Multiple sequence alignment - TraesCS5B01G076400

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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 TraesCS5B01G076400 chr5B 100.000 3098 0 0 1 3098 91531580 91534677 0.000000e+00 5722.0
1 TraesCS5B01G076400 chr5D 90.788 2486 138 42 495 2953 84679562 84681983 0.000000e+00 3238.0
2 TraesCS5B01G076400 chr5D 93.346 511 25 8 1 503 459964285 459964794 0.000000e+00 747.0
3 TraesCS5B01G076400 chr5D 92.424 132 7 3 2967 3098 84683721 84683849 5.280000e-43 185.0
4 TraesCS5B01G076400 chr5A 93.023 1634 79 14 540 2141 79151968 79153598 0.000000e+00 2353.0
5 TraesCS5B01G076400 chr5A 88.437 787 38 23 2206 2955 79153613 79154383 0.000000e+00 900.0
6 TraesCS5B01G076400 chr5A 97.895 95 2 0 3004 3098 79154696 79154790 6.870000e-37 165.0
7 TraesCS5B01G076400 chr5A 93.617 47 2 1 496 541 79151835 79151881 5.540000e-08 69.4
8 TraesCS5B01G076400 chr2D 93.542 511 24 8 1 502 295157921 295157411 0.000000e+00 752.0
9 TraesCS5B01G076400 chr4D 93.372 513 23 10 1 503 450520809 450520298 0.000000e+00 749.0
10 TraesCS5B01G076400 chr6D 93.452 504 24 8 1 497 119598911 119598410 0.000000e+00 739.0
11 TraesCS5B01G076400 chr6D 93.124 509 28 6 1 502 247572811 247573319 0.000000e+00 739.0
12 TraesCS5B01G076400 chr6D 93.124 509 26 8 1 501 38872292 38872799 0.000000e+00 737.0
13 TraesCS5B01G076400 chr6D 93.083 506 28 6 1 499 389335696 389336201 0.000000e+00 734.0
14 TraesCS5B01G076400 chr3D 93.097 507 27 7 1 499 594543857 594543351 0.000000e+00 736.0
15 TraesCS5B01G076400 chr7D 92.745 510 27 9 1 501 593401529 593402037 0.000000e+00 728.0


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 TraesCS5B01G076400 chr5B 91531580 91534677 3097 False 5722.00 5722 100.000 1 3098 1 chr5B.!!$F1 3097
1 TraesCS5B01G076400 chr5D 84679562 84683849 4287 False 1711.50 3238 91.606 495 3098 2 chr5D.!!$F2 2603
2 TraesCS5B01G076400 chr5D 459964285 459964794 509 False 747.00 747 93.346 1 503 1 chr5D.!!$F1 502
3 TraesCS5B01G076400 chr5A 79151835 79154790 2955 False 871.85 2353 93.243 496 3098 4 chr5A.!!$F1 2602
4 TraesCS5B01G076400 chr2D 295157411 295157921 510 True 752.00 752 93.542 1 502 1 chr2D.!!$R1 501
5 TraesCS5B01G076400 chr4D 450520298 450520809 511 True 749.00 749 93.372 1 503 1 chr4D.!!$R1 502
6 TraesCS5B01G076400 chr6D 119598410 119598911 501 True 739.00 739 93.452 1 497 1 chr6D.!!$R1 496
7 TraesCS5B01G076400 chr6D 247572811 247573319 508 False 739.00 739 93.124 1 502 1 chr6D.!!$F2 501
