Multiple sequence alignment - TraesCS5B01G058800

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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 TraesCS5B01G058800 chr5B 100.000 3109 0 0 1 3109 64417856 64420964 0.000000e+00 5742.0
1 TraesCS5B01G058800 chr5B 80.753 239 26 11 1466 1686 559778623 559778387 5.330000e-38 169.0
2 TraesCS5B01G058800 chr5B 75.000 216 47 6 1461 1674 617712015 617711805 3.300000e-15 93.5
3 TraesCS5B01G058800 chr5D 94.197 2585 73 19 4 2569 66670259 66667733 0.000000e+00 3871.0
4 TraesCS5B01G058800 chr5D 94.163 257 6 2 2853 3109 66667736 66667489 1.750000e-102 383.0
5 TraesCS5B01G058800 chr5D 81.333 225 27 8 1466 1675 457680290 457680066 5.330000e-38 169.0
6 TraesCS5B01G058800 chr5D 74.074 216 49 7 1464 1674 498404344 498404131 7.150000e-12 82.4
7 TraesCS5B01G058800 chr5A 93.170 2606 90 33 1 2569 57562020 57564574 0.000000e+00 3746.0
8 TraesCS5B01G058800 chr5A 96.233 292 10 1 2565 2855 452685767 452686058 7.800000e-131 477.0
9 TraesCS5B01G058800 chr5A 94.286 245 8 1 2853 3097 57564571 57564809 1.360000e-98 370.0
10 TraesCS5B01G058800 chr5A 81.140 228 25 7 1466 1675 575612944 575612717 1.920000e-37 167.0
11 TraesCS5B01G058800 chr5A 74.429 219 49 7 1461 1674 622558150 622557934 1.540000e-13 87.9
12 TraesCS5B01G058800 chr7B 96.918 292 8 1 2566 2856 139160313 139160022 3.600000e-134 488.0
13 TraesCS5B01G058800 chr7B 96.564 291 9 1 2568 2857 249787753 249787463 6.030000e-132 481.0
14 TraesCS5B01G058800 chr1B 96.907 291 7 2 2565 2853 540183950 540184240 1.300000e-133 486.0
15 TraesCS5B01G058800 chr4B 96.564 291 9 1 2568 2857 328582034 328582324 6.030000e-132 481.0
16 TraesCS5B01G058800 chr4B 95.876 291 11 1 2568 2857 463328091 463327801 1.310000e-128 470.0
17 TraesCS5B01G058800 chr6B 96.528 288 9 1 2568 2854 191444474 191444187 2.810000e-130 475.0
18 TraesCS5B01G058800 chr3D 96.220 291 10 1 2568 2857 240482529 240482819 2.810000e-130 475.0
19 TraesCS5B01G058800 chr1D 95.876 291 10 2 2565 2853 465541241 465541531 1.310000e-128 470.0
20 TraesCS5B01G058800 chr2D 85.714 63 7 2 1613 1674 633785331 633785270 7.200000e-07 65.8


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 TraesCS5B01G058800 chr5B 64417856 64420964 3108 False 5742 5742 100.000 1 3109 1 chr5B.!!$F1 3108
1 TraesCS5B01G058800 chr5D 66667489 66670259 2770 True 2127 3871 94.180 4 3109 2 chr5D.!!$R3 3105
2 TraesCS5B01G058800 chr5A 57562020 57564809 2789 False 2058 3746 93.728 1 3097 2 chr5A.!!$F2 3096

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
634 647 0.108138 GCTATCGGGTCAAGTGCAGT 60.108 55.0 0.0 0.0 0.0 4.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2603 2656 0.330604 AGATGACATGGCACTGGCTT 59.669 50.0 1.45 0.0 40.87 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
84 85 5.359576 AGTTCACAATACTTTGCAGTTTCCA 59.640 36.000 0.00 0.00 36.22 3.53
85 86 6.040842 AGTTCACAATACTTTGCAGTTTCCAT 59.959 34.615 0.00 0.00 36.22 3.41
325 327 9.797732 TCCATACATATCTTATTATTGGGGAGA 57.202 33.333 0.00 0.00 0.00 3.71
526 534 4.235731 GGCTCAACCGGGTTATGG 57.764 61.111 12.95 6.82 0.00 2.74
528 536 1.605453 GCTCAACCGGGTTATGGGA 59.395 57.895 12.95 4.81 0.00 4.37
539 547 3.073062 CGGGTTATGGGATCTTCATTCCT 59.927 47.826 7.25 0.00 33.53 3.36
634 647 0.108138 GCTATCGGGTCAAGTGCAGT 60.108 55.000 0.00 0.00 0.00 4.40
636 649 2.799917 GCTATCGGGTCAAGTGCAGTAG 60.800 54.545 0.00 0.00 0.00 2.57
638 651 1.913778 TCGGGTCAAGTGCAGTAGTA 58.086 50.000 0.00 0.00 0.00 1.82
639 652 2.241160 TCGGGTCAAGTGCAGTAGTAA 58.759 47.619 0.00 0.00 0.00 2.24
861 882 2.679934 CGTGTGCGTGCATGTGGAT 61.680 57.895 7.93 0.00 0.00 3.41
916 942 2.442272 ACACGCCCGCCTATCTCT 60.442 61.111 0.00 0.00 0.00 3.10
917 943 2.336809 CACGCCCGCCTATCTCTC 59.663 66.667 0.00 0.00 0.00 3.20
918 944 2.913060 ACGCCCGCCTATCTCTCC 60.913 66.667 0.00 0.00 0.00 3.71
919 945 2.598985 CGCCCGCCTATCTCTCCT 60.599 66.667 0.00 0.00 0.00 3.69
920 946 2.631580 CGCCCGCCTATCTCTCCTC 61.632 68.421 0.00 0.00 0.00 3.71
921 947 1.228737 GCCCGCCTATCTCTCCTCT 60.229 63.158 0.00 0.00 0.00 3.69
922 948 1.248101 GCCCGCCTATCTCTCCTCTC 61.248 65.000 0.00 0.00 0.00 3.20
923 949 0.610785 CCCGCCTATCTCTCCTCTCC 60.611 65.000 0.00 0.00 0.00 3.71
924 950 0.404040 CCGCCTATCTCTCCTCTCCT 59.596 60.000 0.00 0.00 0.00 3.69
925 951 1.613255 CCGCCTATCTCTCCTCTCCTC 60.613 61.905 0.00 0.00 0.00 3.71
926 952 1.351017 CGCCTATCTCTCCTCTCCTCT 59.649 57.143 0.00 0.00 0.00 3.69
983 1016 5.530915 CCGCTCTATAAAACATTTCCATGGA 59.469 40.000 11.44 11.44 34.27 3.41
1083 1116 0.601558 GTCGGTAGACAAGCACCTCA 59.398 55.000 0.00 0.00 46.32 3.86
