Multiple sequence alignment - TraesCS5B01G513000

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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 TraesCS5B01G513000 chr5B 100.000 3541 0 0 1 3541 678312399 678315939 0.000000e+00 6540.0
1 TraesCS5B01G513000 chr5B 90.857 525 25 3 3037 3539 105537624 105538147 0.000000e+00 682.0
2 TraesCS5B01G513000 chr5B 89.239 539 24 16 3013 3539 106953667 106953151 0.000000e+00 643.0
3 TraesCS5B01G513000 chr5B 84.694 196 17 5 367 557 678205762 678205949 2.170000e-42 183.0
4 TraesCS5B01G513000 chr5B 91.818 110 7 2 2464 2573 106954075 106953968 6.120000e-33 152.0
5 TraesCS5B01G513000 chr5B 84.259 108 12 4 2694 2798 106953904 106953799 2.250000e-17 100.0
6 TraesCS5B01G513000 chr4A 90.304 2661 135 35 30 2615 631899076 631901688 0.000000e+00 3371.0
7 TraesCS5B01G513000 chr4A 91.364 440 20 6 3115 3541 631902085 631902519 1.420000e-163 586.0
8 TraesCS5B01G513000 chr4A 83.838 396 25 10 2719 3076 631901687 631902081 1.220000e-89 340.0
9 TraesCS5B01G513000 chr4A 90.647 139 9 4 2606 2741 445063056 445063193 7.810000e-42 182.0
10 TraesCS5B01G513000 chr5D 90.052 2694 125 65 7 2615 537655416 537658051 0.000000e+00 3358.0
11 TraesCS5B01G513000 chr5D 92.579 539 27 4 3013 3539 97579319 97578782 0.000000e+00 761.0
12 TraesCS5B01G513000 chr5D 93.166 439 18 3 3115 3541 537658427 537658865 4.990000e-178 634.0
13 TraesCS5B01G513000 chr5D 90.674 193 9 3 2461 2645 97579930 97579739 7.590000e-62 248.0
14 TraesCS5B01G513000 chr5D 89.785 186 6 6 2893 3076 537658248 537658422 3.560000e-55 226.0
15 TraesCS5B01G513000 chr5D 97.222 36 0 1 1819 1853 45378158 45378123 3.820000e-05 60.2
16 TraesCS5B01G513000 chr5A 91.296 540 31 9 3013 3538 106164182 106164719 0.000000e+00 723.0
17 TraesCS5B01G513000 chr5A 92.308 156 11 1 2461 2615 106149775 106149930 1.650000e-53 220.0
18 TraesCS5B01G513000 chr5A 91.489 47 2 2 1809 1853 36331754 36331800 2.950000e-06 63.9
19 TraesCS5B01G513000 chr1D 96.639 119 4 0 2609 2727 349423036 349422918 7.750000e-47 198.0
20 TraesCS5B01G513000 chr7B 95.935 123 2 3 2599 2720 108403146 108403266 2.790000e-46 196.0
21 TraesCS5B01G513000 chr3A 97.391 115 3 0 2606 2720 152176493 152176379 2.790000e-46 196.0
22 TraesCS5B01G513000 chr2B 93.233 133 6 3 2604 2733 359312325 359312193 3.610000e-45 193.0
23 TraesCS5B01G513000 chr1B 95.122 123 5 1 2609 2731 491705799 491705678 3.610000e-45 193.0
24 TraesCS5B01G513000 chr3B 95.082 122 5 1 2609 2730 577429316 577429196 1.300000e-44 191.0
25 TraesCS5B01G513000 chr3D 94.355 124 6 1 2598 2720 582123055 582122932 4.670000e-44 189.0
26 TraesCS5B01G513000 chr6A 91.852 135 6 4 2590 2720 360569458 360569325 2.170000e-42 183.0


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 TraesCS5B01G513000 chr5B 678312399 678315939 3540 False 6540.000000 6540 100.000000 1 3541 1 chr5B.!!$F3 3540
1 TraesCS5B01G513000 chr5B 105537624 105538147 523 False 682.000000 682 90.857000 3037 3539 1 chr5B.!!$F1 502
2 TraesCS5B01G513000 chr5B 106953151 106954075 924 True 298.333333 643 88.438667 2464 3539 3 chr5B.!!$R1 1075
3 TraesCS5B01G513000 chr4A 631899076 631902519 3443 False 1432.333333 3371 88.502000 30 3541 3 chr4A.!!$F2 3511
4 TraesCS5B01G513000 chr5D 537655416 537658865 3449 False 1406.000000 3358 91.001000 7 3541 3 chr5D.!!$F1 3534
5 TraesCS5B01G513000 chr5D 97578782 97579930 1148 True 504.500000 761 91.626500 2461 3539 2 chr5D.!!$R2 1078
6 TraesCS5B01G513000 chr5A 106164182 106164719 537 False 723.000000 723 91.296000 3013 3538 1 chr5A.!!$F3 525

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
220 225 0.396435 CCAGAACAGCCAGTGTACCA 59.604 55.0 0.0 0.0 39.03 3.25 F
544 566 0.679002 CATTGCCACCCCTGTCTGAG 60.679 60.0 0.0 0.0 0.00 3.35 F
1976 2043 0.948678 TGAAACTGTTAGCAACGCCC 59.051 50.0 0.0 0.0 0.00 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1817 1878 1.295423 GTTGAAGGCGTAGGAGGCA 59.705 57.895 0.00 0.0 39.37 4.75 R
