Multiple sequence alignment - TraesCS4A01G345400

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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 TraesCS4A01G345400 chr4A 100.000 3066 0 0 1 3066 624924474 624927539 0.000000e+00 5662
1 TraesCS4A01G345400 chr1A 98.960 1346 10 1 1 1342 570156547 570155202 0.000000e+00 2405
2 TraesCS4A01G345400 chr1A 99.401 835 5 0 1341 2175 570154390 570153556 0.000000e+00 1515
3 TraesCS4A01G345400 chr5D 94.802 1289 48 8 1341 2613 545146606 545147891 0.000000e+00 1991
4 TraesCS4A01G345400 chr5D 83.079 721 74 24 661 1342 545145087 545145798 2.020000e-171 612
5 TraesCS4A01G345400 chr5D 98.969 194 2 0 2873 3066 545147890 545148083 6.290000e-92 348
6 TraesCS4A01G345400 chr5D 89.179 268 27 2 2608 2875 242373763 242374028 1.760000e-87 333
7 TraesCS4A01G345400 chr5B 90.806 1327 49 28 1341 2613 687746594 687747901 0.000000e+00 1707
8 TraesCS4A01G345400 chr5B 83.027 707 79 24 671 1342 687745064 687745764 1.220000e-168 603
9 TraesCS4A01G345400 chr5B 76.332 638 89 43 720 1340 687740223 687739631 5.000000e-73 285
10 TraesCS4A01G345400 chr5B 89.305 187 11 4 2873 3055 687747900 687748081 3.080000e-55 226
11 TraesCS4A01G345400 chr7D 90.602 266 22 2 2611 2876 131101255 131101517 1.750000e-92 350
12 TraesCS4A01G345400 chr7D 89.513 267 27 1 2609 2875 215783596 215783331 1.360000e-88 337
13 TraesCS4A01G345400 chr7D 80.569 211 37 4 438 645 100256979 100256770 3.160000e-35 159
14 TraesCS4A01G345400 chr7D 82.022 178 30 2 438 614 393115648 393115472 1.900000e-32 150
15 TraesCS4A01G345400 chr1D 91.339 254 20 1 2622 2875 486154617 486154366 2.260000e-91 346
16 TraesCS4A01G345400 chr7B 90.189 265 25 1 2611 2874 711060096 711060360 8.140000e-91 344
17 TraesCS4A01G345400 chr2B 89.051 274 28 1 2609 2882 42029824 42029553 3.790000e-89 339
18 TraesCS4A01G345400 chr3D 89.773 264 25 1 2612 2875 369414423 369414162 1.360000e-88 337
19 TraesCS4A01G345400 chr6B 88.971 272 26 3 2603 2874 510250944 510250677 1.760000e-87 333
20 TraesCS4A01G345400 chr6D 83.686 331 50 3 2603 2931 347715845 347716173 2.970000e-80 309
21 TraesCS4A01G345400 chr6D 81.735 219 28 11 417 629 469973129 469972917 4.060000e-39 172
22 TraesCS4A01G345400 chr6D 80.349 229 39 4 415 641 361225133 361225357 5.260000e-38 169
23 TraesCS4A01G345400 chr6D 78.899 218 36 8 414 629 298342963 298343172 4.120000e-29 139
