Multiple sequence alignment - TraesCS5A01G001800

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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 TraesCS5A01G001800 chr5A 100.000 2180 0 0 1 2180 1301643 1303822 0.000000e+00 4026.0
1 TraesCS5A01G001800 chr5A 94.534 622 34 0 1417 2038 531525134 531524513 0.000000e+00 961.0
2 TraesCS5A01G001800 chr5D 85.796 1218 81 33 2 1194 2311775 2312925 0.000000e+00 1206.0
3 TraesCS5A01G001800 chr5D 90.566 106 6 3 2078 2180 2312921 2313025 1.050000e-28 137.0
4 TraesCS5A01G001800 chr4A 95.666 623 26 1 1416 2038 387111863 387112484 0.000000e+00 1000.0
5 TraesCS5A01G001800 chr4A 94.118 51 2 1 2032 2082 199568740 199568789 2.320000e-10 76.8
6 TraesCS5A01G001800 chr4A 96.875 32 1 0 2144 2175 605133861 605133830 1.000000e-03 54.7
7 TraesCS5A01G001800 chr3A 95.016 622 31 0 1417 2038 603916460 603915839 0.000000e+00 977.0
8 TraesCS5A01G001800 chr3A 94.118 51 2 1 2033 2083 101774827 101774778 2.320000e-10 76.8
9 TraesCS5A01G001800 chr2A 94.864 623 32 0 1416 2038 44025381 44026003 0.000000e+00 974.0
10 TraesCS5A01G001800 chr2A 90.393 229 21 1 1190 1417 339090565 339090793 1.260000e-77 300.0
11 TraesCS5A01G001800 chr7B 94.543 623 33 1 1416 2038 66190963 66190342 0.000000e+00 961.0
12 TraesCS5A01G001800 chr7B 79.145 983 113 43 219 1183 6000426 5999518 1.440000e-166 595.0
13 TraesCS5A01G001800 chr7B 78.465 938 124 38 267 1175 6079360 6078472 1.900000e-150 542.0
14 TraesCS5A01G001800 chr7B 91.228 228 19 1 1189 1415 615378207 615377980 2.100000e-80 309.0
15 TraesCS5A01G001800 chr7B 79.680 438 53 20 540 969 6090087 6089678 1.270000e-72 283.0
16 TraesCS5A01G001800 chr7B 85.204 196 19 6 347 538 6090440 6090251 2.210000e-45 193.0
17 TraesCS5A01G001800 chr5B 94.212 622 32 1 1417 2038 615700787 615700170 0.000000e+00 946.0
18 TraesCS5A01G001800 chr7A 93.891 622 34 2 1417 2038 191174705 191174088 0.000000e+00 935.0
19 TraesCS5A01G001800 chr7A 80.000 815 107 33 365 1165 68338377 68337605 3.160000e-153 551.0
20 TraesCS5A01G001800 chr7A 89.655 174 17 1 1003 1175 68762023 68761850 1.010000e-53 220.0
21 TraesCS5A01G001800 chr7A 84.021 194 25 3 347 538 68764973 68764784 4.780000e-42 182.0
22 TraesCS5A01G001800 chrUn 93.579 623 36 1 1417 2039 462155336 462155954 0.000000e+00 926.0
23 TraesCS5A01G001800 chrUn 79.742 775 116 24 21 771 311792003 311791246 6.900000e-145 523.0
24 TraesCS5A01G001800 chr2B 93.710 620 35 1 1417 2036 765216478 765217093 0.000000e+00 926.0
25 TraesCS5A01G001800 chr7D 79.383 810 111 30 3 772 64528967 64528174 8.920000e-144 520.0
26 TraesCS5A01G001800 chr7D 80.645 651 82 22 540 1182 64488556 64487942 4.240000e-127 464.0