2379 2488 0.764890 ACAGAACCCAGCTGCAGTTA 59.235 50.000 16.64 0.0 36.86 2.24 R
2848 3278 0.249489 GTACGAATCGAGCATGCCCT 60.249 55.000 15.66 0.0 0.00 5.19 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
18 19 1.154131 TGCACACACACAAACACGC 60.154 52.632 0.00 0.00 0.00 5.34
19 20 1.154131 GCACACACACAAACACGCA 60.154 52.632 0.00 0.00 0.00 5.24
84 85 3.604582 CAAGAATCCACTCCTTGAGGTC 58.395 50.000 0.00 0.00 39.55 3.85
183 188 6.625873 ACACTGGAATTTCTTCTTCTTCAC 57.374 37.500 0.00 0.00 0.00 3.18
193 198 2.550830 TCTTCTTCACAGCCAAGTCC 57.449 50.000 0.00 0.00 0.00 3.85
199 204 1.898574 CACAGCCAAGTCCACCACC 60.899 63.158 0.00 0.00 0.00 4.61
211 216 1.898574 CACCACCACCAGAACAGCC 60.899 63.158 0.00 0.00 0.00 4.85
215 220 1.149174 ACCACCAGAACAGCCAGTG 59.851 57.895 0.00 0.00 0.00 3.66
219 224 0.396811 ACCAGAACAGCCAGTGTACC 59.603 55.000 0.00 0.00 39.03 3.34
220 225 0.396435 CCAGAACAGCCAGTGTACCA 59.604 55.000 0.00 0.00 39.03 3.25
221 226 1.202758 CCAGAACAGCCAGTGTACCAA 60.203 52.381 0.00 0.00 39.03 3.67
223 228 1.768870 AGAACAGCCAGTGTACCAAGT 59.231 47.619 0.00 0.00 39.03 3.16
224 229 2.143925 GAACAGCCAGTGTACCAAGTC 58.856 52.381 0.00 0.00 39.03 3.01
225 230 1.424638 ACAGCCAGTGTACCAAGTCT 58.575 50.000 0.00 0.00 37.75 3.24
226 231 1.344763 ACAGCCAGTGTACCAAGTCTC 59.655 52.381 0.00 0.00 37.75 3.36
227 232 1.620819 CAGCCAGTGTACCAAGTCTCT 59.379 52.381 0.00 0.00 0.00 3.10
228 233 1.620819 AGCCAGTGTACCAAGTCTCTG 59.379 52.381 0.00 0.00 0.00 3.35
229 234 1.344763 GCCAGTGTACCAAGTCTCTGT 59.655 52.381 0.00 0.00 0.00 3.41
230 235 2.610727 GCCAGTGTACCAAGTCTCTGTC 60.611 54.545 0.00 0.00 0.00 3.51
231 236 2.028930 CCAGTGTACCAAGTCTCTGTCC 60.029 54.545 0.00 0.00 0.00 4.02
232 237 2.628178 CAGTGTACCAAGTCTCTGTCCA 59.372 50.000 0.00 0.00 0.00 4.02
233 238 3.259374 CAGTGTACCAAGTCTCTGTCCAT 59.741 47.826 0.00 0.00 0.00 3.41
254 259 6.322969 TCCATTTGGATTGGATTGAGAATGAG 59.677 38.462 0.00 0.00 39.78 2.90
260 265 5.065731 GGATTGGATTGAGAATGAGTGACAC 59.934 44.000 0.00 0.00 0.00 3.67
373 378 3.615592 CGTCGATTGGACCTGAAAACCTA 60.616 47.826 0.00 0.00 42.99 3.08
376 381 3.627577 CGATTGGACCTGAAAACCTATGG 59.372 47.826 0.00 0.00 0.00 2.74
498 503 5.023452 TCTCACCACCTTCTACATGTATGT 58.977 41.667 5.91 2.75 44.48 2.29
544 566 0.679002 CATTGCCACCCCTGTCTGAG 60.679 60.000 0.00 0.00 0.00 3.35
557 579 3.118702 CCTGTCTGAGTCAGCATTCTCAT 60.119 47.826 15.72 0.00 39.48 2.90
577 614 5.586339 TCATGCACACATTTTTCTTTTCGA 58.414 33.333 0.00 0.00 32.87 3.71
633 673 2.802556 GCATCTTCTGCGACTGAAAG 57.197 50.000 0.00 0.00 41.97 2.62
638 678 2.029828 TCTTCTGCGACTGAAAGGAGAC 60.030 50.000 0.00 0.00 39.30 3.36
722 771 5.776173 TCTTTCTTCTTTCTCTCGACAGT 57.224 39.130 0.00 0.00 0.00 3.55
725 774 5.630661 TTCTTCTTTCTCTCGACAGTAGG 57.369 43.478 0.00 0.00 0.00 3.18
733 782 1.005569 TCTCGACAGTAGGGGATGTGT 59.994 52.381 0.00 0.00 0.00 3.72
737 786 2.494471 CGACAGTAGGGGATGTGTACAA 59.506 50.000 0.00 0.00 0.00 2.41
751 800 9.353999 GGGATGTGTACAAGTATTTGAAAATTC 57.646 33.333 4.81 0.00 37.73 2.17
752 801 9.061610 GGATGTGTACAAGTATTTGAAAATTCG 57.938 33.333 4.81 0.00 37.73 3.34
755 804 9.440784 TGTGTACAAGTATTTGAAAATTCGAAC 57.559 29.630 0.00 0.00 37.73 3.95
762 811 5.806089 ATTTGAAAATTCGAACGCTGTTC 57.194 34.783 0.00 10.23 33.63 3.18
768 817 1.658994 TTCGAACGCTGTTCCAAAGT 58.341 45.000 13.33 0.00 0.00 2.66
1041 1102 3.011635 GCTCCGGCTCTCAGCTTGA 62.012 63.158 0.00 0.00 41.99 3.02
1166 1227 1.006639 AGGTTCTTGGGTGGTGTTGTT 59.993 47.619 0.00 0.00 0.00 2.83
1172 1233 1.153127 GGGTGGTGTTGTTGACGGA 60.153 57.895 0.00 0.00 0.00 4.69
1817 1878 2.108514 CAACACGATCCAGGCGCAT 61.109 57.895 10.83 0.00 0.00 4.73
1976 2043 0.948678 TGAAACTGTTAGCAACGCCC 59.051 50.000 0.00 0.00 0.00 6.13
1978 2045 1.607148 GAAACTGTTAGCAACGCCCTT 59.393 47.619 0.00 0.00 0.00 3.95
2041 2108 2.353889 GCTTGCATGTACCAGACATCAG 59.646 50.000 1.14 0.00 46.33 2.90
