Multiple sequence alignment - TraesCS6D01G262800

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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 TraesCS6D01G262800 chr6D 100.000 5629 0 0 1 5629 371299139 371304767 0.000000e+00 10395.0
1 TraesCS6D01G262800 chr6A 94.173 4119 164 27 771 4846 512341560 512345645 0.000000e+00 6207.0
2 TraesCS6D01G262800 chr6A 90.995 633 33 7 4965 5582 512345782 512346405 0.000000e+00 832.0
3 TraesCS6D01G262800 chr6A 85.792 732 81 11 1 712 133505245 133505973 0.000000e+00 754.0
4 TraesCS6D01G262800 chr6A 85.981 214 21 5 506 711 604473838 604473626 2.640000e-53 220.0
5 TraesCS6D01G262800 chr6A 100.000 41 0 0 727 767 512340620 512340660 6.050000e-10 76.8
6 TraesCS6D01G262800 chr6A 91.667 48 3 1 5582 5628 512346443 512346490 1.310000e-06 65.8
7 TraesCS6D01G262800 chr6B 93.735 2586 114 17 849 3415 556490111 556492667 0.000000e+00 3834.0
8 TraesCS6D01G262800 chr6B 95.802 1453 44 11 3407 4846 556494358 556495806 0.000000e+00 2329.0
9 TraesCS6D01G262800 chr6B 91.064 470 16 7 4965 5415 556495933 556496395 3.730000e-171 612.0
10 TraesCS6D01G262800 chr6B 88.462 104 11 1 5479 5582 556496420 556496522 2.130000e-24 124.0
11 TraesCS6D01G262800 chr6B 97.872 47 1 0 5582 5628 556496560 556496606 1.300000e-11 82.4
12 TraesCS6D01G262800 chr5B 88.827 716 65 9 1 709 639619309 639620016 0.000000e+00 865.0
13 TraesCS6D01G262800 chr5B 84.834 211 23 5 506 708 476787760 476787551 2.660000e-48 204.0
14 TraesCS6D01G262800 chr3B 88.499 713 74 4 1 708 706726318 706727027 0.000000e+00 856.0
15 TraesCS6D01G262800 chr2A 87.707 724 70 6 1 708 657058147 657058867 0.000000e+00 826.0
16 TraesCS6D01G262800 chr2A 87.500 728 67 13 1 712 678729116 678728397 0.000000e+00 819.0
17 TraesCS6D01G262800 chr2A 86.592 179 17 4 535 708 105482752 105482576 2.070000e-44 191.0
18 TraesCS6D01G262800 chr2D 87.155 724 73 12 1 708 535625196 535624477 0.000000e+00 804.0
19 TraesCS6D01G262800 chr2D 86.667 735 63 9 1 713 386514437 386513716 0.000000e+00 782.0
20 TraesCS6D01G262800 chr2D 85.176 425 43 10 298 708 108272632 108272214 8.720000e-113 418.0
21 TraesCS6D01G262800 chr1D 90.203 592 52 5 1 587 51044671 51044081 0.000000e+00 767.0
22 TraesCS6D01G262800 chr3D 89.535 516 33 8 1 510 84474181 84474681 7.960000e-178 634.0
23 TraesCS6D01G262800 chr3D 83.019 212 27 5 506 708 98597072 98597283 3.460000e-42 183.0
24 TraesCS6D01G262800 chr2B 86.517 178 24 0 536 713 441795901 441795724 4.450000e-46 196.0
25 TraesCS6D01G262800 chr7B 82.379 227 28 9 506 724 674112743 674112521 2.680000e-43 187.0


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 TraesCS6D01G262800 chr6D 371299139 371304767 5628 False 10395.00 10395 100.00000 1 5629 1 chr6D.!!$F1 5628
1 TraesCS6D01G262800 chr6A 512340620 512346490 5870 False 1795.40 6207 94.20875 727 5628 4 chr6A.!!$F2 4901
2 TraesCS6D01G262800 chr6A 133505245 133505973 728 False 754.00 754 85.79200 1 712 1 chr6A.!!$F1 711
3 TraesCS6D01G262800 chr6B 556490111 556496606 6495 False 1396.28 3834 93.38700 849 5628 5 chr6B.!!$F1 4779
4 TraesCS6D01G262800 chr5B 639619309 639620016 707 False 865.00 865 88.82700 1 709 1 chr5B.!!$F1 708
5 TraesCS6D01G262800 chr3B 706726318 706727027 709 False 856.00 856 88.49900 1 708 1 chr3B.!!$F1 707
6 TraesCS6D01G262800 chr2A 657058147 657058867 720 False 826.00 826 87.70700 1 708 1 chr2A.!!$F1 707
7 TraesCS6D01G262800 chr2A 678728397 678729116 719 True 819.00 819 87.50000 1 712 1 chr2A.!!$R2 711
8 TraesCS6D01G262800 chr2D 535624477 535625196 719 True 804.00 804 87.15500 1 708 1 chr2D.!!$R3 707
9 TraesCS6D01G262800 chr2D 386513716 386514437 721 True 782.00 782 86.66700 1 713 1 chr2D.!!$R2 712
10 TraesCS6D01G262800 chr1D 51044081 51044671 590 True 767.00 767 90.20300 1 587 1 chr1D.!!$R1 586
11 TraesCS6D01G262800 chr3D 84474181 84474681 500 False 634.00 634 89.53500 1 510 1 chr3D.!!$F1 509

