Multiple sequence alignment - TraesCS4B01G208700

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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 TraesCS4B01G208700 chr4B 100.000 3344 0 0 1 3344 446202806 446199463 0.000000e+00 6176.0
1 TraesCS4B01G208700 chr4B 94.175 103 6 0 2599 2701 109316570 109316672 1.240000e-34 158.0
2 TraesCS4B01G208700 chr4D 94.874 2185 75 11 393 2549 360914229 360912054 0.000000e+00 3380.0
3 TraesCS4B01G208700 chr4D 90.940 298 9 4 1 295 360914699 360914417 5.230000e-103 385.0
4 TraesCS4B01G208700 chr4D 79.710 138 20 6 2645 2777 230911424 230911290 3.550000e-15 93.5
5 TraesCS4B01G208700 chr4A 93.315 1855 86 24 698 2549 103784242 103786061 0.000000e+00 2704.0
6 TraesCS4B01G208700 chr4A 90.936 342 19 6 366 695 103783866 103784207 1.830000e-122 449.0
7 TraesCS4B01G208700 chr4A 92.975 242 10 3 30 270 103783470 103783705 2.470000e-91 346.0
8 TraesCS4B01G208700 chr3B 95.604 546 23 1 2800 3344 803481616 803482161 0.000000e+00 874.0
9 TraesCS4B01G208700 chr3B 95.421 546 24 1 2800 3344 545798779 545798234 0.000000e+00 869.0
10 TraesCS4B01G208700 chr3B 75.000 772 148 34 1579 2332 620665496 620664752 6.960000e-82 315.0
11 TraesCS4B01G208700 chr3B 89.655 87 5 4 2703 2787 215604364 215604280 1.270000e-19 108.0
12 TraesCS4B01G208700 chr7B 95.109 552 25 2 2793 3344 147158320 147157771 0.000000e+00 869.0
13 TraesCS4B01G208700 chr7B 94.928 552 26 2 2793 3344 747248776 747248227 0.000000e+00 863.0
14 TraesCS4B01G208700 chr2B 95.100 551 27 0 2794 3344 335462932 335463482 0.000000e+00 869.0
15 TraesCS4B01G208700 chr2B 95.229 545 26 0 2800 3344 575377619 575377075 0.000000e+00 863.0
16 TraesCS4B01G208700 chr2D 93.728 574 30 6 2777 3344 486304777 486304204 0.000000e+00 856.0
17 TraesCS4B01G208700 chr2D 93.961 563 30 4 2785 3344 70391955 70391394 0.000000e+00 848.0
18 TraesCS4B01G208700 chr5B 93.772 562 33 2 2785 3344 703477172 703477733 0.000000e+00 843.0
19 TraesCS4B01G208700 chr5B 78.363 171 21 11 2603 2769 403858382 403858224 2.750000e-16 97.1
20 TraesCS4B01G208700 chr3D 75.323 774 142 36 1579 2332 466754740 466753996 3.220000e-85 326.0
21 TraesCS4B01G208700 chr3A 74.805 770 151 31 1580 2332 609828415 609827672 1.170000e-79 307.0
22 TraesCS4B01G208700 chr3A 85.714 168 16 5 2599 2766 102271410 102271251 1.600000e-38 171.0
23 TraesCS4B01G208700 chr3A 78.142 183 32 5 2599 2775 641881859 641881679 3.530000e-20 110.0
24 TraesCS4B01G208700 chr2A 90.588 170 15 1 2599 2768 603524788 603524620 1.210000e-54 224.0
25 TraesCS4B01G208700 chr6B 87.349 166 17 2 2603 2768 650933639 650933478 1.580000e-43 187.0
26 TraesCS4B01G208700 chr6B 94.231 104 6 0 2599 2702 544695916 544695813 3.450000e-35 159.0
27 TraesCS4B01G208700 chr7A 84.043 188 23 6 2603 2787 680825282 680825099 1.230000e-39 174.0
28 TraesCS4B01G208700 chr5A 91.339 127 9 1 2575 2701 136641981 136642105 4.440000e-39 172.0
29 TraesCS4B01G208700 chr1B 94.175 103 6 0 2599 2701 497823362 497823464 1.240000e-34 158.0
30 TraesCS4B01G208700 chr7D 80.838 167 26 3 2599 2762 5376936 5376773 3.500000e-25 126.0


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 TraesCS4B01G208700 chr4B 446199463 446202806 3343 True 6176.000000 6176 100.000000 1 3344 1 chr4B.!!$R1 3343
1 TraesCS4B01G208700 chr4D 360912054 360914699 2645 True 1882.500000 3380 92.907000 1 2549 2 chr4D.!!$R2 2548
2 TraesCS4B01G208700 chr4A 103783470 103786061 2591 False 1166.333333 2704 92.408667 30 2549 3 chr4A.!!$F1 2519
3 TraesCS4B01G208700 chr3B 803481616 803482161 545 False 874.000000 874 95.604000 2800 3344 1 chr3B.!!$F1 544
4 TraesCS4B01G208700 chr3B 545798234 545798779 545 True 869.000000 869 95.421000 2800 3344 1 chr3B.!!$R2 544
5 TraesCS4B01G208700 chr3B 620664752 620665496 744 True 315.000000 315 75.000000 1579 2332 1 chr3B.!!$R3 753
6 TraesCS4B01G208700 chr7B 147157771 147158320 549 True 869.000000 869 95.109000 2793 3344 1 chr7B.!!$R1 551
7 TraesCS4B01G208700 chr7B 747248227 747248776 549 True 863.000000 863 94.928000 2793 3344 1 chr7B.!!$R2 551
8 TraesCS4B01G208700 chr2B 335462932 335463482 550 False 869.000000 869 95.100000 2794 3344 1 chr2B.!!$F1 550
9 TraesCS4B01G208700 chr2B 575377075 575377619 544 True 863.000000 863 95.229000 2800 3344 1 chr2B.!!$R1 544
10 TraesCS4B01G208700 chr2D 486304204 486304777 573 True 856.000000 856 93.728000 2777 3344 1 chr2D.!!$R2 567
11 TraesCS4B01G208700 chr2D 70391394 70391955 561 True 848.000000 848 93.961000 2785 3344 1 chr2D.!!$R1 559
