Multiple sequence alignment - TraesCS3A01G037200

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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 TraesCS3A01G037200 chr3A 100.000 4123 0 0 1 4123 20142570 20146692 0.000000e+00 7614.0
1 TraesCS3A01G037200 chr3A 77.705 305 58 7 3800 4097 120868405 120868706 1.180000e-40 178.0
2 TraesCS3A01G037200 chr3A 92.593 81 4 2 1845 1924 647803676 647803755 9.370000e-22 115.0
3 TraesCS3A01G037200 chr3A 100.000 37 0 0 3702 3738 20146233 20146269 7.400000e-08 69.4
4 TraesCS3A01G037200 chr3A 100.000 37 0 0 3664 3700 20146271 20146307 7.400000e-08 69.4
5 TraesCS3A01G037200 chr3A 100.000 36 0 0 1259 1294 647803651 647803686 2.660000e-07 67.6
6 TraesCS3A01G037200 chr3B 91.509 3062 149 50 473 3498 23767642 23764656 0.000000e+00 4111.0
7 TraesCS3A01G037200 chr3B 90.127 395 39 0 3729 4123 23764156 23763762 7.900000e-142 514.0
8 TraesCS3A01G037200 chr3B 83.537 164 9 6 2019 2182 809173160 809173305 2.000000e-28 137.0
9 TraesCS3A01G037200 chr3B 81.098 164 23 4 2813 2969 668892936 668893098 1.560000e-24 124.0
10 TraesCS3A01G037200 chr3D 92.473 2923 132 46 556 3440 16274501 16271629 0.000000e+00 4098.0
11 TraesCS3A01G037200 chr3D 92.941 85 4 2 1845 1928 31092856 31092939 5.600000e-24 122.0
12 TraesCS3A01G037200 chr3D 97.826 46 1 0 1249 1294 31092821 31092866 3.420000e-11 80.5
13 TraesCS3A01G037200 chr4A 91.956 1467 99 9 1463 2918 643997853 643996395 0.000000e+00 2037.0
14 TraesCS3A01G037200 chr4A 93.976 83 5 0 1846 1928 602719353 602719435 4.330000e-25 126.0
15 TraesCS3A01G037200 chr4A 80.240 167 14 6 2016 2182 602719468 602719615 1.570000e-19 108.0
16 TraesCS3A01G037200 chr4A 96.970 33 1 0 1460 1492 643996365 643996397 5.760000e-04 56.5
17 TraesCS3A01G037200 chr5A 92.491 546 41 0 1 546 385312249 385311704 0.000000e+00 782.0
18 TraesCS3A01G037200 chr5A 90.876 548 47 2 2 546 600179135 600179682 0.000000e+00 732.0
19 TraesCS3A01G037200 chr5A 90.293 546 49 2 2 546 504235040 504234498 0.000000e+00 712.0
20 TraesCS3A01G037200 chr5A 90.146 548 51 2 2 546 7824916 7825463 0.000000e+00 710.0
21 TraesCS3A01G037200 chr5A 91.765 85 5 2 1845 1928 328711756 328711839 2.600000e-22 117.0
22 TraesCS3A01G037200 chr6A 92.463 544 41 0 3 546 549326231 549325688 0.000000e+00 778.0
23 TraesCS3A01G037200 chr6A 92.066 542 43 0 3 544 579393644 579394185 0.000000e+00 763.0
24 TraesCS3A01G037200 chr6A 91.360 544 46 1 4 546 583381734 583381191 0.000000e+00 743.0
25 TraesCS3A01G037200 chr6A 91.026 546 48 1 1 546 538055707 538056251 0.000000e+00 736.0
26 TraesCS3A01G037200 chr1A 92.308 546 42 0 1 546 469373104 469372559 0.000000e+00 776.0
27 TraesCS3A01G037200 chr1D 83.893 447 39 10 1032 1478 471138097 471137684 2.990000e-106 396.0
28 TraesCS3A01G037200 chr1D 85.757 337 29 9 1846 2182 390266969 390267286 5.110000e-89 339.0
29 TraesCS3A01G037200 chr1D 95.714 70 3 0 2032 2101 471137522 471137453 3.370000e-21 113.0
30 TraesCS3A01G037200 chr1D 97.297 37 1 0 2033 2069 471137581 471137545 3.440000e-06 63.9
31 TraesCS3A01G037200 chr5D 99.329 149 1 0 2691 2839 373770031 373770179 1.890000e-68 270.0
32 TraesCS3A01G037200 chr5D 84.120 233 27 4 2041 2263 120792684 120792916 2.500000e-52 217.0
33 TraesCS3A01G037200 chr5D 89.865 148 1 1 2531 2678 373769533 373769666 1.180000e-40 178.0
34 TraesCS3A01G037200 chr5D 77.000 200 35 9 2814 3006 33022692 33022497 2.030000e-18 104.0
35 TraesCS3A01G037200 chr2D 98.658 149 2 0 2691 2839 519890342 519890194 8.790000e-67 265.0
36 TraesCS3A01G037200 chr2D 77.816 293 54 7 3838 4120 556713603 556713894 1.970000e-38 171.0
37 TraesCS3A01G037200 chr2D 100.000 51 0 0 2533 2583 519890627 519890577 1.220000e-15 95.3
38 TraesCS3A01G037200 chr6D 85.408 233 24 4 2041 2263 461702499 461702267 2.480000e-57 233.0
39 TraesCS3A01G037200 chr6D 74.913 287 53 10 3838 4117 455755114 455755388 3.370000e-21 113.0
40 TraesCS3A01G037200 chr6B 84.549 233 26 4 2041 2263 288647409 288647641 5.360000e-54 222.0
41 TraesCS3A01G037200 chr7B 82.490 257 26 7 1926 2182 667794169 667793932 1.500000e-49 207.0