2114 2206 8.755018 CAAATCAAACAGTCAAATTCTTACACC 58.245 33.333 0.00 0.00 0.00 4.16
2277 2383 2.262915 GTCAGCAGTGGAGGGTCG 59.737 66.667 0.00 0.00 0.00 4.79
2295 2401 2.125512 GGCTCGACGGTGCTGAAT 60.126 61.111 12.03 0.00 33.30 2.57
2394 2503 0.251341 CCCTTAACTGCAGCTGGGTT 60.251 55.000 17.12 3.29 0.00 4.11
2558 2667 8.333235 TCATAGGGGAGAGAAGACTAGATATTC 58.667 40.741 0.00 0.00 0.00 1.75
2592 2708 3.576550 TGTGTGTGTATTGGACTGAGCTA 59.423 43.478 0.00 0.00 0.00 3.32
2617 2733 6.221858 GCAGAATGTTGCTTATAGCTACTC 57.778 41.667 12.91 5.11 45.07 2.59
2618 2734 5.178438 GCAGAATGTTGCTTATAGCTACTCC 59.822 44.000 12.91 4.35 45.07 3.85
2619 2735 5.698545 CAGAATGTTGCTTATAGCTACTCCC 59.301 44.000 12.91 4.08 45.07 4.30
2620 2736 5.604650 AGAATGTTGCTTATAGCTACTCCCT 59.395 40.000 12.91 5.79 45.07 4.20
2621 2737 4.939052 TGTTGCTTATAGCTACTCCCTC 57.061 45.455 12.91 0.00 45.07 4.30
2622 2738 3.641906 TGTTGCTTATAGCTACTCCCTCC 59.358 47.826 12.91 0.00 45.07 4.30
2623 2739 2.515854 TGCTTATAGCTACTCCCTCCG 58.484 52.381 0.00 0.00 42.97 4.63
2624 2740 2.158505 TGCTTATAGCTACTCCCTCCGT 60.159 50.000 0.00 0.00 42.97 4.69
2625 2741 2.892215 GCTTATAGCTACTCCCTCCGTT 59.108 50.000 0.00 0.00 38.45 4.44
2626 2742 3.057386 GCTTATAGCTACTCCCTCCGTTC 60.057 52.174 0.00 0.00 38.45 3.95
2627 2743 1.606903 ATAGCTACTCCCTCCGTTCG 58.393 55.000 0.00 0.00 0.00 3.95
2628 2744 0.465097 TAGCTACTCCCTCCGTTCGG 60.465 60.000 4.74 4.74 0.00 4.30
2629 2745 1.751927 GCTACTCCCTCCGTTCGGA 60.752 63.158 13.34 13.34 0.00 4.55
2630 2746 1.318158 GCTACTCCCTCCGTTCGGAA 61.318 60.000 14.79 0.04 33.41 4.30
2631 2747 1.400737 CTACTCCCTCCGTTCGGAAT 58.599 55.000 14.79 2.09 33.41 3.01
2632 2748 1.755380 CTACTCCCTCCGTTCGGAATT 59.245 52.381 14.79 0.00 33.41 2.17
2633 2749 1.856629 ACTCCCTCCGTTCGGAATTA 58.143 50.000 14.79 2.82 33.41 1.40
2634 2750 1.479730 ACTCCCTCCGTTCGGAATTAC 59.520 52.381 14.79 0.00 33.41 1.89
2635 2751 1.755380 CTCCCTCCGTTCGGAATTACT 59.245 52.381 14.79 0.00 33.41 2.24
2636 2752 2.167900 CTCCCTCCGTTCGGAATTACTT 59.832 50.000 14.79 0.00 33.41 2.24
2637 2753 2.093869 TCCCTCCGTTCGGAATTACTTG 60.094 50.000 14.79 1.97 33.41 3.16
2638 2754 2.354403 CCCTCCGTTCGGAATTACTTGT 60.354 50.000 14.79 0.00 33.41 3.16
2639 2755 2.928116 CCTCCGTTCGGAATTACTTGTC 59.072 50.000 14.79 0.00 33.41 3.18
2640 2756 3.368116 CCTCCGTTCGGAATTACTTGTCT 60.368 47.826 14.79 0.00 33.41 3.41
2641 2757 3.841643 TCCGTTCGGAATTACTTGTCTC 58.158 45.455 11.66 0.00 0.00 3.36
2642 2758 2.597305 CCGTTCGGAATTACTTGTCTCG 59.403 50.000 5.19 0.00 0.00 4.04
2643 2759 2.597305 CGTTCGGAATTACTTGTCTCGG 59.403 50.000 0.00 0.00 0.00 4.63
2644 2760 3.671433 CGTTCGGAATTACTTGTCTCGGA 60.671 47.826 0.00 0.00 0.00 4.55
2645 2761 4.240096 GTTCGGAATTACTTGTCTCGGAA 58.760 43.478 0.00 0.00 0.00 4.30
2646 2762 4.524316 TCGGAATTACTTGTCTCGGAAA 57.476 40.909 0.00 0.00 0.00 3.13
2647 2763 5.080969 TCGGAATTACTTGTCTCGGAAAT 57.919 39.130 0.00 0.00 0.00 2.17
2648 2764 4.868171 TCGGAATTACTTGTCTCGGAAATG 59.132 41.667 0.00 0.00 0.00 2.32
2649 2765 4.034048 CGGAATTACTTGTCTCGGAAATGG 59.966 45.833 0.00 0.00 0.00 3.16
2650 2766 5.183228 GGAATTACTTGTCTCGGAAATGGA 58.817 41.667 0.00 0.00 0.00 3.41
2651 2767 5.064834 GGAATTACTTGTCTCGGAAATGGAC 59.935 44.000 0.00 0.00 0.00 4.02
2652 2768 2.080286 ACTTGTCTCGGAAATGGACG 57.920 50.000 0.00 0.00 33.21 4.79
2653 2769 1.343465 ACTTGTCTCGGAAATGGACGT 59.657 47.619 0.00 0.00 33.21 4.34
2654 2770 2.559668 ACTTGTCTCGGAAATGGACGTA 59.440 45.455 0.00 0.00 33.21 3.57
2655 2771 3.194968 ACTTGTCTCGGAAATGGACGTAT 59.805 43.478 0.00 0.00 33.21 3.06
2656 2772 3.431922 TGTCTCGGAAATGGACGTATC 57.568 47.619 0.00 0.00 33.21 2.24
2657 2773 3.021695 TGTCTCGGAAATGGACGTATCT 58.978 45.455 0.00 0.00 33.21 1.98
2658 2774 4.201657 TGTCTCGGAAATGGACGTATCTA 58.798 43.478 0.00 0.00 33.21 1.98
2659 2775 4.275196 TGTCTCGGAAATGGACGTATCTAG 59.725 45.833 0.00 0.00 33.21 2.43
