Multiple sequence alignment - TraesCS2B01G244100

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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 TraesCS2B01G244100 chr2B 100.000 2720 0 0 1 2720 248136078 248138797 0.000000e+00 5024.0
1 TraesCS2B01G244100 chr2B 97.484 636 14 2 1 635 777172746 777172112 0.000000e+00 1085.0
2 TraesCS2B01G244100 chr2B 76.923 325 57 13 1003 1319 728398394 728398080 4.660000e-38 169.0
3 TraesCS2B01G244100 chr2D 95.031 966 17 10 783 1721 192186695 192185734 0.000000e+00 1489.0
4 TraesCS2B01G244100 chr2D 81.534 639 35 17 1718 2327 192185709 192185125 1.490000e-122 449.0
5 TraesCS2B01G244100 chr2D 85.034 294 20 8 2425 2717 192185132 192184862 7.420000e-71 278.0
6 TraesCS2B01G244100 chr2D 98.182 110 2 0 2320 2429 382457171 382457280 2.760000e-45 193.0
7 TraesCS2B01G244100 chr2D 97.297 111 3 0 2317 2427 63660066 63660176 3.580000e-44 189.0
8 TraesCS2B01G244100 chr2A 97.122 834 24 0 888 1721 205910808 205911641 0.000000e+00 1408.0
9 TraesCS2B01G244100 chr2A 85.185 297 17 13 2425 2718 205914162 205914434 2.060000e-71 279.0
10 TraesCS2B01G244100 chr2A 84.667 300 16 6 1843 2140 205913596 205913867 3.450000e-69 272.0
11 TraesCS2B01G244100 chr2A 86.631 187 7 2 453 638 698125024 698124855 9.940000e-45 191.0
12 TraesCS2B01G244100 chr2A 97.727 88 2 0 1718 1805 205913322 205913409 4.690000e-33 152.0
13 TraesCS2B01G244100 chr2A 87.826 115 11 1 2140 2251 205913954 205914068 6.110000e-27 132.0
14 TraesCS2B01G244100 chr2A 84.091 132 15 3 637 767 205910004 205910130 3.680000e-24 122.0
15 TraesCS2B01G244100 chr2A 94.737 57 2 1 1792 1847 205913457 205913513 1.340000e-13 87.9
16 TraesCS2B01G244100 chr1B 97.327 636 15 2 1 635 33935677 33936311 0.000000e+00 1079.0
17 TraesCS2B01G244100 chr1B 74.882 633 128 26 1003 1623 349547301 349546688 2.690000e-65 259.0
18 TraesCS2B01G244100 chr5B 96.557 639 20 2 1 637 118947360 118947998 0.000000e+00 1057.0
19 TraesCS2B01G244100 chr5B 85.294 68 10 0 238 305 527598127 527598194 1.350000e-08 71.3
20 TraesCS2B01G244100 chr3B 94.479 634 34 1 1 633 553569305 553569938 0.000000e+00 976.0
21 TraesCS2B01G244100 chr5D 93.427 639 37 5 1 636 353842414 353841778 0.000000e+00 942.0
22 TraesCS2B01G244100 chr5D 76.161 323 61 12 1003 1319 25042321 25042633 3.630000e-34 156.0
23 TraesCS2B01G244100 chr5D 88.235 68 8 0 238 305 434563982 434564049 6.240000e-12 82.4
24 TraesCS2B01G244100 chr3A 78.501 707 116 21 999 1687 107047943 107048631 5.380000e-117 431.0
25 TraesCS2B01G244100 chr4A 92.857 252 3 3 387 636 656499875 656500113 4.310000e-93 351.0
26 TraesCS2B01G244100 chr4A 73.913 667 137 29 1003 1651 5115255 5114608 1.630000e-57 233.0
27 TraesCS2B01G244100 chr4A 94.400 125 4 2 2320 2444 593739023 593739144 3.580000e-44 189.0
28 TraesCS2B01G244100 chr4A 95.726 117 3 2 2312 2427 278329145 278329260 1.290000e-43 187.0
29 TraesCS2B01G244100 chr4A 91.489 47 4 0 259 305 706101856 706101902 6.290000e-07 65.8
30 TraesCS2B01G244100 chr1A 74.961 635 127 27 1003 1623 337658533 337657917 2.080000e-66 263.0
31 TraesCS2B01G244100 chr1A 98.165 109 2 0 2321 2429 294516520 294516628 9.940000e-45 191.0
32 TraesCS2B01G244100 chr1A 80.784 255 39 6 1067 1319 337629745 337629499 9.940000e-45 191.0
33 TraesCS2B01G244100 chr1A 90.299 134 13 0 2315 2448 441770482 441770349 2.780000e-40 176.0
34 TraesCS2B01G244100 chr4D 74.392 617 123 26 1003 1605 465357896 465358491 5.860000e-57 231.0
35 TraesCS2B01G244100 chr1D 82.609 253 38 3 1067 1319 262341552 262341798 4.560000e-53 219.0
36 TraesCS2B01G244100 chr5A 97.321 112 3 0 2318 2429 69844897 69844786 9.940000e-45 191.0
37 TraesCS2B01G244100 chr5A 74.841 314 58 16 1003 1306 17628655 17628957 3.680000e-24 122.0
38 TraesCS2B01G244100 chr7A 97.297 111 3 0 2319 2429 165853904 165854014 3.580000e-44 189.0
39 TraesCS2B01G244100 chr7B 91.045 134 8 4 2321 2454 78552160 78552031 7.740000e-41 178.0
40 TraesCS2B01G244100 chrUn 91.489 47 4 0 259 305 359189541 359189587 6.290000e-07 65.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G244100 chr2B 248136078 248138797 2719 False 5024.000000 5024 100.000000 1 2720 1 chr2B.!!$F1 2719