42 TraesCS3A01G037200 chr5B 80.978 184 32 2 3787 3967 700866550 700866733 4.300000e-30 143.0
43 TraesCS3A01G037200 chr2A 92.593 81 4 2 1845 1924 211481745 211481666 9.370000e-22 115.0
44 TraesCS3A01G037200 chrUn 88.542 96 5 3 2174 2263 103107726 103107631 1.210000e-20 111.0
45 TraesCS3A01G037200 chr7D 73.401 297 55 16 3838 4120 605183358 605183644 5.680000e-14 89.8
46 TraesCS3A01G037200 chr7D 97.297 37 1 0 2272 2308 117464535 117464571 3.440000e-06 63.9
47 TraesCS3A01G037200 chr7A 90.000 60 6 0 2261 2320 200064847 200064788 1.230000e-10 78.7
48 TraesCS3A01G037200 chr7A 86.667 60 8 0 2261 2320 200032565 200032506 2.660000e-07 67.6
49 TraesCS3A01G037200 chr7A 97.297 37 1 0 2272 2308 121845682 121845718 3.440000e-06 63.9
50 TraesCS3A01G037200 chr4D 91.379 58 2 3 2718 2774 464156710 464156765 4.420000e-10 76.8
51 TraesCS3A01G037200 chr4D 94.000 50 1 2 2726 2774 443521053 443521101 1.590000e-09 75.0
52 TraesCS3A01G037200 chr4D 97.297 37 1 0 2272 2308 459384610 459384646 3.440000e-06 63.9
53 TraesCS3A01G037200 chr4B 92.593 54 2 2 2722 2774 579733600 579733652 4.420000e-10 76.8
54 TraesCS3A01G037200 chr4B 94.000 50 1 2 2726 2774 552846199 552846247 1.590000e-09 75.0
55 TraesCS3A01G037200 chr4B 97.297 37 1 0 2272 2308 574170659 574170695 3.440000e-06 63.9
56 TraesCS3A01G037200 chr2B 100.000 36 0 0 1259 1294 153890101 153890066 2.660000e-07 67.6


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 TraesCS3A01G037200 chr3A 20142570 20146692 4122 False 2584.266667 7614 100.000 1 4123 3 chr3A.!!$F2 4122
1 TraesCS3A01G037200 chr3B 23763762 23767642 3880 True 2312.500000 4111 90.818 473 4123 2 chr3B.!!$R1 3650
2 TraesCS3A01G037200 chr3D 16271629 16274501 2872 True 4098.000000 4098 92.473 556 3440 1 chr3D.!!$R1 2884
3 TraesCS3A01G037200 chr4A 643996395 643997853 1458 True 2037.000000 2037 91.956 1463 2918 1 chr4A.!!$R1 1455
4 TraesCS3A01G037200 chr5A 385311704 385312249 545 True 782.000000 782 92.491 1 546 1 chr5A.!!$R1 545
5 TraesCS3A01G037200 chr5A 600179135 600179682 547 False 732.000000 732 90.876 2 546 1 chr5A.!!$F3 544
6 TraesCS3A01G037200 chr5A 504234498 504235040 542 True 712.000000 712 90.293 2 546 1 chr5A.!!$R2 544
7 TraesCS3A01G037200 chr5A 7824916 7825463 547 False 710.000000 710 90.146 2 546 1 chr5A.!!$F1 544
8 TraesCS3A01G037200 chr6A 549325688 549326231 543 True 778.000000 778 92.463 3 546 1 chr6A.!!$R1 543
9 TraesCS3A01G037200 chr6A 579393644 579394185 541 False 763.000000 763 92.066 3 544 1 chr6A.!!$F2 541
10 TraesCS3A01G037200 chr6A 583381191 583381734 543 True 743.000000 743 91.360 4 546 1 chr6A.!!$R2 542
11 TraesCS3A01G037200 chr6A 538055707 538056251 544 False 736.000000 736 91.026 1 546 1 chr6A.!!$F1 545
12 TraesCS3A01G037200 chr1A 469372559 469373104 545 True 776.000000 776 92.308 1 546 1 chr1A.!!$R1 545
13 TraesCS3A01G037200 chr5D 373769533 373770179 646 False 224.000000 270 94.597 2531 2839 2 chr5D.!!$F2 308

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
529 535 0.106167 CAGGGTCGGACAGGATAGGA 60.106 60.0 10.76 0.0 0.00 2.94 F
914 940 0.246086 GCCAGAGACCAGACAGACAG 59.754 60.0 0.00 0.0 0.00 3.51 F
926 952 0.398318 ACAGACAGGAAGAACCAGCC 59.602 55.0 0.00 0.0 42.04 4.85 F
2385 2451 0.385223 CGAACACTTGCTGCTTCTGC 60.385 55.0 0.00 0.0 40.20 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2360 2426 1.891060 GCAGCAAGTGTTCGACGGAG 61.891 60.000 0.00 0.0 0.00 4.63 R
2385 2451 2.149578 CCACCTTCAGTTTCTCAGCAG 58.850 52.381 0.00 0.0 0.00 4.24 R
2988 3406 1.167155 CGGACCTCGTCGATCATCCT 61.167 60.000 14.28 0.0 32.65 3.24 R
3683 4362 0.038744 CCTGACCCAACCAAGATGCT 59.961 55.000 0.00 0.0 0.00 3.79 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
124 125 2.671963 GCCGTTCCAGAACCCCAC 60.672 66.667 4.99 0.00 38.03 4.61
127 128 2.874664 CGTTCCAGAACCCCACGGA 61.875 63.158 4.99 0.00 38.03 4.69
129 130 2.221299 TTCCAGAACCCCACGGAGG 61.221 63.158 0.00 0.00 37.03 4.30
181 185 1.529152 TAGGGTTTCTGCGCTGTCGA 61.529 55.000 9.73 0.00 38.10 4.20
196 200 1.605451 TCGAGTTTCGAGGAGGCCA 60.605 57.895 5.01 0.00 44.82 5.36