12 TraesCS4B01G208700 chr5B 703477172 703477733 561 False 843.000000 843 93.772000 2785 3344 1 chr5B.!!$F1 559
13 TraesCS4B01G208700 chr3D 466753996 466754740 744 True 326.000000 326 75.323000 1579 2332 1 chr3D.!!$R1 753
14 TraesCS4B01G208700 chr3A 609827672 609828415 743 True 307.000000 307 74.805000 1580 2332 1 chr3A.!!$R2 752

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 0.323629 AACGGATGGGGTACACTGTG 59.676 55.0 6.19 6.19 0.00 3.66 F
300 338 0.597568 TGGCTCCGCTGTGAAATTTG 59.402 50.0 0.00 0.00 0.00 2.32 F
1236 1440 0.033504 AGAACGTCACGATGGTGCTT 59.966 50.0 2.91 0.00 44.03 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1091 1295 1.003233 GCAAGAAGAACCGCTCCCT 60.003 57.895 0.0 0.0 0.0 4.20 R
1680 1884 2.123077 CCGAGGAGGAGGATGCCT 60.123 66.667 0.0 0.0 45.0 4.75 R
2624 2846 0.036388 CTCATGTGGTTAGGGTGCGT 60.036 55.000 0.0 0.0 0.0 5.24 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 0.323629 AACGGATGGGGTACACTGTG 59.676 55.000 6.19 6.19 0.00 3.66
78 79 2.139917 TGTTGCTTCGCTTTCACGTAT 58.860 42.857 0.00 0.00 0.00 3.06
79 80 2.096466 TGTTGCTTCGCTTTCACGTATG 60.096 45.455 0.00 0.00 0.00 2.39
80 81 2.073117 TGCTTCGCTTTCACGTATGA 57.927 45.000 0.00 0.00 0.00 2.15
81 82 2.409012 TGCTTCGCTTTCACGTATGAA 58.591 42.857 0.00 0.00 43.28 2.57
300 338 0.597568 TGGCTCCGCTGTGAAATTTG 59.402 50.000 0.00 0.00 0.00 2.32
374 490 0.761323 TCTCGTGGGTTCCCTGTGAA 60.761 55.000 9.43 0.00 0.00 3.18
539 660 1.228644 TTGCCCTGAACAGCTGCAT 60.229 52.632 15.27 2.22 35.58 3.96
622 750 3.686726 CCTCTTGTATTGTTGTCTCTGGC 59.313 47.826 0.00 0.00 0.00 4.85
695 828 3.404773 GGACCCTGTCCCCTTCTG 58.595 66.667 1.68 0.00 46.19 3.02
751 933 2.942796 CGTCCTGCCACTGCCACTA 61.943 63.158 0.00 0.00 36.33 2.74
787 981 1.201414 CCGGGTGCTTATGGAAAACAC 59.799 52.381 0.00 0.00 0.00 3.32
788 982 1.135803 CGGGTGCTTATGGAAAACACG 60.136 52.381 0.00 0.00 32.00 4.49
789 983 1.402325 GGGTGCTTATGGAAAACACGC 60.402 52.381 0.00 0.00 37.09 5.34
790 984 1.402325 GGTGCTTATGGAAAACACGCC 60.402 52.381 0.00 0.00 32.00 5.68
791 985 1.268352 GTGCTTATGGAAAACACGCCA 59.732 47.619 0.00 0.00 38.78 5.69
792 986 1.539388 TGCTTATGGAAAACACGCCAG 59.461 47.619 0.00 0.00 37.64 4.85
793 987 1.810151 GCTTATGGAAAACACGCCAGA 59.190 47.619 0.00 0.00 37.64 3.86
794 988 2.227865 GCTTATGGAAAACACGCCAGAA 59.772 45.455 0.00 0.00 37.64 3.02
795 989 3.305064 GCTTATGGAAAACACGCCAGAAA 60.305 43.478 0.00 0.00 35.23 2.52
823 1017 2.579787 CGACGACGGGTCAGATGC 60.580 66.667 0.00 0.00 46.42 3.91
831 1026 3.609644 CGACGGGTCAGATGCTAATACTC 60.610 52.174 0.00 0.00 0.00 2.59
853 1052 2.105477 TCCATGGAAGCAGATTAGGAGC 59.895 50.000 13.46 0.00 0.00 4.70
934 1133 1.745087 CTGCAGTTGGTTGACAGTTGT 59.255 47.619 5.25 0.00 0.00 3.32
938 1137 3.181487 GCAGTTGGTTGACAGTTGTTCAT 60.181 43.478 0.00 0.00 0.00 2.57
1079 1283 2.125673 CCACGGCGTTGGTAGAGG 60.126 66.667 11.19 2.11 0.00 3.69
1091 1295 1.381872 GTAGAGGAGGCAGGGCTGA 60.382 63.158 0.00 0.00 0.00 4.26
1108 1312 0.321671 TGAGGGAGCGGTTCTTCTTG 59.678 55.000 6.58 0.00 0.00 3.02
1183 1387 1.073025 TTCCGCCACAATGTGAGCT 59.927 52.632 15.91 0.00 35.23 4.09
1236 1440 0.033504 AGAACGTCACGATGGTGCTT 59.966 50.000 2.91 0.00 44.03 3.91
1317 1521 1.512734 GTTCAATGCGGCAGCTTCG 60.513 57.895 10.92 2.16 45.42 3.79
1319 1523 1.911293 TTCAATGCGGCAGCTTCGTC 61.911 55.000 10.92 2.16 45.42 4.20
1483 1687 1.227823 CTGGTTGCCGACACCTTCA 60.228 57.895 0.00 0.00 0.00 3.02
1543 1747 0.390860 CACCTCCTATTCCTCCAGCG 59.609 60.000 0.00 0.00 0.00 5.18
1669 1873 2.138179 GCCTACTGTATCGCCCCCA 61.138 63.158 0.00 0.00 0.00 4.96
1881 2088 4.849310 GGCGCCGGGCAGACAATA 62.849 66.667 20.71 0.00 46.16 1.90
2363 2573 4.357918 AGTTCTTGTCTAGTGGCATTGT 57.642 40.909 0.00 0.00 0.00 2.71
2446 2665 0.874607 GGGCACGTATCGTTAGCAGG 60.875 60.000 0.00 0.00 38.32 4.85
2607 2829 9.494271 TTTTAGCATCAGTATAGACATTCATCC 57.506 33.333 0.00 0.00 0.00 3.51
2608 2830 6.047511 AGCATCAGTATAGACATTCATCCC 57.952 41.667 0.00 0.00 0.00 3.85
2609 2831 5.784390 AGCATCAGTATAGACATTCATCCCT 59.216 40.000 0.00 0.00 0.00 4.20
2610 2832 6.956435 AGCATCAGTATAGACATTCATCCCTA 59.044 38.462 0.00 0.00 0.00 3.53
2611 2833 7.622878 AGCATCAGTATAGACATTCATCCCTAT 59.377 37.037 0.00 0.00 0.00 2.57
2612 2834 7.710044 GCATCAGTATAGACATTCATCCCTATG 59.290 40.741 0.00 0.00 0.00 2.23
2613 2835 8.975295 CATCAGTATAGACATTCATCCCTATGA 58.025 37.037 0.00 0.00 40.43 2.15
2621 2843 2.309528 TCATCCCTATGAACGCACAC 57.690 50.000 0.00 0.00 39.20 3.82
2622 2844 1.552792 TCATCCCTATGAACGCACACA 59.447 47.619 0.00 0.00 39.20 3.72
