Multiple sequence alignment - TraesCS4D01G230500

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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 TraesCS4D01G230500 chr4D 100.000 3548 0 0 1 3548 390276084 390279631 0.000000e+00 6553.0
1 TraesCS4D01G230500 chr4B 96.234 2894 69 17 1 2874 480061933 480064806 0.000000e+00 4704.0
2 TraesCS4D01G230500 chr4B 88.491 530 30 17 2962 3479 480064874 480065384 2.340000e-171 612.0
3 TraesCS4D01G230500 chr4B 96.296 54 2 0 2866 2919 480064823 480064876 4.880000e-14 89.8
4 TraesCS4D01G230500 chr4B 100.000 30 0 0 3519 3548 480065383 480065412 4.950000e-04 56.5
5 TraesCS4D01G230500 chr4A 96.168 1853 52 9 424 2266 72029398 72031241 0.000000e+00 3011.0
6 TraesCS4D01G230500 chr4A 96.667 390 12 1 1 390 72029014 72029402 0.000000e+00 647.0
7 TraesCS4D01G230500 chr4A 88.998 409 26 6 3141 3548 72032239 72032629 4.120000e-134 488.0


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 TraesCS4D01G230500 chr4D 390276084 390279631 3547 False 6553.000 6553 100.000000 1 3548 1 chr4D.!!$F1 3547
1 TraesCS4D01G230500 chr4B 480061933 480065412 3479 False 1365.575 4704 95.255250 1 3548 4 chr4B.!!$F1 3547
2 TraesCS4D01G230500 chr4A 72029014 72032629 3615 False 1382.000 3011 93.944333 1 3548 3 chr4A.!!$F1 3547

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
499 501 2.139323 ACATGACTGAGCAATGCCAT 57.861 45.0 0.00 0.00 0.00 4.40 F
1480 1483 1.045350 CCCTCTTCTCCGGAGCATCA 61.045 60.0 27.39 6.53 36.25 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2143 2146 2.496817 GAGCGCGACTTCCTCCAT 59.503 61.111 12.10 0.0 0.0 3.41 R
2959 3008 0.250124 AACGGGTTTGCATCTCACGA 60.250 50.000 13.27 0.0 0.0 4.35 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
112 113 4.233632 TCTTACATCATGCCCAACATCA 57.766 40.909 0.00 0.00 36.64 3.07
196 197 5.105554 TCAAGAAAGCTACTGTTGGCAAAAA 60.106 36.000 0.00 0.00 0.00 1.94
292 293 7.518848 CGAACTCAATTGAATCAAAGTCACTCA 60.519 37.037 9.88 0.00 0.00 3.41
332 333 2.734755 TGCCCTTATTGCAGTGCTAT 57.265 45.000 17.60 16.84 34.05 2.97
411 412 3.245229 ACATCCTTATGGCAAAGTGGTGA 60.245 43.478 0.00 0.00 37.43 4.02
499 501 2.139323 ACATGACTGAGCAATGCCAT 57.861 45.000 0.00 0.00 0.00 4.40
510 512 3.941483 GAGCAATGCCATAGTTGTAGTGT 59.059 43.478 0.00 0.00 0.00 3.55
585 587 4.161189 CCTAACATGACTGACAGAGATGGT 59.839 45.833 10.08 11.23 0.00 3.55
629 631 3.950397 TGATCGTATTTCCCAGCAGTTT 58.050 40.909 0.00 0.00 0.00 2.66
635 637 4.142469 CGTATTTCCCAGCAGTTTAAAGGG 60.142 45.833 3.55 3.55 40.98 3.95
