Multiple sequence alignment - TraesCS2B01G252500

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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 TraesCS2B01G252500 chr2B 100.000 2354 0 0 1 2354 272611738 272609385 0.000000e+00 4348
1 TraesCS2B01G252500 chr2B 90.351 114 7 2 2238 2351 85462664 85462773 1.890000e-31 147
2 TraesCS2B01G252500 chr2B 89.744 117 7 4 2238 2354 558874184 558874073 6.780000e-31 145
3 TraesCS2B01G252500 chr5D 96.205 2240 70 6 1 2237 503243818 503246045 0.000000e+00 3651
4 TraesCS2B01G252500 chr5D 95.087 2239 92 8 1 2237 432433805 432436027 0.000000e+00 3509
5 TraesCS2B01G252500 chr5D 95.682 1899 65 6 1 1896 503266757 503264873 0.000000e+00 3037
6 TraesCS2B01G252500 chr5D 97.172 884 16 2 1354 2237 503264877 503264003 0.000000e+00 1485
7 TraesCS2B01G252500 chr5D 93.310 852 31 5 1387 2237 432343449 432342623 0.000000e+00 1234
8 TraesCS2B01G252500 chr7B 96.116 2240 72 6 1 2237 663100879 663098652 0.000000e+00 3640
9 TraesCS2B01G252500 chr7B 95.893 2240 77 6 1 2237 662724950 662727177 0.000000e+00 3613
10 TraesCS2B01G252500 chr6D 96.116 2240 72 6 1 2237 389247276 389245049 0.000000e+00 3640
11 TraesCS2B01G252500 chr2A 96.027 2240 74 6 1 2237 726907909 726905682 0.000000e+00 3629
12 TraesCS2B01G252500 chr3A 95.893 2240 76 6 1 2237 66006586 66004360 0.000000e+00 3613
13 TraesCS2B01G252500 chr3B 95.804 2240 80 6 1 2237 201538067 201540295 0.000000e+00 3603
14 TraesCS2B01G252500 chr3B 90.083 121 7 3 2234 2354 347997441 347997556 4.050000e-33 152
15 TraesCS2B01G252500 chr3B 89.474 114 5 4 2238 2351 746686902 746687008 1.130000e-28 137
16 TraesCS2B01G252500 chr4A 95.357 2240 95 7 1 2237 583870366 583868133 0.000000e+00 3552
17 TraesCS2B01G252500 chr4B 91.453 117 9 1 2238 2354 70701549 70701434 2.420000e-35 159
18 TraesCS2B01G252500 chr7A 90.598 117 6 2 2238 2354 103763879 103763990 1.460000e-32 150
19 TraesCS2B01G252500 chr6A 89.831 118 8 3 2238 2354 91856092 91855978 5.240000e-32 148
20 TraesCS2B01G252500 chr1A 88.136 118 9 4 2238 2354 501489683 501489570 4.080000e-28 135
21 TraesCS2B01G252500 chr1D 87.288 118 11 2 2237 2354 107156433 107156320 5.280000e-27 132


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 TraesCS2B01G252500 chr2B 272609385 272611738 2353 True 4348 4348 100.000 1 2354 1 chr2B.!!$R1 2353
1 TraesCS2B01G252500 chr5D 503243818 503246045 2227 False 3651 3651 96.205 1 2237 1 chr5D.!!$F2 2236