2623 2845 1.665679 CATCCCTATGAACGCACACAC 59.334 52.381 0.00 0.00 34.84 3.82
2624 2846 0.682292 TCCCTATGAACGCACACACA 59.318 50.000 0.00 0.00 0.00 3.72
2625 2847 0.796312 CCCTATGAACGCACACACAC 59.204 55.000 0.00 0.00 0.00 3.82
2626 2848 0.438445 CCTATGAACGCACACACACG 59.562 55.000 0.00 0.00 0.00 4.49
2627 2849 0.179250 CTATGAACGCACACACACGC 60.179 55.000 0.00 0.00 0.00 5.34
2628 2850 0.876342 TATGAACGCACACACACGCA 60.876 50.000 0.00 0.00 0.00 5.24
2629 2851 2.350760 GAACGCACACACACGCAC 60.351 61.111 0.00 0.00 0.00 5.34
2630 2852 3.783588 GAACGCACACACACGCACC 62.784 63.158 0.00 0.00 0.00 5.01
2633 2855 2.280524 GCACACACACGCACCCTA 60.281 61.111 0.00 0.00 0.00 3.53
2634 2856 1.890041 GCACACACACGCACCCTAA 60.890 57.895 0.00 0.00 0.00 2.69
2635 2857 1.938861 CACACACACGCACCCTAAC 59.061 57.895 0.00 0.00 0.00 2.34
2636 2858 1.227734 ACACACACGCACCCTAACC 60.228 57.895 0.00 0.00 0.00 2.85
2637 2859 1.227704 CACACACGCACCCTAACCA 60.228 57.895 0.00 0.00 0.00 3.67
2638 2860 1.227734 ACACACGCACCCTAACCAC 60.228 57.895 0.00 0.00 0.00 4.16
2639 2861 1.227704 CACACGCACCCTAACCACA 60.228 57.895 0.00 0.00 0.00 4.17
2640 2862 0.605319 CACACGCACCCTAACCACAT 60.605 55.000 0.00 0.00 0.00 3.21
2641 2863 0.605319 ACACGCACCCTAACCACATG 60.605 55.000 0.00 0.00 0.00 3.21
2642 2864 0.321210 CACGCACCCTAACCACATGA 60.321 55.000 0.00 0.00 0.00 3.07
2643 2865 0.036388 ACGCACCCTAACCACATGAG 60.036 55.000 0.00 0.00 0.00 2.90
2644 2866 1.369091 CGCACCCTAACCACATGAGC 61.369 60.000 0.00 0.00 0.00 4.26
2645 2867 0.322456 GCACCCTAACCACATGAGCA 60.322 55.000 0.00 0.00 0.00 4.26
2646 2868 1.453155 CACCCTAACCACATGAGCAC 58.547 55.000 0.00 0.00 0.00 4.40
2647 2869 0.328258 ACCCTAACCACATGAGCACC 59.672 55.000 0.00 0.00 0.00 5.01
2648 2870 0.620556 CCCTAACCACATGAGCACCT 59.379 55.000 0.00 0.00 0.00 4.00
2649 2871 1.004745 CCCTAACCACATGAGCACCTT 59.995 52.381 0.00 0.00 0.00 3.50
2650 2872 2.359900 CCTAACCACATGAGCACCTTC 58.640 52.381 0.00 0.00 0.00 3.46
2651 2873 2.002586 CTAACCACATGAGCACCTTCG 58.997 52.381 0.00 0.00 0.00 3.79
2652 2874 0.396435 AACCACATGAGCACCTTCGA 59.604 50.000 0.00 0.00 0.00 3.71
2653 2875 0.036952 ACCACATGAGCACCTTCGAG 60.037 55.000 0.00 0.00 0.00 4.04
2654 2876 0.247460 CCACATGAGCACCTTCGAGA 59.753 55.000 0.00 0.00 0.00 4.04
2655 2877 1.638133 CACATGAGCACCTTCGAGAG 58.362 55.000 0.00 0.00 0.00 3.20
2656 2878 1.203287 CACATGAGCACCTTCGAGAGA 59.797 52.381 0.00 0.00 39.20 3.10
2657 2879 1.203523 ACATGAGCACCTTCGAGAGAC 59.796 52.381 0.00 0.00 41.84 3.36
2658 2880 1.476085 CATGAGCACCTTCGAGAGACT 59.524 52.381 0.00 0.00 41.84 3.24
2659 2881 0.884514 TGAGCACCTTCGAGAGACTG 59.115 55.000 0.00 0.00 41.84 3.51
2660 2882 1.169577 GAGCACCTTCGAGAGACTGA 58.830 55.000 0.00 0.00 41.84 3.41
2661 2883 1.132262 GAGCACCTTCGAGAGACTGAG 59.868 57.143 0.00 0.00 41.84 3.35
2662 2884 0.457681 GCACCTTCGAGAGACTGAGC 60.458 60.000 0.00 0.00 41.84 4.26
2663 2885 0.172352 CACCTTCGAGAGACTGAGCC 59.828 60.000 0.00 0.00 41.84 4.70
2664 2886 1.309499 ACCTTCGAGAGACTGAGCCG 61.309 60.000 0.00 0.00 41.84 5.52
2665 2887 1.431440 CTTCGAGAGACTGAGCCGG 59.569 63.158 0.00 0.00 41.84 6.13
2666 2888 2.606155 CTTCGAGAGACTGAGCCGGC 62.606 65.000 21.89 21.89 41.84 6.13
2667 2889 3.443925 CGAGAGACTGAGCCGGCA 61.444 66.667 31.54 7.98 0.00 5.69
2668 2890 2.780094 CGAGAGACTGAGCCGGCAT 61.780 63.158 31.54 14.28 0.00 4.40
2669 2891 1.448119 CGAGAGACTGAGCCGGCATA 61.448 60.000 31.54 16.21 0.00 3.14
2670 2892 0.965439 GAGAGACTGAGCCGGCATAT 59.035 55.000 31.54 8.11 0.00 1.78
2671 2893 0.965439 AGAGACTGAGCCGGCATATC 59.035 55.000 31.54 18.63 0.00 1.63
2672 2894 0.676184 GAGACTGAGCCGGCATATCA 59.324 55.000 31.54 22.44 0.00 2.15
2673 2895 1.274728 GAGACTGAGCCGGCATATCAT 59.725 52.381 31.54 13.17 0.00 2.45
2674 2896 1.274728 AGACTGAGCCGGCATATCATC 59.725 52.381 31.54 19.98 0.00 2.92
2675 2897 1.274728 GACTGAGCCGGCATATCATCT 59.725 52.381 31.54 11.40 0.00 2.90
2676 2898 1.696336 ACTGAGCCGGCATATCATCTT 59.304 47.619 31.54 3.33 0.00 2.40
2677 2899 2.074576 CTGAGCCGGCATATCATCTTG 58.925 52.381 31.54 7.95 0.00 3.02
2678 2900 1.693606 TGAGCCGGCATATCATCTTGA 59.306 47.619 31.54 0.00 0.00 3.02
2679 2901 2.289257 TGAGCCGGCATATCATCTTGAG 60.289 50.000 31.54 0.00 0.00 3.02
2680 2902 1.973515 AGCCGGCATATCATCTTGAGA 59.026 47.619 31.54 0.00 0.00 3.27
2681 2903 2.570752 AGCCGGCATATCATCTTGAGAT 59.429 45.455 31.54 0.00 34.56 2.75
2682 2904 3.008813 AGCCGGCATATCATCTTGAGATT 59.991 43.478 31.54 0.00 31.21 2.40
