Multiple sequence alignment - TraesCS4B01G229400

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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 TraesCS4B01G229400 chr4B 100.000 3476 0 0 1 3476 480061932 480065407 0.000000e+00 6420.0
1 TraesCS4B01G229400 chr4D 96.235 2895 69 17 1 2875 390276083 390278957 0.000000e+00 4706.0
2 TraesCS4B01G229400 chr4D 88.491 530 30 17 2943 3453 390279045 390279562 2.290000e-171 612.0
3 TraesCS4B01G229400 chr4D 96.296 54 2 0 2892 2945 390278949 390279002 4.780000e-14 89.8
4 TraesCS4B01G229400 chr4A 96.537 1848 57 4 422 2266 72029398 72031241 0.000000e+00 3051.0
5 TraesCS4B01G229400 chr4A 96.923 390 10 2 1 388 72029013 72029402 0.000000e+00 652.0
6 TraesCS4B01G229400 chr4A 91.541 331 23 3 3127 3453 72032239 72032568 5.290000e-123 451.0


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 TraesCS4B01G229400 chr4B 480061932 480065407 3475 False 6420.000000 6420 100.000000 1 3476 1 chr4B.!!$F1 3475
1 TraesCS4B01G229400 chr4D 390276083 390279562 3479 False 1802.600000 4706 93.674000 1 3453 3 chr4D.!!$F1 3452
2 TraesCS4B01G229400 chr4A 72029013 72032568 3555 False 1384.666667 3051 95.000333 1 3453 3 chr4A.!!$F1 3452

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
316 320 0.392998 ACACTATCCAGCTTTGCCCG 60.393 55.0 0.00 0.0 0.00 6.13 F
1015 1019 0.971386 AAGAATGGCTGCAACCAAGG 59.029 50.0 13.89 0.0 44.65 3.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1463 1467 0.248702 GTCGATGCTCCGGAGAAGAC 60.249 60.000 35.69 28.02 0.0 3.01 R
3005 3069 1.226802 CCATCGTCGCTGTCTGGAG 60.227 63.158 0.00 0.00 0.0 3.86 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
42 43 6.564328 GCCAGATTTTAGTTGTATTTGGAGG 58.436 40.000 0.00 0.00 0.00 4.30
66 67 9.059023 AGGGGTGGGAGTATTATAATAGATTTC 57.941 37.037 5.39 2.56 0.00 2.17
112 113 5.657745 TGATTCTTACATCATGCCCAACATT 59.342 36.000 0.00 0.00 36.64 2.71
220 221 8.494016 AAGAAAGATATTCAAGGTTAACTCGG 57.506 34.615 5.42 0.00 0.00 4.63
316 320 0.392998 ACACTATCCAGCTTTGCCCG 60.393 55.000 0.00 0.00 0.00 6.13
409 413 2.214376 TCCTTATGGCAAAGTGGTGG 57.786 50.000 0.00 0.00 0.00 4.61
584 588 4.403752 CCTAACATGACTGACAGAGATGGA 59.596 45.833 10.08 3.10 0.00 3.41
630 634 4.631377 TGATCGTATTTCCAAGCAGTTCAG 59.369 41.667 0.00 0.00 0.00 3.02
