389 6325 2.957491 AGCACTACTGAAGCTAGCAG 57.043 50.000 18.83 8.32 36.73 4.24
2390 6326 1.134848 AGCACTACTGAAGCTAGCAGC 60.135 52.381 18.83 8.73 42.84 5.25
2391 6327 1.404717 GCACTACTGAAGCTAGCAGCA 60.405 52.381 18.83 13.12 45.56 4.41
2392 6328 2.266554 CACTACTGAAGCTAGCAGCAC 58.733 52.381 18.83 5.56 45.56 4.40
2394 6330 0.173481 TACTGAAGCTAGCAGCACCG 59.827 55.000 18.83 6.08 45.56 4.94
2395 6331 1.216444 CTGAAGCTAGCAGCACCGA 59.784 57.895 18.83 0.00 45.56 4.69
2396 6332 0.390340 CTGAAGCTAGCAGCACCGAA 60.390 55.000 18.83 0.00 45.56 4.30
2397 6333 0.670546 TGAAGCTAGCAGCACCGAAC 60.671 55.000 18.83 0.00 45.56 3.95
2452 6668 3.191162 CCTGCTTAGCACTTAACATTGCA 59.809 43.478 1.39 0.00 41.48 4.08
2574 9220 3.691575 CCTGTTGGTCTCAGTCTCTAGA 58.308 50.000 0.00 0.00 0.00 2.43
2664 9416 4.551388 TCACAAACCGTGGATTAATTTGC 58.449 39.130 0.00 0.00 46.36 3.68
2693 9449 2.215942 AGCAACCTTATTCACACCCC 57.784 50.000 0.00 0.00 0.00 4.95
2743 9525 8.121305 TGCTGTTTTCAACATTAGTTCCATAT 57.879 30.769 0.00 0.00 41.26 1.78
2744 9526 8.028354 TGCTGTTTTCAACATTAGTTCCATATG 58.972 33.333 0.00 0.00 41.26 1.78
2755 9538 8.906867 ACATTAGTTCCATATGTGAATCCTTTG 58.093 33.333 1.24 4.49 31.66 2.77
2769 9552 1.064758 TCCTTTGTGTCCAGCTTGTGT 60.065 47.619 0.00 0.00 0.00 3.72
2770 9553 1.066002 CCTTTGTGTCCAGCTTGTGTG 59.934 52.381 0.00 0.00 0.00 3.82
2771 9554 1.745087 CTTTGTGTCCAGCTTGTGTGT 59.255 47.619 0.00 0.00 0.00 3.72
2772 9555 1.093972 TTGTGTCCAGCTTGTGTGTG 58.906 50.000 0.00 0.00 0.00 3.82
2773 9556 0.035534 TGTGTCCAGCTTGTGTGTGT 60.036 50.000 0.00 0.00 0.00 3.72
2774 9557 0.657840 GTGTCCAGCTTGTGTGTGTC 59.342 55.000 0.00 0.00 0.00 3.67
2775 9558 0.251634 TGTCCAGCTTGTGTGTGTCA 59.748 50.000 0.00 0.00 0.00 3.58
2776 9559 0.940126 GTCCAGCTTGTGTGTGTCAG 59.060 55.000 0.00 0.00 0.00 3.51
2899 9682 1.217057 AGAATGTGGACCATGGGGCT 61.217 55.000 18.09 0.00 37.90 5.19
3040 9823 5.191426 CAACTGATGAGAATGGACAAGGAT 58.809 41.667 0.00 0.00 0.00 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 0.179012 TCAAACCGTCCCCAAAGTCC 60.179 55.000 0.00 0.00 0.00 3.85
33 34 1.202722 TCTCAAACCGTCCCCAAAGTC 60.203 52.381 0.00 0.00 0.00 3.01
35 36 1.812571 CATCTCAAACCGTCCCCAAAG 59.187 52.381 0.00 0.00 0.00 2.77
53 58 7.016072 AGACTAAAAGCATCTATAGTCAGGCAT 59.984 37.037 12.68 0.00 44.20 4.40