2683 2905 3.755378 GCCGGCATATCATCTTGAGATTT 59.245 43.478 24.80 0.00 31.21 2.17
2684 2906 4.937620 GCCGGCATATCATCTTGAGATTTA 59.062 41.667 24.80 0.00 31.21 1.40
2685 2907 5.163814 GCCGGCATATCATCTTGAGATTTAC 60.164 44.000 24.80 0.00 31.21 2.01
2686 2908 5.062683 CCGGCATATCATCTTGAGATTTACG 59.937 44.000 0.00 0.00 31.21 3.18
2687 2909 5.863935 CGGCATATCATCTTGAGATTTACGA 59.136 40.000 0.00 0.00 31.21 3.43
2688 2910 6.366061 CGGCATATCATCTTGAGATTTACGAA 59.634 38.462 0.00 0.00 31.21 3.85
2689 2911 7.411264 CGGCATATCATCTTGAGATTTACGAAG 60.411 40.741 0.00 0.00 31.21 3.79
2690 2912 7.386299 GGCATATCATCTTGAGATTTACGAAGT 59.614 37.037 0.00 0.00 37.29 3.01
2691 2913 8.431593 GCATATCATCTTGAGATTTACGAAGTC 58.568 37.037 0.00 0.00 35.39 3.01
2692 2914 9.468532 CATATCATCTTGAGATTTACGAAGTCA 57.531 33.333 0.00 0.00 35.39 3.41
2693 2915 7.763172 ATCATCTTGAGATTTACGAAGTCAC 57.237 36.000 0.00 0.00 35.39 3.67
2694 2916 6.100004 TCATCTTGAGATTTACGAAGTCACC 58.900 40.000 0.00 0.00 35.39 4.02
2695 2917 4.482386 TCTTGAGATTTACGAAGTCACCG 58.518 43.478 0.00 0.00 43.93 4.94
2696 2918 3.928727 TGAGATTTACGAAGTCACCGT 57.071 42.857 0.00 0.00 43.93 4.83
2697 2919 5.181811 TCTTGAGATTTACGAAGTCACCGTA 59.818 40.000 0.00 0.00 43.93 4.02
2698 2920 4.978186 TGAGATTTACGAAGTCACCGTAG 58.022 43.478 0.00 0.00 43.93 3.51
2712 2934 1.834188 CCGTAGGCAATTTGAACCCT 58.166 50.000 0.00 0.06 46.14 4.34
2713 2935 1.472480 CCGTAGGCAATTTGAACCCTG 59.528 52.381 0.00 0.00 46.14 4.45
2714 2936 2.159382 CGTAGGCAATTTGAACCCTGT 58.841 47.619 0.00 0.00 0.00 4.00
2715 2937 2.556622 CGTAGGCAATTTGAACCCTGTT 59.443 45.455 0.00 0.00 0.00 3.16
2716 2938 3.611530 CGTAGGCAATTTGAACCCTGTTG 60.612 47.826 0.00 0.00 0.00 3.33
2717 2939 1.693606 AGGCAATTTGAACCCTGTTGG 59.306 47.619 0.00 0.00 41.37 3.77
2731 2953 2.711542 CTGTTGGGTTCAGGATACCAC 58.288 52.381 0.00 0.00 37.40 4.16
2732 2954 2.305927 CTGTTGGGTTCAGGATACCACT 59.694 50.000 0.00 0.00 37.40 4.00
2733 2955 2.039746 TGTTGGGTTCAGGATACCACTG 59.960 50.000 0.00 0.00 37.40 3.66
2734 2956 2.038863 TGGGTTCAGGATACCACTGT 57.961 50.000 0.00 0.00 37.40 3.55
2735 2957 1.906574 TGGGTTCAGGATACCACTGTC 59.093 52.381 0.00 0.00 37.40 3.51
2736 2958 1.209747 GGGTTCAGGATACCACTGTCC 59.790 57.143 0.00 0.00 37.40 4.02
2737 2959 1.906574 GGTTCAGGATACCACTGTCCA 59.093 52.381 0.00 0.00 36.96 4.02
2738 2960 2.354805 GGTTCAGGATACCACTGTCCAC 60.355 54.545 0.00 0.00 36.96 4.02
2739 2961 1.568504 TCAGGATACCACTGTCCACC 58.431 55.000 0.00 0.00 36.96 4.61
2740 2962 1.078823 TCAGGATACCACTGTCCACCT 59.921 52.381 0.00 0.00 36.96 4.00
2741 2963 2.313643 TCAGGATACCACTGTCCACCTA 59.686 50.000 0.00 0.00 36.96 3.08
2742 2964 3.104512 CAGGATACCACTGTCCACCTAA 58.895 50.000 0.00 0.00 36.96 2.69
2743 2965 3.105283 AGGATACCACTGTCCACCTAAC 58.895 50.000 0.00 0.00 36.96 2.34
2744 2966 2.169978 GGATACCACTGTCCACCTAACC 59.830 54.545 0.00 0.00 34.57 2.85
2745 2967 2.402182 TACCACTGTCCACCTAACCA 57.598 50.000 0.00 0.00 0.00 3.67
2746 2968 1.513858 ACCACTGTCCACCTAACCAA 58.486 50.000 0.00 0.00 0.00 3.67
2747 2969 1.142262 ACCACTGTCCACCTAACCAAC 59.858 52.381 0.00 0.00 0.00 3.77
2748 2970 1.420138 CCACTGTCCACCTAACCAACT 59.580 52.381 0.00 0.00 0.00 3.16
2749 2971 2.550208 CCACTGTCCACCTAACCAACTC 60.550 54.545 0.00 0.00 0.00 3.01
2750 2972 2.104111 CACTGTCCACCTAACCAACTCA 59.896 50.000 0.00 0.00 0.00 3.41
2751 2973 2.775384 ACTGTCCACCTAACCAACTCAA 59.225 45.455 0.00 0.00 0.00 3.02
2752 2974 3.139077 CTGTCCACCTAACCAACTCAAC 58.861 50.000 0.00 0.00 0.00 3.18
2753 2975 2.158726 TGTCCACCTAACCAACTCAACC 60.159 50.000 0.00 0.00 0.00 3.77
2754 2976 2.128535 TCCACCTAACCAACTCAACCA 58.871 47.619 0.00 0.00 0.00 3.67
2755 2977 2.158726 TCCACCTAACCAACTCAACCAC 60.159 50.000 0.00 0.00 0.00 4.16
2756 2978 2.422235 CCACCTAACCAACTCAACCACA 60.422 50.000 0.00 0.00 0.00 4.17
2757 2979 2.878406 CACCTAACCAACTCAACCACAG 59.122 50.000 0.00 0.00 0.00 3.66
2758 2980 2.158667 ACCTAACCAACTCAACCACAGG 60.159 50.000 0.00 0.00 0.00 4.00
2759 2981 2.158667 CCTAACCAACTCAACCACAGGT 60.159 50.000 0.00 0.00 37.65 4.00
2768 2990 3.412722 AACCACAGGTTGATTCGCA 57.587 47.368 0.00 0.00 45.07 5.10
2769 2991 1.909700 AACCACAGGTTGATTCGCAT 58.090 45.000 0.00 0.00 45.07 4.73
2770 2992 1.453155 ACCACAGGTTGATTCGCATC 58.547 50.000 0.00 0.00 27.29 3.91
2771 2993 1.003580 ACCACAGGTTGATTCGCATCT 59.996 47.619 0.00 0.00 27.29 2.90
2772 2994 2.236146 ACCACAGGTTGATTCGCATCTA 59.764 45.455 0.00 0.00 27.29 1.98
2773 2995 3.118261 ACCACAGGTTGATTCGCATCTAT 60.118 43.478 0.00 0.00 27.29 1.98