8 TraesCS5B01G076400 chr6D 38872292 38872799 507 False 737.00 737 93.124 1 501 1 chr6D.!!$F1 500
9 TraesCS5B01G076400 chr6D 389335696 389336201 505 False 734.00 734 93.083 1 499 1 chr6D.!!$F3 498
10 TraesCS5B01G076400 chr3D 594543351 594543857 506 True 736.00 736 93.097 1 499 1 chr3D.!!$R1 498
11 TraesCS5B01G076400 chr7D 593401529 593402037 508 False 728.00 728 92.745 1 501 1 chr7D.!!$F1 500

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
380 388 0.249868 GGCTTCAAAAGTGGGCCAAC 60.25 55.0 8.4 0.26 40.96 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2292 2438 0.108662 GGCGCCAAAGCTTTGCTATT 60.109 50.0 29.93 0.0 38.25 1.73 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
69 70 1.136305 GCCTACCTCAGTATGCGTCAA 59.864 52.381 0.00 0.00 31.68 3.18
75 76 3.449018 ACCTCAGTATGCGTCAAGAGATT 59.551 43.478 0.00 0.00 34.76 2.40
78 79 2.791560 CAGTATGCGTCAAGAGATTCGG 59.208 50.000 0.00 0.00 0.00 4.30
145 146 4.821589 GGAGGCTCAAGGGCGACG 62.822 72.222 17.69 0.00 45.89 5.12
221 222 9.959749 AATTTGTATCGAACTATTTGTTGTTGT 57.040 25.926 0.00 0.00 39.30 3.32
380 388 0.249868 GGCTTCAAAAGTGGGCCAAC 60.250 55.000 8.40 0.26 40.96 3.77
385 393 0.667184 CAAAAGTGGGCCAACATCGC 60.667 55.000 14.26 0.00 0.00 4.58
443 454 3.825833 GATCGAATCGCCGGCTCGT 62.826 63.158 28.77 19.19 34.27 4.18
446 457 4.208686 GAATCGCCGGCTCGTCCT 62.209 66.667 26.68 2.08 0.00 3.85
453 465 2.438614 CGGCTCGTCCTCAGAGGA 60.439 66.667 15.98 15.98 43.43 3.71
861 971 1.140252 CTATCCGATCCCACCCGTTTT 59.860 52.381 0.00 0.00 0.00 2.43
862 972 1.205966 ATCCGATCCCACCCGTTTTA 58.794 50.000 0.00 0.00 0.00 1.52
887 997 3.192633 GTGTGTTCCAACTTCCAAGTGTT 59.807 43.478 0.00 0.00 39.66 3.32
889 999 5.010933 TGTGTTCCAACTTCCAAGTGTTAA 58.989 37.500 0.00 0.00 39.66 2.01
903 1013 6.262273 TCCAAGTGTTAATTTGACCTCAAGAC 59.738 38.462 0.00 0.00 37.15 3.01
907 1017 5.763204 GTGTTAATTTGACCTCAAGACTCCA 59.237 40.000 0.00 0.00 37.15 3.86
909 1019 6.655003 TGTTAATTTGACCTCAAGACTCCATC 59.345 38.462 0.00 0.00 37.15 3.51
915 1025 2.573915 ACCTCAAGACTCCATCCCTTTC 59.426 50.000 0.00 0.00 0.00 2.62
916 1026 2.573462 CCTCAAGACTCCATCCCTTTCA 59.427 50.000 0.00 0.00 0.00 2.69
925 1035 4.202609 ACTCCATCCCTTTCAAACAGTCAT 60.203 41.667 0.00 0.00 0.00 3.06
942 1052 0.515127 CATAGGCGCACACGTTTTGA 59.485 50.000 10.83 0.00 42.83 2.69
956 1066 5.694910 ACACGTTTTGATAGATCAACTCGTT 59.305 36.000 20.93 14.19 45.08 3.85
959 1069 5.163953 CGTTTTGATAGATCAACTCGTTGCT 60.164 40.000 4.42 0.00 45.63 3.91
963 1073 4.160439 TGATAGATCAACTCGTTGCTCCTT 59.840 41.667 9.31 0.00 40.24 3.36