24 TraesCS4A01G345400 chr2D 83.511 188 25 5 457 639 642259231 642259045 1.460000e-38 171
25 TraesCS4A01G345400 chr6A 80.349 229 39 5 415 641 502335226 502335450 5.260000e-38 169
26 TraesCS4A01G345400 chr3A 80.000 225 38 6 417 639 225654260 225654041 3.160000e-35 159


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 TraesCS4A01G345400 chr4A 624924474 624927539 3065 False 5662.000000 5662 100.000000 1 3066 1 chr4A.!!$F1 3065
1 TraesCS4A01G345400 chr1A 570153556 570156547 2991 True 1960.000000 2405 99.180500 1 2175 2 chr1A.!!$R1 2174
2 TraesCS4A01G345400 chr5D 545145087 545148083 2996 False 983.666667 1991 92.283333 661 3066 3 chr5D.!!$F2 2405
3 TraesCS4A01G345400 chr5B 687745064 687748081 3017 False 845.333333 1707 87.712667 671 3055 3 chr5B.!!$F1 2384
4 TraesCS4A01G345400 chr5B 687739631 687740223 592 True 285.000000 285 76.332000 720 1340 1 chr5B.!!$R1 620

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
36 37 0.324614 TTTCGCCTGCCAGATCTCAA 59.675 50.0 0.00 0.00 0.0 3.02 F
156 157 0.397941 CTCCATGCACCGGTGGATAT 59.602 55.0 36.96 18.68 43.2 1.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1884 2818 4.101942 CACATATTAATTGTTGCGGCGTT 58.898 39.130 9.37 0.0 0.00 4.84 R
2459 3422 4.385748 GCAAACTAGTGCATAAAAGGCAAC 59.614 41.667 0.00 0.0 43.91 4.17 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
36 37 0.324614 TTTCGCCTGCCAGATCTCAA 59.675 50.000 0.00 0.00 0.00 3.02
156 157 0.397941 CTCCATGCACCGGTGGATAT 59.602 55.000 36.96 18.68 43.20 1.63
207 208 2.783828 ACTAGCCAATCTGACGATCG 57.216 50.000 14.88 14.88 0.00 3.69
285 286 6.870965 CAGTAGTCTGATGCTTAGTGTTTTCT 59.129 38.462 0.00 0.00 43.76 2.52
967 990 3.303229 CACCTTCTGTTCAAAACGTTTGC 59.697 43.478 15.46 6.28 0.00 3.68
1439 2331 2.239654 ACCCATCCTCGACATGTTCAAT 59.760 45.455 0.00 0.00 0.00 2.57
1874 2808 1.669115 GCAAAGCAGCTCTCCGACA 60.669 57.895 0.00 0.00 0.00 4.35
2225 3188 9.996554 TTAGAGTTAACAAAATCTGATGAGTCA 57.003 29.630 8.61 0.00 0.00 3.41
2523 3486 8.032451 TCATTCACTTTTGAGTCGTATGTATCA 58.968 33.333 0.00 0.00 31.71 2.15
2616 3579 7.823149 ATCAACGTGTTACAAGTTATACTCC 57.177 36.000 15.43 0.00 34.21 3.85
2617 3580 6.158598 TCAACGTGTTACAAGTTATACTCCC 58.841 40.000 15.43 0.00 34.21 4.30
2618 3581 5.077134 ACGTGTTACAAGTTATACTCCCC 57.923 43.478 0.00 0.00 0.00 4.81
2619 3582 4.081476 ACGTGTTACAAGTTATACTCCCCC 60.081 45.833 0.00 0.00 0.00 5.40