2 TraesCS2B01G252500 chr5D 432433805 432436027 2222 False 3509 3509 95.087 1 2237 1 chr5D.!!$F1 2236
3 TraesCS2B01G252500 chr5D 503264003 503266757 2754 True 2261 3037 96.427 1 2237 2 chr5D.!!$R2 2236
4 TraesCS2B01G252500 chr5D 432342623 432343449 826 True 1234 1234 93.310 1387 2237 1 chr5D.!!$R1 850
5 TraesCS2B01G252500 chr7B 663098652 663100879 2227 True 3640 3640 96.116 1 2237 1 chr7B.!!$R1 2236
6 TraesCS2B01G252500 chr7B 662724950 662727177 2227 False 3613 3613 95.893 1 2237 1 chr7B.!!$F1 2236
7 TraesCS2B01G252500 chr6D 389245049 389247276 2227 True 3640 3640 96.116 1 2237 1 chr6D.!!$R1 2236
8 TraesCS2B01G252500 chr2A 726905682 726907909 2227 True 3629 3629 96.027 1 2237 1 chr2A.!!$R1 2236
9 TraesCS2B01G252500 chr3A 66004360 66006586 2226 True 3613 3613 95.893 1 2237 1 chr3A.!!$R1 2236
10 TraesCS2B01G252500 chr3B 201538067 201540295 2228 False 3603 3603 95.804 1 2237 1 chr3B.!!$F1 2236
11 TraesCS2B01G252500 chr4A 583868133 583870366 2233 True 3552 3552 95.357 1 2237 1 chr4A.!!$R1 2236

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
835 836 0.035534 TCGCTTTTGGCATAGCAGGA 60.036 50.0 18.43 8.55 41.91 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2131 2669 0.098728 CAAGTTATTCGCAAGGGCCG 59.901 55.0 0.0 0.0 36.38 6.13 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
60 61 2.737376 GGAACGCGGACACAGGTC 60.737 66.667 12.47 0.00 43.55 3.85
74 75 0.391528 CAGGTCGTGCATGGATGTCA 60.392 55.000 5.98 0.00 0.00 3.58
113 114 3.250040 GGTGTTGTGTTAAGTCTCGCAAT 59.750 43.478 0.00 0.00 36.65 3.56
178 179 1.005394 AACAGACCGCCGGTGTTAG 60.005 57.895 16.53 0.19 35.25 2.34
247 248 2.372690 GGCGACACACGTGCTACAG 61.373 63.158 17.22 4.85 44.60 2.74
253 254 2.030412 CACGTGCTACAGTGGGCA 59.970 61.111 0.82 8.61 34.93 5.36
297 298 3.141767 AGGGTGAGCTAACTCCAAAAC 57.858 47.619 0.00 0.00 42.74 2.43
301 302 1.777878 TGAGCTAACTCCAAAACCCCA 59.222 47.619 0.00 0.00 42.74 4.96
306 307 3.817931 GCTAACTCCAAAACCCCATCCTT 60.818 47.826 0.00 0.00 0.00 3.36
318 319 2.172717 CCCCATCCTTAGTTCGGATTGT 59.827 50.000 0.00 0.00 39.20 2.71
324 325 4.539726 TCCTTAGTTCGGATTGTAGGCTA 58.460 43.478 0.00 0.00 0.00 3.93
342 343 2.283298 CTACAACTCGCCTGCATGAAT 58.717 47.619 0.00 0.00 0.00 2.57
363 364 2.885266 TCAGGAATCGCTAGTAATCGCT 59.115 45.455 0.00 0.00 0.00 4.93
430 431 0.674534 CCCGTCACACTATAGGAGCC 59.325 60.000 4.43 0.00 0.00 4.70