1461 1574 1.674057 CAGAGGACCAGAAACCGCT 59.326 57.895 0.00 0.00 36.81 5.52
1776 1895 4.475135 GGAGGTTCTCAGCCCCGC 62.475 72.222 0.00 0.00 31.08 6.13
1815 1934 2.021380 CATGCTCGCGGCGTAAAC 59.979 61.111 22.90 10.58 45.43 2.01
1826 1945 1.159285 GGCGTAAACCCACAGTTACC 58.841 55.000 0.00 0.00 37.88 2.85
1827 1946 1.271001 GGCGTAAACCCACAGTTACCT 60.271 52.381 0.00 0.00 37.88 3.08
1828 1947 1.802365 GCGTAAACCCACAGTTACCTG 59.198 52.381 0.00 0.00 44.68 4.00
1982 2111 6.097554 AGTCCATTGGTTTGTTCATTGTAACA 59.902 34.615 1.86 0.00 37.58 2.41
2128 2271 9.575868 AATTTCATGATCTTGAGCATATTCTCT 57.424 29.630 10.81 0.00 34.29 3.10
2132 2275 8.522003 TCATGATCTTGAGCATATTCTCTCTAC 58.478 37.037 7.19 0.00 34.29 2.59
2133 2276 7.830099 TGATCTTGAGCATATTCTCTCTACA 57.170 36.000 3.99 0.00 34.29 2.74
2135 2278 9.525826 TGATCTTGAGCATATTCTCTCTACATA 57.474 33.333 3.99 0.00 34.29 2.29
2141 2284 9.061435 TGAGCATATTCTCTCTACATATATCGG 57.939 37.037 3.99 0.00 34.29 4.18
2142 2285 9.278978 GAGCATATTCTCTCTACATATATCGGA 57.721 37.037 0.00 0.00 0.00 4.55
2154 2297 9.554395 TCTACATATATCGGATTTTTCTTTGCA 57.446 29.630 0.00 0.00 0.00 4.08
2157 2300 8.084073 ACATATATCGGATTTTTCTTTGCATGG 58.916 33.333 0.00 0.00 0.00 3.66
2158 2301 4.806640 ATCGGATTTTTCTTTGCATGGT 57.193 36.364 0.00 0.00 0.00 3.55
2159 2302 5.913137 ATCGGATTTTTCTTTGCATGGTA 57.087 34.783 0.00 0.00 0.00 3.25
2160 2303 5.054390 TCGGATTTTTCTTTGCATGGTAC 57.946 39.130 0.00 0.00 0.00 3.34
2176 2319 4.481368 TGGTACATAATCGGACTTTGCT 57.519 40.909 0.00 0.00 0.00 3.91
2177 2320 4.188462 TGGTACATAATCGGACTTTGCTG 58.812 43.478 0.00 0.00 0.00 4.41
2178 2321 4.081365 TGGTACATAATCGGACTTTGCTGA 60.081 41.667 0.00 0.00 0.00 4.26
2180 2323 6.183360 TGGTACATAATCGGACTTTGCTGATA 60.183 38.462 0.00 0.00 33.62 2.15
2181 2324 6.874134 GGTACATAATCGGACTTTGCTGATAT 59.126 38.462 0.00 0.00 33.62 1.63
2182 2325 8.033038 GGTACATAATCGGACTTTGCTGATATA 58.967 37.037 0.00 0.00 33.62 0.86
2183 2326 9.587772 GTACATAATCGGACTTTGCTGATATAT 57.412 33.333 0.00 0.00 33.62 0.86
2184 2327 8.709386 ACATAATCGGACTTTGCTGATATATC 57.291 34.615 5.73 5.73 33.62 1.63
2185 2328 8.314021 ACATAATCGGACTTTGCTGATATATCA 58.686 33.333 14.64 14.64 33.62 2.15
2186 2329 9.154847 CATAATCGGACTTTGCTGATATATCAA 57.845 33.333 16.08 0.00 36.18 2.57
2187 2330 7.426929 AATCGGACTTTGCTGATATATCAAC 57.573 36.000 16.08 12.38 36.18 3.18
2188 2331 4.982295 TCGGACTTTGCTGATATATCAACG 59.018 41.667 16.08 7.17 36.18 4.10