27 TraesCS5A01G001800 chr7D 90.110 182 17 1 1002 1182 64527992 64527811 3.620000e-58 235.0
28 TraesCS5A01G001800 chr7D 90.741 54 4 1 2033 2086 346006523 346006575 1.080000e-08 71.3
29 TraesCS5A01G001800 chr3D 90.830 229 20 1 1190 1417 453184276 453184504 2.720000e-79 305.0
30 TraesCS5A01G001800 chr3D 89.496 238 24 1 1184 1420 373600286 373600049 1.260000e-77 300.0
31 TraesCS5A01G001800 chr3D 96.000 50 1 1 2033 2082 62813646 62813598 1.790000e-11 80.5
32 TraesCS5A01G001800 chr3B 90.870 230 18 3 1190 1417 729383179 729383407 2.720000e-79 305.0
33 TraesCS5A01G001800 chr1D 90.476 231 20 2 1191 1420 351265568 351265339 9.780000e-79 303.0
34 TraesCS5A01G001800 chr1D 100.000 28 0 0 2112 2139 408461086 408461059 4.000000e-03 52.8
35 TraesCS5A01G001800 chr1A 89.451 237 24 1 1182 1417 508966088 508965852 4.550000e-77 298.0
36 TraesCS5A01G001800 chr2D 89.407 236 21 4 1184 1417 10825425 10825658 5.890000e-76 294.0
37 TraesCS5A01G001800 chr6D 88.211 246 26 3 1177 1420 265185944 265185700 7.610000e-75 291.0
38 TraesCS5A01G001800 chr4B 95.918 49 1 1 2033 2081 107755046 107755093 6.450000e-11 78.7
39 TraesCS5A01G001800 chr4B 92.727 55 3 1 2033 2087 398088545 398088492 6.450000e-11 78.7
40 TraesCS5A01G001800 chr4B 95.833 48 1 1 2033 2080 122852177 122852223 2.320000e-10 76.8
41 TraesCS5A01G001800 chr4D 95.833 48 1 1 2033 2080 468268670 468268624 2.320000e-10 76.8
42 TraesCS5A01G001800 chr1B 92.453 53 3 1 2033 2085 513754338 513754287 8.350000e-10 75.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5A01G001800 chr5A 1301643 1303822 2179 False 4026.0 4026 100.0000 1 2180 1 chr5A.!!$F1 2179
1 TraesCS5A01G001800 chr5A 531524513 531525134 621 True 961.0 961 94.5340 1417 2038 1 chr5A.!!$R1 621
2 TraesCS5A01G001800 chr5D 2311775 2313025 1250 False 671.5 1206 88.1810 2 2180 2 chr5D.!!$F1 2178
3 TraesCS5A01G001800 chr4A 387111863 387112484 621 False 1000.0 1000 95.6660 1416 2038 1 chr4A.!!$F2 622
4 TraesCS5A01G001800 chr3A 603915839 603916460 621 True 977.0 977 95.0160 1417 2038 1 chr3A.!!$R2 621
5 TraesCS5A01G001800 chr2A 44025381 44026003 622 False 974.0 974 94.8640 1416 2038 1 chr2A.!!$F1 622
6 TraesCS5A01G001800 chr7B 66190342 66190963 621 True 961.0 961 94.5430 1416 2038 1 chr7B.!!$R3 622
7 TraesCS5A01G001800 chr7B 5999518 6000426 908 True 595.0 595 79.1450 219 1183 1 chr7B.!!$R1 964
8 TraesCS5A01G001800 chr7B 6078472 6079360 888 True 542.0 542 78.4650 267 1175 1 chr7B.!!$R2 908
9 TraesCS5A01G001800 chr7B 6089678 6090440 762 True 238.0 283 82.4420 347 969 2 chr7B.!!$R5 622
10 TraesCS5A01G001800 chr5B 615700170 615700787 617 True 946.0 946 94.2120 1417 2038 1 chr5B.!!$R1 621
