Multiple sequence alignment - TraesCS2A01G374500

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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 TraesCS2A01G374500 chr2A 100.000 6255 0 0 1 6255 617633195 617639449 0.000000e+00 11551.0
1 TraesCS2A01G374500 chr2A 81.921 177 30 2 3133 3309 691532882 691532708 1.400000e-31 148.0
2 TraesCS2A01G374500 chr2D 95.919 2279 68 13 3994 6255 475079228 475081498 0.000000e+00 3670.0
3 TraesCS2A01G374500 chr2D 89.828 2389 152 29 764 3134 475076912 475079227 0.000000e+00 2981.0
4 TraesCS2A01G374500 chr2D 92.940 864 50 3 3143 3995 642503685 642504548 0.000000e+00 1247.0
5 TraesCS2A01G374500 chr2D 89.195 472 49 2 2 471 474926733 474927204 6.990000e-164 588.0
6 TraesCS2A01G374500 chr2B 91.338 2355 154 20 796 3134 556186218 556188538 0.000000e+00 3173.0
7 TraesCS2A01G374500 chr2B 94.254 1601 68 12 3994 5575 556188539 556190134 0.000000e+00 2425.0
8 TraesCS2A01G374500 chr2B 90.252 636 35 13 5641 6253 556190146 556190777 0.000000e+00 806.0
9 TraesCS2A01G374500 chr2B 90.713 603 46 9 1 598 556184026 556184623 0.000000e+00 795.0
10 TraesCS2A01G374500 chr2B 89.130 138 12 3 5593 5728 141562302 141562166 1.080000e-37 169.0
11 TraesCS2A01G374500 chr2B 95.050 101 2 3 2832 2931 136175708 136175806 8.400000e-34 156.0
12 TraesCS2A01G374500 chr2B 96.739 92 3 0 2838 2929 494265171 494265080 3.020000e-33 154.0
13 TraesCS2A01G374500 chr2B 86.861 137 16 2 5590 5724 601696006 601696142 1.090000e-32 152.0
14 TraesCS2A01G374500 chr2B 84.615 130 17 3 2620 2747 556186768 556186896 6.580000e-25 126.0
15 TraesCS2A01G374500 chr3A 98.611 864 12 0 3133 3996 451142046 451141183 0.000000e+00 1530.0
16 TraesCS2A01G374500 chr3A 90.068 886 59 13 3133 3996 63902150 63903028 0.000000e+00 1122.0
17 TraesCS2A01G374500 chr4A 89.764 889 63 11 3130 3996 405574626 405575508 0.000000e+00 1112.0
18 TraesCS2A01G374500 chr4A 93.373 166 11 0 578 743 362067911 362068076 4.840000e-61 246.0
19 TraesCS2A01G374500 chr4A 87.591 137 15 2 5590 5724 30742750 30742886 2.330000e-34 158.0
20 TraesCS2A01G374500 chr4A 87.500 136 17 0 5593 5728 296323934 296323799 2.330000e-34 158.0
21 TraesCS2A01G374500 chr5D 89.536 841 60 10 3133 3950 224873220 224874055 0.000000e+00 1040.0
22 TraesCS2A01G374500 chr5D 88.735 648 35 5 3135 3769 485357581 485356959 0.000000e+00 758.0
23 TraesCS2A01G374500 chr5D 89.450 218 20 2 3763 3977 485355783 485355566 7.990000e-69 272.0
24 TraesCS2A01G374500 chr5D 81.364 220 32 9 3780 3995 332370447 332370661 3.000000e-38 171.0
25 TraesCS2A01G374500 chr3B 94.083 169 10 0 574 742 571752521 571752689 2.240000e-64 257.0
26 TraesCS2A01G374500 chr3B 88.945 199 18 3 568 762 623148353 623148155 6.260000e-60 243.0
27 TraesCS2A01G374500 chr3B 81.308 214 33 7 3784 3994 800136025 800135816 3.880000e-37 167.0
28 TraesCS2A01G374500 chr7A 92.697 178 12 1 578 755 6316831 6316655 8.050000e-64 255.0
29 TraesCS2A01G374500 chr7A 90.761 184 17 0 559 742 653001623 653001806 4.840000e-61 246.0
30 TraesCS2A01G374500 chr7A 82.243 214 31 6 3784 3995 555645937 555646145 1.790000e-40 178.0
31 TraesCS2A01G374500 chr7A 91.589 107 4 5 2823 2929 678180049 678180150 6.540000e-30 143.0
32 TraesCS2A01G374500 chr4B 93.143 175 11 1 574 748 80990817 80990644 8.050000e-64 255.0
33 TraesCS2A01G374500 chr4B 92.090 177 12 2 578 754 629947390 629947564 1.350000e-61 248.0
34 TraesCS2A01G374500 chr4B 87.857 140 15 2 5590 5727 22464747 22464608 5.020000e-36 163.0
35 TraesCS2A01G374500 chr1D 90.306 196 13 5 550 742 238940408 238940216 1.040000e-62 252.0
36 TraesCS2A01G374500 chr1D 82.967 182 29 2 3133 3314 12203795 12203616 5.020000e-36 163.0
37 TraesCS2A01G374500 chr1D 87.770 139 16 1 5593 5731 7349834 7349697 1.800000e-35 161.0
38 TraesCS2A01G374500 chr5A 91.667 180 12 2 578 757 640948093 640948269 4.840000e-61 246.0
39 TraesCS2A01G374500 chr7B 95.833 96 2 2 2830 2924 639796189 639796283 3.020000e-33 154.0
40 TraesCS2A01G374500 chr7B 87.603 121 10 5 2839 2958 529956384 529956268 1.090000e-27 135.0
41 TraesCS2A01G374500 chr3D 86.429 140 17 2 5586 5724 535782532 535782670 1.090000e-32 152.0
42 TraesCS2A01G374500 chr4D 92.381 105 5 3 2834 2935 346136059 346136163 5.050000e-31 147.0