2189 2332 4.376413 CGGACTTTGCTGATATATCAACGC 60.376 45.833 16.08 16.22 36.18 4.84
2190 2333 4.083802 GGACTTTGCTGATATATCAACGCC 60.084 45.833 19.02 9.99 36.18 5.68
2191 2334 4.450976 ACTTTGCTGATATATCAACGCCA 58.549 39.130 19.02 9.56 36.18 5.69
2196 2339 0.721718 GATATATCAACGCCAGCGGC 59.278 55.000 17.33 9.20 46.75 6.53
2281 2427 0.805711 GCCAGTTGTTTGTGTGCACC 60.806 55.000 15.69 6.37 0.00 5.01
2292 2438 3.009115 GTGCACCCCTGGGCTAGA 61.009 66.667 7.39 0.00 39.32 2.43
2293 2439 2.204074 TGCACCCCTGGGCTAGAA 60.204 61.111 7.39 0.00 39.32 2.10
2341 2487 3.660111 GCACGGCTGGGTCAACAC 61.660 66.667 0.00 0.00 0.00 3.32
2342 2488 3.345808 CACGGCTGGGTCAACACG 61.346 66.667 0.00 0.00 0.00 4.49
2397 2547 2.049156 CAGCTTGCGAGGTCGTCA 60.049 61.111 1.64 0.00 42.22 4.35
2408 2559 2.599377 CGAGGTCGTCATACGTAGCTTC 60.599 54.545 0.08 0.00 43.14 3.86
2448 2614 1.159285 CCAGTGACCGTACGTGTCTA 58.841 55.000 26.28 15.91 33.83 2.59
2462 2628 2.345641 CGTGTCTAAAACAGCAGATCGG 59.654 50.000 0.00 0.00 38.97 4.18
2463 2629 3.585862 GTGTCTAAAACAGCAGATCGGA 58.414 45.455 0.00 0.00 38.97 4.55
2489 2660 4.130118 GAGAATGATGTGCTTATCCGGTT 58.870 43.478 0.00 0.00 0.00 4.44
2553 2724 0.400213 TGGCCAGTGGTTAGTTGGAG 59.600 55.000 11.74 0.00 33.76 3.86
2606 2781 2.894763 ACAAGCATGCATGTGTGTTT 57.105 40.000 26.39 11.52 0.00 2.83
2611 2786 6.453943 ACAAGCATGCATGTGTGTTTAATTA 58.546 32.000 26.39 0.00 0.00 1.40
2612 2787 6.365789 ACAAGCATGCATGTGTGTTTAATTAC 59.634 34.615 26.39 6.30 0.00 1.89
2662 2840 4.041723 CGTTTGCTTGAAGAATTTTCCGT 58.958 39.130 0.00 0.00 0.00 4.69
2688 2866 3.122297 GAGAGATGAGCAACCTCGAATG 58.878 50.000 0.00 0.00 41.13 2.67
2737 2915 1.003839 GGCAGATGGAACGTGACCA 60.004 57.895 15.36 15.36 41.83 4.02
2849 3031 8.703604 AACTATAAGAACACGTACGTACTCTA 57.296 34.615 22.34 13.36 0.00 2.43
2850 3032 8.346476 ACTATAAGAACACGTACGTACTCTAG 57.654 38.462 22.34 19.05 0.00 2.43
2851 3033 7.976734 ACTATAAGAACACGTACGTACTCTAGT 59.023 37.037 22.34 19.61 0.00 2.57
2852 3034 9.452065 CTATAAGAACACGTACGTACTCTAGTA 57.548 37.037 22.34 17.36 0.00 1.82
2853 3035 6.639671 AAGAACACGTACGTACTCTAGTAG 57.360 41.667 22.34 7.82 0.00 2.57
2854 3036 5.955488 AGAACACGTACGTACTCTAGTAGA 58.045 41.667 22.34 0.00 0.00 2.59
2892 3074 2.528797 GTGTGGACACGTTAGCCTG 58.471 57.895 0.00 0.00 37.10 4.85
2894 3076 1.116536 TGTGGACACGTTAGCCTGGA 61.117 55.000 0.00 0.00 0.00 3.86
2904 3086 1.671328 GTTAGCCTGGAATCGCCTTTC 59.329 52.381 0.00 0.00 37.63 2.62
2936 3118 2.500392 TTTAGGGACGAAACCATGGG 57.500 50.000 18.09 0.00 0.00 4.00
