Multiple sequence alignment - TraesCS3B01G048000

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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 TraesCS3B01G048000 chr3B 100.000 2349 0 0 706 3054 24261296 24263644 0.000000e+00 4338.0
1 TraesCS3B01G048000 chr3B 100.000 383 0 0 1 383 24260591 24260973 0.000000e+00 708.0
2 TraesCS3B01G048000 chr3D 91.704 2423 72 59 706 3052 16887402 16889771 0.000000e+00 3241.0
3 TraesCS3B01G048000 chr3D 93.333 345 7 4 1 339 16886965 16887299 2.120000e-136 496.0
4 TraesCS3B01G048000 chr3D 96.296 27 1 0 357 383 16887322 16887348 9.200000e-01 45.4
5 TraesCS3B01G048000 chr3A 92.274 1618 50 33 718 2300 19896386 19894809 0.000000e+00 2226.0
6 TraesCS3B01G048000 chr3A 86.719 768 48 29 2291 3042 19894784 19894055 0.000000e+00 804.0
7 TraesCS3B01G048000 chr3A 88.140 371 18 14 1 355 19896833 19896473 4.710000e-113 418.0
8 TraesCS3B01G048000 chr2D 93.750 128 5 3 2725 2850 85707786 85707660 4.020000e-44 189.0
9 TraesCS3B01G048000 chr2D 87.429 175 5 4 2841 3015 85707604 85707447 5.200000e-43 185.0
10 TraesCS3B01G048000 chr5D 91.803 61 4 1 1323 1383 489188664 489188723 1.950000e-12 84.2
11 TraesCS3B01G048000 chr5B 91.803 61 4 1 1323 1383 602844158 602844217 1.950000e-12 84.2
12 TraesCS3B01G048000 chr5A 91.803 61 4 1 1323 1383 610231246 610231305 1.950000e-12 84.2
13 TraesCS3B01G048000 chr4D 80.734 109 16 4 1310 1417 477197504 477197400 2.520000e-11 80.5
14 TraesCS3B01G048000 chr7D 83.146 89 12 3 1310 1397 623027456 623027542 9.080000e-11 78.7
15 TraesCS3B01G048000 chr4B 93.023 43 3 0 1324 1366 635460761 635460803 2.540000e-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 TraesCS3B01G048000 chr3B 24260591 24263644 3053 False 2523.000000 4338 100.000000 1 3054 2 chr3B.!!$F1 3053
1 TraesCS3B01G048000 chr3D 16886965 16889771 2806 False 1260.800000 3241 93.777667 1 3052 3 chr3D.!!$F1 3051
2 TraesCS3B01G048000 chr3A 19894055 19896833 2778 True 1149.333333 2226 89.044333 1 3042 3 chr3A.!!$R1 3041

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
240 256 0.178068 GGGTCCTATCATGCGTGTGT 59.822 55.0 5.68 0.0 0.0 3.72 F
841 879 0.350904 TAGGAGAGGAGGGAGGAGGA 59.649 60.0 0.00 0.0 0.0 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1294 1342 0.179171 CAGTACTGGCACTCGTACCG 60.179 60.0 15.49 0.0 37.33 4.02 R
2453 2577 0.313043 GGCATGATGGAAATGGAGCG 59.687 55.0 0.00 0.0 0.00 5.03 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