2620 3583 4.161001 CGTGTTACAAGTTATACTCCCCCT 59.839 45.833 0.00 0.00 0.00 4.79
2621 3584 5.425630 GTGTTACAAGTTATACTCCCCCTG 58.574 45.833 0.00 0.00 0.00 4.45
2622 3585 5.046087 GTGTTACAAGTTATACTCCCCCTGT 60.046 44.000 0.00 0.00 0.00 4.00
2623 3586 5.548836 TGTTACAAGTTATACTCCCCCTGTT 59.451 40.000 0.00 0.00 0.00 3.16
2624 3587 4.838904 ACAAGTTATACTCCCCCTGTTC 57.161 45.455 0.00 0.00 0.00 3.18
2625 3588 3.522343 ACAAGTTATACTCCCCCTGTTCC 59.478 47.826 0.00 0.00 0.00 3.62
2626 3589 2.395619 AGTTATACTCCCCCTGTTCCG 58.604 52.381 0.00 0.00 0.00 4.30
2627 3590 2.113807 GTTATACTCCCCCTGTTCCGT 58.886 52.381 0.00 0.00 0.00 4.69
2628 3591 2.502947 GTTATACTCCCCCTGTTCCGTT 59.497 50.000 0.00 0.00 0.00 4.44
2629 3592 2.555732 ATACTCCCCCTGTTCCGTTA 57.444 50.000 0.00 0.00 0.00 3.18
2630 3593 2.555732 TACTCCCCCTGTTCCGTTAT 57.444 50.000 0.00 0.00 0.00 1.89
2631 3594 2.555732 ACTCCCCCTGTTCCGTTATA 57.444 50.000 0.00 0.00 0.00 0.98
2632 3595 3.056201 ACTCCCCCTGTTCCGTTATAT 57.944 47.619 0.00 0.00 0.00 0.86
2633 3596 4.203342 ACTCCCCCTGTTCCGTTATATA 57.797 45.455 0.00 0.00 0.00 0.86
2634 3597 4.559726 ACTCCCCCTGTTCCGTTATATAA 58.440 43.478 0.00 0.00 0.00 0.98
2635 3598 4.591924 ACTCCCCCTGTTCCGTTATATAAG 59.408 45.833 0.00 0.00 0.00 1.73
2636 3599 3.905591 TCCCCCTGTTCCGTTATATAAGG 59.094 47.826 7.99 7.99 0.00 2.69
2637 3600 3.649502 CCCCCTGTTCCGTTATATAAGGT 59.350 47.826 12.80 0.00 0.00 3.50
2638 3601 4.504340 CCCCCTGTTCCGTTATATAAGGTG 60.504 50.000 12.80 6.06 0.00 4.00
2639 3602 4.102054 CCCCTGTTCCGTTATATAAGGTGT 59.898 45.833 12.80 0.00 0.00 4.16
2640 3603 5.305128 CCCCTGTTCCGTTATATAAGGTGTA 59.695 44.000 12.80 0.00 0.00 2.90
2641 3604 6.013984 CCCCTGTTCCGTTATATAAGGTGTAT 60.014 42.308 12.80 0.00 0.00 2.29
2642 3605 7.447594 CCCTGTTCCGTTATATAAGGTGTATT 58.552 38.462 12.80 0.00 0.00 1.89
2643 3606 7.935210 CCCTGTTCCGTTATATAAGGTGTATTT 59.065 37.037 12.80 0.00 0.00 1.40
2644 3607 8.770828 CCTGTTCCGTTATATAAGGTGTATTTG 58.229 37.037 12.80 0.00 0.00 2.32
2645 3608 9.321562 CTGTTCCGTTATATAAGGTGTATTTGT 57.678 33.333 12.80 0.00 0.00 2.83
2646 3609 9.669887 TGTTCCGTTATATAAGGTGTATTTGTT 57.330 29.630 12.80 0.00 0.00 2.83
2668 3631 5.755330 TTTTTCAAAAGACAAACGAGTGC 57.245 34.783 0.00 0.00 0.00 4.40
2669 3632 4.427096 TTTCAAAAGACAAACGAGTGCA 57.573 36.364 0.00 0.00 0.00 4.57
2670 3633 4.630894 TTCAAAAGACAAACGAGTGCAT 57.369 36.364 0.00 0.00 0.00 3.96