637 641 0.979665 CCAAGCAGTTCAGAGGAGGA 59.020 55.000 0.00 0.00 0.00 3.71
665 669 5.585844 CACATGGAAAGTGTATGCAGATGTA 59.414 40.000 0.00 0.00 32.44 2.29
1015 1019 0.971386 AAGAATGGCTGCAACCAAGG 59.029 50.000 13.89 0.00 44.65 3.61
1090 1094 2.499289 TCTGATCAAGTTCCTCTCCAGC 59.501 50.000 0.00 0.00 0.00 4.85
1138 1142 1.678627 CAAACATCACAACCGACCCAA 59.321 47.619 0.00 0.00 0.00 4.12
1150 1154 1.369625 CGACCCAACTGCAGGTATTC 58.630 55.000 19.93 7.49 36.17 1.75
2107 2117 3.975591 ACGGAGGAGTCGTCCCCA 61.976 66.667 22.99 0.00 45.26 4.96
2229 2239 2.454941 GTTGGGAGGGGAGGAGGA 59.545 66.667 0.00 0.00 0.00 3.71
2586 2607 3.462678 GGTCTGTCCCGAGGCCTC 61.463 72.222 23.79 23.79 34.60 4.70
2597 2618 2.596263 CGAGGCCTCGTTTTCTTTTC 57.404 50.000 40.77 8.57 46.99 2.29
2603 2624 4.161565 AGGCCTCGTTTTCTTTTCCTTTTT 59.838 37.500 0.00 0.00 0.00 1.94
2677 2698 0.572590 GGAATGAATGTCTCGTCGCG 59.427 55.000 0.00 0.00 0.00 5.87
2689 2710 4.863925 GTCGCGGCAGAGGAGCTC 62.864 72.222 5.47 4.71 34.17 4.09
2735 2756 1.569493 CCCGTGACGTTCAAAGCAG 59.431 57.895 3.64 0.00 0.00 4.24
2736 2757 1.082756 CCGTGACGTTCAAAGCAGC 60.083 57.895 3.64 0.00 0.00 5.25
2737 2758 1.641140 CGTGACGTTCAAAGCAGCA 59.359 52.632 0.00 0.00 0.00 4.41
2738 2759 0.383491 CGTGACGTTCAAAGCAGCAG 60.383 55.000 0.00 0.00 0.00 4.24
2739 2760 0.658536 GTGACGTTCAAAGCAGCAGC 60.659 55.000 0.00 0.00 42.56 5.25
2770 2791 2.943034 CGAAGCTACGGACGCGTC 60.943 66.667 30.67 30.67 33.47 5.19
2772 2793 1.868251 GAAGCTACGGACGCGTCAG 60.868 63.158 37.26 35.00 36.20 3.51
2810 2831 3.146066 CCGTCTTCCCATGTGAGAAAAA 58.854 45.455 0.00 0.00 0.00 1.94
2811 2832 3.058224 CCGTCTTCCCATGTGAGAAAAAC 60.058 47.826 0.00 0.00 0.00 2.43
2813 2834 3.058224 GTCTTCCCATGTGAGAAAAACGG 60.058 47.826 0.00 0.00 0.00 4.44
2814 2835 2.940994 TCCCATGTGAGAAAAACGGA 57.059 45.000 0.00 0.00 0.00 4.69
2815 2836 2.500229 TCCCATGTGAGAAAAACGGAC 58.500 47.619 0.00 0.00 0.00 4.79
2817 2838 1.196808 CCATGTGAGAAAAACGGACGG 59.803 52.381 0.00 0.00 0.00 4.79
2819 2840 2.886862 TGTGAGAAAAACGGACGGTA 57.113 45.000 0.00 0.00 0.00 4.02
2860 2881 6.571344 GCACTGTCTCTCTCTGACTATTTGAA 60.571 42.308 0.00 0.00 35.63 2.69
2861 2882 7.374272 CACTGTCTCTCTCTGACTATTTGAAA 58.626 38.462 0.00 0.00 35.63 2.69