157 167 9.778741 ATAGTACTCTGATCATCTAGCTATAGC 57.221 37.037 17.33 17.33 42.49 2.97
222 238 2.755650 GCATAATATATCTCGGCCGGG 58.244 52.381 27.83 25.23 0.00 5.73
240 256 0.178068 GGGTCCTATCATGCGTGTGT 59.822 55.000 5.68 0.00 0.00 3.72
241 257 1.290203 GGTCCTATCATGCGTGTGTG 58.710 55.000 5.68 0.00 0.00 3.82
242 258 1.405526 GGTCCTATCATGCGTGTGTGT 60.406 52.381 5.68 0.00 0.00 3.72
243 259 1.660607 GTCCTATCATGCGTGTGTGTG 59.339 52.381 5.68 0.00 0.00 3.82
260 280 0.502695 GTGTGTGTGTGTCGACGATG 59.497 55.000 11.62 0.00 0.00 3.84
355 392 4.394712 GATATGGAGCCCGGCCGG 62.395 72.222 37.99 37.99 0.00 6.13
753 790 6.530120 TCTCTATCTCTTCTAGCAGTGGTAG 58.470 44.000 21.00 21.00 35.26 3.18
759 796 6.584488 TCTCTTCTAGCAGTGGTAGTAGTAG 58.416 44.000 25.81 21.73 34.35 2.57
802 839 4.219725 AGTCCTTCTCTCTCTAAAGTGCAC 59.780 45.833 9.40 9.40 0.00 4.57
815 852 3.655615 AAGTGCACGGGGGATATAAAA 57.344 42.857 12.01 0.00 0.00 1.52
816 853 3.876309 AGTGCACGGGGGATATAAAAT 57.124 42.857 12.01 0.00 0.00 1.82
818 855 5.313280 AGTGCACGGGGGATATAAAATAA 57.687 39.130 12.01 0.00 0.00 1.40
819 856 5.887754 AGTGCACGGGGGATATAAAATAAT 58.112 37.500 12.01 0.00 0.00 1.28
820 857 5.710099 AGTGCACGGGGGATATAAAATAATG 59.290 40.000 12.01 0.00 0.00 1.90
840 878 1.133294 GTTAGGAGAGGAGGGAGGAGG 60.133 61.905 0.00 0.00 0.00 4.30
841 879 0.350904 TAGGAGAGGAGGGAGGAGGA 59.649 60.000 0.00 0.00 0.00 3.71
842 880 0.998945 AGGAGAGGAGGGAGGAGGAG 60.999 65.000 0.00 0.00 0.00 3.69
843 881 0.996762 GGAGAGGAGGGAGGAGGAGA 60.997 65.000 0.00 0.00 0.00 3.71
844 882 0.478507 GAGAGGAGGGAGGAGGAGAG 59.521 65.000 0.00 0.00 0.00 3.20
860 898 1.227380 GAGCCCCTGTAGATGCGTG 60.227 63.158 0.00 0.00 0.00 5.34
861 899 1.961180 GAGCCCCTGTAGATGCGTGT 61.961 60.000 0.00 0.00 0.00 4.49
862 900 1.815421 GCCCCTGTAGATGCGTGTG 60.815 63.158 0.00 0.00 0.00 3.82
863 901 1.153369 CCCCTGTAGATGCGTGTGG 60.153 63.158 0.00 0.00 0.00 4.17
929 967 1.251527 ACTGGGAGGACTACTGTGCG 61.252 60.000 0.00 0.00 39.62 5.34
1016 1064 2.034879 CGGCTTTGACGGACAGCAT 61.035 57.895 0.00 0.00 0.00 3.79
1018 1066 1.421485 GCTTTGACGGACAGCATCG 59.579 57.895 0.00 0.00 0.00 3.84
1024 1072 0.665835 GACGGACAGCATCGATCTCT 59.334 55.000 0.00 0.00 0.00 3.10
1030 1078 4.009675 GGACAGCATCGATCTCTATCTCT 58.990 47.826 0.00 0.00 0.00 3.10
1040 1088 7.303182 TCGATCTCTATCTCTTCTCTTCTCT 57.697 40.000 0.00 0.00 0.00 3.10