2671 3634 3.951306 TCAAAAGACAAACGAGTGCATG 58.049 40.909 0.00 0.00 0.00 4.06
2672 3635 3.376859 TCAAAAGACAAACGAGTGCATGT 59.623 39.130 0.00 0.00 0.00 3.21
2673 3636 4.104776 CAAAAGACAAACGAGTGCATGTT 58.895 39.130 0.00 0.00 0.00 2.71
2674 3637 4.370364 AAAGACAAACGAGTGCATGTTT 57.630 36.364 8.36 8.36 38.76 2.83
2678 3641 2.774439 AAACGAGTGCATGTTTGACC 57.226 45.000 12.15 0.00 36.96 4.02
2679 3642 1.674359 AACGAGTGCATGTTTGACCA 58.326 45.000 0.00 0.00 0.00 4.02
2680 3643 1.674359 ACGAGTGCATGTTTGACCAA 58.326 45.000 0.00 0.00 0.00 3.67
2681 3644 1.603802 ACGAGTGCATGTTTGACCAAG 59.396 47.619 0.00 0.00 0.00 3.61
2682 3645 1.603802 CGAGTGCATGTTTGACCAAGT 59.396 47.619 0.00 0.00 0.00 3.16
2683 3646 2.033299 CGAGTGCATGTTTGACCAAGTT 59.967 45.455 0.00 0.00 0.00 2.66
2684 3647 3.489059 CGAGTGCATGTTTGACCAAGTTT 60.489 43.478 0.00 0.00 0.00 2.66
2685 3648 4.432712 GAGTGCATGTTTGACCAAGTTTT 58.567 39.130 0.00 0.00 0.00 2.43
2686 3649 4.831107 AGTGCATGTTTGACCAAGTTTTT 58.169 34.783 0.00 0.00 0.00 1.94
2824 3787 5.867903 TCTTGGTCAAACATTCAAATGGT 57.132 34.783 7.58 0.00 40.70 3.55
2825 3788 6.232581 TCTTGGTCAAACATTCAAATGGTT 57.767 33.333 7.58 4.05 46.69 3.67
2835 3798 5.757886 ACATTCAAATGGTTGACTTGTACG 58.242 37.500 7.58 0.00 43.52 3.67
2836 3799 4.822036 TTCAAATGGTTGACTTGTACGG 57.178 40.909 0.00 0.00 43.52 4.02
2837 3800 4.074627 TCAAATGGTTGACTTGTACGGA 57.925 40.909 0.00 0.00 38.88 4.69
2838 3801 4.452825 TCAAATGGTTGACTTGTACGGAA 58.547 39.130 0.00 0.00 38.88 4.30
2839 3802 4.882427 TCAAATGGTTGACTTGTACGGAAA 59.118 37.500 0.00 0.00 38.88 3.13
2840 3803 5.533154 TCAAATGGTTGACTTGTACGGAAAT 59.467 36.000 0.00 0.00 38.88 2.17
2841 3804 5.622770 AATGGTTGACTTGTACGGAAATC 57.377 39.130 0.00 0.00 0.00 2.17
2842 3805 4.074627 TGGTTGACTTGTACGGAAATCA 57.925 40.909 0.00 0.00 0.00 2.57
2843 3806 4.452825 TGGTTGACTTGTACGGAAATCAA 58.547 39.130 0.00 0.00 0.00 2.57
2844 3807 5.067273 TGGTTGACTTGTACGGAAATCAAT 58.933 37.500 0.00 0.00 0.00 2.57
2845 3808 6.231951 TGGTTGACTTGTACGGAAATCAATA 58.768 36.000 0.00 0.00 0.00 1.90
2846 3809 6.148150 TGGTTGACTTGTACGGAAATCAATAC 59.852 38.462 0.00 0.00 0.00 1.89
2847 3810 6.148150 GGTTGACTTGTACGGAAATCAATACA 59.852 38.462 0.00 0.00 0.00 2.29
2848 3811 6.715344 TGACTTGTACGGAAATCAATACAC 57.285 37.500 0.00 0.00 0.00 2.90
2849 3812 5.640357 TGACTTGTACGGAAATCAATACACC 59.360 40.000 0.00 0.00 0.00 4.16