43 TraesCS2A01G374500 chr4D 80.791 177 32 2 3133 3309 384958660 384958486 3.040000e-28 137.0
44 TraesCS2A01G374500 chr7D 90.909 110 6 4 2836 2943 195626093 195626200 1.820000e-30 145.0
45 TraesCS2A01G374500 chr7D 91.589 107 4 5 2823 2929 586920301 586920402 6.540000e-30 143.0
46 TraesCS2A01G374500 chr6D 95.000 40 2 0 5986 6025 431056186 431056147 5.230000e-06 63.9


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 TraesCS2A01G374500 chr2A 617633195 617639449 6254 False 11551.0 11551 100.0000 1 6255 1 chr2A.!!$F1 6254
1 TraesCS2A01G374500 chr2D 475076912 475081498 4586 False 3325.5 3670 92.8735 764 6255 2 chr2D.!!$F3 5491
2 TraesCS2A01G374500 chr2D 642503685 642504548 863 False 1247.0 1247 92.9400 3143 3995 1 chr2D.!!$F2 852
3 TraesCS2A01G374500 chr2B 556184026 556190777 6751 False 1465.0 3173 90.2344 1 6253 5 chr2B.!!$F3 6252
4 TraesCS2A01G374500 chr3A 451141183 451142046 863 True 1530.0 1530 98.6110 3133 3996 1 chr3A.!!$R1 863
5 TraesCS2A01G374500 chr3A 63902150 63903028 878 False 1122.0 1122 90.0680 3133 3996 1 chr3A.!!$F1 863
6 TraesCS2A01G374500 chr4A 405574626 405575508 882 False 1112.0 1112 89.7640 3130 3996 1 chr4A.!!$F3 866
7 TraesCS2A01G374500 chr5D 224873220 224874055 835 False 1040.0 1040 89.5360 3133 3950 1 chr5D.!!$F1 817
8 TraesCS2A01G374500 chr5D 485355566 485357581 2015 True 515.0 758 89.0925 3135 3977 2 chr5D.!!$R1 842

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
105 106 0.034756 TACTGGCATCGCAACACTGT 59.965 50.000 0.0 0.0 0.00 3.55 F
330 332 0.098728 GGCGGATTGAACAACATCGG 59.901 55.000 0.0 0.0 0.00 4.18 F
2150 3652 0.044855 AGCAGGTTGGAGGGTCCTAT 59.955 55.000 0.0 0.0 37.46 2.57 F
2647 4149 2.168496 CTACCCGAAGTCCACAAGAGA 58.832 52.381 0.0 0.0 0.00 3.10 F
4016 6737 3.074412 TCTCGAAATTTGGGAAGTGAGC 58.926 45.455 0.0 0.0 0.00 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1926 3428 0.613260 ACATGTGGTACGGCAGACAT 59.387 50.000 0.00 0.00 0.00 3.06 R
2158 3660 1.004277 GTTCCTGGAGTAATGCCCACA 59.996 52.381 0.00 0.00 0.00 4.17 R
3047 4557 1.267806 ACATGCTGCTTGAACCTTTCG 59.732 47.619 20.66 0.00 0.00 3.46 R
4475 7200 2.271944 ACACCCTGAAAGTTGGTAGC 57.728 50.000 0.00 0.00 26.75 3.58 R
5346 8087 0.719015 AGGAATGGACCTCCTGGAGA 59.281 55.000 25.18 5.22 41.96 3.71 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
32 33 1.741706 CCTGCCTTTGTAGCTCATGTG 59.258 52.381 0.00 0.00 0.00 3.21
46 47 0.320073 CATGTGCCCAACCTTTGCAG 60.320 55.000 0.00 0.00 35.33 4.41
51 52 2.336088 CCAACCTTTGCAGCACCG 59.664 61.111 0.00 0.00 0.00 4.94
105 106 0.034756 TACTGGCATCGCAACACTGT 59.965 50.000 0.00 0.00 0.00 3.55
134 135 2.332654 GGTTGCCTACCTTGCACCG 61.333 63.158 0.00 0.00 44.10 4.94
147 149 2.097038 GCACCGTCTAGCAGCACTG 61.097 63.158 0.00 0.00 0.00 3.66
156 158 2.176314 TAGCAGCACTGGCCTCACAG 62.176 60.000 3.32 0.00 42.56 3.66
169 171 4.994471 CACAGCAGCGGCCACTCA 62.994 66.667 4.82 0.00 42.56 3.41
197 199 4.116328 CGACTCGAGGCGGCTTCA 62.116 66.667 33.03 1.19 0.00 3.02
212 214 1.876416 GCTTCACGTGCCTCTGGTTTA 60.876 52.381 11.67 0.00 0.00 2.01
213 215 1.798813 CTTCACGTGCCTCTGGTTTAC 59.201 52.381 11.67 0.00 0.00 2.01
215 217 1.139256 TCACGTGCCTCTGGTTTACAA 59.861 47.619 11.67 0.00 0.00 2.41
221 223 2.037902 TGCCTCTGGTTTACAACATCGA 59.962 45.455 0.00 0.00 0.00 3.59
222 224 3.270877 GCCTCTGGTTTACAACATCGAT 58.729 45.455 0.00 0.00 0.00 3.59
270 272 0.820226 CGAAGGATGAGTGAGAGGCA 59.180 55.000 0.00 0.00 0.00 4.75
311 313 0.107993 ACGATGATGAGGTGGCAGTG 60.108 55.000 0.00 0.00 0.00 3.66
323 325 1.971167 GGCAGTGGCGGATTGAACA 60.971 57.895 0.00 0.00 42.47 3.18
330 332 0.098728 GGCGGATTGAACAACATCGG 59.901 55.000 0.00 0.00 0.00 4.18
348 350 4.496927 CGGCCGGCTTGCAAATCC 62.497 66.667 28.56 4.75 0.00 3.01
352 354 1.745115 CCGGCTTGCAAATCCTCGA 60.745 57.895 13.56 0.00 27.47 4.04
375 377 1.219393 GTGGGGGAGAAGAGAAGCG 59.781 63.158 0.00 0.00 0.00 4.68
376 378 1.990060 TGGGGGAGAAGAGAAGCGG 60.990 63.158 0.00 0.00 0.00 5.52
389 393 2.167487 GAGAAGCGGGAGAAAGATGAGT 59.833 50.000 0.00 0.00 0.00 3.41
436 440 4.664688 AGAAAGAAACATGAGGGGATGT 57.335 40.909 0.00 0.00 38.23 3.06
438 442 2.814805 AGAAACATGAGGGGATGTGG 57.185 50.000 0.00 0.00 36.66 4.17
442 446 1.303948 CATGAGGGGATGTGGCACA 59.696 57.895 24.36 24.36 0.00 4.57
496 500 2.355363 TGGACCAACGAGAACGCG 60.355 61.111 3.53 3.53 43.96 6.01