1052 1100 2.306219 TCTCTTCTCTCTTCTCCGTCCA 59.694 50.000 0.00 0.00 0.00 4.02
1068 1116 0.467106 TCCATCTCCTCCTCTCTGCG 60.467 60.000 0.00 0.00 0.00 5.18
1083 1131 1.150567 CTGCGCAATTCTCTCCTCCG 61.151 60.000 13.05 0.00 0.00 4.63
1084 1132 1.884926 GCGCAATTCTCTCCTCCGG 60.885 63.158 0.30 0.00 0.00 5.14
1095 1143 1.497223 CTCCTCCGGTAGTACGAGCG 61.497 65.000 18.88 18.88 39.97 5.03
1096 1144 1.522355 CCTCCGGTAGTACGAGCGA 60.522 63.158 25.82 12.65 42.83 4.93
1097 1145 1.497223 CCTCCGGTAGTACGAGCGAG 61.497 65.000 25.82 19.46 42.83 5.03
1098 1146 2.103581 CTCCGGTAGTACGAGCGAGC 62.104 65.000 25.82 2.16 42.83 5.03
1146 1194 1.153745 CTTCCACTTCTCCTCGGCG 60.154 63.158 0.00 0.00 0.00 6.46
1147 1195 2.564553 CTTCCACTTCTCCTCGGCGG 62.565 65.000 7.21 0.00 0.00 6.13
1148 1196 3.068691 CCACTTCTCCTCGGCGGA 61.069 66.667 7.21 0.00 40.30 5.54
1177 1225 2.281484 ACACCACCATGGACACGC 60.281 61.111 21.47 0.00 40.96 5.34
1872 1920 2.969016 CTCGACCTGCAGCTCAGT 59.031 61.111 8.66 0.00 41.25 3.41
1981 2045 1.741706 TCCGAACTAAAGCTCGATCGT 59.258 47.619 15.94 0.00 35.85 3.73
2158 2228 2.152016 AGATCGATCGATGACGCCTTA 58.848 47.619 33.86 1.34 39.58 2.69
2166 2236 5.220228 CGATCGATGACGCCTTATAAATTCC 60.220 44.000 10.26 0.00 39.58 3.01
2183 2253 6.879367 AAATTCCTGGTCAAATCCATTCAT 57.121 33.333 0.00 0.00 36.84 2.57
2193 2263 5.773680 GTCAAATCCATTCATCCATCCATCT 59.226 40.000 0.00 0.00 0.00 2.90
2194 2264 5.773176 TCAAATCCATTCATCCATCCATCTG 59.227 40.000 0.00 0.00 0.00 2.90
2197 2267 3.978672 TCCATTCATCCATCCATCTGTCT 59.021 43.478 0.00 0.00 0.00 3.41
2198 2268 4.041321 TCCATTCATCCATCCATCTGTCTC 59.959 45.833 0.00 0.00 0.00 3.36
2238 2315 6.808829 TGATCAATATCACCCATTTTCTTGC 58.191 36.000 0.00 0.00 37.20 4.01
2239 2316 5.596836 TCAATATCACCCATTTTCTTGCC 57.403 39.130 0.00 0.00 0.00 4.52
2248 2331 2.988493 CCATTTTCTTGCCGATGTGTTG 59.012 45.455 0.00 0.00 0.00 3.33
2312 2436 6.582677 TTTGTCAAGGAGAGTTCAAACAAA 57.417 33.333 0.00 0.00 34.15 2.83
2317 2441 6.308041 GTCAAGGAGAGTTCAAACAAACAAAC 59.692 38.462 0.00 0.00 0.00 2.93
2323 2447 8.503196 GGAGAGTTCAAACAAACAAACAAAAAT 58.497 29.630 0.00 0.00 0.00 1.82
2453 2577 1.484240 CCATGAGTCAGTTCCCCTCTC 59.516 57.143 0.00 0.00 0.00 3.20
2455 2579 1.251527 TGAGTCAGTTCCCCTCTCGC 61.252 60.000 0.00 0.00 0.00 5.03
2506 2630 6.292923 ACTTTGTTTGCCCCCTTTTAATTAC 58.707 36.000 0.00 0.00 0.00 1.89
2510 2634 5.046231 TGTTTGCCCCCTTTTAATTACATCC 60.046 40.000 0.00 0.00 0.00 3.51