525 526 1.130373 TCGTAACAAGGTAGCCGTACG 59.870 52.381 8.69 8.69 0.00 3.67
534 535 1.304381 TAGCCGTACGGGAAGGTGT 60.304 57.895 33.98 3.91 38.47 4.16
663 664 8.712228 AAACTTGGATATGGAAGTCTTCTTTT 57.288 30.769 12.31 1.00 33.64 2.27
672 673 4.583073 TGGAAGTCTTCTTTTGTTTAGGGC 59.417 41.667 12.31 0.00 33.64 5.19
802 803 3.893753 TGGGGATGTCAAAAGGAAAGA 57.106 42.857 0.00 0.00 0.00 2.52
827 828 2.223711 GGAGTTTTTCTCGCTTTTGGCA 60.224 45.455 0.00 0.00 43.60 4.92
835 836 0.035534 TCGCTTTTGGCATAGCAGGA 60.036 50.000 18.43 8.55 41.91 3.86
870 871 2.027169 GCGCGACGGGCTATTAGT 59.973 61.111 27.40 0.00 40.44 2.24
884 885 4.099573 GGCTATTAGTTCAGTGGTAGAGCA 59.900 45.833 0.00 0.00 0.00 4.26
900 901 0.255890 AGCACGCCCCTGATAATTGT 59.744 50.000 0.00 0.00 0.00 2.71
970 971 2.898738 CTCATCAGCGCCTGACCT 59.101 61.111 2.29 0.00 43.63 3.85
1041 1043 5.584253 TGAATCGGAGTTTGAAACCAAAA 57.416 34.783 4.14 0.00 35.54 2.44
1079 1081 2.354203 GGATAGATGGGACGATTCAGGC 60.354 54.545 0.00 0.00 0.00 4.85
1082 1084 0.034059 GATGGGACGATTCAGGCGAT 59.966 55.000 0.00 0.00 0.00 4.58
1090 1092 2.303022 ACGATTCAGGCGATATCCCATT 59.697 45.455 11.44 0.00 0.00 3.16
1104 1106 9.871238 GCGATATCCCATTTAGATCTAACTTTA 57.129 33.333 14.85 0.82 0.00 1.85
1163 1166 1.674057 CACCACGGCTCCTCTCTTT 59.326 57.895 0.00 0.00 0.00 2.52
1182 1185 6.325028 TCTCTTTTCGAGAATCCATACATCCT 59.675 38.462 0.00 0.00 45.55 3.24
1228 1231 0.249868 CGAGCACAGGTTGAGGTTCA 60.250 55.000 0.00 0.00 0.00 3.18
1259 1262 3.769300 GGGAAAATGGAGCACCTAACAAT 59.231 43.478 0.71 0.00 37.04 2.71
1271 1274 4.142315 GCACCTAACAATGCATCTTCACAT 60.142 41.667 0.00 0.00 41.65 3.21
1296 1300 4.425520 CAAGAACTACGAGATCACCCTTC 58.574 47.826 0.00 0.00 0.00 3.46
1320 1324 3.162154 GGGGTGACGGAGGGATCC 61.162 72.222 1.92 1.92 0.00 3.36
1370 1375 0.973632 TAGCGGTCTGGAGAAAGCAA 59.026 50.000 0.00 0.00 33.17 3.91
1376 1381 3.416156 GGTCTGGAGAAAGCAACAATCT 58.584 45.455 0.00 0.00 0.00 2.40
1404 1409 3.783082 ACTTTCCTAATCCTCCCTTCCTG 59.217 47.826 0.00 0.00 0.00 3.86
1489 1494 0.770557 AGTGTCTAGGGTTGGGCCAA 60.771 55.000 16.66 16.66 39.65 4.52
1639 1644 0.390860 CGGGAAGGATGAATCGCTCT 59.609 55.000 0.00 0.00 0.00 4.09
1800 2334 0.983467 TGCATACTCCACTTGGCTCA 59.017 50.000 0.00 0.00 34.44 4.26
1920 2458 9.395707 GTAATGATAGTATCTTGTACCTGAACG 57.604 37.037 11.40 0.00 0.00 3.95
2003 2541 1.888512 TGAGACAAAAAGATGGGCTGC 59.111 47.619 0.00 0.00 0.00 5.25
