Multiple sequence alignment - TraesCS3D01G425000

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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 TraesCS3D01G425000 chr3D 100.000 3765 0 0 1 3765 537147263 537143499 0.000000e+00 6953.0
1 TraesCS3D01G425000 chr3A 92.375 3633 140 55 199 3765 672552467 672548906 0.000000e+00 5048.0
2 TraesCS3D01G425000 chr3A 91.358 162 11 3 3 163 672552624 672552465 6.330000e-53 219.0
3 TraesCS3D01G425000 chr3B 90.190 3894 183 80 3 3765 710589346 710585521 0.000000e+00 4891.0
4 TraesCS3D01G425000 chr1B 88.503 461 31 14 2821 3275 542807255 542806811 4.280000e-149 538.0
5 TraesCS3D01G425000 chrUn 78.571 308 36 16 2972 3252 304218020 304217716 3.870000e-40 176.0
6 TraesCS3D01G425000 chrUn 78.571 308 36 16 2972 3252 356637293 356637597 3.870000e-40 176.0
7 TraesCS3D01G425000 chr4B 78.571 308 36 16 2972 3252 237846713 237846409 3.870000e-40 176.0
8 TraesCS3D01G425000 chr4B 78.571 308 36 16 2972 3252 237886678 237886374 3.870000e-40 176.0
9 TraesCS3D01G425000 chr2D 93.023 43 3 0 1661 1703 32143562 32143604 3.140000e-06 63.9


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 TraesCS3D01G425000 chr3D 537143499 537147263 3764 True 6953.0 6953 100.0000 1 3765 1 chr3D.!!$R1 3764
1 TraesCS3D01G425000 chr3A 672548906 672552624 3718 True 2633.5 5048 91.8665 3 3765 2 chr3A.!!$R1 3762
2 TraesCS3D01G425000 chr3B 710585521 710589346 3825 True 4891.0 4891 90.1900 3 3765 1 chr3B.!!$R1 3762

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
197 201 0.950836 AATACACACAAGCAAGCGCA 59.049 45.0 11.47 0.0 42.27 6.09 F
2162 2240 0.405198 TCCACCGGACACTACAGGTA 59.595 55.0 9.46 0.0 36.66 3.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2164 2242 2.483877 TGCAGCGAGTGAAATTTGTAGG 59.516 45.455 0.00 0.0 0.00 3.18 R
3074 3244 0.815615 CTGGGGTCTTTATCTGCGCC 60.816 60.000 4.18 0.0 34.96 6.53 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
73 76 4.142071 TGTTAGCAAACACAATGAAAGGCA 60.142 37.500 0.00 0.00 40.69 4.75
154 157 3.197766 TCGAAGCCACTAAATCTCCACAT 59.802 43.478 0.00 0.00 0.00 3.21
182 186 6.555315 AGCAATCAAATTCACCGAAGAATAC 58.445 36.000 3.28 0.00 37.24 1.89
189 193 5.862924 ATTCACCGAAGAATACACACAAG 57.137 39.130 1.17 0.00 36.51 3.16
194 198 3.482786 CGAAGAATACACACAAGCAAGC 58.517 45.455 0.00 0.00 0.00 4.01
195 199 3.482786 GAAGAATACACACAAGCAAGCG 58.517 45.455 0.00 0.00 0.00 4.68
196 200 1.197721 AGAATACACACAAGCAAGCGC 59.802 47.619 0.00 0.00 38.99 5.92