1102 1135 4.124351 CGCCGGCGACAGGAACTA 62.124 66.667 44.86 0.00 42.83 2.24
1374 1407 3.756727 GAGCAGCAAGGCCAAGGC 61.757 66.667 5.01 5.16 41.06 4.35
1396 1429 4.323477 GCACCGGCACCTGTGGTA 62.323 66.667 12.41 0.00 40.72 3.25
1412 1445 1.077169 TGGTAGTGAAGCAGGAGGAGA 59.923 52.381 0.00 0.00 0.00 3.71
1414 1447 1.133407 GTAGTGAAGCAGGAGGAGACG 59.867 57.143 0.00 0.00 0.00 4.18
1651 1684 2.125512 GGCGACCTCATGCTCGTT 60.126 61.111 8.46 0.00 32.30 3.85
1704 1740 7.175467 TGCATCCAAGATACATATGATTTGGTC 59.825 37.037 10.38 10.48 37.09 4.02
1710 1746 9.559732 CAAGATACATATGATTTGGTCTGGTTA 57.440 33.333 10.38 0.00 0.00 2.85
1724 1760 7.654022 TGGTCTGGTTAGAGTTTGAAAAATT 57.346 32.000 0.00 0.00 32.48 1.82
2051 2089 4.136796 CAACACAAAAGGAGTGGAGATCA 58.863 43.478 0.00 0.00 41.21 2.92
2183 2221 6.660887 TCAAAGGTTGCAAGAAAATTTCAC 57.339 33.333 8.55 0.00 0.00 3.18
2216 2254 6.954487 TCAGCTATTTGCAATCATCTCAAT 57.046 33.333 0.00 0.00 45.94 2.57
2217 2255 6.735130 TCAGCTATTTGCAATCATCTCAATG 58.265 36.000 0.00 0.00 45.94 2.82
2241 2279 5.582269 GCATACTAAGCATGAACTTGACTCA 59.418 40.000 0.00 0.00 0.00 3.41
2247 2285 5.931441 AGCATGAACTTGACTCACTTAAC 57.069 39.130 0.00 0.00 0.00 2.01
2254 2292 7.332557 TGAACTTGACTCACTTAACCACTAAA 58.667 34.615 0.00 0.00 0.00 1.85
2255 2293 7.825270 TGAACTTGACTCACTTAACCACTAAAA 59.175 33.333 0.00 0.00 0.00 1.52
2260 2298 6.204688 TGACTCACTTAACCACTAAAATGCTG 59.795 38.462 0.00 0.00 0.00 4.41
2289 2327 4.142038 AGGGACCAAAATGTTACACAGAC 58.858 43.478 0.00 0.00 0.00 3.51
2290 2328 3.886505 GGGACCAAAATGTTACACAGACA 59.113 43.478 0.00 0.00 0.00 3.41
2292 2330 4.523813 GACCAAAATGTTACACAGACACG 58.476 43.478 0.00 0.00 0.00 4.49
2293 2331 3.242936 ACCAAAATGTTACACAGACACGC 60.243 43.478 0.00 0.00 0.00 5.34
2294 2332 2.941891 AAATGTTACACAGACACGCG 57.058 45.000 3.53 3.53 0.00 6.01
2295 2333 1.860676 AATGTTACACAGACACGCGT 58.139 45.000 5.58 5.58 0.00 6.01
2296 2334 1.136690 ATGTTACACAGACACGCGTG 58.863 50.000 35.99 35.99 39.10 5.34
2322 2374 3.822167 TCTCAGCATCAATCACTTGCAAA 59.178 39.130 0.00 0.00 38.84 3.68
2323 2375 4.278919 TCTCAGCATCAATCACTTGCAAAA 59.721 37.500 0.00 0.00 38.84 2.44
2356 2408 1.122227 AAGCAAGCAAGGCTCCAAAA 58.878 45.000 0.00 0.00 41.66 2.44
2357 2409 1.122227 AGCAAGCAAGGCTCCAAAAA 58.878 45.000 0.00 0.00 38.25 1.94
2565 2618 7.445945 AGTAGTGACAAAAGAGCAGAGTTAAT 58.554 34.615 0.00 0.00 0.00 1.40
2566 2619 7.934120 AGTAGTGACAAAAGAGCAGAGTTAATT 59.066 33.333 0.00 0.00 0.00 1.40
2567 2620 9.204570 GTAGTGACAAAAGAGCAGAGTTAATTA 57.795 33.333 0.00 0.00 0.00 1.40
2568 2621 8.316640 AGTGACAAAAGAGCAGAGTTAATTAG 57.683 34.615 0.00 0.00 0.00 1.73
2569 2622 8.150945 AGTGACAAAAGAGCAGAGTTAATTAGA 58.849 33.333 0.00 0.00 0.00 2.10
2570 2623 8.439286 GTGACAAAAGAGCAGAGTTAATTAGAG 58.561 37.037 0.00 0.00 0.00 2.43
2571 2624 7.118390 TGACAAAAGAGCAGAGTTAATTAGAGC 59.882 37.037 0.00 0.00 0.00 4.09
2572 2625 6.936900 ACAAAAGAGCAGAGTTAATTAGAGCA 59.063 34.615 0.00 0.00 0.00 4.26
2573 2626 7.609532 ACAAAAGAGCAGAGTTAATTAGAGCAT 59.390 33.333 0.00 0.00 0.00 3.79
2574 2627 7.551035 AAAGAGCAGAGTTAATTAGAGCATG 57.449 36.000 0.00 0.00 0.00 4.06
2575 2628 5.609423 AGAGCAGAGTTAATTAGAGCATGG 58.391 41.667 0.00 0.00 0.00 3.66
2576 2629 5.130145 AGAGCAGAGTTAATTAGAGCATGGT 59.870 40.000 0.00 0.00 0.00 3.55
2577 2630 5.749462 AGCAGAGTTAATTAGAGCATGGTT 58.251 37.500 0.00 0.00 0.00 3.67
2578 2631 6.889198 AGCAGAGTTAATTAGAGCATGGTTA 58.111 36.000 0.00 0.00 0.00 2.85
2579 2632 7.338710 AGCAGAGTTAATTAGAGCATGGTTAA 58.661 34.615 0.00 0.68 0.00 2.01
2580 2633 7.995488 AGCAGAGTTAATTAGAGCATGGTTAAT 59.005 33.333 0.00 3.04 0.00 1.40
2581 2634 9.273016 GCAGAGTTAATTAGAGCATGGTTAATA 57.727 33.333 0.00 0.00 0.00 0.98
2589 2642 9.892130 AATTAGAGCATGGTTAATAGTATAGCC 57.108 33.333 0.00 0.00 0.00 3.93
2590 2643 6.935240 AGAGCATGGTTAATAGTATAGCCA 57.065 37.500 0.00 3.65 39.96 4.75
2591 2644 6.940739 AGAGCATGGTTAATAGTATAGCCAG 58.059 40.000 0.00 2.11 39.18 4.85
2592 2645 5.491982 AGCATGGTTAATAGTATAGCCAGC 58.508 41.667 0.00 8.73 39.18 4.85
2593 2646 5.249393 AGCATGGTTAATAGTATAGCCAGCT 59.751 40.000 0.00 0.00 39.18 4.24
2594 2647 5.352569 GCATGGTTAATAGTATAGCCAGCTG 59.647 44.000 6.78 6.78 39.18 4.24
2595 2648 4.894784 TGGTTAATAGTATAGCCAGCTGC 58.105 43.478 8.66 3.91 41.71 5.25
2617 2670 1.972872 GCTATAAGCCAGTGCCATGT 58.027 50.000 0.00 0.00 38.69 3.21
2618 2671 1.876156 GCTATAAGCCAGTGCCATGTC 59.124 52.381 0.00 0.00 38.69 3.06
2619 2672 2.746142 GCTATAAGCCAGTGCCATGTCA 60.746 50.000 0.00 0.00 38.69 3.58
2620 2673 2.742428 ATAAGCCAGTGCCATGTCAT 57.258 45.000 0.00 0.00 38.69 3.06