2774 2996 4.100963 ACCACAGGTTGATTCGCATCTATA 59.899 41.667 0.00 0.00 27.29 1.31
2775 2997 4.449068 CCACAGGTTGATTCGCATCTATAC 59.551 45.833 0.00 0.00 0.00 1.47
2776 2998 5.292765 CACAGGTTGATTCGCATCTATACT 58.707 41.667 0.00 0.00 0.00 2.12
2777 2999 6.447162 CACAGGTTGATTCGCATCTATACTA 58.553 40.000 0.00 0.00 0.00 1.82
2778 3000 6.363626 CACAGGTTGATTCGCATCTATACTAC 59.636 42.308 0.00 0.00 0.00 2.73
2779 3001 5.864474 CAGGTTGATTCGCATCTATACTACC 59.136 44.000 0.00 0.00 0.00 3.18
2780 3002 5.775701 AGGTTGATTCGCATCTATACTACCT 59.224 40.000 0.00 0.00 0.00 3.08
2781 3003 6.946583 AGGTTGATTCGCATCTATACTACCTA 59.053 38.462 0.00 0.00 0.00 3.08
2782 3004 7.028361 GGTTGATTCGCATCTATACTACCTAC 58.972 42.308 0.00 0.00 0.00 3.18
2783 3005 7.094291 GGTTGATTCGCATCTATACTACCTACT 60.094 40.741 0.00 0.00 0.00 2.57
2784 3006 8.944029 GTTGATTCGCATCTATACTACCTACTA 58.056 37.037 0.00 0.00 0.00 1.82
2785 3007 9.511272 TTGATTCGCATCTATACTACCTACTAA 57.489 33.333 0.00 0.00 0.00 2.24
2786 3008 9.682465 TGATTCGCATCTATACTACCTACTAAT 57.318 33.333 0.00 0.00 0.00 1.73
2963 3190 0.739462 TGCGTGTGGGCGAAATAGAG 60.739 55.000 0.00 0.00 35.06 2.43
3119 3346 1.070914 TGAACTACGGTTGCCATGTCA 59.929 47.619 0.00 0.00 35.58 3.58
3150 3377 4.080919 ACAGTTGCCATATCTGCTCAACTA 60.081 41.667 12.95 0.00 40.00 2.24
3247 3474 4.081406 TCTACTGCAGTTGCCATGATTTT 58.919 39.130 27.06 0.00 41.18 1.82
3288 3515 4.021368 CACCTACTAACACTAGGCAGTTGT 60.021 45.833 7.49 6.55 35.04 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 1.153509 GTGTACCCCATCCGTTCCG 60.154 63.158 0.00 0.00 0.00 4.30
218 220 3.966006 AGCTACAGTGATCATGAGATGGT 59.034 43.478 0.00 0.00 33.72 3.55
224 226 2.101415 CCGGAAGCTACAGTGATCATGA 59.899 50.000 0.00 0.00 0.00 3.07
300 338 3.369385 CATGATTCTTGCAGAAATCGGC 58.631 45.455 14.69 0.00 37.82 5.54
328 366 1.614413 TGCCCGTTTTTACCCATGTTC 59.386 47.619 0.00 0.00 0.00 3.18
374 490 2.814805 AGTTGCCAGCATTACATCCT 57.185 45.000 0.00 0.00 0.00 3.24
406 522 2.143122 GAACACATGGCGAGAACTCAA 58.857 47.619 0.00 0.00 0.00 3.02
539 660 2.282180 GGGGCGAGTGGCTTTCAA 60.282 61.111 0.00 0.00 42.94 2.69
566 687 0.776451 CGTCGTCGACCAAGACTTTG 59.224 55.000 19.29 0.00 38.90 2.77
695 828 1.833787 TTTACTCCGTGTGGGCTCCC 61.834 60.000 0.00 0.00 35.24 4.30
736 903 1.672356 GTGTAGTGGCAGTGGCAGG 60.672 63.158 21.25 0.00 43.71 4.85
737 904 1.672356 GGTGTAGTGGCAGTGGCAG 60.672 63.158 21.25 0.00 43.71 4.85
738 905 1.988982 TTGGTGTAGTGGCAGTGGCA 61.989 55.000 16.56 16.56 43.71 4.92
739 906 0.821711 TTTGGTGTAGTGGCAGTGGC 60.822 55.000 10.30 10.30 40.13 5.01
740 907 0.951558 GTTTGGTGTAGTGGCAGTGG 59.048 55.000 4.76 0.00 0.00 4.00
741 908 1.333619 GTGTTTGGTGTAGTGGCAGTG 59.666 52.381 4.76 0.00 0.00 3.66
751 933 1.611519 CCGGGTAATGTGTTTGGTGT 58.388 50.000 0.00 0.00 0.00 4.16
787 981 0.739112 GTCTCCTCTGCTTTCTGGCG 60.739 60.000 0.00 0.00 34.52 5.69
788 982 0.739112 CGTCTCCTCTGCTTTCTGGC 60.739 60.000 0.00 0.00 0.00 4.85
789 983 0.891373 TCGTCTCCTCTGCTTTCTGG 59.109 55.000 0.00 0.00 0.00 3.86
790 984 1.730772 CGTCGTCTCCTCTGCTTTCTG 60.731 57.143 0.00 0.00 0.00 3.02
791 985 0.523966 CGTCGTCTCCTCTGCTTTCT 59.476 55.000 0.00 0.00 0.00 2.52
792 986 0.522180 TCGTCGTCTCCTCTGCTTTC 59.478 55.000 0.00 0.00 0.00 2.62
793 987 0.241481 GTCGTCGTCTCCTCTGCTTT 59.759 55.000 0.00 0.00 0.00 3.51
794 988 1.877367 GTCGTCGTCTCCTCTGCTT 59.123 57.895 0.00 0.00 0.00 3.91
795 989 2.392181 CGTCGTCGTCTCCTCTGCT 61.392 63.158 0.00 0.00 0.00 4.24
823 1017 5.798125 TCTGCTTCCATGGAGAGTATTAG 57.202 43.478 15.53 8.75 30.96 1.73
831 1026 3.806507 GCTCCTAATCTGCTTCCATGGAG 60.807 52.174 15.53 10.43 41.78 3.86
853 1052 1.280746 ACGTCTACACCGTGTCGTG 59.719 57.895 14.10 6.43 37.12 4.35
1079 1283 3.478274 CTCCCTCAGCCCTGCCTC 61.478 72.222 0.00 0.00 0.00 4.70
1091 1295 1.003233 GCAAGAAGAACCGCTCCCT 60.003 57.895 0.00 0.00 0.00 4.20
1183 1387 3.542676 AGCCACCGACACCGTCAA 61.543 61.111 0.00 0.00 32.09 3.18
1309 1513 2.486322 CGTACGTCGACGAAGCTGC 61.486 63.158 41.52 22.43 45.82 5.25
1543 1747 2.279186 GTTGTTGTTGGTGGCCGC 60.279 61.111 8.12 8.12 0.00 6.53
1596 1800 2.409055 GCTGCCACGATTCATGCCA 61.409 57.895 0.00 0.00 0.00 4.92
1605 1809 2.604686 AAGGAGAGGCTGCCACGA 60.605 61.111 22.65 0.00 0.00 4.35
1680 1884 2.123077 CCGAGGAGGAGGATGCCT 60.123 66.667 0.00 0.00 45.00 4.75
1983 2190 3.876589 GAACACGAAGCCCGGCTCA 62.877 63.158 13.72 0.00 43.93 4.26
2155 2365 3.296737 AGCCTCCTCCCCCTCCTT 61.297 66.667 0.00 0.00 0.00 3.36
2363 2573 3.608474 CGACGACTACACATTGACTGACA 60.608 47.826 0.00 0.00 0.00 3.58