2862 2883 7.328249 CACTGTCTCTCTCTGACTATTTGAAAC 59.672 40.741 0.00 0.00 35.63 2.78
2863 2884 6.382608 TGTCTCTCTCTGACTATTTGAAACG 58.617 40.000 0.00 0.00 35.63 3.60
2864 2885 6.016192 TGTCTCTCTCTGACTATTTGAAACGT 60.016 38.462 0.00 0.00 35.63 3.99
2865 2886 7.174426 TGTCTCTCTCTGACTATTTGAAACGTA 59.826 37.037 0.00 0.00 35.63 3.57
2866 2887 7.694784 GTCTCTCTCTGACTATTTGAAACGTAG 59.305 40.741 0.00 0.00 0.00 3.51
2867 2888 7.606839 TCTCTCTCTGACTATTTGAAACGTAGA 59.393 37.037 0.00 0.00 0.00 2.59
2868 2889 7.753659 TCTCTCTGACTATTTGAAACGTAGAG 58.246 38.462 0.00 0.00 0.00 2.43
2869 2890 7.606839 TCTCTCTGACTATTTGAAACGTAGAGA 59.393 37.037 6.22 6.22 36.69 3.10
2870 2891 8.282455 TCTCTGACTATTTGAAACGTAGAGAT 57.718 34.615 0.00 0.00 34.80 2.75
2871 2892 9.392259 TCTCTGACTATTTGAAACGTAGAGATA 57.608 33.333 0.00 0.00 34.80 1.98
2880 2901 9.755064 ATTTGAAACGTAGAGATATTTTTGACG 57.245 29.630 0.00 0.00 35.10 4.35
2881 2902 7.285783 TGAAACGTAGAGATATTTTTGACGG 57.714 36.000 0.00 0.00 33.32 4.79
2882 2903 6.311935 TGAAACGTAGAGATATTTTTGACGGG 59.688 38.462 0.00 0.00 33.32 5.28
2883 2904 4.690122 ACGTAGAGATATTTTTGACGGGG 58.310 43.478 0.00 0.00 33.32 5.73
2884 2905 4.403432 ACGTAGAGATATTTTTGACGGGGA 59.597 41.667 0.00 0.00 33.32 4.81
2909 2930 8.976986 AAACGTAGAGATATTTACGAACTGTT 57.023 30.769 16.24 0.00 43.89 3.16
2916 2937 8.926710 AGAGATATTTACGAACTGTTTTCACTG 58.073 33.333 0.00 0.00 0.00 3.66
2945 2966 0.808060 TTGCTCGTGCGTGAAAGTGA 60.808 50.000 4.84 0.00 43.34 3.41
2947 2968 0.939577 GCTCGTGCGTGAAAGTGAGA 60.940 55.000 0.00 0.00 0.00 3.27
2948 2969 1.487482 CTCGTGCGTGAAAGTGAGAA 58.513 50.000 0.00 0.00 0.00 2.87
2949 2970 1.453524 CTCGTGCGTGAAAGTGAGAAG 59.546 52.381 0.00 0.00 0.00 2.85
2953 3017 0.235926 GCGTGAAAGTGAGAAGTGCC 59.764 55.000 0.00 0.00 0.00 5.01
2993 3057 1.652947 GACAGGAGGGGGTCAAACTA 58.347 55.000 0.00 0.00 34.22 2.24
3005 3069 4.576463 GGGGTCAAACTACATCATGTGATC 59.424 45.833 0.00 0.00 31.21 2.92
3008 3072 5.525378 GGTCAAACTACATCATGTGATCTCC 59.475 44.000 0.00 0.00 31.21 3.71
3009 3073 6.108687 GTCAAACTACATCATGTGATCTCCA 58.891 40.000 0.00 0.00 31.21 3.86
3021 3085 0.665835 GATCTCCAGACAGCGACGAT 59.334 55.000 0.00 0.00 0.00 3.73
3023 3087 1.226802 CTCCAGACAGCGACGATGG 60.227 63.158 18.40 7.49 0.00 3.51