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
243 253 0.396435 TGGCAATGAGACTTCACCGT 59.604 50.0 0.0 0.0 35.83 4.83 F
790 1718 0.602905 AAGCGGACCGAACCAAAGAG 60.603 55.0 20.5 0.0 0.00 2.85 F
2102 3047 0.036732 TTGCTGGTGCTTACTGGAGG 59.963 55.0 0.0 0.0 40.48 4.30 F
3021 3969 2.093235 GGCAGAGCTTGGAACTGTCTAT 60.093 50.0 0.0 0.0 34.09 1.98 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2075 3020 0.181114 AAGCACCAGCAACAGACTCA 59.819 50.000 0.00 0.00 45.49 3.41 R
2499 3445 1.486726 AGACCACTGCTAGGCCATAAC 59.513 52.381 5.01 0.00 0.00 1.89 R
3450 6097 1.133945 TGTTGCAGGCACCTAGAACAA 60.134 47.619 9.26 1.41 0.00 2.83 R
4958 7685 0.038744 CCATCCTGCTGAGTGGGTTT 59.961 55.000 6.39 0.00 0.00 3.27 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
136 143 3.319198 GGGTGGCTTCGGAGGTGA 61.319 66.667 0.00 0.00 0.00 4.02
215 222 0.449388 GAGGCAATGAAGGTGCTTCG 59.551 55.000 0.00 0.00 42.78 3.79
224 234 4.021925 GGTGCTTCGGGTGCTCCT 62.022 66.667 4.53 0.00 39.95 3.69
243 253 0.396435 TGGCAATGAGACTTCACCGT 59.604 50.000 0.00 0.00 35.83 4.83
248 258 3.189287 GCAATGAGACTTCACCGTTTCAT 59.811 43.478 0.00 0.00 39.54 2.57
294 307 3.118920 TGATGATGATCGTACCACGGTTT 60.119 43.478 0.00 0.00 42.81 3.27
296 309 4.659111 TGATGATCGTACCACGGTTTAT 57.341 40.909 0.00 0.00 42.81 1.40
318 331 1.302511 GCCGGTGGTGTTGATGACT 60.303 57.895 1.90 0.00 0.00 3.41
377 390 5.529060 AGAGCGAAAAACTTTGATTGAGACT 59.471 36.000 0.00 0.00 0.00 3.24
417 433 7.718753 AGAGGGATTTGAAACTATGATGATGAC 59.281 37.037 0.00 0.00 0.00 3.06
445 461 5.465390 GCACTTTTGTTAGGGATTTGAAACC 59.535 40.000 0.00 0.00 0.00 3.27
453 469 6.152661 TGTTAGGGATTTGAAACCATGATGAC 59.847 38.462 0.00 0.00 0.00 3.06
456 472 4.438744 GGGATTTGAAACCATGATGACGAC 60.439 45.833 0.00 0.00 0.00 4.34
466 482 1.629013 TGATGACGACGATGCACTTC 58.371 50.000 0.00 0.00 0.00 3.01
467 483 1.202348 TGATGACGACGATGCACTTCT 59.798 47.619 0.00 0.00 0.00 2.85
468 484 1.585668 GATGACGACGATGCACTTCTG 59.414 52.381 0.00 0.00 0.00 3.02
471 487 2.030628 TGACGACGATGCACTTCTGTTA 60.031 45.455 0.00 0.00 0.00 2.41
473 489 1.920574 CGACGATGCACTTCTGTTAGG 59.079 52.381 0.00 0.00 0.00 2.69
474 490 2.271800 GACGATGCACTTCTGTTAGGG 58.728 52.381 0.00 0.00 0.00 3.53
482 498 7.361713 CGATGCACTTCTGTTAGGGATTTTAAA 60.362 37.037 0.00 0.00 0.00 1.52
547 577 3.389925 ACGACCGGTTTTACATCTTCA 57.610 42.857 9.42 0.00 0.00 3.02
567 597 2.421751 TTTTGGACCGTCTGTTGGAA 57.578 45.000 0.00 0.00 0.00 3.53
594 624 6.206634 TGCTCTTTTACATCTTCGTTTTGGAT 59.793 34.615 0.00 0.00 0.00 3.41
595 625 7.084486 GCTCTTTTACATCTTCGTTTTGGATT 58.916 34.615 0.00 0.00 0.00 3.01
612 644 9.528018 GTTTTGGATTATTTGTTGAAGTTGAGA 57.472 29.630 0.00 0.00 0.00 3.27
714 746 5.798125 TCTATTGAAGATGCTCCTAGTGG 57.202 43.478 0.00 0.00 0.00 4.00
715 747 5.458595 TCTATTGAAGATGCTCCTAGTGGA 58.541 41.667 0.00 0.00 40.69 4.02
716 748 6.080682 TCTATTGAAGATGCTCCTAGTGGAT 58.919 40.000 0.00 0.00 42.29 3.41
717 749 5.643421 ATTGAAGATGCTCCTAGTGGATT 57.357 39.130 0.00 0.00 42.29 3.01
718 750 4.412796 TGAAGATGCTCCTAGTGGATTG 57.587 45.455 0.00 0.00 42.29 2.67
719 751 3.135348 TGAAGATGCTCCTAGTGGATTGG 59.865 47.826 0.00 0.00 42.29 3.16
720 752 2.769209 AGATGCTCCTAGTGGATTGGT 58.231 47.619 0.00 0.00 42.29 3.67
721 753 3.118531 AGATGCTCCTAGTGGATTGGTT 58.881 45.455 0.00 0.00 42.29 3.67
722 754 3.525199 AGATGCTCCTAGTGGATTGGTTT 59.475 43.478 0.00 0.00 42.29 3.27
723 755 3.806949 TGCTCCTAGTGGATTGGTTTT 57.193 42.857 0.00 0.00 42.29 2.43
724 756 3.420893 TGCTCCTAGTGGATTGGTTTTG 58.579 45.455 0.00 0.00 42.29 2.44
725 757 2.755103 GCTCCTAGTGGATTGGTTTTGG 59.245 50.000 0.00 0.00 42.29 3.28
767 799 4.430137 ACATCTACGCGACTTGTTAGAA 57.570 40.909 15.93 0.00 0.00 2.10
768 800 4.164294 ACATCTACGCGACTTGTTAGAAC 58.836 43.478 15.93 0.00 0.00 3.01
787 1715 1.202675 ACTTAAGCGGACCGAACCAAA 60.203 47.619 20.50 2.82 0.00 3.28