1 TraesCS2B01G244100 chr2B 777172112 777172746 634 True 1085.000000 1085 97.484000 1 635 1 chr2B.!!$R2 634
2 TraesCS2B01G244100 chr2D 192184862 192186695 1833 True 738.666667 1489 87.199667 783 2717 3 chr2D.!!$R1 1934
3 TraesCS2B01G244100 chr2A 205910004 205914434 4430 False 350.414286 1408 90.193571 637 2718 7 chr2A.!!$F1 2081
4 TraesCS2B01G244100 chr1B 33935677 33936311 634 False 1079.000000 1079 97.327000 1 635 1 chr1B.!!$F1 634
5 TraesCS2B01G244100 chr1B 349546688 349547301 613 True 259.000000 259 74.882000 1003 1623 1 chr1B.!!$R1 620
6 TraesCS2B01G244100 chr5B 118947360 118947998 638 False 1057.000000 1057 96.557000 1 637 1 chr5B.!!$F1 636
7 TraesCS2B01G244100 chr3B 553569305 553569938 633 False 976.000000 976 94.479000 1 633 1 chr3B.!!$F1 632
8 TraesCS2B01G244100 chr5D 353841778 353842414 636 True 942.000000 942 93.427000 1 636 1 chr5D.!!$R1 635
9 TraesCS2B01G244100 chr3A 107047943 107048631 688 False 431.000000 431 78.501000 999 1687 1 chr3A.!!$F1 688
10 TraesCS2B01G244100 chr4A 5114608 5115255 647 True 233.000000 233 73.913000 1003 1651 1 chr4A.!!$R1 648
11 TraesCS2B01G244100 chr1A 337657917 337658533 616 True 263.000000 263 74.961000 1003 1623 1 chr1A.!!$R2 620
12 TraesCS2B01G244100 chr4D 465357896 465358491 595 False 231.000000 231 74.392000 1003 1605 1 chr4D.!!$F1 602

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
694 697 0.162294 GTCCGCGGACTTTTACAACG 59.838 55.0 43.32 7.45 41.57 4.1 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2586 5156 0.110295 TGTATTGTGCTGCCACTGGT 59.89 50.0 0.0 0.0 42.54 4.0 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
234 235 4.401925 TGATGGCTCTATCATCTTCTCGA 58.598 43.478 0.00 0.00 41.01 4.04
256 257 2.568509 CCTACCGGGTTCTTTTCCACTA 59.431 50.000 4.31 0.00 0.00 2.74
355 356 5.974158 CGGTATGAGTACAATCAGACTCTTG 59.026 44.000 9.06 0.00 42.21 3.02
362 363 5.712446 AGTACAATCAGACTCTTGAGTAGCA 59.288 40.000 3.00 0.00 0.00 3.49
406 407 2.866762 GTTTGTCCAGATCCGTCTATGC 59.133 50.000 0.00 0.00 32.09 3.14
421 422 1.066605 CTATGCCCATCTTGTTGCTGC 59.933 52.381 0.00 0.00 0.00 5.25
668 671 2.474526 CGTGGTGAGAATTCGAATGCAC 60.475 50.000 18.45 20.27 0.00 4.57
670 673 1.999735 GGTGAGAATTCGAATGCACGA 59.000 47.619 18.45 0.00 40.55 4.35
676 679 3.188773 TTCGAATGCACGAACGAGT 57.811 47.368 7.96 0.00 45.21 4.18
677 680 1.057636 TTCGAATGCACGAACGAGTC 58.942 50.000 7.96 0.00 45.21 3.36
678 681 0.731514 TCGAATGCACGAACGAGTCC 60.732 55.000 0.14 0.00 39.34 3.85
679 682 1.702299 GAATGCACGAACGAGTCCG 59.298 57.895 0.14 0.00 42.50 4.79
680 683 2.279937 GAATGCACGAACGAGTCCGC 62.280 60.000 0.14 0.00 39.95 5.54
694 697 0.162294 GTCCGCGGACTTTTACAACG 59.838 55.000 43.32 7.45 41.57 4.10
701 704 1.398071 GGACTTTTACAACGCTGCGTC 60.398 52.381 29.07 11.98 39.99 5.19
713 716 1.136363 CGCTGCGTCGAATGAAGAAAA 60.136 47.619 14.93 0.00 0.00 2.29
744 748 2.808321 GCGTCGGTCCGGACTTTC 60.808 66.667 32.52 20.48 34.75 2.62
763 767 4.016706 CGGGAGCGTTTGAGGGGT 62.017 66.667 0.00 0.00 0.00 4.95
767 771 1.235281 GGAGCGTTTGAGGGGTTGTC 61.235 60.000 0.00 0.00 0.00 3.18
768 772 1.566018 GAGCGTTTGAGGGGTTGTCG 61.566 60.000 0.00 0.00 0.00 4.35
779 1054 1.439679 GGGTTGTCGGTCTGCTTAAG 58.560 55.000 0.00 0.00 0.00 1.85
813 1088 1.138266 AGTAAACCGATGCCGCACTAT 59.862 47.619 0.00 0.00 0.00 2.12
814 1089 2.363038 AGTAAACCGATGCCGCACTATA 59.637 45.455 0.00 0.00 0.00 1.31
815 1090 1.865865 AAACCGATGCCGCACTATAG 58.134 50.000 0.00 0.00 0.00 1.31
816 1091 0.600255 AACCGATGCCGCACTATAGC 60.600 55.000 0.00 0.00 0.00 2.97
818 1093 1.284982 CCGATGCCGCACTATAGCAC 61.285 60.000 0.00 0.00 39.77 4.40
819 1094 1.608966 CGATGCCGCACTATAGCACG 61.609 60.000 0.00 3.82 39.77 5.34
820 1095 0.597637 GATGCCGCACTATAGCACGT 60.598 55.000 12.42 0.00 39.77 4.49
821 1096 0.875908 ATGCCGCACTATAGCACGTG 60.876 55.000 12.28 12.28 39.77 4.49
822 1097 1.518572 GCCGCACTATAGCACGTGT 60.519 57.895 18.38 6.65 33.78 4.49
834 1365 2.766313 AGCACGTGTCTGATAGCAAAA 58.234 42.857 18.38 0.00 0.00 2.44
835 1366 2.738846 AGCACGTGTCTGATAGCAAAAG 59.261 45.455 18.38 0.00 0.00 2.27
836 1367 2.480419 GCACGTGTCTGATAGCAAAAGT 59.520 45.455 18.38 0.00 0.00 2.66
837 1368 3.423645 GCACGTGTCTGATAGCAAAAGTC 60.424 47.826 18.38 0.00 0.00 3.01