11 TraesCS5A01G001800 chr7A 191174088 191174705 617 True 935.0 935 93.8910 1417 2038 1 chr7A.!!$R2 621
12 TraesCS5A01G001800 chr7A 68337605 68338377 772 True 551.0 551 80.0000 365 1165 1 chr7A.!!$R1 800
13 TraesCS5A01G001800 chr7A 68761850 68764973 3123 True 201.0 220 86.8380 347 1175 2 chr7A.!!$R3 828
14 TraesCS5A01G001800 chrUn 462155336 462155954 618 False 926.0 926 93.5790 1417 2039 1 chrUn.!!$F1 622
15 TraesCS5A01G001800 chrUn 311791246 311792003 757 True 523.0 523 79.7420 21 771 1 chrUn.!!$R1 750
16 TraesCS5A01G001800 chr2B 765216478 765217093 615 False 926.0 926 93.7100 1417 2036 1 chr2B.!!$F1 619
17 TraesCS5A01G001800 chr7D 64487942 64488556 614 True 464.0 464 80.6450 540 1182 1 chr7D.!!$R1 642
18 TraesCS5A01G001800 chr7D 64527811 64528967 1156 True 377.5 520 84.7465 3 1182 2 chr7D.!!$R2 1179

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
975 3658 0.549902 TGGGGAGAGGGAAGATTGCA 60.55 55.0 0.0 0.0 0.0 4.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2067 4754 0.038744 TCCCGAGTACTCCTTCCGTT 59.961 55.0 17.23 0.0 0.0 4.44 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
29 30 6.716898 ACACAGTTATTAAGAAAGCGTACC 57.283 37.500 0.00 0.00 0.00 3.34
69 70 2.026641 ACATGCCGAGATTCAATTGGG 58.973 47.619 5.42 0.00 0.00 4.12
213 228 2.101917 AGCGTACCACCCACATATACAC 59.898 50.000 0.00 0.00 0.00 2.90
214 229 2.804212 GCGTACCACCCACATATACACC 60.804 54.545 0.00 0.00 0.00 4.16
217 232 0.878523 CCACCCACATATACACCGCG 60.879 60.000 0.00 0.00 0.00 6.46
264 300 7.455058 AGAAAAGTATACACCCACACATTACA 58.545 34.615 5.50 0.00 0.00 2.41
279 315 4.035558 CACATTACATGGTATGAGCACACC 59.964 45.833 14.10 0.00 35.24 4.16
315 366 3.214328 GAGAAACCACTTGCCTCTGAAA 58.786 45.455 0.00 0.00 0.00 2.69
324 376 4.461781 CACTTGCCTCTGAAAGAAATGGAT 59.538 41.667 0.00 0.00 46.34 3.41
411 2825 3.537580 TGCTAGTCTGTTTCAACGGTTT 58.462 40.909 0.00 0.00 36.65 3.27
458 2872 0.801872 GACGCCATGCATGTTGTACA 59.198 50.000 24.58 0.00 0.00 2.90
526 2945 4.010349 ACCCAAAGTAAACTATGAGCAGC 58.990 43.478 0.00 0.00 0.00 5.25
529 2948 4.265073 CAAAGTAAACTATGAGCAGCCCT 58.735 43.478 0.00 0.00 0.00 5.19
680 3266 1.812922 CAGCACATGGCCTCTCGAC 60.813 63.158 3.32 0.00 46.50 4.20
773 3362 3.366052 GGGGGAAAGATTCAACTAGCA 57.634 47.619 0.00 0.00 0.00 3.49
774 3363 3.282885 GGGGGAAAGATTCAACTAGCAG 58.717 50.000 0.00 0.00 0.00 4.24
775 3364 3.308473 GGGGGAAAGATTCAACTAGCAGT 60.308 47.826 0.00 0.00 0.00 4.40
776 3365 4.080526 GGGGGAAAGATTCAACTAGCAGTA 60.081 45.833 0.00 0.00 0.00 2.74
777 3366 5.398012 GGGGGAAAGATTCAACTAGCAGTAT 60.398 44.000 0.00 0.00 0.00 2.12