790 1718 0.602905 AAGCGGACCGAACCAAAGAG 60.603 55.000 20.50 0.00 0.00 2.85
797 1725 2.801111 GACCGAACCAAAGAGTTCACTC 59.199 50.000 0.00 0.00 45.27 3.51
809 1737 3.004419 AGAGTTCACTCACGAAACGATGA 59.996 43.478 9.62 0.00 45.21 2.92
810 1738 3.713288 AGTTCACTCACGAAACGATGAA 58.287 40.909 0.00 0.00 0.00 2.57
828 1756 3.128375 AAAAAGTGTGCAGCGGGG 58.872 55.556 0.00 0.00 0.00 5.73
1128 2059 2.039137 GAACCCCTCTCCTCCCGT 59.961 66.667 0.00 0.00 0.00 5.28
1344 2275 1.430992 TTTCCCTTCTTCCTCCGTGT 58.569 50.000 0.00 0.00 0.00 4.49
1358 2289 2.416547 CTCCGTGTTTCAACTGCCATAG 59.583 50.000 0.00 0.00 0.00 2.23
1381 2312 3.151554 TGCAGTTGCTTCAGTCATTCAT 58.848 40.909 5.62 0.00 42.66 2.57
1553 2485 1.376037 GTCCAGAAGCTGTTCCCCG 60.376 63.158 0.00 0.00 32.48 5.73
1621 2553 1.153289 CTTCGACATGGAGCCCCTG 60.153 63.158 0.00 0.00 0.00 4.45
1695 2640 3.555956 CGGATTGGATTTCTAAGTGTCGG 59.444 47.826 0.00 0.00 0.00 4.79
1723 2668 6.319715 AGGGATTTAACTTGTTTACCATGGT 58.680 36.000 23.55 23.55 0.00 3.55
1724 2669 7.471890 AGGGATTTAACTTGTTTACCATGGTA 58.528 34.615 21.05 21.05 0.00 3.25
1725 2670 8.119891 AGGGATTTAACTTGTTTACCATGGTAT 58.880 33.333 25.12 10.99 0.00 2.73
1726 2671 8.194769 GGGATTTAACTTGTTTACCATGGTATG 58.805 37.037 25.12 14.50 0.00 2.39
1815 2760 2.440409 GCTCAAAAGAGGATCCAAGCA 58.560 47.619 15.82 0.00 33.66 3.91
1926 2871 1.009829 CAGCTTACTTGTCCGATGCC 58.990 55.000 0.00 0.00 0.00 4.40
1978 2923 6.717289 TGGTGGATTTTATGTACTTACTGCT 58.283 36.000 0.00 0.00 0.00 4.24
1979 2924 6.597672 TGGTGGATTTTATGTACTTACTGCTG 59.402 38.462 0.00 0.00 0.00 4.41
1980 2925 6.821665 GGTGGATTTTATGTACTTACTGCTGA 59.178 38.462 0.00 0.00 0.00 4.26
1981 2926 7.335924 GGTGGATTTTATGTACTTACTGCTGAA 59.664 37.037 0.00 0.00 0.00 3.02
1982 2927 8.893727 GTGGATTTTATGTACTTACTGCTGAAT 58.106 33.333 0.00 0.00 0.00 2.57
1983 2928 9.461312 TGGATTTTATGTACTTACTGCTGAATT 57.539 29.630 0.00 0.00 0.00 2.17
2075 3020 2.158696 ACAGAGAAAGGCTGTTGAGCTT 60.159 45.455 0.00 0.00 43.67 3.74
2102 3047 0.036732 TTGCTGGTGCTTACTGGAGG 59.963 55.000 0.00 0.00 40.48 4.30
2328 3273 8.682936 AGTAATCCCTTAGTAATTGAAGCATG 57.317 34.615 0.00 0.00 0.00 4.06
2333 3278 4.646492 CCTTAGTAATTGAAGCATGGCCTT 59.354 41.667 3.32 0.00 0.00 4.35
2337 3282 3.893326 AATTGAAGCATGGCCTTAACC 57.107 42.857 3.32 0.00 0.00 2.85
2396 3341 4.038642 TGTTGACCCCTAAAAGTTTGATGC 59.961 41.667 0.00 0.00 0.00 3.91
2407 3352 4.644103 AAGTTTGATGCCATCATGCTAC 57.356 40.909 8.45 5.14 39.39 3.58
2579 3526 7.141363 GCTGTCACTGTCAATTCTAACAAAAT 58.859 34.615 0.00 0.00 0.00 1.82
2646 3594 5.739959 TGTAAATACCTTGCTATCTGTGCA 58.260 37.500 0.00 0.00 38.80 4.57
2653 3601 4.141642 ACCTTGCTATCTGTGCATATGTGA 60.142 41.667 4.29 0.00 40.34 3.58
2657 3605 7.201617 CCTTGCTATCTGTGCATATGTGATATG 60.202 40.741 4.29 0.00 44.25 1.78
2685 3633 8.018520 TGTTTTTGTTAATAGTGATTGTAGCCG 58.981 33.333 0.00 0.00 0.00 5.52
2820 3768 6.641314 GTGGTTATGATCTATTGTACACTCCG 59.359 42.308 0.00 0.00 0.00 4.63
3021 3969 2.093235 GGCAGAGCTTGGAACTGTCTAT 60.093 50.000 0.00 0.00 34.09 1.98
3082 4030 3.367087 CGTAAGAGGGTTCACACAGGTAG 60.367 52.174 0.00 0.00 43.02 3.18
3111 4059 6.426980 TGATTCCGAATTTGATTCTGTCTG 57.573 37.500 0.00 0.00 37.13 3.51
3148 4096 3.500448 TTCCTGTATTCTGCAACCACA 57.500 42.857 0.00 0.00 0.00 4.17
3155 4103 6.183360 CCTGTATTCTGCAACCACAAGATAAG 60.183 42.308 0.00 0.00 0.00 1.73
3163 4111 7.611467 TCTGCAACCACAAGATAAGTATTGAAT 59.389 33.333 0.00 0.00 31.18 2.57
3195 4143 4.956075 AGGTTTTGTGTTTTCTGAGATGGT 59.044 37.500 0.00 0.00 0.00 3.55
3283 4231 4.943705 TCTCTGGACTATTTTCCACATTGC 59.056 41.667 0.00 0.00 41.00 3.56
3338 4286 3.814005 TCGTTCAGTAATTCCCTAGGC 57.186 47.619 2.05 0.00 0.00 3.93
3397 4345 3.693085 GTCCCGACTCACAGTTCTGTATA 59.307 47.826 5.11 0.00 0.00 1.47
3450 6097 8.029522 CACTACTCTGACATTACTAACATGTGT 58.970 37.037 0.00 0.00 34.89 3.72
3453 6100 7.217200 ACTCTGACATTACTAACATGTGTTGT 58.783 34.615 0.00 1.32 41.53 3.32