2064 2602 7.575414 GATCTAGTATGGATCGTACATGGAT 57.425 40.000 0.00 8.34 43.25 3.41
2131 2669 2.969262 CCCTAGGGAAGAGGATCAAGTC 59.031 54.545 24.99 0.00 35.99 3.01
2180 2718 0.850100 TCCCTTCAACCCTTTGAGCA 59.150 50.000 0.00 0.00 42.79 4.26
2195 2733 5.984926 CCTTTGAGCAAAATGTAGCAAAAGA 59.015 36.000 0.00 0.00 38.17 2.52
2237 2775 0.107848 CCATTGTCTCCACCCCGTAC 60.108 60.000 0.00 0.00 0.00 3.67
2238 2776 0.611200 CATTGTCTCCACCCCGTACA 59.389 55.000 0.00 0.00 0.00 2.90
2239 2777 0.611714 ATTGTCTCCACCCCGTACAC 59.388 55.000 0.00 0.00 0.00 2.90
2240 2778 0.470456 TTGTCTCCACCCCGTACACT 60.470 55.000 0.00 0.00 0.00 3.55
2241 2779 0.405198 TGTCTCCACCCCGTACACTA 59.595 55.000 0.00 0.00 0.00 2.74
2242 2780 0.813821 GTCTCCACCCCGTACACTAC 59.186 60.000 0.00 0.00 0.00 2.73
2243 2781 0.405198 TCTCCACCCCGTACACTACA 59.595 55.000 0.00 0.00 0.00 2.74
2244 2782 1.203038 TCTCCACCCCGTACACTACAA 60.203 52.381 0.00 0.00 0.00 2.41
2245 2783 1.619827 CTCCACCCCGTACACTACAAA 59.380 52.381 0.00 0.00 0.00 2.83
2246 2784 2.037511 CTCCACCCCGTACACTACAAAA 59.962 50.000 0.00 0.00 0.00 2.44
2247 2785 2.437281 TCCACCCCGTACACTACAAAAA 59.563 45.455 0.00 0.00 0.00 1.94
2270 2808 6.817765 AAATACACTTCCATGATGAAACGT 57.182 33.333 0.00 0.00 0.00 3.99
2271 2809 5.801350 ATACACTTCCATGATGAAACGTG 57.199 39.130 0.00 0.00 0.00 4.49
2272 2810 3.476552 ACACTTCCATGATGAAACGTGT 58.523 40.909 0.00 0.00 32.16 4.49
2273 2811 3.882888 ACACTTCCATGATGAAACGTGTT 59.117 39.130 0.00 0.00 32.75 3.32
2274 2812 4.338118 ACACTTCCATGATGAAACGTGTTT 59.662 37.500 0.00 0.00 32.75 2.83
2275 2813 4.676471 CACTTCCATGATGAAACGTGTTTG 59.324 41.667 2.15 0.00 32.11 2.93
2276 2814 4.338118 ACTTCCATGATGAAACGTGTTTGT 59.662 37.500 2.15 0.00 32.11 2.83
2277 2815 4.481930 TCCATGATGAAACGTGTTTGTC 57.518 40.909 2.15 2.22 32.11 3.18
2278 2816 3.879892 TCCATGATGAAACGTGTTTGTCA 59.120 39.130 2.15 7.50 32.11 3.58
2279 2817 3.974401 CCATGATGAAACGTGTTTGTCAC 59.026 43.478 2.15 0.00 43.03 3.67
2280 2818 4.497173 CCATGATGAAACGTGTTTGTCACA 60.497 41.667 2.15 0.00 46.44 3.58
2281 2819 4.271590 TGATGAAACGTGTTTGTCACAG 57.728 40.909 2.15 0.00 46.44 3.66
2282 2820 3.935828 TGATGAAACGTGTTTGTCACAGA 59.064 39.130 2.15 0.00 46.44 3.41
2283 2821 3.733024 TGAAACGTGTTTGTCACAGAC 57.267 42.857 2.15 0.00 46.44 3.51
2284 2822 3.331150 TGAAACGTGTTTGTCACAGACT 58.669 40.909 2.15 0.00 46.44 3.24