3030 3094 1.658717 CAGCGACGATGGACGATCC 60.659 63.158 4.91 0.00 45.77 3.36
3060 3128 2.019948 TCTCTCGGAAAGACGATCGA 57.980 50.000 24.34 0.00 42.62 3.59
3074 3142 1.678627 CGATCGAACCATCTCCACTCT 59.321 52.381 10.26 0.00 0.00 3.24
3084 3152 2.203640 TCCACTCTCGTGCAGGGT 60.204 61.111 6.56 0.00 39.86 4.34
3107 3176 1.304052 CAACCCCGGCTCATTTCCA 60.304 57.895 0.00 0.00 0.00 3.53
3111 3180 0.395586 CCCCGGCTCATTTCCATTCA 60.396 55.000 0.00 0.00 0.00 2.57
3115 3184 2.415893 CCGGCTCATTTCCATTCACAAC 60.416 50.000 0.00 0.00 0.00 3.32
3117 3186 3.671433 CGGCTCATTTCCATTCACAACAG 60.671 47.826 0.00 0.00 0.00 3.16
3118 3187 3.248266 GCTCATTTCCATTCACAACAGC 58.752 45.455 0.00 0.00 0.00 4.40
3121 3190 4.619973 TCATTTCCATTCACAACAGCAAC 58.380 39.130 0.00 0.00 0.00 4.17
3125 3194 4.044336 TCCATTCACAACAGCAACAAAG 57.956 40.909 0.00 0.00 0.00 2.77
3164 3314 1.403780 GCGAGCGGGTAGAAAGAAAGA 60.404 52.381 0.00 0.00 0.00 2.52
3210 3360 2.045926 GACGGGGCAGCAATCAGT 60.046 61.111 0.00 0.00 0.00 3.41
3273 3433 1.446792 CAGTGTGACGGCCTAGCTG 60.447 63.158 0.00 0.00 41.29 4.24
3289 3449 3.037851 AGCTGTCTGTCTATCCATCCA 57.962 47.619 0.00 0.00 0.00 3.41
3294 3454 4.496540 TGTCTGTCTATCCATCCATCCAT 58.503 43.478 0.00 0.00 0.00 3.41
3334 3499 4.260579 CGACGCAATGCCAATAACTTGATA 60.261 41.667 0.00 0.00 34.04 2.15
3335 3500 5.574891 ACGCAATGCCAATAACTTGATAA 57.425 34.783 0.00 0.00 34.04 1.75
3346 3515 7.362662 CCAATAACTTGATAACATAATGCGCT 58.637 34.615 9.73 0.00 34.04 5.92
3400 3569 1.565390 ATGCCAGCCAGCCTGAACTA 61.565 55.000 0.00 0.00 44.64 2.24
3417 3586 6.041423 TGAACTAGTCTGCATTTGATCTGA 57.959 37.500 0.00 0.00 0.00 3.27
3453 3622 1.291877 ACCTGCACGACGAGAAATGC 61.292 55.000 0.00 0.33 38.59 3.56
3454 3623 1.016130 CCTGCACGACGAGAAATGCT 61.016 55.000 0.00 0.00 38.90 3.79
3455 3624 0.792640 CTGCACGACGAGAAATGCTT 59.207 50.000 0.00 0.00 38.90 3.91
3456 3625 0.512518 TGCACGACGAGAAATGCTTG 59.487 50.000 0.00 0.00 38.90 4.01
3457 3626 0.179215 GCACGACGAGAAATGCTTGG 60.179 55.000 0.00 0.00 35.16 3.61
3458 3627 1.148310 CACGACGAGAAATGCTTGGT 58.852 50.000 0.00 0.00 31.80 3.67
3459 3628 1.126846 CACGACGAGAAATGCTTGGTC 59.873 52.381 0.00 0.00 31.80 4.02
3460 3629 1.270094 ACGACGAGAAATGCTTGGTCA 60.270 47.619 0.00 0.00 32.83 4.02
3461 3630 1.391485 CGACGAGAAATGCTTGGTCAG 59.609 52.381 0.00 0.00 32.83 3.51