2621 2674 2.042686 TAAGCCAGTGCCATGTCATC 57.957 50.000 0.00 0.00 38.69 2.92
2622 2675 0.330604 AAGCCAGTGCCATGTCATCT 59.669 50.000 0.00 0.00 38.69 2.90
2623 2676 1.206878 AGCCAGTGCCATGTCATCTA 58.793 50.000 0.00 0.00 38.69 1.98
2624 2677 1.773052 AGCCAGTGCCATGTCATCTAT 59.227 47.619 0.00 0.00 38.69 1.98
2625 2678 2.974794 AGCCAGTGCCATGTCATCTATA 59.025 45.455 0.00 0.00 38.69 1.31
2626 2679 3.007723 AGCCAGTGCCATGTCATCTATAG 59.992 47.826 0.00 0.00 38.69 1.31
2627 2680 3.332919 CCAGTGCCATGTCATCTATAGC 58.667 50.000 0.00 0.00 0.00 2.97
2628 2681 3.332919 CAGTGCCATGTCATCTATAGCC 58.667 50.000 0.00 0.00 0.00 3.93
2629 2682 3.007723 CAGTGCCATGTCATCTATAGCCT 59.992 47.826 0.00 0.00 0.00 4.58
2630 2683 4.221482 CAGTGCCATGTCATCTATAGCCTA 59.779 45.833 0.00 0.00 0.00 3.93
2631 2684 5.028802 AGTGCCATGTCATCTATAGCCTAT 58.971 41.667 0.00 0.00 0.00 2.57
2632 2685 5.128499 AGTGCCATGTCATCTATAGCCTATC 59.872 44.000 0.00 0.00 0.00 2.08
2633 2686 5.128499 GTGCCATGTCATCTATAGCCTATCT 59.872 44.000 0.00 0.00 0.00 1.98
2634 2687 5.723405 TGCCATGTCATCTATAGCCTATCTT 59.277 40.000 0.00 0.00 0.00 2.40
2635 2688 6.897413 TGCCATGTCATCTATAGCCTATCTTA 59.103 38.462 0.00 0.00 0.00 2.10
2636 2689 7.566509 TGCCATGTCATCTATAGCCTATCTTAT 59.433 37.037 0.00 0.00 0.00 1.73
2637 2690 9.083422 GCCATGTCATCTATAGCCTATCTTATA 57.917 37.037 0.00 0.00 0.00 0.98
2650 2703 8.478775 AGCCTATCTTATAGTCAACATGTACA 57.521 34.615 0.00 0.00 0.00 2.90
2651 2704 8.924303 AGCCTATCTTATAGTCAACATGTACAA 58.076 33.333 0.00 0.00 0.00 2.41
2652 2705 9.712305 GCCTATCTTATAGTCAACATGTACAAT 57.288 33.333 0.00 0.00 0.00 2.71
2700 2753 5.669164 TTTTATTATGTGGCCCACCTTTC 57.331 39.130 12.25 0.00 36.63 2.62
2701 2754 2.917713 ATTATGTGGCCCACCTTTCA 57.082 45.000 12.25 0.00 36.63 2.69
2702 2755 2.917713 TTATGTGGCCCACCTTTCAT 57.082 45.000 12.25 0.00 36.63 2.57
2703 2756 2.917713 TATGTGGCCCACCTTTCATT 57.082 45.000 12.25 0.00 36.63 2.57
2704 2757 1.560505 ATGTGGCCCACCTTTCATTC 58.439 50.000 12.25 0.00 36.63 2.67
2705 2758 0.482446 TGTGGCCCACCTTTCATTCT 59.518 50.000 12.25 0.00 36.63 2.40
2706 2759 1.177401 GTGGCCCACCTTTCATTCTC 58.823 55.000 1.17 0.00 36.63 2.87
2707 2760 0.776810 TGGCCCACCTTTCATTCTCA 59.223 50.000 0.00 0.00 36.63 3.27
2708 2761 1.177401 GGCCCACCTTTCATTCTCAC 58.823 55.000 0.00 0.00 0.00 3.51
2709 2762 1.547675 GGCCCACCTTTCATTCTCACA 60.548 52.381 0.00 0.00 0.00 3.58
2710 2763 2.238521 GCCCACCTTTCATTCTCACAA 58.761 47.619 0.00 0.00 0.00 3.33
2711 2764 2.627699 GCCCACCTTTCATTCTCACAAA 59.372 45.455 0.00 0.00 0.00 2.83
2712 2765 3.305608 GCCCACCTTTCATTCTCACAAAG 60.306 47.826 0.00 0.00 0.00 2.77
2713 2766 3.891366 CCCACCTTTCATTCTCACAAAGT 59.109 43.478 0.00 0.00 0.00 2.66
2714 2767 4.261741 CCCACCTTTCATTCTCACAAAGTG 60.262 45.833 0.00 0.00 34.45 3.16
2715 2768 4.293415 CACCTTTCATTCTCACAAAGTGC 58.707 43.478 0.00 0.00 32.98 4.40
2716 2769 3.319122 ACCTTTCATTCTCACAAAGTGCC 59.681 43.478 0.00 0.00 32.98 5.01
2717 2770 3.571401 CCTTTCATTCTCACAAAGTGCCT 59.429 43.478 0.00 0.00 32.98 4.75
2718 2771 4.761739 CCTTTCATTCTCACAAAGTGCCTA 59.238 41.667 0.00 0.00 32.98 3.93
2719 2772 5.106396 CCTTTCATTCTCACAAAGTGCCTAG 60.106 44.000 0.00 0.00 32.98 3.02
2720 2773 3.942829 TCATTCTCACAAAGTGCCTAGG 58.057 45.455 3.67 3.67 32.98 3.02
2721 2774 3.582647 TCATTCTCACAAAGTGCCTAGGA 59.417 43.478 14.75 0.00 32.98 2.94
2722 2775 3.685139 TTCTCACAAAGTGCCTAGGAG 57.315 47.619 14.75 0.00 32.98 3.69
2723 2776 1.276421 TCTCACAAAGTGCCTAGGAGC 59.724 52.381 14.75 3.68 32.98 4.70
2724 2777 1.002430 CTCACAAAGTGCCTAGGAGCA 59.998 52.381 14.75 0.22 41.46 4.26
2739 2792 3.169198 GCACGTGCTAGAACTGGC 58.831 61.111 32.55 1.87 38.21 4.85
2740 2793 1.374758 GCACGTGCTAGAACTGGCT 60.375 57.895 32.55 0.00 37.97 4.75
2741 2794 1.355066 GCACGTGCTAGAACTGGCTC 61.355 60.000 32.55 6.89 37.97 4.70
2742 2795 0.244994 CACGTGCTAGAACTGGCTCT 59.755 55.000 0.82 0.00 37.97 4.09
2743 2796 0.969894 ACGTGCTAGAACTGGCTCTT 59.030 50.000 11.06 0.00 37.97 2.85
2744 2797 1.067495 ACGTGCTAGAACTGGCTCTTC 60.067 52.381 11.06 0.36 37.97 2.87
2745 2798 1.067565 CGTGCTAGAACTGGCTCTTCA 60.068 52.381 11.06 0.00 37.97 3.02
2746 2799 2.342179 GTGCTAGAACTGGCTCTTCAC 58.658 52.381 11.06 0.00 37.97 3.18
2747 2800 1.970640 TGCTAGAACTGGCTCTTCACA 59.029 47.619 11.06 0.00 37.97 3.58
2748 2801 2.368548 TGCTAGAACTGGCTCTTCACAA 59.631 45.455 11.06 0.00 37.97 3.33
2749 2802 2.999355 GCTAGAACTGGCTCTTCACAAG 59.001 50.000 0.00 0.00 34.00 3.16
2750 2803 3.306364 GCTAGAACTGGCTCTTCACAAGA 60.306 47.826 0.00 0.00 34.00 3.02
2757 2810 3.471620 TCTTCACAAGAGCCCGCT 58.528 55.556 0.00 0.00 32.71 5.52