838 1369 3.990469 CACGTGTCTGATAGCAAAAGTCT 59.010 43.478 7.58 0.00 0.00 3.24
840 1371 3.990469 CGTGTCTGATAGCAAAAGTCTGT 59.010 43.478 0.00 0.00 0.00 3.41
841 1372 4.090642 CGTGTCTGATAGCAAAAGTCTGTC 59.909 45.833 0.00 0.00 0.00 3.51
842 1373 5.233988 GTGTCTGATAGCAAAAGTCTGTCT 58.766 41.667 0.00 0.00 0.00 3.41
843 1374 5.347364 GTGTCTGATAGCAAAAGTCTGTCTC 59.653 44.000 0.00 0.00 0.00 3.36
844 1375 4.560819 GTCTGATAGCAAAAGTCTGTCTCG 59.439 45.833 0.00 0.00 0.00 4.04
881 1419 5.039920 TGGAGTATTGAGGAATCACATGG 57.960 43.478 0.00 0.00 0.00 3.66
899 1437 4.039124 ACATGGTCATATAGCACGTGATCA 59.961 41.667 22.23 5.55 38.70 2.92
930 1511 7.613411 CCAACTATATAGTACCCCAGTAGTACC 59.387 44.444 15.74 0.00 40.83 3.34
1774 4070 2.678336 GCCTGTACCAATAACTGAGCAC 59.322 50.000 0.00 0.00 0.00 4.40
1834 4191 5.857822 ATGCACTTTCTCTACCGTAAAAC 57.142 39.130 0.00 0.00 0.00 2.43
1836 4193 3.737774 GCACTTTCTCTACCGTAAAACGT 59.262 43.478 0.00 0.00 40.58 3.99
1936 4382 5.871524 TCTCATGTTAGCAACTCTTCATCAC 59.128 40.000 0.00 0.00 0.00 3.06
2000 4447 2.485426 TGCTCGATCAAAGAAAAGGCAG 59.515 45.455 0.00 0.00 0.00 4.85
2001 4448 2.730402 GCTCGATCAAAGAAAAGGCAGC 60.730 50.000 0.00 0.00 0.00 5.25
2002 4449 1.812571 TCGATCAAAGAAAAGGCAGCC 59.187 47.619 1.84 1.84 0.00 4.85
2003 4450 1.466360 CGATCAAAGAAAAGGCAGCCG 60.466 52.381 5.55 0.00 0.00 5.52
2004 4451 0.244721 ATCAAAGAAAAGGCAGCCGC 59.755 50.000 5.55 0.00 37.44 6.53
2014 4461 4.733542 GCAGCCGCCTGGGGTTAA 62.734 66.667 10.09 0.00 46.87 2.01
2015 4462 2.438434 CAGCCGCCTGGGGTTAAG 60.438 66.667 10.09 0.00 46.87 1.85
2016 4463 4.426313 AGCCGCCTGGGGTTAAGC 62.426 66.667 10.09 5.86 46.87 3.09
2043 4490 5.030295 CGCTGGTTTTGCTGAATAATACTG 58.970 41.667 0.00 0.00 0.00 2.74
2044 4491 5.391950 CGCTGGTTTTGCTGAATAATACTGT 60.392 40.000 0.00 0.00 0.00 3.55
2045 4492 6.183360 CGCTGGTTTTGCTGAATAATACTGTA 60.183 38.462 0.00 0.00 0.00 2.74
2046 4493 6.967199 GCTGGTTTTGCTGAATAATACTGTAC 59.033 38.462 0.00 0.00 0.00 2.90
2047 4494 7.385778 TGGTTTTGCTGAATAATACTGTACC 57.614 36.000 0.00 0.00 0.00 3.34
2048 4495 6.943146 TGGTTTTGCTGAATAATACTGTACCA 59.057 34.615 0.00 0.00 0.00 3.25
2049 4496 7.094549 TGGTTTTGCTGAATAATACTGTACCAC 60.095 37.037 0.00 0.00 0.00 4.16
2050 4497 7.120726 GGTTTTGCTGAATAATACTGTACCACT 59.879 37.037 0.00 0.00 0.00 4.00
2085 4532 2.535331 GGCAAAAGAAAACGAAGTGCA 58.465 42.857 0.00 0.00 45.00 4.57
2088 4535 2.492019 AAAGAAAACGAAGTGCAGGC 57.508 45.000 0.00 0.00 45.00 4.85
2104 4551 3.621268 TGCAGGCGAGTCATGTTATAAAC 59.379 43.478 0.00 0.00 0.00 2.01
2110 4557 4.442706 CGAGTCATGTTATAAACAGCCCT 58.557 43.478 0.00 0.00 45.95 5.19
2144 4682 8.101654 ACTCTTAGAAGATGCCTTATAGTACG 57.898 38.462 0.00 0.00 33.93 3.67
2150 4688 5.950758 AGATGCCTTATAGTACGAGACAG 57.049 43.478 0.00 0.00 0.00 3.51
2207 4745 3.067180 GGGTTGGACAATATGCTGACATG 59.933 47.826 0.00 0.00 37.04 3.21
2236 4777 8.269424 GTGTGAATAATAAGCACTAATCAGTCG 58.731 37.037 0.00 0.00 33.83 4.18
2245 4786 4.814234 AGCACTAATCAGTCGTTTGTCAAA 59.186 37.500 0.00 0.00 30.46 2.69
2271 4839 9.717942 ATCAGCTTAGAGTGGAAAATATACATC 57.282 33.333 0.00 0.00 0.00 3.06
2293 4863 2.359975 GGGGAAACTGCGAGTGGG 60.360 66.667 0.00 0.00 0.00 4.61
2327 4897 3.541632 CGGCATAAAACATGTACTCCCT 58.458 45.455 0.00 0.00 0.00 4.20
2328 4898 3.560068 CGGCATAAAACATGTACTCCCTC 59.440 47.826 0.00 0.00 0.00 4.30
2329 4899 3.883489 GGCATAAAACATGTACTCCCTCC 59.117 47.826 0.00 0.00 0.00 4.30
2330 4900 3.560068 GCATAAAACATGTACTCCCTCCG 59.440 47.826 0.00 0.00 0.00 4.63
2331 4901 4.766375 CATAAAACATGTACTCCCTCCGT 58.234 43.478 0.00 0.00 0.00 4.69
2332 4902 3.782656 AAAACATGTACTCCCTCCGTT 57.217 42.857 0.00 0.00 0.00 4.44
2333 4903 3.329929 AAACATGTACTCCCTCCGTTC 57.670 47.619 0.00 0.00 0.00 3.95
2334 4904 1.192428 ACATGTACTCCCTCCGTTCC 58.808 55.000 0.00 0.00 0.00 3.62
2335 4905 1.191535 CATGTACTCCCTCCGTTCCA 58.808 55.000 0.00 0.00 0.00 3.53
2336 4906 1.553248 CATGTACTCCCTCCGTTCCAA 59.447 52.381 0.00 0.00 0.00 3.53
2337 4907 1.719529 TGTACTCCCTCCGTTCCAAA 58.280 50.000 0.00 0.00 0.00 3.28
2338 4908 2.262637 TGTACTCCCTCCGTTCCAAAT 58.737 47.619 0.00 0.00 0.00 2.32
2339 4909 2.640826 TGTACTCCCTCCGTTCCAAATT 59.359 45.455 0.00 0.00 0.00 1.82