82 87 2.919494 GCGGGGCAAACCTCACAAG 61.919 63.158 0.00 0.00 35.35 3.16
91 96 4.697756 CGAGACAGGCGGGGCAAA 62.698 66.667 0.00 0.00 0.00 3.68
333 344 4.420522 AAACCATGCCACTTGTGAAATT 57.579 36.364 1.89 0.00 0.00 1.82
507 526 9.295825 TCTTATATTGGCCATTTGATTCGTAAT 57.704 29.630 6.09 0.00 0.00 1.89
541 560 6.995686 TGCCTCTTCAAATTTTAGTACAGTCA 59.004 34.615 0.00 0.00 0.00 3.41
666 686 5.163953 ACGAAGCAAAATGAGTGAATCTACG 60.164 40.000 0.00 0.00 0.00 3.51
668 688 7.549134 ACATACGAAGCAAAATGAGTGAATCTA 59.451 33.333 0.00 0.00 0.00 1.98
822 846 1.279271 CGAGACATTTGGGGGAAGACT 59.721 52.381 0.00 0.00 0.00 3.24
850 4209 4.452733 GACCGGAAGAGGGCGGTG 62.453 72.222 9.46 0.00 34.60 4.94
851 4210 4.698625 AGACCGGAAGAGGGCGGT 62.699 66.667 9.46 0.00 46.30 5.68
855 4214 1.751924 CTAGTGAAGACCGGAAGAGGG 59.248 57.143 9.46 0.00 35.02 4.30
860 4219 1.891150 GTGGACTAGTGAAGACCGGAA 59.109 52.381 9.46 0.00 42.33 4.30
864 4223 0.108756 GCGGTGGACTAGTGAAGACC 60.109 60.000 0.00 0.00 40.12 3.85
869 4228 2.280552 GGTGGCGGTGGACTAGTGA 61.281 63.158 0.00 0.00 0.00 3.41
910 4269 2.817665 ACCCTGACTAGTTACCCTGAC 58.182 52.381 0.00 0.00 0.00 3.51
924 4298 4.610333 TCTGAAGATGCTAGTTACCCTGA 58.390 43.478 0.00 0.00 0.00 3.86
925 4299 5.543507 ATCTGAAGATGCTAGTTACCCTG 57.456 43.478 0.00 0.00 32.68 4.45
926 4300 5.245075 GCTATCTGAAGATGCTAGTTACCCT 59.755 44.000 2.99 0.00 36.05 4.34
927 4301 5.011125 TGCTATCTGAAGATGCTAGTTACCC 59.989 44.000 2.99 0.00 36.05 3.69
928 4302 6.090483 TGCTATCTGAAGATGCTAGTTACC 57.910 41.667 2.99 0.00 36.05 2.85
929 4303 7.359933 GCAATGCTATCTGAAGATGCTAGTTAC 60.360 40.741 0.00 0.00 36.05 2.50
930 4304 6.648310 GCAATGCTATCTGAAGATGCTAGTTA 59.352 38.462 0.00 0.00 36.05 2.24
931 4305 5.469421 GCAATGCTATCTGAAGATGCTAGTT 59.531 40.000 0.00 1.13 36.05 2.24
932 4306 4.996122 GCAATGCTATCTGAAGATGCTAGT 59.004 41.667 0.00 0.00 36.05 2.57
933 4307 4.995487 TGCAATGCTATCTGAAGATGCTAG 59.005 41.667 6.82 0.00 36.05 3.42
934 4308 4.964593 TGCAATGCTATCTGAAGATGCTA 58.035 39.130 6.82 0.00 36.05 3.49
935 4309 3.815962 CTGCAATGCTATCTGAAGATGCT 59.184 43.478 6.82 0.00 36.05 3.79
936 4310 3.609644 GCTGCAATGCTATCTGAAGATGC 60.610 47.826 6.82 5.64 36.05 3.91
937 4311 3.564225 TGCTGCAATGCTATCTGAAGATG 59.436 43.478 6.82 0.00 36.05 2.90