499 503 2.355481 ACCAACGAGAACGCGGAC 60.355 61.111 12.47 3.49 43.96 4.79
530 534 4.141959 CCGATTGGGCTCATTTACCATTTT 60.142 41.667 0.00 0.00 33.63 1.82
531 535 4.805192 CGATTGGGCTCATTTACCATTTTG 59.195 41.667 0.00 0.00 33.63 2.44
532 536 5.624281 CGATTGGGCTCATTTACCATTTTGT 60.624 40.000 0.00 0.00 33.63 2.83
533 537 6.405286 CGATTGGGCTCATTTACCATTTTGTA 60.405 38.462 0.00 0.00 33.63 2.41
537 541 4.439563 GGCTCATTTACCATTTTGTACCGG 60.440 45.833 0.00 0.00 0.00 5.28
538 542 4.396790 GCTCATTTACCATTTTGTACCGGA 59.603 41.667 9.46 0.00 0.00 5.14
539 543 5.675323 GCTCATTTACCATTTTGTACCGGAC 60.675 44.000 9.46 2.18 0.00 4.79
540 544 4.392445 TCATTTACCATTTTGTACCGGACG 59.608 41.667 9.46 0.00 0.00 4.79
544 548 3.414269 ACCATTTTGTACCGGACGATTT 58.586 40.909 9.46 0.00 0.00 2.17
602 606 9.901172 ATACTTCCTCCGTTTCTAAATATTTGT 57.099 29.630 11.05 0.00 0.00 2.83
604 608 8.101419 ACTTCCTCCGTTTCTAAATATTTGTCT 58.899 33.333 11.05 0.00 0.00 3.41
607 611 8.943002 TCCTCCGTTTCTAAATATTTGTCTTTC 58.057 33.333 11.05 0.00 0.00 2.62
632 636 8.790718 TCTAGAGATTTCAACAAGTAACTACGT 58.209 33.333 0.00 0.00 0.00 3.57
634 638 8.739649 AGAGATTTCAACAAGTAACTACGTAC 57.260 34.615 0.00 0.00 0.00 3.67
635 639 7.536622 AGAGATTTCAACAAGTAACTACGTACG 59.463 37.037 15.01 15.01 0.00 3.67
636 640 6.583806 AGATTTCAACAAGTAACTACGTACGG 59.416 38.462 21.06 5.00 0.00 4.02
637 641 5.431420 TTCAACAAGTAACTACGTACGGA 57.569 39.130 21.06 10.81 0.00 4.69
638 642 5.034554 TCAACAAGTAACTACGTACGGAG 57.965 43.478 25.90 25.90 0.00 4.63
641 645 3.253188 ACAAGTAACTACGTACGGAGCAA 59.747 43.478 27.33 12.78 0.00 3.91
642 646 4.229096 CAAGTAACTACGTACGGAGCAAA 58.771 43.478 27.33 10.10 0.00 3.68
645 649 4.860907 AGTAACTACGTACGGAGCAAAATG 59.139 41.667 27.33 3.03 0.00 2.32
646 650 3.581024 ACTACGTACGGAGCAAAATGA 57.419 42.857 27.33 0.00 0.00 2.57
647 651 3.508762 ACTACGTACGGAGCAAAATGAG 58.491 45.455 27.33 1.42 0.00 2.90
648 652 2.450609 ACGTACGGAGCAAAATGAGT 57.549 45.000 21.06 0.00 0.00 3.41
649 653 3.581024 ACGTACGGAGCAAAATGAGTA 57.419 42.857 21.06 0.00 0.00 2.59
650 654 3.916761 ACGTACGGAGCAAAATGAGTAA 58.083 40.909 21.06 0.00 0.00 2.24
651 655 4.309099 ACGTACGGAGCAAAATGAGTAAA 58.691 39.130 21.06 0.00 0.00 2.01
652 656 4.933400 ACGTACGGAGCAAAATGAGTAAAT 59.067 37.500 21.06 0.00 0.00 1.40
653 657 5.063060 ACGTACGGAGCAAAATGAGTAAATC 59.937 40.000 21.06 0.00 0.00 2.17
654 658 5.291128 CGTACGGAGCAAAATGAGTAAATCT 59.709 40.000 7.57 0.00 0.00 2.40
655 659 6.474427 CGTACGGAGCAAAATGAGTAAATCTA 59.526 38.462 7.57 0.00 0.00 1.98
656 660 6.663944 ACGGAGCAAAATGAGTAAATCTAC 57.336 37.500 0.00 0.00 0.00 2.59
657 661 6.170506 ACGGAGCAAAATGAGTAAATCTACA 58.829 36.000 0.00 0.00 0.00 2.74
658 662 6.092259 ACGGAGCAAAATGAGTAAATCTACAC 59.908 38.462 0.00 0.00 0.00 2.90
659 663 6.313905 CGGAGCAAAATGAGTAAATCTACACT 59.686 38.462 0.00 0.00 0.00 3.55
660 664 7.148407 CGGAGCAAAATGAGTAAATCTACACTT 60.148 37.037 0.00 0.00 0.00 3.16
661 665 8.515414 GGAGCAAAATGAGTAAATCTACACTTT 58.485 33.333 0.00 0.00 0.00 2.66
694 698 9.990868 TGTCTATATACATCCATATGTGGTAGT 57.009 33.333 8.51 10.44 45.99 2.73
696 700 9.642343 TCTATATACATCCATATGTGGTAGTCC 57.358 37.037 8.51 0.00 45.99 3.85
697 701 9.421399 CTATATACATCCATATGTGGTAGTCCA 57.579 37.037 8.51 1.36 45.99 4.02
698 702 8.860517 ATATACATCCATATGTGGTAGTCCAT 57.139 34.615 8.51 3.29 45.99 3.41
699 703 5.912149 ACATCCATATGTGGTAGTCCATT 57.088 39.130 8.51 0.00 44.79 3.16
700 704 6.266131 ACATCCATATGTGGTAGTCCATTT 57.734 37.500 8.51 0.00 44.79 2.32
701 705 6.064060 ACATCCATATGTGGTAGTCCATTTG 58.936 40.000 8.51 0.00 44.79 2.32
702 706 5.966853 TCCATATGTGGTAGTCCATTTGA 57.033 39.130 8.51 0.00 46.20 2.69
703 707 6.320434 TCCATATGTGGTAGTCCATTTGAA 57.680 37.500 8.51 0.00 46.20 2.69
704 708 6.726379 TCCATATGTGGTAGTCCATTTGAAA 58.274 36.000 8.51 0.00 46.20 2.69
705 709 7.353525 TCCATATGTGGTAGTCCATTTGAAAT 58.646 34.615 8.51 0.00 46.20 2.17
706 710 7.502226 TCCATATGTGGTAGTCCATTTGAAATC 59.498 37.037 8.51 0.00 46.20 2.17
707 711 7.503566 CCATATGTGGTAGTCCATTTGAAATCT 59.496 37.037 0.00 0.00 46.20 2.40
708 712 8.906867 CATATGTGGTAGTCCATTTGAAATCTT 58.093 33.333 0.00 0.00 46.20 2.40
709 713 7.781324 ATGTGGTAGTCCATTTGAAATCTTT 57.219 32.000 0.00 0.00 46.20 2.52
