Multiple sequence alignment - TraesCS2D01G372200

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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 TraesCS2D01G372200 chr2D 100.000 2618 0 0 1 2618 476347056 476344439 0.000000e+00 4835
1 TraesCS2D01G372200 chr2A 89.038 2600 109 63 1 2512 618268532 618266021 0.000000e+00 3061
2 TraesCS2D01G372200 chr2B 90.689 1858 62 34 750 2536 557228090 557226273 0.000000e+00 2370
3 TraesCS2D01G372200 chr2B 91.009 823 35 11 1 798 557228898 557228090 0.000000e+00 1074
4 TraesCS2D01G372200 chr3A 88.261 230 20 5 1233 1462 59431059 59431281 4.290000e-68 268
5 TraesCS2D01G372200 chr6A 88.293 205 24 0 1176 1380 614381577 614381781 2.010000e-61 246
6 TraesCS2D01G372200 chr6D 86.574 216 26 3 1168 1380 469205347 469205562 4.360000e-58 235
7 TraesCS2D01G372200 chr3D 85.345 232 27 5 1233 1463 47344783 47345008 1.570000e-57 233


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 TraesCS2D01G372200 chr2D 476344439 476347056 2617 True 4835 4835 100.000 1 2618 1 chr2D.!!$R1 2617
1 TraesCS2D01G372200 chr2A 618266021 618268532 2511 True 3061 3061 89.038 1 2512 1 chr2A.!!$R1 2511
2 TraesCS2D01G372200 chr2B 557226273 557228898 2625 True 1722 2370 90.849 1 2536 2 chr2B.!!$R1 2535

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
948 1080 0.028747 TCCATCCATCCCCATCACCT 60.029 55.0 0.0 0.0 0.0 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2115 2328 0.171903 GCAGATGCCAATCACACACC 59.828 55.0 0.0 0.0 35.03 4.16 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
131 145 0.041312 CTTTCTTTGCACACGGACGG 60.041 55.000 0.00 0.00 0.00 4.79
161 175 3.689347 AGCTAGGCATGACAAATGACAA 58.311 40.909 0.00 0.00 0.00 3.18
164 194 4.802039 GCTAGGCATGACAAATGACAATTG 59.198 41.667 0.00 3.24 0.00 2.32
206 236 0.248580 GGAATGCAATGCGAATGCGA 60.249 50.000 0.00 0.00 46.76 5.10
207 237 1.547909 GAATGCAATGCGAATGCGAA 58.452 45.000 0.00 0.00 46.76 4.70
208 238 2.121786 GAATGCAATGCGAATGCGAAT 58.878 42.857 0.00 0.00 46.76 3.34
209 239 1.483316 ATGCAATGCGAATGCGAATG 58.517 45.000 0.00 0.00 46.76 2.67
210 240 1.140999 TGCAATGCGAATGCGAATGC 61.141 50.000 0.00 4.09 46.76 3.56
220 250 2.484662 GCGAATGCGGCATGACAA 59.515 55.556 17.43 0.00 38.16 3.18
221 251 1.064621 GCGAATGCGGCATGACAAT 59.935 52.632 17.43 0.00 38.16 2.71
222 252 0.526096 GCGAATGCGGCATGACAATT 60.526 50.000 17.43 0.00 38.16 2.32
223 253 1.912001 CGAATGCGGCATGACAATTT 58.088 45.000 17.43 0.00 0.00 1.82
224 254 2.261345 CGAATGCGGCATGACAATTTT 58.739 42.857 17.43 0.00 0.00 1.82