2758 2811 1.754745 TCTTCACAAGAGCCCGCTT 59.245 52.632 0.00 0.00 32.71 4.68
2759 2812 0.973632 TCTTCACAAGAGCCCGCTTA 59.026 50.000 0.00 0.00 32.71 3.09
2760 2813 1.555075 TCTTCACAAGAGCCCGCTTAT 59.445 47.619 0.00 0.00 32.71 1.73
2761 2814 1.936547 CTTCACAAGAGCCCGCTTATC 59.063 52.381 0.00 0.00 0.00 1.75
2762 2815 1.195115 TCACAAGAGCCCGCTTATCT 58.805 50.000 0.00 0.00 0.00 1.98
2763 2816 1.555075 TCACAAGAGCCCGCTTATCTT 59.445 47.619 0.00 0.00 33.62 2.40
2764 2817 1.936547 CACAAGAGCCCGCTTATCTTC 59.063 52.381 0.00 0.00 30.99 2.87
2765 2818 1.834263 ACAAGAGCCCGCTTATCTTCT 59.166 47.619 0.00 0.00 30.99 2.85
2766 2819 2.159028 ACAAGAGCCCGCTTATCTTCTC 60.159 50.000 0.00 0.00 30.99 2.87
2767 2820 2.080654 AGAGCCCGCTTATCTTCTCT 57.919 50.000 0.00 0.00 0.00 3.10
2768 2821 1.960689 AGAGCCCGCTTATCTTCTCTC 59.039 52.381 0.00 0.00 0.00 3.20
2769 2822 1.960689 GAGCCCGCTTATCTTCTCTCT 59.039 52.381 0.00 0.00 0.00 3.10
2770 2823 1.960689 AGCCCGCTTATCTTCTCTCTC 59.039 52.381 0.00 0.00 0.00 3.20
2771 2824 1.000394 GCCCGCTTATCTTCTCTCTCC 60.000 57.143 0.00 0.00 0.00 3.71
2772 2825 2.593026 CCCGCTTATCTTCTCTCTCCT 58.407 52.381 0.00 0.00 0.00 3.69
2773 2826 2.556622 CCCGCTTATCTTCTCTCTCCTC 59.443 54.545 0.00 0.00 0.00 3.71
2774 2827 3.486383 CCGCTTATCTTCTCTCTCCTCT 58.514 50.000 0.00 0.00 0.00 3.69
2775 2828 3.888930 CCGCTTATCTTCTCTCTCCTCTT 59.111 47.826 0.00 0.00 0.00 2.85
2776 2829 4.023193 CCGCTTATCTTCTCTCTCCTCTTC 60.023 50.000 0.00 0.00 0.00 2.87
2777 2830 4.821805 CGCTTATCTTCTCTCTCCTCTTCT 59.178 45.833 0.00 0.00 0.00 2.85
2778 2831 5.049405 CGCTTATCTTCTCTCTCCTCTTCTC 60.049 48.000 0.00 0.00 0.00 2.87
2779 2832 6.064717 GCTTATCTTCTCTCTCCTCTTCTCT 58.935 44.000 0.00 0.00 0.00 3.10
2780 2833 6.547510 GCTTATCTTCTCTCTCCTCTTCTCTT 59.452 42.308 0.00 0.00 0.00 2.85
2781 2834 7.068716 GCTTATCTTCTCTCTCCTCTTCTCTTT 59.931 40.741 0.00 0.00 0.00 2.52
2782 2835 8.519799 TTATCTTCTCTCTCCTCTTCTCTTTC 57.480 38.462 0.00 0.00 0.00 2.62
2783 2836 5.261216 TCTTCTCTCTCCTCTTCTCTTTCC 58.739 45.833 0.00 0.00 0.00 3.13
2784 2837 4.946160 TCTCTCTCCTCTTCTCTTTCCT 57.054 45.455 0.00 0.00 0.00 3.36
2785 2838 4.855340 TCTCTCTCCTCTTCTCTTTCCTC 58.145 47.826 0.00 0.00 0.00 3.71
2786 2839 3.954258 CTCTCTCCTCTTCTCTTTCCTCC 59.046 52.174 0.00 0.00 0.00 4.30
2787 2840 3.335183 TCTCTCCTCTTCTCTTTCCTCCA 59.665 47.826 0.00 0.00 0.00 3.86
2788 2841 4.093011 CTCTCCTCTTCTCTTTCCTCCAA 58.907 47.826 0.00 0.00 0.00 3.53
2789 2842 3.835395 TCTCCTCTTCTCTTTCCTCCAAC 59.165 47.826 0.00 0.00 0.00 3.77
2790 2843 3.837731 CTCCTCTTCTCTTTCCTCCAACT 59.162 47.826 0.00 0.00 0.00 3.16
2791 2844 5.011982 TCCTCTTCTCTTTCCTCCAACTA 57.988 43.478 0.00 0.00 0.00 2.24
2792 2845 5.403512 TCCTCTTCTCTTTCCTCCAACTAA 58.596 41.667 0.00 0.00 0.00 2.24
2793 2846 5.482175 TCCTCTTCTCTTTCCTCCAACTAAG 59.518 44.000 0.00 0.00 0.00 2.18
2794 2847 5.153950 TCTTCTCTTTCCTCCAACTAAGC 57.846 43.478 0.00 0.00 0.00 3.09
2795 2848 4.593206 TCTTCTCTTTCCTCCAACTAAGCA 59.407 41.667 0.00 0.00 0.00 3.91
2796 2849 4.543590 TCTCTTTCCTCCAACTAAGCAG 57.456 45.455 0.00 0.00 0.00 4.24
2797 2850 4.160329 TCTCTTTCCTCCAACTAAGCAGA 58.840 43.478 0.00 0.00 0.00 4.26
2798 2851 4.593206 TCTCTTTCCTCCAACTAAGCAGAA 59.407 41.667 0.00 0.00 0.00 3.02
2799 2852 5.071788 TCTCTTTCCTCCAACTAAGCAGAAA 59.928 40.000 0.00 0.00 0.00 2.52
2800 2853 5.880901 TCTTTCCTCCAACTAAGCAGAAAT 58.119 37.500 0.00 0.00 0.00 2.17
2801 2854 7.016153 TCTTTCCTCCAACTAAGCAGAAATA 57.984 36.000 0.00 0.00 0.00 1.40
2802 2855 7.633789 TCTTTCCTCCAACTAAGCAGAAATAT 58.366 34.615 0.00 0.00 0.00 1.28
2803 2856 8.768397 TCTTTCCTCCAACTAAGCAGAAATATA 58.232 33.333 0.00 0.00 0.00 0.86
2804 2857 8.732746 TTTCCTCCAACTAAGCAGAAATATAC 57.267 34.615 0.00 0.00 0.00 1.47
2805 2858 7.676683 TCCTCCAACTAAGCAGAAATATACT 57.323 36.000 0.00 0.00 0.00 2.12
2806 2859 8.777578 TCCTCCAACTAAGCAGAAATATACTA 57.222 34.615 0.00 0.00 0.00 1.82
2807 2860 8.861086 TCCTCCAACTAAGCAGAAATATACTAG 58.139 37.037 0.00 0.00 0.00 2.57
2808 2861 8.643324 CCTCCAACTAAGCAGAAATATACTAGT 58.357 37.037 0.00 0.00 0.00 2.57
2826 2879 8.999220 ATACTAGTTTATTCTTTATAGCCCGC 57.001 34.615 0.00 0.00 0.00 6.13
2827 2880 7.063934 ACTAGTTTATTCTTTATAGCCCGCT 57.936 36.000 0.00 0.00 0.00 5.52
2828 2881 6.929606 ACTAGTTTATTCTTTATAGCCCGCTG 59.070 38.462 0.00 0.00 0.00 5.18
2829 2882 5.925509 AGTTTATTCTTTATAGCCCGCTGA 58.074 37.500 0.00 0.00 0.00 4.26
2830 2883 5.758784 AGTTTATTCTTTATAGCCCGCTGAC 59.241 40.000 0.00 0.00 0.00 3.51
2831 2884 5.546621 TTATTCTTTATAGCCCGCTGACT 57.453 39.130 0.00 0.00 0.00 3.41
2832 2885 3.454371 TTCTTTATAGCCCGCTGACTC 57.546 47.619 0.00 0.00 0.00 3.36