3462 6109 4.755123 ACTAACATGTGTTGTTCTAGGTGC 59.245 41.667 0.00 0.00 45.55 5.01
3728 6377 3.482722 ACAATTGCTCTGAAAGATGCG 57.517 42.857 5.05 0.00 45.62 4.73
3743 6392 4.881019 AGATGCGCTAGATGATAAAGGT 57.119 40.909 9.73 0.00 0.00 3.50
3889 6538 9.959749 TTTCTACGAAGAATAAGCAAATTTTGT 57.040 25.926 10.65 0.00 41.36 2.83
3891 6540 8.020819 TCTACGAAGAATAAGCAAATTTTGTGG 58.979 33.333 10.65 0.00 0.00 4.17
3892 6541 6.744112 ACGAAGAATAAGCAAATTTTGTGGA 58.256 32.000 10.65 0.00 0.00 4.02
3927 6577 6.206634 GGAAAAGGGCATATAACATCATTCGA 59.793 38.462 0.00 0.00 0.00 3.71
3933 6583 7.667219 AGGGCATATAACATCATTCGATTTTCT 59.333 33.333 0.00 0.00 0.00 2.52
4117 6767 4.507969 CTTGCTCCAACCCAAGCT 57.492 55.556 0.00 0.00 39.31 3.74
4207 6857 9.974980 AAACCAATATTTTTACCTTGTACTGTG 57.025 29.630 0.00 0.00 0.00 3.66
4228 6878 7.101652 TGTGGTAGATTTGTGCAAAGTAAAA 57.898 32.000 3.70 0.00 33.32 1.52
4345 7002 1.656652 CACCTCTTACGAAGCCATGG 58.343 55.000 7.63 7.63 0.00 3.66
4641 7298 2.440627 TCGCTGTAGATACCCCAGTCTA 59.559 50.000 0.00 0.00 0.00 2.59
4649 7307 8.474710 TGTAGATACCCCAGTCTATTAAACTC 57.525 38.462 0.00 0.00 30.35 3.01
4674 7332 6.920758 CCAGTTCATATTGTAGAGCACTAGAC 59.079 42.308 0.00 0.00 0.00 2.59
4706 7373 2.012902 ATACACCGTACAGGAGCGCC 62.013 60.000 2.29 0.00 45.00 6.53
4751 7418 3.555547 GGTCCAACAATTTTGTGCAGAAC 59.444 43.478 0.00 0.00 41.31 3.01
4765 7432 1.830279 CAGAACTGCCATCACCACAT 58.170 50.000 0.00 0.00 0.00 3.21
4766 7433 2.165167 CAGAACTGCCATCACCACATT 58.835 47.619 0.00 0.00 0.00 2.71
4767 7434 3.346315 CAGAACTGCCATCACCACATTA 58.654 45.455 0.00 0.00 0.00 1.90
4770 7437 5.008019 CAGAACTGCCATCACCACATTATAC 59.992 44.000 0.00 0.00 0.00 1.47
4771 7438 4.778213 ACTGCCATCACCACATTATACT 57.222 40.909 0.00 0.00 0.00 2.12
4772 7439 4.708177 ACTGCCATCACCACATTATACTC 58.292 43.478 0.00 0.00 0.00 2.59
4773 7440 4.067896 CTGCCATCACCACATTATACTCC 58.932 47.826 0.00 0.00 0.00 3.85
4780 7447 4.405680 TCACCACATTATACTCCAGTCAGG 59.594 45.833 0.00 0.00 39.47 3.86
4793 7460 1.140312 AGTCAGGAACAGAAGCCCAA 58.860 50.000 0.00 0.00 0.00 4.12
4812 7479 6.663093 AGCCCAACATTCTTCATTGTACATAA 59.337 34.615 0.00 0.00 0.00 1.90
4846 7518 4.454728 TTTCAGTGCAAGTTTTCAGCTT 57.545 36.364 0.00 0.00 0.00 3.74
4849 7575 3.633525 TCAGTGCAAGTTTTCAGCTTGAT 59.366 39.130 8.95 0.00 44.29 2.57
4879 7606 2.672760 GCATTGCACTGCACATCATTGA 60.673 45.455 22.74 0.00 41.87 2.57
4883 7610 2.094957 TGCACTGCACATCATTGACATG 60.095 45.455 0.00 0.00 31.71 3.21
4886 7613 2.417586 ACTGCACATCATTGACATGTCG 59.582 45.455 20.54 7.10 31.83 4.35
4889 7616 2.160219 GCACATCATTGACATGTCGTGT 59.840 45.455 20.54 15.57 45.83 4.49
4900 7627 3.525537 ACATGTCGTGTCATGAATCTCC 58.474 45.455 18.65 0.00 45.41 3.71
4901 7628 3.055891 ACATGTCGTGTCATGAATCTCCA 60.056 43.478 18.65 0.00 45.41 3.86
4902 7629 3.236632 TGTCGTGTCATGAATCTCCAG 57.763 47.619 0.00 0.00 0.00 3.86
4903 7630 2.825532 TGTCGTGTCATGAATCTCCAGA 59.174 45.455 0.00 0.00 0.00 3.86
4919 7646 4.767255 GACTCCAGGCAGCGGTGG 62.767 72.222 17.54 6.13 34.87 4.61
4936 7663 2.710902 GGGCTTGATTTGACCGGCC 61.711 63.158 0.00 0.00 38.92 6.13
4937 7664 2.710902 GGCTTGATTTGACCGGCCC 61.711 63.158 0.00 0.00 34.19 5.80
4938 7665 2.710902 GCTTGATTTGACCGGCCCC 61.711 63.158 0.00 0.00 0.00 5.80
4939 7666 1.000896 CTTGATTTGACCGGCCCCT 60.001 57.895 0.00 0.00 0.00 4.79
4940 7667 1.304052 TTGATTTGACCGGCCCCTG 60.304 57.895 0.00 0.00 0.00 4.45
4941 7668 2.075355 TTGATTTGACCGGCCCCTGT 62.075 55.000 0.00 0.00 0.00 4.00
4942 7669 1.749258 GATTTGACCGGCCCCTGTC 60.749 63.158 0.00 2.05 0.00 3.51
4943 7670 2.478335 GATTTGACCGGCCCCTGTCA 62.478 60.000 12.11 12.11 38.16 3.58
4944 7671 2.764637 ATTTGACCGGCCCCTGTCAC 62.765 60.000 14.97 0.00 39.28 3.67
4945 7672 4.954118 TGACCGGCCCCTGTCACT 62.954 66.667 12.11 0.00 35.74 3.41
4946 7673 4.394712 GACCGGCCCCTGTCACTG 62.395 72.222 0.00 0.00 31.81 3.66