197 201 0.950836 AATACACACAAGCAAGCGCA 59.049 45.000 11.47 0.00 42.27 6.09
648 679 5.128205 GGGGAACTAGTAGTTGTTGTTGTT 58.872 41.667 20.21 0.00 38.80 2.83
650 681 5.587443 GGGAACTAGTAGTTGTTGTTGTTGT 59.413 40.000 20.21 0.00 38.80 3.32
651 682 6.762661 GGGAACTAGTAGTTGTTGTTGTTGTA 59.237 38.462 20.21 0.00 38.80 2.41
652 683 7.042254 GGGAACTAGTAGTTGTTGTTGTTGTAG 60.042 40.741 20.21 0.00 38.80 2.74
653 684 7.042254 GGAACTAGTAGTTGTTGTTGTTGTAGG 60.042 40.741 20.21 0.00 38.80 3.18
654 685 6.285990 ACTAGTAGTTGTTGTTGTTGTAGGG 58.714 40.000 0.00 0.00 0.00 3.53
684 716 3.202706 GGGGATCGCACCGCTTTC 61.203 66.667 12.32 0.00 39.35 2.62
804 836 2.902423 AAAAGCATATCCCGCGGCCA 62.902 55.000 22.85 8.89 0.00 5.36
824 856 4.379243 CCCAGCTCGGCAGTTCGT 62.379 66.667 0.00 0.00 0.00 3.85
929 965 2.355108 GGTGCATGTTTCAGAGGAGCTA 60.355 50.000 0.00 0.00 0.00 3.32
1088 1124 3.093057 GAGCCAAGAAGACCAGAGTAGA 58.907 50.000 0.00 0.00 0.00 2.59
2162 2240 0.405198 TCCACCGGACACTACAGGTA 59.595 55.000 9.46 0.00 36.66 3.08
2164 2242 0.529378 CACCGGACACTACAGGTACC 59.471 60.000 9.46 2.73 36.66 3.34
2165 2243 0.613012 ACCGGACACTACAGGTACCC 60.613 60.000 9.46 0.00 36.66 3.69
2204 2286 0.533755 ATAGCTTGCTCCGGACATGC 60.534 55.000 24.43 24.43 38.19 4.06
2222 2304 1.497278 CAATCGCCAACAGACGGTG 59.503 57.895 0.00 0.00 35.24 4.94
2223 2305 0.948623 CAATCGCCAACAGACGGTGA 60.949 55.000 0.00 0.00 46.59 4.02
2224 2306 1.596934 ATCGCCAACAGACGGTGAT 59.403 52.632 0.00 0.00 46.26 3.06
2225 2307 1.374125 TCGCCAACAGACGGTGATG 60.374 57.895 0.00 0.00 38.12 3.07
2226 2308 1.667830 CGCCAACAGACGGTGATGT 60.668 57.895 0.00 0.00 36.02 3.06
2233 2315 1.733041 AGACGGTGATGTGAACGCG 60.733 57.895 3.53 3.53 0.00 6.01
2324 2406 2.758497 TGAGCATCATCACGTGCAG 58.242 52.632 11.67 5.65 42.56 4.41
2325 2407 0.741927 TGAGCATCATCACGTGCAGG 60.742 55.000 11.67 4.53 42.56 4.85
2589 2690 9.560860 TTTCCTAGCCAAGATCAGGATATAATA 57.439 33.333 8.29 0.00 37.06 0.98
2646 2777 7.469456 CGGTGTTTTCTTCCTCTTCCATTTTTA 60.469 37.037 0.00 0.00 0.00 1.52
2655 2786 4.950475 CCTCTTCCATTTTTAACTCTCCCC 59.050 45.833 0.00 0.00 0.00 4.81
2656 2787 5.516591 CCTCTTCCATTTTTAACTCTCCCCA 60.517 44.000 0.00 0.00 0.00 4.96
2657 2788 5.570320 TCTTCCATTTTTAACTCTCCCCAG 58.430 41.667 0.00 0.00 0.00 4.45
2658 2789 5.074515 TCTTCCATTTTTAACTCTCCCCAGT 59.925 40.000 0.00 0.00 0.00 4.00
2659 2790 4.918588 TCCATTTTTAACTCTCCCCAGTC 58.081 43.478 0.00 0.00 0.00 3.51
2660 2791 4.352595 TCCATTTTTAACTCTCCCCAGTCA 59.647 41.667 0.00 0.00 0.00 3.41