2420 2639 2.267642 GATACGTGCCCTGCCACA 59.732 61.111 0.00 0.00 35.47 4.17
2446 2665 0.597072 CCGTCTCTAATACTCGCCCC 59.403 60.000 0.00 0.00 0.00 5.80
2497 2716 7.326789 TGAAGTTCGTAAATAACCAGTAGTTCG 59.673 37.037 0.00 0.00 40.05 3.95
2581 2803 9.494271 GGATGAATGTCTATACTGATGCTAAAA 57.506 33.333 0.00 0.00 0.00 1.52
2582 2804 8.097038 GGGATGAATGTCTATACTGATGCTAAA 58.903 37.037 0.00 0.00 0.00 1.85
2583 2805 7.455953 AGGGATGAATGTCTATACTGATGCTAA 59.544 37.037 0.00 0.00 0.00 3.09
2584 2806 6.956435 AGGGATGAATGTCTATACTGATGCTA 59.044 38.462 0.00 0.00 0.00 3.49
2585 2807 5.784390 AGGGATGAATGTCTATACTGATGCT 59.216 40.000 0.00 0.00 0.00 3.79
2586 2808 6.047511 AGGGATGAATGTCTATACTGATGC 57.952 41.667 0.00 0.00 0.00 3.91
2587 2809 8.975295 TCATAGGGATGAATGTCTATACTGATG 58.025 37.037 0.00 0.00 39.20 3.07
2588 2810 9.552695 TTCATAGGGATGAATGTCTATACTGAT 57.447 33.333 0.00 0.00 45.26 2.90
2589 2811 8.956446 TTCATAGGGATGAATGTCTATACTGA 57.044 34.615 0.00 0.00 45.26 3.41
2602 2824 1.552792 TGTGTGCGTTCATAGGGATGA 59.447 47.619 0.00 0.00 40.45 2.92
2603 2825 1.665679 GTGTGTGCGTTCATAGGGATG 59.334 52.381 0.00 0.00 0.00 3.51
2604 2826 1.277842 TGTGTGTGCGTTCATAGGGAT 59.722 47.619 0.00 0.00 0.00 3.85
2605 2827 0.682292 TGTGTGTGCGTTCATAGGGA 59.318 50.000 0.00 0.00 0.00 4.20
2606 2828 0.796312 GTGTGTGTGCGTTCATAGGG 59.204 55.000 0.00 0.00 0.00 3.53
2607 2829 0.438445 CGTGTGTGTGCGTTCATAGG 59.562 55.000 0.00 0.00 0.00 2.57
2608 2830 0.179250 GCGTGTGTGTGCGTTCATAG 60.179 55.000 0.00 0.00 0.00 2.23
2609 2831 0.876342 TGCGTGTGTGTGCGTTCATA 60.876 50.000 0.00 0.00 0.00 2.15
2610 2832 2.176926 TGCGTGTGTGTGCGTTCAT 61.177 52.632 0.00 0.00 0.00 2.57
2611 2833 2.815647 TGCGTGTGTGTGCGTTCA 60.816 55.556 0.00 0.00 0.00 3.18
2612 2834 2.350760 GTGCGTGTGTGTGCGTTC 60.351 61.111 0.00 0.00 0.00 3.95
2613 2835 3.871574 GGTGCGTGTGTGTGCGTT 61.872 61.111 0.00 0.00 0.00 4.84
2616 2838 1.890041 TTAGGGTGCGTGTGTGTGC 60.890 57.895 0.00 0.00 0.00 4.57
2617 2839 1.503818 GGTTAGGGTGCGTGTGTGTG 61.504 60.000 0.00 0.00 0.00 3.82
2618 2840 1.227734 GGTTAGGGTGCGTGTGTGT 60.228 57.895 0.00 0.00 0.00 3.72
2619 2841 1.227704 TGGTTAGGGTGCGTGTGTG 60.228 57.895 0.00 0.00 0.00 3.82
2620 2842 1.227734 GTGGTTAGGGTGCGTGTGT 60.228 57.895 0.00 0.00 0.00 3.72
2621 2843 0.605319 ATGTGGTTAGGGTGCGTGTG 60.605 55.000 0.00 0.00 0.00 3.82
2622 2844 0.605319 CATGTGGTTAGGGTGCGTGT 60.605 55.000 0.00 0.00 0.00 4.49
2623 2845 0.321210 TCATGTGGTTAGGGTGCGTG 60.321 55.000 0.00 0.00 0.00 5.34
2624 2846 0.036388 CTCATGTGGTTAGGGTGCGT 60.036 55.000 0.00 0.00 0.00 5.24
2625 2847 1.369091 GCTCATGTGGTTAGGGTGCG 61.369 60.000 0.00 0.00 0.00 5.34
2626 2848 0.322456 TGCTCATGTGGTTAGGGTGC 60.322 55.000 0.00 0.00 0.00 5.01
2627 2849 1.453155 GTGCTCATGTGGTTAGGGTG 58.547 55.000 0.00 0.00 0.00 4.61
2628 2850 0.328258 GGTGCTCATGTGGTTAGGGT 59.672 55.000 0.00 0.00 0.00 4.34
2629 2851 0.620556 AGGTGCTCATGTGGTTAGGG 59.379 55.000 0.00 0.00 0.00 3.53
2630 2852 2.359900 GAAGGTGCTCATGTGGTTAGG 58.640 52.381 0.00 0.00 0.00 2.69
2631 2853 2.002586 CGAAGGTGCTCATGTGGTTAG 58.997 52.381 0.00 0.00 0.00 2.34
2632 2854 1.621317 TCGAAGGTGCTCATGTGGTTA 59.379 47.619 0.00 0.00 0.00 2.85
2633 2855 0.396435 TCGAAGGTGCTCATGTGGTT 59.604 50.000 0.00 0.00 0.00 3.67
2634 2856 0.036952 CTCGAAGGTGCTCATGTGGT 60.037 55.000 0.00 0.00 0.00 4.16
2635 2857 0.247460 TCTCGAAGGTGCTCATGTGG 59.753 55.000 0.00 0.00 0.00 4.17
2636 2858 1.203287 TCTCTCGAAGGTGCTCATGTG 59.797 52.381 0.00 0.00 0.00 3.21
2637 2859 1.203523 GTCTCTCGAAGGTGCTCATGT 59.796 52.381 0.00 0.00 0.00 3.21
2638 2860 1.476085 AGTCTCTCGAAGGTGCTCATG 59.524 52.381 0.00 0.00 0.00 3.07
2639 2861 1.476085 CAGTCTCTCGAAGGTGCTCAT 59.524 52.381 0.00 0.00 0.00 2.90
2640 2862 0.884514 CAGTCTCTCGAAGGTGCTCA 59.115 55.000 0.00 0.00 0.00 4.26
2641 2863 1.132262 CTCAGTCTCTCGAAGGTGCTC 59.868 57.143 0.00 0.00 0.00 4.26
2642 2864 1.173043 CTCAGTCTCTCGAAGGTGCT 58.827 55.000 0.00 0.00 0.00 4.40
2643 2865 0.457681 GCTCAGTCTCTCGAAGGTGC 60.458 60.000 0.00 0.00 0.00 5.01
2644 2866 0.172352 GGCTCAGTCTCTCGAAGGTG 59.828 60.000 0.00 0.00 0.00 4.00
2645 2867 1.309499 CGGCTCAGTCTCTCGAAGGT 61.309 60.000 0.00 0.00 0.00 3.50
2646 2868 1.431440 CGGCTCAGTCTCTCGAAGG 59.569 63.158 0.00 0.00 0.00 3.46
2647 2869 1.431440 CCGGCTCAGTCTCTCGAAG 59.569 63.158 0.00 0.00 0.00 3.79
2648 2870 2.701780 GCCGGCTCAGTCTCTCGAA 61.702 63.158 22.15 0.00 0.00 3.71
2649 2871 3.134792 GCCGGCTCAGTCTCTCGA 61.135 66.667 22.15 0.00 0.00 4.04