2833 2886 2.384828 TCTTTATAGCCCGCTGACTCA 58.615 47.619 0.00 0.00 0.00 3.41
2834 2887 2.362397 TCTTTATAGCCCGCTGACTCAG 59.638 50.000 1.21 1.21 34.12 3.35
2848 2901 4.843147 CTGACTCAGCTCTATTGTACTCG 58.157 47.826 0.00 0.00 0.00 4.18
2849 2902 3.065510 TGACTCAGCTCTATTGTACTCGC 59.934 47.826 0.00 0.00 0.00 5.03
2850 2903 3.283751 ACTCAGCTCTATTGTACTCGCT 58.716 45.455 0.00 0.00 0.00 4.93
2851 2904 3.314080 ACTCAGCTCTATTGTACTCGCTC 59.686 47.826 0.00 0.00 0.00 5.03
2863 2916 2.683572 TCGCTCTTAGCCAGCCCA 60.684 61.111 0.00 0.00 38.18 5.36
2877 2930 2.749621 CCAGCCCAGATGAAACAGTTAC 59.250 50.000 0.00 0.00 0.00 2.50
2878 2931 3.560025 CCAGCCCAGATGAAACAGTTACT 60.560 47.826 0.00 0.00 0.00 2.24
2879 2932 4.323485 CCAGCCCAGATGAAACAGTTACTA 60.323 45.833 0.00 0.00 0.00 1.82
2880 2933 4.631813 CAGCCCAGATGAAACAGTTACTAC 59.368 45.833 0.00 0.00 0.00 2.73
2881 2934 4.532521 AGCCCAGATGAAACAGTTACTACT 59.467 41.667 0.00 0.00 34.00 2.57
2882 2935 5.720041 AGCCCAGATGAAACAGTTACTACTA 59.280 40.000 0.00 0.00 31.96 1.82
2888 2941 8.304596 CAGATGAAACAGTTACTACTAACCAGA 58.695 37.037 0.00 0.00 33.82 3.86
2891 2944 5.402997 AACAGTTACTACTAACCAGAGCC 57.597 43.478 0.00 0.00 33.82 4.70
2900 2953 1.275291 CTAACCAGAGCCGGTCAAGAA 59.725 52.381 1.90 0.00 38.76 2.52
2905 2958 0.035458 AGAGCCGGTCAAGAAACAGG 59.965 55.000 1.90 0.00 37.53 4.00
2912 2965 1.611936 GGTCAAGAAACAGGCTCTCCC 60.612 57.143 0.00 0.00 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
84 85 9.588096 ACCACTTCACCTTTTCTTTTTCTATAT 57.412 29.630 0.00 0.00 0.00 0.86
85 86 8.990163 ACCACTTCACCTTTTCTTTTTCTATA 57.010 30.769 0.00 0.00 0.00 1.31
325 327 5.584551 AATACAAAACTGTCTCCTCCCTT 57.415 39.130 0.00 0.00 0.00 3.95
431 438 4.708726 ACAGCACTGATGAAATTTAGCC 57.291 40.909 4.31 0.00 0.00 3.93
525 533 6.842676 ACTTACCATAAGGAATGAAGATCCC 58.157 40.000 0.00 0.00 37.86 3.85
526 534 8.429641 TGTACTTACCATAAGGAATGAAGATCC 58.570 37.037 0.00 0.00 37.86 3.36
634 647 1.067635 GGTCGGGTCGTTGCTTTACTA 60.068 52.381 0.00 0.00 0.00 1.82
636 649 1.293963 GGGTCGGGTCGTTGCTTTAC 61.294 60.000 0.00 0.00 0.00 2.01
638 651 2.281276 GGGTCGGGTCGTTGCTTT 60.281 61.111 0.00 0.00 0.00 3.51
639 652 4.675029 CGGGTCGGGTCGTTGCTT 62.675 66.667 0.00 0.00 0.00 3.91
861 882 1.303561 GGCTCCAACTCCACATGCA 60.304 57.895 0.00 0.00 0.00 3.96
916 942 1.523046 CGACGAGGAGAGGAGAGGA 59.477 63.158 0.00 0.00 0.00 3.71
917 943 2.184167 GCGACGAGGAGAGGAGAGG 61.184 68.421 0.00 0.00 0.00 3.69
918 944 1.436195 CTGCGACGAGGAGAGGAGAG 61.436 65.000 0.00 0.00 41.23 3.20
919 945 1.450491 CTGCGACGAGGAGAGGAGA 60.450 63.158 0.00 0.00 41.23 3.71
920 946 3.106552 CTGCGACGAGGAGAGGAG 58.893 66.667 0.00 0.00 41.23 3.69
921 947 3.134792 GCTGCGACGAGGAGAGGA 61.135 66.667 0.00 0.00 41.23 3.71
922 948 3.408501 CTGCTGCGACGAGGAGAGG 62.409 68.421 0.00 0.00 41.23 3.69
923 949 2.101965 CTGCTGCGACGAGGAGAG 59.898 66.667 0.00 0.74 41.23 3.20
924 950 3.443925 CCTGCTGCGACGAGGAGA 61.444 66.667 14.22 0.00 41.23 3.71
957 983 6.293626 CCATGGAAATGTTTTATAGAGCGGAG 60.294 42.308 5.56 0.00 0.00 4.63
960 986 6.483307 TCTCCATGGAAATGTTTTATAGAGCG 59.517 38.462 17.00 0.00 0.00 5.03
961 987 7.807977 TCTCCATGGAAATGTTTTATAGAGC 57.192 36.000 17.00 0.00 0.00 4.09
983 1016 1.131638 TTGTGAGCTGTGGAGGTTCT 58.868 50.000 0.00 0.00 0.00 3.01
1381 1414 2.525877 ACTACCACAGGTGCCGGT 60.526 61.111 1.90 0.00 36.19 5.28
1396 1429 1.254284 CCGTCTCCTCCTGCTTCACT 61.254 60.000 0.00 0.00 0.00 3.41
1492 1525 3.288964 GAGGTCGATCTTCCTCAGGTAA 58.711 50.000 20.75 0.00 46.59 2.85
1591 1624 1.364901 GAAGTCCGACGGGTTCACA 59.635 57.895 15.25 0.00 33.83 3.58
1710 1746 8.695456 ACACCATACTGAAATTTTTCAAACTCT 58.305 29.630 7.13 0.00 45.61 3.24
1724 1760 6.841229 AGATCCTCATAAGACACCATACTGAA 59.159 38.462 0.00 0.00 0.00 3.02
1731 1767 5.485353 ACAAAGAGATCCTCATAAGACACCA 59.515 40.000 0.00 0.00 32.06 4.17
2051 2089 3.181485 GGAGATCCGATTCAACTCGAACT 60.181 47.826 0.00 0.00 41.12 3.01
2183 2221 1.600957 CAAATAGCTGATGCCACCGAG 59.399 52.381 0.00 0.00 40.80 4.63
2216 2254 5.491070 AGTCAAGTTCATGCTTAGTATGCA 58.509 37.500 12.62 12.62 44.95 3.96
2217 2255 5.582269 TGAGTCAAGTTCATGCTTAGTATGC 59.418 40.000 5.42 1.12 0.00 3.14
2241 2279 5.782893 TTGCAGCATTTTAGTGGTTAAGT 57.217 34.783 0.00 0.00 0.00 2.24
2289 2327 2.807045 GCTGAGAGGACACGCGTG 60.807 66.667 35.99 35.99 0.00 5.34
2290 2328 2.549611 GATGCTGAGAGGACACGCGT 62.550 60.000 5.58 5.58 0.00 6.01
2292 2330 0.390340 TTGATGCTGAGAGGACACGC 60.390 55.000 0.00 0.00 0.00 5.34
2293 2331 2.200067 GATTGATGCTGAGAGGACACG 58.800 52.381 0.00 0.00 0.00 4.49
2294 2332 2.935201 GTGATTGATGCTGAGAGGACAC 59.065 50.000 0.00 0.00 0.00 3.67