225 255 2.667481 CGAATGCGGCATGACAATTTTT 59.333 40.909 17.43 0.00 0.00 1.94
263 294 6.374565 AAGTTCTTCTATGCAGATCAATGC 57.625 37.500 0.00 0.00 46.68 3.56
305 346 2.891580 GGTGAGATAATAGAGCCGTCCA 59.108 50.000 0.00 0.00 0.00 4.02
307 348 4.705507 GGTGAGATAATAGAGCCGTCCATA 59.294 45.833 0.00 0.00 0.00 2.74
308 349 5.163602 GGTGAGATAATAGAGCCGTCCATAG 60.164 48.000 0.00 0.00 0.00 2.23
314 355 0.847373 AGAGCCGTCCATAGAGAGGA 59.153 55.000 0.00 0.00 0.00 3.71
372 427 1.527034 CAATGCCTACAGTGCACAGT 58.473 50.000 21.04 20.13 42.38 3.55
461 516 2.064762 CACTTCAGACTTCTTGAGCCG 58.935 52.381 0.00 0.00 0.00 5.52
637 702 8.554835 TGGACTCATAATTTTCGTCACAATTA 57.445 30.769 0.00 0.00 31.11 1.40
703 773 4.391830 ACTTCATACGTGCATTTTCGACAT 59.608 37.500 0.00 0.00 0.00 3.06
710 786 3.674423 GTGCATTTTCGACATAGTCAGC 58.326 45.455 0.00 0.00 32.09 4.26
737 813 1.067565 TCCTCATGCAGAGTCGAACAC 60.068 52.381 10.86 0.00 43.12 3.32
823 953 5.183522 TGTGGTACATACTTGTGACGTATCA 59.816 40.000 0.00 0.00 44.52 2.15
824 954 5.742453 GTGGTACATACTTGTGACGTATCAG 59.258 44.000 0.00 0.00 44.52 2.90
825 955 5.648960 TGGTACATACTTGTGACGTATCAGA 59.351 40.000 0.00 0.00 36.53 3.27
826 956 6.183360 TGGTACATACTTGTGACGTATCAGAG 60.183 42.308 0.00 0.00 36.53 3.35
827 957 4.673441 ACATACTTGTGACGTATCAGAGC 58.327 43.478 0.00 0.00 34.75 4.09
828 958 2.656560 ACTTGTGACGTATCAGAGCC 57.343 50.000 0.00 0.00 34.75 4.70
940 1072 0.551131 AGGCCCTATCCATCCATCCC 60.551 60.000 0.00 0.00 0.00 3.85
941 1073 1.575447 GGCCCTATCCATCCATCCCC 61.575 65.000 0.00 0.00 0.00 4.81
942 1074 0.846427 GCCCTATCCATCCATCCCCA 60.846 60.000 0.00 0.00 0.00 4.96
943 1075 1.991465 CCCTATCCATCCATCCCCAT 58.009 55.000 0.00 0.00 0.00 4.00
945 1077 2.565631 CCTATCCATCCATCCCCATCA 58.434 52.381 0.00 0.00 0.00 3.07
946 1078 2.240667 CCTATCCATCCATCCCCATCAC 59.759 54.545 0.00 0.00 0.00 3.06
947 1079 1.078955 ATCCATCCATCCCCATCACC 58.921 55.000 0.00 0.00 0.00 4.02
948 1080 0.028747 TCCATCCATCCCCATCACCT 60.029 55.000 0.00 0.00 0.00 4.00
949 1081 0.403271 CCATCCATCCCCATCACCTC 59.597 60.000 0.00 0.00 0.00 3.85
950 1082 0.403271 CATCCATCCCCATCACCTCC 59.597 60.000 0.00 0.00 0.00 4.30
953 1092 1.697394 CATCCCCATCACCTCCCCA 60.697 63.158 0.00 0.00 0.00 4.96
1197 1340 2.345991 GACCGGCACAGCAAGGTA 59.654 61.111 0.00 0.00 40.13 3.08
1380 1523 1.431440 CGTCTTCTCCTGCTCCTCG 59.569 63.158 0.00 0.00 0.00 4.63
1743 1912 3.297620 GTGGTGTGGCTTGCCCTG 61.298 66.667 9.35 0.00 0.00 4.45
1753 1930 1.787847 CTTGCCCTGCGTACTTTCG 59.212 57.895 0.00 0.00 0.00 3.46