2660 2776 4.514441 GTCTCGGAAATGGACGTATCTAGA 59.486 45.833 0.00 0.00 0.00 2.43
2661 2777 5.008415 GTCTCGGAAATGGACGTATCTAGAA 59.992 44.000 0.00 0.00 0.00 2.10
2662 2778 5.008415 TCTCGGAAATGGACGTATCTAGAAC 59.992 44.000 0.00 0.00 0.00 3.01
2663 2779 4.885907 TCGGAAATGGACGTATCTAGAACT 59.114 41.667 0.00 0.00 0.00 3.01
2664 2780 6.057533 TCGGAAATGGACGTATCTAGAACTA 58.942 40.000 0.00 0.00 0.00 2.24
2665 2781 6.543465 TCGGAAATGGACGTATCTAGAACTAA 59.457 38.462 0.00 0.00 0.00 2.24
2666 2782 7.067372 TCGGAAATGGACGTATCTAGAACTAAA 59.933 37.037 0.00 0.00 0.00 1.85
2667 2783 7.703621 CGGAAATGGACGTATCTAGAACTAAAA 59.296 37.037 0.00 0.00 0.00 1.52
2668 2784 9.543783 GGAAATGGACGTATCTAGAACTAAAAT 57.456 33.333 0.00 0.00 0.00 1.82
2692 2808 9.664332 AATACATCTAGATACATCCATTTCTGC 57.336 33.333 4.54 0.00 0.00 4.26
2693 2809 6.162079 ACATCTAGATACATCCATTTCTGCG 58.838 40.000 4.54 0.00 0.00 5.18
2694 2810 6.015095 ACATCTAGATACATCCATTTCTGCGA 60.015 38.462 4.54 0.00 0.00 5.10
2695 2811 5.773575 TCTAGATACATCCATTTCTGCGAC 58.226 41.667 0.00 0.00 0.00 5.19
2696 2812 4.406648 AGATACATCCATTTCTGCGACA 57.593 40.909 0.00 0.00 0.00 4.35
2697 2813 4.769688 AGATACATCCATTTCTGCGACAA 58.230 39.130 0.00 0.00 0.00 3.18
2698 2814 4.813161 AGATACATCCATTTCTGCGACAAG 59.187 41.667 0.00 0.00 0.00 3.16
2699 2815 2.783135 ACATCCATTTCTGCGACAAGT 58.217 42.857 0.00 0.00 0.00 3.16
2700 2816 3.937814 ACATCCATTTCTGCGACAAGTA 58.062 40.909 0.00 0.00 0.00 2.24
2701 2817 4.323417 ACATCCATTTCTGCGACAAGTAA 58.677 39.130 0.00 0.00 0.00 2.24
2702 2818 4.943705 ACATCCATTTCTGCGACAAGTAAT 59.056 37.500 0.00 0.00 0.00 1.89
2703 2819 5.415701 ACATCCATTTCTGCGACAAGTAATT 59.584 36.000 0.00 0.00 0.00 1.40
2704 2820 5.545658 TCCATTTCTGCGACAAGTAATTC 57.454 39.130 0.00 0.00 0.00 2.17
2705 2821 4.394920 TCCATTTCTGCGACAAGTAATTCC 59.605 41.667 0.00 0.00 0.00 3.01
2706 2822 4.334443 CATTTCTGCGACAAGTAATTCCG 58.666 43.478 0.00 0.00 0.00 4.30
2707 2823 3.306917 TTCTGCGACAAGTAATTCCGA 57.693 42.857 0.00 0.00 0.00 4.55
2708 2824 3.306917 TCTGCGACAAGTAATTCCGAA 57.693 42.857 0.00 0.00 0.00 4.30
2709 2825 2.991190 TCTGCGACAAGTAATTCCGAAC 59.009 45.455 0.00 0.00 0.00 3.95
2710 2826 1.722464 TGCGACAAGTAATTCCGAACG 59.278 47.619 0.00 0.00 0.00 3.95
2711 2827 1.060122 GCGACAAGTAATTCCGAACGG 59.940 52.381 6.94 6.94 0.00 4.44
2712 2828 2.598589 CGACAAGTAATTCCGAACGGA 58.401 47.619 12.04 12.04 43.52 4.69
2713 2829 2.597305 CGACAAGTAATTCCGAACGGAG 59.403 50.000 15.34 5.60 46.06 4.63
2714 2830 2.928116 GACAAGTAATTCCGAACGGAGG 59.072 50.000 15.34 4.52 46.06 4.30
2715 2831 2.277084 CAAGTAATTCCGAACGGAGGG 58.723 52.381 15.34 0.00 46.06 4.30
2716 2832 1.856629 AGTAATTCCGAACGGAGGGA 58.143 50.000 15.34 2.49 46.06 4.20
2717 2833 1.755380 AGTAATTCCGAACGGAGGGAG 59.245 52.381 15.34 0.00 46.06 4.30
2718 2834 1.479730 GTAATTCCGAACGGAGGGAGT 59.520 52.381 15.34 4.12 46.06 3.85
2719 2835 1.856629 AATTCCGAACGGAGGGAGTA 58.143 50.000 15.34 1.05 46.06 2.59
2720 2836 2.083628 ATTCCGAACGGAGGGAGTAT 57.916 50.000 15.34 3.38 46.06 2.12
2760 3183 3.622163 GTGAGCATGGAGTTCATTCTCTG 59.378 47.826 11.72 0.00 43.46 3.35
2821 3250 6.153510 AGCTTCATCTTTTCCATTACCTTTCC 59.846 38.462 0.00 0.00 0.00 3.13
2824 3253 8.807948 TTCATCTTTTCCATTACCTTTCCTAG 57.192 34.615 0.00 0.00 0.00 3.02
2830 3259 8.445361 TTTTCCATTACCTTTCCTAGTAGACT 57.555 34.615 0.00 0.00 0.00 3.24
2842 3272 4.153117 TCCTAGTAGACTTTTCGACACGAC 59.847 45.833 0.00 0.00 34.89 4.34
2843 3273 2.913613 AGTAGACTTTTCGACACGACG 58.086 47.619 0.00 0.00 34.89 5.12
2844 3274 2.289002 AGTAGACTTTTCGACACGACGT 59.711 45.455 0.00 0.00 34.89 4.34
2845 3275 3.494626 AGTAGACTTTTCGACACGACGTA 59.505 43.478 0.00 0.00 34.89 3.57
2846 3276 3.549299 AGACTTTTCGACACGACGTAT 57.451 42.857 0.00 0.00 34.89 3.06
2848 3278 5.034554 AGACTTTTCGACACGACGTATAA 57.965 39.130 0.00 0.00 34.89 0.98
2849 3279 5.084722 AGACTTTTCGACACGACGTATAAG 58.915 41.667 0.00 0.00 34.89 1.73