429 435 1.327303 TTTGCGCTTGAAATGGGTCT 58.673 45.000 9.73 0.00 0.00 3.85
442 448 3.660111 GGTCTGCCCGCACACAAC 61.660 66.667 0.00 0.00 0.00 3.32
458 464 3.391296 ACACAACACAGACAGGATAGGTT 59.609 43.478 0.00 0.00 0.00 3.50
469 475 1.673808 GGATAGGTTCAGGCCGTCGT 61.674 60.000 0.00 0.00 0.00 4.34
471 477 0.968901 ATAGGTTCAGGCCGTCGTGA 60.969 55.000 0.00 0.00 35.54 4.35
480 486 3.680786 CCGTCGTGAGCTGGACCA 61.681 66.667 0.00 0.00 0.00 4.02
529 535 0.106167 CAGGGTCGGACAGGATAGGA 60.106 60.000 10.76 0.00 0.00 2.94
546 552 4.373116 ATCGCGCGGTGGAGTTGT 62.373 61.111 31.69 1.94 0.00 3.32
547 553 2.877360 GATCGCGCGGTGGAGTTGTA 62.877 60.000 31.69 6.44 0.00 2.41
549 555 3.116531 GCGCGGTGGAGTTGTACC 61.117 66.667 8.83 0.00 0.00 3.34
550 556 2.654877 CGCGGTGGAGTTGTACCT 59.345 61.111 0.00 0.00 34.77 3.08
572 578 1.851304 TATTACCACCTCCGTCCGTT 58.149 50.000 0.00 0.00 0.00 4.44
618 630 1.038681 AAAACCCCCAACGACCACAC 61.039 55.000 0.00 0.00 0.00 3.82
619 631 2.914756 AAACCCCCAACGACCACACC 62.915 60.000 0.00 0.00 0.00 4.16
621 633 4.244463 CCCCAACGACCACACCGT 62.244 66.667 0.00 0.00 42.61 4.83
691 712 4.814294 CCTGCCCGTACGTGCTCC 62.814 72.222 22.85 2.99 0.00 4.70
692 713 3.760035 CTGCCCGTACGTGCTCCT 61.760 66.667 22.85 0.00 0.00 3.69
693 714 3.701604 CTGCCCGTACGTGCTCCTC 62.702 68.421 22.85 0.00 0.00 3.71
694 715 3.450115 GCCCGTACGTGCTCCTCT 61.450 66.667 15.74 0.00 0.00 3.69
695 716 2.490217 CCCGTACGTGCTCCTCTG 59.510 66.667 15.21 0.00 0.00 3.35
698 719 2.701780 CGTACGTGCTCCTCTGCCT 61.702 63.158 7.22 0.00 0.00 4.75
699 720 1.139947 GTACGTGCTCCTCTGCCTC 59.860 63.158 0.00 0.00 0.00 4.70
700 721 2.052690 TACGTGCTCCTCTGCCTCC 61.053 63.158 0.00 0.00 0.00 4.30
701 722 4.154347 CGTGCTCCTCTGCCTCCC 62.154 72.222 0.00 0.00 0.00 4.30
708 729 3.827898 CTCTGCCTCCCGTCGACC 61.828 72.222 10.58 0.00 0.00 4.79
715 736 3.122250 CTCCCGTCGACCGATCACC 62.122 68.421 10.58 0.00 39.56 4.02
720 741 1.445582 GTCGACCGATCACCACACC 60.446 63.158 3.51 0.00 0.00 4.16
730 751 3.161450 ACCACACCACACGAGCCT 61.161 61.111 0.00 0.00 0.00 4.58
756 777 4.648626 ATGCAGTGCCACAGCGGT 62.649 61.111 13.72 0.00 44.31 5.68
767 788 4.935495 CAGCGGTGCACTGGTGGT 62.935 66.667 38.43 20.03 44.55 4.16
858 879 1.916697 GCTGTTGAAAGCGGAGGAGC 61.917 60.000 0.00 0.00 32.56 4.70
880 906 1.298859 CGGAGGTGGAGAAAAAGGCG 61.299 60.000 0.00 0.00 0.00 5.52
884 910 3.361977 TGGAGAAAAAGGCGCGGC 61.362 61.111 27.06 27.06 0.00 6.53
885 911 3.361977 GGAGAAAAAGGCGCGGCA 61.362 61.111 34.94 0.00 0.00 5.69
886 912 2.176792 GAGAAAAAGGCGCGGCAG 59.823 61.111 34.94 0.00 0.00 4.85
887 913 2.281484 AGAAAAAGGCGCGGCAGA 60.281 55.556 34.94 0.00 0.00 4.26
888 914 2.176792 GAAAAAGGCGCGGCAGAG 59.823 61.111 34.94 0.00 0.00 3.35
889 915 3.953444 GAAAAAGGCGCGGCAGAGC 62.953 63.158 34.94 15.49 42.66 4.09
914 940 0.246086 GCCAGAGACCAGACAGACAG 59.754 60.000 0.00 0.00 0.00 3.51
924 950 2.289320 CCAGACAGACAGGAAGAACCAG 60.289 54.545 0.00 0.00 42.04 4.00
926 952 0.398318 ACAGACAGGAAGAACCAGCC 59.602 55.000 0.00 0.00 42.04 4.85
1016 1059 2.125552 CATGCTTCGTCCCAGCGA 60.126 61.111 0.00 0.00 40.45 4.93
1059 1111 2.670934 CTGCTCACCGCCTTGCTT 60.671 61.111 0.00 0.00 38.05 3.91
1061 1113 4.410743 GCTCACCGCCTTGCTTGC 62.411 66.667 0.00 0.00 0.00 4.01
1062 1114 3.741476 CTCACCGCCTTGCTTGCC 61.741 66.667 0.00 0.00 0.00 4.52
1063 1115 4.269523 TCACCGCCTTGCTTGCCT 62.270 61.111 0.00 0.00 0.00 4.75
1356 1408 4.863925 GACCTCTCGCCGCTGCTC 62.864 72.222 0.00 0.00 34.43 4.26
1431 1483 2.105128 CTCGGCAAGCTCTACCGG 59.895 66.667 18.52 0.00 46.87 5.28
1454 1506 1.340399 TACCGGCTCGACCTCTCCTA 61.340 60.000 0.00 0.00 35.61 2.94
1600 1652 2.480419 CTCAACGTGTCCAACAATCTCC 59.520 50.000 0.00 0.00 0.00 3.71
1602 1654 2.457366 ACGTGTCCAACAATCTCCTC 57.543 50.000 0.00 0.00 0.00 3.71
1623 1676 4.191015 GGGAGGATTCCGGTGGCC 62.191 72.222 0.00 0.00 45.04 5.36
2010 2066 2.416893 GCGAGGAAAGATGGTGTTTCTC 59.583 50.000 0.00 0.00 34.81 2.87
2232 2288 4.636435 CTCCGCCACCCCAACGTT 62.636 66.667 0.00 0.00 0.00 3.99
2334 2390 2.266055 CTCCACGGCAAGTCCTCC 59.734 66.667 0.00 0.00 0.00 4.30
