Multiple sequence alignment - TraesCS6A01G223000

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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 TraesCS6A01G223000 chr6A 100.000 3080 0 0 1 3080 417446196 417443117 0.000000e+00 5688
1 TraesCS6A01G223000 chr6A 79.647 1700 328 14 297 1987 416658613 416656923 0.000000e+00 1206
2 TraesCS6A01G223000 chr6B 93.850 3138 86 36 4 3080 465148152 465151243 0.000000e+00 4626
3 TraesCS6A01G223000 chr6B 79.294 1700 334 14 297 1987 465675452 465677142 0.000000e+00 1173
4 TraesCS6A01G223000 chr6D 92.212 3043 98 53 1 3008 300327011 300329949 0.000000e+00 4178
5 TraesCS6A01G223000 chr6D 79.459 1699 333 13 297 1987 300889109 300890799 0.000000e+00 1190
6 TraesCS6A01G223000 chr6D 95.556 90 2 2 2992 3080 300329965 300330053 3.200000e-30 143
7 TraesCS6A01G223000 chr2A 77.708 1745 365 23 297 2029 624460535 624458803 0.000000e+00 1046
8 TraesCS6A01G223000 chr2A 76.844 1749 373 29 297 2029 624449407 624447675 0.000000e+00 957
9 TraesCS6A01G223000 chr2A 76.763 1687 364 26 297 1969 166630212 166628540 0.000000e+00 918
10 TraesCS6A01G223000 chr2D 76.782 1740 370 32 293 2015 481658344 481656622 0.000000e+00 944
11 TraesCS6A01G223000 chr2D 76.620 1728 380 23 300 2015 481690892 481689177 0.000000e+00 931
12 TraesCS6A01G223000 chr2D 76.554 1689 372 23 293 1969 156594577 156592901 0.000000e+00 904
13 TraesCS6A01G223000 chr1B 76.964 1680 363 21 293 1960 28306249 28307916 0.000000e+00 937
14 TraesCS6A01G223000 chr1D 76.786 1680 370 19 297 1966 19000229 19001898 0.000000e+00 924
15 TraesCS6A01G223000 chr3D 80.032 1242 241 6 797 2036 5793896 5792660 0.000000e+00 913
16 TraesCS6A01G223000 chrUn 80.317 1199 229 5 840 2036 28820273 28821466 0.000000e+00 900


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 TraesCS6A01G223000 chr6A 417443117 417446196 3079 True 5688.0 5688 100.000 1 3080 1 chr6A.!!$R2 3079
1 TraesCS6A01G223000 chr6A 416656923 416658613 1690 True 1206.0 1206 79.647 297 1987 1 chr6A.!!$R1 1690
2 TraesCS6A01G223000 chr6B 465148152 465151243 3091 False 4626.0 4626 93.850 4 3080 1 chr6B.!!$F1 3076
3 TraesCS6A01G223000 chr6B 465675452 465677142 1690 False 1173.0 1173 79.294 297 1987 1 chr6B.!!$F2 1690
4 TraesCS6A01G223000 chr6D 300327011 300330053 3042 False 2160.5 4178 93.884 1 3080 2 chr6D.!!$F2 3079