4952 7679 3.252284 CCCCTGTCACTGGGCTGT 61.252 66.667 14.50 0.00 40.67 4.40
4953 7680 2.033141 CCCTGTCACTGGGCTGTG 59.967 66.667 6.86 5.14 35.90 3.66
4954 7681 2.033141 CCTGTCACTGGGCTGTGG 59.967 66.667 10.25 0.00 38.40 4.17
4955 7682 2.033141 CTGTCACTGGGCTGTGGG 59.967 66.667 10.25 0.00 38.40 4.61
4956 7683 4.269523 TGTCACTGGGCTGTGGGC 62.270 66.667 10.25 5.86 38.40 5.36
4957 7684 3.958860 GTCACTGGGCTGTGGGCT 61.959 66.667 10.25 0.00 41.46 5.19
4958 7685 2.203922 TCACTGGGCTGTGGGCTA 60.204 61.111 10.25 0.00 41.46 3.93
4959 7686 1.845664 TCACTGGGCTGTGGGCTAA 60.846 57.895 10.25 0.00 41.46 3.09
4960 7687 1.074775 CACTGGGCTGTGGGCTAAA 59.925 57.895 3.85 0.00 41.46 1.85
4961 7688 1.074951 ACTGGGCTGTGGGCTAAAC 59.925 57.895 0.00 0.00 41.46 2.01
4962 7689 1.678970 CTGGGCTGTGGGCTAAACC 60.679 63.158 0.00 0.00 41.46 3.27
4994 7721 2.713154 GATGCGCGGGCGTATTTT 59.287 55.556 20.06 0.00 44.14 1.82
5000 7727 2.746803 GCGGGCGTATTTTCTGCGT 61.747 57.895 0.00 0.00 35.17 5.24
5001 7728 1.791662 CGGGCGTATTTTCTGCGTT 59.208 52.632 0.00 0.00 35.17 4.84
5079 7814 3.406361 GTGCGGTGCTGAGTCGTG 61.406 66.667 0.00 0.00 0.00 4.35
5160 7900 1.518056 CCCGATTGATTGGGGCATCG 61.518 60.000 8.26 0.00 46.21 3.84
5352 8099 4.659088 CGACGTCAGTAAAAGATCTAGCA 58.341 43.478 17.16 0.00 0.00 3.49
5393 8141 1.659954 CGTAGCAGAGGAGCGCATC 60.660 63.158 11.47 4.44 40.15 3.91
5402 8150 2.906047 GGAGCGCATCCTCATACAC 58.094 57.895 11.47 0.00 45.64 2.90
5403 8151 0.104855 GGAGCGCATCCTCATACACA 59.895 55.000 11.47 0.00 45.64 3.72
5448 8196 2.514824 GCCGTCATCTTCCTGGGC 60.515 66.667 0.00 0.00 0.00 5.36
5476 8224 2.353323 GTGGAGAAACGTGGATTACCC 58.647 52.381 0.00 0.00 34.81 3.69
5488 8249 3.699538 GTGGATTACCCCTAAAGCCTTTG 59.300 47.826 0.00 0.00 34.81 2.77
5526 8287 6.699895 TCGCGATTTATAATTATGAAGCGT 57.300 33.333 29.27 7.97 41.23 5.07
5540 8301 0.804989 AAGCGTGGCACTTCTAATGC 59.195 50.000 16.72 9.62 42.62 3.56
5552 8313 5.068636 CACTTCTAATGCCAGGATTGCTAT 58.931 41.667 0.00 0.00 0.00 2.97
5553 8314 5.048921 CACTTCTAATGCCAGGATTGCTATG 60.049 44.000 0.00 0.00 0.00 2.23
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 41 1.531602 GCCACCAAAGCCACCTTCT 60.532 57.895 0.00 0.00 0.00 2.85
136 143 2.028112 ACACTCATGTTGTCGCCATAGT 60.028 45.455 0.00 0.00 34.46 2.12
157 164 2.342279 CGAAGCCACCTCCAACGA 59.658 61.111 0.00 0.00 0.00 3.85
224 234 0.396435 ACGGTGAAGTCTCATTGCCA 59.604 50.000 0.00 0.00 33.05 4.92
243 253 4.084223 GGCTTCTTTGTCGACGTTATGAAA 60.084 41.667 11.62 3.77 0.00 2.69
248 258 1.411394 CGGCTTCTTTGTCGACGTTA 58.589 50.000 11.62 0.00 37.20 3.18
294 307 0.607112 TCAACACCACCGGCGTTATA 59.393 50.000 6.01 0.00 0.00 0.98
296 309 0.951525 CATCAACACCACCGGCGTTA 60.952 55.000 6.01 0.00 0.00 3.18
355 368 5.757850 AGTCTCAATCAAAGTTTTTCGCT 57.242 34.783 0.00 0.00 0.00 4.93
377 390 7.754624 TCAAATCCCTCTACCATAAATGCATA 58.245 34.615 0.00 0.00 0.00 3.14
386 399 7.451731 TCATAGTTTCAAATCCCTCTACCAT 57.548 36.000 0.00 0.00 0.00 3.55
417 433 4.701956 AATCCCTAACAAAAGTGCATCG 57.298 40.909 0.00 0.00 0.00 3.84
445 461 1.564207 AGTGCATCGTCGTCATCATG 58.436 50.000 0.00 0.00 0.00 3.07
453 469 1.920574 CCTAACAGAAGTGCATCGTCG 59.079 52.381 0.00 0.00 0.00 5.12
456 472 2.672961 TCCCTAACAGAAGTGCATCG 57.327 50.000 0.00 0.00 0.00 3.84
482 498 5.942325 GCGGTTTTGCGTTAAAATATCAT 57.058 34.783 3.66 0.00 40.17 2.45
527 557 3.389925 TGAAGATGTAAAACCGGTCGT 57.610 42.857 8.04 0.25 0.00 4.34
530 560 5.536916 TCCAAAATGAAGATGTAAAACCGGT 59.463 36.000 0.00 0.00 0.00 5.28
547 577 2.649531 TCCAACAGACGGTCCAAAAT 57.350 45.000 4.14 0.00 0.00 1.82
567 597 6.863126 CCAAAACGAAGATGTAAAAGAGCAAT 59.137 34.615 0.00 0.00 0.00 3.56
713 745 5.963176 ATGCAAATTTCCAAAACCAATCC 57.037 34.783 0.00 0.00 0.00 3.01
714 746 6.578172 CGAAATGCAAATTTCCAAAACCAATC 59.422 34.615 7.11 0.00 37.27 2.67
715 747 6.039159 ACGAAATGCAAATTTCCAAAACCAAT 59.961 30.769 7.11 0.00 37.27 3.16