2850 3813 5.801380 ACTTGTACGGAAATCAATACACCT 58.199 37.500 0.00 0.00 0.00 4.00
2851 3814 6.235664 ACTTGTACGGAAATCAATACACCTT 58.764 36.000 0.00 0.00 0.00 3.50
2852 3815 6.713450 ACTTGTACGGAAATCAATACACCTTT 59.287 34.615 0.00 0.00 0.00 3.11
2853 3816 7.229907 ACTTGTACGGAAATCAATACACCTTTT 59.770 33.333 0.00 0.00 0.00 2.27
2854 3817 8.618702 TTGTACGGAAATCAATACACCTTTTA 57.381 30.769 0.00 0.00 0.00 1.52
2855 3818 8.795842 TGTACGGAAATCAATACACCTTTTAT 57.204 30.769 0.00 0.00 0.00 1.40
2856 3819 9.233649 TGTACGGAAATCAATACACCTTTTATT 57.766 29.630 0.00 0.00 0.00 1.40
2857 3820 9.712359 GTACGGAAATCAATACACCTTTTATTC 57.288 33.333 0.00 0.00 0.00 1.75
2858 3821 8.575649 ACGGAAATCAATACACCTTTTATTCT 57.424 30.769 0.00 0.00 0.00 2.40
2859 3822 8.458843 ACGGAAATCAATACACCTTTTATTCTG 58.541 33.333 0.00 0.00 0.00 3.02
2860 3823 7.915397 CGGAAATCAATACACCTTTTATTCTGG 59.085 37.037 0.00 0.00 0.00 3.86
2861 3824 8.966868 GGAAATCAATACACCTTTTATTCTGGA 58.033 33.333 0.00 0.00 0.00 3.86
2864 3827 7.372451 TCAATACACCTTTTATTCTGGAACG 57.628 36.000 0.00 0.00 0.00 3.95
2865 3828 7.162761 TCAATACACCTTTTATTCTGGAACGA 58.837 34.615 0.00 0.00 0.00 3.85
2866 3829 7.662258 TCAATACACCTTTTATTCTGGAACGAA 59.338 33.333 0.00 0.00 0.00 3.85
2867 3830 5.941948 ACACCTTTTATTCTGGAACGAAG 57.058 39.130 0.00 0.00 0.00 3.79
2868 3831 4.760204 ACACCTTTTATTCTGGAACGAAGG 59.240 41.667 14.24 14.24 0.00 3.46
2869 3832 4.156008 CACCTTTTATTCTGGAACGAAGGG 59.844 45.833 17.44 12.55 0.00 3.95
2870 3833 4.042435 ACCTTTTATTCTGGAACGAAGGGA 59.958 41.667 17.44 0.00 0.00 4.20
2871 3834 4.636206 CCTTTTATTCTGGAACGAAGGGAG 59.364 45.833 0.00 0.00 0.00 4.30
2872 3835 4.903045 TTTATTCTGGAACGAAGGGAGT 57.097 40.909 0.00 0.00 0.00 3.85
2873 3836 6.363167 TTTTATTCTGGAACGAAGGGAGTA 57.637 37.500 0.00 0.00 0.00 2.59
2994 3959 9.563748 CCCTTCGGATGTATTATAAAAAGGTAA 57.436 33.333 0.00 0.00 30.99 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 0.949105 GGGCAAGTCATCGAACACGT 60.949 55.000 0.00 0.00 0.00 4.49
156 157 5.000591 TGCGTGATTTCTGGATTTGAAGTA 58.999 37.500 0.00 0.00 0.00 2.24
207 208 3.070018 CCATCCGATCAGATAACAAGCC 58.930 50.000 0.00 0.00 0.00 4.35
622 623 2.024176 TGATTTGCTAGTTCCCTCGC 57.976 50.000 0.00 0.00 0.00 5.03
967 990 2.117156 CGAGGCCAGGCTCAAATGG 61.117 63.158 19.77 0.00 39.73 3.16
1884 2818 4.101942 CACATATTAATTGTTGCGGCGTT 58.898 39.130 9.37 0.00 0.00 4.84