1767 1944 4.779523 CGTACTTTCGCATTTTCTTTACCG 59.220 41.667 0.00 0.00 0.00 4.02
1768 1945 3.561503 ACTTTCGCATTTTCTTTACCGC 58.438 40.909 0.00 0.00 0.00 5.68
1788 1965 0.883833 CCTTTCTCCTTTGCGTGCAT 59.116 50.000 0.00 0.00 0.00 3.96
1897 2077 5.144100 ACTGTAGATACAAGCCTGCTAGAT 58.856 41.667 0.00 0.00 35.50 1.98
1898 2078 5.242838 ACTGTAGATACAAGCCTGCTAGATC 59.757 44.000 0.00 0.00 35.50 2.75
1900 2080 5.835819 TGTAGATACAAGCCTGCTAGATCTT 59.164 40.000 0.00 0.00 32.40 2.40
1901 2081 7.004691 TGTAGATACAAGCCTGCTAGATCTTA 58.995 38.462 0.00 0.00 32.40 2.10
1902 2082 6.339587 AGATACAAGCCTGCTAGATCTTAC 57.660 41.667 0.00 0.00 0.00 2.34
1903 2083 3.828875 ACAAGCCTGCTAGATCTTACC 57.171 47.619 0.00 0.00 0.00 2.85
1909 2089 3.034635 CCTGCTAGATCTTACCACCACT 58.965 50.000 0.00 0.00 0.00 4.00
1953 2136 4.760878 TGTGCTTGTCACTAGTTGTTACA 58.239 39.130 0.00 0.00 45.81 2.41
2076 2274 4.406972 TCAATGGAAGTCCCTCTATCTGTG 59.593 45.833 0.00 0.00 35.38 3.66
2111 2324 0.896940 ATGCAAAGGCTCTGGTGTGG 60.897 55.000 0.00 0.00 41.91 4.17
2112 2325 1.529244 GCAAAGGCTCTGGTGTGGT 60.529 57.895 0.00 0.00 36.96 4.16
2113 2326 1.799258 GCAAAGGCTCTGGTGTGGTG 61.799 60.000 0.00 0.00 36.96 4.17
2114 2327 0.466189 CAAAGGCTCTGGTGTGGTGT 60.466 55.000 0.00 0.00 0.00 4.16
2115 2328 0.466189 AAAGGCTCTGGTGTGGTGTG 60.466 55.000 0.00 0.00 0.00 3.82
2116 2329 2.281761 GGCTCTGGTGTGGTGTGG 60.282 66.667 0.00 0.00 0.00 4.17
2117 2330 2.510906 GCTCTGGTGTGGTGTGGT 59.489 61.111 0.00 0.00 0.00 4.16
2118 2331 1.893808 GCTCTGGTGTGGTGTGGTG 60.894 63.158 0.00 0.00 0.00 4.17
2119 2332 1.526887 CTCTGGTGTGGTGTGGTGT 59.473 57.895 0.00 0.00 0.00 4.16
2120 2333 0.815213 CTCTGGTGTGGTGTGGTGTG 60.815 60.000 0.00 0.00 0.00 3.82
2121 2334 1.077787 CTGGTGTGGTGTGGTGTGT 60.078 57.895 0.00 0.00 0.00 3.72
2122 2335 1.375853 CTGGTGTGGTGTGGTGTGTG 61.376 60.000 0.00 0.00 0.00 3.82
2141 2354 0.663153 GATTGGCATCTGCGGTAACC 59.337 55.000 0.00 0.00 43.26 2.85
2181 2394 1.887344 AATGACCCATTTGGCGCACC 61.887 55.000 10.83 0.00 37.83 5.01
2182 2395 2.676471 GACCCATTTGGCGCACCT 60.676 61.111 10.83 0.00 37.83 4.00
2524 2767 4.564041 CTCGCAGATATTAAGTGCTCCAT 58.436 43.478 0.00 0.00 34.92 3.41
2537 2780 9.995003 ATTAAGTGCTCCATGTAAATTTCAAAA 57.005 25.926 0.00 0.00 0.00 2.44
2538 2781 9.823647 TTAAGTGCTCCATGTAAATTTCAAAAA 57.176 25.926 0.00 0.00 0.00 1.94
2559 2802 6.809630 AAAAGAAGAGAGAAAAATAGCGCT 57.190 33.333 17.26 17.26 0.00 5.92
2560 2803 6.415798 AAAGAAGAGAGAAAAATAGCGCTC 57.584 37.500 16.34 0.00 0.00 5.03
2561 2804 4.438148 AGAAGAGAGAAAAATAGCGCTCC 58.562 43.478 16.34 0.00 32.31 4.70