710 714 8.877864 ATGTGGTAGTCCATTTGAAATCTTTA 57.122 30.769 0.00 0.00 46.20 1.85
711 715 8.698973 TGTGGTAGTCCATTTGAAATCTTTAA 57.301 30.769 0.00 0.00 46.20 1.52
712 716 9.137459 TGTGGTAGTCCATTTGAAATCTTTAAA 57.863 29.630 0.00 0.00 46.20 1.52
713 717 9.974980 GTGGTAGTCCATTTGAAATCTTTAAAA 57.025 29.630 0.00 0.00 46.20 1.52
752 756 5.263968 ACGGATGGAGTAACTAACAGATG 57.736 43.478 0.00 0.00 0.00 2.90
758 762 8.643324 GGATGGAGTAACTAACAGATGTAAGAT 58.357 37.037 0.00 0.00 0.00 2.40
759 763 9.469807 GATGGAGTAACTAACAGATGTAAGATG 57.530 37.037 0.00 0.00 0.00 2.90
760 764 8.362464 TGGAGTAACTAACAGATGTAAGATGT 57.638 34.615 0.00 0.00 0.00 3.06
761 765 8.812972 TGGAGTAACTAACAGATGTAAGATGTT 58.187 33.333 0.00 0.00 40.17 2.71
762 766 9.303537 GGAGTAACTAACAGATGTAAGATGTTC 57.696 37.037 0.00 0.00 38.14 3.18
815 2303 4.441792 ACAGAAAAGAAAACCAACATGCC 58.558 39.130 0.00 0.00 0.00 4.40
816 2304 3.809279 CAGAAAAGAAAACCAACATGCCC 59.191 43.478 0.00 0.00 0.00 5.36
833 2325 1.327303 CCCTTTTGCTAACTGTGCCA 58.673 50.000 0.00 0.00 0.00 4.92
876 2368 0.464036 TCCACATTAGCTAGCCACCG 59.536 55.000 12.13 0.25 0.00 4.94
891 2383 2.281761 CCGCCAAACTGACAGCCT 60.282 61.111 1.25 0.00 0.00 4.58
892 2384 1.898574 CCGCCAAACTGACAGCCTT 60.899 57.895 1.25 0.00 0.00 4.35
897 2389 1.269413 CCAAACTGACAGCCTTGCAAG 60.269 52.381 19.93 19.93 0.00 4.01
936 2432 1.001760 GTCTACCTCCCCTGCCTCA 59.998 63.158 0.00 0.00 0.00 3.86
1025 2521 2.202570 GTCCGCGCGCTTCTTCTA 60.203 61.111 30.48 3.06 0.00 2.10
1031 2527 0.855995 GCGCGCTTCTTCTATTCCTC 59.144 55.000 26.67 0.00 0.00 3.71
1061 2557 3.660669 TCCAGGAAGGGTTGGTAATCTTT 59.339 43.478 0.00 0.00 38.24 2.52
1079 2575 1.063654 TTCCTCCAAGTTTCCCCCGT 61.064 55.000 0.00 0.00 0.00 5.28
1082 2578 1.074244 CCTCCAAGTTTCCCCCGTTTA 59.926 52.381 0.00 0.00 0.00 2.01
1405 2902 8.996651 AGATTAACAAAAGAAGAAAGAAGGGA 57.003 30.769 0.00 0.00 0.00 4.20
1427 2924 4.911390 ACAGGGTAGAGGAATTTGTTGAG 58.089 43.478 0.00 0.00 0.00 3.02
1445 2942 4.931661 TGAGAAGTAAGTCAAACTCGGT 57.068 40.909 0.00 0.00 0.00 4.69
1448 2945 4.872664 AGAAGTAAGTCAAACTCGGTCTG 58.127 43.478 0.00 0.00 0.00 3.51
1475 2972 8.286097 GCCAGCATTTCTAACTCTATTATTGTC 58.714 37.037 0.00 0.00 0.00 3.18
1527 3024 6.369065 GCTGCCTTTGTATATAGCGAATTACT 59.631 38.462 0.00 0.00 0.00 2.24
1528 3025 7.544566 GCTGCCTTTGTATATAGCGAATTACTA 59.455 37.037 0.00 0.00 0.00 1.82
1529 3026 8.752766 TGCCTTTGTATATAGCGAATTACTAC 57.247 34.615 0.00 0.00 0.00 2.73
1561 3058 1.608590 AGTCATTGCCTTCCACAAACG 59.391 47.619 0.00 0.00 0.00 3.60
1587 3084 5.801947 GCTAATCAACCATACTTTGCAACTG 59.198 40.000 0.00 0.00 0.00 3.16
1629 3126 3.436704 TGCTAGCTTCAAAACAATCCTCG 59.563 43.478 17.23 0.00 0.00 4.63
1651 3148 9.463443 CCTCGTCAAATTTTAAATTTTGAGACT 57.537 29.630 26.73 2.20 41.20 3.24
1714 3211 3.085952 TGGTGCAGGAAATTTAGGGAG 57.914 47.619 0.00 0.00 0.00 4.30
1721 3218 4.636249 CAGGAAATTTAGGGAGGATCTCG 58.364 47.826 0.00 0.00 43.84 4.04
1808 3305 5.061179 TCCTTTAGCTTGTTTCCACTGTAC 58.939 41.667 0.00 0.00 0.00 2.90
1809 3306 5.063880 CCTTTAGCTTGTTTCCACTGTACT 58.936 41.667 0.00 0.00 0.00 2.73
1817 3314 6.151144 GCTTGTTTCCACTGTACTTATCCATT 59.849 38.462 0.00 0.00 0.00 3.16
1907 3406 2.951229 ACTGTTTCCCGGTCAAGAAT 57.049 45.000 0.00 0.00 0.00 2.40
1926 3428 7.771361 TCAAGAATAAAACATCCGGCTGTATAA 59.229 33.333 12.07 0.12 0.00 0.98
1929 3431 7.719633 AGAATAAAACATCCGGCTGTATAATGT 59.280 33.333 12.07 3.99 32.15 2.71
2150 3652 0.044855 AGCAGGTTGGAGGGTCCTAT 59.955 55.000 0.00 0.00 37.46 2.57
2158 3660 4.346127 GGTTGGAGGGTCCTATTACGTATT 59.654 45.833 0.00 0.00 37.46 1.89
2159 3661 5.295152 GTTGGAGGGTCCTATTACGTATTG 58.705 45.833 0.00 0.00 37.46 1.90
2194 3696 4.884668 AGGAACTGGAGTACAATTCGAA 57.115 40.909 0.00 0.00 37.18 3.71
2195 3697 4.822026 AGGAACTGGAGTACAATTCGAAG 58.178 43.478 3.35 0.00 37.18 3.79
2306 3808 5.763876 ATTGCAGAAACCCTACTCTAACT 57.236 39.130 0.00 0.00 0.00 2.24
2343 3845 6.676950 TGTTCATGTTGTTAGTTATTGCCAG 58.323 36.000 0.00 0.00 0.00 4.85
2357 3859 7.168219 AGTTATTGCCAGTTTGATCTCTTACA 58.832 34.615 0.00 0.00 0.00 2.41
2385 3887 3.328050 GGCAGGGCCTATCTTATAGTGTT 59.672 47.826 5.28 0.00 46.69 3.32
2389 3891 6.295916 GCAGGGCCTATCTTATAGTGTTGTAT 60.296 42.308 5.28 0.00 0.00 2.29
2474 3976 7.919690 TCTGTGCATGCTAAAATCATAAGTAC 58.080 34.615 20.33 3.64 0.00 2.73