2867 3297 0.249489 AGGGCATGCTCGATTCGTAC 60.249 55.000 18.92 0.00 0.00 3.67
2888 3318 3.324846 ACTCACAGGTTGCTAGATGTTCA 59.675 43.478 0.00 0.00 0.00 3.18
2889 3319 3.930336 TCACAGGTTGCTAGATGTTCAG 58.070 45.455 0.00 0.00 0.00 3.02
2943 3402 7.031372 CACCAAATACCAGAAATCTCAATGTG 58.969 38.462 0.00 0.00 0.00 3.21
2987 3447 5.077564 TCTCAGGAACAGAAGTAGTTGCTA 58.922 41.667 0.00 0.00 44.30 3.49
3080 3541 7.308782 AGCTTACATCAAAACTACTATGTGC 57.691 36.000 0.00 0.00 34.54 4.57
3096 3558 2.863739 TGTGCAAGAAGATCTACGACG 58.136 47.619 0.00 0.00 0.00 5.12
3113 3575 2.537931 CGACGCACTTGCAACAAAACTA 60.538 45.455 0.00 0.00 42.21 2.24
3123 3586 9.515020 CACTTGCAACAAAACTAGAAAATTCTA 57.485 29.630 0.00 3.08 38.70 2.10
3180 3643 5.609423 AGATGAGGTTCATGATAGTTCTGC 58.391 41.667 0.00 0.00 37.20 4.26
3256 3719 1.340211 ACCGTGTTTGAGTTTGGGTCA 60.340 47.619 0.00 0.00 0.00 4.02
3325 3788 0.249322 ATTCTATAGCGCGCGGTGTT 60.249 50.000 41.12 29.72 0.00 3.32
3450 3926 9.178427 CTTAACAGAAGAAGCAAGATTCAAAAG 57.822 33.333 0.63 0.00 0.00 2.27
3514 4002 4.079253 GCCAAAATGAACCAAGGACTAGA 58.921 43.478 0.00 0.00 0.00 2.43
3531 4019 4.583871 ACTAGATTGGCAGAAGAACTTGG 58.416 43.478 0.00 0.00 0.00 3.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 0.029167 TGTGTCAGCATGCGTGTTTG 59.971 50.000 13.01 4.65 34.76 2.93
11 12 0.737804 TTGTGTCAGCATGCGTGTTT 59.262 45.000 13.01 0.00 34.76 2.83
12 13 0.737804 TTTGTGTCAGCATGCGTGTT 59.262 45.000 13.01 0.00 34.76 3.32
13 14 0.308684 CTTTGTGTCAGCATGCGTGT 59.691 50.000 13.01 0.00 34.76 4.49
14 15 0.308684 ACTTTGTGTCAGCATGCGTG 59.691 50.000 13.01 11.17 34.76 5.34
15 16 0.308684 CACTTTGTGTCAGCATGCGT 59.691 50.000 13.01 0.00 34.76 5.24
16 17 0.587768 TCACTTTGTGTCAGCATGCG 59.412 50.000 13.01 7.64 34.79 4.73
17 18 3.240069 GAATCACTTTGTGTCAGCATGC 58.760 45.455 10.51 10.51 34.79 4.06
18 19 3.253921 TGGAATCACTTTGTGTCAGCATG 59.746 43.478 0.00 0.00 34.79 4.06
19 20 3.489355 TGGAATCACTTTGTGTCAGCAT 58.511 40.909 0.00 0.00 34.79 3.79
84 85 2.889617 CCATGTGCATGCACCAGG 59.110 61.111 40.01 35.41 45.63 4.45
166 171 5.695851 TGGCTGTGAAGAAGAAGAAATTC 57.304 39.130 0.00 0.00 0.00 2.17
183 188 1.898574 GTGGTGGTGGACTTGGCTG 60.899 63.158 0.00 0.00 0.00 4.85
193 198 1.898574 GGCTGTTCTGGTGGTGGTG 60.899 63.158 0.00 0.00 0.00 4.17
199 204 1.512926 GTACACTGGCTGTTCTGGTG 58.487 55.000 0.00 0.00 33.91 4.17
211 216 2.628178 TGGACAGAGACTTGGTACACTG 59.372 50.000 0.00 0.00 39.29 3.66
215 220 4.003648 CCAAATGGACAGAGACTTGGTAC 58.996 47.826 0.00 0.00 37.39 3.34
230 235 6.097839 ACTCATTCTCAATCCAATCCAAATGG 59.902 38.462 0.00 0.00 39.41 3.16
231 236 6.978659 CACTCATTCTCAATCCAATCCAAATG 59.021 38.462 0.00 0.00 0.00 2.32
232 237 6.893554 TCACTCATTCTCAATCCAATCCAAAT 59.106 34.615 0.00 0.00 0.00 2.32
233 238 6.151648 GTCACTCATTCTCAATCCAATCCAAA 59.848 38.462 0.00 0.00 0.00 3.28
249 254 1.138069 TGTGTGTCCGTGTCACTCATT 59.862 47.619 0.65 0.00 35.41 2.57
254 259 0.179121 TCACTGTGTGTCCGTGTCAC 60.179 55.000 7.79 0.00 34.79 3.67
260 265 2.265683 CTGATGATCACTGTGTGTCCG 58.734 52.381 7.79 0.00 34.79 4.79
373 378 2.042686 TAATGCTTTGCTCTCGCCAT 57.957 45.000 0.00 0.00 34.43 4.40
376 381 2.222911 GGAGATAATGCTTTGCTCTCGC 59.777 50.000 14.86 8.58 34.50 5.03
392 397 4.384056 CAGACAGTCACACAAAAGGAGAT 58.616 43.478 2.66 0.00 0.00 2.75
394 399 2.289002 GCAGACAGTCACACAAAAGGAG 59.711 50.000 2.66 0.00 0.00 3.69
395 400 2.092968 AGCAGACAGTCACACAAAAGGA 60.093 45.455 2.66 0.00 0.00 3.36
498 503 7.147846 GCATCCCTATTTTCATCAGGAGAAAAA 60.148 37.037 5.35 3.70 45.02 1.94
557 579 3.788694 CGTCGAAAAGAAAAATGTGTGCA 59.211 39.130 0.00 0.00 0.00 4.57
559 581 7.603297 AATACGTCGAAAAGAAAAATGTGTG 57.397 32.000 0.00 0.00 0.00 3.82
560 582 7.111041 CGAAATACGTCGAAAAGAAAAATGTGT 59.889 33.333 0.00 0.00 43.86 3.72
561 583 7.418435 CGAAATACGTCGAAAAGAAAAATGTG 58.582 34.615 0.00 0.00 43.86 3.21
562 584 7.529357 CGAAATACGTCGAAAAGAAAAATGT 57.471 32.000 0.00 0.00 43.86 2.71