2535 2660 3.889815 TGCCCTAATTGACAATCTCCTG 58.110 45.455 0.05 0.00 0.00 3.86
2538 2663 5.045213 TGCCCTAATTGACAATCTCCTGTTA 60.045 40.000 0.05 0.00 0.00 2.41
2541 2666 6.884295 CCCTAATTGACAATCTCCTGTTACAA 59.116 38.462 0.05 0.00 0.00 2.41
2542 2667 7.393234 CCCTAATTGACAATCTCCTGTTACAAA 59.607 37.037 0.05 0.00 0.00 2.83
2588 2717 4.751060 CCGACCAATTAGCACTAGTAACA 58.249 43.478 0.00 0.00 0.00 2.41
2641 2772 1.036707 GGCCACTTTTGGTTGCAGTA 58.963 50.000 0.00 0.00 45.98 2.74
2649 2780 4.705023 ACTTTTGGTTGCAGTAGACAGTTT 59.295 37.500 0.00 0.00 0.00 2.66
2650 2781 5.883673 ACTTTTGGTTGCAGTAGACAGTTTA 59.116 36.000 0.00 0.00 0.00 2.01
2651 2782 6.038271 ACTTTTGGTTGCAGTAGACAGTTTAG 59.962 38.462 0.00 0.00 0.00 1.85
2652 2783 4.682778 TGGTTGCAGTAGACAGTTTAGT 57.317 40.909 0.00 0.00 0.00 2.24
2653 2784 5.794726 TGGTTGCAGTAGACAGTTTAGTA 57.205 39.130 0.00 0.00 0.00 1.82
2654 2785 5.779922 TGGTTGCAGTAGACAGTTTAGTAG 58.220 41.667 0.00 0.00 0.00 2.57
2655 2786 5.303589 TGGTTGCAGTAGACAGTTTAGTAGT 59.696 40.000 0.00 0.00 0.00 2.73
2656 2787 6.183360 TGGTTGCAGTAGACAGTTTAGTAGTT 60.183 38.462 0.00 0.00 0.00 2.24
2657 2788 6.704937 GGTTGCAGTAGACAGTTTAGTAGTTT 59.295 38.462 0.00 0.00 0.00 2.66
2676 2807 4.536489 AGTTTACCCATATAGGCCATCCTC 59.464 45.833 5.01 0.00 43.06 3.71
2677 2808 4.435977 TTACCCATATAGGCCATCCTCT 57.564 45.455 5.01 0.00 43.06 3.69
2684 2815 6.126156 CCCATATAGGCCATCCTCTACTACTA 60.126 46.154 5.01 0.00 43.06 1.82
2685 2816 7.001674 CCATATAGGCCATCCTCTACTACTAG 58.998 46.154 5.01 0.00 43.06 2.57
2689 2820 4.011698 GGCCATCCTCTACTACTAGCTAC 58.988 52.174 0.00 0.00 0.00 3.58
2690 2821 4.506979 GGCCATCCTCTACTACTAGCTACA 60.507 50.000 0.00 0.00 0.00 2.74
2691 2822 4.456566 GCCATCCTCTACTACTAGCTACAC 59.543 50.000 0.00 0.00 0.00 2.90
2692 2823 5.746656 GCCATCCTCTACTACTAGCTACACT 60.747 48.000 0.00 0.00 0.00 3.55
2693 2824 6.520401 GCCATCCTCTACTACTAGCTACACTA 60.520 46.154 0.00 0.00 0.00 2.74
2734 2866 6.629515 TGTACTACACATGCAGGATTTACCTC 60.630 42.308 4.84 0.00 38.56 3.85
2775 2911 1.001293 GCATATGCATCACGAGGGAGA 59.999 52.381 22.84 0.00 41.59 3.71
2788 2924 0.404812 AGGGAGAGAGTACGTGTGGT 59.595 55.000 0.00 0.00 0.00 4.16
2789 2925 0.526662 GGGAGAGAGTACGTGTGGTG 59.473 60.000 0.00 0.00 0.00 4.17
2859 2997 1.109323 AAGAGTGCACCACCAAAGCC 61.109 55.000 14.63 0.00 34.49 4.35
2960 3100 2.283604 TGCCGCCCTCTGTGTCTA 60.284 61.111 0.00 0.00 0.00 2.59