5 TraesCS6A01G223000 chr6D 300889109 300890799 1690 False 1190.0 1190 79.459 297 1987 1 chr6D.!!$F1 1690
6 TraesCS6A01G223000 chr2A 624458803 624460535 1732 True 1046.0 1046 77.708 297 2029 1 chr2A.!!$R3 1732
7 TraesCS6A01G223000 chr2A 624447675 624449407 1732 True 957.0 957 76.844 297 2029 1 chr2A.!!$R2 1732
8 TraesCS6A01G223000 chr2A 166628540 166630212 1672 True 918.0 918 76.763 297 1969 1 chr2A.!!$R1 1672
9 TraesCS6A01G223000 chr2D 481656622 481658344 1722 True 944.0 944 76.782 293 2015 1 chr2D.!!$R2 1722
10 TraesCS6A01G223000 chr2D 481689177 481690892 1715 True 931.0 931 76.620 300 2015 1 chr2D.!!$R3 1715
11 TraesCS6A01G223000 chr2D 156592901 156594577 1676 True 904.0 904 76.554 293 1969 1 chr2D.!!$R1 1676
12 TraesCS6A01G223000 chr1B 28306249 28307916 1667 False 937.0 937 76.964 293 1960 1 chr1B.!!$F1 1667
13 TraesCS6A01G223000 chr1D 19000229 19001898 1669 False 924.0 924 76.786 297 1966 1 chr1D.!!$F1 1669
14 TraesCS6A01G223000 chr3D 5792660 5793896 1236 True 913.0 913 80.032 797 2036 1 chr3D.!!$R1 1239
15 TraesCS6A01G223000 chrUn 28820273 28821466 1193 False 900.0 900 80.317 840 2036 1 chrUn.!!$F1 1196

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
177 181 0.030235 AACGAAAGGCAAAAGGCGAC 59.97 50.0 0.0 0.0 46.16 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2158 2178 1.20661 TCATGCTCTGACTTCCAGCTC 59.793 52.381 0.0 0.0 42.62 4.09 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
87 91 6.562270 CGACAATATCTTTAGGTAAAGCTGCG 60.562 42.308 4.82 4.88 41.77 5.18
88 92 5.527582 ACAATATCTTTAGGTAAAGCTGCGG 59.472 40.000 4.82 0.00 41.77 5.69
89 93 2.396590 TCTTTAGGTAAAGCTGCGGG 57.603 50.000 4.82 0.00 41.77 6.13
90 94 1.065709 TCTTTAGGTAAAGCTGCGGGG 60.066 52.381 4.82 0.00 41.77 5.73
91 95 0.678684 TTTAGGTAAAGCTGCGGGGC 60.679 55.000 0.00 0.00 0.00 5.80
92 96 2.546114 TTAGGTAAAGCTGCGGGGCC 62.546 60.000 0.00 0.00 0.00 5.80
177 181 0.030235 AACGAAAGGCAAAAGGCGAC 59.970 50.000 0.00 0.00 46.16 5.19
183 187 0.251341 AGGCAAAAGGCGACAGGAAT 60.251 50.000 0.00 0.00 46.16 3.01
254 264 1.002274 TCTGGAAGCCTCCTCCTCC 59.998 63.158 2.35 0.00 42.94 4.30
255 265 1.002792 CTGGAAGCCTCCTCCTCCT 59.997 63.158 2.35 0.00 42.94 3.69
256 266 1.002274 TGGAAGCCTCCTCCTCCTC 59.998 63.158 2.35 0.00 42.94 3.71