665 667 3.379372 ACATGGAAAGTGTATGCAGATGC 59.621 43.478 0.00 0.00 42.50 3.91
682 684 4.212636 CAGATGCGACATGATCATGCTAAA 59.787 41.667 31.17 17.38 42.39 1.85
744 746 7.014230 ACTCAAGTTTGTAACATGGTGCTTTAT 59.986 33.333 0.00 0.00 31.41 1.40
745 747 7.721402 TCAAGTTTGTAACATGGTGCTTTATT 58.279 30.769 0.00 0.00 31.41 1.40
747 749 9.128107 CAAGTTTGTAACATGGTGCTTTATTAG 57.872 33.333 0.00 0.00 0.00 1.73
748 750 8.630054 AGTTTGTAACATGGTGCTTTATTAGA 57.370 30.769 0.00 0.00 0.00 2.10
749 751 9.073475 AGTTTGTAACATGGTGCTTTATTAGAA 57.927 29.630 0.00 0.00 0.00 2.10
750 752 9.855021 GTTTGTAACATGGTGCTTTATTAGAAT 57.145 29.630 0.00 0.00 0.00 2.40
751 753 9.853555 TTTGTAACATGGTGCTTTATTAGAATG 57.146 29.630 0.00 0.00 0.00 2.67
1123 1126 2.430582 CACCAATGGCCGCAAACG 60.431 61.111 0.00 0.00 39.67 3.60
1480 1483 1.045350 CCCTCTTCTCCGGAGCATCA 61.045 60.000 27.39 6.53 36.25 3.07
2594 2609 3.003763 GGTCTGTCCCGAGGCCTT 61.004 66.667 6.77 0.00 34.60 4.35
2599 2614 0.323629 CTGTCCCGAGGCCTTGTTTA 59.676 55.000 19.14 0.61 0.00 2.01
2605 2620 2.626266 CCCGAGGCCTTGTTTACTTTTT 59.374 45.455 19.14 0.00 0.00 1.94
2611 2626 6.198403 CGAGGCCTTGTTTACTTTTTCTTTTC 59.802 38.462 6.77 0.00 0.00 2.29
2683 2700 1.640428 GGAATGAATGTCTCGTCGCA 58.360 50.000 0.00 0.00 0.00 5.10
2695 2712 2.264166 GTCGCAGCAGAGGAGCTT 59.736 61.111 0.00 0.00 43.70 3.74
2772 2795 2.177531 GAGCTACGGACGCGTGAA 59.822 61.111 20.70 0.00 0.00 3.18
2810 2833 2.484264 CCGTCTTCCCATGTGAGAAAAC 59.516 50.000 0.00 0.00 0.00 2.43
2811 2834 2.157668 CGTCTTCCCATGTGAGAAAACG 59.842 50.000 2.99 2.99 0.00 3.60
2813 2836 2.370519 TCTTCCCATGTGAGAAAACGGA 59.629 45.455 0.00 0.00 0.00 4.69
2814 2837 2.178912 TCCCATGTGAGAAAACGGAC 57.821 50.000 0.00 0.00 0.00 4.79
2815 2838 0.796312 CCCATGTGAGAAAACGGACG 59.204 55.000 0.00 0.00 0.00 4.79
2817 2840 1.508632 CATGTGAGAAAACGGACGGT 58.491 50.000 0.00 0.00 0.00 4.83
2863 2912 5.287513 GTCTCTCTCTGACTATTTGAAACGC 59.712 44.000 0.00 0.00 0.00 4.84
2864 2913 4.166523 TCTCTCTGACTATTTGAAACGCG 58.833 43.478 3.53 3.53 0.00 6.01
2883 2932 3.421231 CGCGGAGATATTTACGAACTGTC 59.579 47.826 1.27 0.00 0.00 3.51
2890 2939 8.404000 GGAGATATTTACGAACTGTCTTCACTA 58.596 37.037 0.00 0.00 0.00 2.74
2919 2968 1.771073 TTGCTCGTGCGTGAAAGTGG 61.771 55.000 4.84 0.00 43.34 4.00
2921 2970 2.280524 TCGTGCGTGAAAGTGGGG 60.281 61.111 0.00 0.00 0.00 4.96
2922 2971 3.353836 CGTGCGTGAAAGTGGGGG 61.354 66.667 0.00 0.00 0.00 5.40
2923 2972 2.112297 GTGCGTGAAAGTGGGGGA 59.888 61.111 0.00 0.00 0.00 4.81