2562 2805 3.895232 AGAGAGAAAAATAGCGCTCCA 57.105 42.857 16.34 0.00 32.31 3.86
2563 2806 3.526534 AGAGAGAAAAATAGCGCTCCAC 58.473 45.455 16.34 0.59 32.31 4.02
2565 2808 2.000447 GAGAAAAATAGCGCTCCACGT 59.000 47.619 16.34 0.00 46.11 4.49
2566 2809 2.415512 GAGAAAAATAGCGCTCCACGTT 59.584 45.455 16.34 2.59 46.11 3.99
2567 2810 3.592059 AGAAAAATAGCGCTCCACGTTA 58.408 40.909 16.34 0.00 46.11 3.18
2568 2811 3.370061 AGAAAAATAGCGCTCCACGTTAC 59.630 43.478 16.34 0.00 46.11 2.50
2569 2812 2.373540 AAATAGCGCTCCACGTTACA 57.626 45.000 16.34 0.00 46.11 2.41
2570 2813 1.922570 AATAGCGCTCCACGTTACAG 58.077 50.000 16.34 0.00 46.11 2.74
2571 2814 1.100510 ATAGCGCTCCACGTTACAGA 58.899 50.000 16.34 0.00 46.11 3.41
2572 2815 0.883153 TAGCGCTCCACGTTACAGAA 59.117 50.000 16.34 0.00 46.11 3.02
2573 2816 0.246635 AGCGCTCCACGTTACAGAAT 59.753 50.000 2.64 0.00 46.11 2.40
2574 2817 1.475280 AGCGCTCCACGTTACAGAATA 59.525 47.619 2.64 0.00 46.11 1.75
2575 2818 1.587034 GCGCTCCACGTTACAGAATAC 59.413 52.381 0.00 0.00 46.11 1.89
2576 2819 2.871133 CGCTCCACGTTACAGAATACA 58.129 47.619 0.00 0.00 36.87 2.29
2577 2820 2.852413 CGCTCCACGTTACAGAATACAG 59.148 50.000 0.00 0.00 36.87 2.74
2578 2821 3.672511 CGCTCCACGTTACAGAATACAGT 60.673 47.826 0.00 0.00 36.87 3.55
2579 2822 4.243270 GCTCCACGTTACAGAATACAGTT 58.757 43.478 0.00 0.00 0.00 3.16
2580 2823 5.404946 GCTCCACGTTACAGAATACAGTTA 58.595 41.667 0.00 0.00 0.00 2.24
2581 2824 5.515626 GCTCCACGTTACAGAATACAGTTAG 59.484 44.000 0.00 0.00 0.00 2.34
2582 2825 6.579666 TCCACGTTACAGAATACAGTTAGT 57.420 37.500 0.00 0.00 0.00 2.24
2583 2826 6.384224 TCCACGTTACAGAATACAGTTAGTG 58.616 40.000 0.00 0.00 0.00 2.74
2584 2827 6.016024 TCCACGTTACAGAATACAGTTAGTGT 60.016 38.462 0.00 0.00 43.86 3.55
2585 2828 7.174772 TCCACGTTACAGAATACAGTTAGTGTA 59.825 37.037 2.12 2.12 45.93 2.90
2596 2839 4.433615 ACAGTTAGTGTATCCAGCATTCG 58.566 43.478 0.00 0.00 37.75 3.34
2597 2840 4.159693 ACAGTTAGTGTATCCAGCATTCGA 59.840 41.667 0.00 0.00 37.75 3.71
2598 2841 4.504461 CAGTTAGTGTATCCAGCATTCGAC 59.496 45.833 0.00 0.00 0.00 4.20
2599 2842 2.209838 AGTGTATCCAGCATTCGACG 57.790 50.000 0.00 0.00 0.00 5.12
2600 2843 0.577269 GTGTATCCAGCATTCGACGC 59.423 55.000 0.00 0.00 0.00 5.19
2601 2844 0.869880 TGTATCCAGCATTCGACGCG 60.870 55.000 3.53 3.53 0.00 6.01
2602 2845 1.299850 TATCCAGCATTCGACGCGG 60.300 57.895 12.47 9.28 0.00 6.46
2603 2846 1.730451 TATCCAGCATTCGACGCGGA 61.730 55.000 12.47 16.34 36.81 5.54