2484 3986 7.065443 GCTAAAATCATAAGTACCGGTTGAACT 59.935 37.037 15.04 7.75 0.00 3.01
2491 3993 7.546667 TCATAAGTACCGGTTGAACTTTGATAC 59.453 37.037 22.77 7.04 35.23 2.24
2501 4003 6.640907 GGTTGAACTTTGATACATGTTTCCAC 59.359 38.462 2.30 1.87 0.00 4.02
2523 4025 6.036083 CCACTGGTATACTATCATAATTGCGC 59.964 42.308 0.00 0.00 0.00 6.09
2525 4027 7.973944 CACTGGTATACTATCATAATTGCGCTA 59.026 37.037 9.73 0.00 0.00 4.26
2616 4118 6.430925 TGAGAATATGAACACCCTTCTTTGTG 59.569 38.462 0.00 0.00 38.44 3.33
2647 4149 2.168496 CTACCCGAAGTCCACAAGAGA 58.832 52.381 0.00 0.00 0.00 3.10
2655 4157 4.151335 CGAAGTCCACAAGAGAATGACAAG 59.849 45.833 0.00 0.00 0.00 3.16
2667 4169 9.001542 CAAGAGAATGACAAGAGAAGAAAGAAT 57.998 33.333 0.00 0.00 0.00 2.40
2706 4208 7.279981 GGAATTTGTTGAAAAGTAAGCCAACTT 59.720 33.333 0.00 0.00 41.46 2.66
2765 4267 4.378046 CGGCACTTGTTATACTTTGTGTCC 60.378 45.833 0.00 0.00 0.00 4.02
2794 4296 9.780413 GCTTCCTTTTATCTAGTTTCAATCTTG 57.220 33.333 0.00 0.00 0.00 3.02
2798 4300 8.462016 CCTTTTATCTAGTTTCAATCTTGGGTG 58.538 37.037 0.00 0.00 0.00 4.61
2802 4304 5.560724 TCTAGTTTCAATCTTGGGTGAAGG 58.439 41.667 0.00 0.00 35.29 3.46
2808 4311 3.117322 TCAATCTTGGGTGAAGGTGGAAA 60.117 43.478 0.00 0.00 31.85 3.13
2852 4357 8.716674 AGAATTACATTATACTCCCTCCGTAA 57.283 34.615 0.00 0.00 0.00 3.18
2853 4358 9.151177 AGAATTACATTATACTCCCTCCGTAAA 57.849 33.333 0.00 0.00 0.00 2.01
2854 4359 9.420551 GAATTACATTATACTCCCTCCGTAAAG 57.579 37.037 0.00 0.00 0.00 1.85
2865 4370 7.953752 ACTCCCTCCGTAAAGAAATATAAGAG 58.046 38.462 0.00 0.00 0.00 2.85
2866 4371 6.756221 TCCCTCCGTAAAGAAATATAAGAGC 58.244 40.000 0.00 0.00 0.00 4.09
2867 4372 5.634020 CCCTCCGTAAAGAAATATAAGAGCG 59.366 44.000 0.00 0.00 0.00 5.03
2871 4376 9.241317 CTCCGTAAAGAAATATAAGAGCGTTTA 57.759 33.333 0.00 0.00 0.00 2.01
2873 4378 9.241317 CCGTAAAGAAATATAAGAGCGTTTAGA 57.759 33.333 0.00 0.00 0.00 2.10
2886 4391 7.393841 AGAGCGTTTAGATCACTACTTAAGT 57.606 36.000 13.68 13.68 37.82 2.24
2919 4424 7.210873 ACGCTCTTATATTTCTTTACAGAGGG 58.789 38.462 8.36 8.36 42.53 4.30
2922 4427 8.425703 GCTCTTATATTTCTTTACAGAGGGAGT 58.574 37.037 0.00 0.00 0.00 3.85
2988 4498 8.471609 TGTTTATCAGATGTAAGATTCGTACCA 58.528 33.333 7.20 0.00 0.00 3.25
3111 4621 3.763360 CACAAACATGGCTAGGATTGGAA 59.237 43.478 9.34 0.00 0.00 3.53
4016 6737 3.074412 TCTCGAAATTTGGGAAGTGAGC 58.926 45.455 0.00 0.00 0.00 4.26
4030 6751 4.084118 GGAAGTGAGCGATCTGATTTATGC 60.084 45.833 0.90 0.00 0.00 3.14
4065 6786 7.373493 ACTCAATCAGATTTTGTCATTGTTCC 58.627 34.615 0.00 0.00 0.00 3.62
4189 6913 6.418101 AGTCACATATAATTGTGCTTCACCT 58.582 36.000 2.16 0.00 45.29 4.00
4498 7223 4.765339 GCTACCAACTTTCAGGGTGTAAAT 59.235 41.667 0.00 0.00 36.14 1.40
4517 7242 8.880750 GTGTAAATGAAGAAATGGTAGTACCTC 58.119 37.037 20.07 9.64 39.58 3.85
4530 7255 7.268199 TGGTAGTACCTCATTACAGATAACG 57.732 40.000 20.07 0.00 39.58 3.18
4601 7326 4.693095 TCGTCACTGTGCATGCTTAAATAA 59.307 37.500 20.33 0.00 0.00 1.40
4630 7355 9.797642 ATATATCTCCAATTATGTTTGTGCTCA 57.202 29.630 0.00 0.00 0.00 4.26
4704 7445 7.455058 TCTAAATACTAAGCCACAACTTCCAA 58.545 34.615 0.00 0.00 0.00 3.53
4912 7653 3.628942 GGTAACGGGGTAGCTAATTTTGG 59.371 47.826 0.00 0.00 0.00 3.28
5345 8086 8.100164 TCATGACCTGAAACACAATTGTATAGA 58.900 33.333 11.53 0.00 33.55 1.98
5346 8087 8.896744 CATGACCTGAAACACAATTGTATAGAT 58.103 33.333 11.53 0.00 33.55 1.98
5357 8098 6.042552 CACAATTGTATAGATCTCCAGGAGGT 59.957 42.308 17.10 9.82 35.89 3.85
5394 8135 2.505118 GACGACGCTCCTGTCAGC 60.505 66.667 0.00 0.00 38.84 4.26
5408 8149 3.195610 CCTGTCAGCTATACAAGTCACCA 59.804 47.826 0.00 0.00 0.00 4.17
5529 8270 8.659925 TGCTCATGTTGTTTTACATTCAAATT 57.340 26.923 0.00 0.00 36.64 1.82
5538 8279 8.674263 TGTTTTACATTCAAATTTGGATGCTT 57.326 26.923 31.11 19.35 46.03 3.91
5561 8302 2.752354 GCTACCCACATATTGTGCACAA 59.248 45.455 32.78 32.78 46.51 3.33
5620 8361 6.147864 TGTTCCAACTTTTTCCTGATTCAG 57.852 37.500 6.70 6.70 0.00 3.02
5636 8377 6.971756 CCTGATTCAGATGTATATAGACGCAG 59.028 42.308 15.36 0.00 32.44 5.18
5668 8409 7.970061 TGTGCTTATTCACTTATTTCAATCTGC 59.030 33.333 0.00 0.00 37.81 4.26
6243 9009 5.730296 TGAAAACAGGGAAAGAAACAACA 57.270 34.783 0.00 0.00 0.00 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 0.737219 CATGAGCTACAAAGGCAGGC 59.263 55.000 0.00 0.00 0.00 4.85