2295 2333 2.836372 AGTGATTGATGCTGAGAGGACA 59.164 45.455 0.00 0.00 0.00 4.02
2296 2334 3.540314 AGTGATTGATGCTGAGAGGAC 57.460 47.619 0.00 0.00 0.00 3.85
2322 2374 4.248058 GCTTGCTTAACCATGCATCTTTT 58.752 39.130 0.00 0.00 39.07 2.27
2323 2375 3.258872 TGCTTGCTTAACCATGCATCTTT 59.741 39.130 0.00 0.00 39.86 2.52
2326 2378 2.945447 TGCTTGCTTAACCATGCATC 57.055 45.000 0.00 0.00 39.86 3.91
2328 2380 1.273048 CCTTGCTTGCTTAACCATGCA 59.727 47.619 7.13 7.13 42.04 3.96
2329 2381 2.000429 CCTTGCTTGCTTAACCATGC 58.000 50.000 2.48 2.48 36.68 4.06
2330 2382 1.547372 AGCCTTGCTTGCTTAACCATG 59.453 47.619 0.00 0.00 33.89 3.66
2339 2391 2.174363 ATTTTTGGAGCCTTGCTTGC 57.826 45.000 0.00 0.00 39.88 4.01
2356 2408 8.715088 GCTTGCAAGATTTGTCTCATTTAAATT 58.285 29.630 30.39 0.00 0.00 1.82
2357 2409 7.874016 TGCTTGCAAGATTTGTCTCATTTAAAT 59.126 29.630 30.39 0.00 0.00 1.40
2379 2432 4.460382 ACATCATTCGTTTGGATCTTGCTT 59.540 37.500 0.00 0.00 0.00 3.91
2393 2446 4.034394 CCATACCTGTGTTCACATCATTCG 59.966 45.833 6.09 0.00 0.00 3.34
2565 2618 8.430573 TGGCTATACTATTAACCATGCTCTAA 57.569 34.615 0.00 0.00 0.00 2.10
2566 2619 7.363880 GCTGGCTATACTATTAACCATGCTCTA 60.364 40.741 0.00 0.00 0.00 2.43
2567 2620 6.575254 GCTGGCTATACTATTAACCATGCTCT 60.575 42.308 0.00 0.00 0.00 4.09
2568 2621 5.582665 GCTGGCTATACTATTAACCATGCTC 59.417 44.000 0.00 0.00 0.00 4.26
2569 2622 5.249393 AGCTGGCTATACTATTAACCATGCT 59.751 40.000 0.00 0.00 31.38 3.79
2570 2623 5.352569 CAGCTGGCTATACTATTAACCATGC 59.647 44.000 5.57 0.00 0.00 4.06
2571 2624 5.352569 GCAGCTGGCTATACTATTAACCATG 59.647 44.000 17.12 0.00 40.25 3.66
2572 2625 5.491982 GCAGCTGGCTATACTATTAACCAT 58.508 41.667 17.12 0.00 40.25 3.55
2573 2626 4.894784 GCAGCTGGCTATACTATTAACCA 58.105 43.478 17.12 0.00 40.25 3.67
2598 2651 1.876156 GACATGGCACTGGCTTATAGC 59.124 52.381 3.97 0.00 41.46 2.97
2599 2652 3.198409 TGACATGGCACTGGCTTATAG 57.802 47.619 0.00 0.00 40.87 1.31
2600 2653 3.392285 AGATGACATGGCACTGGCTTATA 59.608 43.478 1.45 0.00 40.87 0.98
2601 2654 2.174210 AGATGACATGGCACTGGCTTAT 59.826 45.455 1.45 0.00 40.87 1.73
2602 2655 1.561076 AGATGACATGGCACTGGCTTA 59.439 47.619 1.45 0.00 40.87 3.09
2603 2656 0.330604 AGATGACATGGCACTGGCTT 59.669 50.000 1.45 0.00 40.87 4.35
2604 2657 1.206878 TAGATGACATGGCACTGGCT 58.793 50.000 1.45 1.41 40.87 4.75
2605 2658 2.267174 ATAGATGACATGGCACTGGC 57.733 50.000 1.45 0.00 40.13 4.85
2606 2659 3.332919 GCTATAGATGACATGGCACTGG 58.667 50.000 1.45 0.56 30.84 4.00
2607 2660 3.007723 AGGCTATAGATGACATGGCACTG 59.992 47.826 1.45 0.00 31.98 3.66
2608 2661 3.246301 AGGCTATAGATGACATGGCACT 58.754 45.455 1.45 6.11 31.98 4.40
2609 2662 3.692257 AGGCTATAGATGACATGGCAC 57.308 47.619 1.45 0.00 31.98 5.01
2610 2663 5.275630 AGATAGGCTATAGATGACATGGCA 58.724 41.667 2.18 2.18 31.98 4.92
2611 2664 5.867903 AGATAGGCTATAGATGACATGGC 57.132 43.478 7.08 0.00 0.00 4.40
2624 2677 9.582648 TGTACATGTTGACTATAAGATAGGCTA 57.417 33.333 2.30 0.00 0.00 3.93
2625 2678 8.478775 TGTACATGTTGACTATAAGATAGGCT 57.521 34.615 2.30 0.00 0.00 4.58
2626 2679 9.712305 ATTGTACATGTTGACTATAAGATAGGC 57.288 33.333 2.30 0.00 0.00 3.93
2677 2730 5.544176 TGAAAGGTGGGCCACATAATAAAAA 59.456 36.000 35.69 10.35 35.86 1.94
2678 2731 5.087323 TGAAAGGTGGGCCACATAATAAAA 58.913 37.500 35.69 11.39 35.86 1.52
2679 2732 4.678256 TGAAAGGTGGGCCACATAATAAA 58.322 39.130 35.69 13.51 35.86 1.40
2680 2733 4.323569 TGAAAGGTGGGCCACATAATAA 57.676 40.909 35.69 13.98 35.86 1.40
2681 2734 4.534647 ATGAAAGGTGGGCCACATAATA 57.465 40.909 35.69 19.38 35.86 0.98
2682 2735 2.917713 TGAAAGGTGGGCCACATAAT 57.082 45.000 35.69 22.42 35.86 1.28
2683 2736 2.917713 ATGAAAGGTGGGCCACATAA 57.082 45.000 35.69 19.62 35.86 1.90
2684 2737 2.311542 AGAATGAAAGGTGGGCCACATA 59.688 45.455 35.69 16.77 35.86 2.29
2685 2738 1.077663 AGAATGAAAGGTGGGCCACAT 59.922 47.619 35.69 28.70 35.86 3.21
2686 2739 0.482446 AGAATGAAAGGTGGGCCACA 59.518 50.000 35.69 17.39 35.86 4.17
2687 2740 1.177401 GAGAATGAAAGGTGGGCCAC 58.823 55.000 28.69 28.69 37.19 5.01
2688 2741 0.776810 TGAGAATGAAAGGTGGGCCA 59.223 50.000 0.00 0.00 37.19 5.36
2689 2742 1.177401 GTGAGAATGAAAGGTGGGCC 58.823 55.000 0.00 0.00 0.00 5.80
2690 2743 1.909700 TGTGAGAATGAAAGGTGGGC 58.090 50.000 0.00 0.00 0.00 5.36
2691 2744 3.891366 ACTTTGTGAGAATGAAAGGTGGG 59.109 43.478 0.00 0.00 0.00 4.61
2692 2745 4.794003 GCACTTTGTGAGAATGAAAGGTGG 60.794 45.833 1.52 0.00 35.23 4.61
2693 2746 4.293415 GCACTTTGTGAGAATGAAAGGTG 58.707 43.478 1.52 0.00 35.23 4.00
2694 2747 3.319122 GGCACTTTGTGAGAATGAAAGGT 59.681 43.478 1.52 0.00 35.23 3.50