593 633 2.842208 CAAAAGAGTTTGTGCCGACA 57.158 45.000 0.00 0.00 39.49 4.35
633 673 4.887748 TCTTGTCACTTTGATCAGTCTCC 58.112 43.478 0.00 0.00 0.00 3.71
638 678 8.724229 TCAATGTTATCTTGTCACTTTGATCAG 58.276 33.333 0.00 0.00 32.55 2.90
671 711 5.375417 TGGTGCTGAATAACATGAAAGTG 57.625 39.130 0.00 0.00 0.00 3.16
672 712 4.460382 CCTGGTGCTGAATAACATGAAAGT 59.540 41.667 0.00 0.00 0.00 2.66
673 713 4.460382 ACCTGGTGCTGAATAACATGAAAG 59.540 41.667 0.00 0.00 0.00 2.62
674 714 4.406456 ACCTGGTGCTGAATAACATGAAA 58.594 39.130 0.00 0.00 0.00 2.69
675 715 4.032960 ACCTGGTGCTGAATAACATGAA 57.967 40.909 0.00 0.00 0.00 2.57
676 716 3.719268 ACCTGGTGCTGAATAACATGA 57.281 42.857 0.00 0.00 0.00 3.07
677 717 4.260985 TGTACCTGGTGCTGAATAACATG 58.739 43.478 15.99 0.00 0.00 3.21
722 771 6.877668 TCAAATACTTGTACACATCCCCTA 57.122 37.500 0.00 0.00 33.94 3.53
725 774 9.353999 GAATTTTCAAATACTTGTACACATCCC 57.646 33.333 0.00 0.00 33.94 3.85
733 782 7.532546 CAGCGTTCGAATTTTCAAATACTTGTA 59.467 33.333 0.00 0.00 33.94 2.41
737 786 5.997385 ACAGCGTTCGAATTTTCAAATACT 58.003 33.333 0.00 0.00 0.00 2.12
751 800 2.400399 TCTACTTTGGAACAGCGTTCG 58.600 47.619 12.88 4.72 42.39 3.95
752 801 4.510340 TCTTTCTACTTTGGAACAGCGTTC 59.490 41.667 11.42 11.42 42.39 3.95
755 804 4.307432 TCTCTTTCTACTTTGGAACAGCG 58.693 43.478 0.00 0.00 42.39 5.18
762 811 5.765182 TGCTCCTTTTCTCTTTCTACTTTGG 59.235 40.000 0.00 0.00 0.00 3.28
768 817 5.587844 GCATGATGCTCCTTTTCTCTTTCTA 59.412 40.000 10.72 0.00 40.96 2.10
829 878 1.067354 AGCGGACCGTAATTCGTTTCT 60.067 47.619 16.73 0.00 37.94 2.52
843 892 2.693250 AAAAAGGCGGCAAAGCGGAC 62.693 55.000 13.08 0.00 37.15 4.79
937 988 0.908198 ATGCGAGGAGAAAGGAGCTT 59.092 50.000 0.00 0.00 0.00 3.74
1041 1102 3.944015 GAGAGCAGGAGCATACACAAAAT 59.056 43.478 0.00 0.00 45.49 1.82
1114 1175 2.811514 GCTCCATCCCGATCTGCCA 61.812 63.158 0.00 0.00 0.00 4.92
1115 1176 2.031768 GCTCCATCCCGATCTGCC 59.968 66.667 0.00 0.00 0.00 4.85
1118 1179 2.556459 CGACGCTCCATCCCGATCT 61.556 63.158 0.00 0.00 0.00 2.75
1351 1412 3.961414 GCGGGAGGTTGGGGTTGA 61.961 66.667 0.00 0.00 0.00 3.18
1817 1878 1.295423 GTTGAAGGCGTAGGAGGCA 59.705 57.895 0.00 0.00 39.37 4.75
1976 2043 4.260132 GCAGCTCGTCAGTGATAATCAAAG 60.260 45.833 0.00 0.00 0.00 2.77
1978 2045 3.118992 AGCAGCTCGTCAGTGATAATCAA 60.119 43.478 0.00 0.00 0.00 2.57
2041 2108 1.903183 AGAGACTTACCCTGAACCTGC 59.097 52.381 0.00 0.00 0.00 4.85
2114 2206 3.495377 GCATGATCAGCTTAGCAGAAGAG 59.505 47.826 7.07 0.00 0.00 2.85
2277 2383 3.665675 ATTCAGCACCGTCGAGCCC 62.666 63.158 0.00 0.00 0.00 5.19
2295 2401 2.344500 CCGGGGTAGTTGTTCGCA 59.656 61.111 0.00 0.00 0.00 5.10
2379 2488 0.764890 ACAGAACCCAGCTGCAGTTA 59.235 50.000 16.64 0.00 36.86 2.24
2394 2503 4.159321 GTGAACATCCAGATCAGAGACAGA 59.841 45.833 0.00 0.00 28.79 3.41
2535 2644 7.898470 AGAATATCTAGTCTTCTCTCCCCTA 57.102 40.000 0.00 0.00 0.00 3.53
2558 2667 0.099259 CACACACACACAGGCACAAG 59.901 55.000 0.00 0.00 0.00 3.16
2615 2731 1.755380 AGTAATTCCGAACGGAGGGAG 59.245 52.381 15.34 0.00 46.06 4.30
2616 2732 1.856629 AGTAATTCCGAACGGAGGGA 58.143 50.000 15.34 2.49 46.06 4.20
2617 2733 2.277084 CAAGTAATTCCGAACGGAGGG 58.723 52.381 15.34 0.00 46.06 4.30
2618 2734 2.928116 GACAAGTAATTCCGAACGGAGG 59.072 50.000 15.34 4.52 46.06 4.30
2619 2735 3.846360 AGACAAGTAATTCCGAACGGAG 58.154 45.455 15.34 5.60 46.06 4.63
2620 2736 3.671433 CGAGACAAGTAATTCCGAACGGA 60.671 47.826 12.04 12.04 43.52 4.69
2621 2737 2.597305 CGAGACAAGTAATTCCGAACGG 59.403 50.000 6.94 6.94 0.00 4.44
2622 2738 2.597305 CCGAGACAAGTAATTCCGAACG 59.403 50.000 0.00 0.00 0.00 3.95
2623 2739 3.841643 TCCGAGACAAGTAATTCCGAAC 58.158 45.455 0.00 0.00 0.00 3.95
2624 2740 4.524316 TTCCGAGACAAGTAATTCCGAA 57.476 40.909 0.00 0.00 0.00 4.30
2625 2741 4.524316 TTTCCGAGACAAGTAATTCCGA 57.476 40.909 0.00 0.00 0.00 4.55
2626 2742 4.034048 CCATTTCCGAGACAAGTAATTCCG 59.966 45.833 0.00 0.00 0.00 4.30