2285 2823 3.369756 TGAAACGTGTTTGTCACAGACTC 59.630 43.478 2.15 0.00 46.44 3.36
2286 2824 2.665649 ACGTGTTTGTCACAGACTCA 57.334 45.000 0.00 0.00 46.44 3.41
2287 2825 2.268298 ACGTGTTTGTCACAGACTCAC 58.732 47.619 0.00 5.13 46.44 3.51
2288 2826 2.267426 CGTGTTTGTCACAGACTCACA 58.733 47.619 0.00 8.59 46.44 3.58
2289 2827 2.282555 CGTGTTTGTCACAGACTCACAG 59.717 50.000 0.00 8.35 46.44 3.66
2290 2828 3.262420 GTGTTTGTCACAGACTCACAGT 58.738 45.455 0.00 0.00 45.51 3.55
2291 2829 4.430007 GTGTTTGTCACAGACTCACAGTA 58.570 43.478 0.00 0.00 45.51 2.74
2292 2830 4.504461 GTGTTTGTCACAGACTCACAGTAG 59.496 45.833 0.00 0.00 45.51 2.57
2293 2831 4.051922 GTTTGTCACAGACTCACAGTAGG 58.948 47.826 0.00 0.00 33.15 3.18
2294 2832 2.945456 TGTCACAGACTCACAGTAGGT 58.055 47.619 0.00 0.00 33.15 3.08
2295 2833 3.296854 TGTCACAGACTCACAGTAGGTT 58.703 45.455 0.00 0.00 33.15 3.50
2296 2834 3.068165 TGTCACAGACTCACAGTAGGTTG 59.932 47.826 0.00 0.00 33.15 3.77
2297 2835 2.035961 TCACAGACTCACAGTAGGTTGC 59.964 50.000 0.00 0.00 0.00 4.17
2298 2836 1.000163 ACAGACTCACAGTAGGTTGCG 60.000 52.381 0.00 0.00 0.00 4.85
2299 2837 1.000163 CAGACTCACAGTAGGTTGCGT 60.000 52.381 0.00 0.00 0.00 5.24
2300 2838 1.687123 AGACTCACAGTAGGTTGCGTT 59.313 47.619 0.00 0.00 0.00 4.84
2301 2839 2.102588 AGACTCACAGTAGGTTGCGTTT 59.897 45.455 0.00 0.00 0.00 3.60
2302 2840 2.870411 GACTCACAGTAGGTTGCGTTTT 59.130 45.455 0.00 0.00 0.00 2.43
2303 2841 3.275999 ACTCACAGTAGGTTGCGTTTTT 58.724 40.909 0.00 0.00 0.00 1.94
2322 2860 5.718724 TTTTTGTCATGCATGTACATCCA 57.281 34.783 25.43 2.99 0.00 3.41
2323 2861 5.918426 TTTTGTCATGCATGTACATCCAT 57.082 34.783 25.43 6.44 0.00 3.41
2324 2862 4.904253 TTGTCATGCATGTACATCCATG 57.096 40.909 27.23 27.23 44.07 3.66
2325 2863 4.153673 TGTCATGCATGTACATCCATGA 57.846 40.909 30.25 30.25 43.99 3.07
2327 2865 3.132925 TCATGCATGTACATCCATGACG 58.867 45.455 30.25 12.42 43.99 4.35
2328 2866 2.977772 TGCATGTACATCCATGACGA 57.022 45.000 5.07 0.00 43.99 4.20
2329 2867 3.473923 TGCATGTACATCCATGACGAT 57.526 42.857 5.07 0.00 43.99 3.73
2330 2868 3.807553 TGCATGTACATCCATGACGATT 58.192 40.909 5.07 0.00 43.99 3.34
2331 2869 4.198530 TGCATGTACATCCATGACGATTT 58.801 39.130 5.07 0.00 43.99 2.17
2332 2870 4.639755 TGCATGTACATCCATGACGATTTT 59.360 37.500 5.07 0.00 43.99 1.82
2333 2871 5.819901 TGCATGTACATCCATGACGATTTTA 59.180 36.000 5.07 0.00 43.99 1.52
2334 2872 6.486320 TGCATGTACATCCATGACGATTTTAT 59.514 34.615 5.07 0.00 43.99 1.40