2340 4910 3.839490 TGTACTCCCTCCGTTCCAAATTA 59.161 43.478 0.00 0.00 0.00 1.40
2341 4911 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
2342 4912 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
2343 4913 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
2344 4914 2.093869 TCCCTCCGTTCCAAATTACTCG 60.094 50.000 0.00 0.00 0.00 4.18
2345 4915 2.354403 CCCTCCGTTCCAAATTACTCGT 60.354 50.000 0.00 0.00 0.00 4.18
2346 4916 2.928116 CCTCCGTTCCAAATTACTCGTC 59.072 50.000 0.00 0.00 0.00 4.20
2347 4917 2.597305 CTCCGTTCCAAATTACTCGTCG 59.403 50.000 0.00 0.00 0.00 5.12
2348 4918 1.060122 CCGTTCCAAATTACTCGTCGC 59.940 52.381 0.00 0.00 0.00 5.19
2349 4919 1.722464 CGTTCCAAATTACTCGTCGCA 59.278 47.619 0.00 0.00 0.00 5.10
2350 4920 2.156117 CGTTCCAAATTACTCGTCGCAA 59.844 45.455 0.00 0.00 0.00 4.85
2351 4921 3.363182 CGTTCCAAATTACTCGTCGCAAA 60.363 43.478 0.00 0.00 0.00 3.68
2352 4922 4.529446 GTTCCAAATTACTCGTCGCAAAA 58.471 39.130 0.00 0.00 0.00 2.44
2353 4923 4.815040 TCCAAATTACTCGTCGCAAAAA 57.185 36.364 0.00 0.00 0.00 1.94
2354 4924 5.365403 TCCAAATTACTCGTCGCAAAAAT 57.635 34.783 0.00 0.00 0.00 1.82
2355 4925 5.150683 TCCAAATTACTCGTCGCAAAAATG 58.849 37.500 0.00 0.00 0.00 2.32
2356 4926 4.323336 CCAAATTACTCGTCGCAAAAATGG 59.677 41.667 0.00 0.00 0.00 3.16
2357 4927 5.150683 CAAATTACTCGTCGCAAAAATGGA 58.849 37.500 0.00 0.00 0.00 3.41
2358 4928 5.560966 AATTACTCGTCGCAAAAATGGAT 57.439 34.783 0.00 0.00 0.00 3.41
2359 4929 2.900122 ACTCGTCGCAAAAATGGATG 57.100 45.000 0.00 0.00 0.00 3.51
2360 4930 2.151202 ACTCGTCGCAAAAATGGATGT 58.849 42.857 0.00 0.00 0.00 3.06
2361 4931 3.331150 ACTCGTCGCAAAAATGGATGTA 58.669 40.909 0.00 0.00 0.00 2.29
2362 4932 3.938963 ACTCGTCGCAAAAATGGATGTAT 59.061 39.130 0.00 0.00 0.00 2.29
2363 4933 4.034048 ACTCGTCGCAAAAATGGATGTATC 59.966 41.667 0.00 0.00 0.00 2.24
2364 4934 4.188462 TCGTCGCAAAAATGGATGTATCT 58.812 39.130 0.00 0.00 0.00 1.98
2365 4935 5.353111 TCGTCGCAAAAATGGATGTATCTA 58.647 37.500 0.00 0.00 0.00 1.98
2366 4936 5.462068 TCGTCGCAAAAATGGATGTATCTAG 59.538 40.000 0.00 0.00 0.00 2.43
2367 4937 5.462068 CGTCGCAAAAATGGATGTATCTAGA 59.538 40.000 0.00 0.00 0.00 2.43
2368 4938 6.019075 CGTCGCAAAAATGGATGTATCTAGAA 60.019 38.462 0.00 0.00 0.00 2.10
2369 4939 7.126398 GTCGCAAAAATGGATGTATCTAGAAC 58.874 38.462 0.00 0.00 0.00 3.01
2370 4940 7.011482 GTCGCAAAAATGGATGTATCTAGAACT 59.989 37.037 0.00 0.00 0.00 3.01
2371 4941 8.201464 TCGCAAAAATGGATGTATCTAGAACTA 58.799 33.333 0.00 0.00 0.00 2.24
2372 4942 8.826710 CGCAAAAATGGATGTATCTAGAACTAA 58.173 33.333 0.00 0.00 0.00 2.24
2400 4970 7.867305 ACATCTAGATACATCCATACCTACG 57.133 40.000 4.54 0.00 0.00 3.51
2401 4971 7.631007 ACATCTAGATACATCCATACCTACGA 58.369 38.462 4.54 0.00 0.00 3.43
2402 4972 7.553402 ACATCTAGATACATCCATACCTACGAC 59.447 40.741 4.54 0.00 0.00 4.34
2403 4973 7.012661 TCTAGATACATCCATACCTACGACA 57.987 40.000 0.00 0.00 0.00 4.35
2404 4974 7.455891 TCTAGATACATCCATACCTACGACAA 58.544 38.462 0.00 0.00 0.00 3.18
2405 4975 6.576662 AGATACATCCATACCTACGACAAG 57.423 41.667 0.00 0.00 0.00 3.16
2406 4976 6.069331 AGATACATCCATACCTACGACAAGT 58.931 40.000 0.00 0.00 0.00 3.16
2407 4977 7.229308 AGATACATCCATACCTACGACAAGTA 58.771 38.462 0.00 0.00 0.00 2.24
2408 4978 7.722728 AGATACATCCATACCTACGACAAGTAA 59.277 37.037 0.00 0.00 34.45 2.24
2409 4979 6.726490 ACATCCATACCTACGACAAGTAAT 57.274 37.500 0.00 0.00 34.45 1.89
2410 4980 7.120923 ACATCCATACCTACGACAAGTAATT 57.879 36.000 0.00 0.00 34.45 1.40
2411 4981 7.208080 ACATCCATACCTACGACAAGTAATTC 58.792 38.462 0.00 0.00 34.45 2.17
2412 4982 5.824429 TCCATACCTACGACAAGTAATTCG 58.176 41.667 0.00 0.00 41.14 3.34
2413 4983 4.980434 CCATACCTACGACAAGTAATTCGG 59.020 45.833 0.00 0.00 39.63 4.30
2414 4984 5.221106 CCATACCTACGACAAGTAATTCGGA 60.221 44.000 0.00 0.00 39.63 4.55
2415 4985 4.789012 ACCTACGACAAGTAATTCGGAA 57.211 40.909 0.00 0.00 39.63 4.30
2416 4986 4.488879 ACCTACGACAAGTAATTCGGAAC 58.511 43.478 0.00 0.00 39.63 3.62
2417 4987 4.022068 ACCTACGACAAGTAATTCGGAACA 60.022 41.667 0.00 0.00 39.63 3.18
2418 4988 4.561606 CCTACGACAAGTAATTCGGAACAG 59.438 45.833 0.00 0.00 39.63 3.16
2419 4989 4.247267 ACGACAAGTAATTCGGAACAGA 57.753 40.909 0.00 0.00 39.63 3.41