2955 3137 2.394930 GGCAAAACCCACACAAAACT 57.605 45.000 0.00 0.00 0.00 2.66
2956 3138 3.528597 GGCAAAACCCACACAAAACTA 57.471 42.857 0.00 0.00 0.00 2.24
2957 3139 4.066646 GGCAAAACCCACACAAAACTAT 57.933 40.909 0.00 0.00 0.00 2.12
2958 3140 3.807071 GGCAAAACCCACACAAAACTATG 59.193 43.478 0.00 0.00 0.00 2.23
2959 3141 4.438148 GCAAAACCCACACAAAACTATGT 58.562 39.130 0.00 0.00 0.00 2.29
2960 3142 4.873259 GCAAAACCCACACAAAACTATGTT 59.127 37.500 0.00 0.00 0.00 2.71
2961 3143 5.352846 GCAAAACCCACACAAAACTATGTTT 59.647 36.000 0.00 0.00 0.00 2.83
2962 3144 6.674278 GCAAAACCCACACAAAACTATGTTTG 60.674 38.462 0.00 0.00 42.93 2.93
2983 4891 7.548780 TGTTTGTGGATTTTCTTTTCTGGAAAG 59.451 33.333 1.81 1.81 44.99 2.62
2989 4897 3.982576 TTCTTTTCTGGAAAGGCGAAC 57.017 42.857 8.53 0.00 44.00 3.95
2992 4900 1.314730 TTTCTGGAAAGGCGAACACC 58.685 50.000 0.00 0.00 0.00 4.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
69 70 0.978146 CCTGTGGGTCCCGAATCTCT 60.978 60.000 2.65 0.00 0.00 3.10
78 79 0.749454 GATCATGCACCTGTGGGTCC 60.749 60.000 0.00 0.00 45.41 4.46
94 95 3.268330 TCAGATCTTGCTGCAGTTGATC 58.732 45.455 24.66 24.66 35.86 2.92
281 287 1.400142 TGGCTCGGCGTTCAATTATTG 59.600 47.619 6.85 0.00 0.00 1.90
282 288 1.400494 GTGGCTCGGCGTTCAATTATT 59.600 47.619 6.85 0.00 0.00 1.40
427 438 4.547905 GACGAGCCGGCGATTCGA 62.548 66.667 34.58 0.00 37.73 3.71
443 454 4.442706 GCATAAAAATCGTCCTCTGAGGA 58.557 43.478 22.30 22.30 43.43 3.71
446 457 3.857052 ACGCATAAAAATCGTCCTCTGA 58.143 40.909 0.00 0.00 0.00 3.27
453 465 2.014128 CCCAGGACGCATAAAAATCGT 58.986 47.619 0.00 0.00 39.33 3.73
493 506 0.736325 GCGCGTGGTGTGTCTTAGAT 60.736 55.000 8.43 0.00 0.00 1.98
861 971 5.995282 CACTTGGAAGTTGGAACACACTATA 59.005 40.000 0.00 0.00 39.29 1.31
862 972 4.821805 CACTTGGAAGTTGGAACACACTAT 59.178 41.667 0.00 0.00 39.29 2.12
887 997 5.339200 GGGATGGAGTCTTGAGGTCAAATTA 60.339 44.000 0.00 0.00 35.15 1.40
889 999 3.054065 GGGATGGAGTCTTGAGGTCAAAT 60.054 47.826 0.00 0.00 35.15 2.32
903 1013 3.754965 TGACTGTTTGAAAGGGATGGAG 58.245 45.455 0.00 0.00 0.00 3.86
907 1017 4.273318 GCCTATGACTGTTTGAAAGGGAT 58.727 43.478 0.00 0.00 0.00 3.85
909 1019 2.420022 CGCCTATGACTGTTTGAAAGGG 59.580 50.000 0.00 0.00 0.00 3.95
915 1025 1.135972 GTGTGCGCCTATGACTGTTTG 60.136 52.381 4.18 0.00 0.00 2.93
916 1026 1.156736 GTGTGCGCCTATGACTGTTT 58.843 50.000 4.18 0.00 0.00 2.83
925 1035 1.996898 CTATCAAAACGTGTGCGCCTA 59.003 47.619 4.18 0.00 42.83 3.93
956 1066 3.602483 GTGGTTTTATACGGAAGGAGCA 58.398 45.455 0.00 0.00 0.00 4.26