3003 3143 0.319900 GCCGTGCGATATCCACTGAT 60.320 55.000 17.05 0.00 34.87 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 1.272769 GTACTAGGGGCGCCATTCTAG 59.727 57.143 31.40 31.40 36.29 2.43
177 187 5.045215 CGTAGCTACCCGATCAAAACATTA 58.955 41.667 18.16 0.00 0.00 1.90
222 238 1.290203 CACACACGCATGATAGGACC 58.710 55.000 0.00 0.00 0.00 4.46
240 256 0.101579 ATCGTCGACACACACACACA 59.898 50.000 17.16 0.00 0.00 3.72
241 257 0.502695 CATCGTCGACACACACACAC 59.497 55.000 17.16 0.00 0.00 3.82
242 258 0.596341 CCATCGTCGACACACACACA 60.596 55.000 17.16 0.00 0.00 3.72
243 259 0.596600 ACCATCGTCGACACACACAC 60.597 55.000 17.16 0.00 0.00 3.82
356 393 2.584970 TAGATTGCGCTTCGGCCG 60.585 61.111 22.12 22.12 37.76 6.13
357 394 0.810031 TTCTAGATTGCGCTTCGGCC 60.810 55.000 9.73 0.00 37.76 6.13
358 395 0.301987 GTTCTAGATTGCGCTTCGGC 59.698 55.000 9.73 0.00 37.65 5.54
359 396 1.855360 GAGTTCTAGATTGCGCTTCGG 59.145 52.381 9.73 4.97 0.00 4.30
360 397 2.530177 TGAGTTCTAGATTGCGCTTCG 58.470 47.619 9.73 0.00 0.00 3.79
361 398 4.251960 GTTGAGTTCTAGATTGCGCTTC 57.748 45.455 9.73 5.82 0.00 3.86
716 753 4.163458 AGAGATAGAGAGAGAAGGTCGTGT 59.837 45.833 0.00 0.00 0.00 4.49
717 754 4.703897 AGAGATAGAGAGAGAAGGTCGTG 58.296 47.826 0.00 0.00 0.00 4.35
718 755 5.130477 AGAAGAGATAGAGAGAGAAGGTCGT 59.870 44.000 0.00 0.00 0.00 4.34
719 756 5.611374 AGAAGAGATAGAGAGAGAAGGTCG 58.389 45.833 0.00 0.00 0.00 4.79
720 757 6.651225 GCTAGAAGAGATAGAGAGAGAAGGTC 59.349 46.154 0.00 0.00 0.00 3.85
776 813 5.708948 CACTTTAGAGAGAGAAGGACTGTG 58.291 45.833 0.00 0.00 0.00 3.66
802 839 8.545472 TCTCCTAACATTATTTTATATCCCCCG 58.455 37.037 0.00 0.00 0.00 5.73
815 852 4.423960 TCCTCCCTCCTCTCCTAACATTAT 59.576 45.833 0.00 0.00 0.00 1.28
816 853 3.797845 TCCTCCCTCCTCTCCTAACATTA 59.202 47.826 0.00 0.00 0.00 1.90
818 855 2.178984 CTCCTCCCTCCTCTCCTAACAT 59.821 54.545 0.00 0.00 0.00 2.71
819 856 1.571457 CTCCTCCCTCCTCTCCTAACA 59.429 57.143 0.00 0.00 0.00 2.41
820 857 1.133294 CCTCCTCCCTCCTCTCCTAAC 60.133 61.905 0.00 0.00 0.00 2.34
840 878 1.365633 CGCATCTACAGGGGCTCTC 59.634 63.158 0.00 0.00 0.00 3.20
841 879 1.381872 ACGCATCTACAGGGGCTCT 60.382 57.895 0.00 0.00 0.00 4.09
842 880 1.227380 CACGCATCTACAGGGGCTC 60.227 63.158 0.00 0.00 0.00 4.70
843 881 1.990060 ACACGCATCTACAGGGGCT 60.990 57.895 0.00 0.00 0.00 5.19
844 882 1.815421 CACACGCATCTACAGGGGC 60.815 63.158 0.00 0.00 0.00 5.80