2420 4990 4.235360 ACGACAAGTAATTCGGAACAGAG 58.765 43.478 0.00 0.00 39.63 3.35
2421 4991 3.612860 CGACAAGTAATTCGGAACAGAGG 59.387 47.826 0.00 0.00 0.00 3.69
2422 4992 3.933332 GACAAGTAATTCGGAACAGAGGG 59.067 47.826 0.00 0.00 0.00 4.30
2423 4993 3.581332 ACAAGTAATTCGGAACAGAGGGA 59.419 43.478 0.00 0.00 0.00 4.20
2424 4994 4.184629 CAAGTAATTCGGAACAGAGGGAG 58.815 47.826 0.00 0.00 0.00 4.30
2425 4995 3.442076 AGTAATTCGGAACAGAGGGAGT 58.558 45.455 0.00 0.00 0.00 3.85
2426 4996 4.607239 AGTAATTCGGAACAGAGGGAGTA 58.393 43.478 0.00 0.00 0.00 2.59
2427 4997 3.889520 AATTCGGAACAGAGGGAGTAC 57.110 47.619 0.00 0.00 0.00 2.73
2428 4998 2.599408 TTCGGAACAGAGGGAGTACT 57.401 50.000 0.00 0.00 0.00 2.73
2429 4999 2.125773 TCGGAACAGAGGGAGTACTC 57.874 55.000 14.87 14.87 37.77 2.59
2516 5086 4.370364 AACAACACGACTGCAAAATTCT 57.630 36.364 0.00 0.00 0.00 2.40
2517 5087 3.952535 ACAACACGACTGCAAAATTCTC 58.047 40.909 0.00 0.00 0.00 2.87
2518 5088 3.627577 ACAACACGACTGCAAAATTCTCT 59.372 39.130 0.00 0.00 0.00 3.10
2519 5089 4.214437 CAACACGACTGCAAAATTCTCTC 58.786 43.478 0.00 0.00 0.00 3.20
2520 5090 3.466836 ACACGACTGCAAAATTCTCTCA 58.533 40.909 0.00 0.00 0.00 3.27
2521 5091 3.876914 ACACGACTGCAAAATTCTCTCAA 59.123 39.130 0.00 0.00 0.00 3.02
2522 5092 4.214437 CACGACTGCAAAATTCTCTCAAC 58.786 43.478 0.00 0.00 0.00 3.18
2523 5093 4.024556 CACGACTGCAAAATTCTCTCAACT 60.025 41.667 0.00 0.00 0.00 3.16
2524 5094 4.576463 ACGACTGCAAAATTCTCTCAACTT 59.424 37.500 0.00 0.00 0.00 2.66
2525 5095 5.066505 ACGACTGCAAAATTCTCTCAACTTT 59.933 36.000 0.00 0.00 0.00 2.66
2526 5096 5.397534 CGACTGCAAAATTCTCTCAACTTTG 59.602 40.000 0.00 0.00 0.00 2.77
2527 5097 6.455360 ACTGCAAAATTCTCTCAACTTTGA 57.545 33.333 0.00 0.00 35.57 2.69
2528 5098 6.866480 ACTGCAAAATTCTCTCAACTTTGAA 58.134 32.000 0.00 0.00 36.64 2.69
2529 5099 6.976925 ACTGCAAAATTCTCTCAACTTTGAAG 59.023 34.615 0.00 0.00 38.23 3.02
2530 5100 7.099266 TGCAAAATTCTCTCAACTTTGAAGA 57.901 32.000 0.00 0.00 36.64 2.87
2531 5101 6.974622 TGCAAAATTCTCTCAACTTTGAAGAC 59.025 34.615 0.00 0.00 36.64 3.01
2532 5102 7.148018 TGCAAAATTCTCTCAACTTTGAAGACT 60.148 33.333 0.00 0.00 36.64 3.24
2533 5103 7.704047 GCAAAATTCTCTCAACTTTGAAGACTT 59.296 33.333 0.00 0.00 36.64 3.01
2534 5104 9.017669 CAAAATTCTCTCAACTTTGAAGACTTG 57.982 33.333 0.00 0.00 36.64 3.16
2535 5105 5.741388 TTCTCTCAACTTTGAAGACTTGC 57.259 39.130 0.00 0.00 36.64 4.01
2536 5106 4.769688 TCTCTCAACTTTGAAGACTTGCA 58.230 39.130 0.00 0.00 36.64 4.08
2537 5107 4.813161 TCTCTCAACTTTGAAGACTTGCAG 59.187 41.667 0.00 0.00 36.64 4.41
2538 5108 4.517285 TCTCAACTTTGAAGACTTGCAGT 58.483 39.130 0.00 0.00 36.64 4.40
2539 5109 4.333649 TCTCAACTTTGAAGACTTGCAGTG 59.666 41.667 0.00 0.00 36.64 3.66
2540 5110 3.378112 TCAACTTTGAAGACTTGCAGTGG 59.622 43.478 0.00 0.00 33.55 4.00
2541 5111 3.281727 ACTTTGAAGACTTGCAGTGGA 57.718 42.857 0.00 0.00 0.00 4.02
2542 5112 2.945668 ACTTTGAAGACTTGCAGTGGAC 59.054 45.455 0.00 0.00 0.00 4.02
2543 5113 1.581934 TTGAAGACTTGCAGTGGACG 58.418 50.000 0.00 0.00 0.00 4.79
2544 5114 0.249868 TGAAGACTTGCAGTGGACGG 60.250 55.000 0.00 0.00 0.00 4.79
2580 5150 3.326946 ACAGTGCTCCAGATATCCTCT 57.673 47.619 0.00 0.00 33.14 3.69
2599 5169 2.009774 CTGTTATACCAGTGGCAGCAC 58.990 52.381 9.78 1.98 0.00 4.40
2605 5176 0.110295 ACCAGTGGCAGCACAATACA 59.890 50.000 9.78 0.00 0.00 2.29
2608 5179 0.813184 AGTGGCAGCACAATACATGC 59.187 50.000 0.00 0.00 43.74 4.06
2619 5190 5.848538 AGCACAATACATGCAACTGAACATG 60.849 40.000 0.00 1.62 45.92 3.21
2651 5222 7.683746 ACAAAATCAAAAGAAAACAATGTCGG 58.316 30.769 0.00 0.00 0.00 4.79
2694 5266 9.388506 CAAAGTGGTGACTGAGATTTATAATCT 57.611 33.333 1.73 1.73 30.61 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
338 339 5.712446 TGCTACTCAAGAGTCTGATTGTACT 59.288 40.000 5.91 0.00 42.54 2.73
355 356 6.266323 TCAACGAGTGAAGATAATGCTACTC 58.734 40.000 0.00 0.00 31.51 2.59
362 363 5.877012 ACTTGCATCAACGAGTGAAGATAAT 59.123 36.000 0.00 0.00 40.50 1.28
406 407 1.546923 TGATTGCAGCAACAAGATGGG 59.453 47.619 10.85 0.00 33.21 4.00
421 422 6.541641 CCTTTCCTCCATAAGAGACTTGATTG 59.458 42.308 0.00 0.00 46.50 2.67
635 638 0.033642 TCACCACGTGCAAACCGATA 59.966 50.000 10.91 0.00 32.98 2.92