2604 2847 2.960957 ATCCAGCATTCGACGCGGAG 62.961 60.000 12.47 3.43 36.19 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
123 137 1.497278 CTCATGCAAACCGTCCGTG 59.503 57.895 0.00 0.00 0.00 4.94
131 145 2.019249 TCATGCCTAGCTCATGCAAAC 58.981 47.619 14.70 0.00 40.69 2.93
224 254 8.047413 AGAAGAACTTTCGAGGTTTACAAAAA 57.953 30.769 7.17 0.00 0.00 1.94
225 255 7.619964 AGAAGAACTTTCGAGGTTTACAAAA 57.380 32.000 7.17 0.00 0.00 2.44
263 294 1.002430 TCACCTTGCTCAAGCCTGTAG 59.998 52.381 4.17 0.00 41.18 2.74
305 346 2.304761 CCGGTAGCTCTCTCCTCTCTAT 59.695 54.545 0.00 0.00 0.00 1.98
307 348 0.472471 CCGGTAGCTCTCTCCTCTCT 59.528 60.000 0.00 0.00 0.00 3.10
308 349 0.470766 TCCGGTAGCTCTCTCCTCTC 59.529 60.000 0.00 0.00 0.00 3.20
314 355 0.252479 TCTTCGTCCGGTAGCTCTCT 59.748 55.000 0.00 0.00 0.00 3.10
372 427 3.896356 GAGCACTGCAGCAGGAGCA 62.896 63.158 31.54 7.79 45.49 4.26
461 516 1.740025 GAATGTAGCACTTGGGCACTC 59.260 52.381 0.00 0.00 35.83 3.51
703 773 4.119862 GCATGAGGAAAATACGCTGACTA 58.880 43.478 0.00 0.00 0.00 2.59
710 786 3.243877 CGACTCTGCATGAGGAAAATACG 59.756 47.826 14.88 0.00 46.72 3.06
737 813 3.063861 TGCACATATGAAGCTGCTTTACG 59.936 43.478 17.10 7.35 0.00 3.18
827 957 6.601332 TGTATATTCTTTTTAGGCCCTCTGG 58.399 40.000 0.00 0.00 0.00 3.86
828 958 8.519799 TTTGTATATTCTTTTTAGGCCCTCTG 57.480 34.615 0.00 0.00 0.00 3.35
903 1035 3.190738 TTGTCCGCTTGGTCCCTGG 62.191 63.158 0.00 0.00 0.00 4.45
940 1072 1.002134 GTGTGTGGGGAGGTGATGG 60.002 63.158 0.00 0.00 0.00 3.51
941 1073 0.329261 ATGTGTGTGGGGAGGTGATG 59.671 55.000 0.00 0.00 0.00 3.07
942 1074 0.620556 GATGTGTGTGGGGAGGTGAT 59.379 55.000 0.00 0.00 0.00 3.06
943 1075 0.473694 AGATGTGTGTGGGGAGGTGA 60.474 55.000 0.00 0.00 0.00 4.02
945 1077 0.768221 ACAGATGTGTGTGGGGAGGT 60.768 55.000 0.00 0.00 34.75 3.85
946 1078 2.069776 ACAGATGTGTGTGGGGAGG 58.930 57.895 0.00 0.00 34.75 4.30
978 1117 1.863662 CTGCTGGTGGCTGAGCTTTG 61.864 60.000 3.72 0.00 41.52 2.77
1627 1770 1.939785 GATCACGTAGACAGGCGCG 60.940 63.158 0.00 0.00 0.00 6.86
1628 1771 1.939785 CGATCACGTAGACAGGCGC 60.940 63.158 0.00 0.00 34.56 6.53
1663 1828 1.718757 GAATTAGGCAGCAGGGCACG 61.719 60.000 0.00 0.00 46.44 5.34
1753 1930 3.056821 AGAAAGGGCGGTAAAGAAAATGC 60.057 43.478 0.00 0.00 0.00 3.56
1754 1931 4.380550 GGAGAAAGGGCGGTAAAGAAAATG 60.381 45.833 0.00 0.00 0.00 2.32
1755 1932 3.762288 GGAGAAAGGGCGGTAAAGAAAAT 59.238 43.478 0.00 0.00 0.00 1.82
1757 1934 2.374170 AGGAGAAAGGGCGGTAAAGAAA 59.626 45.455 0.00 0.00 0.00 2.52
1758 1935 1.982958 AGGAGAAAGGGCGGTAAAGAA 59.017 47.619 0.00 0.00 0.00 2.52