959 1069 4.914177 AAGGTGGTTTTATACGGAAGGA 57.086 40.909 0.00 0.00 0.00 3.36
963 1073 3.752665 TGCAAAGGTGGTTTTATACGGA 58.247 40.909 0.00 0.00 0.00 4.69
998 1108 4.261363 GGCAAGAGAAAGAGAAAGTTGTGG 60.261 45.833 0.00 0.00 0.00 4.17
1336 1449 4.694233 CACCCGTGCTGCTGCTCT 62.694 66.667 17.00 0.00 40.48 4.09
1363 1476 2.970324 GACGCGAACACCTTGCCA 60.970 61.111 15.93 0.00 0.00 4.92
1689 1808 0.539051 CAGATTCAGGTCGAAGCCCT 59.461 55.000 0.00 0.00 41.09 5.19
1776 1895 1.731720 CCTCGGCTTCTTGAAGGAAG 58.268 55.000 11.70 0.00 43.80 3.46
1805 1924 0.950071 TAACTGTGGGTTTACGCCGC 60.950 55.000 0.00 0.00 39.17 6.53
1826 1945 4.637534 ACTTTGACCAAGTATATGCAGCAG 59.362 41.667 0.00 0.00 44.56 4.24
1827 1946 4.588899 ACTTTGACCAAGTATATGCAGCA 58.411 39.130 0.00 0.00 44.56 4.41
1828 1947 5.567138 AACTTTGACCAAGTATATGCAGC 57.433 39.130 0.00 0.00 45.77 5.25
1945 2074 5.615925 ACCAATGGACTACAGTTCCTATC 57.384 43.478 6.16 0.00 0.00 2.08
1946 2075 6.180472 CAAACCAATGGACTACAGTTCCTAT 58.820 40.000 6.16 0.00 0.00 2.57
2128 2271 9.554395 TGCAAAGAAAAATCCGATATATGTAGA 57.446 29.630 0.00 0.00 0.00 2.59
2132 2275 8.084073 ACCATGCAAAGAAAAATCCGATATATG 58.916 33.333 0.00 0.00 0.00 1.78
2133 2276 8.181904 ACCATGCAAAGAAAAATCCGATATAT 57.818 30.769 0.00 0.00 0.00 0.86
2135 2278 6.469782 ACCATGCAAAGAAAAATCCGATAT 57.530 33.333 0.00 0.00 0.00 1.63
2136 2279 5.913137 ACCATGCAAAGAAAAATCCGATA 57.087 34.783 0.00 0.00 0.00 2.92
2137 2280 4.806640 ACCATGCAAAGAAAAATCCGAT 57.193 36.364 0.00 0.00 0.00 4.18
2139 2282 4.804108 TGTACCATGCAAAGAAAAATCCG 58.196 39.130 0.00 0.00 0.00 4.18
2140 2283 8.947055 ATTATGTACCATGCAAAGAAAAATCC 57.053 30.769 0.00 0.00 0.00 3.01
2141 2284 8.745837 CGATTATGTACCATGCAAAGAAAAATC 58.254 33.333 0.00 0.00 0.00 2.17
2142 2285 7.706179 CCGATTATGTACCATGCAAAGAAAAAT 59.294 33.333 0.00 0.00 0.00 1.82
2145 2288 5.883115 TCCGATTATGTACCATGCAAAGAAA 59.117 36.000 0.00 0.00 0.00 2.52
2148 2291 4.816385 AGTCCGATTATGTACCATGCAAAG 59.184 41.667 0.00 0.00 0.00 2.77
2149 2292 4.776349 AGTCCGATTATGTACCATGCAAA 58.224 39.130 0.00 0.00 0.00 3.68
2151 2294 4.415881 AAGTCCGATTATGTACCATGCA 57.584 40.909 0.00 0.00 0.00 3.96
2152 2295 4.554723 GCAAAGTCCGATTATGTACCATGC 60.555 45.833 0.00 0.00 0.00 4.06
2153 2296 4.816385 AGCAAAGTCCGATTATGTACCATG 59.184 41.667 0.00 0.00 0.00 3.66
2154 2297 4.816385 CAGCAAAGTCCGATTATGTACCAT 59.184 41.667 0.00 0.00 0.00 3.55
2156 2299 4.439057 TCAGCAAAGTCCGATTATGTACC 58.561 43.478 0.00 0.00 0.00 3.34
2157 2300 7.891183 ATATCAGCAAAGTCCGATTATGTAC 57.109 36.000 0.00 0.00 0.00 2.90