639 642 0.951558 ATTCTCACCACGTGCAAACC 59.048 50.000 10.91 0.00 32.98 3.27
675 678 0.162294 CGTTGTAAAAGTCCGCGGAC 59.838 55.000 43.92 43.92 44.86 4.79
676 679 1.559149 GCGTTGTAAAAGTCCGCGGA 61.559 55.000 27.28 27.28 34.66 5.54
677 680 1.154543 GCGTTGTAAAAGTCCGCGG 60.155 57.895 22.12 22.12 34.66 6.46
678 681 4.410252 GCGTTGTAAAAGTCCGCG 57.590 55.556 0.00 0.00 34.66 6.46
679 682 0.724785 GCAGCGTTGTAAAAGTCCGC 60.725 55.000 0.00 0.00 44.35 5.54
680 683 0.450482 CGCAGCGTTGTAAAAGTCCG 60.450 55.000 6.65 0.00 0.00 4.79
694 697 2.594529 TTTTCTTCATTCGACGCAGC 57.405 45.000 0.00 0.00 0.00 5.25
730 734 4.409218 CGCGAAAGTCCGGACCGA 62.409 66.667 30.82 0.00 0.00 4.69
754 758 0.107831 CAGACCGACAACCCCTCAAA 59.892 55.000 0.00 0.00 0.00 2.69
779 1054 3.580731 GGTTTACTCTGCTGTCTCTGTC 58.419 50.000 0.00 0.00 0.00 3.51
787 1062 1.009829 GGCATCGGTTTACTCTGCTG 58.990 55.000 0.00 0.00 33.43 4.41
813 1088 3.586100 TTTGCTATCAGACACGTGCTA 57.414 42.857 17.22 0.00 0.00 3.49
814 1089 2.455674 TTTGCTATCAGACACGTGCT 57.544 45.000 17.22 11.14 0.00 4.40
815 1090 2.480419 ACTTTTGCTATCAGACACGTGC 59.520 45.455 17.22 8.74 0.00 5.34
816 1091 3.990469 AGACTTTTGCTATCAGACACGTG 59.010 43.478 15.48 15.48 0.00 4.49
818 1093 3.990469 ACAGACTTTTGCTATCAGACACG 59.010 43.478 0.00 0.00 0.00 4.49
819 1094 5.233988 AGACAGACTTTTGCTATCAGACAC 58.766 41.667 0.00 0.00 0.00 3.67
820 1095 5.473931 GAGACAGACTTTTGCTATCAGACA 58.526 41.667 0.00 0.00 0.00 3.41
821 1096 4.560819 CGAGACAGACTTTTGCTATCAGAC 59.439 45.833 0.00 0.00 0.00 3.51
822 1097 4.738124 CGAGACAGACTTTTGCTATCAGA 58.262 43.478 0.00 0.00 0.00 3.27
834 1365 1.153939 GCATGACGCGAGACAGACT 60.154 57.895 15.93 0.00 39.48 3.24
835 1366 0.803768 ATGCATGACGCGAGACAGAC 60.804 55.000 15.93 6.92 46.97 3.51
836 1367 0.803380 CATGCATGACGCGAGACAGA 60.803 55.000 22.59 0.00 46.97 3.41
837 1368 0.803380 TCATGCATGACGCGAGACAG 60.803 55.000 25.42 0.00 46.97 3.51
838 1369 1.078201 GTCATGCATGACGCGAGACA 61.078 55.000 36.65 9.31 46.46 3.41
840 1371 4.093115 GTCATGCATGACGCGAGA 57.907 55.556 36.65 10.79 46.46 4.04
881 1419 6.183360 TGGTTTTTGATCACGTGCTATATGAC 60.183 38.462 11.67 4.86 0.00 3.06
899 1437 8.166479 ACTGGGGTACTATATAGTTGGTTTTT 57.834 34.615 20.21 0.00 37.73 1.94
930 1511 1.795768 TGGCAGCTAGACTTTTCACG 58.204 50.000 0.00 0.00 0.00 4.35
1258 1864 4.772231 CGGGTCGGGAGGGAGGAA 62.772 72.222 0.00 0.00 0.00 3.36
1713 2325 2.130193 AGCCAGCCCTGATTCTATTGA 58.870 47.619 0.00 0.00 0.00 2.57
1834 4191 7.061789 GGCAAAAGGTATTCACTAAATTTCACG 59.938 37.037 0.00 0.00 0.00 4.35
1836 4193 7.382898 GGGCAAAAGGTATTCACTAAATTTCA 58.617 34.615 0.00 0.00 0.00 2.69
1854 4299 2.438411 CGTACACCATTAGGGGCAAAA 58.562 47.619 0.00 0.00 44.59 2.44
1936 4382 5.410924 TGGATTGAGATCAAACTCAGTACG 58.589 41.667 0.00 0.00 45.63 3.67
1977 4424 2.226437 GCCTTTTCTTTGATCGAGCACA 59.774 45.455 1.08 0.00 0.00 4.57
1978 4425 2.226437 TGCCTTTTCTTTGATCGAGCAC 59.774 45.455 1.08 0.00 0.00 4.40
1984 4431 1.733718 GCGGCTGCCTTTTCTTTGATC 60.734 52.381 17.92 0.00 33.98 2.92
2016 4463 4.705519 CAGCAAAACCAGCGGCCG 62.706 66.667 24.05 24.05 37.01 6.13
2017 4464 2.158561 ATTCAGCAAAACCAGCGGCC 62.159 55.000 0.00 0.00 37.01 6.13
2043 4490 5.616204 GCCGTTATTCAAACTTGAGTGGTAC 60.616 44.000 0.00 0.00 38.61 3.34
2044 4491 4.453136 GCCGTTATTCAAACTTGAGTGGTA 59.547 41.667 0.00 0.00 38.61 3.25
2045 4492 3.252458 GCCGTTATTCAAACTTGAGTGGT 59.748 43.478 0.00 0.00 38.61 4.16
2046 4493 3.252215 TGCCGTTATTCAAACTTGAGTGG 59.748 43.478 0.00 0.00 38.61 4.00
2047 4494 4.481930 TGCCGTTATTCAAACTTGAGTG 57.518 40.909 0.00 0.00 38.61 3.51
2048 4495 5.508200 TTTGCCGTTATTCAAACTTGAGT 57.492 34.783 0.00 0.00 38.61 3.41
2049 4496 6.205784 TCTTTTGCCGTTATTCAAACTTGAG 58.794 36.000 0.00 0.00 38.61 3.02
2050 4497 6.137794 TCTTTTGCCGTTATTCAAACTTGA 57.862 33.333 0.00 0.00 32.58 3.02
2062 4509 3.175929 CACTTCGTTTTCTTTTGCCGTT 58.824 40.909 0.00 0.00 0.00 4.44
2085 4532 3.871594 GCTGTTTATAACATGACTCGCCT 59.128 43.478 0.00 0.00 41.26 5.52
2088 4535 4.442706 AGGGCTGTTTATAACATGACTCG 58.557 43.478 0.00 0.00 41.26 4.18
2104 4551 9.303116 TCTTCTAAGAGTAAAGATATAGGGCTG 57.697 37.037 0.00 0.00 0.00 4.85