2695 2748 3.571401 AGGCACTTTGTGAGAATGAAAGG 59.429 43.478 1.52 0.00 35.23 3.11
2696 2749 4.843220 AGGCACTTTGTGAGAATGAAAG 57.157 40.909 1.52 0.00 35.23 2.62
2697 2750 4.761739 CCTAGGCACTTTGTGAGAATGAAA 59.238 41.667 0.00 0.00 41.75 2.69
2698 2751 4.041567 TCCTAGGCACTTTGTGAGAATGAA 59.958 41.667 2.96 0.00 41.75 2.57
2699 2752 3.582647 TCCTAGGCACTTTGTGAGAATGA 59.417 43.478 2.96 0.00 41.75 2.57
2700 2753 3.937706 CTCCTAGGCACTTTGTGAGAATG 59.062 47.826 2.96 0.00 41.75 2.67
2701 2754 3.620966 GCTCCTAGGCACTTTGTGAGAAT 60.621 47.826 2.96 0.00 41.75 2.40
2702 2755 2.289694 GCTCCTAGGCACTTTGTGAGAA 60.290 50.000 2.96 0.00 41.75 2.87
2703 2756 1.276421 GCTCCTAGGCACTTTGTGAGA 59.724 52.381 2.96 0.00 41.75 3.27
2704 2757 1.002430 TGCTCCTAGGCACTTTGTGAG 59.998 52.381 2.96 0.00 41.75 3.51
2705 2758 1.055849 TGCTCCTAGGCACTTTGTGA 58.944 50.000 2.96 0.00 41.75 3.58
2706 2759 3.631453 TGCTCCTAGGCACTTTGTG 57.369 52.632 2.96 0.00 41.75 3.33
2722 2775 1.355066 GAGCCAGTTCTAGCACGTGC 61.355 60.000 32.79 32.79 42.49 5.34
2723 2776 0.244994 AGAGCCAGTTCTAGCACGTG 59.755 55.000 12.28 12.28 0.00 4.49
2724 2777 0.969894 AAGAGCCAGTTCTAGCACGT 59.030 50.000 0.00 0.00 0.00 4.49
2725 2778 1.067565 TGAAGAGCCAGTTCTAGCACG 60.068 52.381 0.00 0.00 0.00 5.34
2726 2779 2.289072 TGTGAAGAGCCAGTTCTAGCAC 60.289 50.000 9.16 9.16 35.18 4.40
2727 2780 1.970640 TGTGAAGAGCCAGTTCTAGCA 59.029 47.619 0.00 0.00 0.00 3.49
2728 2781 2.751166 TGTGAAGAGCCAGTTCTAGC 57.249 50.000 0.00 0.00 0.00 3.42
2729 2782 4.527509 TCTTGTGAAGAGCCAGTTCTAG 57.472 45.455 0.00 0.00 32.71 2.43
2740 2793 0.973632 TAAGCGGGCTCTTGTGAAGA 59.026 50.000 0.00 0.00 35.87 2.87
2741 2794 1.936547 GATAAGCGGGCTCTTGTGAAG 59.063 52.381 0.00 0.00 0.00 3.02
2742 2795 1.555075 AGATAAGCGGGCTCTTGTGAA 59.445 47.619 0.00 0.00 0.00 3.18
2743 2796 1.195115 AGATAAGCGGGCTCTTGTGA 58.805 50.000 0.00 0.00 0.00 3.58
2744 2797 1.936547 GAAGATAAGCGGGCTCTTGTG 59.063 52.381 0.00 0.00 29.64 3.33
2745 2798 1.834263 AGAAGATAAGCGGGCTCTTGT 59.166 47.619 0.00 0.00 29.64 3.16
2746 2799 2.102252 AGAGAAGATAAGCGGGCTCTTG 59.898 50.000 0.00 0.00 29.02 3.02
2747 2800 2.364002 GAGAGAAGATAAGCGGGCTCTT 59.636 50.000 0.00 0.00 33.26 2.85
2748 2801 1.960689 GAGAGAAGATAAGCGGGCTCT 59.039 52.381 0.00 0.00 35.59 4.09
2749 2802 1.960689 AGAGAGAAGATAAGCGGGCTC 59.039 52.381 0.00 0.00 0.00 4.70
2750 2803 1.960689 GAGAGAGAAGATAAGCGGGCT 59.039 52.381 0.00 0.00 0.00 5.19
2751 2804 1.000394 GGAGAGAGAAGATAAGCGGGC 60.000 57.143 0.00 0.00 0.00 6.13
2752 2805 2.556622 GAGGAGAGAGAAGATAAGCGGG 59.443 54.545 0.00 0.00 0.00 6.13
2753 2806 3.486383 AGAGGAGAGAGAAGATAAGCGG 58.514 50.000 0.00 0.00 0.00 5.52
2754 2807 4.821805 AGAAGAGGAGAGAGAAGATAAGCG 59.178 45.833 0.00 0.00 0.00 4.68
2755 2808 6.064717 AGAGAAGAGGAGAGAGAAGATAAGC 58.935 44.000 0.00 0.00 0.00 3.09
2756 2809 8.525290 AAAGAGAAGAGGAGAGAGAAGATAAG 57.475 38.462 0.00 0.00 0.00 1.73
2757 2810 7.559897 GGAAAGAGAAGAGGAGAGAGAAGATAA 59.440 40.741 0.00 0.00 0.00 1.75
2758 2811 7.060421 GGAAAGAGAAGAGGAGAGAGAAGATA 58.940 42.308 0.00 0.00 0.00 1.98
2759 2812 5.893824 GGAAAGAGAAGAGGAGAGAGAAGAT 59.106 44.000 0.00 0.00 0.00 2.40
2760 2813 5.015178 AGGAAAGAGAAGAGGAGAGAGAAGA 59.985 44.000 0.00 0.00 0.00 2.87
2761 2814 5.264395 AGGAAAGAGAAGAGGAGAGAGAAG 58.736 45.833 0.00 0.00 0.00 2.85
2762 2815 5.261216 GAGGAAAGAGAAGAGGAGAGAGAA 58.739 45.833 0.00 0.00 0.00 2.87
2763 2816 4.325030 GGAGGAAAGAGAAGAGGAGAGAGA 60.325 50.000 0.00 0.00 0.00 3.10
2764 2817 3.954258 GGAGGAAAGAGAAGAGGAGAGAG 59.046 52.174 0.00 0.00 0.00 3.20
2765 2818 3.335183 TGGAGGAAAGAGAAGAGGAGAGA 59.665 47.826 0.00 0.00 0.00 3.10
2766 2819 3.707316 TGGAGGAAAGAGAAGAGGAGAG 58.293 50.000 0.00 0.00 0.00 3.20
2767 2820 3.835395 GTTGGAGGAAAGAGAAGAGGAGA 59.165 47.826 0.00 0.00 0.00 3.71
2768 2821 3.837731 AGTTGGAGGAAAGAGAAGAGGAG 59.162 47.826 0.00 0.00 0.00 3.69
2769 2822 3.863086 AGTTGGAGGAAAGAGAAGAGGA 58.137 45.455 0.00 0.00 0.00 3.71
2770 2823 5.729510 CTTAGTTGGAGGAAAGAGAAGAGG 58.270 45.833 0.00 0.00 0.00 3.69
2771 2824 5.175127 GCTTAGTTGGAGGAAAGAGAAGAG 58.825 45.833 0.00 0.00 0.00 2.85
2772 2825 4.593206 TGCTTAGTTGGAGGAAAGAGAAGA 59.407 41.667 0.00 0.00 0.00 2.87
2773 2826 4.899502 TGCTTAGTTGGAGGAAAGAGAAG 58.100 43.478 0.00 0.00 0.00 2.85
2774 2827 4.593206 TCTGCTTAGTTGGAGGAAAGAGAA 59.407 41.667 0.00 0.00 0.00 2.87
2775 2828 4.160329 TCTGCTTAGTTGGAGGAAAGAGA 58.840 43.478 0.00 0.00 0.00 3.10
2776 2829 4.543590 TCTGCTTAGTTGGAGGAAAGAG 57.456 45.455 0.00 0.00 0.00 2.85
2777 2830 4.974645 TTCTGCTTAGTTGGAGGAAAGA 57.025 40.909 0.00 0.00 0.00 2.52