860 898 8.445275 TGTATGATTTGAATACATACACCCAC 57.555 34.615 15.57 0.23 45.89 4.61
1016 1064 7.233553 AGAGAGAAGAGAAGAGATAGAGATCGA 59.766 40.741 0.00 0.00 37.15 3.59
1018 1066 9.213799 GAAGAGAGAAGAGAAGAGATAGAGATC 57.786 40.741 0.00 0.00 0.00 2.75
1024 1072 6.126883 ACGGAGAAGAGAGAAGAGAAGAGATA 60.127 42.308 0.00 0.00 0.00 1.98
1030 1078 3.244946 TGGACGGAGAAGAGAGAAGAGAA 60.245 47.826 0.00 0.00 0.00 2.87
1040 1088 1.410365 GGAGGAGATGGACGGAGAAGA 60.410 57.143 0.00 0.00 0.00 2.87
1052 1100 0.685785 TTGCGCAGAGAGGAGGAGAT 60.686 55.000 11.31 0.00 0.00 2.75
1083 1131 0.661552 TCATGCTCGCTCGTACTACC 59.338 55.000 0.00 0.00 0.00 3.18
1084 1132 1.063616 TGTCATGCTCGCTCGTACTAC 59.936 52.381 0.00 0.00 0.00 2.73
1095 1143 1.751927 CCTGGGGCTTGTCATGCTC 60.752 63.158 10.26 6.36 0.00 4.26
1096 1144 2.357836 CCTGGGGCTTGTCATGCT 59.642 61.111 10.26 0.00 0.00 3.79
1097 1145 3.455469 GCCTGGGGCTTGTCATGC 61.455 66.667 2.09 2.09 46.69 4.06
1146 1194 0.836400 TGGTGTGGTTCTCCTCCTCC 60.836 60.000 0.00 0.00 34.23 4.30
1147 1195 0.321996 GTGGTGTGGTTCTCCTCCTC 59.678 60.000 0.00 0.00 34.23 3.71
1148 1196 1.128188 GGTGGTGTGGTTCTCCTCCT 61.128 60.000 0.00 0.00 39.12 3.69
1287 1335 2.754658 CACTCGTACCGCCTCCCT 60.755 66.667 0.00 0.00 0.00 4.20
1291 1339 3.760035 CTGGCACTCGTACCGCCT 61.760 66.667 10.53 0.00 46.39 5.52
1294 1342 0.179171 CAGTACTGGCACTCGTACCG 60.179 60.000 15.49 0.00 37.33 4.02
1857 1905 0.882042 ACAAACTGAGCTGCAGGTCG 60.882 55.000 33.73 29.19 46.02 4.79
1872 1920 1.364901 GGACCGGAGTCGTCACAAA 59.635 57.895 9.46 0.00 44.54 2.83
1992 2056 8.469309 TTTAATTACCTAGTAGTGCTACCGAT 57.531 34.615 5.80 0.00 36.75 4.18
2158 2228 7.976414 TGAATGGATTTGACCAGGAATTTAT 57.024 32.000 0.00 0.00 43.49 1.40
2166 2236 4.280174 GGATGGATGAATGGATTTGACCAG 59.720 45.833 0.00 0.00 43.49 4.00
2183 2253 1.402896 GGCGGAGACAGATGGATGGA 61.403 60.000 0.00 0.00 31.66 3.41
2238 2315 2.443387 CAATTGCGATCAACACATCGG 58.557 47.619 5.10 0.00 44.89 4.18
2248 2331 1.647346 TGGACGTACCAATTGCGATC 58.353 50.000 10.34 5.05 46.75 3.69
2312 2436 7.605691 TGTGAACATCCTTGAATTTTTGTTTGT 59.394 29.630 0.00 0.00 0.00 2.83
2317 2441 6.203145 TGCATGTGAACATCCTTGAATTTTTG 59.797 34.615 0.00 0.00 33.61 2.44
2323 2447 4.080687 TCATGCATGTGAACATCCTTGAA 58.919 39.130 25.43 0.00 33.61 2.69
2453 2577 0.313043 GGCATGATGGAAATGGAGCG 59.687 55.000 0.00 0.00 0.00 5.03
2455 2579 1.684983 GGTGGCATGATGGAAATGGAG 59.315 52.381 0.00 0.00 0.00 3.86