3462 3631 2.688507 GACGAGAAATGCTTGGTCAGA 58.311 47.619 0.00 0.00 33.24 3.27
3463 3632 2.413453 GACGAGAAATGCTTGGTCAGAC 59.587 50.000 0.00 0.00 33.24 3.51
3464 3633 1.391485 CGAGAAATGCTTGGTCAGACG 59.609 52.381 0.00 0.00 0.00 4.18
3465 3634 2.688507 GAGAAATGCTTGGTCAGACGA 58.311 47.619 0.00 0.00 0.00 4.20
3466 3635 3.067106 GAGAAATGCTTGGTCAGACGAA 58.933 45.455 0.00 0.00 0.00 3.85
3467 3636 3.679389 AGAAATGCTTGGTCAGACGAAT 58.321 40.909 0.00 0.00 0.00 3.34
3468 3637 4.074970 AGAAATGCTTGGTCAGACGAATT 58.925 39.130 0.00 0.00 0.00 2.17
3469 3638 4.154918 AGAAATGCTTGGTCAGACGAATTC 59.845 41.667 0.00 0.00 0.00 2.17
3470 3639 1.808411 TGCTTGGTCAGACGAATTCC 58.192 50.000 0.00 0.00 0.00 3.01
3471 3640 1.071542 TGCTTGGTCAGACGAATTCCA 59.928 47.619 0.00 0.00 0.00 3.53
3472 3641 2.151202 GCTTGGTCAGACGAATTCCAA 58.849 47.619 0.00 0.00 36.82 3.53
3473 3642 2.552315 GCTTGGTCAGACGAATTCCAAA 59.448 45.455 0.00 0.00 37.65 3.28
3474 3643 3.609409 GCTTGGTCAGACGAATTCCAAAC 60.609 47.826 0.00 0.00 37.65 2.93
3475 3644 2.139917 TGGTCAGACGAATTCCAAACG 58.860 47.619 0.00 0.00 0.00 3.60
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 6.405842 CCCTCCAAATACAACTAAAATCTGGC 60.406 42.308 0.00 0.00 0.00 4.85
42 43 8.537858 ACGAAATCTATTATAATACTCCCACCC 58.462 37.037 0.81 0.00 0.00 4.61
66 67 6.545508 TCAAAATGCATATTCTGTTGAGACG 58.454 36.000 0.00 0.00 0.00 4.18
112 113 3.964031 ACAGTTAAGGGTTCCAAAATGCA 59.036 39.130 0.00 0.00 0.00 3.96
260 262 8.767085 TGATTTGATTGAATTGAGTTTGAAAGC 58.233 29.630 0.00 0.00 0.00 3.51
316 320 4.635765 TCCAGTCATTTAGCACTGCAATAC 59.364 41.667 3.30 0.00 39.03 1.89
409 413 1.281656 GTTGTGCGGCACTACAACC 59.718 57.895 32.42 13.29 46.69 3.77
533 537 3.694566 ACAGTTTCTTCTGTTTGACCCAC 59.305 43.478 0.00 0.00 44.92 4.61
630 634 0.991920 TTCCATGTGGGTTCCTCCTC 59.008 55.000 0.00 0.00 38.11 3.71
637 641 2.825532 GCATACACTTTCCATGTGGGTT 59.174 45.455 0.00 0.00 39.52 4.11
722 726 5.699097 TCTAAAGCACCATGTTACAAACC 57.301 39.130 0.00 0.00 0.00 3.27
762 766 5.957798 TGCAATTCTTCAAATGTGAGATCC 58.042 37.500 0.00 0.00 34.49 3.36
1015 1019 1.085091 CTGAGATGCAGTTCCAGTGC 58.915 55.000 0.00 0.00 44.57 4.40
1150 1154 0.378257 ACAAGTTTGACTGTGCTGCG 59.622 50.000 0.00 0.00 0.00 5.18