2627 2743 5.064834 GTCCATTTCCGAGACAAGTAATTCC 59.935 44.000 0.00 0.00 0.00 3.01
2628 2744 5.220416 CGTCCATTTCCGAGACAAGTAATTC 60.220 44.000 0.00 0.00 0.00 2.17
2629 2745 4.630069 CGTCCATTTCCGAGACAAGTAATT 59.370 41.667 0.00 0.00 0.00 1.40
2630 2746 4.181578 CGTCCATTTCCGAGACAAGTAAT 58.818 43.478 0.00 0.00 0.00 1.89
2631 2747 3.006110 ACGTCCATTTCCGAGACAAGTAA 59.994 43.478 0.00 0.00 0.00 2.24
2632 2748 2.559668 ACGTCCATTTCCGAGACAAGTA 59.440 45.455 0.00 0.00 0.00 2.24
2633 2749 1.343465 ACGTCCATTTCCGAGACAAGT 59.657 47.619 0.00 0.00 0.00 3.16
2634 2750 2.080286 ACGTCCATTTCCGAGACAAG 57.920 50.000 0.00 0.00 0.00 3.16
2635 2751 3.446161 AGATACGTCCATTTCCGAGACAA 59.554 43.478 0.00 0.00 0.00 3.18
2636 2752 3.021695 AGATACGTCCATTTCCGAGACA 58.978 45.455 0.00 0.00 0.00 3.41
2637 2753 3.712091 AGATACGTCCATTTCCGAGAC 57.288 47.619 0.00 0.00 0.00 3.36
2638 2754 4.711399 TCTAGATACGTCCATTTCCGAGA 58.289 43.478 0.00 0.00 0.00 4.04
2639 2755 5.008811 AGTTCTAGATACGTCCATTTCCGAG 59.991 44.000 0.00 0.00 0.00 4.63
2640 2756 4.885907 AGTTCTAGATACGTCCATTTCCGA 59.114 41.667 0.00 0.00 0.00 4.55
2641 2757 5.184340 AGTTCTAGATACGTCCATTTCCG 57.816 43.478 0.00 0.00 0.00 4.30
2642 2758 8.937634 TTTTAGTTCTAGATACGTCCATTTCC 57.062 34.615 0.00 0.00 0.00 3.13
2666 2782 9.664332 GCAGAAATGGATGTATCTAGATGTATT 57.336 33.333 15.79 4.32 0.00 1.89
2667 2783 7.978414 CGCAGAAATGGATGTATCTAGATGTAT 59.022 37.037 15.79 9.11 0.00 2.29
2668 2784 7.176690 TCGCAGAAATGGATGTATCTAGATGTA 59.823 37.037 15.79 4.44 0.00 2.29
2669 2785 6.015095 TCGCAGAAATGGATGTATCTAGATGT 60.015 38.462 15.79 1.25 0.00 3.06
2670 2786 6.309980 GTCGCAGAAATGGATGTATCTAGATG 59.690 42.308 15.79 0.00 39.69 2.90
2671 2787 6.015095 TGTCGCAGAAATGGATGTATCTAGAT 60.015 38.462 10.73 10.73 39.69 1.98
2672 2788 5.301805 TGTCGCAGAAATGGATGTATCTAGA 59.698 40.000 0.00 0.00 39.69 2.43
2673 2789 5.532557 TGTCGCAGAAATGGATGTATCTAG 58.467 41.667 0.00 0.00 39.69 2.43
2674 2790 5.529581 TGTCGCAGAAATGGATGTATCTA 57.470 39.130 0.00 0.00 39.69 1.98
2675 2791 4.406648 TGTCGCAGAAATGGATGTATCT 57.593 40.909 0.00 0.00 39.69 1.98
2676 2792 4.572389 ACTTGTCGCAGAAATGGATGTATC 59.428 41.667 0.00 0.00 39.69 2.24
2677 2793 4.517285 ACTTGTCGCAGAAATGGATGTAT 58.483 39.130 0.00 0.00 39.69 2.29
2678 2794 3.937814 ACTTGTCGCAGAAATGGATGTA 58.062 40.909 0.00 0.00 39.69 2.29
2679 2795 2.783135 ACTTGTCGCAGAAATGGATGT 58.217 42.857 0.00 0.00 39.69 3.06
2680 2796 4.944962 TTACTTGTCGCAGAAATGGATG 57.055 40.909 0.00 0.00 39.69 3.51
2681 2797 5.066505 GGAATTACTTGTCGCAGAAATGGAT 59.933 40.000 0.00 0.00 39.69 3.41
2682 2798 4.394920 GGAATTACTTGTCGCAGAAATGGA 59.605 41.667 0.00 0.00 39.69 3.41
2683 2799 4.662145 GGAATTACTTGTCGCAGAAATGG 58.338 43.478 0.00 0.00 39.69 3.16
2684 2800 4.092821 TCGGAATTACTTGTCGCAGAAATG 59.907 41.667 0.00 0.00 39.69 2.32
2685 2801 4.250464 TCGGAATTACTTGTCGCAGAAAT 58.750 39.130 0.00 0.00 39.69 2.17
2686 2802 3.655486 TCGGAATTACTTGTCGCAGAAA 58.345 40.909 0.00 0.00 39.69 2.52
2687 2803 3.306917 TCGGAATTACTTGTCGCAGAA 57.693 42.857 0.00 0.00 39.69 3.02
2688 2804 2.991190 GTTCGGAATTACTTGTCGCAGA 59.009 45.455 0.00 0.00 0.00 4.26
2689 2805 2.222508 CGTTCGGAATTACTTGTCGCAG 60.223 50.000 0.00 0.00 0.00 5.18
2690 2806 1.722464 CGTTCGGAATTACTTGTCGCA 59.278 47.619 0.00 0.00 0.00 5.10
2691 2807 1.060122 CCGTTCGGAATTACTTGTCGC 59.940 52.381 5.19 0.00 0.00 5.19
2692 2808 2.597305 CTCCGTTCGGAATTACTTGTCG 59.403 50.000 14.79 0.00 33.41 4.35
2693 2809 2.928116 CCTCCGTTCGGAATTACTTGTC 59.072 50.000 14.79 0.00 33.41 3.18
2694 2810 2.354403 CCCTCCGTTCGGAATTACTTGT 60.354 50.000 14.79 0.00 33.41 3.16
2695 2811 2.093869 TCCCTCCGTTCGGAATTACTTG 60.094 50.000 14.79 1.97 33.41 3.16
2696 2812 2.167900 CTCCCTCCGTTCGGAATTACTT 59.832 50.000 14.79 0.00 33.41 2.24
2697 2813 1.755380 CTCCCTCCGTTCGGAATTACT 59.245 52.381 14.79 0.00 33.41 2.24
2698 2814 1.479730 ACTCCCTCCGTTCGGAATTAC 59.520 52.381 14.79 0.00 33.41 1.89