2343 2399 3.453679 AAGTCCTCCGCTCCGCTC 61.454 66.667 0.00 0.00 0.00 5.03
2360 2426 3.354397 CGCTCAATTCTTCGCCATTAAC 58.646 45.455 0.00 0.00 0.00 2.01
2385 2451 0.385223 CGAACACTTGCTGCTTCTGC 60.385 55.000 0.00 0.00 40.20 4.26
2394 2460 3.228499 CTGCTTCTGCTGCTGAGAA 57.772 52.632 9.20 5.87 40.48 2.87
2395 2461 1.520494 CTGCTTCTGCTGCTGAGAAA 58.480 50.000 9.20 0.00 40.48 2.52
2396 2462 1.197264 CTGCTTCTGCTGCTGAGAAAC 59.803 52.381 9.20 3.24 40.48 2.78
2988 3406 1.531365 AAGGTCGGGTACGTGGTGA 60.531 57.895 0.00 0.00 41.85 4.02
3100 3518 4.899239 GCCCGCCGTCTCTGATGG 62.899 72.222 1.68 1.68 41.35 3.51
3193 3620 4.209080 GTGATTTGTGCTTTGGTTAACTGC 59.791 41.667 5.42 6.10 0.00 4.40
3243 3670 1.628340 TGTGGTCCGTTGGATCTGATT 59.372 47.619 0.00 0.00 33.22 2.57
3307 3739 2.304221 ATAGCCGTACTGGGATGCTA 57.696 50.000 6.00 0.00 38.73 3.49
3401 3833 2.225019 CAGCACTACACTGGCTTTCAAG 59.775 50.000 0.00 0.00 35.27 3.02
3445 3877 3.254060 TCAGCTCTTATCGCAAACACTC 58.746 45.455 0.00 0.00 0.00 3.51
3479 3911 2.540931 GGATGCCTATTTTTGCAATGCG 59.459 45.455 0.00 0.00 41.50 4.73
3481 3913 2.605030 TGCCTATTTTTGCAATGCGAC 58.395 42.857 0.00 0.00 33.87 5.19
3487 3919 1.203928 TTTTGCAATGCGACGGTTTG 58.796 45.000 0.00 0.00 0.00 2.93
3519 4197 7.561021 TCTGAAATAACACTGTACTTTTGCA 57.439 32.000 0.00 0.00 0.00 4.08
3520 4198 7.414436 TCTGAAATAACACTGTACTTTTGCAC 58.586 34.615 0.00 0.00 0.00 4.57
3521 4199 7.282224 TCTGAAATAACACTGTACTTTTGCACT 59.718 33.333 0.00 0.00 0.00 4.40
3522 4200 7.192913 TGAAATAACACTGTACTTTTGCACTG 58.807 34.615 0.00 0.00 0.00 3.66
3523 4201 5.689383 ATAACACTGTACTTTTGCACTGG 57.311 39.130 0.00 0.00 0.00 4.00
3524 4202 3.275617 ACACTGTACTTTTGCACTGGA 57.724 42.857 0.00 0.00 0.00 3.86
3525 4203 3.206150 ACACTGTACTTTTGCACTGGAG 58.794 45.455 0.00 0.00 0.00 3.86
3533 4211 5.186996 ACTTTTGCACTGGAGTATTTGTG 57.813 39.130 0.00 0.00 0.00 3.33
3594 4272 7.581213 AACTAATTTCCAGTTCATTGACACA 57.419 32.000 0.00 0.00 30.36 3.72
3597 4275 8.084073 ACTAATTTCCAGTTCATTGACACAATG 58.916 33.333 15.53 15.53 0.00 2.82
3643 4321 6.262601 TCTTTTCTTTTCACGGTGAACATTC 58.737 36.000 22.33 0.00 35.89 2.67
3644 4322 5.568685 TTTCTTTTCACGGTGAACATTCA 57.431 34.783 22.33 5.61 35.89 2.57
3645 4323 4.811555 TCTTTTCACGGTGAACATTCAG 57.188 40.909 22.33 13.05 35.89 3.02
3647 4325 4.638421 TCTTTTCACGGTGAACATTCAGTT 59.362 37.500 22.33 0.00 44.93 3.16
3649 4327 2.912771 TCACGGTGAACATTCAGTTGT 58.087 42.857 8.68 0.00 41.51 3.32
3650 4328 4.061357 TCACGGTGAACATTCAGTTGTA 57.939 40.909 8.68 0.00 41.51 2.41
3651 4329 3.805422 TCACGGTGAACATTCAGTTGTAC 59.195 43.478 8.68 0.00 41.51 2.90
3652 4330 3.807622 CACGGTGAACATTCAGTTGTACT 59.192 43.478 0.74 0.00 41.51 2.73
3659 4338 9.180678 GGTGAACATTCAGTTGTACTAAATTTG 57.819 33.333 0.00 0.00 41.51 2.32
3663 4342 9.445786 AACATTCAGTTGTACTAAATTTGTTCG 57.554 29.630 0.00 0.00 39.49 3.95
3683 4362 6.928979 TTCGGTTGAACATGAAGAGTTTTA 57.071 33.333 0.00 0.00 0.00 1.52
3684 4363 6.539649 TCGGTTGAACATGAAGAGTTTTAG 57.460 37.500 0.00 0.00 0.00 1.85
3685 4364 5.049680 TCGGTTGAACATGAAGAGTTTTAGC 60.050 40.000 0.00 0.00 0.00 3.09
3686 4365 5.277779 CGGTTGAACATGAAGAGTTTTAGCA 60.278 40.000 0.00 0.00 0.00 3.49
3687 4366 6.568462 CGGTTGAACATGAAGAGTTTTAGCAT 60.568 38.462 0.00 0.00 0.00 3.79
3688 4367 6.803807 GGTTGAACATGAAGAGTTTTAGCATC 59.196 38.462 0.00 0.00 0.00 3.91
3689 4368 7.308830 GGTTGAACATGAAGAGTTTTAGCATCT 60.309 37.037 0.00 0.00 0.00 2.90
3690 4369 7.750229 TGAACATGAAGAGTTTTAGCATCTT 57.250 32.000 0.00 0.00 36.02 2.40
3691 4370 7.587629 TGAACATGAAGAGTTTTAGCATCTTG 58.412 34.615 0.00 0.00 33.53 3.02
3692 4371 6.506500 ACATGAAGAGTTTTAGCATCTTGG 57.493 37.500 0.00 0.00 33.53 3.61
3693 4372 6.006449 ACATGAAGAGTTTTAGCATCTTGGT 58.994 36.000 0.00 0.00 33.53 3.67
3694 4373 6.491403 ACATGAAGAGTTTTAGCATCTTGGTT 59.509 34.615 0.00 0.00 33.53 3.67
3696 4375 5.241506 TGAAGAGTTTTAGCATCTTGGTTGG 59.758 40.000 0.00 0.00 33.53 3.77
3697 4376 4.082125 AGAGTTTTAGCATCTTGGTTGGG 58.918 43.478 0.00 0.00 0.00 4.12
3698 4377 3.826729 GAGTTTTAGCATCTTGGTTGGGT 59.173 43.478 0.00 0.00 0.00 4.51