2158 2301 9.803315 GATATATCAGCAAAGTCCGATTATGTA 57.197 33.333 7.89 0.00 0.00 2.29
2159 2302 8.314021 TGATATATCAGCAAAGTCCGATTATGT 58.686 33.333 11.49 0.00 32.11 2.29
2160 2303 8.707938 TGATATATCAGCAAAGTCCGATTATG 57.292 34.615 11.49 0.00 32.11 1.90
2162 2305 7.328493 CGTTGATATATCAGCAAAGTCCGATTA 59.672 37.037 24.01 1.08 37.82 1.75
2164 2307 5.635280 CGTTGATATATCAGCAAAGTCCGAT 59.365 40.000 24.01 0.00 37.82 4.18
2165 2308 4.982295 CGTTGATATATCAGCAAAGTCCGA 59.018 41.667 24.01 2.10 37.82 4.55
2166 2309 4.376413 GCGTTGATATATCAGCAAAGTCCG 60.376 45.833 24.01 14.05 37.82 4.79
2168 2311 4.511454 TGGCGTTGATATATCAGCAAAGTC 59.489 41.667 24.01 13.14 37.19 3.01
2169 2312 4.450976 TGGCGTTGATATATCAGCAAAGT 58.549 39.130 24.01 0.00 37.82 2.66
2170 2313 4.612259 GCTGGCGTTGATATATCAGCAAAG 60.612 45.833 24.01 19.79 44.68 2.77
2171 2314 3.250762 GCTGGCGTTGATATATCAGCAAA 59.749 43.478 24.01 12.99 44.68 3.68
2172 2315 2.807967 GCTGGCGTTGATATATCAGCAA 59.192 45.455 24.01 14.57 44.68 3.91
2174 2317 1.391485 CGCTGGCGTTGATATATCAGC 59.609 52.381 17.12 17.12 42.68 4.26
2175 2318 1.995484 CCGCTGGCGTTGATATATCAG 59.005 52.381 14.86 6.57 35.93 2.90
2176 2319 1.939381 GCCGCTGGCGTTGATATATCA 60.939 52.381 11.49 11.49 39.62 2.15
2177 2320 0.721718 GCCGCTGGCGTTGATATATC 59.278 55.000 13.84 5.73 39.62 1.63
2178 2321 2.840974 GCCGCTGGCGTTGATATAT 58.159 52.632 13.84 0.00 39.62 0.86
2196 2339 1.695893 CCGACACGTATGGCAAGCAG 61.696 60.000 0.00 0.00 30.51 4.24
2253 2399 1.170290 AAACAACTGGCTACGTGGGC 61.170 55.000 18.91 18.91 0.00 5.36
2292 2438 0.108662 GGCGCCAAAGCTTTGCTATT 60.109 50.000 29.93 0.00 38.25 1.73
2293 2439 1.250154 TGGCGCCAAAGCTTTGCTAT 61.250 50.000 30.74 0.00 38.25 2.97
2330 2476 1.000233 CGTACGACGTGTTGACCCAG 61.000 60.000 10.44 0.00 36.74 4.45
2332 2478 2.367344 GCGTACGACGTGTTGACCC 61.367 63.158 21.65 0.00 44.73 4.46
2333 2479 2.700347 CGCGTACGACGTGTTGACC 61.700 63.158 21.65 0.00 45.94 4.02
2334 2480 2.752614 CGCGTACGACGTGTTGAC 59.247 61.111 21.65 0.00 45.94 3.18
2397 2547 2.618053 GCACACTTGGAAGCTACGTAT 58.382 47.619 0.00 0.00 0.00 3.06
2408 2559 0.861837 GACTGAGAACGCACACTTGG 59.138 55.000 0.00 0.00 0.00 3.61
2448 2614 1.351017 TCCCTTCCGATCTGCTGTTTT 59.649 47.619 0.00 0.00 0.00 2.43
2462 2628 4.759183 GGATAAGCACATCATTCTCCCTTC 59.241 45.833 0.00 0.00 0.00 3.46
2463 2629 4.723309 GGATAAGCACATCATTCTCCCTT 58.277 43.478 0.00 0.00 0.00 3.95
2611 2786 6.710744 CCAAGTCCAACTCAACAAGTATAAGT 59.289 38.462 0.00 0.00 37.17 2.24