2699 2815 1.856629 ACTCCCTCCGTTCGGAATTA 58.143 50.000 14.79 2.82 33.41 1.40
2700 2816 1.856629 TACTCCCTCCGTTCGGAATT 58.143 50.000 14.79 0.00 33.41 2.17
2701 2817 1.687123 CATACTCCCTCCGTTCGGAAT 59.313 52.381 14.79 2.14 33.41 3.01
2702 2818 1.108776 CATACTCCCTCCGTTCGGAA 58.891 55.000 14.79 0.00 33.41 4.30
2703 2819 0.256752 TCATACTCCCTCCGTTCGGA 59.743 55.000 13.34 13.34 0.00 4.55
2704 2820 1.108776 TTCATACTCCCTCCGTTCGG 58.891 55.000 4.74 4.74 0.00 4.30
2705 2821 2.953466 TTTCATACTCCCTCCGTTCG 57.047 50.000 0.00 0.00 0.00 3.95
2706 2822 5.532664 ACTATTTCATACTCCCTCCGTTC 57.467 43.478 0.00 0.00 0.00 3.95
2707 2823 6.553852 ACATACTATTTCATACTCCCTCCGTT 59.446 38.462 0.00 0.00 0.00 4.44
2708 2824 6.015350 CACATACTATTTCATACTCCCTCCGT 60.015 42.308 0.00 0.00 0.00 4.69
2709 2825 6.015350 ACACATACTATTTCATACTCCCTCCG 60.015 42.308 0.00 0.00 0.00 4.63
2710 2826 7.304497 ACACATACTATTTCATACTCCCTCC 57.696 40.000 0.00 0.00 0.00 4.30
2711 2827 9.915629 CTAACACATACTATTTCATACTCCCTC 57.084 37.037 0.00 0.00 0.00 4.30
2712 2828 8.871125 CCTAACACATACTATTTCATACTCCCT 58.129 37.037 0.00 0.00 0.00 4.20
2713 2829 8.648693 ACCTAACACATACTATTTCATACTCCC 58.351 37.037 0.00 0.00 0.00 4.30
2714 2830 9.477484 CACCTAACACATACTATTTCATACTCC 57.523 37.037 0.00 0.00 0.00 3.85
2717 2833 8.979574 GCTCACCTAACACATACTATTTCATAC 58.020 37.037 0.00 0.00 0.00 2.39
2718 2834 8.700973 TGCTCACCTAACACATACTATTTCATA 58.299 33.333 0.00 0.00 0.00 2.15
2719 2835 7.564793 TGCTCACCTAACACATACTATTTCAT 58.435 34.615 0.00 0.00 0.00 2.57
2720 2836 6.941857 TGCTCACCTAACACATACTATTTCA 58.058 36.000 0.00 0.00 0.00 2.69
2821 3250 4.080393 CGTCGTGTCGAAAAGTCTACTAG 58.920 47.826 0.00 0.00 37.72 2.57
2824 3253 2.644078 ACGTCGTGTCGAAAAGTCTAC 58.356 47.619 0.00 0.00 37.72 2.59
2830 3259 3.500982 CCCTTATACGTCGTGTCGAAAA 58.499 45.455 8.47 0.00 37.72 2.29
2842 3272 2.370281 ATCGAGCATGCCCTTATACG 57.630 50.000 15.66 9.14 0.00 3.06
2843 3273 2.668457 CGAATCGAGCATGCCCTTATAC 59.332 50.000 15.66 0.15 0.00 1.47
2844 3274 2.299013 ACGAATCGAGCATGCCCTTATA 59.701 45.455 15.66 0.00 0.00 0.98
2845 3275 1.070758 ACGAATCGAGCATGCCCTTAT 59.929 47.619 15.66 0.00 0.00 1.73
2846 3276 0.464036 ACGAATCGAGCATGCCCTTA 59.536 50.000 15.66 0.00 0.00 2.69
2848 3278 0.249489 GTACGAATCGAGCATGCCCT 60.249 55.000 15.66 0.00 0.00 5.19
2849 3279 0.249489 AGTACGAATCGAGCATGCCC 60.249 55.000 15.66 0.00 0.00 5.36
2867 3297 3.930336 TGAACATCTAGCAACCTGTGAG 58.070 45.455 0.00 0.00 0.00 3.51
2888 3318 0.320946 GCATGCACACATTTTGCCCT 60.321 50.000 14.21 0.00 39.39 5.19
2889 3319 0.320946 AGCATGCACACATTTTGCCC 60.321 50.000 21.98 0.00 39.39 5.36
2943 3402 3.733443 AAACATGGGTGTGAGCTTTTC 57.267 42.857 0.00 0.00 38.92 2.29
2987 3447 8.696374 CCCCATTGTACATCGTAGATCTAATAT 58.304 37.037 3.40 0.00 45.12 1.28
3010 3470 7.054751 GCCTGATCATATTATAAAGTACCCCC 58.945 42.308 0.00 0.00 0.00 5.40
3078 3539 1.201414 TGCGTCGTAGATCTTCTTGCA 59.799 47.619 0.00 3.30 40.67 4.08
3080 3541 3.138205 AGTGCGTCGTAGATCTTCTTG 57.862 47.619 0.00 0.00 40.67 3.02
3096 3558 6.588348 ATTTTCTAGTTTTGTTGCAAGTGC 57.412 33.333 0.00 0.00 42.50 4.40
3113 3575 7.894376 TCGAACCGTAACAATAGAATTTTCT 57.106 32.000 0.00 0.00 41.24 2.52
3123 3586 4.333372 ACAGTGTTTTCGAACCGTAACAAT 59.667 37.500 13.22 10.30 35.66 2.71
3124 3587 3.683822 ACAGTGTTTTCGAACCGTAACAA 59.316 39.130 13.22 0.00 35.66 2.83
3129 3592 3.426560 GGAAAACAGTGTTTTCGAACCGT 60.427 43.478 36.92 17.06 38.82 4.83
3180 3643 6.857777 ATCTTGCTCGGAAGATTTCATAAG 57.142 37.500 7.71 0.00 39.23 1.73
3256 3719 4.025040 TGTCAAGTTCATCATCAAGCCT 57.975 40.909 0.00 0.00 0.00 4.58
3292 3755 6.292381 GCGCTATAGAATCACTTCGAAACATT 60.292 38.462 3.21 0.00 36.45 2.71
3325 3788 2.260434 GTTCGCGTGGGACAGCTA 59.740 61.111 5.77 0.00 41.80 3.32
3450 3926 1.212935 TGCCTTTCCTTCTATGGCTCC 59.787 52.381 0.00 0.00 43.57 4.70
3514 4002 6.267471 TGTTTTATCCAAGTTCTTCTGCCAAT 59.733 34.615 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.