3699 4378 3.826729 AGTTTTAGCATCTTGGTTGGGTC 59.173 43.478 0.00 0.00 0.00 4.46
3700 4379 3.517296 TTTAGCATCTTGGTTGGGTCA 57.483 42.857 0.00 0.00 0.00 4.02
3701 4380 2.787473 TAGCATCTTGGTTGGGTCAG 57.213 50.000 0.00 0.00 0.00 3.51
3702 4381 0.038744 AGCATCTTGGTTGGGTCAGG 59.961 55.000 0.00 0.00 0.00 3.86
3703 4382 0.251341 GCATCTTGGTTGGGTCAGGT 60.251 55.000 0.00 0.00 0.00 4.00
3704 4383 1.823250 GCATCTTGGTTGGGTCAGGTT 60.823 52.381 0.00 0.00 0.00 3.50
3707 4386 1.566703 TCTTGGTTGGGTCAGGTTGAA 59.433 47.619 0.00 0.00 0.00 2.69
3708 4387 1.681264 CTTGGTTGGGTCAGGTTGAAC 59.319 52.381 0.00 0.00 32.07 3.18
3710 4389 1.216678 TGGTTGGGTCAGGTTGAACAT 59.783 47.619 0.00 0.00 35.30 2.71
3711 4390 1.613437 GGTTGGGTCAGGTTGAACATG 59.387 52.381 3.21 3.21 35.30 3.21
3712 4391 2.582052 GTTGGGTCAGGTTGAACATGA 58.418 47.619 8.76 8.76 35.30 3.07
3713 4392 2.955660 GTTGGGTCAGGTTGAACATGAA 59.044 45.455 14.61 0.00 40.81 2.57
3714 4393 2.862541 TGGGTCAGGTTGAACATGAAG 58.137 47.619 14.61 0.00 40.81 3.02
3716 4395 3.077359 GGGTCAGGTTGAACATGAAGAG 58.923 50.000 14.61 0.00 40.81 2.85
3717 4396 3.496870 GGGTCAGGTTGAACATGAAGAGT 60.497 47.826 14.61 0.00 40.81 3.24
3718 4397 4.137543 GGTCAGGTTGAACATGAAGAGTT 58.862 43.478 14.61 0.00 40.81 3.01
3719 4398 4.580580 GGTCAGGTTGAACATGAAGAGTTT 59.419 41.667 14.61 0.00 40.81 2.66
3721 4400 6.262273 GGTCAGGTTGAACATGAAGAGTTTTA 59.738 38.462 14.61 0.00 40.81 1.52
3724 4403 5.827797 AGGTTGAACATGAAGAGTTTTAGCA 59.172 36.000 0.00 0.00 0.00 3.49
3725 4404 6.491403 AGGTTGAACATGAAGAGTTTTAGCAT 59.509 34.615 0.00 0.00 0.00 3.79
3726 4405 6.803807 GGTTGAACATGAAGAGTTTTAGCATC 59.196 38.462 0.00 0.00 0.00 3.91
3727 4406 7.308830 GGTTGAACATGAAGAGTTTTAGCATCT 60.309 37.037 0.00 0.00 0.00 2.90
3736 4454 3.826729 GAGTTTTAGCATCTTGGTTGGGT 59.173 43.478 0.00 0.00 0.00 4.51
3739 4457 4.919774 TTTAGCATCTTGGTTGGGTCTA 57.080 40.909 0.00 0.00 0.00 2.59
3741 4459 3.287867 AGCATCTTGGTTGGGTCTATG 57.712 47.619 0.00 0.00 0.00 2.23
3749 4467 0.249398 GTTGGGTCTATGTGACGGCT 59.751 55.000 0.00 0.00 46.24 5.52
3750 4468 0.249120 TTGGGTCTATGTGACGGCTG 59.751 55.000 0.00 0.00 46.24 4.85
3758 4476 4.022762 GTCTATGTGACGGCTGTGATCTAT 60.023 45.833 0.80 0.00 35.81 1.98
3759 4477 2.871182 TGTGACGGCTGTGATCTATC 57.129 50.000 0.80 0.00 0.00 2.08
3762 4480 1.683385 TGACGGCTGTGATCTATCCTG 59.317 52.381 0.80 0.00 0.00 3.86
3766 4484 2.050144 GGCTGTGATCTATCCTGGGAA 58.950 52.381 0.00 0.00 0.00 3.97
3771 4489 5.046014 GCTGTGATCTATCCTGGGAATGTAT 60.046 44.000 0.00 0.00 0.00 2.29
3798 4516 2.898705 CTCTCATCCTTGTGGTGCTAC 58.101 52.381 0.00 0.00 34.23 3.58
3800 4518 0.249120 TCATCCTTGTGGTGCTACCG 59.751 55.000 0.00 0.00 42.58 4.02
3808 4526 2.890474 GGTGCTACCGGTGCATCG 60.890 66.667 26.82 13.72 42.69 3.84
3819 4537 1.227263 GTGCATCGGATGGCGTAGT 60.227 57.895 18.96 0.00 0.00 2.73
3835 4553 9.730420 GATGGCGTAGTATATTTTGAAATGTTT 57.270 29.630 0.00 0.00 0.00 2.83
3856 4574 6.636447 TGTTTGAAAAATCTAGCACATTGACG 59.364 34.615 0.00 0.00 0.00 4.35
3857 4575 4.722194 TGAAAAATCTAGCACATTGACGC 58.278 39.130 0.00 0.00 0.00 5.19
3874 4592 3.553917 TGACGCAACATCAATGTATACCG 59.446 43.478 0.00 0.71 40.80 4.02
3890 4608 9.997482 AATGTATACCGTCACAAAATTTCATAC 57.003 29.630 0.00 0.00 0.00 2.39
3891 4609 7.976826 TGTATACCGTCACAAAATTTCATACC 58.023 34.615 0.00 0.00 0.00 2.73
3899 4617 7.433719 CGTCACAAAATTTCATACCAAAAGTCA 59.566 33.333 0.00 0.00 0.00 3.41
3917 4635 6.992063 AAGTCAAAACATTGCTCGAGATAT 57.008 33.333 18.75 5.17 0.00 1.63
3935 4653 9.551734 TCGAGATATGAGAATGACAAATTTGAT 57.448 29.630 24.64 8.92 0.00 2.57
3995 4713 6.791887 ATGTTGGAGTATTATTCAGCATCG 57.208 37.500 0.00 0.00 0.00 3.84
3997 4715 6.345298 TGTTGGAGTATTATTCAGCATCGAA 58.655 36.000 0.00 0.00 0.00 3.71
4015 4733 6.791775 GCATCGAATTTGTCATTTTTGTTTCC 59.208 34.615 0.00 0.00 0.00 3.13
4028 4746 2.296073 TGTTTCCCGGGCTATGTTTT 57.704 45.000 18.49 0.00 0.00 2.43
4030 4748 1.203758 GTTTCCCGGGCTATGTTTTGG 59.796 52.381 18.49 0.00 0.00 3.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
181 185 2.657237 CGTGGCCTCCTCGAAACT 59.343 61.111 3.32 0.00 42.19 2.66