2661 2792 4.459337 CCATTTTTAACTCTCCCCAGTCAC 59.541 45.833 0.00 0.00 0.00 3.67
2674 2805 2.329379 CCAGTCACTAGTGCTTCGTTC 58.671 52.381 18.45 2.76 0.00 3.95
2677 2808 3.802139 CAGTCACTAGTGCTTCGTTCAAA 59.198 43.478 18.45 0.00 0.00 2.69
2680 2811 4.049186 TCACTAGTGCTTCGTTCAAACTC 58.951 43.478 18.45 0.00 0.00 3.01
2683 2814 2.128035 AGTGCTTCGTTCAAACTCGAG 58.872 47.619 11.84 11.84 37.38 4.04
2685 2816 1.140816 GCTTCGTTCAAACTCGAGCT 58.859 50.000 13.61 0.00 37.38 4.09
2691 2822 3.979495 TCGTTCAAACTCGAGCTTAGTTC 59.021 43.478 13.61 3.60 36.17 3.01
2694 2825 4.537135 TCAAACTCGAGCTTAGTTCCAT 57.463 40.909 13.61 0.00 36.17 3.41
2695 2826 4.894784 TCAAACTCGAGCTTAGTTCCATT 58.105 39.130 13.61 0.00 36.17 3.16
2704 2835 6.262273 TCGAGCTTAGTTCCATTTTTGTTTCT 59.738 34.615 0.00 0.00 0.00 2.52
2732 2863 2.554462 TCAGTTCGGCATAGCTAGCTAG 59.446 50.000 27.42 16.84 31.45 3.42
2781 2912 2.408050 GCTCTGTTCATGTCAACGACT 58.592 47.619 0.00 0.00 33.15 4.18
2872 3027 2.469826 TGAAACTACACACGCACTCTG 58.530 47.619 0.00 0.00 0.00 3.35
2883 3038 4.923871 CACACGCACTCTGTTCTTAATACT 59.076 41.667 0.00 0.00 0.00 2.12
2922 3089 1.464376 CGGGAGTATCAGCCATCGGT 61.464 60.000 0.00 0.00 36.25 4.69
2939 3106 1.673033 CGGTTGCAGAGTAGACAAGGG 60.673 57.143 0.00 0.00 0.00 3.95
2953 3120 4.228824 AGACAAGGGTGTAAAGGTCTGTA 58.771 43.478 0.00 0.00 38.41 2.74
2959 3126 3.939592 GGGTGTAAAGGTCTGTAGAATGC 59.060 47.826 0.00 0.00 0.00 3.56
2999 3166 7.293073 AGATATGAAATTGTGAATAGGCACCT 58.707 34.615 0.00 0.00 37.99 4.00
3038 3205 3.879295 ACATTTCTGCATGTTATCTCCCG 59.121 43.478 0.00 0.00 33.29 5.14
3060 3230 0.107703 TTATGAGCTGCCCGACAAGG 60.108 55.000 0.00 0.00 40.63 3.61
3074 3244 5.821204 CCCGACAAGGCAATAATAGAAAAG 58.179 41.667 0.00 0.00 39.21 2.27
3076 3246 5.273944 CGACAAGGCAATAATAGAAAAGGC 58.726 41.667 0.00 0.00 0.00 4.35
3077 3247 5.248870 ACAAGGCAATAATAGAAAAGGCG 57.751 39.130 0.00 0.00 0.00 5.52
3078 3248 3.990318 AGGCAATAATAGAAAAGGCGC 57.010 42.857 0.00 0.00 0.00 6.53
3079 3249 3.287222 AGGCAATAATAGAAAAGGCGCA 58.713 40.909 10.83 0.00 0.00 6.09
3080 3250 3.316308 AGGCAATAATAGAAAAGGCGCAG 59.684 43.478 10.83 0.00 0.00 5.18
3082 3252 4.022849 GGCAATAATAGAAAAGGCGCAGAT 60.023 41.667 10.83 0.00 0.00 2.90
3124 3297 5.388408 AACTAGGCAATAGCGTATAGGAC 57.612 43.478 0.00 0.00 43.41 3.85
3144 3317 2.034558 ACAAGGAGCAAAACAACCATCG 59.965 45.455 0.00 0.00 0.00 3.84
3164 3338 3.125146 TCGATTTGCAGTACAGCACAATC 59.875 43.478 22.98 22.98 45.61 2.67
3183 3357 6.750501 CACAATCACAATAGATGGAAGCAAAG 59.249 38.462 0.00 0.00 0.00 2.77