271 281 3.775654 CTCTCCTCCACGGTGGCC 61.776 72.222 22.42 0.00 37.47 5.36
955 965 1.743252 CTTCCTGGCCGAGACAAGC 60.743 63.158 0.00 0.00 0.00 4.01
2052 2062 1.616865 CCTGTACGGAAGACAAGGACA 59.383 52.381 2.31 0.00 33.16 4.02
2057 2067 1.003580 ACGGAAGACAAGGACATGCAT 59.996 47.619 0.00 0.00 0.00 3.96
2085 2095 4.695396 TCGTTAGTTGCAGGTGAAGTAAA 58.305 39.130 0.00 0.00 0.00 2.01
2086 2096 4.508861 TCGTTAGTTGCAGGTGAAGTAAAC 59.491 41.667 0.00 0.00 0.00 2.01
2087 2097 4.271533 CGTTAGTTGCAGGTGAAGTAAACA 59.728 41.667 0.00 0.00 0.00 2.83
2088 2098 5.558273 CGTTAGTTGCAGGTGAAGTAAACAG 60.558 44.000 0.00 0.00 0.00 3.16
2089 2099 4.150897 AGTTGCAGGTGAAGTAAACAGA 57.849 40.909 0.00 0.00 0.00 3.41
2090 2100 4.718961 AGTTGCAGGTGAAGTAAACAGAT 58.281 39.130 0.00 0.00 0.00 2.90
2092 2102 6.296026 AGTTGCAGGTGAAGTAAACAGATAA 58.704 36.000 0.00 0.00 0.00 1.75
2093 2103 6.428159 AGTTGCAGGTGAAGTAAACAGATAAG 59.572 38.462 0.00 0.00 0.00 1.73
2094 2104 5.245531 TGCAGGTGAAGTAAACAGATAAGG 58.754 41.667 0.00 0.00 0.00 2.69
2095 2105 5.012664 TGCAGGTGAAGTAAACAGATAAGGA 59.987 40.000 0.00 0.00 0.00 3.36
2096 2106 5.351740 GCAGGTGAAGTAAACAGATAAGGAC 59.648 44.000 0.00 0.00 0.00 3.85
2097 2107 5.577164 CAGGTGAAGTAAACAGATAAGGACG 59.423 44.000 0.00 0.00 0.00 4.79
2098 2108 4.868734 GGTGAAGTAAACAGATAAGGACGG 59.131 45.833 0.00 0.00 0.00 4.79
2099 2109 5.337009 GGTGAAGTAAACAGATAAGGACGGA 60.337 44.000 0.00 0.00 0.00 4.69
2100 2110 5.805994 GTGAAGTAAACAGATAAGGACGGAG 59.194 44.000 0.00 0.00 0.00 4.63
2101 2111 5.713389 TGAAGTAAACAGATAAGGACGGAGA 59.287 40.000 0.00 0.00 0.00 3.71
2102 2112 6.380274 TGAAGTAAACAGATAAGGACGGAGAT 59.620 38.462 0.00 0.00 0.00 2.75
2103 2113 6.150396 AGTAAACAGATAAGGACGGAGATG 57.850 41.667 0.00 0.00 0.00 2.90
2104 2114 5.657302 AGTAAACAGATAAGGACGGAGATGT 59.343 40.000 0.00 0.00 0.00 3.06
2105 2115 6.832384 AGTAAACAGATAAGGACGGAGATGTA 59.168 38.462 0.00 0.00 0.00 2.29
2106 2116 5.517322 AACAGATAAGGACGGAGATGTAC 57.483 43.478 0.00 0.00 0.00 2.90
2107 2117 4.794334 ACAGATAAGGACGGAGATGTACT 58.206 43.478 0.00 0.00 33.27 2.73
2108 2118 4.580995 ACAGATAAGGACGGAGATGTACTG 59.419 45.833 0.00 0.00 31.89 2.74
2109 2119 3.570550 AGATAAGGACGGAGATGTACTGC 59.429 47.826 0.00 0.00 31.89 4.40
2110 2120 1.853963 AAGGACGGAGATGTACTGCT 58.146 50.000 0.00 0.00 31.89 4.24