276 280 4.740822 GCGGCCCCACCTGTCATT 62.741 66.667 0.00 0.00 35.61 2.57
304 308 0.752743 CCATCCGCCCACATCAATGT 60.753 55.000 0.00 0.00 42.84 2.71
320 325 2.768344 CGGCCACCTACCTCCCAT 60.768 66.667 2.24 0.00 0.00 4.00
367 373 2.963320 GACACCAAACGGACGCGT 60.963 61.111 13.85 13.85 0.00 6.01
409 415 1.895131 AGACCCATTTCAAGCGCAAAT 59.105 42.857 11.47 3.98 0.00 2.32
429 435 3.208383 CTGTGTTGTGTGCGGGCA 61.208 61.111 0.00 0.00 0.00 5.36
435 441 3.244215 ACCTATCCTGTCTGTGTTGTGTG 60.244 47.826 0.00 0.00 0.00 3.82
442 448 2.419297 GCCTGAACCTATCCTGTCTGTG 60.419 54.545 0.00 0.00 0.00 3.66
458 464 4.056125 CAGCTCACGACGGCCTGA 62.056 66.667 0.00 0.00 0.00 3.86
480 486 2.487805 GGGTAAAACGGACAAAGGAGGT 60.488 50.000 0.00 0.00 0.00 3.85
508 514 1.486211 CTATCCTGTCCGACCCTGTT 58.514 55.000 0.00 0.00 0.00 3.16
515 521 1.235281 CGCGATCCTATCCTGTCCGA 61.235 60.000 0.00 0.00 0.00 4.55
529 535 2.997075 TACAACTCCACCGCGCGAT 61.997 57.895 34.63 13.37 0.00 4.58
546 552 5.079643 GGACGGAGGTGGTAATAATAGGTA 58.920 45.833 0.00 0.00 0.00 3.08
547 553 3.899980 GGACGGAGGTGGTAATAATAGGT 59.100 47.826 0.00 0.00 0.00 3.08
549 555 3.571401 ACGGACGGAGGTGGTAATAATAG 59.429 47.826 0.00 0.00 0.00 1.73
550 556 3.565307 ACGGACGGAGGTGGTAATAATA 58.435 45.455 0.00 0.00 0.00 0.98
572 578 1.126948 TGGGGACATGTCAGTGAGCA 61.127 55.000 26.47 0.00 33.40 4.26
593 599 0.818852 TCGTTGGGGGTTTTCGGTTC 60.819 55.000 0.00 0.00 0.00 3.62
691 712 3.827898 GGTCGACGGGAGGCAGAG 61.828 72.222 9.92 0.00 38.29 3.35
695 716 4.267503 GATCGGTCGACGGGAGGC 62.268 72.222 21.27 8.67 44.45 4.70
698 719 3.136123 GGTGATCGGTCGACGGGA 61.136 66.667 21.27 15.57 44.45 5.14
699 720 3.445687 TGGTGATCGGTCGACGGG 61.446 66.667 21.27 10.73 44.45 5.28
700 721 2.202570 GTGGTGATCGGTCGACGG 60.203 66.667 16.37 16.37 44.45 4.79
701 722 1.800315 GTGTGGTGATCGGTCGACG 60.800 63.158 9.92 5.26 46.11 5.12
708 729 1.006688 TCGTGTGGTGTGGTGATCG 60.007 57.895 0.00 0.00 0.00 3.69
715 736 1.738099 GCTAGGCTCGTGTGGTGTG 60.738 63.158 0.00 0.00 0.00 3.82
720 741 2.097038 GCACTGCTAGGCTCGTGTG 61.097 63.158 0.00 0.00 34.83 3.82
748 769 3.653009 CACCAGTGCACCGCTGTG 61.653 66.667 14.63 11.83 45.65 3.66
749 770 4.935495 CCACCAGTGCACCGCTGT 62.935 66.667 14.63 2.58 39.99 4.40
792 813 0.882042 GCAGTGGGTGTCAGTCAGTG 60.882 60.000 0.00 6.03 35.57 3.66
819 840 3.684788 AGCTTTATCGCACAGTAAAGGTG 59.315 43.478 8.29 0.00 43.21 4.00
820 841 3.684788 CAGCTTTATCGCACAGTAAAGGT 59.315 43.478 4.33 4.33 44.73 3.50
834 855 2.749621 CCTCCGCTTTCAACAGCTTTAT 59.250 45.455 0.00 0.00 37.68 1.40
858 879 1.298859 CTTTTTCTCCACCTCCGGCG 61.299 60.000 0.00 0.00 0.00 6.46
891 917 3.695606 GTCTGGTCTCTGGCGCCA 61.696 66.667 30.59 30.59 0.00 5.69
892 918 3.655810 CTGTCTGGTCTCTGGCGCC 62.656 68.421 22.73 22.73 0.00 6.53
896 922 0.894141 CCTGTCTGTCTGGTCTCTGG 59.106 60.000 0.00 0.00 0.00 3.86
949 975 1.130054 AGGAGCAGAAGTGGCAAGGA 61.130 55.000 0.00 0.00 0.00 3.36
990 1018 2.179018 CGAAGCATGGCGGTTTGG 59.821 61.111 0.00 0.00 34.82 3.28
1302 1354 0.035915 GCTGGTTCCCCTTGAGACTC 60.036 60.000 0.00 0.00 0.00 3.36
1305 1357 0.178891 AGAGCTGGTTCCCCTTGAGA 60.179 55.000 0.00 0.00 0.00 3.27
1355 1407 2.513026 GAAGAGCAGCTTGAGCCCGA 62.513 60.000 0.00 0.00 43.38 5.14
1356 1408 2.046507 AAGAGCAGCTTGAGCCCG 60.047 61.111 0.00 0.00 43.38 6.13
1431 1483 2.829458 AGGTCGAGCCGGTAGAGC 60.829 66.667 11.73 10.08 43.70 4.09
1454 1506 2.590575 CGCCGGACAGGTTGTTGT 60.591 61.111 5.05 0.00 43.70 3.32
1696 1749 3.114616 CGCGTTCTGCACCTCCTG 61.115 66.667 0.00 0.00 46.97 3.86
2024 2080 2.154798 CTCCAGTTCGAACCGCCTCA 62.155 60.000 24.22 2.60 0.00 3.86
2037 2093 4.079850 CGCAGCAGCTCCTCCAGT 62.080 66.667 0.00 0.00 39.10 4.00
2094 2150 4.308458 AGCACCGCCTTGTACGCA 62.308 61.111 0.00 0.00 0.00 5.24
2343 2399 3.374058 ACGGAGTTAATGGCGAAGAATTG 59.626 43.478 0.00 0.00 37.78 2.32
2360 2426 1.891060 GCAGCAAGTGTTCGACGGAG 61.891 60.000 0.00 0.00 0.00 4.63
2385 2451 2.149578 CCACCTTCAGTTTCTCAGCAG 58.850 52.381 0.00 0.00 0.00 4.24
2988 3406 1.167155 CGGACCTCGTCGATCATCCT 61.167 60.000 14.28 0.00 32.65 3.24
3146 3564 1.992557 TCAATCAAGCCCCAAGTACCT 59.007 47.619 0.00 0.00 0.00 3.08