2612 2787 6.348540 GCCAAGTCCAACTCAACAAGTATAAG 60.349 42.308 0.00 0.00 37.17 1.73
2662 2840 3.668447 GAGGTTGCTCATCTCTCACAAA 58.332 45.455 0.00 0.00 0.00 2.83
2688 2866 0.876342 GTCTTGGTGATCGATCGGGC 60.876 60.000 20.03 12.39 0.00 6.13
2737 2915 4.664677 GTGTCGAGCTGGTGCGGT 62.665 66.667 0.00 0.00 45.42 5.68
2774 2956 8.879342 ACAATTCATAGTTTGCTAGTAGCTAG 57.121 34.615 22.34 3.87 42.97 3.42
2813 2995 8.146412 ACGTGTTCTTATAGTTAAGGAACTGTT 58.854 33.333 0.00 0.00 45.74 3.16
2849 3031 6.111669 TGTGTCTACACTCTACACTCTACT 57.888 41.667 13.95 0.00 46.55 2.57
2850 3032 6.372103 ACATGTGTCTACACTCTACACTCTAC 59.628 42.308 13.95 0.00 46.55 2.59
2851 3033 6.371825 CACATGTGTCTACACTCTACACTCTA 59.628 42.308 18.03 0.00 46.55 2.43
2852 3034 5.182190 CACATGTGTCTACACTCTACACTCT 59.818 44.000 18.03 0.00 46.55 3.24
2853 3035 5.048643 ACACATGTGTCTACACTCTACACTC 60.049 44.000 25.76 0.00 46.55 3.51
2854 3036 4.827835 ACACATGTGTCTACACTCTACACT 59.172 41.667 25.76 0.00 46.55 3.55
2855 3037 4.917998 CACACATGTGTCTACACTCTACAC 59.082 45.833 28.38 0.00 46.55 2.90
2856 3038 4.022329 CCACACATGTGTCTACACTCTACA 60.022 45.833 28.38 0.00 46.55 2.74
2857 3039 4.217767 TCCACACATGTGTCTACACTCTAC 59.782 45.833 28.38 0.00 46.55 2.59
2864 3046 2.058798 CGTGTCCACACATGTGTCTAC 58.941 52.381 28.38 25.73 46.75 2.59
2904 3086 7.760131 TTCGTCCCTAAAAACATAGTTATCG 57.240 36.000 0.00 0.00 0.00 2.92
2910 3092 6.404293 CCATGGTTTCGTCCCTAAAAACATAG 60.404 42.308 2.57 0.00 40.01 2.23
2936 3118 2.394930 AGTTTTGTGTGGGTTTTGCC 57.605 45.000 0.00 0.00 0.00 4.52
2955 3137 8.243961 TCCAGAAAAGAAAATCCACAAACATA 57.756 30.769 0.00 0.00 0.00 2.29
2956 3138 7.123355 TCCAGAAAAGAAAATCCACAAACAT 57.877 32.000 0.00 0.00 0.00 2.71
2957 3139 6.537453 TCCAGAAAAGAAAATCCACAAACA 57.463 33.333 0.00 0.00 0.00 2.83
2958 3140 7.011389 CCTTTCCAGAAAAGAAAATCCACAAAC 59.989 37.037 0.00 0.00 46.18 2.93
2959 3141 7.047271 CCTTTCCAGAAAAGAAAATCCACAAA 58.953 34.615 0.00 0.00 46.18 2.83
2960 3142 6.581712 CCTTTCCAGAAAAGAAAATCCACAA 58.418 36.000 0.00 0.00 46.18 3.33
2961 3143 5.453198 GCCTTTCCAGAAAAGAAAATCCACA 60.453 40.000 0.00 0.00 46.18 4.17
2962 3144 4.991056 GCCTTTCCAGAAAAGAAAATCCAC 59.009 41.667 0.00 0.00 46.18 4.02
2971 3153 2.287608 GGTGTTCGCCTTTCCAGAAAAG 60.288 50.000 0.00 0.00 43.44 2.27
2976 3158 0.609131 ATGGGTGTTCGCCTTTCCAG 60.609 55.000 2.41 0.00 0.00 3.86
2983 4891 2.491152 CATGCATGGGTGTTCGCC 59.509 61.111 19.40 0.00 0.00 5.54


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

AutoCloner maintained by Alex Coulton.