2650 2872 1.448119 TATGCCGGCTCAGTCTCTCG 61.448 60.000 29.70 0.00 0.00 4.04
2651 2873 0.965439 ATATGCCGGCTCAGTCTCTC 59.035 55.000 29.70 0.00 0.00 3.20
2652 2874 0.965439 GATATGCCGGCTCAGTCTCT 59.035 55.000 29.70 3.16 0.00 3.10
2653 2875 0.676184 TGATATGCCGGCTCAGTCTC 59.324 55.000 29.70 15.31 0.00 3.36
2654 2876 1.274728 GATGATATGCCGGCTCAGTCT 59.725 52.381 29.70 8.26 0.00 3.24
2655 2877 1.274728 AGATGATATGCCGGCTCAGTC 59.725 52.381 29.70 19.55 0.00 3.51
2656 2878 1.346062 AGATGATATGCCGGCTCAGT 58.654 50.000 29.70 13.44 0.00 3.41
2657 2879 2.074576 CAAGATGATATGCCGGCTCAG 58.925 52.381 29.70 7.35 0.00 3.35
2658 2880 1.693606 TCAAGATGATATGCCGGCTCA 59.306 47.619 29.70 23.34 0.00 4.26
2659 2881 2.028658 TCTCAAGATGATATGCCGGCTC 60.029 50.000 29.70 17.89 0.00 4.70
2660 2882 1.973515 TCTCAAGATGATATGCCGGCT 59.026 47.619 29.70 15.76 0.00 5.52
2661 2883 2.462456 TCTCAAGATGATATGCCGGC 57.538 50.000 22.73 22.73 0.00 6.13
2662 2884 5.062683 CGTAAATCTCAAGATGATATGCCGG 59.937 44.000 0.00 0.00 34.49 6.13
2663 2885 5.863935 TCGTAAATCTCAAGATGATATGCCG 59.136 40.000 0.00 0.00 34.49 5.69
2664 2886 7.386299 ACTTCGTAAATCTCAAGATGATATGCC 59.614 37.037 0.00 0.00 34.49 4.40
2665 2887 8.304202 ACTTCGTAAATCTCAAGATGATATGC 57.696 34.615 0.00 0.00 34.49 3.14
2666 2888 9.468532 TGACTTCGTAAATCTCAAGATGATATG 57.531 33.333 0.00 0.00 34.49 1.78
2667 2889 9.469807 GTGACTTCGTAAATCTCAAGATGATAT 57.530 33.333 0.00 0.00 34.49 1.63
2668 2890 7.921214 GGTGACTTCGTAAATCTCAAGATGATA 59.079 37.037 0.00 0.00 34.49 2.15
2669 2891 6.758886 GGTGACTTCGTAAATCTCAAGATGAT 59.241 38.462 0.00 0.00 34.49 2.45
2670 2892 6.100004 GGTGACTTCGTAAATCTCAAGATGA 58.900 40.000 0.00 0.00 34.49 2.92
2671 2893 5.004821 CGGTGACTTCGTAAATCTCAAGATG 59.995 44.000 0.00 0.00 34.49 2.90
2672 2894 5.103000 CGGTGACTTCGTAAATCTCAAGAT 58.897 41.667 0.00 0.00 36.07 2.40
2673 2895 4.022589 ACGGTGACTTCGTAAATCTCAAGA 60.023 41.667 0.00 0.00 39.22 3.02
2674 2896 4.235360 ACGGTGACTTCGTAAATCTCAAG 58.765 43.478 0.00 0.00 39.22 3.02
2675 2897 4.247267 ACGGTGACTTCGTAAATCTCAA 57.753 40.909 0.00 0.00 39.22 3.02
2676 2898 3.928727 ACGGTGACTTCGTAAATCTCA 57.071 42.857 0.00 0.00 39.22 3.27
2677 2899 4.349501 CCTACGGTGACTTCGTAAATCTC 58.650 47.826 0.00 0.00 41.62 2.75
2678 2900 3.428589 GCCTACGGTGACTTCGTAAATCT 60.429 47.826 0.00 0.00 41.62 2.40
2679 2901 2.856557 GCCTACGGTGACTTCGTAAATC 59.143 50.000 0.00 0.00 41.62 2.17
2680 2902 2.231964 TGCCTACGGTGACTTCGTAAAT 59.768 45.455 0.00 0.00 41.62 1.40
2681 2903 1.612950 TGCCTACGGTGACTTCGTAAA 59.387 47.619 0.00 0.00 41.62 2.01
2682 2904 1.246649 TGCCTACGGTGACTTCGTAA 58.753 50.000 0.00 0.00 41.62 3.18
2683 2905 1.246649 TTGCCTACGGTGACTTCGTA 58.753 50.000 0.00 0.00 41.38 3.43
2684 2906 0.606604 ATTGCCTACGGTGACTTCGT 59.393 50.000 0.00 0.00 43.64 3.85
2685 2907 1.722011 AATTGCCTACGGTGACTTCG 58.278 50.000 0.00 0.00 0.00 3.79
2686 2908 3.071479 TCAAATTGCCTACGGTGACTTC 58.929 45.455 0.00 0.00 0.00 3.01
2687 2909 3.134574 TCAAATTGCCTACGGTGACTT 57.865 42.857 0.00 0.00 0.00 3.01
2688 2910 2.812011 GTTCAAATTGCCTACGGTGACT 59.188 45.455 0.00 0.00 0.00 3.41
2689 2911 2.095415 GGTTCAAATTGCCTACGGTGAC 60.095 50.000 0.00 0.00 0.00 3.67
2690 2912 2.156098 GGTTCAAATTGCCTACGGTGA 58.844 47.619 0.00 0.00 0.00 4.02
2691 2913 1.201414 GGGTTCAAATTGCCTACGGTG 59.799 52.381 0.00 0.00 0.00 4.94
2692 2914 1.074889 AGGGTTCAAATTGCCTACGGT 59.925 47.619 0.00 0.00 0.00 4.83
2693 2915 1.472480 CAGGGTTCAAATTGCCTACGG 59.528 52.381 0.00 0.00 0.00 4.02
2694 2916 2.159382 ACAGGGTTCAAATTGCCTACG 58.841 47.619 0.00 0.00 0.00 3.51
2695 2917 3.306019 CCAACAGGGTTCAAATTGCCTAC 60.306 47.826 0.00 0.00 0.00 3.18
2696 2918 2.896685 CCAACAGGGTTCAAATTGCCTA 59.103 45.455 0.00 0.00 0.00 3.93
2697 2919 1.693606 CCAACAGGGTTCAAATTGCCT 59.306 47.619 0.00 0.00 0.00 4.75
2698 2920 1.270785 CCCAACAGGGTTCAAATTGCC 60.271 52.381 0.00 0.00 37.83 4.52
2699 2921 2.168326 CCCAACAGGGTTCAAATTGC 57.832 50.000 0.00 0.00 37.83 3.56
2711 2933 2.305927 AGTGGTATCCTGAACCCAACAG 59.694 50.000 0.00 0.00 36.06 3.16
2712 2934 2.039746 CAGTGGTATCCTGAACCCAACA 59.960 50.000 0.00 0.00 36.06 3.33
2713 2935 2.039879 ACAGTGGTATCCTGAACCCAAC 59.960 50.000 0.00 0.00 36.06 3.77
2714 2936 2.304761 GACAGTGGTATCCTGAACCCAA 59.695 50.000 0.00 0.00 36.06 4.12
2715 2937 1.906574 GACAGTGGTATCCTGAACCCA 59.093 52.381 0.00 0.00 36.06 4.51
2716 2938 1.209747 GGACAGTGGTATCCTGAACCC 59.790 57.143 0.00 0.00 36.06 4.11
2717 2939 1.906574 TGGACAGTGGTATCCTGAACC 59.093 52.381 0.00 0.00 35.86 3.62