2335 2873 6.798476 GCATGTACATCCATGACGATTTTATG 59.202 38.462 5.07 0.00 43.99 1.90
2336 2874 7.307930 GCATGTACATCCATGACGATTTTATGA 60.308 37.037 5.07 0.00 43.99 2.15
2337 2875 8.724229 CATGTACATCCATGACGATTTTATGAT 58.276 33.333 5.07 0.00 43.99 2.45
2338 2876 9.942850 ATGTACATCCATGACGATTTTATGATA 57.057 29.630 1.41 0.00 0.00 2.15
2339 2877 9.423061 TGTACATCCATGACGATTTTATGATAG 57.577 33.333 0.00 0.00 0.00 2.08
2340 2878 9.639601 GTACATCCATGACGATTTTATGATAGA 57.360 33.333 0.00 0.00 0.00 1.98
2342 2880 9.730705 ACATCCATGACGATTTTATGATAGAAT 57.269 29.630 0.00 0.00 0.00 2.40
2344 2882 9.948964 ATCCATGACGATTTTATGATAGAATCA 57.051 29.630 13.88 0.00 44.55 2.57
2345 2883 9.777297 TCCATGACGATTTTATGATAGAATCAA 57.223 29.630 13.88 2.38 43.50 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
60 61 2.216046 AGCTAATGACATCCATGCACG 58.784 47.619 0.00 0.00 35.24 5.34
113 114 2.933878 AAACACGAGGGTTGCGCTCA 62.934 55.000 9.73 0.00 42.44 4.26
178 179 1.140652 CATCCTCTCCTTCCTTCAGCC 59.859 57.143 0.00 0.00 0.00 4.85
183 184 1.506025 GCCTCATCCTCTCCTTCCTT 58.494 55.000 0.00 0.00 0.00 3.36
247 248 1.603739 GACCCTTTGTCCTGCCCAC 60.604 63.158 0.00 0.00 38.09 4.61
253 254 1.218316 GATCGCGACCCTTTGTCCT 59.782 57.895 12.93 0.00 41.18 3.85
297 298 2.172717 ACAATCCGAACTAAGGATGGGG 59.827 50.000 4.81 0.00 46.99 4.96
324 325 1.089920 GATTCATGCAGGCGAGTTGT 58.910 50.000 0.00 0.00 0.00 3.32
342 343 2.885266 AGCGATTACTAGCGATTCCTGA 59.115 45.455 0.00 0.00 34.48 3.86
430 431 3.427503 GGTAATGACTTCAAACATGGCCG 60.428 47.826 0.00 0.00 0.00 6.13
525 526 1.077429 GATCCAGCCACACCTTCCC 60.077 63.158 0.00 0.00 0.00 3.97
663 664 2.633967 TGGTCTTACTTCGCCCTAAACA 59.366 45.455 0.00 0.00 0.00 2.83
672 673 3.849911 TCATGAGCTTGGTCTTACTTCG 58.150 45.455 0.00 0.00 0.00 3.79
721 722 7.451731 AAAAGGGATCCTATCACTATCAACA 57.548 36.000 12.58 0.00 43.68 3.33
802 803 4.022849 CCAAAAGCGAGAAAAACTCCATCT 60.023 41.667 0.00 0.00 42.18 2.90
870 871 1.292223 GGCGTGCTCTACCACTGAA 59.708 57.895 0.00 0.00 33.60 3.02
884 885 1.742411 CGACACAATTATCAGGGGCGT 60.742 52.381 0.00 0.00 0.00 5.68
900 901 3.872603 AGCCCAGGCACAACGACA 61.873 61.111 12.03 0.00 44.88 4.35
1006 1008 2.028112 TCCGATTCAAACAGGAGGAGTG 60.028 50.000 0.00 0.00 0.00 3.51
1069 1071 1.338107 TGGGATATCGCCTGAATCGT 58.662 50.000 16.42 0.00 0.00 3.73
1104 1106 1.618837 CCGGATCCCACGAGTGAATAT 59.381 52.381 6.06 0.00 0.00 1.28