3202 3376 5.614449 GCAAAGTGCATAAATCAAAAACCCG 60.614 40.000 0.00 0.00 44.26 5.28
3269 3445 5.050972 GCTACACTGCCTTTATGATAACGAC 60.051 44.000 0.00 0.00 0.00 4.34
3275 3451 4.565166 TGCCTTTATGATAACGACGTTGAG 59.435 41.667 23.00 8.77 0.00 3.02
3277 3453 4.506654 CCTTTATGATAACGACGTTGAGGG 59.493 45.833 23.00 9.45 0.00 4.30
3280 3456 3.431922 TGATAACGACGTTGAGGGATC 57.568 47.619 23.00 16.56 0.00 3.36
3283 3459 0.902531 AACGACGTTGAGGGATCCAT 59.097 50.000 13.38 6.26 0.00 3.41
3286 3469 1.134818 CGACGTTGAGGGATCCATGAA 60.135 52.381 15.23 3.57 0.00 2.57
3287 3470 2.676750 CGACGTTGAGGGATCCATGAAA 60.677 50.000 15.23 0.08 0.00 2.69
3290 3473 2.420022 CGTTGAGGGATCCATGAAACAC 59.580 50.000 15.23 0.00 0.00 3.32
3299 3482 5.829924 GGGATCCATGAAACACAGTCATAAT 59.170 40.000 15.23 0.00 33.91 1.28
3324 3507 8.976986 TTTGTAGTCTTTTCTAGTTATCCGAC 57.023 34.615 0.00 0.00 0.00 4.79
3331 3514 7.432838 GTCTTTTCTAGTTATCCGACAAGCTAG 59.567 40.741 0.00 0.00 0.00 3.42
3340 3523 7.284944 AGTTATCCGACAAGCTAGTGTACTTAT 59.715 37.037 0.00 0.00 0.00 1.73
3735 3923 4.382685 GGTTACTAGCACACTGCCTGAATA 60.383 45.833 0.00 0.00 46.52 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.342819 GTTGTGCTTTTATGCCCACCA 59.657 47.619 0.00 0.00 0.00 4.17
1 2 1.618343 AGTTGTGCTTTTATGCCCACC 59.382 47.619 0.00 0.00 0.00 4.61
73 76 3.262405 TCCTACCTAACAATTTGGTCGCT 59.738 43.478 0.78 0.00 35.48 4.93
105 108 8.146053 TGATTATTCCTAGAGAAGTTGGAACA 57.854 34.615 0.00 0.00 40.78 3.18
154 157 3.153130 TCGGTGAATTTGATTGCTTCCA 58.847 40.909 0.00 0.00 0.00 3.53
182 186 0.801451 TTTGTGCGCTTGCTTGTGTG 60.801 50.000 9.73 0.00 40.12 3.82
189 193 2.148365 GCGAGATTTGTGCGCTTGC 61.148 57.895 9.73 0.00 46.53 4.01
195 199 2.449525 TACGCCGCGAGATTTGTGC 61.450 57.895 21.79 0.00 0.00 4.57
196 200 1.343821 GTACGCCGCGAGATTTGTG 59.656 57.895 21.79 0.00 0.00 3.33
197 201 1.808390 GGTACGCCGCGAGATTTGT 60.808 57.895 21.79 0.00 0.00 2.83
389 393 3.124088 CCTCCCCCTCCTCCTCTT 58.876 66.667 0.00 0.00 0.00 2.85
684 716 4.537433 GCCTGGCAGCGTCCTAGG 62.537 72.222 15.17 0.82 0.00 3.02
832 866 0.741221 CCTAGTGGGCTTCAGAACGC 60.741 60.000 0.00 0.00 0.00 4.84
1088 1124 3.292936 GCTGCCTTGCACACTGCT 61.293 61.111 0.00 0.00 45.31 4.24
2162 2240 3.074412 CAGCGAGTGAAATTTGTAGGGT 58.926 45.455 0.00 0.00 0.00 4.34
2164 2242 2.483877 TGCAGCGAGTGAAATTTGTAGG 59.516 45.455 0.00 0.00 0.00 3.18
2165 2243 3.811722 TGCAGCGAGTGAAATTTGTAG 57.188 42.857 0.00 0.00 0.00 2.74