2148 2168 3.027412 AGAGTTAGTCGCTGGATCATGT 58.973 45.455 0.00 0.00 0.00 3.21
2164 2184 2.762887 TCATGTCCTCTGTTAGAGCTGG 59.237 50.000 0.00 0.00 40.98 4.85
2360 2410 4.545823 TCTTTGCGGTACAGAAAACTTG 57.454 40.909 0.00 0.00 0.00 3.16
2429 2480 5.121768 CAGTGTCCAGTTTATACCTTTTCCG 59.878 44.000 0.00 0.00 0.00 4.30
2459 2510 4.007457 GCTGAGCATGCCAAGGAA 57.993 55.556 15.66 0.00 0.00 3.36
2460 2511 2.501492 GCTGAGCATGCCAAGGAAT 58.499 52.632 15.66 0.00 0.00 3.01
2461 2512 0.822164 GCTGAGCATGCCAAGGAATT 59.178 50.000 15.66 0.00 0.00 2.17
2462 2513 1.202382 GCTGAGCATGCCAAGGAATTC 60.202 52.381 15.66 2.97 0.00 2.17
2463 2514 1.407979 CTGAGCATGCCAAGGAATTCC 59.592 52.381 17.31 17.31 0.00 3.01
2464 2515 0.383231 GAGCATGCCAAGGAATTCCG 59.617 55.000 18.82 6.18 42.08 4.30
2465 2516 1.227060 GCATGCCAAGGAATTCCGC 60.227 57.895 18.82 16.18 42.08 5.54
2466 2517 1.947597 GCATGCCAAGGAATTCCGCA 61.948 55.000 22.63 22.63 42.08 5.69
2467 2518 0.748450 CATGCCAAGGAATTCCGCAT 59.252 50.000 24.49 24.49 39.90 4.73
2468 2519 0.748450 ATGCCAAGGAATTCCGCATG 59.252 50.000 27.51 22.07 38.55 4.06
2469 2520 1.227060 GCCAAGGAATTCCGCATGC 60.227 57.895 18.82 15.51 42.08 4.06
2470 2521 1.438814 CCAAGGAATTCCGCATGCC 59.561 57.895 18.82 0.00 42.08 4.40
2471 2522 1.321805 CCAAGGAATTCCGCATGCCA 61.322 55.000 18.82 0.00 42.08 4.92
2472 2523 0.531657 CAAGGAATTCCGCATGCCAA 59.468 50.000 18.82 5.58 42.08 4.52
2481 2532 2.405805 CGCATGCCAATTCACCCGA 61.406 57.895 13.15 0.00 0.00 5.14
2658 2711 9.959721 TTAATTAGATCTGCCTCTTGTTTAACT 57.040 29.630 5.18 0.00 0.00 2.24
2659 2712 8.870075 AATTAGATCTGCCTCTTGTTTAACTT 57.130 30.769 5.18 0.00 0.00 2.66
2660 2713 7.907214 TTAGATCTGCCTCTTGTTTAACTTC 57.093 36.000 5.18 0.00 0.00 3.01
2762 2835 0.591170 GCACGCAGTTTAAAGCCTCA 59.409 50.000 0.00 0.00 41.61 3.86
2763 2836 1.400242 GCACGCAGTTTAAAGCCTCAG 60.400 52.381 0.00 0.00 41.61 3.35
2804 2899 8.777865 ATCTGTCTATTTTTCGTTTCTCATCA 57.222 30.769 0.00 0.00 0.00 3.07
2805 2900 8.244494 TCTGTCTATTTTTCGTTTCTCATCAG 57.756 34.615 0.00 0.00 0.00 2.90
2806 2901 7.331934 TCTGTCTATTTTTCGTTTCTCATCAGG 59.668 37.037 0.00 0.00 0.00 3.86
2807 2902 7.158697 TGTCTATTTTTCGTTTCTCATCAGGA 58.841 34.615 0.00 0.00 0.00 3.86
2808 2903 7.117812 TGTCTATTTTTCGTTTCTCATCAGGAC 59.882 37.037 0.00 0.00 0.00 3.85