14 15 1.167851 GCACATGAGCTACAAAGGCA 58.832 50.000 7.97 0.00 0.00 4.75
32 33 2.029518 GTGCTGCAAAGGTTGGGC 59.970 61.111 2.77 0.00 0.00 5.36
74 75 2.261671 CCAGTAGCTCGGCGTTGT 59.738 61.111 6.85 0.00 0.00 3.32
82 83 0.740868 TGTTGCGATGCCAGTAGCTC 60.741 55.000 0.00 0.00 44.23 4.09
134 135 1.153469 GAGGCCAGTGCTGCTAGAC 60.153 63.158 5.01 0.00 37.74 2.59
156 158 3.275338 GCTATGAGTGGCCGCTGC 61.275 66.667 26.87 17.43 0.00 5.25
169 171 2.203509 CGAGTCGGAGGGGGCTAT 60.204 66.667 4.10 0.00 0.00 2.97
197 199 1.589803 GTTGTAAACCAGAGGCACGT 58.410 50.000 0.00 0.00 42.21 4.49
212 214 0.036105 TGGCTGCTCATCGATGTTGT 60.036 50.000 24.09 0.00 0.00 3.32
213 215 0.656259 CTGGCTGCTCATCGATGTTG 59.344 55.000 24.09 18.27 0.00 3.33
215 217 1.523258 GCTGGCTGCTCATCGATGT 60.523 57.895 24.09 0.00 38.95 3.06
240 242 0.443869 CATCCTTCGTCCTGTTTGCG 59.556 55.000 0.00 0.00 0.00 4.85
270 272 2.347490 GACATGGTCACGCCCACT 59.653 61.111 0.00 0.00 37.31 4.00
311 313 0.098728 CCGATGTTGTTCAATCCGCC 59.901 55.000 0.00 0.00 0.00 6.13
348 350 0.618458 TTCTCCCCCACCAAATCGAG 59.382 55.000 0.00 0.00 0.00 4.04
352 354 2.059756 TCTCTTCTCCCCCACCAAAT 57.940 50.000 0.00 0.00 0.00 2.32
375 377 4.646572 ACAGTTTCACTCATCTTTCTCCC 58.353 43.478 0.00 0.00 0.00 4.30
376 378 6.625873 AAACAGTTTCACTCATCTTTCTCC 57.374 37.500 0.00 0.00 0.00 3.71
389 393 6.001460 CCTATACCAGGTCAAAACAGTTTCA 58.999 40.000 0.00 0.00 39.91 2.69
416 420 3.445096 CCACATCCCCTCATGTTTCTTTC 59.555 47.826 0.00 0.00 34.60 2.62
476 480 1.282930 GCGTTCTCGTTGGTCCACTC 61.283 60.000 0.00 0.00 39.49 3.51
496 500 2.046285 CCAATCGGCCAACTGGTCC 61.046 63.158 2.24 0.00 36.14 4.46
576 580 9.901172 ACAAATATTTAGAAACGGAGGAAGTAT 57.099 29.630 0.00 0.00 0.00 2.12
577 581 9.374838 GACAAATATTTAGAAACGGAGGAAGTA 57.625 33.333 0.00 0.00 0.00 2.24
578 582 8.101419 AGACAAATATTTAGAAACGGAGGAAGT 58.899 33.333 0.00 0.00 0.00 3.01
581 585 8.857694 AAAGACAAATATTTAGAAACGGAGGA 57.142 30.769 0.00 0.00 0.00 3.71
599 603 8.964476 ACTTGTTGAAATCTCTAGAAAGACAA 57.036 30.769 0.00 0.00 0.00 3.18
607 611 8.967552 ACGTAGTTACTTGTTGAAATCTCTAG 57.032 34.615 0.00 0.00 37.78 2.43
609 613 7.536622 CGTACGTAGTTACTTGTTGAAATCTCT 59.463 37.037 7.22 0.00 37.78 3.10
610 614 7.201299 CCGTACGTAGTTACTTGTTGAAATCTC 60.201 40.741 15.21 0.00 37.78 2.75
611 615 6.583806 CCGTACGTAGTTACTTGTTGAAATCT 59.416 38.462 15.21 0.00 37.78 2.40
612 616 6.582295 TCCGTACGTAGTTACTTGTTGAAATC 59.418 38.462 15.21 0.00 37.78 2.17
613 617 6.446318 TCCGTACGTAGTTACTTGTTGAAAT 58.554 36.000 15.21 0.00 37.78 2.17
614 618 5.826586 TCCGTACGTAGTTACTTGTTGAAA 58.173 37.500 15.21 0.00 37.78 2.69
615 619 5.431420 TCCGTACGTAGTTACTTGTTGAA 57.569 39.130 15.21 0.00 37.78 2.69
617 621 3.605486 GCTCCGTACGTAGTTACTTGTTG 59.395 47.826 15.21 0.00 37.78 3.33
618 622 3.253188 TGCTCCGTACGTAGTTACTTGTT 59.747 43.478 15.21 0.00 37.78 2.83
619 623 2.813754 TGCTCCGTACGTAGTTACTTGT 59.186 45.455 15.21 0.00 37.78 3.16
620 624 3.476295 TGCTCCGTACGTAGTTACTTG 57.524 47.619 15.21 0.00 37.78 3.16
621 625 4.503741 TTTGCTCCGTACGTAGTTACTT 57.496 40.909 15.21 0.00 37.78 2.24
622 626 4.503741 TTTTGCTCCGTACGTAGTTACT 57.496 40.909 15.21 0.00 37.78 2.24
623 627 4.858692 TCATTTTGCTCCGTACGTAGTTAC 59.141 41.667 15.21 0.00 37.78 2.50
625 629 3.916761 TCATTTTGCTCCGTACGTAGTT 58.083 40.909 15.21 0.00 37.78 2.24
627 631 3.508762 ACTCATTTTGCTCCGTACGTAG 58.491 45.455 15.21 9.26 0.00 3.51
628 632 3.581024 ACTCATTTTGCTCCGTACGTA 57.419 42.857 15.21 0.00 0.00 3.57
630 634 4.914312 TTTACTCATTTTGCTCCGTACG 57.086 40.909 8.69 8.69 0.00 3.67
632 636 7.277098 GTGTAGATTTACTCATTTTGCTCCGTA 59.723 37.037 0.00 0.00 0.00 4.02
633 637 6.092259 GTGTAGATTTACTCATTTTGCTCCGT 59.908 38.462 0.00 0.00 0.00 4.69
634 638 6.313905 AGTGTAGATTTACTCATTTTGCTCCG 59.686 38.462 0.00 0.00 0.00 4.63
635 639 7.617041 AGTGTAGATTTACTCATTTTGCTCC 57.383 36.000 0.00 0.00 0.00 4.70
713 717 9.726438 CTCCATCCGTTCCTAAATATTTATCTT 57.274 33.333 8.34 0.00 0.00 2.40
714 718 8.881262 ACTCCATCCGTTCCTAAATATTTATCT 58.119 33.333 8.34 0.00 0.00 1.98
717 721 9.768662 GTTACTCCATCCGTTCCTAAATATTTA 57.231 33.333 7.66 7.66 0.00 1.40
718 722 8.491958 AGTTACTCCATCCGTTCCTAAATATTT 58.508 33.333 5.89 5.89 0.00 1.40