1760 1937 2.488153 CAAAGGAGAAAGGGCGGTAAAG 59.512 50.000 0.00 0.00 0.00 1.85
1761 1938 2.510613 CAAAGGAGAAAGGGCGGTAAA 58.489 47.619 0.00 0.00 0.00 2.01
1762 1939 1.884928 GCAAAGGAGAAAGGGCGGTAA 60.885 52.381 0.00 0.00 0.00 2.85
1763 1940 0.322187 GCAAAGGAGAAAGGGCGGTA 60.322 55.000 0.00 0.00 0.00 4.02
1764 1941 1.603739 GCAAAGGAGAAAGGGCGGT 60.604 57.895 0.00 0.00 0.00 5.68
1765 1942 2.690778 CGCAAAGGAGAAAGGGCGG 61.691 63.158 0.00 0.00 40.70 6.13
1766 1943 2.870372 CGCAAAGGAGAAAGGGCG 59.130 61.111 0.00 0.00 38.45 6.13
1767 1944 1.581447 CACGCAAAGGAGAAAGGGC 59.419 57.895 0.00 0.00 0.00 5.19
1768 1945 1.172180 TGCACGCAAAGGAGAAAGGG 61.172 55.000 0.00 0.00 0.00 3.95
1788 1965 2.510874 CACGCAAAAGAAAACACACGA 58.489 42.857 0.00 0.00 0.00 4.35
1897 2077 2.100197 CGAGATGGAGTGGTGGTAAGA 58.900 52.381 0.00 0.00 0.00 2.10
1898 2078 1.825474 ACGAGATGGAGTGGTGGTAAG 59.175 52.381 0.00 0.00 0.00 2.34
1900 2080 1.471119 GACGAGATGGAGTGGTGGTA 58.529 55.000 0.00 0.00 0.00 3.25
1901 2081 1.595993 CGACGAGATGGAGTGGTGGT 61.596 60.000 0.00 0.00 0.00 4.16
1902 2082 1.139734 CGACGAGATGGAGTGGTGG 59.860 63.158 0.00 0.00 0.00 4.61
1903 2083 1.139734 CCGACGAGATGGAGTGGTG 59.860 63.158 0.00 0.00 0.00 4.17
1909 2089 1.822371 TCACAAATCCGACGAGATGGA 59.178 47.619 0.00 0.00 38.95 3.41
2076 2274 1.006825 GCATCGGCAAAACGTTTCCC 61.007 55.000 15.01 15.98 40.72 3.97
2111 2324 0.961019 ATGCCAATCACACACCACAC 59.039 50.000 0.00 0.00 0.00 3.82
2112 2325 1.202915 AGATGCCAATCACACACCACA 60.203 47.619 0.00 0.00 35.03 4.17
2113 2326 1.200716 CAGATGCCAATCACACACCAC 59.799 52.381 0.00 0.00 35.03 4.16
2114 2327 1.536940 CAGATGCCAATCACACACCA 58.463 50.000 0.00 0.00 35.03 4.17
2115 2328 0.171903 GCAGATGCCAATCACACACC 59.828 55.000 0.00 0.00 35.03 4.16
2116 2329 0.179181 CGCAGATGCCAATCACACAC 60.179 55.000 0.00 0.00 37.91 3.82
2117 2330 1.307355 CCGCAGATGCCAATCACACA 61.307 55.000 0.00 0.00 37.91 3.72
2118 2331 1.308069 ACCGCAGATGCCAATCACAC 61.308 55.000 0.00 0.00 37.91 3.82
2119 2332 0.251634 TACCGCAGATGCCAATCACA 59.748 50.000 0.00 0.00 37.91 3.58
2120 2333 1.064060 GTTACCGCAGATGCCAATCAC 59.936 52.381 0.00 0.00 37.91 3.06
2121 2334 1.378531 GTTACCGCAGATGCCAATCA 58.621 50.000 0.00 0.00 37.91 2.57
2122 2335 0.663153 GGTTACCGCAGATGCCAATC 59.337 55.000 0.00 0.00 37.91 2.67
2141 2354 5.621197 TTTAGTTCCATCATTGTTGGACG 57.379 39.130 14.67 0.00 42.88 4.79
2145 2358 6.071447 TGGGTCATTTAGTTCCATCATTGTTG 60.071 38.462 0.00 0.00 0.00 3.33
2160 2373 1.203523 GTGCGCCAAATGGGTCATTTA 59.796 47.619 4.18 0.00 41.40 1.40