2459 3422 4.385748 GCAAACTAGTGCATAAAAGGCAAC 59.614 41.667 0.00 0.00 43.91 4.17
2523 3486 4.158025 CAGAACGGAGAGGTTACATACACT 59.842 45.833 0.00 0.00 0.00 3.55
2613 3576 4.020485 CCTTATATAACGGAACAGGGGGAG 60.020 50.000 5.49 0.00 0.00 4.30
2614 3577 3.905591 CCTTATATAACGGAACAGGGGGA 59.094 47.826 5.49 0.00 0.00 4.81
2615 3578 3.649502 ACCTTATATAACGGAACAGGGGG 59.350 47.826 14.32 4.11 0.00 5.40
2616 3579 4.102054 ACACCTTATATAACGGAACAGGGG 59.898 45.833 14.32 6.55 0.00 4.79
2617 3580 5.286267 ACACCTTATATAACGGAACAGGG 57.714 43.478 14.32 5.24 0.00 4.45
2618 3581 8.770828 CAAATACACCTTATATAACGGAACAGG 58.229 37.037 14.32 5.68 0.00 4.00
2619 3582 9.321562 ACAAATACACCTTATATAACGGAACAG 57.678 33.333 14.32 6.81 0.00 3.16
2620 3583 9.669887 AACAAATACACCTTATATAACGGAACA 57.330 29.630 14.32 3.54 0.00 3.18
2646 3609 5.223382 TGCACTCGTTTGTCTTTTGAAAAA 58.777 33.333 0.00 0.00 33.54 1.94
2647 3610 4.799678 TGCACTCGTTTGTCTTTTGAAAA 58.200 34.783 0.00 0.00 0.00 2.29
2648 3611 4.427096 TGCACTCGTTTGTCTTTTGAAA 57.573 36.364 0.00 0.00 0.00 2.69
2649 3612 4.142491 ACATGCACTCGTTTGTCTTTTGAA 60.142 37.500 0.00 0.00 0.00 2.69
2650 3613 3.376859 ACATGCACTCGTTTGTCTTTTGA 59.623 39.130 0.00 0.00 0.00 2.69
2651 3614 3.694734 ACATGCACTCGTTTGTCTTTTG 58.305 40.909 0.00 0.00 0.00 2.44
2652 3615 4.370364 AACATGCACTCGTTTGTCTTTT 57.630 36.364 0.00 0.00 0.00 2.27
2653 3616 4.104776 CAAACATGCACTCGTTTGTCTTT 58.895 39.130 21.49 0.23 44.39 2.52
2654 3617 3.694734 CAAACATGCACTCGTTTGTCTT 58.305 40.909 21.49 4.63 44.39 3.01
2655 3618 3.338818 CAAACATGCACTCGTTTGTCT 57.661 42.857 21.49 0.00 44.39 3.41
2659 3622 2.020720 TGGTCAAACATGCACTCGTTT 58.979 42.857 5.20 5.20 35.76 3.60
2660 3623 1.674359 TGGTCAAACATGCACTCGTT 58.326 45.000 0.00 0.00 0.00 3.85
2661 3624 1.603802 CTTGGTCAAACATGCACTCGT 59.396 47.619 0.00 0.00 0.00 4.18
2662 3625 1.603802 ACTTGGTCAAACATGCACTCG 59.396 47.619 0.00 0.00 0.00 4.18
2663 3626 3.715628 AACTTGGTCAAACATGCACTC 57.284 42.857 0.00 0.00 0.00 3.51
2664 3627 4.470334 AAAACTTGGTCAAACATGCACT 57.530 36.364 0.00 0.00 0.00 4.40
2798 3761 8.596293 ACCATTTGAATGTTTGACCAAGATTAT 58.404 29.630 3.30 0.00 34.60 1.28
2799 3762 7.961351 ACCATTTGAATGTTTGACCAAGATTA 58.039 30.769 3.30 0.00 34.60 1.75
2800 3763 6.829849 ACCATTTGAATGTTTGACCAAGATT 58.170 32.000 3.30 0.00 34.60 2.40
2801 3764 6.423776 ACCATTTGAATGTTTGACCAAGAT 57.576 33.333 3.30 0.00 34.60 2.40