3206 3633 1.842562 CACACCAATCCTCCTCCAGAT 59.157 52.381 0.00 0.00 0.00 2.90
3212 3639 1.553690 CGGACCACACCAATCCTCCT 61.554 60.000 0.00 0.00 0.00 3.69
3243 3670 6.179040 TCATCATGTACAACACCATCATCAA 58.821 36.000 0.00 0.00 0.00 2.57
3466 3898 2.147436 AACCGTCGCATTGCAAAAAT 57.853 40.000 1.71 0.00 0.00 1.82
3469 3901 0.101399 ACAAACCGTCGCATTGCAAA 59.899 45.000 1.71 0.00 0.00 3.68
3498 4176 6.636850 CCAGTGCAAAAGTACAGTGTTATTTC 59.363 38.462 0.00 0.00 35.81 2.17
3507 4185 6.017109 ACAAATACTCCAGTGCAAAAGTACAG 60.017 38.462 0.00 0.00 0.00 2.74
3508 4186 5.825679 ACAAATACTCCAGTGCAAAAGTACA 59.174 36.000 0.00 0.00 0.00 2.90
3509 4187 6.017440 TCACAAATACTCCAGTGCAAAAGTAC 60.017 38.462 0.00 0.00 32.25 2.73
3510 4188 6.058833 TCACAAATACTCCAGTGCAAAAGTA 58.941 36.000 0.00 0.00 32.25 2.24
3511 4189 4.887071 TCACAAATACTCCAGTGCAAAAGT 59.113 37.500 0.00 0.00 32.25 2.66
3512 4190 5.437289 TCACAAATACTCCAGTGCAAAAG 57.563 39.130 0.00 0.00 32.25 2.27
3513 4191 5.843673 TTCACAAATACTCCAGTGCAAAA 57.156 34.783 0.00 0.00 32.25 2.44
3514 4192 6.403866 AATTCACAAATACTCCAGTGCAAA 57.596 33.333 0.00 0.00 32.25 3.68
3515 4193 6.040278 TCAAATTCACAAATACTCCAGTGCAA 59.960 34.615 0.00 0.00 32.25 4.08
3516 4194 5.534278 TCAAATTCACAAATACTCCAGTGCA 59.466 36.000 0.00 0.00 32.25 4.57
3517 4195 5.858581 GTCAAATTCACAAATACTCCAGTGC 59.141 40.000 0.00 0.00 32.25 4.40
3518 4196 6.016360 TGGTCAAATTCACAAATACTCCAGTG 60.016 38.462 0.00 0.00 0.00 3.66
3519 4197 6.068010 TGGTCAAATTCACAAATACTCCAGT 58.932 36.000 0.00 0.00 0.00 4.00
3520 4198 6.573664 TGGTCAAATTCACAAATACTCCAG 57.426 37.500 0.00 0.00 0.00 3.86
3521 4199 6.514212 CGTTGGTCAAATTCACAAATACTCCA 60.514 38.462 0.00 0.00 0.00 3.86
3522 4200 5.856455 CGTTGGTCAAATTCACAAATACTCC 59.144 40.000 0.00 0.00 0.00 3.85
3523 4201 5.856455 CCGTTGGTCAAATTCACAAATACTC 59.144 40.000 0.00 0.00 0.00 2.59
3524 4202 5.300792 ACCGTTGGTCAAATTCACAAATACT 59.699 36.000 0.00 0.00 0.00 2.12
3525 4203 5.525199 ACCGTTGGTCAAATTCACAAATAC 58.475 37.500 0.00 0.00 0.00 1.89
3575 4253 6.409524 ACATTGTGTCAATGAACTGGAAAT 57.590 33.333 23.35 1.47 0.00 2.17
3617 4295 6.015027 TGTTCACCGTGAAAAGAAAAGAAA 57.985 33.333 15.52 0.00 38.22 2.52
3618 4296 5.630661 TGTTCACCGTGAAAAGAAAAGAA 57.369 34.783 15.52 0.00 38.22 2.52
3620 4298 6.033341 TGAATGTTCACCGTGAAAAGAAAAG 58.967 36.000 15.52 0.00 38.22 2.27
3625 4303 4.552166 ACTGAATGTTCACCGTGAAAAG 57.448 40.909 15.52 10.44 38.22 2.27
3628 4306 3.275143 ACAACTGAATGTTCACCGTGAA 58.725 40.909 9.99 9.99 36.63 3.18
3634 4312 9.730420 ACAAATTTAGTACAACTGAATGTTCAC 57.270 29.630 0.00 0.00 35.06 3.18
3643 4321 7.411274 TCAACCGAACAAATTTAGTACAACTG 58.589 34.615 0.00 0.00 0.00 3.16
3644 4322 7.556733 TCAACCGAACAAATTTAGTACAACT 57.443 32.000 0.00 0.00 0.00 3.16
3663 4342 6.072112 TGCTAAAACTCTTCATGTTCAACC 57.928 37.500 0.00 0.00 0.00 3.77
3676 4355 3.826729 ACCCAACCAAGATGCTAAAACTC 59.173 43.478 0.00 0.00 0.00 3.01
3683 4362 0.038744 CCTGACCCAACCAAGATGCT 59.961 55.000 0.00 0.00 0.00 3.79
3684 4363 0.251341 ACCTGACCCAACCAAGATGC 60.251 55.000 0.00 0.00 0.00 3.91
3685 4364 1.888512 CAACCTGACCCAACCAAGATG 59.111 52.381 0.00 0.00 0.00 2.90
3686 4365 1.780309 TCAACCTGACCCAACCAAGAT 59.220 47.619 0.00 0.00 0.00 2.40
3687 4366 1.217916 TCAACCTGACCCAACCAAGA 58.782 50.000 0.00 0.00 0.00 3.02
3688 4367 1.681264 GTTCAACCTGACCCAACCAAG 59.319 52.381 0.00 0.00 0.00 3.61
3689 4368 1.006043 TGTTCAACCTGACCCAACCAA 59.994 47.619 0.00 0.00 0.00 3.67
3690 4369 0.626382 TGTTCAACCTGACCCAACCA 59.374 50.000 0.00 0.00 0.00 3.67
3691 4370 1.613437 CATGTTCAACCTGACCCAACC 59.387 52.381 0.00 0.00 0.00 3.77
3692 4371 2.582052 TCATGTTCAACCTGACCCAAC 58.418 47.619 0.00 0.00 0.00 3.77
3693 4372 3.117701 TCTTCATGTTCAACCTGACCCAA 60.118 43.478 0.00 0.00 0.00 4.12
3694 4373 2.441375 TCTTCATGTTCAACCTGACCCA 59.559 45.455 0.00 0.00 0.00 4.51
3696 4375 3.744660 ACTCTTCATGTTCAACCTGACC 58.255 45.455 0.00 0.00 0.00 4.02
3697 4376 5.757850 AAACTCTTCATGTTCAACCTGAC 57.242 39.130 0.00 0.00 0.00 3.51
3698 4377 6.017109 GCTAAAACTCTTCATGTTCAACCTGA 60.017 38.462 0.00 0.00 0.00 3.86