2162 2375 1.591183 GTGCGCCAAATGGGTCATT 59.409 52.632 4.18 0.00 39.65 2.57
2181 2394 3.494626 GCCATGTACGTAATGTGATGGAG 59.505 47.826 16.87 4.51 41.30 3.86
2182 2395 3.118592 TGCCATGTACGTAATGTGATGGA 60.119 43.478 16.87 3.91 41.30 3.41
2495 2738 1.713597 TAATATCTGCGAGCATGGCG 58.286 50.000 0.00 0.00 45.68 5.69
2536 2779 6.128145 GGAGCGCTATTTTTCTCTCTTCTTTT 60.128 38.462 11.50 0.00 0.00 2.27
2537 2780 5.352846 GGAGCGCTATTTTTCTCTCTTCTTT 59.647 40.000 11.50 0.00 0.00 2.52
2538 2781 4.873259 GGAGCGCTATTTTTCTCTCTTCTT 59.127 41.667 11.50 0.00 0.00 2.52
2539 2782 4.081420 TGGAGCGCTATTTTTCTCTCTTCT 60.081 41.667 11.50 0.00 0.00 2.85
2540 2783 4.033472 GTGGAGCGCTATTTTTCTCTCTTC 59.967 45.833 11.50 0.00 0.00 2.87
2541 2784 3.935828 GTGGAGCGCTATTTTTCTCTCTT 59.064 43.478 11.50 0.00 0.00 2.85
2542 2785 3.526534 GTGGAGCGCTATTTTTCTCTCT 58.473 45.455 11.50 0.00 0.00 3.10
2543 2786 2.282820 CGTGGAGCGCTATTTTTCTCTC 59.717 50.000 11.50 0.00 0.00 3.20
2544 2787 2.271800 CGTGGAGCGCTATTTTTCTCT 58.728 47.619 11.50 0.00 0.00 3.10
2545 2788 2.000447 ACGTGGAGCGCTATTTTTCTC 59.000 47.619 11.50 0.00 46.11 2.87
2546 2789 2.094762 ACGTGGAGCGCTATTTTTCT 57.905 45.000 11.50 0.00 46.11 2.52
2547 2790 2.894307 AACGTGGAGCGCTATTTTTC 57.106 45.000 11.50 0.00 46.11 2.29
2548 2791 3.068560 TGTAACGTGGAGCGCTATTTTT 58.931 40.909 11.50 2.69 46.11 1.94
2549 2792 2.671396 CTGTAACGTGGAGCGCTATTTT 59.329 45.455 11.50 1.89 46.11 1.82
2550 2793 2.094390 TCTGTAACGTGGAGCGCTATTT 60.094 45.455 11.50 1.48 46.11 1.40
2551 2794 1.475280 TCTGTAACGTGGAGCGCTATT 59.525 47.619 11.50 2.53 46.11 1.73
2552 2795 1.100510 TCTGTAACGTGGAGCGCTAT 58.899 50.000 11.50 0.00 46.11 2.97
2553 2796 0.883153 TTCTGTAACGTGGAGCGCTA 59.117 50.000 11.50 0.00 46.11 4.26
2554 2797 0.246635 ATTCTGTAACGTGGAGCGCT 59.753 50.000 11.27 11.27 46.11 5.92
2555 2798 1.587034 GTATTCTGTAACGTGGAGCGC 59.413 52.381 0.00 0.00 46.11 5.92
2557 2800 3.846360 ACTGTATTCTGTAACGTGGAGC 58.154 45.455 0.00 0.00 0.00 4.70
2558 2801 6.527023 CACTAACTGTATTCTGTAACGTGGAG 59.473 42.308 0.00 0.00 0.00 3.86
2559 2802 6.016024 ACACTAACTGTATTCTGTAACGTGGA 60.016 38.462 0.00 0.00 0.00 4.02
2560 2803 6.154445 ACACTAACTGTATTCTGTAACGTGG 58.846 40.000 0.00 0.00 0.00 4.94
2561 2804 8.906636 ATACACTAACTGTATTCTGTAACGTG 57.093 34.615 0.00 0.00 42.57 4.49
2562 2805 8.186821 GGATACACTAACTGTATTCTGTAACGT 58.813 37.037 0.00 0.00 44.78 3.99
2563 2806 8.186163 TGGATACACTAACTGTATTCTGTAACG 58.814 37.037 1.44 0.00 44.78 3.18
2564 2807 9.517609 CTGGATACACTAACTGTATTCTGTAAC 57.482 37.037 1.44 0.00 44.78 2.50