2120 4567 8.325421 TCGTACTATAAGGCATCTTCTAAGAG 57.675 38.462 0.00 0.00 38.66 2.85
2144 4682 3.055530 TCTCCAAGCTGATTTCCTGTCTC 60.056 47.826 0.00 0.00 0.00 3.36
2150 4688 4.140536 CCCTATTCTCCAAGCTGATTTCC 58.859 47.826 0.00 0.00 0.00 3.13
2236 4777 5.470098 TCCACTCTAAGCTGATTTGACAAAC 59.530 40.000 1.94 0.00 0.00 2.93
2245 4786 9.717942 GATGTATATTTTCCACTCTAAGCTGAT 57.282 33.333 0.00 0.00 0.00 2.90
2271 4839 3.665675 CTCGCAGTTTCCCCTCGGG 62.666 68.421 0.00 0.00 46.11 5.14
2285 4853 1.993370 GTCGCATATATTCCCACTCGC 59.007 52.381 0.00 0.00 0.00 5.03
2286 4854 2.607187 GGTCGCATATATTCCCACTCG 58.393 52.381 0.00 0.00 0.00 4.18
2327 4897 2.598589 CGACGAGTAATTTGGAACGGA 58.401 47.619 0.00 0.00 0.00 4.69
2328 4898 1.060122 GCGACGAGTAATTTGGAACGG 59.940 52.381 0.00 0.00 0.00 4.44
2329 4899 1.722464 TGCGACGAGTAATTTGGAACG 59.278 47.619 0.00 0.00 0.00 3.95
2330 4900 3.799137 TTGCGACGAGTAATTTGGAAC 57.201 42.857 0.00 0.00 0.00 3.62
2331 4901 4.815040 TTTTGCGACGAGTAATTTGGAA 57.185 36.364 0.00 0.00 0.00 3.53
2332 4902 4.815040 TTTTTGCGACGAGTAATTTGGA 57.185 36.364 0.00 0.00 0.00 3.53
2333 4903 4.323336 CCATTTTTGCGACGAGTAATTTGG 59.677 41.667 0.00 0.00 0.00 3.28
2334 4904 5.150683 TCCATTTTTGCGACGAGTAATTTG 58.849 37.500 0.00 0.00 0.00 2.32
2335 4905 5.365403 TCCATTTTTGCGACGAGTAATTT 57.635 34.783 0.00 0.00 0.00 1.82
2336 4906 5.106317 ACATCCATTTTTGCGACGAGTAATT 60.106 36.000 0.00 0.00 0.00 1.40
2337 4907 4.394920 ACATCCATTTTTGCGACGAGTAAT 59.605 37.500 0.00 0.00 0.00 1.89
2338 4908 3.749088 ACATCCATTTTTGCGACGAGTAA 59.251 39.130 0.00 0.00 0.00 2.24
2339 4909 3.331150 ACATCCATTTTTGCGACGAGTA 58.669 40.909 0.00 0.00 0.00 2.59
2340 4910 2.151202 ACATCCATTTTTGCGACGAGT 58.849 42.857 0.00 0.00 0.00 4.18
2341 4911 2.900122 ACATCCATTTTTGCGACGAG 57.100 45.000 0.00 0.00 0.00 4.18
2342 4912 4.188462 AGATACATCCATTTTTGCGACGA 58.812 39.130 0.00 0.00 0.00 4.20
2343 4913 4.536364 AGATACATCCATTTTTGCGACG 57.464 40.909 0.00 0.00 0.00 5.12
2344 4914 6.844696 TCTAGATACATCCATTTTTGCGAC 57.155 37.500 0.00 0.00 0.00 5.19
2345 4915 7.047891 AGTTCTAGATACATCCATTTTTGCGA 58.952 34.615 0.00 0.00 0.00 5.10
2346 4916 7.251704 AGTTCTAGATACATCCATTTTTGCG 57.748 36.000 0.00 0.00 0.00 4.85
2374 4944 9.562408 CGTAGGTATGGATGTATCTAGATGTAT 57.438 37.037 15.79 9.11 0.00 2.29
2375 4945 8.765517 TCGTAGGTATGGATGTATCTAGATGTA 58.234 37.037 15.79 4.44 0.00 2.29
2376 4946 7.553402 GTCGTAGGTATGGATGTATCTAGATGT 59.447 40.741 15.79 1.25 0.00 3.06
2377 4947 7.553044 TGTCGTAGGTATGGATGTATCTAGATG 59.447 40.741 15.79 0.00 0.00 2.90
2378 4948 7.631007 TGTCGTAGGTATGGATGTATCTAGAT 58.369 38.462 10.73 10.73 0.00 1.98
2379 4949 7.012661 TGTCGTAGGTATGGATGTATCTAGA 57.987 40.000 0.00 0.00 0.00 2.43
2380 4950 7.390996 ACTTGTCGTAGGTATGGATGTATCTAG 59.609 40.741 0.00 0.00 0.00 2.43
2381 4951 7.229308 ACTTGTCGTAGGTATGGATGTATCTA 58.771 38.462 0.00 0.00 0.00 1.98
2382 4952 6.069331 ACTTGTCGTAGGTATGGATGTATCT 58.931 40.000 0.00 0.00 0.00 1.98
2383 4953 6.328641 ACTTGTCGTAGGTATGGATGTATC 57.671 41.667 0.00 0.00 0.00 2.24
2384 4954 7.828508 TTACTTGTCGTAGGTATGGATGTAT 57.171 36.000 0.00 0.00 0.00 2.29
2385 4955 7.828508 ATTACTTGTCGTAGGTATGGATGTA 57.171 36.000 0.00 0.00 0.00 2.29
2386 4956 6.726490 ATTACTTGTCGTAGGTATGGATGT 57.274 37.500 0.00 0.00 0.00 3.06
2387 4957 6.362551 CGAATTACTTGTCGTAGGTATGGATG 59.637 42.308 0.00 0.00 32.61 3.51
2388 4958 6.444633 CGAATTACTTGTCGTAGGTATGGAT 58.555 40.000 0.00 0.00 32.61 3.41
2389 4959 5.221106 CCGAATTACTTGTCGTAGGTATGGA 60.221 44.000 0.00 0.00 35.48 3.41
2390 4960 4.980434 CCGAATTACTTGTCGTAGGTATGG 59.020 45.833 0.00 0.00 35.48 2.74
2391 4961 5.824429 TCCGAATTACTTGTCGTAGGTATG 58.176 41.667 0.00 0.00 35.48 2.39
2392 4962 6.127647 TGTTCCGAATTACTTGTCGTAGGTAT 60.128 38.462 0.00 0.00 35.48 2.73
2393 4963 5.182950 TGTTCCGAATTACTTGTCGTAGGTA 59.817 40.000 0.00 0.00 35.48 3.08
2394 4964 4.022068 TGTTCCGAATTACTTGTCGTAGGT 60.022 41.667 0.00 0.00 35.48 3.08
2395 4965 4.487948 TGTTCCGAATTACTTGTCGTAGG 58.512 43.478 0.00 0.00 35.48 3.18
2396 4966 5.396484 TCTGTTCCGAATTACTTGTCGTAG 58.604 41.667 0.00 0.00 35.48 3.51
2397 4967 5.375417 TCTGTTCCGAATTACTTGTCGTA 57.625 39.130 0.00 0.00 35.48 3.43