938 4312 3.564644 GTGCTGCAATGCTATCTGAAGAT 59.435 43.478 2.77 0.00 38.51 2.40
947 4321 0.037419 TCTCGTGTGCTGCAATGCTA 60.037 50.000 2.77 0.00 0.00 3.49
989 4364 2.405357 CCGCAACTCATCGATTCGTATC 59.595 50.000 5.89 0.00 0.00 2.24
990 4365 2.394708 CCGCAACTCATCGATTCGTAT 58.605 47.619 5.89 0.00 0.00 3.06
992 4367 1.421410 GCCGCAACTCATCGATTCGT 61.421 55.000 5.89 0.00 0.00 3.85
1311 4701 1.222936 CATCGGAAGGGAGCAGCTT 59.777 57.895 0.00 0.00 0.00 3.74
1357 4747 1.128188 AGGAACGAAAGAGGGGCACT 61.128 55.000 0.00 0.00 0.00 4.40
1381 4771 2.510768 AGGCCGAAATATCTGTCGAC 57.489 50.000 9.11 9.11 39.64 4.20
1383 4773 5.924475 AATTTAGGCCGAAATATCTGTCG 57.076 39.130 22.22 0.00 37.01 4.35
1384 4774 7.298854 GCTAAATTTAGGCCGAAATATCTGTC 58.701 38.462 22.22 7.96 0.00 3.51
1385 4775 6.073222 CGCTAAATTTAGGCCGAAATATCTGT 60.073 38.462 22.22 5.54 0.00 3.41
1386 4776 6.307155 CGCTAAATTTAGGCCGAAATATCTG 58.693 40.000 22.22 14.04 0.00 2.90
1535 5437 0.325602 AGGTTATCGTCGCCCCAAAA 59.674 50.000 0.00 0.00 0.00 2.44
1543 5445 4.599047 CCTTCTTCTACAGGTTATCGTCG 58.401 47.826 0.00 0.00 0.00 5.12
1602 5515 2.082231 CAGTTCTGCATTGGACAGAGG 58.918 52.381 0.00 0.00 44.55 3.69
1625 5539 6.724351 TCTTGAATCCTCCAAATCAATCTGA 58.276 36.000 0.00 0.00 31.92 3.27
1626 5540 7.122353 AGTTCTTGAATCCTCCAAATCAATCTG 59.878 37.037 0.00 0.00 31.92 2.90
1630 5544 6.550854 ACAAGTTCTTGAATCCTCCAAATCAA 59.449 34.615 17.75 0.00 0.00 2.57
1794 5717 6.187727 TCTACACAAGTTCCATCTTCCTTT 57.812 37.500 0.00 0.00 0.00 3.11
1864 5787 7.488471 TCGCTTTAACTTTCTTAGCTCTGATAC 59.512 37.037 0.00 0.00 0.00 2.24
1907 5830 3.308473 GGCTTCCTTATCCTTGTTCCAGT 60.308 47.826 0.00 0.00 0.00 4.00
2045 5968 9.110502 CATCTAGTTTACCCTTTAGAACCATTC 57.889 37.037 0.00 0.00 0.00 2.67
2110 6033 3.068024 GTCTCATGTTGCCCAACTTTGAA 59.932 43.478 11.91 4.92 41.67 2.69
2271 6203 5.982890 ACCAAAAATATCAACCTGGTCAG 57.017 39.130 0.00 0.00 31.52 3.51
2316 6249 9.132923 ACTCGGTTCTAGAAAATATATCACTGA 57.867 33.333 6.78 1.95 0.00 3.41
2356 6289 8.447924 TTCAGTAGTGCTAGTATATTCTCGTT 57.552 34.615 0.00 0.00 0.00 3.85
2378 6314 0.670546 GTTCGGTGCTGCTAGCTTCA 60.671 55.000 17.23 10.67 42.97 3.02
2380 6316 1.376037 GGTTCGGTGCTGCTAGCTT 60.376 57.895 17.23 0.00 42.97 3.74
2381 6317 0.970937 TAGGTTCGGTGCTGCTAGCT 60.971 55.000 17.23 0.00 42.97 3.32