2924 2973 1.966451 GTGCGTGAAAGTGGGGGAG 60.966 63.158 0.00 0.00 0.00 4.30
2925 2974 2.430367 GCGTGAAAGTGGGGGAGT 59.570 61.111 0.00 0.00 0.00 3.85
2926 2975 1.122632 TGCGTGAAAGTGGGGGAGTA 61.123 55.000 0.00 0.00 0.00 2.59
2927 2976 0.391263 GCGTGAAAGTGGGGGAGTAG 60.391 60.000 0.00 0.00 0.00 2.57
2928 2977 1.263356 CGTGAAAGTGGGGGAGTAGA 58.737 55.000 0.00 0.00 0.00 2.59
2929 2978 1.831736 CGTGAAAGTGGGGGAGTAGAT 59.168 52.381 0.00 0.00 0.00 1.98
2930 2979 2.418746 CGTGAAAGTGGGGGAGTAGATG 60.419 54.545 0.00 0.00 0.00 2.90
2931 2980 1.559682 TGAAAGTGGGGGAGTAGATGC 59.440 52.381 0.00 0.00 0.00 3.91
2932 2981 1.559682 GAAAGTGGGGGAGTAGATGCA 59.440 52.381 0.00 0.00 0.00 3.96
2933 2982 1.207791 AAGTGGGGGAGTAGATGCAG 58.792 55.000 0.00 0.00 0.00 4.41
2934 2983 0.043334 AGTGGGGGAGTAGATGCAGT 59.957 55.000 0.00 0.00 0.00 4.40
2935 2984 0.466124 GTGGGGGAGTAGATGCAGTC 59.534 60.000 0.00 0.00 0.00 3.51
2936 2985 1.043116 TGGGGGAGTAGATGCAGTCG 61.043 60.000 0.00 0.00 0.00 4.18
2937 2986 1.068250 GGGGAGTAGATGCAGTCGC 59.932 63.158 0.00 0.00 39.24 5.19
2938 2987 1.299468 GGGAGTAGATGCAGTCGCG 60.299 63.158 0.00 0.00 42.97 5.87
2939 2988 1.433879 GGAGTAGATGCAGTCGCGT 59.566 57.895 5.77 0.00 42.97 6.01
2940 2989 0.661552 GGAGTAGATGCAGTCGCGTA 59.338 55.000 5.77 0.00 42.97 4.42
2941 2990 1.065102 GGAGTAGATGCAGTCGCGTAA 59.935 52.381 5.77 0.00 42.97 3.18
2942 2991 2.479049 GGAGTAGATGCAGTCGCGTAAA 60.479 50.000 5.77 0.00 42.97 2.01
2943 2992 3.176708 GAGTAGATGCAGTCGCGTAAAA 58.823 45.455 5.77 0.00 42.97 1.52
2944 2993 3.581755 AGTAGATGCAGTCGCGTAAAAA 58.418 40.909 5.77 0.00 42.97 1.94
2970 3019 4.868195 CGTCAGTCGTGAGATGCA 57.132 55.556 0.00 0.00 45.19 3.96
3010 3059 1.878102 CGACAAGAGGGGGTCAAACTG 60.878 57.143 0.00 0.00 33.66 3.16
3022 3071 3.194116 GGGTCAAACTGCATCATGTGATT 59.806 43.478 0.00 0.00 31.21 2.57
3025 3074 4.556135 GTCAAACTGCATCATGTGATTTCG 59.444 41.667 0.00 0.00 31.21 3.46
3037 3087 0.731514 TGATTTCGGACAGCGACGAC 60.732 55.000 0.00 0.00 39.04 4.34
3039 3089 2.191354 ATTTCGGACAGCGACGACGA 62.191 55.000 12.29 0.00 42.66 4.20
3080 3130 1.015109 TCTCTCGGAAAGACGATCGG 58.985 55.000 20.98 1.23 42.62 4.18
3094 3144 1.403814 GATCGGACCATCTCCACTCA 58.596 55.000 0.00 0.00 39.39 3.41
3104 3154 4.314440 TCCACTCACGTGCAGGGC 62.314 66.667 11.67 0.00 39.86 5.19
3114 3164 2.443577 TGCAGGGCAAAGCAACCA 60.444 55.556 0.00 0.00 37.90 3.67
3115 3165 1.837947 TGCAGGGCAAAGCAACCAT 60.838 52.632 0.00 0.00 37.90 3.55
3132 3182 0.301687 CATCGGCTCATTTCCGTTCG 59.698 55.000 1.22 0.00 46.49 3.95