2809 2904 4.725556 TTTTTCGTTTCTCATCAGGACG 57.274 40.909 0.00 0.00 33.49 4.79
2810 2905 3.380479 TTTCGTTTCTCATCAGGACGT 57.620 42.857 0.00 0.00 33.75 4.34
2811 2906 2.347697 TCGTTTCTCATCAGGACGTG 57.652 50.000 0.00 0.00 33.75 4.49
2812 2907 0.716108 CGTTTCTCATCAGGACGTGC 59.284 55.000 0.00 0.00 0.00 5.34
2813 2908 1.670087 CGTTTCTCATCAGGACGTGCT 60.670 52.381 2.68 2.68 0.00 4.40
2814 2909 1.728971 GTTTCTCATCAGGACGTGCTG 59.271 52.381 29.08 29.08 0.00 4.41
2815 2910 1.256812 TTCTCATCAGGACGTGCTGA 58.743 50.000 36.77 36.77 30.54 4.26
2816 2911 1.478631 TCTCATCAGGACGTGCTGAT 58.521 50.000 37.60 37.60 40.54 2.90
2818 2913 3.448267 CATCAGGACGTGCTGATGT 57.552 52.632 45.87 30.65 46.92 3.06
2819 2914 2.584492 CATCAGGACGTGCTGATGTA 57.416 50.000 45.87 27.96 46.92 2.29
2820 2915 2.196749 CATCAGGACGTGCTGATGTAC 58.803 52.381 45.87 13.22 46.92 2.90
2821 2916 1.253100 TCAGGACGTGCTGATGTACA 58.747 50.000 32.63 12.49 0.00 2.90
2822 2917 1.067846 TCAGGACGTGCTGATGTACAC 60.068 52.381 32.63 0.00 0.00 2.90
2823 2918 0.966179 AGGACGTGCTGATGTACACA 59.034 50.000 9.49 0.00 36.57 3.72
2824 2919 1.068474 GGACGTGCTGATGTACACAC 58.932 55.000 0.00 0.46 36.57 3.82
2825 2920 1.068474 GACGTGCTGATGTACACACC 58.932 55.000 0.00 0.00 36.57 4.16
2859 2954 1.212935 GGTTCTGGCCACTACCATGAT 59.787 52.381 21.46 0.00 39.54 2.45
2860 2955 2.292267 GTTCTGGCCACTACCATGATG 58.708 52.381 0.00 0.00 39.54 3.07
2861 2956 1.878211 TCTGGCCACTACCATGATGA 58.122 50.000 0.00 0.00 39.54 2.92
2863 2958 1.764723 CTGGCCACTACCATGATGAGA 59.235 52.381 0.00 0.00 39.54 3.27
2864 2959 1.764723 TGGCCACTACCATGATGAGAG 59.235 52.381 0.00 0.00 33.75 3.20
2865 2960 2.042464 GGCCACTACCATGATGAGAGA 58.958 52.381 0.00 0.00 0.00 3.10
2866 2961 2.224161 GGCCACTACCATGATGAGAGAC 60.224 54.545 0.00 0.00 0.00 3.36
2893 2998 9.968870 GTATTTACTGTGGTATTTTGTTTCCAA 57.031 29.630 0.00 0.00 0.00 3.53
3010 3115 7.620394 GCTTTGCTTAAAACACGAAAAGTTTCA 60.620 33.333 4.76 0.00 38.17 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
92 96 3.745240 TAGCTGCTCTGCCATGGCG 62.745 63.158 30.87 24.20 45.51 5.69
93 97 2.185494 GTAGCTGCTCTGCCATGGC 61.185 63.158 30.54 30.54 42.35 4.40
94 98 1.094073 GTGTAGCTGCTCTGCCATGG 61.094 60.000 7.63 7.63 0.00 3.66
95 99 0.392060 TGTGTAGCTGCTCTGCCATG 60.392 55.000 4.91 0.00 0.00 3.66
96 100 0.325933 TTGTGTAGCTGCTCTGCCAT 59.674 50.000 4.91 0.00 0.00 4.40