716 748 5.355350 ACGAAATGCAAATTTCCAAAACCAA 59.645 32.000 7.11 0.00 37.27 3.67
717 749 4.878397 ACGAAATGCAAATTTCCAAAACCA 59.122 33.333 7.11 0.00 37.27 3.67
718 750 5.007136 TCACGAAATGCAAATTTCCAAAACC 59.993 36.000 7.11 0.00 37.27 3.27
719 751 5.901336 GTCACGAAATGCAAATTTCCAAAAC 59.099 36.000 7.11 0.00 37.27 2.43
720 752 5.582269 TGTCACGAAATGCAAATTTCCAAAA 59.418 32.000 7.11 0.00 37.27 2.44
721 753 5.111989 TGTCACGAAATGCAAATTTCCAAA 58.888 33.333 7.11 0.00 37.27 3.28
722 754 4.686972 TGTCACGAAATGCAAATTTCCAA 58.313 34.783 7.11 0.00 37.27 3.53
723 755 4.313277 TGTCACGAAATGCAAATTTCCA 57.687 36.364 7.11 0.00 37.27 3.53
724 756 5.861251 TGTATGTCACGAAATGCAAATTTCC 59.139 36.000 7.11 0.00 37.27 3.13
725 757 6.926280 TGTATGTCACGAAATGCAAATTTC 57.074 33.333 0.00 0.00 37.23 2.17
767 799 0.393820 TTGGTTCGGTCCGCTTAAGT 59.606 50.000 6.34 0.00 0.00 2.24
768 800 1.463444 CTTTGGTTCGGTCCGCTTAAG 59.537 52.381 6.34 0.00 0.00 1.85
787 1715 3.004419 TCATCGTTTCGTGAGTGAACTCT 59.996 43.478 11.55 0.00 43.25 3.24
790 1718 4.446857 TTTCATCGTTTCGTGAGTGAAC 57.553 40.909 0.00 0.00 0.00 3.18
837 1765 1.373497 AGCGACAAAGCGTCCTCTG 60.373 57.895 0.00 0.00 42.07 3.35
838 1766 1.373497 CAGCGACAAAGCGTCCTCT 60.373 57.895 0.00 0.00 42.07 3.69
842 1770 2.551270 CACCAGCGACAAAGCGTC 59.449 61.111 0.00 0.00 43.00 5.19
845 1773 2.253452 CTGCACCAGCGACAAAGC 59.747 61.111 0.00 0.00 46.23 3.51
903 1831 3.759086 TGGATATCCTCTCATCGTGTAGC 59.241 47.826 22.35 0.00 36.82 3.58
1103 2034 1.305887 GAGAGGGGTTCGAGGGGAA 60.306 63.158 0.00 0.00 0.00 3.97
1358 2289 3.243168 TGAATGACTGAAGCAACTGCAAC 60.243 43.478 4.22 0.00 45.16 4.17
1368 2299 9.483062 GAACGATAAGAAAATGAATGACTGAAG 57.517 33.333 0.00 0.00 0.00 3.02
1381 2312 3.676172 ACACGCATCGAACGATAAGAAAA 59.324 39.130 16.87 0.00 32.93 2.29
1528 2460 2.110967 CAGCTTCTGGACGGCCATG 61.111 63.158 12.52 0.32 44.91 3.66
1553 2485 2.633488 GCCTATGGTCACTTTGGAGTC 58.367 52.381 0.00 0.00 32.54 3.36
1621 2553 3.700038 TCTTCTTGAGGTCCTTATCCGTC 59.300 47.826 0.00 0.00 0.00 4.79
1674 2619 3.877508 CCCGACACTTAGAAATCCAATCC 59.122 47.826 0.00 0.00 0.00 3.01
1695 2640 4.142534 GGTAAACAAGTTAAATCCCTCGCC 60.143 45.833 0.00 0.00 0.00 5.54
1723 2668 5.599242 TGATTCGGTCCTACCAACATACATA 59.401 40.000 0.00 0.00 38.47 2.29
1724 2669 4.407621 TGATTCGGTCCTACCAACATACAT 59.592 41.667 0.00 0.00 38.47 2.29
1725 2670 3.770388 TGATTCGGTCCTACCAACATACA 59.230 43.478 0.00 0.00 38.47 2.29
1726 2671 4.395959 TGATTCGGTCCTACCAACATAC 57.604 45.455 0.00 0.00 38.47 2.39
1815 2760 4.344102 TCCAGCTTATATGGCTCGTTAAGT 59.656 41.667 2.63 0.00 38.03 2.24
1901 2846 2.098607 TCGGACAAGTAAGCTGATACCG 59.901 50.000 0.00 0.00 39.30 4.02
1954 2899 6.597672 CAGCAGTAAGTACATAAAATCCACCA 59.402 38.462 0.00 0.00 0.00 4.17
1973 2918 4.142093 GCATGACCCAATAAATTCAGCAGT 60.142 41.667 0.00 0.00 0.00 4.40
1978 2923 4.608269 TCCTGCATGACCCAATAAATTCA 58.392 39.130 0.00 0.00 0.00 2.57
1979 2924 4.889409 TCTCCTGCATGACCCAATAAATTC 59.111 41.667 0.00 0.00 0.00 2.17
1980 2925 4.870636 TCTCCTGCATGACCCAATAAATT 58.129 39.130 0.00 0.00 0.00 1.82
1981 2926 4.524802 TCTCCTGCATGACCCAATAAAT 57.475 40.909 0.00 0.00 0.00 1.40
1982 2927 4.018506 TCTTCTCCTGCATGACCCAATAAA 60.019 41.667 0.00 0.00 0.00 1.40
1983 2928 3.523157 TCTTCTCCTGCATGACCCAATAA 59.477 43.478 0.00 0.00 0.00 1.40
1984 2929 3.114606 TCTTCTCCTGCATGACCCAATA 58.885 45.455 0.00 0.00 0.00 1.90
1985 2930 1.918262 TCTTCTCCTGCATGACCCAAT 59.082 47.619 0.00 0.00 0.00 3.16
1986 2931 1.280133 CTCTTCTCCTGCATGACCCAA 59.720 52.381 0.00 0.00 0.00 4.12
2075 3020 0.181114 AAGCACCAGCAACAGACTCA 59.819 50.000 0.00 0.00 45.49 3.41
2102 3047 6.645790 AGCATTTGATTATTCTCATCACCC 57.354 37.500 0.00 0.00 30.09 4.61
2328 3273 2.093075 GGACACTAGGAAGGTTAAGGCC 60.093 54.545 0.00 0.00 0.00 5.19
2333 3278 3.087031 CTGTCGGACACTAGGAAGGTTA 58.913 50.000 6.76 0.00 0.00 2.85