1163 1166 7.962441 TGATAAAGGATGTATGGATTCTCGAA 58.038 34.615 0.00 0.00 0.00 3.71
1182 1185 8.116651 GAGATAGCTCTCCATACACTGATAAA 57.883 38.462 0.00 0.00 41.86 1.40
1228 1231 3.303049 GCTCCATTTTCCCATTGAGGAT 58.697 45.455 0.00 0.00 41.22 3.24
1259 1262 4.910195 AGTTCTTGGTATGTGAAGATGCA 58.090 39.130 0.00 0.00 0.00 3.96
1271 1274 3.698040 GGGTGATCTCGTAGTTCTTGGTA 59.302 47.826 0.00 0.00 0.00 3.25
1351 1356 0.973632 TTGCTTTCTCCAGACCGCTA 59.026 50.000 0.00 0.00 0.00 4.26
1404 1409 8.877808 AAAAAGAATTTCATGTTCTTCCTGAC 57.122 30.769 9.50 0.00 43.19 3.51
1416 1421 9.948964 CTCCCATTTAAGGAAAAAGAATTTCAT 57.051 29.630 0.00 0.00 37.28 2.57
1489 1494 0.543174 AAGGCGTCAAGAGACCCTCT 60.543 55.000 0.00 0.00 43.37 3.69
1501 1506 0.241213 GGCAGAAAAAGGAAGGCGTC 59.759 55.000 0.00 0.00 0.00 5.19
1639 1644 7.411486 AGAGAATCAATAGACTCCTTTTCGA 57.589 36.000 0.00 0.00 37.82 3.71
1809 2347 2.039084 CCAACTGAGCTATATCCACCCC 59.961 54.545 0.00 0.00 0.00 4.95
1810 2348 2.706190 ACCAACTGAGCTATATCCACCC 59.294 50.000 0.00 0.00 0.00 4.61
1811 2349 4.833380 TCTACCAACTGAGCTATATCCACC 59.167 45.833 0.00 0.00 0.00 4.61
1812 2350 6.019779 CTCTACCAACTGAGCTATATCCAC 57.980 45.833 0.00 0.00 0.00 4.02
1920 2458 3.487372 ACTTAGAAAAAGTGAGCCACCC 58.513 45.455 2.18 0.00 34.49 4.61
2003 2541 5.757099 TCCTACCTCCTCTAACTTTTTGG 57.243 43.478 0.00 0.00 0.00 3.28
2064 2602 1.813859 CCGCCGACTCCAACTATCA 59.186 57.895 0.00 0.00 0.00 2.15
2114 2652 1.490574 CCGACTTGATCCTCTTCCCT 58.509 55.000 0.00 0.00 0.00 4.20
2131 2669 0.098728 CAAGTTATTCGCAAGGGCCG 59.901 55.000 0.00 0.00 36.38 6.13
2180 2718 9.056005 GGATTTTCCTTTCTTTTGCTACATTTT 57.944 29.630 0.00 0.00 32.53 1.82
2195 2733 3.089284 GTCGGTCCATGGATTTTCCTTT 58.911 45.455 19.62 0.00 37.46 3.11
2245 2783 7.594758 CACGTTTCATCATGGAAGTGTATTTTT 59.405 33.333 0.00 0.00 0.00 1.94
2246 2784 7.083858 CACGTTTCATCATGGAAGTGTATTTT 58.916 34.615 0.00 0.00 0.00 1.82
2247 2785 6.206634 ACACGTTTCATCATGGAAGTGTATTT 59.793 34.615 10.53 0.00 35.61 1.40
2248 2786 5.705441 ACACGTTTCATCATGGAAGTGTATT 59.295 36.000 10.53 0.00 35.61 1.89
2249 2787 5.245531 ACACGTTTCATCATGGAAGTGTAT 58.754 37.500 10.53 0.00 35.61 2.29
2250 2788 4.637276 ACACGTTTCATCATGGAAGTGTA 58.363 39.130 10.53 0.00 35.61 2.90
2251 2789 3.476552 ACACGTTTCATCATGGAAGTGT 58.523 40.909 7.66 7.66 33.75 3.55
2252 2790 4.488126 AACACGTTTCATCATGGAAGTG 57.512 40.909 6.68 6.68 32.36 3.16