97 101 0.325933 ATTGTGTAGCTGCTCTGCCA 59.674 50.000 4.91 0.00 0.00 4.92
177 181 6.091437 GCATGTTCTTCTTCTTCAATTCCTG 58.909 40.000 0.00 0.00 0.00 3.86
183 187 4.126437 TCGTGCATGTTCTTCTTCTTCAA 58.874 39.130 5.68 0.00 0.00 2.69
254 264 3.775654 GGCCACCGTGGAGGAGAG 61.776 72.222 22.37 0.00 45.00 3.20
271 281 2.892425 GTCTGAAGCATCGCCGGG 60.892 66.667 2.18 0.00 0.00 5.73
273 283 2.094659 AACGTCTGAAGCATCGCCG 61.095 57.895 0.00 0.00 0.00 6.46
275 285 1.002366 ATCAACGTCTGAAGCATCGC 58.998 50.000 0.00 0.00 37.67 4.58
955 965 0.900647 AGGACGTGAACTCTCTGGGG 60.901 60.000 0.00 0.00 0.00 4.96
1501 1511 2.281761 AAGCTCAAGCACCACCCG 60.282 61.111 4.59 0.00 45.16 5.28
2052 2062 3.944650 TGCAACTAACGAACCATATGCAT 59.055 39.130 3.79 3.79 37.61 3.96
2057 2067 3.007074 TCACCTGCAACTAACGAACCATA 59.993 43.478 0.00 0.00 0.00 2.74
2085 2095 4.580995 CAGTACATCTCCGTCCTTATCTGT 59.419 45.833 0.00 0.00 0.00 3.41
2086 2096 4.557695 GCAGTACATCTCCGTCCTTATCTG 60.558 50.000 0.00 0.00 0.00 2.90
2087 2097 3.570550 GCAGTACATCTCCGTCCTTATCT 59.429 47.826 0.00 0.00 0.00 1.98
2088 2098 3.570550 AGCAGTACATCTCCGTCCTTATC 59.429 47.826 0.00 0.00 0.00 1.75
2089 2099 3.567397 AGCAGTACATCTCCGTCCTTAT 58.433 45.455 0.00 0.00 0.00 1.73
2090 2100 3.014304 AGCAGTACATCTCCGTCCTTA 57.986 47.619 0.00 0.00 0.00 2.69
2092 2102 2.172930 TCTAGCAGTACATCTCCGTCCT 59.827 50.000 0.00 0.00 0.00 3.85
2093 2103 2.573369 TCTAGCAGTACATCTCCGTCC 58.427 52.381 0.00 0.00 0.00 4.79
2094 2104 3.628487 ACTTCTAGCAGTACATCTCCGTC 59.372 47.826 0.00 0.00 0.00 4.79
2095 2105 3.622630 ACTTCTAGCAGTACATCTCCGT 58.377 45.455 0.00 0.00 0.00 4.69
2096 2106 4.318903 CGTACTTCTAGCAGTACATCTCCG 60.319 50.000 25.69 11.83 46.66 4.63
2097 2107 4.575645 ACGTACTTCTAGCAGTACATCTCC 59.424 45.833 25.69 4.95 46.66 3.71
2098 2108 5.738118 ACGTACTTCTAGCAGTACATCTC 57.262 43.478 25.69 5.55 46.66 2.75
2099 2109 5.236911 GCTACGTACTTCTAGCAGTACATCT 59.763 44.000 25.69 13.61 46.66 2.90
2100 2110 5.442402 GCTACGTACTTCTAGCAGTACATC 58.558 45.833 25.69 11.81 46.66 3.06
2101 2111 4.025061 CGCTACGTACTTCTAGCAGTACAT 60.025 45.833 25.69 17.16 46.66 2.29
2102 2112 3.308053 CGCTACGTACTTCTAGCAGTACA 59.692 47.826 25.69 11.44 46.66 2.90
2103 2113 3.303001 CCGCTACGTACTTCTAGCAGTAC 60.303 52.174 19.22 19.22 44.00 2.73