2337 3282 3.002451 CGATACTGTCGGACACTAGGAAG 59.998 52.174 6.76 0.00 46.47 3.46
2396 3341 3.154710 AGCATGAATGGTAGCATGATGG 58.845 45.455 20.53 9.60 43.43 3.51
2407 3352 2.232941 ACTTCCTTGCAAGCATGAATGG 59.767 45.455 21.43 10.39 31.78 3.16
2499 3445 1.486726 AGACCACTGCTAGGCCATAAC 59.513 52.381 5.01 0.00 0.00 1.89
2500 3446 1.879575 AGACCACTGCTAGGCCATAA 58.120 50.000 5.01 0.00 0.00 1.90
2502 3448 1.879575 TAAGACCACTGCTAGGCCAT 58.120 50.000 5.01 0.00 0.00 4.40
2677 3625 5.180492 CCTGTTAAAAGTTCATCGGCTACAA 59.820 40.000 0.00 0.00 0.00 2.41
2685 3633 7.025963 CAGCATCTTCCTGTTAAAAGTTCATC 58.974 38.462 0.00 0.00 0.00 2.92
2820 3768 0.248377 GATCAGCCTTCGCAACATGC 60.248 55.000 0.00 0.00 40.69 4.06
2853 3801 9.967346 TTCTCTTTGTAGAAATCTATATGTCCG 57.033 33.333 0.00 0.00 32.59 4.79
3021 3969 4.111255 AGCACCAGAGAGCTCATATCTA 57.889 45.455 17.77 0.00 34.53 1.98
3082 4030 6.749118 CAGAATCAAATTCGGAATCAAGGAAC 59.251 38.462 3.28 0.55 43.92 3.62
3111 4059 4.100529 CAGGAAAACATCGTCATGCAATC 58.899 43.478 0.00 0.00 32.57 2.67
3155 4103 8.434661 CACAAAACCTTGCATAACATTCAATAC 58.565 33.333 0.00 0.00 35.84 1.89
3163 4111 6.312426 CAGAAAACACAAAACCTTGCATAACA 59.688 34.615 0.00 0.00 35.84 2.41
3195 4143 6.151663 TGCCTAAGTACGACAAAGCATATA 57.848 37.500 0.00 0.00 0.00 0.86
3319 4267 3.132289 TCTGCCTAGGGAATTACTGAACG 59.868 47.826 11.72 0.00 0.00 3.95
3338 4286 7.878127 TCTTAATAGGACACAAGAAAAGGTCTG 59.122 37.037 0.00 0.00 36.40 3.51
3450 6097 1.133945 TGTTGCAGGCACCTAGAACAA 60.134 47.619 9.26 1.41 0.00 2.83
3453 6100 1.142870 ACTTGTTGCAGGCACCTAGAA 59.857 47.619 7.20 0.00 0.00 2.10
3462 6109 4.853924 ATGGTCTAAAACTTGTTGCAGG 57.146 40.909 0.00 0.00 0.00 4.85
3725 6374 3.466836 CCAACCTTTATCATCTAGCGCA 58.533 45.455 11.47 0.00 0.00 6.09
3728 6377 4.706842 TCCCCAACCTTTATCATCTAGC 57.293 45.455 0.00 0.00 0.00 3.42
3743 6392 1.909986 TCATCAACCGTGTATCCCCAA 59.090 47.619 0.00 0.00 0.00 4.12
3870 6519 9.428097 AGAATCCACAAAATTTGCTTATTCTTC 57.572 29.630 17.07 8.43 34.51 2.87
3886 6535 4.588528 CCTTTTCCCTCAAAGAATCCACAA 59.411 41.667 0.00 0.00 36.03 3.33
3887 6536 4.151883 CCTTTTCCCTCAAAGAATCCACA 58.848 43.478 0.00 0.00 36.03 4.17
3888 6537 3.511540 CCCTTTTCCCTCAAAGAATCCAC 59.488 47.826 0.00 0.00 36.03 4.02
3889 6538 3.778265 CCCTTTTCCCTCAAAGAATCCA 58.222 45.455 0.00 0.00 36.03 3.41
3891 6540 3.165071 TGCCCTTTTCCCTCAAAGAATC 58.835 45.455 0.00 0.00 36.03 2.52
3892 6541 3.258722 TGCCCTTTTCCCTCAAAGAAT 57.741 42.857 0.00 0.00 36.03 2.40
4117 6767 5.456548 TGTTTGTGACAGGTAGAATACGA 57.543 39.130 0.00 0.00 36.35 3.43
4228 6878 6.781507 GGGTCACCTAGATATACAGTACCTTT 59.218 42.308 0.00 0.00 0.00 3.11
4345 7002 4.624452 GCTGAAAACATGAAAGGAAGATGC 59.376 41.667 0.00 0.00 0.00 3.91
4613 7270 4.163458 TGGGGTATCTACAGCGAAGATTTT 59.837 41.667 4.22 0.00 35.36 1.82
4641 7298 9.331282 GCTCTACAATATGAACTGGAGTTTAAT 57.669 33.333 0.00 0.00 38.56 1.40
4649 7307 6.920758 GTCTAGTGCTCTACAATATGAACTGG 59.079 42.308 0.00 0.00 0.00 4.00
4674 7332 1.089920 GGTGTATGTGCAGCAGAAGG 58.910 55.000 0.00 0.00 36.91 3.46
4706 7373 1.066114 GTCGCTCAGTTTCGTCGGAG 61.066 60.000 0.00 0.00 33.91 4.63
4751 7418 4.067896 GGAGTATAATGTGGTGATGGCAG 58.932 47.826 0.00 0.00 0.00 4.85
4771 7438 0.687354 GGCTTCTGTTCCTGACTGGA 59.313 55.000 0.00 0.00 44.51 3.86
4772 7439 0.322008 GGGCTTCTGTTCCTGACTGG 60.322 60.000 0.00 0.00 37.10 4.00
4773 7440 0.397941 TGGGCTTCTGTTCCTGACTG 59.602 55.000 0.00 0.00 0.00 3.51
4780 7447 3.569701 TGAAGAATGTTGGGCTTCTGTTC 59.430 43.478 0.00 0.00 38.96 3.18
4812 7479 3.384146 TGCACTGAAATGTGGTCACAAAT 59.616 39.130 7.92 0.17 45.41 2.32
4861 7587 1.955080 TGTCAATGATGTGCAGTGCAA 59.045 42.857 21.67 10.86 42.08 4.08
4883 7610 3.119316 AGTCTGGAGATTCATGACACGAC 60.119 47.826 0.00 0.65 0.00 4.34
4886 7613 3.196469 TGGAGTCTGGAGATTCATGACAC 59.804 47.826 0.00 0.00 33.10 3.67
4889 7616 3.036819 CCTGGAGTCTGGAGATTCATGA 58.963 50.000 0.00 0.00 33.10 3.07