1463 1467 0.248702 GTCGATGCTCCGGAGAAGAC 60.249 60.000 35.69 28.02 0.00 3.01
2612 2633 2.889678 CTCATCTCATCATCTCACGGGA 59.110 50.000 0.00 0.00 0.00 5.14
2613 2634 2.889678 TCTCATCTCATCATCTCACGGG 59.110 50.000 0.00 0.00 0.00 5.28
2813 2834 4.735132 TGTGCTGGCGCTACCGTC 62.735 66.667 7.64 0.00 43.94 4.79
2814 2835 4.308458 TTGTGCTGGCGCTACCGT 62.308 61.111 7.64 0.00 43.94 4.83
2815 2836 3.490759 CTTGTGCTGGCGCTACCG 61.491 66.667 7.64 0.00 43.94 4.02
2817 2838 2.730672 CGACTTGTGCTGGCGCTAC 61.731 63.158 7.64 2.39 36.97 3.58
2860 2881 5.105228 TCCCCGTCAAAAATATCTCTACGTT 60.105 40.000 0.00 0.00 0.00 3.99
2861 2882 4.403432 TCCCCGTCAAAAATATCTCTACGT 59.597 41.667 0.00 0.00 0.00 3.57
2862 2883 4.940463 TCCCCGTCAAAAATATCTCTACG 58.060 43.478 0.00 0.00 0.00 3.51
2863 2884 6.238022 CGTTTCCCCGTCAAAAATATCTCTAC 60.238 42.308 0.00 0.00 0.00 2.59
2864 2885 5.813672 CGTTTCCCCGTCAAAAATATCTCTA 59.186 40.000 0.00 0.00 0.00 2.43
2865 2886 4.634443 CGTTTCCCCGTCAAAAATATCTCT 59.366 41.667 0.00 0.00 0.00 3.10
2866 2887 4.393990 ACGTTTCCCCGTCAAAAATATCTC 59.606 41.667 0.00 0.00 35.95 2.75
2867 2888 4.329392 ACGTTTCCCCGTCAAAAATATCT 58.671 39.130 0.00 0.00 35.95 1.98
2868 2889 4.690184 ACGTTTCCCCGTCAAAAATATC 57.310 40.909 0.00 0.00 35.95 1.63
2869 2890 5.490159 TCTACGTTTCCCCGTCAAAAATAT 58.510 37.500 0.00 0.00 42.00 1.28
2870 2891 4.892433 TCTACGTTTCCCCGTCAAAAATA 58.108 39.130 0.00 0.00 42.00 1.40
2871 2892 3.742385 TCTACGTTTCCCCGTCAAAAAT 58.258 40.909 0.00 0.00 42.00 1.82
2872 2893 3.132925 CTCTACGTTTCCCCGTCAAAAA 58.867 45.455 0.00 0.00 42.00 1.94
2873 2894 2.364970 TCTCTACGTTTCCCCGTCAAAA 59.635 45.455 0.00 0.00 42.00 2.44
2874 2895 1.962807 TCTCTACGTTTCCCCGTCAAA 59.037 47.619 0.00 0.00 42.00 2.69
2875 2896 1.619654 TCTCTACGTTTCCCCGTCAA 58.380 50.000 0.00 0.00 42.00 3.18
2876 2897 1.843368 ATCTCTACGTTTCCCCGTCA 58.157 50.000 0.00 0.00 42.00 4.35
2877 2898 4.581077 AATATCTCTACGTTTCCCCGTC 57.419 45.455 0.00 0.00 42.00 4.79
2878 2899 5.506317 CGTAAATATCTCTACGTTTCCCCGT 60.506 44.000 0.00 0.00 44.50 5.28
2879 2900 4.913924 CGTAAATATCTCTACGTTTCCCCG 59.086 45.833 0.00 0.00 36.89 5.73
2880 2901 6.076981 TCGTAAATATCTCTACGTTTCCCC 57.923 41.667 0.00 0.00 41.26 4.81
2881 2902 7.167136 CAGTTCGTAAATATCTCTACGTTTCCC 59.833 40.741 0.00 0.35 41.26 3.97