2565 2808 8.195436 GCTGGATACACTAACTGTATTCTGTAA 58.805 37.037 7.22 0.00 44.78 2.41
2566 2809 7.340999 TGCTGGATACACTAACTGTATTCTGTA 59.659 37.037 7.22 1.81 44.78 2.74
2567 2810 6.154534 TGCTGGATACACTAACTGTATTCTGT 59.845 38.462 7.22 0.00 44.78 3.41
2568 2811 6.573434 TGCTGGATACACTAACTGTATTCTG 58.427 40.000 1.44 2.11 44.78 3.02
2569 2812 6.791867 TGCTGGATACACTAACTGTATTCT 57.208 37.500 1.44 0.00 44.78 2.40
2570 2813 7.096023 CGAATGCTGGATACACTAACTGTATTC 60.096 40.741 0.00 0.00 44.78 1.75
2571 2814 6.701841 CGAATGCTGGATACACTAACTGTATT 59.298 38.462 0.00 0.00 44.78 1.89
2573 2816 5.358725 TCGAATGCTGGATACACTAACTGTA 59.641 40.000 0.00 0.00 46.17 2.74
2574 2817 4.159693 TCGAATGCTGGATACACTAACTGT 59.840 41.667 0.00 0.00 46.17 3.55
2575 2818 4.504461 GTCGAATGCTGGATACACTAACTG 59.496 45.833 0.00 0.00 46.17 3.16
2576 2819 4.683832 GTCGAATGCTGGATACACTAACT 58.316 43.478 0.00 0.00 46.17 2.24
2577 2820 3.486108 CGTCGAATGCTGGATACACTAAC 59.514 47.826 0.00 0.00 46.17 2.34
2578 2821 3.702330 CGTCGAATGCTGGATACACTAA 58.298 45.455 0.00 0.00 46.17 2.24
2579 2822 2.543031 GCGTCGAATGCTGGATACACTA 60.543 50.000 0.00 0.00 46.17 2.74
2580 2823 1.802880 GCGTCGAATGCTGGATACACT 60.803 52.381 0.00 0.00 46.17 3.55
2581 2824 0.577269 GCGTCGAATGCTGGATACAC 59.423 55.000 0.00 0.00 46.17 2.90
2583 2826 1.548973 CCGCGTCGAATGCTGGATAC 61.549 60.000 4.92 0.00 0.00 2.24
2584 2827 1.299850 CCGCGTCGAATGCTGGATA 60.300 57.895 4.92 0.00 0.00 2.59
2585 2828 2.586079 CCGCGTCGAATGCTGGAT 60.586 61.111 4.92 0.00 0.00 3.41
2586 2829 3.699955 CTCCGCGTCGAATGCTGGA 62.700 63.158 4.92 17.14 33.86 3.86
2587 2830 3.257561 CTCCGCGTCGAATGCTGG 61.258 66.667 4.92 10.94 0.00 4.85
2588 2831 3.918220 GCTCCGCGTCGAATGCTG 61.918 66.667 4.92 3.10 0.00 4.41
2589 2832 2.349969 TATGCTCCGCGTCGAATGCT 62.350 55.000 4.92 0.00 0.00 3.79
2590 2833 1.284982 ATATGCTCCGCGTCGAATGC 61.285 55.000 4.92 0.93 0.00 3.56
2591 2834 1.139989 AATATGCTCCGCGTCGAATG 58.860 50.000 4.92 0.00 0.00 2.67
2592 2835 1.865865 AAATATGCTCCGCGTCGAAT 58.134 45.000 4.92 0.00 0.00 3.34
2593 2836 1.647346 AAAATATGCTCCGCGTCGAA 58.353 45.000 4.92 0.00 0.00 3.71
2594 2837 1.326245 CAAAAATATGCTCCGCGTCGA 59.674 47.619 4.92 0.00 0.00 4.20
2595 2838 1.730176 CAAAAATATGCTCCGCGTCG 58.270 50.000 4.92 0.00 0.00 5.12
2596 2839 1.466855 GCAAAAATATGCTCCGCGTC 58.533 50.000 4.92 0.00 43.06 5.19
2597 2840 3.622459 GCAAAAATATGCTCCGCGT 57.378 47.368 4.92 0.00 43.06 6.01


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

AutoCloner maintained by Alex Coulton.