2193 2275 2.537560 GGCGATTGCATGTCCGGAG 61.538 63.158 3.06 0.00 45.35 4.63
2204 2286 0.948623 TCACCGTCTGTTGGCGATTG 60.949 55.000 0.00 0.00 0.00 2.67
2222 2304 1.864750 GCATGCACGCGTTCACATC 60.865 57.895 15.08 2.37 0.00 3.06
2223 2305 2.176546 GCATGCACGCGTTCACAT 59.823 55.556 15.08 13.32 0.00 3.21
2224 2306 3.275338 TGCATGCACGCGTTCACA 61.275 55.556 18.46 11.40 33.35 3.58
2225 2307 2.796617 GTGCATGCACGCGTTCAC 60.797 61.111 33.20 9.99 37.19 3.18
2233 2315 4.450122 CGTCCTGCGTGCATGCAC 62.450 66.667 35.76 35.76 40.62 4.57
2324 2406 1.065126 CCTTCATGTTGTCCTCCCTCC 60.065 57.143 0.00 0.00 0.00 4.30
2325 2407 1.909302 TCCTTCATGTTGTCCTCCCTC 59.091 52.381 0.00 0.00 0.00 4.30
2589 2690 6.825721 CACTACCTAGAGAAAATGGCAGAAAT 59.174 38.462 0.00 0.00 0.00 2.17
2646 2777 2.530701 CACTAGTGACTGGGGAGAGTT 58.469 52.381 18.45 0.00 0.00 3.01
2655 2786 3.013276 TGAACGAAGCACTAGTGACTG 57.987 47.619 27.08 14.05 0.00 3.51
2656 2787 3.728076 TTGAACGAAGCACTAGTGACT 57.272 42.857 27.08 18.75 0.00 3.41
2657 2788 3.802685 AGTTTGAACGAAGCACTAGTGAC 59.197 43.478 27.08 16.83 0.00 3.67
2658 2789 4.049186 GAGTTTGAACGAAGCACTAGTGA 58.951 43.478 27.08 0.00 0.00 3.41
2659 2790 3.121328 CGAGTTTGAACGAAGCACTAGTG 60.121 47.826 18.93 18.93 0.00 2.74
2660 2791 3.050619 CGAGTTTGAACGAAGCACTAGT 58.949 45.455 0.00 0.00 0.00 2.57
2661 2792 3.305964 TCGAGTTTGAACGAAGCACTAG 58.694 45.455 0.00 0.00 35.62 2.57
2674 2805 5.613358 AAATGGAACTAAGCTCGAGTTTG 57.387 39.130 22.97 15.09 37.27 2.93
2677 2808 5.063880 ACAAAAATGGAACTAAGCTCGAGT 58.936 37.500 15.13 0.00 0.00 4.18
2680 2811 6.360681 CAGAAACAAAAATGGAACTAAGCTCG 59.639 38.462 0.00 0.00 0.00 5.03
2683 2814 7.770801 AACAGAAACAAAAATGGAACTAAGC 57.229 32.000 0.00 0.00 0.00 3.09
2685 2816 9.495572 ACAAAACAGAAACAAAAATGGAACTAA 57.504 25.926 0.00 0.00 0.00 2.24
2691 2822 7.363205 ACTGACAAAACAGAAACAAAAATGG 57.637 32.000 0.00 0.00 40.63 3.16
2694 2825 6.144724 CCGAACTGACAAAACAGAAACAAAAA 59.855 34.615 0.00 0.00 40.63 1.94
2695 2826 5.631512 CCGAACTGACAAAACAGAAACAAAA 59.368 36.000 0.00 0.00 40.63 2.44
2704 2835 2.225491 GCTATGCCGAACTGACAAAACA 59.775 45.455 0.00 0.00 0.00 2.83
2732 2863 6.668541 TGTTCTTCATTATGTTGAGCTAGC 57.331 37.500 6.62 6.62 0.00 3.42
2741 2872 5.948162 AGAGCCACATTGTTCTTCATTATGT 59.052 36.000 0.00 0.00 30.41 2.29
2781 2912 8.577296 CCTCTAAGATTATCTCACATAACGGAA 58.423 37.037 0.00 0.00 0.00 4.30
2844 2999 2.800544 CGTGTGTAGTTTCAGACTTGGG 59.199 50.000 0.00 0.00 39.86 4.12
2845 3000 2.221055 GCGTGTGTAGTTTCAGACTTGG 59.779 50.000 0.00 0.00 39.86 3.61