2384 6320 1.480789 TCATAGGTTCGGTGCTGCTA 58.519 50.000 0.00 0.00 0.00 3.49
2385 6321 0.833287 ATCATAGGTTCGGTGCTGCT 59.167 50.000 0.00 0.00 0.00 4.24
2386 6322 1.668419 AATCATAGGTTCGGTGCTGC 58.332 50.000 0.00 0.00 0.00 5.25
2387 6323 4.627467 GCTATAATCATAGGTTCGGTGCTG 59.373 45.833 0.00 0.00 35.58 4.41
2388 6324 4.283467 TGCTATAATCATAGGTTCGGTGCT 59.717 41.667 0.00 0.00 35.58 4.40
2389 6325 4.389077 GTGCTATAATCATAGGTTCGGTGC 59.611 45.833 0.00 0.00 35.58 5.01
2390 6326 4.929808 GGTGCTATAATCATAGGTTCGGTG 59.070 45.833 0.00 0.00 35.58 4.94
2391 6327 4.020485 GGGTGCTATAATCATAGGTTCGGT 60.020 45.833 0.00 0.00 35.58 4.69
2392 6328 4.504858 GGGTGCTATAATCATAGGTTCGG 58.495 47.826 0.00 0.00 35.58 4.30
2394 6330 5.499004 TGGGGTGCTATAATCATAGGTTC 57.501 43.478 0.00 0.00 35.58 3.62
2395 6331 5.922960 TTGGGGTGCTATAATCATAGGTT 57.077 39.130 0.00 0.00 35.58 3.50
2396 6332 5.922960 TTTGGGGTGCTATAATCATAGGT 57.077 39.130 0.00 0.00 35.58 3.08
2397 6333 7.177878 AGATTTTGGGGTGCTATAATCATAGG 58.822 38.462 0.00 0.00 35.58 2.57
2452 6668 2.108250 ACTGGCCAGAAACAAGTATGGT 59.892 45.455 39.19 9.88 35.17 3.55
2574 9220 5.657302 CCTACTATACACAAGGTGGACTCTT 59.343 44.000 1.07 0.00 37.94 2.85
2733 9515 7.402054 ACACAAAGGATTCACATATGGAACTA 58.598 34.615 7.80 0.00 0.00 2.24
2743 9525 2.158623 AGCTGGACACAAAGGATTCACA 60.159 45.455 0.00 0.00 0.00 3.58
2744 9526 2.508526 AGCTGGACACAAAGGATTCAC 58.491 47.619 0.00 0.00 0.00 3.18
2749 9531 1.064758 ACACAAGCTGGACACAAAGGA 60.065 47.619 0.00 0.00 0.00 3.36
2750 9532 1.066002 CACACAAGCTGGACACAAAGG 59.934 52.381 0.00 0.00 0.00 3.11
2755 9538 0.657840 GACACACACAAGCTGGACAC 59.342 55.000 0.00 0.00 0.00 3.67
2774 9557 7.537649 CAATGATCAAGAAAATCAGTGACACTG 59.462 37.037 26.64 26.64 46.70 3.66
2775 9558 7.230108 ACAATGATCAAGAAAATCAGTGACACT 59.770 33.333 17.30 1.07 46.70 3.55
2776 9559 7.325338 CACAATGATCAAGAAAATCAGTGACAC 59.675 37.037 17.30 0.00 46.70 3.67
2886 9669 0.623031 TGTGATAGCCCCATGGTCCA 60.623 55.000 11.73 0.00 0.00 4.02
2890 9673 0.399454 CTCCTGTGATAGCCCCATGG 59.601 60.000 4.14 4.14 0.00 3.66
2899 9682 4.893524 TCCGCTCTTAAATCTCCTGTGATA 59.106 41.667 0.00 0.00 0.00 2.15


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

AutoCloner maintained by Alex Coulton.