2802 3765 5.867903 ACCATTTGAATGTTTGACCAAGA 57.132 34.783 3.30 0.00 34.60 3.02
2803 3766 6.047870 TCAACCATTTGAATGTTTGACCAAG 58.952 36.000 11.22 0.00 41.11 3.61
2804 3767 5.982356 TCAACCATTTGAATGTTTGACCAA 58.018 33.333 11.22 0.00 41.11 3.67
2805 3768 5.604758 TCAACCATTTGAATGTTTGACCA 57.395 34.783 11.22 0.00 41.11 4.02
2808 3771 6.638610 ACAAGTCAACCATTTGAATGTTTGA 58.361 32.000 11.22 11.22 42.89 2.69
2809 3772 6.907206 ACAAGTCAACCATTTGAATGTTTG 57.093 33.333 7.44 7.44 43.52 2.93
2810 3773 6.695278 CGTACAAGTCAACCATTTGAATGTTT 59.305 34.615 10.55 0.00 43.52 2.83
2811 3774 6.205784 CGTACAAGTCAACCATTTGAATGTT 58.794 36.000 10.55 0.00 43.52 2.71
2812 3775 5.278266 CCGTACAAGTCAACCATTTGAATGT 60.278 40.000 10.27 10.27 43.52 2.71
2813 3776 5.049060 TCCGTACAAGTCAACCATTTGAATG 60.049 40.000 0.00 0.00 43.52 2.67
2814 3777 5.067273 TCCGTACAAGTCAACCATTTGAAT 58.933 37.500 0.00 0.00 43.52 2.57
2815 3778 4.452825 TCCGTACAAGTCAACCATTTGAA 58.547 39.130 0.00 0.00 43.52 2.69
2816 3779 4.074627 TCCGTACAAGTCAACCATTTGA 57.925 40.909 0.00 0.00 39.55 2.69
2817 3780 4.822036 TTCCGTACAAGTCAACCATTTG 57.178 40.909 0.00 0.00 0.00 2.32
2818 3781 5.533154 TGATTTCCGTACAAGTCAACCATTT 59.467 36.000 0.00 0.00 0.00 2.32
2819 3782 5.067273 TGATTTCCGTACAAGTCAACCATT 58.933 37.500 0.00 0.00 0.00 3.16
2820 3783 4.647611 TGATTTCCGTACAAGTCAACCAT 58.352 39.130 0.00 0.00 0.00 3.55
2821 3784 4.074627 TGATTTCCGTACAAGTCAACCA 57.925 40.909 0.00 0.00 0.00 3.67
2822 3785 5.622770 ATTGATTTCCGTACAAGTCAACC 57.377 39.130 6.16 0.00 35.53 3.77
2823 3786 7.013529 GTGTATTGATTTCCGTACAAGTCAAC 58.986 38.462 6.16 0.00 35.53 3.18
2824 3787 6.148150 GGTGTATTGATTTCCGTACAAGTCAA 59.852 38.462 6.41 6.41 36.69 3.18
2825 3788 5.640357 GGTGTATTGATTTCCGTACAAGTCA 59.360 40.000 0.00 0.00 0.00 3.41
2826 3789 5.873164 AGGTGTATTGATTTCCGTACAAGTC 59.127 40.000 0.00 0.00 0.00 3.01
2827 3790 5.801380 AGGTGTATTGATTTCCGTACAAGT 58.199 37.500 0.00 0.00 0.00 3.16
2828 3791 6.737254 AAGGTGTATTGATTTCCGTACAAG 57.263 37.500 0.00 0.00 0.00 3.16
2829 3792 7.513371 AAAAGGTGTATTGATTTCCGTACAA 57.487 32.000 0.00 0.00 0.00 2.41
2830 3793 8.795842 ATAAAAGGTGTATTGATTTCCGTACA 57.204 30.769 0.00 0.00 0.00 2.90
2831 3794 9.712359 GAATAAAAGGTGTATTGATTTCCGTAC 57.288 33.333 0.00 0.00 0.00 3.67
2832 3795 9.675464 AGAATAAAAGGTGTATTGATTTCCGTA 57.325 29.630 0.00 0.00 0.00 4.02
2833 3796 8.458843 CAGAATAAAAGGTGTATTGATTTCCGT 58.541 33.333 0.00 0.00 0.00 4.69