4890 7617 2.485124 GCCTGGAGTCTGGAGATTCATG 60.485 54.545 0.00 0.00 33.10 3.07
4891 7618 1.767681 GCCTGGAGTCTGGAGATTCAT 59.232 52.381 0.00 0.00 33.10 2.57
4892 7619 1.198713 GCCTGGAGTCTGGAGATTCA 58.801 55.000 0.00 0.00 33.10 2.57
4893 7620 1.138661 CTGCCTGGAGTCTGGAGATTC 59.861 57.143 0.00 0.00 34.32 2.52
4894 7621 1.202330 CTGCCTGGAGTCTGGAGATT 58.798 55.000 0.00 0.00 34.32 2.40
4895 7622 1.336632 GCTGCCTGGAGTCTGGAGAT 61.337 60.000 0.00 0.00 34.32 2.75
4896 7623 1.986757 GCTGCCTGGAGTCTGGAGA 60.987 63.158 0.00 0.00 34.32 3.71
4897 7624 2.583520 GCTGCCTGGAGTCTGGAG 59.416 66.667 0.00 0.64 34.32 3.86
4898 7625 3.385384 CGCTGCCTGGAGTCTGGA 61.385 66.667 0.00 0.00 34.32 3.86
4899 7626 4.463879 CCGCTGCCTGGAGTCTGG 62.464 72.222 0.00 0.00 35.38 3.86
4900 7627 3.699894 ACCGCTGCCTGGAGTCTG 61.700 66.667 0.00 0.00 0.00 3.51
4901 7628 3.699894 CACCGCTGCCTGGAGTCT 61.700 66.667 0.00 0.00 0.00 3.24
4902 7629 4.767255 CCACCGCTGCCTGGAGTC 62.767 72.222 0.00 0.00 0.00 3.36
4919 7646 2.710902 GGGCCGGTCAAATCAAGCC 61.711 63.158 9.07 0.00 39.73 4.35
4920 7647 2.710902 GGGGCCGGTCAAATCAAGC 61.711 63.158 9.07 0.00 0.00 4.01
4928 7655 4.954118 AGTGACAGGGGCCGGTCA 62.954 66.667 21.42 21.42 45.81 4.02
4937 7664 2.033141 CCACAGCCCAGTGACAGG 59.967 66.667 3.37 0.00 42.05 4.00
4938 7665 2.033141 CCCACAGCCCAGTGACAG 59.967 66.667 3.37 0.00 42.05 3.51
4939 7666 4.269523 GCCCACAGCCCAGTGACA 62.270 66.667 3.37 0.00 42.05 3.58
4940 7667 2.124507 TTAGCCCACAGCCCAGTGAC 62.125 60.000 3.37 0.00 45.47 3.67
4941 7668 1.422977 TTTAGCCCACAGCCCAGTGA 61.423 55.000 3.37 0.00 45.47 3.41
4942 7669 1.074775 TTTAGCCCACAGCCCAGTG 59.925 57.895 0.00 0.00 45.47 3.66
4943 7670 1.074951 GTTTAGCCCACAGCCCAGT 59.925 57.895 0.00 0.00 45.47 4.00
4944 7671 1.678970 GGTTTAGCCCACAGCCCAG 60.679 63.158 0.00 0.00 45.47 4.45
4945 7672 2.438795 GGTTTAGCCCACAGCCCA 59.561 61.111 0.00 0.00 45.47 5.36
4954 7681 0.678048 CCTGCTGAGTGGGTTTAGCC 60.678 60.000 0.00 0.00 35.36 3.93
4955 7682 0.324943 TCCTGCTGAGTGGGTTTAGC 59.675 55.000 0.00 0.00 36.72 3.09
4956 7683 2.636830 CATCCTGCTGAGTGGGTTTAG 58.363 52.381 0.00 0.00 0.00 1.85
4957 7684 1.281867 CCATCCTGCTGAGTGGGTTTA 59.718 52.381 6.39 0.00 0.00 2.01
4958 7685 0.038744 CCATCCTGCTGAGTGGGTTT 59.961 55.000 6.39 0.00 0.00 3.27
4959 7686 0.842030 TCCATCCTGCTGAGTGGGTT 60.842 55.000 12.09 0.00 32.58 4.11
4960 7687 0.622738 ATCCATCCTGCTGAGTGGGT 60.623 55.000 12.09 4.79 32.58 4.51
4961 7688 0.179026 CATCCATCCTGCTGAGTGGG 60.179 60.000 12.09 0.94 32.58 4.61
4962 7689 0.818445 GCATCCATCCTGCTGAGTGG 60.818 60.000 7.57 7.57 36.68 4.00
4963 7690 1.158484 CGCATCCATCCTGCTGAGTG 61.158 60.000 0.00 0.00 37.48 3.51
4966 7693 2.203112 GCGCATCCATCCTGCTGA 60.203 61.111 0.30 0.00 37.48 4.26
4994 7721 1.444119 GACCAGGCAAACAACGCAGA 61.444 55.000 0.00 0.00 0.00 4.26
5219 7965 2.227149 GTCGACTTGCCCGGTAAAATTT 59.773 45.455 8.70 0.00 0.00 1.82
5301 8048 2.692557 AGTGAAGATCTGATCTGGGACG 59.307 50.000 20.20 0.00 40.13 4.79
5352 8099 0.698238 TCCCACCACTTTATGCTGCT 59.302 50.000 0.00 0.00 0.00 4.24
5393 8141 8.099364 AGTTATTTCTTGTGTTGTGTATGAGG 57.901 34.615 0.00 0.00 0.00 3.86
5448 8196 0.250166 ACGTTTCTCCACCCTTTCCG 60.250 55.000 0.00 0.00 0.00 4.30
5454 8202 2.353323 GTAATCCACGTTTCTCCACCC 58.647 52.381 0.00 0.00 0.00 4.61
5456 8204 2.353323 GGGTAATCCACGTTTCTCCAC 58.647 52.381 0.00 0.00 35.00 4.02
5476 8224 4.082026 ACAAATAGCTGCAAAGGCTTTAGG 60.082 41.667 12.95 2.36 40.74 2.69
5488 8249 3.585748 TCGCGAATTACAAATAGCTGC 57.414 42.857 6.20 0.00 0.00 5.25
5540 8301 2.754012 TTTCCCCATAGCAATCCTGG 57.246 50.000 0.00 0.00 0.00 4.45
5552 8313 6.591750 TTCTTACGCAATTAATTTTCCCCA 57.408 33.333 0.00 0.00 0.00 4.96
5553 8314 7.762159 TCATTTCTTACGCAATTAATTTTCCCC 59.238 33.333 0.00 0.00 0.00 4.81


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

AutoCloner maintained by Alex Coulton.