3699 4378 6.145535 GCTAAAACTCTTCATGTTCAACCTG 58.854 40.000 0.00 0.00 0.00 4.00
3700 4379 5.827797 TGCTAAAACTCTTCATGTTCAACCT 59.172 36.000 0.00 0.00 0.00 3.50
3701 4380 6.072112 TGCTAAAACTCTTCATGTTCAACC 57.928 37.500 0.00 0.00 0.00 3.77
3702 4381 7.588512 AGATGCTAAAACTCTTCATGTTCAAC 58.411 34.615 0.00 0.00 0.00 3.18
3703 4382 7.750229 AGATGCTAAAACTCTTCATGTTCAA 57.250 32.000 0.00 0.00 0.00 2.69
3704 4383 7.308770 CCAAGATGCTAAAACTCTTCATGTTCA 60.309 37.037 0.00 0.00 0.00 3.18
3707 4386 6.006449 ACCAAGATGCTAAAACTCTTCATGT 58.994 36.000 0.00 0.00 0.00 3.21
3708 4387 6.506500 ACCAAGATGCTAAAACTCTTCATG 57.493 37.500 0.00 0.00 0.00 3.07
3710 4389 5.241506 CCAACCAAGATGCTAAAACTCTTCA 59.758 40.000 0.00 0.00 0.00 3.02
3711 4390 5.335976 CCCAACCAAGATGCTAAAACTCTTC 60.336 44.000 0.00 0.00 0.00 2.87
3712 4391 4.524328 CCCAACCAAGATGCTAAAACTCTT 59.476 41.667 0.00 0.00 0.00 2.85
3713 4392 4.082125 CCCAACCAAGATGCTAAAACTCT 58.918 43.478 0.00 0.00 0.00 3.24
3714 4393 3.826729 ACCCAACCAAGATGCTAAAACTC 59.173 43.478 0.00 0.00 0.00 3.01
3716 4395 3.826729 AGACCCAACCAAGATGCTAAAAC 59.173 43.478 0.00 0.00 0.00 2.43
3717 4396 4.112634 AGACCCAACCAAGATGCTAAAA 57.887 40.909 0.00 0.00 0.00 1.52
3718 4397 3.806949 AGACCCAACCAAGATGCTAAA 57.193 42.857 0.00 0.00 0.00 1.85
3719 4398 4.227300 ACATAGACCCAACCAAGATGCTAA 59.773 41.667 0.00 0.00 0.00 3.09
3721 4400 2.578021 ACATAGACCCAACCAAGATGCT 59.422 45.455 0.00 0.00 0.00 3.79
3724 4403 3.369471 CGTCACATAGACCCAACCAAGAT 60.369 47.826 0.00 0.00 44.66 2.40
3725 4404 2.028476 CGTCACATAGACCCAACCAAGA 60.028 50.000 0.00 0.00 44.66 3.02
3726 4405 2.346803 CGTCACATAGACCCAACCAAG 58.653 52.381 0.00 0.00 44.66 3.61
3727 4406 1.002659 CCGTCACATAGACCCAACCAA 59.997 52.381 0.00 0.00 44.66 3.67
3736 4454 2.379005 AGATCACAGCCGTCACATAGA 58.621 47.619 0.00 0.00 0.00 1.98
3739 4457 2.036475 GGATAGATCACAGCCGTCACAT 59.964 50.000 0.00 0.00 0.00 3.21
3741 4459 1.683917 AGGATAGATCACAGCCGTCAC 59.316 52.381 0.00 0.00 0.00 3.67
3749 4467 5.485353 GGATACATTCCCAGGATAGATCACA 59.515 44.000 0.00 0.00 38.75 3.58
3750 4468 5.394663 CGGATACATTCCCAGGATAGATCAC 60.395 48.000 0.00 0.00 42.06 3.06
3758 4476 1.128200 CACCGGATACATTCCCAGGA 58.872 55.000 9.46 0.00 42.06 3.86
3759 4477 0.535102 GCACCGGATACATTCCCAGG 60.535 60.000 9.46 0.00 42.06 4.45
3762 4480 0.759346 AGAGCACCGGATACATTCCC 59.241 55.000 9.46 0.00 42.06 3.97
3766 4484 1.620819 GGATGAGAGCACCGGATACAT 59.379 52.381 9.46 4.74 0.00 2.29
3771 4489 0.904865 ACAAGGATGAGAGCACCGGA 60.905 55.000 9.46 0.00 0.00 5.14
3773 4491 0.742281 CCACAAGGATGAGAGCACCG 60.742 60.000 0.00 0.00 36.89 4.94
3781 4499 0.249120 CGGTAGCACCACAAGGATGA 59.751 55.000 6.21 0.00 38.47 2.92
3800 4518 1.956170 CTACGCCATCCGATGCACC 60.956 63.158 2.53 0.00 41.02 5.01
3808 4526 7.871853 ACATTTCAAAATATACTACGCCATCC 58.128 34.615 0.00 0.00 0.00 3.51
3835 4553 4.215185 TGCGTCAATGTGCTAGATTTTTCA 59.785 37.500 0.00 0.00 0.00 2.69
3846 4564 2.049077 TTGATGTTGCGTCAATGTGC 57.951 45.000 0.18 0.00 34.89 4.57
3856 4574 4.331443 TGTGACGGTATACATTGATGTTGC 59.669 41.667 5.01 0.00 41.97 4.17
3857 4575 6.415798 TTGTGACGGTATACATTGATGTTG 57.584 37.500 5.01 0.00 41.97 3.33
3871 4589 5.776173 TTGGTATGAAATTTTGTGACGGT 57.224 34.783 0.00 0.00 0.00 4.83
3874 4592 8.641499 TGACTTTTGGTATGAAATTTTGTGAC 57.359 30.769 0.00 0.00 0.00 3.67
3890 4608 4.358851 TCGAGCAATGTTTTGACTTTTGG 58.641 39.130 0.00 0.00 34.60 3.28
3891 4609 5.273170 TCTCGAGCAATGTTTTGACTTTTG 58.727 37.500 7.81 0.00 34.60 2.44
3899 4617 7.496920 TCATTCTCATATCTCGAGCAATGTTTT 59.503 33.333 19.80 7.24 33.93 2.43
3935 4653 7.011994 AGATTTGGCCCATAATCACATTGATA 58.988 34.615 18.85 0.00 35.76 2.15
3992 4710 6.145371 CGGGAAACAAAAATGACAAATTCGAT 59.855 34.615 0.00 0.00 0.00 3.59
3995 4713 5.049749 CCCGGGAAACAAAAATGACAAATTC 60.050 40.000 18.48 0.00 0.00 2.17
3997 4715 4.384940 CCCGGGAAACAAAAATGACAAAT 58.615 39.130 18.48 0.00 0.00 2.32
4015 4733 2.757868 TGAAATCCAAAACATAGCCCGG 59.242 45.455 0.00 0.00 0.00 5.73


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

AutoCloner maintained by Alex Coulton.