719 723 8.030913 AGTTACTCCATCCGTTCCTAAATATT 57.969 34.615 0.00 0.00 0.00 1.28
720 724 7.613551 AGTTACTCCATCCGTTCCTAAATAT 57.386 36.000 0.00 0.00 0.00 1.28
721 725 8.416329 GTTAGTTACTCCATCCGTTCCTAAATA 58.584 37.037 0.00 0.00 0.00 1.40
722 726 5.952347 AGTTACTCCATCCGTTCCTAAAT 57.048 39.130 0.00 0.00 0.00 1.40
723 727 6.211184 TGTTAGTTACTCCATCCGTTCCTAAA 59.789 38.462 0.00 0.00 0.00 1.85
724 728 5.716228 TGTTAGTTACTCCATCCGTTCCTAA 59.284 40.000 0.00 0.00 0.00 2.69
725 729 5.263599 TGTTAGTTACTCCATCCGTTCCTA 58.736 41.667 0.00 0.00 0.00 2.94
726 730 4.091549 TGTTAGTTACTCCATCCGTTCCT 58.908 43.478 0.00 0.00 0.00 3.36
729 733 5.187186 ACATCTGTTAGTTACTCCATCCGTT 59.813 40.000 0.00 0.00 0.00 4.44
735 739 8.362464 ACATCTTACATCTGTTAGTTACTCCA 57.638 34.615 0.00 0.00 0.00 3.86
794 2282 3.809279 GGGCATGTTGGTTTTCTTTTCTG 59.191 43.478 0.00 0.00 0.00 3.02
862 2354 0.254747 TTTGGCGGTGGCTAGCTAAT 59.745 50.000 15.72 0.00 39.81 1.73
876 2368 1.006922 GCAAGGCTGTCAGTTTGGC 60.007 57.895 16.13 5.67 0.00 4.52
891 2383 2.727544 GGGCTCGTTTGCTTGCAA 59.272 55.556 3.70 3.70 0.00 4.08
892 2384 3.659092 CGGGCTCGTTTGCTTGCA 61.659 61.111 0.00 0.00 0.00 4.08
897 2389 2.126850 GAAAGCGGGCTCGTTTGC 60.127 61.111 9.42 2.34 39.64 3.68
936 2432 2.059786 GCAGAGCAGAGGAGGAGCT 61.060 63.158 0.00 0.00 42.17 4.09
1022 2518 1.133167 TGGATGAGGCGGAGGAATAGA 60.133 52.381 0.00 0.00 0.00 1.98
1025 2521 1.414061 CCTGGATGAGGCGGAGGAAT 61.414 60.000 0.00 0.00 34.01 3.01
1031 2527 2.507944 CCTTCCTGGATGAGGCGG 59.492 66.667 10.93 0.00 42.47 6.13
1061 2557 1.063654 AACGGGGGAAACTTGGAGGA 61.064 55.000 0.00 0.00 0.00 3.71
1177 2674 4.099266 AGCATTTGTGCACCTTTAAGACAA 59.901 37.500 15.69 0.00 37.25 3.18
1179 2676 3.983344 CAGCATTTGTGCACCTTTAAGAC 59.017 43.478 15.69 0.00 37.25 3.01
1405 2902 4.597507 TCTCAACAAATTCCTCTACCCTGT 59.402 41.667 0.00 0.00 0.00 4.00
1427 2924 3.988517 CCAGACCGAGTTTGACTTACTTC 59.011 47.826 0.00 0.00 0.00 3.01
1445 2942 2.573462 AGAGTTAGAAATGCTGGCCAGA 59.427 45.455 37.21 21.13 0.00 3.86
1448 2945 7.229506 ACAATAATAGAGTTAGAAATGCTGGCC 59.770 37.037 0.00 0.00 0.00 5.36
1527 3024 7.759489 AGGCAATGACTAAAACAAGATTGTA 57.241 32.000 0.00 0.00 41.31 2.41
1528 3025 6.655078 AGGCAATGACTAAAACAAGATTGT 57.345 33.333 0.00 0.00 44.72 2.71
1529 3026 6.587608 GGAAGGCAATGACTAAAACAAGATTG 59.412 38.462 0.00 0.00 0.00 2.67
1561 3058 5.818136 TGCAAAGTATGGTTGATTAGCTC 57.182 39.130 0.00 0.00 0.00 4.09
1587 3084 6.803154 AGCACTTGGTTTTCATCTAGTAAC 57.197 37.500 0.00 0.00 0.00 2.50
1651 3148 4.139859 TCTTTGTGTACAGAAACCGGAA 57.860 40.909 13.74 0.00 0.00 4.30
1714 3211 4.657436 ATGTGAAACTAGGACGAGATCC 57.343 45.455 0.00 0.00 43.20 3.36
1808 3305 5.805728 GGGGGTATGTACAGAATGGATAAG 58.194 45.833 0.33 0.00 43.62 1.73
1809 3306 5.836024 GGGGGTATGTACAGAATGGATAA 57.164 43.478 0.33 0.00 43.62 1.75
1861 3360 8.957466 AGGAAATTAGGCTACTGTGAATTTTAC 58.043 33.333 0.00 0.00 31.59 2.01
1907 3406 6.481976 CAGACATTATACAGCCGGATGTTTTA 59.518 38.462 32.77 19.73 34.56 1.52
1926 3428 0.613260 ACATGTGGTACGGCAGACAT 59.387 50.000 0.00 0.00 0.00 3.06
1929 3431 3.266636 CATTTACATGTGGTACGGCAGA 58.733 45.455 9.11 0.00 0.00 4.26
1983 3485 8.226448 GCATTCACAGATATACAATGCTAGAAC 58.774 37.037 7.52 0.00 43.91 3.01
2019 3521 3.702330 AGGTTTAAAGACGCAAACAAGC 58.298 40.909 0.00 0.00 36.56 4.01
2067 3569 5.123227 TGCCCTGTAACTGTATTGAATAGC 58.877 41.667 0.00 0.00 0.00 2.97
2150 3652 4.081031 TGGAGTAATGCCCACAATACGTAA 60.081 41.667 0.00 0.00 37.27 3.18
2158 3660 1.004277 GTTCCTGGAGTAATGCCCACA 59.996 52.381 0.00 0.00 0.00 4.17
2159 3661 1.282157 AGTTCCTGGAGTAATGCCCAC 59.718 52.381 0.00 0.00 0.00 4.61
2194 3696 1.549620 CACTGACATCACTCCTCAGCT 59.450 52.381 0.00 0.00 35.75 4.24
2195 3697 1.547820 TCACTGACATCACTCCTCAGC 59.452 52.381 0.00 0.00 35.75 4.26
2306 3808 5.593909 ACAACATGAACAAAATGGACAGAGA 59.406 36.000 0.00 0.00 0.00 3.10
2343 3845 6.404074 CCTGCCAGAAATGTAAGAGATCAAAC 60.404 42.308 0.00 0.00 0.00 2.93
2381 3883 8.932945 TGAGATCTGATCTTACAATACAACAC 57.067 34.615 20.40 4.73 40.38 3.32
2389 3891 8.586879 TCTCTTTCTGAGATCTGATCTTACAA 57.413 34.615 20.40 8.58 46.03 2.41
2434 3936 7.175641 AGCATGCACAGAGATTAAACTAAAACT 59.824 33.333 21.98 0.00 0.00 2.66
2447 3949 6.825213 ACTTATGATTTTAGCATGCACAGAGA 59.175 34.615 21.98 0.45 0.00 3.10