2901 3068 1.810606 CGATGGCTGATACTCCCGCT 61.811 60.000 0.00 0.00 0.00 5.52
2922 3089 2.047061 ACACCCTTGTCTACTCTGCAA 58.953 47.619 0.00 0.00 0.00 4.08
2939 3106 5.701290 AGTTGCATTCTACAGACCTTTACAC 59.299 40.000 0.00 0.00 0.00 2.90
2953 3120 5.376625 TCTTGTGGTTTAGAGTTGCATTCT 58.623 37.500 6.50 6.50 0.00 2.40
2999 3166 8.397906 GCAGAAATGTATGCTGTCAAAGTATTA 58.602 33.333 0.00 0.00 38.98 0.98
3038 3205 1.523938 GTCGGGCAGCTCATAACCC 60.524 63.158 0.00 0.00 39.12 4.11
3060 3230 4.552166 TCTGCGCCTTTTCTATTATTGC 57.448 40.909 4.18 0.00 0.00 3.56
3074 3244 0.815615 CTGGGGTCTTTATCTGCGCC 60.816 60.000 4.18 0.00 34.96 6.53
3076 3246 1.207089 TGTCTGGGGTCTTTATCTGCG 59.793 52.381 0.00 0.00 0.00 5.18
3077 3247 3.567478 ATGTCTGGGGTCTTTATCTGC 57.433 47.619 0.00 0.00 0.00 4.26
3078 3248 6.425210 TGATATGTCTGGGGTCTTTATCTG 57.575 41.667 0.00 0.00 0.00 2.90
3079 3249 7.127955 AGTTTGATATGTCTGGGGTCTTTATCT 59.872 37.037 0.00 0.00 0.00 1.98
3080 3250 7.283329 AGTTTGATATGTCTGGGGTCTTTATC 58.717 38.462 0.00 0.00 0.00 1.75
3082 3252 6.636454 AGTTTGATATGTCTGGGGTCTTTA 57.364 37.500 0.00 0.00 0.00 1.85
3124 3297 2.293122 TCGATGGTTGTTTTGCTCCTTG 59.707 45.455 0.00 0.00 0.00 3.61
3144 3317 4.161333 GTGATTGTGCTGTACTGCAAATC 58.839 43.478 29.59 29.59 45.12 2.17
3164 3338 4.082625 TGCACTTTGCTTCCATCTATTGTG 60.083 41.667 0.00 0.00 45.31 3.33
3183 3357 3.584834 AGCGGGTTTTTGATTTATGCAC 58.415 40.909 0.00 0.00 0.00 4.57
3194 3368 4.015872 TCTCAGTTCATAGCGGGTTTTT 57.984 40.909 0.00 0.00 0.00 1.94
3202 3376 6.983307 TGCTCTTAATCTTCTCAGTTCATAGC 59.017 38.462 0.00 0.00 0.00 2.97
3236 3412 0.875059 GGCAGTGTAGCAGTTTCACC 59.125 55.000 0.00 0.00 35.83 4.02
3269 3445 2.420022 GTGTTTCATGGATCCCTCAACG 59.580 50.000 9.90 0.00 0.00 4.10
3275 3451 3.071874 TGACTGTGTTTCATGGATCCC 57.928 47.619 9.90 0.00 0.00 3.85
3277 3453 8.246180 ACAAATTATGACTGTGTTTCATGGATC 58.754 33.333 0.00 0.00 35.31 3.36
3280 3456 8.514594 ACTACAAATTATGACTGTGTTTCATGG 58.485 33.333 0.00 0.00 35.31 3.66
3283 3459 8.902540 AGACTACAAATTATGACTGTGTTTCA 57.097 30.769 0.00 0.00 0.00 2.69
3287 3470 9.561069 AGAAAAGACTACAAATTATGACTGTGT 57.439 29.630 0.00 0.00 0.00 3.72
3299 3482 8.579006 TGTCGGATAACTAGAAAAGACTACAAA 58.421 33.333 0.00 0.00 0.00 2.83
3312 3495 5.502153 ACACTAGCTTGTCGGATAACTAG 57.498 43.478 15.52 15.52 34.61 2.57
3735 3923 5.163152 TGGTTACAAATCCCTGGCAAAATTT 60.163 36.000 0.00 0.00 0.00 1.82


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

AutoCloner maintained by Alex Coulton.