2834 3797 7.915397 CCAGAATAAAAGGTGTATTGATTTCCG 59.085 37.037 0.00 0.00 0.00 4.30
2835 3798 8.966868 TCCAGAATAAAAGGTGTATTGATTTCC 58.033 33.333 0.00 0.00 0.00 3.13
2838 3801 8.458843 CGTTCCAGAATAAAAGGTGTATTGATT 58.541 33.333 0.00 0.00 0.00 2.57
2839 3802 7.827236 TCGTTCCAGAATAAAAGGTGTATTGAT 59.173 33.333 0.00 0.00 0.00 2.57
2840 3803 7.162761 TCGTTCCAGAATAAAAGGTGTATTGA 58.837 34.615 0.00 0.00 0.00 2.57
2841 3804 7.372451 TCGTTCCAGAATAAAAGGTGTATTG 57.628 36.000 0.00 0.00 0.00 1.90
2842 3805 7.120726 CCTTCGTTCCAGAATAAAAGGTGTATT 59.879 37.037 8.89 0.00 0.00 1.89
2843 3806 6.598064 CCTTCGTTCCAGAATAAAAGGTGTAT 59.402 38.462 8.89 0.00 0.00 2.29
2844 3807 5.935789 CCTTCGTTCCAGAATAAAAGGTGTA 59.064 40.000 8.89 0.00 0.00 2.90
2845 3808 4.760204 CCTTCGTTCCAGAATAAAAGGTGT 59.240 41.667 8.89 0.00 0.00 4.16
2846 3809 4.156008 CCCTTCGTTCCAGAATAAAAGGTG 59.844 45.833 13.11 5.72 0.00 4.00
2847 3810 4.042435 TCCCTTCGTTCCAGAATAAAAGGT 59.958 41.667 13.11 0.00 0.00 3.50
2848 3811 4.585879 TCCCTTCGTTCCAGAATAAAAGG 58.414 43.478 9.64 9.64 0.00 3.11
2849 3812 5.246307 ACTCCCTTCGTTCCAGAATAAAAG 58.754 41.667 0.00 0.00 0.00 2.27
2850 3813 5.237236 ACTCCCTTCGTTCCAGAATAAAA 57.763 39.130 0.00 0.00 0.00 1.52
2851 3814 4.903045 ACTCCCTTCGTTCCAGAATAAA 57.097 40.909 0.00 0.00 0.00 1.40
2852 3815 5.424252 ACATACTCCCTTCGTTCCAGAATAA 59.576 40.000 0.00 0.00 0.00 1.40
2853 3816 4.960469 ACATACTCCCTTCGTTCCAGAATA 59.040 41.667 0.00 0.00 0.00 1.75
2854 3817 3.775316 ACATACTCCCTTCGTTCCAGAAT 59.225 43.478 0.00 0.00 0.00 2.40
2855 3818 3.170717 ACATACTCCCTTCGTTCCAGAA 58.829 45.455 0.00 0.00 0.00 3.02
2856 3819 2.816411 ACATACTCCCTTCGTTCCAGA 58.184 47.619 0.00 0.00 0.00 3.86
2857 3820 3.611766 AACATACTCCCTTCGTTCCAG 57.388 47.619 0.00 0.00 0.00 3.86
2858 3821 6.154877 TGTTATAACATACTCCCTTCGTTCCA 59.845 38.462 14.35 0.00 33.17 3.53
2859 3822 6.576185 TGTTATAACATACTCCCTTCGTTCC 58.424 40.000 14.35 0.00 33.17 3.62
2860 3823 7.546667 TGTTGTTATAACATACTCCCTTCGTTC 59.453 37.037 18.69 0.00 38.95 3.95
2861 3824 7.388437 TGTTGTTATAACATACTCCCTTCGTT 58.612 34.615 18.69 0.00 38.95 3.85
2862 3825 6.938507 TGTTGTTATAACATACTCCCTTCGT 58.061 36.000 18.69 0.00 38.95 3.85
2994 3959 3.251004 CGGCTTACAAGTTGCTCTTTCTT 59.749 43.478 1.81 0.00 33.63 2.52


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

AutoCloner maintained by Alex Coulton.