2253 2791 4.338118 ACAAACACGTTTCATCATGGAAGT 59.662 37.500 0.00 0.00 0.00 3.01
2254 2792 4.858935 ACAAACACGTTTCATCATGGAAG 58.141 39.130 0.00 0.00 0.00 3.46
2255 2793 4.336713 TGACAAACACGTTTCATCATGGAA 59.663 37.500 0.00 0.00 0.00 3.53
2256 2794 3.879892 TGACAAACACGTTTCATCATGGA 59.120 39.130 0.00 0.00 0.00 3.41
2257 2795 3.974401 GTGACAAACACGTTTCATCATGG 59.026 43.478 8.58 0.00 39.78 3.66
2270 2808 3.610040 ACTGTGAGTCTGTGACAAACA 57.390 42.857 0.00 3.59 34.60 2.83
2271 2809 4.051922 CCTACTGTGAGTCTGTGACAAAC 58.948 47.826 0.46 0.00 34.60 2.93
2272 2810 3.704566 ACCTACTGTGAGTCTGTGACAAA 59.295 43.478 0.46 0.00 34.60 2.83
2273 2811 3.296854 ACCTACTGTGAGTCTGTGACAA 58.703 45.455 0.46 0.00 34.60 3.18
2274 2812 2.945456 ACCTACTGTGAGTCTGTGACA 58.055 47.619 0.46 0.00 34.60 3.58
2275 2813 3.643763 CAACCTACTGTGAGTCTGTGAC 58.356 50.000 0.00 0.00 0.00 3.67
2276 2814 2.035961 GCAACCTACTGTGAGTCTGTGA 59.964 50.000 0.00 0.00 0.00 3.58
2277 2815 2.408050 GCAACCTACTGTGAGTCTGTG 58.592 52.381 0.00 0.00 0.00 3.66
2278 2816 1.000163 CGCAACCTACTGTGAGTCTGT 60.000 52.381 0.00 0.00 0.00 3.41
2279 2817 1.000163 ACGCAACCTACTGTGAGTCTG 60.000 52.381 0.00 0.00 0.00 3.51
2280 2818 1.329256 ACGCAACCTACTGTGAGTCT 58.671 50.000 0.00 0.00 0.00 3.24
2281 2819 2.150397 AACGCAACCTACTGTGAGTC 57.850 50.000 0.00 0.00 0.00 3.36
2282 2820 2.614829 AAACGCAACCTACTGTGAGT 57.385 45.000 0.00 0.00 0.00 3.41
2283 2821 3.963383 AAAAACGCAACCTACTGTGAG 57.037 42.857 0.00 0.00 0.00 3.51
2300 2838 5.718724 TGGATGTACATGCATGACAAAAA 57.281 34.783 32.75 16.53 34.14 1.94
2301 2839 5.918426 ATGGATGTACATGCATGACAAAA 57.082 34.783 33.87 18.90 46.05 2.44
2309 2847 2.977772 TCGTCATGGATGTACATGCA 57.022 45.000 29.03 29.03 46.02 3.96
2310 2848 4.818534 AAATCGTCATGGATGTACATGC 57.181 40.909 19.53 19.53 46.02 4.06
2312 2850 8.853077 ATCATAAAATCGTCATGGATGTACAT 57.147 30.769 8.43 8.43 0.00 2.29
2313 2851 9.423061 CTATCATAAAATCGTCATGGATGTACA 57.577 33.333 0.00 0.00 0.00 2.90
2314 2852 9.639601 TCTATCATAAAATCGTCATGGATGTAC 57.360 33.333 0.00 0.00 0.00 2.90
2316 2854 9.730705 ATTCTATCATAAAATCGTCATGGATGT 57.269 29.630 0.00 0.00 0.00 3.06
2318 2856 9.948964 TGATTCTATCATAAAATCGTCATGGAT 57.051 29.630 0.00 0.00 33.59 3.41
2319 2857 9.777297 TTGATTCTATCATAAAATCGTCATGGA 57.223 29.630 0.00 0.00 39.39 3.41


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

AutoCloner maintained by Alex Coulton.