3136 3186 0.179189 GGCTCATTTCCGTTCGCAAG 60.179 55.000 0.00 0.00 0.00 4.01
3195 3333 2.112297 TGTGGGCCGTTTGGTCTC 59.888 61.111 0.00 0.00 40.80 3.36
3233 3371 4.730487 GCAATCAGCAGTGGAGGT 57.270 55.556 0.00 0.00 44.79 3.85
3235 3373 1.310933 GCAATCAGCAGTGGAGGTGG 61.311 60.000 0.00 0.00 44.79 4.61
3279 3417 3.066900 TCTTAGCTTATCTCACGCCAGTC 59.933 47.826 0.00 0.00 0.00 3.51
3280 3418 1.186200 AGCTTATCTCACGCCAGTCA 58.814 50.000 0.00 0.00 0.00 3.41
3281 3419 1.135915 AGCTTATCTCACGCCAGTCAG 59.864 52.381 0.00 0.00 0.00 3.51
3282 3420 1.134965 GCTTATCTCACGCCAGTCAGT 60.135 52.381 0.00 0.00 0.00 3.41
3297 3435 2.439701 AGTGCGACGGCCTAGCTA 60.440 61.111 13.68 0.00 38.85 3.32
3298 3436 2.026301 GTGCGACGGCCTAGCTAG 59.974 66.667 14.20 14.20 38.85 3.42
3313 3451 2.166829 AGCTAGCTGTCTATCCATCCG 58.833 52.381 18.57 0.00 0.00 4.18
3362 3501 6.433766 GCAATGCCAATAACTTGATCTCTAC 58.566 40.000 0.00 0.00 34.04 2.59
3371 3510 8.725148 CAATAACTTGATCTCTACCATAATGCC 58.275 37.037 0.00 0.00 34.04 4.40
3373 3512 4.042187 ACTTGATCTCTACCATAATGCCCC 59.958 45.833 0.00 0.00 0.00 5.80
3392 3531 2.549754 CCCATTGCTTCCATGTCGATAC 59.450 50.000 0.00 0.00 0.00 2.24
3414 3553 4.721776 ACGGTCCCTCATATATAATGCCAT 59.278 41.667 0.00 0.00 0.00 4.40
3495 3635 4.828939 AGAAATGAAATGCAGTGGTTGAGA 59.171 37.500 0.00 0.00 0.00 3.27
3496 3636 5.302568 AGAAATGAAATGCAGTGGTTGAGAA 59.697 36.000 0.00 0.00 0.00 2.87
3497 3637 3.988379 TGAAATGCAGTGGTTGAGAAC 57.012 42.857 0.00 0.00 0.00 3.01
3498 3638 3.554934 TGAAATGCAGTGGTTGAGAACT 58.445 40.909 0.00 0.00 0.00 3.01
3499 3639 3.953612 TGAAATGCAGTGGTTGAGAACTT 59.046 39.130 0.00 0.00 0.00 2.66
3500 3640 3.996150 AATGCAGTGGTTGAGAACTTG 57.004 42.857 0.00 0.00 0.00 3.16
3501 3641 2.708216 TGCAGTGGTTGAGAACTTGA 57.292 45.000 0.00 0.00 0.00 3.02
3502 3642 2.564771 TGCAGTGGTTGAGAACTTGAG 58.435 47.619 0.00 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 2.027561 TCCCACCTCTCCAAATACAACG 60.028 50.000 0.00 0.00 0.00 4.10
112 113 5.659079 TGAACAGTTAAGGGTTCCAAAATGT 59.341 36.000 13.68 0.00 42.04 2.71
196 197 6.937436 ACGAGTTAACCTTGAATGTCTTTT 57.063 33.333 0.88 0.00 0.00 2.27
202 203 8.717821 TCTAAATGAACGAGTTAACCTTGAATG 58.282 33.333 0.88 0.00 0.00 2.67
260 261 6.875948 TTGATTCAATTGAGTTCGAAAGGA 57.124 33.333 8.41 0.00 0.00 3.36
267 268 7.642669 TGAGTGACTTTGATTCAATTGAGTTC 58.357 34.615 8.41 10.32 0.00 3.01
277 278 4.836125 TTTGGCTGAGTGACTTTGATTC 57.164 40.909 0.00 0.00 0.00 2.52
292 293 2.887151 AGCTGGATAGTGTTTTGGCT 57.113 45.000 0.00 0.00 0.00 4.75