2778 2831 7.872113 ATATTTCTGCTTAGTTGGAGGAAAG 57.128 36.000 0.00 0.00 0.00 2.62
2779 2832 8.548877 AGTATATTTCTGCTTAGTTGGAGGAAA 58.451 33.333 0.00 0.00 0.00 3.13
2780 2833 8.090788 AGTATATTTCTGCTTAGTTGGAGGAA 57.909 34.615 0.00 0.00 0.00 3.36
2781 2834 7.676683 AGTATATTTCTGCTTAGTTGGAGGA 57.323 36.000 0.00 0.00 0.00 3.71
2782 2835 8.643324 ACTAGTATATTTCTGCTTAGTTGGAGG 58.357 37.037 0.00 0.00 0.00 4.30
2801 2854 8.813951 AGCGGGCTATAAAGAATAAACTAGTAT 58.186 33.333 0.00 0.00 0.00 2.12
2802 2855 8.086522 CAGCGGGCTATAAAGAATAAACTAGTA 58.913 37.037 0.00 0.00 0.00 1.82
2803 2856 6.929606 CAGCGGGCTATAAAGAATAAACTAGT 59.070 38.462 0.00 0.00 0.00 2.57
2804 2857 7.116519 GTCAGCGGGCTATAAAGAATAAACTAG 59.883 40.741 0.00 0.00 0.00 2.57
2805 2858 6.927381 GTCAGCGGGCTATAAAGAATAAACTA 59.073 38.462 0.00 0.00 0.00 2.24
2806 2859 5.758784 GTCAGCGGGCTATAAAGAATAAACT 59.241 40.000 0.00 0.00 0.00 2.66
2807 2860 5.758784 AGTCAGCGGGCTATAAAGAATAAAC 59.241 40.000 0.00 0.00 0.00 2.01
2808 2861 5.925509 AGTCAGCGGGCTATAAAGAATAAA 58.074 37.500 0.00 0.00 0.00 1.40
2809 2862 5.069914 TGAGTCAGCGGGCTATAAAGAATAA 59.930 40.000 0.00 0.00 0.00 1.40
2810 2863 4.587262 TGAGTCAGCGGGCTATAAAGAATA 59.413 41.667 0.00 0.00 0.00 1.75
2811 2864 3.388024 TGAGTCAGCGGGCTATAAAGAAT 59.612 43.478 0.00 0.00 0.00 2.40
2812 2865 2.764010 TGAGTCAGCGGGCTATAAAGAA 59.236 45.455 0.00 0.00 0.00 2.52
2813 2866 2.362397 CTGAGTCAGCGGGCTATAAAGA 59.638 50.000 7.33 0.00 0.00 2.52
2814 2867 2.748605 CTGAGTCAGCGGGCTATAAAG 58.251 52.381 7.33 0.00 0.00 1.85
2815 2868 2.890808 CTGAGTCAGCGGGCTATAAA 57.109 50.000 7.33 0.00 0.00 1.40
2826 2879 4.788201 GCGAGTACAATAGAGCTGAGTCAG 60.788 50.000 16.21 16.21 34.12 3.51
2827 2880 3.065510 GCGAGTACAATAGAGCTGAGTCA 59.934 47.826 0.00 0.00 0.00 3.41
2828 2881 3.314080 AGCGAGTACAATAGAGCTGAGTC 59.686 47.826 0.00 0.00 33.31 3.36
2829 2882 3.283751 AGCGAGTACAATAGAGCTGAGT 58.716 45.455 0.00 0.00 33.31 3.41
2830 2883 3.563808 AGAGCGAGTACAATAGAGCTGAG 59.436 47.826 0.00 0.00 34.85 3.35
2831 2884 3.546724 AGAGCGAGTACAATAGAGCTGA 58.453 45.455 0.00 0.00 34.85 4.26
2832 2885 3.980646 AGAGCGAGTACAATAGAGCTG 57.019 47.619 0.00 0.00 34.85 4.24
2833 2886 4.023536 GCTAAGAGCGAGTACAATAGAGCT 60.024 45.833 0.00 0.00 37.69 4.09
2834 2887 4.223659 GCTAAGAGCGAGTACAATAGAGC 58.776 47.826 0.00 0.00 0.00 4.09
2835 2888 4.276183 TGGCTAAGAGCGAGTACAATAGAG 59.724 45.833 0.00 0.00 43.62 2.43
2836 2889 4.204799 TGGCTAAGAGCGAGTACAATAGA 58.795 43.478 0.00 0.00 43.62 1.98
2837 2890 4.541779 CTGGCTAAGAGCGAGTACAATAG 58.458 47.826 2.62 0.00 43.62 1.73
2838 2891 3.243434 GCTGGCTAAGAGCGAGTACAATA 60.243 47.826 11.42 0.00 46.87 1.90
2839 2892 2.482142 GCTGGCTAAGAGCGAGTACAAT 60.482 50.000 11.42 0.00 46.87 2.71
2840 2893 1.135083 GCTGGCTAAGAGCGAGTACAA 60.135 52.381 11.42 0.00 46.87 2.41
2841 2894 0.456221 GCTGGCTAAGAGCGAGTACA 59.544 55.000 11.42 0.00 46.87 2.90
2842 2895 0.249114 GGCTGGCTAAGAGCGAGTAC 60.249 60.000 11.42 2.88 46.87 2.73
2843 2896 1.392710 GGGCTGGCTAAGAGCGAGTA 61.393 60.000 11.42 0.00 46.87 2.59
2844 2897 2.726351 GGGCTGGCTAAGAGCGAGT 61.726 63.158 11.42 0.00 46.87 4.18
2846 2899 2.683572 TGGGCTGGCTAAGAGCGA 60.684 61.111 0.00 0.00 43.62 4.93
2847 2900 2.037620 ATCTGGGCTGGCTAAGAGCG 62.038 60.000 0.00 0.00 43.62 5.03
2848 2901 0.534652 CATCTGGGCTGGCTAAGAGC 60.535 60.000 0.00 0.00 41.46 4.09
2849 2902 1.126488 TCATCTGGGCTGGCTAAGAG 58.874 55.000 0.00 0.74 0.00 2.85
2850 2903 1.583556 TTCATCTGGGCTGGCTAAGA 58.416 50.000 0.00 5.45 0.00 2.10
2851 2904 2.019984 GTTTCATCTGGGCTGGCTAAG 58.980 52.381 0.00 0.00 0.00 2.18
2863 2916 8.418597 TCTGGTTAGTAGTAACTGTTTCATCT 57.581 34.615 17.82 0.00 38.92 2.90
2877 2930 1.471119 TGACCGGCTCTGGTTAGTAG 58.529 55.000 0.00 0.00 44.01 2.57
2878 2931 1.822990 CTTGACCGGCTCTGGTTAGTA 59.177 52.381 0.00 0.00 44.01 1.82
2879 2932 0.608640 CTTGACCGGCTCTGGTTAGT 59.391 55.000 0.00 0.00 44.01 2.24
2880 2933 0.895530 TCTTGACCGGCTCTGGTTAG 59.104 55.000 0.00 3.71 44.01 2.34
2881 2934 1.344065 TTCTTGACCGGCTCTGGTTA 58.656 50.000 0.00 0.00 44.01 2.85
2882 2935 0.472471 TTTCTTGACCGGCTCTGGTT 59.528 50.000 0.00 0.00 44.01 3.67
2888 2941 1.600916 GCCTGTTTCTTGACCGGCT 60.601 57.895 0.00 0.00 43.88 5.52
2891 2944 1.433534 GAGAGCCTGTTTCTTGACCG 58.566 55.000 0.00 0.00 0.00 4.79
2900 2953 0.551131 ATCAAGGGGGAGAGCCTGTT 60.551 55.000 0.00 0.00 0.00 3.16
2905 2958 1.691434 CTACTCATCAAGGGGGAGAGC 59.309 57.143 0.00 0.00 33.00 4.09
2912 2965 5.757320 CAGATTTAGCACTACTCATCAAGGG 59.243 44.000 0.00 0.00 0.00 3.95


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

AutoCloner maintained by Alex Coulton.