2458 3960 6.913873 TCAACCGGTACTTATGATTTTAGC 57.086 37.500 8.00 0.00 0.00 3.09
2474 3976 5.371115 AACATGTATCAAAGTTCAACCGG 57.629 39.130 0.00 0.00 0.00 5.28
2484 3986 8.325787 AGTATACCAGTGGAAACATGTATCAAA 58.674 33.333 18.40 0.00 46.14 2.69
2491 3993 9.996554 TTATGATAGTATACCAGTGGAAACATG 57.003 33.333 18.40 0.00 46.14 3.21
2501 4003 9.534565 AATAGCGCAATTATGATAGTATACCAG 57.465 33.333 11.47 0.00 0.00 4.00
2523 4025 6.998802 AGCATCCTGGTTTAGCTACTAATAG 58.001 40.000 0.00 0.00 33.06 1.73
2525 4027 5.896073 AGCATCCTGGTTTAGCTACTAAT 57.104 39.130 0.00 0.00 33.06 1.73
2546 4048 3.891422 TGGGCATTTGCATTCCTAAAG 57.109 42.857 4.74 0.00 44.36 1.85
2585 4087 5.880901 AGGGTGTTCATATTCTCACTTTGT 58.119 37.500 0.00 0.00 0.00 2.83
2647 4149 5.184671 GGCCATTCTTTCTTCTCTTGTCATT 59.815 40.000 0.00 0.00 0.00 2.57
2655 4157 2.291217 ACCCTGGCCATTCTTTCTTCTC 60.291 50.000 5.51 0.00 0.00 2.87
2667 4169 1.284785 CAAATTCCTCTACCCTGGCCA 59.715 52.381 4.71 4.71 0.00 5.36
2706 4208 2.363306 ACAGAAATGTTGTCTGGCCA 57.637 45.000 4.71 4.71 45.66 5.36
2754 4256 1.414919 AGGAAGCACGGACACAAAGTA 59.585 47.619 0.00 0.00 0.00 2.24
2765 4267 6.721571 TGAAACTAGATAAAAGGAAGCACG 57.278 37.500 0.00 0.00 0.00 5.34
2794 4296 3.522343 AGGTAGTATTTCCACCTTCACCC 59.478 47.826 0.00 0.00 39.73 4.61
2802 4304 4.752146 AGTACGCAAGGTAGTATTTCCAC 58.248 43.478 0.00 0.00 46.39 4.02
2896 4401 8.425703 ACTCCCTCTGTAAAGAAATATAAGAGC 58.574 37.037 0.00 0.00 0.00 4.09
2908 4413 8.915036 ACTGTGTAATATACTCCCTCTGTAAAG 58.085 37.037 0.00 0.00 0.00 1.85
2910 4415 9.925545 TTACTGTGTAATATACTCCCTCTGTAA 57.074 33.333 0.00 0.00 0.00 2.41
2914 4419 9.080097 GACATTACTGTGTAATATACTCCCTCT 57.920 37.037 3.09 0.00 35.14 3.69
2922 4427 9.976511 GGCTGTAAGACATTACTGTGTAATATA 57.023 33.333 3.09 0.00 46.27 0.86
2923 4428 8.888579 GGCTGTAAGACATTACTGTGTAATAT 57.111 34.615 3.09 0.00 46.27 1.28
2979 4489 5.106634 GCACTATATCTCGAGTGGTACGAAT 60.107 44.000 13.13 0.00 42.77 3.34
2988 4498 7.941919 TGTTTATCAAGCACTATATCTCGAGT 58.058 34.615 13.13 2.46 0.00 4.18
3046 4556 1.536766 CATGCTGCTTGAACCTTTCGA 59.463 47.619 9.72 0.00 0.00 3.71
3047 4557 1.267806 ACATGCTGCTTGAACCTTTCG 59.732 47.619 20.66 0.00 0.00 3.46
3111 4621 2.084546 GAACTAGCGGTTTTGCTGGAT 58.915 47.619 6.10 0.00 45.36 3.41
3123 4633 2.609459 CCAAACATAGCCTGAACTAGCG 59.391 50.000 0.00 0.00 0.00 4.26
3532 5055 3.375299 GCACTATTGTCCAAGCTCGAATT 59.625 43.478 0.00 0.00 0.00 2.17
4016 6737 4.449068 AGCTTAACCGCATAAATCAGATCG 59.551 41.667 0.00 0.00 0.00 3.69
4030 6751 6.910536 AAATCTGATTGAGTAGCTTAACCG 57.089 37.500 3.22 0.00 0.00 4.44
4065 6786 4.022329 AGCTAAAACTTGGTTTTCATCCGG 60.022 41.667 10.96 0.00 43.43 5.14
4189 6913 3.162666 ACGAGTCCTTAACACCTCATCA 58.837 45.455 0.00 0.00 0.00 3.07
4475 7200 2.271944 ACACCCTGAAAGTTGGTAGC 57.728 50.000 0.00 0.00 26.75 3.58
4498 7223 8.141298 TGTAATGAGGTACTACCATTTCTTCA 57.859 34.615 8.01 2.02 41.55 3.02
4517 7242 8.912787 AGAGTGAAAGTACGTTATCTGTAATG 57.087 34.615 0.00 0.00 33.83 1.90
4530 7255 7.195839 AGAAAAGCATGAAGAGTGAAAGTAC 57.804 36.000 0.00 0.00 0.00 2.73
4704 7445 2.762327 CTCCAGCTTTACCATGGCATTT 59.238 45.455 13.04 0.00 33.92 2.32
4739 7480 4.627058 CCAAACAAGTTGTTGGGGATAAC 58.373 43.478 28.33 0.00 45.64 1.89
4884 7625 1.817881 CTACCCCGTTACCATGCGA 59.182 57.895 0.00 0.00 0.00 5.10
5015 7756 9.915629 GTAAGCTATCTTTATACATGTGCTACT 57.084 33.333 9.11 0.00 33.85 2.57
5088 7829 6.592166 CAACCAAAATAACATCACATGCAAC 58.408 36.000 0.00 0.00 0.00 4.17
5345 8086 1.296523 AGGAATGGACCTCCTGGAGAT 59.703 52.381 25.18 8.09 41.96 2.75
5346 8087 0.719015 AGGAATGGACCTCCTGGAGA 59.281 55.000 25.18 5.22 41.96 3.71
5394 8135 7.782049 TCCAACTTCTATGGTGACTTGTATAG 58.218 38.462 0.00 0.00 39.09 1.31
5484 8225 8.846943 TGAGCAATCAAGTCTGTAAAAGATAA 57.153 30.769 0.00 0.00 37.23 1.75
5529 8270 1.202989 TGTGGGTAGCAAAGCATCCAA 60.203 47.619 0.00 0.00 0.00 3.53
5561 8302 2.905415 TGAAGCCATTCTGAACCCAT 57.095 45.000 0.00 0.00 36.33 4.00
5620 8361 7.148950 GCACACTAAACTGCGTCTATATACATC 60.149 40.741 0.00 0.00 0.00 3.06
5789 8530 1.812571 CCTACATTGGGTGTGAGTTGC 59.187 52.381 0.00 0.00 42.24 4.17
6136 8902 3.508793 AGTCGTTAGAAAGGATGGTCGAA 59.491 43.478 0.00 0.00 0.00 3.71


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

AutoCloner maintained by Alex Coulton.