2398 4968 4.235360 CTCTGTTCCGAATTACTTGTCGT 58.765 43.478 0.00 0.00 35.48 4.34
2399 4969 3.612860 CCTCTGTTCCGAATTACTTGTCG 59.387 47.826 0.00 0.00 37.01 4.35
2400 4970 3.933332 CCCTCTGTTCCGAATTACTTGTC 59.067 47.826 0.00 0.00 0.00 3.18
2401 4971 3.581332 TCCCTCTGTTCCGAATTACTTGT 59.419 43.478 0.00 0.00 0.00 3.16
2402 4972 4.184629 CTCCCTCTGTTCCGAATTACTTG 58.815 47.826 0.00 0.00 0.00 3.16
2403 4973 3.838903 ACTCCCTCTGTTCCGAATTACTT 59.161 43.478 0.00 0.00 0.00 2.24
2404 4974 3.442076 ACTCCCTCTGTTCCGAATTACT 58.558 45.455 0.00 0.00 0.00 2.24
2405 4975 3.889520 ACTCCCTCTGTTCCGAATTAC 57.110 47.619 0.00 0.00 0.00 1.89
2406 4976 4.607239 AGTACTCCCTCTGTTCCGAATTA 58.393 43.478 0.00 0.00 0.00 1.40
2407 4977 3.442076 AGTACTCCCTCTGTTCCGAATT 58.558 45.455 0.00 0.00 0.00 2.17
2408 4978 3.025262 GAGTACTCCCTCTGTTCCGAAT 58.975 50.000 12.13 0.00 0.00 3.34
2409 4979 2.444421 GAGTACTCCCTCTGTTCCGAA 58.556 52.381 12.13 0.00 0.00 4.30
2410 4980 1.340795 GGAGTACTCCCTCTGTTCCGA 60.341 57.143 28.87 0.00 43.94 4.55
2411 4981 1.104630 GGAGTACTCCCTCTGTTCCG 58.895 60.000 28.87 0.00 43.94 4.30
2421 4991 5.712917 ATCTAGATGATTTCGGGAGTACTCC 59.287 44.000 30.72 30.72 39.62 3.85
2422 4992 6.827586 ATCTAGATGATTTCGGGAGTACTC 57.172 41.667 14.87 14.87 29.59 2.59
2423 4993 7.232188 TGTATCTAGATGATTTCGGGAGTACT 58.768 38.462 15.79 0.00 36.65 2.73
2424 4994 7.175293 ACTGTATCTAGATGATTTCGGGAGTAC 59.825 40.741 15.79 1.30 36.65 2.73
2425 4995 7.175119 CACTGTATCTAGATGATTTCGGGAGTA 59.825 40.741 15.79 0.00 36.65 2.59
2426 4996 6.015856 CACTGTATCTAGATGATTTCGGGAGT 60.016 42.308 15.79 1.59 36.65 3.85
2427 4997 6.207614 TCACTGTATCTAGATGATTTCGGGAG 59.792 42.308 15.79 1.05 36.65 4.30
2428 4998 6.068670 TCACTGTATCTAGATGATTTCGGGA 58.931 40.000 15.79 1.94 36.65 5.14
2429 4999 6.332735 TCACTGTATCTAGATGATTTCGGG 57.667 41.667 15.79 0.00 36.65 5.14
2430 5000 7.652727 TCTTCACTGTATCTAGATGATTTCGG 58.347 38.462 15.79 7.89 36.65 4.30
2431 5001 9.521503 TTTCTTCACTGTATCTAGATGATTTCG 57.478 33.333 15.79 0.09 36.65 3.46
2502 5072 4.739046 AGTTGAGAGAATTTTGCAGTCG 57.261 40.909 0.00 0.00 0.00 4.18
2513 5083 5.185454 TGCAAGTCTTCAAAGTTGAGAGAA 58.815 37.500 0.00 0.00 38.61 2.87
2531 5101 2.165641 TGTATCTACCGTCCACTGCAAG 59.834 50.000 0.00 0.00 42.29 4.01
2532 5102 2.172679 TGTATCTACCGTCCACTGCAA 58.827 47.619 0.00 0.00 0.00 4.08
2533 5103 1.842052 TGTATCTACCGTCCACTGCA 58.158 50.000 0.00 0.00 0.00 4.41
2534 5104 2.623889 AGATGTATCTACCGTCCACTGC 59.376 50.000 0.00 0.00 34.85 4.40
2535 5105 5.306394 TCTAGATGTATCTACCGTCCACTG 58.694 45.833 0.00 0.00 38.32 3.66
2536 5106 5.563876 TCTAGATGTATCTACCGTCCACT 57.436 43.478 0.00 0.00 38.32 4.00
2537 5107 6.877855 TGTATCTAGATGTATCTACCGTCCAC 59.122 42.308 15.79 0.87 38.32 4.02
2538 5108 7.012661 TGTATCTAGATGTATCTACCGTCCA 57.987 40.000 15.79 0.00 38.32 4.02
2539 5109 7.064847 CACTGTATCTAGATGTATCTACCGTCC 59.935 44.444 15.79 0.00 38.32 4.79
2540 5110 7.413219 GCACTGTATCTAGATGTATCTACCGTC 60.413 44.444 15.79 0.00 38.32 4.79
2541 5111 6.372103 GCACTGTATCTAGATGTATCTACCGT 59.628 42.308 15.79 4.15 38.32 4.83
2542 5112 6.596106 AGCACTGTATCTAGATGTATCTACCG 59.404 42.308 15.79 3.54 38.32 4.02
2543 5113 7.066525 GGAGCACTGTATCTAGATGTATCTACC 59.933 44.444 15.79 6.48 38.32 3.18
2544 5114 7.608376 TGGAGCACTGTATCTAGATGTATCTAC 59.392 40.741 15.79 4.88 38.32 2.59
2580 5150 1.349357 TGTGCTGCCACTGGTATAACA 59.651 47.619 0.00 0.00 42.54 2.41
2586 5156 0.110295 TGTATTGTGCTGCCACTGGT 59.890 50.000 0.00 0.00 42.54 4.00
2599 5169 8.186163 ACTTATCATGTTCAGTTGCATGTATTG 58.814 33.333 0.00 0.00 42.09 1.90
2605 5176 7.686438 TTGTACTTATCATGTTCAGTTGCAT 57.314 32.000 0.00 0.00 0.00 3.96
2639 5210 2.969628 TTTGGTGCCGACATTGTTTT 57.030 40.000 0.00 0.00 0.00 2.43
2644 5215 3.620488 ACTGATATTTGGTGCCGACATT 58.380 40.909 0.00 0.00 0.00 2.71
2645 5216 3.281727 ACTGATATTTGGTGCCGACAT 57.718 42.857 0.00 0.00 0.00 3.06
2647 5218 3.438781 TGAAACTGATATTTGGTGCCGAC 59.561 43.478 0.00 0.00 0.00 4.79
2649 5220 4.433186 TTGAAACTGATATTTGGTGCCG 57.567 40.909 0.00 0.00 0.00 5.69
2651 5222 5.634859 CCACTTTGAAACTGATATTTGGTGC 59.365 40.000 0.00 0.00 0.00 5.01


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

AutoCloner maintained by Alex Coulton.