2535 2660 3.302365 AGTGCCATGCATGTTTGTAAC 57.698 42.857 24.58 12.72 41.91 2.50
2538 2663 2.517959 AGTAGTGCCATGCATGTTTGT 58.482 42.857 24.58 9.62 41.91 2.83
2541 2666 2.026356 TGGTAGTAGTGCCATGCATGTT 60.026 45.455 24.58 10.14 41.91 2.71
2542 2667 1.559219 TGGTAGTAGTGCCATGCATGT 59.441 47.619 24.58 9.25 41.91 3.21
2581 2710 9.529823 TTCTAGAGGAAGTGAGATTTGTTACTA 57.470 33.333 0.00 0.00 0.00 1.82
2588 2717 8.268605 GGGTTAATTCTAGAGGAAGTGAGATTT 58.731 37.037 0.00 0.00 37.36 2.17
2649 2780 6.670902 GGATGGCCTATATGGGTAAACTACTA 59.329 42.308 3.32 0.00 36.00 1.82
2650 2781 5.487845 GGATGGCCTATATGGGTAAACTACT 59.512 44.000 3.32 0.00 36.00 2.57
2651 2782 5.487845 AGGATGGCCTATATGGGTAAACTAC 59.512 44.000 3.32 0.00 44.74 2.73
2652 2783 5.671941 AGGATGGCCTATATGGGTAAACTA 58.328 41.667 3.32 0.00 44.74 2.24
2653 2784 4.513292 AGGATGGCCTATATGGGTAAACT 58.487 43.478 3.32 0.00 44.74 2.66
2654 2785 4.929146 AGGATGGCCTATATGGGTAAAC 57.071 45.455 3.32 0.00 44.74 2.01
2689 2820 1.298602 TGTGTGTGTGCTTGCTAGTG 58.701 50.000 0.00 0.00 0.00 2.74
2690 2821 1.875514 CATGTGTGTGTGCTTGCTAGT 59.124 47.619 0.00 0.00 0.00 2.57
2691 2822 1.875514 ACATGTGTGTGTGCTTGCTAG 59.124 47.619 0.00 0.00 37.14 3.42
2692 2823 1.965935 ACATGTGTGTGTGCTTGCTA 58.034 45.000 0.00 0.00 37.14 3.49
2693 2824 1.603802 GTACATGTGTGTGTGCTTGCT 59.396 47.619 9.11 0.00 39.39 3.91
2694 2825 1.603802 AGTACATGTGTGTGTGCTTGC 59.396 47.619 9.11 0.00 41.37 4.01
2695 2826 3.807071 TGTAGTACATGTGTGTGTGCTTG 59.193 43.478 9.11 0.00 41.37 4.01
2696 2827 3.807622 GTGTAGTACATGTGTGTGTGCTT 59.192 43.478 9.11 0.00 41.37 3.91
2697 2828 3.181470 TGTGTAGTACATGTGTGTGTGCT 60.181 43.478 9.11 3.34 45.18 4.40
2698 2829 3.127589 TGTGTAGTACATGTGTGTGTGC 58.872 45.455 9.11 0.00 39.39 4.57
2734 2866 3.544651 CATGCGCGTCTGTAAAATATGG 58.455 45.455 8.43 0.00 0.00 2.74
2771 2903 0.526662 CCACCACACGTACTCTCTCC 59.473 60.000 0.00 0.00 0.00 3.71
2775 2911 2.580601 GCCCCACCACACGTACTCT 61.581 63.158 0.00 0.00 0.00 3.24
2879 3017 2.158325 AGGTTTGTTCCATCACACCCAT 60.158 45.455 0.00 0.00 38.49 4.00
2882 3020 2.693074 ACAAGGTTTGTTCCATCACACC 59.307 45.455 0.00 0.00 42.22 4.16
2957 3097 1.390565 GCCTGGAGCGAAGTACTAGA 58.609 55.000 0.00 0.00 0.00 2.43
2960 3100 1.192146 TTGGCCTGGAGCGAAGTACT 61.192 55.000 3.32 0.00 45.17 2.73


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

AutoCloner maintained by Alex Coulton.