2104 2114 2.868583 CCGCTACGTACTTCTAGCAGTA 59.131 50.000 6.56 0.00 35.99 2.74
2105 2115 1.669779 CCGCTACGTACTTCTAGCAGT 59.330 52.381 0.00 0.00 35.99 4.40
2106 2116 1.669779 ACCGCTACGTACTTCTAGCAG 59.330 52.381 6.56 0.00 35.99 4.24
2107 2117 1.742761 ACCGCTACGTACTTCTAGCA 58.257 50.000 6.56 0.00 35.99 3.49
2108 2118 3.126831 TCTACCGCTACGTACTTCTAGC 58.873 50.000 0.00 0.00 33.35 3.42
2109 2119 4.367450 ACTCTACCGCTACGTACTTCTAG 58.633 47.826 0.00 0.00 0.00 2.43
2110 2120 4.392921 ACTCTACCGCTACGTACTTCTA 57.607 45.455 0.00 0.00 0.00 2.10
2148 2168 3.093057 GACTTCCAGCTCTAACAGAGGA 58.907 50.000 5.40 0.00 42.54 3.71
2158 2178 1.206610 TCATGCTCTGACTTCCAGCTC 59.793 52.381 0.00 0.00 42.62 4.09
2159 2179 1.273759 TCATGCTCTGACTTCCAGCT 58.726 50.000 0.00 0.00 42.62 4.24
2209 2229 8.036575 CCATCATATCCAAAGACACACAAAAAT 58.963 33.333 0.00 0.00 0.00 1.82
2221 2242 5.048224 GCCAAGTCATCCATCATATCCAAAG 60.048 44.000 0.00 0.00 0.00 2.77
2360 2410 2.200373 AGGCTGTGTAACCCATCAAC 57.800 50.000 0.00 0.00 34.36 3.18
2407 2458 4.999311 ACGGAAAAGGTATAAACTGGACAC 59.001 41.667 0.00 0.00 0.00 3.67
2429 2480 0.668401 GCTCAGCCAAAATGTGCCAC 60.668 55.000 0.00 0.00 32.43 5.01
2456 2507 1.136695 TGAATTGGCATGCGGAATTCC 59.863 47.619 31.18 15.01 35.91 3.01
2457 2508 2.195922 GTGAATTGGCATGCGGAATTC 58.804 47.619 29.50 29.50 36.86 2.17
2458 2509 1.134729 GGTGAATTGGCATGCGGAATT 60.135 47.619 20.44 20.44 0.00 2.17
2459 2510 0.461135 GGTGAATTGGCATGCGGAAT 59.539 50.000 12.44 9.60 0.00 3.01
2460 2511 1.603236 GGGTGAATTGGCATGCGGAA 61.603 55.000 12.44 7.45 0.00 4.30
2461 2512 2.051518 GGGTGAATTGGCATGCGGA 61.052 57.895 12.44 2.45 0.00 5.54
2462 2513 2.495866 GGGTGAATTGGCATGCGG 59.504 61.111 12.44 0.00 0.00 5.69
2463 2514 2.102749 CGGGTGAATTGGCATGCG 59.897 61.111 12.44 0.00 0.00 4.73
2464 2515 1.139520 GTCGGGTGAATTGGCATGC 59.860 57.895 9.90 9.90 0.00 4.06
2465 2516 1.809207 GGTCGGGTGAATTGGCATG 59.191 57.895 0.00 0.00 0.00 4.06
2466 2517 1.748879 CGGTCGGGTGAATTGGCAT 60.749 57.895 0.00 0.00 0.00 4.40
2467 2518 2.359354 CGGTCGGGTGAATTGGCA 60.359 61.111 0.00 0.00 0.00 4.92
2468 2519 3.131478 CCGGTCGGGTGAATTGGC 61.131 66.667 0.74 0.00 0.00 4.52
2469 2520 3.131478 GCCGGTCGGGTGAATTGG 61.131 66.667 11.60 0.00 38.44 3.16
2470 2521 2.359354 TGCCGGTCGGGTGAATTG 60.359 61.111 11.60 0.00 38.44 2.32