2882 2903 7.699812 ACAGTTCGTAAATATCTCTACGTTTCC 59.300 37.037 0.00 1.51 41.26 3.13
2883 2904 8.612233 ACAGTTCGTAAATATCTCTACGTTTC 57.388 34.615 0.00 4.91 41.26 2.78
2884 2905 8.976986 AACAGTTCGTAAATATCTCTACGTTT 57.023 30.769 0.00 0.00 41.26 3.60
2890 2911 8.926710 CAGTGAAAACAGTTCGTAAATATCTCT 58.073 33.333 0.00 0.00 0.00 3.10
2909 2930 1.599518 AATGACGGCGGCAGTGAAA 60.600 52.632 24.18 0.00 0.00 2.69
2945 2966 2.414750 CAAACGGGTTGGCACTTCT 58.585 52.632 0.00 0.00 33.18 2.85
2978 3042 1.913419 TGATGTAGTTTGACCCCCTCC 59.087 52.381 0.00 0.00 0.00 4.30
2993 3057 3.431905 GCTGTCTGGAGATCACATGATGT 60.432 47.826 0.00 0.00 34.37 3.06
3005 3069 1.226802 CCATCGTCGCTGTCTGGAG 60.227 63.158 0.00 0.00 0.00 3.86
3008 3072 1.869574 CGTCCATCGTCGCTGTCTG 60.870 63.158 0.00 0.00 34.52 3.51
3009 3073 1.377366 ATCGTCCATCGTCGCTGTCT 61.377 55.000 0.00 0.00 40.80 3.41
3023 3087 1.134788 AGAAACACGGGATGGATCGTC 60.135 52.381 0.00 0.00 37.53 4.20
3030 3094 3.050703 CCGAGAGAAACACGGGATG 57.949 57.895 0.00 0.00 46.11 3.51
3074 3142 0.887387 GGTTGCTTTACCCTGCACGA 60.887 55.000 0.00 0.00 39.05 4.35
3084 3152 0.039035 AATGAGCCGGGGTTGCTTTA 59.961 50.000 2.18 0.00 39.69 1.85
3094 3162 1.462616 TGTGAATGGAAATGAGCCGG 58.537 50.000 0.00 0.00 0.00 6.13
3164 3314 2.113139 CAGACCAAACGGCCCACT 59.887 61.111 0.00 0.00 0.00 4.00
3210 3360 2.443781 ACCGAGGGTGCTCCACTA 59.556 61.111 7.20 0.00 38.24 2.74
3260 3416 1.595993 GACAGACAGCTAGGCCGTCA 61.596 60.000 9.94 0.00 31.92 4.35
3273 3433 5.495926 AATGGATGGATGGATAGACAGAC 57.504 43.478 0.00 0.00 0.00 3.51
3274 3434 5.370584 ACAAATGGATGGATGGATAGACAGA 59.629 40.000 0.00 0.00 0.00 3.41
3289 3449 2.166829 TGCCGCACTTAACAAATGGAT 58.833 42.857 0.00 0.00 0.00 3.41
3294 3454 1.015109 TCGTTGCCGCACTTAACAAA 58.985 45.000 0.00 0.00 0.00 2.83
3436 3605 0.792640 AAGCATTTCTCGTCGTGCAG 59.207 50.000 7.42 0.00 39.94 4.41
3453 3622 3.363970 CGTTTGGAATTCGTCTGACCAAG 60.364 47.826 1.55 0.00 40.80 3.61
3454 3623 2.546368 CGTTTGGAATTCGTCTGACCAA 59.454 45.455 1.55 0.00 38.58 3.67
3455 3624 2.139917 CGTTTGGAATTCGTCTGACCA 58.860 47.619 1.55 0.00 0.00 4.02
3456 3625 2.875080 CGTTTGGAATTCGTCTGACC 57.125 50.000 1.55 0.00 0.00 4.02


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

AutoCloner maintained by Alex Coulton.