332 333 4.650734 TGCACAATGAACTTCCAGTCATA 58.349 39.130 0.00 0.00 0.00 2.15
359 360 3.874543 GCCACATCATCGGTACATTTGTA 59.125 43.478 0.00 0.00 0.00 2.41
411 412 4.868026 TTGTGCGGCACTACAACT 57.132 50.000 30.81 0.00 35.11 3.16
499 501 4.754618 CCATTTGCTGTGACACTACAACTA 59.245 41.667 7.20 0.00 0.00 2.24
510 512 1.851304 GGGGAATCCATTTGCTGTGA 58.149 50.000 0.09 0.00 35.00 3.58
635 637 0.611896 CACTTTCCATGTGGGTCCCC 60.612 60.000 5.13 0.00 38.11 4.81
665 667 8.839947 TTATTTGTTTTAGCATGATCATGTCG 57.160 30.769 31.09 11.71 40.80 4.35
750 752 9.996554 TCAAATGTGAGATCTCTTTACTTTACA 57.003 29.630 22.95 15.79 0.00 2.41
871 874 4.774124 CTGCTAGTGATGATTTTGAGGGA 58.226 43.478 0.00 0.00 0.00 4.20
1123 1126 1.961277 CAGCTGGGTCGGTTGTGAC 60.961 63.158 5.57 0.00 38.17 3.67
2143 2146 2.496817 GAGCGCGACTTCCTCCAT 59.503 61.111 12.10 0.00 0.00 3.41
2461 2476 4.631740 CAACCCCAACCCACCCCC 62.632 72.222 0.00 0.00 0.00 5.40
2462 2477 3.513566 TCAACCCCAACCCACCCC 61.514 66.667 0.00 0.00 0.00 4.95
2594 2609 9.110502 GGAGAGAGAGAAAAGAAAAAGTAAACA 57.889 33.333 0.00 0.00 0.00 2.83
2599 2614 5.163290 ACGGGAGAGAGAGAAAAGAAAAAGT 60.163 40.000 0.00 0.00 0.00 2.66
2605 2620 3.156288 TCACGGGAGAGAGAGAAAAGA 57.844 47.619 0.00 0.00 0.00 2.52
2770 2793 2.225348 GCAAACGGCCAAAAGCTTC 58.775 52.632 2.24 0.00 43.05 3.86
2863 2912 6.196724 GTGAAGACAGTTCGTAAATATCTCCG 59.803 42.308 0.00 0.00 0.00 4.63
2864 2913 7.259161 AGTGAAGACAGTTCGTAAATATCTCC 58.741 38.462 0.00 0.00 0.00 3.71
2883 2932 0.999406 CAATGACGGCGGTAGTGAAG 59.001 55.000 13.24 0.00 0.00 3.02
2890 2939 4.373116 ACGAGCAATGACGGCGGT 62.373 61.111 13.24 0.00 36.08 5.68
2919 2968 1.068250 GCGACTGCATCTACTCCCC 59.932 63.158 0.00 0.00 42.15 4.81
2921 2970 0.661552 TACGCGACTGCATCTACTCC 59.338 55.000 15.93 0.00 42.97 3.85
2922 2971 2.470196 TTACGCGACTGCATCTACTC 57.530 50.000 15.93 0.00 42.97 2.59
2923 2972 2.933495 TTTACGCGACTGCATCTACT 57.067 45.000 15.93 0.00 42.97 2.57
2924 2973 3.984018 TTTTTACGCGACTGCATCTAC 57.016 42.857 15.93 0.00 42.97 2.59
2942 2991 1.647084 GACTGACGTGCCGCTTTTT 59.353 52.632 0.00 0.00 0.00 1.94
2943 2992 2.594962 CGACTGACGTGCCGCTTTT 61.595 57.895 0.00 0.00 37.22 2.27
2944 2993 3.036084 CGACTGACGTGCCGCTTT 61.036 61.111 0.00 0.00 37.22 3.51
2954 3003 1.461127 GGTTTGCATCTCACGACTGAC 59.539 52.381 0.00 0.00 0.00 3.51
2955 3004 1.608025 GGGTTTGCATCTCACGACTGA 60.608 52.381 0.00 0.00 0.00 3.41
2956 3005 0.798776 GGGTTTGCATCTCACGACTG 59.201 55.000 0.00 0.00 0.00 3.51
2957 3006 0.670546 CGGGTTTGCATCTCACGACT 60.671 55.000 2.54 0.00 0.00 4.18