2471 2522 2.359478 GTGCCGGTCGGGTGAATT 60.359 61.111 11.60 0.00 38.44 2.17
2472 2523 3.605749 CTGTGCCGGTCGGGTGAAT 62.606 63.158 11.60 0.00 38.44 2.57
2762 2835 6.599445 AGACAGATCATAGGCATTTAAAGCT 58.401 36.000 0.00 0.00 0.00 3.74
2763 2836 6.874288 AGACAGATCATAGGCATTTAAAGC 57.126 37.500 0.00 0.00 0.00 3.51
2804 2899 0.966179 TGTGTACATCAGCACGTCCT 59.034 50.000 0.00 0.00 38.36 3.85
2805 2900 1.068474 GTGTGTACATCAGCACGTCC 58.932 55.000 0.00 0.00 38.36 4.79
2806 2901 1.068474 GGTGTGTACATCAGCACGTC 58.932 55.000 17.19 0.83 38.36 4.34
2807 2902 0.679505 AGGTGTGTACATCAGCACGT 59.320 50.000 21.38 13.92 38.36 4.49
2808 2903 1.070821 CAGGTGTGTACATCAGCACG 58.929 55.000 21.38 12.75 38.36 5.34
2809 2904 0.798776 GCAGGTGTGTACATCAGCAC 59.201 55.000 21.38 14.83 39.03 4.40
2810 2905 0.396060 TGCAGGTGTGTACATCAGCA 59.604 50.000 21.38 10.72 45.26 4.41
2811 2906 1.399440 CATGCAGGTGTGTACATCAGC 59.601 52.381 15.39 15.39 39.55 4.26
2812 2907 2.934553 CTCATGCAGGTGTGTACATCAG 59.065 50.000 0.00 0.00 0.00 2.90
2813 2908 2.355007 CCTCATGCAGGTGTGTACATCA 60.355 50.000 0.00 0.00 37.53 3.07
2814 2909 2.283298 CCTCATGCAGGTGTGTACATC 58.717 52.381 0.00 0.00 37.53 3.06
2815 2910 2.408271 CCTCATGCAGGTGTGTACAT 57.592 50.000 0.00 0.00 37.53 2.29
2816 2911 3.933879 CCTCATGCAGGTGTGTACA 57.066 52.632 0.00 0.00 37.53 2.90
2825 2920 2.002586 CAGAACCGTTACCTCATGCAG 58.997 52.381 0.00 0.00 0.00 4.41
2841 2936 2.171237 CTCATCATGGTAGTGGCCAGAA 59.829 50.000 5.11 0.00 42.47 3.02
2859 2954 7.400599 AATACCACAGTAAATACGTCTCTCA 57.599 36.000 0.00 0.00 30.59 3.27
2860 2955 8.592998 CAAAATACCACAGTAAATACGTCTCTC 58.407 37.037 0.00 0.00 30.59 3.20
2861 2956 8.092687 ACAAAATACCACAGTAAATACGTCTCT 58.907 33.333 0.00 0.00 30.59 3.10
2863 2958 8.611654 AACAAAATACCACAGTAAATACGTCT 57.388 30.769 0.00 0.00 30.59 4.18
2864 2959 9.321590 GAAACAAAATACCACAGTAAATACGTC 57.678 33.333 0.00 0.00 30.59 4.34
2865 2960 8.291740 GGAAACAAAATACCACAGTAAATACGT 58.708 33.333 0.00 0.00 30.59 3.57
2866 2961 8.291032 TGGAAACAAAATACCACAGTAAATACG 58.709 33.333 0.00 0.00 37.44 3.06
2893 2998 1.269958 GGAAAGGAGCCTGGCAAAAT 58.730 50.000 22.65 0.00 0.00 1.82
3010 3115 5.611374 CCCATCCGTCAGTCAAATAACTAT 58.389 41.667 0.00 0.00 0.00 2.12


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

AutoCloner maintained by Alex Coulton.