2718 2940 2.354805 GGTGGACAGTGGTATCCTGAAC 60.355 54.545 0.00 0.00 35.86 3.18
2719 2941 1.906574 GGTGGACAGTGGTATCCTGAA 59.093 52.381 0.00 0.00 35.86 3.02
2720 2942 1.078823 AGGTGGACAGTGGTATCCTGA 59.921 52.381 0.00 0.00 35.86 3.86
2721 2943 1.573108 AGGTGGACAGTGGTATCCTG 58.427 55.000 0.00 0.00 35.86 3.86
2722 2944 3.105283 GTTAGGTGGACAGTGGTATCCT 58.895 50.000 0.00 0.00 35.86 3.24
2723 2945 2.169978 GGTTAGGTGGACAGTGGTATCC 59.830 54.545 0.00 0.00 35.37 2.59
2724 2946 2.835764 TGGTTAGGTGGACAGTGGTATC 59.164 50.000 0.00 0.00 0.00 2.24
2725 2947 2.910544 TGGTTAGGTGGACAGTGGTAT 58.089 47.619 0.00 0.00 0.00 2.73
2726 2948 2.369532 GTTGGTTAGGTGGACAGTGGTA 59.630 50.000 0.00 0.00 0.00 3.25
2727 2949 1.142262 GTTGGTTAGGTGGACAGTGGT 59.858 52.381 0.00 0.00 0.00 4.16
2728 2950 1.420138 AGTTGGTTAGGTGGACAGTGG 59.580 52.381 0.00 0.00 0.00 4.00
2729 2951 2.104111 TGAGTTGGTTAGGTGGACAGTG 59.896 50.000 0.00 0.00 0.00 3.66
2730 2952 2.404559 TGAGTTGGTTAGGTGGACAGT 58.595 47.619 0.00 0.00 0.00 3.55
2731 2953 3.139077 GTTGAGTTGGTTAGGTGGACAG 58.861 50.000 0.00 0.00 0.00 3.51
2732 2954 2.158726 GGTTGAGTTGGTTAGGTGGACA 60.159 50.000 0.00 0.00 0.00 4.02
2733 2955 2.158726 TGGTTGAGTTGGTTAGGTGGAC 60.159 50.000 0.00 0.00 0.00 4.02
2734 2956 2.128535 TGGTTGAGTTGGTTAGGTGGA 58.871 47.619 0.00 0.00 0.00 4.02
2735 2957 2.227194 GTGGTTGAGTTGGTTAGGTGG 58.773 52.381 0.00 0.00 0.00 4.61
2736 2958 2.878406 CTGTGGTTGAGTTGGTTAGGTG 59.122 50.000 0.00 0.00 0.00 4.00
2737 2959 2.158667 CCTGTGGTTGAGTTGGTTAGGT 60.159 50.000 0.00 0.00 0.00 3.08
2738 2960 2.158667 ACCTGTGGTTGAGTTGGTTAGG 60.159 50.000 0.00 0.00 27.29 2.69
2739 2961 3.208747 ACCTGTGGTTGAGTTGGTTAG 57.791 47.619 0.00 0.00 27.29 2.34
2740 2962 3.655615 AACCTGTGGTTGAGTTGGTTA 57.344 42.857 0.71 0.00 45.07 2.85
2741 2963 2.525105 AACCTGTGGTTGAGTTGGTT 57.475 45.000 0.71 0.00 45.07 3.67
2751 2973 1.003580 AGATGCGAATCAACCTGTGGT 59.996 47.619 6.08 0.00 37.65 4.16
2752 2974 1.742761 AGATGCGAATCAACCTGTGG 58.257 50.000 6.08 0.00 0.00 4.17
2753 2975 5.292765 AGTATAGATGCGAATCAACCTGTG 58.707 41.667 6.08 0.00 0.00 3.66
2754 2976 5.537300 AGTATAGATGCGAATCAACCTGT 57.463 39.130 6.08 0.00 0.00 4.00
2755 2977 5.864474 GGTAGTATAGATGCGAATCAACCTG 59.136 44.000 6.08 0.00 0.00 4.00
2756 2978 5.775701 AGGTAGTATAGATGCGAATCAACCT 59.224 40.000 6.08 5.59 0.00 3.50
2757 2979 6.026947 AGGTAGTATAGATGCGAATCAACC 57.973 41.667 6.08 3.42 0.00 3.77
2758 2980 7.818642 AGTAGGTAGTATAGATGCGAATCAAC 58.181 38.462 6.08 0.82 0.00 3.18
2759 2981 7.997773 AGTAGGTAGTATAGATGCGAATCAA 57.002 36.000 6.08 0.00 0.00 2.57
2760 2982 9.682465 ATTAGTAGGTAGTATAGATGCGAATCA 57.318 33.333 6.08 0.00 0.00 2.57
2773 2995 8.624776 GCGTCCTTCTTTTATTAGTAGGTAGTA 58.375 37.037 0.00 0.00 35.06 1.82
2774 2996 7.417229 GGCGTCCTTCTTTTATTAGTAGGTAGT 60.417 40.741 0.00 0.00 35.06 2.73
2775 2997 6.922407 GGCGTCCTTCTTTTATTAGTAGGTAG 59.078 42.308 0.00 0.00 35.06 3.18
2776 2998 6.460123 CGGCGTCCTTCTTTTATTAGTAGGTA 60.460 42.308 0.00 0.00 35.06 3.08
2777 2999 5.668471 GGCGTCCTTCTTTTATTAGTAGGT 58.332 41.667 0.00 0.00 35.06 3.08
2778 3000 4.743644 CGGCGTCCTTCTTTTATTAGTAGG 59.256 45.833 0.00 0.00 34.87 3.18
2779 3001 5.585390 TCGGCGTCCTTCTTTTATTAGTAG 58.415 41.667 6.85 0.00 0.00 2.57
2780 3002 5.581126 TCGGCGTCCTTCTTTTATTAGTA 57.419 39.130 6.85 0.00 0.00 1.82
2781 3003 4.460948 TCGGCGTCCTTCTTTTATTAGT 57.539 40.909 6.85 0.00 0.00 2.24
2782 3004 6.700520 AGTTATCGGCGTCCTTCTTTTATTAG 59.299 38.462 6.85 0.00 0.00 1.73
2783 3005 6.477688 CAGTTATCGGCGTCCTTCTTTTATTA 59.522 38.462 6.85 0.00 0.00 0.98
2784 3006 5.293569 CAGTTATCGGCGTCCTTCTTTTATT 59.706 40.000 6.85 0.00 0.00 1.40
2785 3007 4.809426 CAGTTATCGGCGTCCTTCTTTTAT 59.191 41.667 6.85 0.00 0.00 1.40
2786 3008 4.178540 CAGTTATCGGCGTCCTTCTTTTA 58.821 43.478 6.85 0.00 0.00 1.52
2787 3009 3.000727 CAGTTATCGGCGTCCTTCTTTT 58.999 45.455 6.85 0.00 0.00 2.27
2788 3010 2.618053 CAGTTATCGGCGTCCTTCTTT 58.382 47.619 6.85 0.00 0.00 2.52
2789 3011 1.739371 GCAGTTATCGGCGTCCTTCTT 60.739 52.381 6.85 0.00 0.00 2.52
2790 3012 0.179108 GCAGTTATCGGCGTCCTTCT 60.179 55.000 6.85 0.00 0.00 2.85
2791 3013 0.179108 AGCAGTTATCGGCGTCCTTC 60.179 55.000 6.85 0.00 39.59 3.46
2852 3075 1.153549 GCTGGTCCTCTTAGGCACG 60.154 63.158 0.00 0.00 34.61 5.34
2970 3197 2.671276 TGACGTACCGGGCGTGTA 60.671 61.111 26.63 14.70 43.04 2.90
3150 3377 1.059098 TGACCTGAGATGGCAACTGT 58.941 50.000 0.51 0.00 37.61 3.55


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

AutoCloner maintained by Alex Coulton.