2958 3007 0.949105 ACGGGTTTGCATCTCACGAC 60.949 55.000 13.27 0.00 0.00 4.34
2959 3008 0.250124 AACGGGTTTGCATCTCACGA 60.250 50.000 13.27 0.00 0.00 4.35
2960 3009 0.591170 AAACGGGTTTGCATCTCACG 59.409 50.000 6.44 6.44 0.00 4.35
2961 3010 1.335872 CCAAACGGGTTTGCATCTCAC 60.336 52.381 16.75 0.00 46.25 3.51
2962 3011 0.958091 CCAAACGGGTTTGCATCTCA 59.042 50.000 16.75 0.00 46.25 3.27
2963 3012 0.388520 GCCAAACGGGTTTGCATCTC 60.389 55.000 16.75 2.28 46.25 2.75
2964 3013 1.112315 TGCCAAACGGGTTTGCATCT 61.112 50.000 16.75 0.00 46.25 2.90
2965 3014 0.943835 GTGCCAAACGGGTTTGCATC 60.944 55.000 16.75 9.55 46.25 3.91
2966 3015 1.068921 GTGCCAAACGGGTTTGCAT 59.931 52.632 16.75 0.00 46.25 3.96
2995 3044 0.329596 GATGCAGTTTGACCCCCTCT 59.670 55.000 0.00 0.00 0.00 3.69
3010 3059 2.540361 GCTGTCCGAAATCACATGATGC 60.540 50.000 0.00 0.00 34.49 3.91
3025 3074 2.845861 ATCGTTCGTCGTCGCTGTCC 62.846 60.000 0.00 0.00 40.80 4.02
3046 3096 2.733517 GAGAGAAACACGGGATCGATC 58.266 52.381 17.36 17.36 40.11 3.69
3047 3097 1.065701 CGAGAGAAACACGGGATCGAT 59.934 52.381 0.00 0.00 40.11 3.59
3048 3098 0.450583 CGAGAGAAACACGGGATCGA 59.549 55.000 0.00 0.00 40.11 3.59
3049 3099 0.525668 CCGAGAGAAACACGGGATCG 60.526 60.000 0.00 0.00 46.11 3.69
3050 3100 3.347411 CCGAGAGAAACACGGGATC 57.653 57.895 0.00 0.00 46.11 3.36
3094 3144 2.832661 TTGCTTTGCCCTGCACGT 60.833 55.556 0.00 0.00 38.71 4.49
3104 3154 0.813184 ATGAGCCGATGGTTGCTTTG 59.187 50.000 0.00 0.00 38.11 2.77
3211 3349 2.483745 CACTGCTGATTGCTGCCG 59.516 61.111 0.00 0.00 43.25 5.69
3279 3417 2.669808 CTAGCTAGGCCGTCGCACTG 62.670 65.000 13.32 2.77 36.38 3.66
3280 3418 2.439701 TAGCTAGGCCGTCGCACT 60.440 61.111 14.78 3.41 36.38 4.40
3281 3419 2.026301 CTAGCTAGGCCGTCGCAC 59.974 66.667 13.32 0.00 36.38 5.34
3282 3420 3.900892 GCTAGCTAGGCCGTCGCA 61.901 66.667 22.10 2.56 36.38 5.10
3297 3435 1.333177 GGACGGATGGATAGACAGCT 58.667 55.000 0.00 0.00 0.00 4.24
3298 3436 1.040646 TGGACGGATGGATAGACAGC 58.959 55.000 0.00 0.00 0.00 4.40
3313 3451 0.878416 TGCCGCACTTAACAATGGAC 59.122 50.000 0.00 0.00 0.00 4.02
3362 3501 1.345415 GGAAGCAATGGGGCATTATGG 59.655 52.381 0.00 0.00 32.35 2.74
3371 3510 1.683943 ATCGACATGGAAGCAATGGG 58.316 50.000 0.00 0.00 0.00 4.00
3373 3512 2.221749 CCGTATCGACATGGAAGCAATG 59.778 50.000 0.00 0.00 0.00 2.82
3392 3531 4.753516 TGGCATTATATATGAGGGACCG 57.246 45.455 0.00 0.00 0.00 4.79
3459 3599 2.058798 TCATTTCTCGTCGTGCAAGTC 58.941 47.619 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.