778 3367 6.183361 GGGGGAAAGATTCAACTAGCAGTATA 60.183 42.308 0.00 0.00 0.00 1.47
779 3368 6.706716 GGGGAAAGATTCAACTAGCAGTATAC 59.293 42.308 0.00 0.00 0.00 1.47
780 3369 6.706716 GGGAAAGATTCAACTAGCAGTATACC 59.293 42.308 0.00 0.00 0.00 2.73
781 3370 7.419172 GGGAAAGATTCAACTAGCAGTATACCT 60.419 40.741 0.00 0.00 0.00 3.08
782 3371 8.639761 GGAAAGATTCAACTAGCAGTATACCTA 58.360 37.037 0.00 0.00 0.00 3.08
815 3405 1.817099 GGATTGCACCCAGAGAGCG 60.817 63.158 0.00 0.00 0.00 5.03
816 3406 2.437359 ATTGCACCCAGAGAGCGC 60.437 61.111 0.00 0.00 0.00 5.92
856 3460 2.102252 AGCCTCTCCATTTCGATCAGTC 59.898 50.000 0.00 0.00 0.00 3.51
857 3461 2.804933 GCCTCTCCATTTCGATCAGTCC 60.805 54.545 0.00 0.00 0.00 3.85
858 3462 2.697751 CCTCTCCATTTCGATCAGTCCT 59.302 50.000 0.00 0.00 0.00 3.85
859 3463 3.133721 CCTCTCCATTTCGATCAGTCCTT 59.866 47.826 0.00 0.00 0.00 3.36
860 3464 4.342378 CCTCTCCATTTCGATCAGTCCTTA 59.658 45.833 0.00 0.00 0.00 2.69
861 3465 5.163405 CCTCTCCATTTCGATCAGTCCTTAA 60.163 44.000 0.00 0.00 0.00 1.85
862 3466 6.463614 CCTCTCCATTTCGATCAGTCCTTAAT 60.464 42.308 0.00 0.00 0.00 1.40
863 3467 6.516718 TCTCCATTTCGATCAGTCCTTAATC 58.483 40.000 0.00 0.00 0.00 1.75
907 3511 2.423446 CCAGCCGGCAGGAGATAC 59.577 66.667 32.92 0.00 41.02 2.24
926 3577 8.750298 GGAGATACCCATAGATCGAAGAATAAA 58.250 37.037 0.00 0.00 43.58 1.40
975 3658 0.549902 TGGGGAGAGGGAAGATTGCA 60.550 55.000 0.00 0.00 0.00 4.08
988 3671 5.128335 GGGAAGATTGCAATTGAGAGGATTT 59.872 40.000 14.33 0.00 0.00 2.17
989 3672 6.351626 GGGAAGATTGCAATTGAGAGGATTTT 60.352 38.462 14.33 0.00 0.00 1.82
990 3673 7.101700 GGAAGATTGCAATTGAGAGGATTTTT 58.898 34.615 14.33 0.00 0.00 1.94
1012 3695 4.305539 TTTTGCTGGATGATTGAGAGGA 57.694 40.909 0.00 0.00 0.00 3.71
1013 3696 4.515028 TTTGCTGGATGATTGAGAGGAT 57.485 40.909 0.00 0.00 0.00 3.24
1014 3697 4.515028 TTGCTGGATGATTGAGAGGATT 57.485 40.909 0.00 0.00 0.00 3.01
1036 3719 2.877974 AACGCGACAAACCGTCAGC 61.878 57.895 15.93 0.00 45.70 4.26
1052 3735 0.035881 CAGCTGACCTTCTCCAAGCA 59.964 55.000 8.42 0.00 0.00 3.91
1170 3853 1.275666 TTGCAAGCTCTAGGCCTGTA 58.724 50.000 17.99 1.38 43.05 2.74
1201 3885 9.632638 ATTAATTTATGCATGTACTTCCTCAGT 57.367 29.630 10.16 0.00 39.87 3.41
1202 3886 7.944729 AATTTATGCATGTACTTCCTCAGTT 57.055 32.000 10.16 0.00 36.88 3.16
1203 3887 7.944729 ATTTATGCATGTACTTCCTCAGTTT 57.055 32.000 10.16 0.00 36.88 2.66
1204 3888 6.985188 TTATGCATGTACTTCCTCAGTTTC 57.015 37.500 10.16 0.00 36.88 2.78
1205 3889 4.623932 TGCATGTACTTCCTCAGTTTCT 57.376 40.909 0.00 0.00 36.88 2.52
1206 3890 4.973168 TGCATGTACTTCCTCAGTTTCTT 58.027 39.130 0.00 0.00 36.88 2.52
1207 3891 5.376625 TGCATGTACTTCCTCAGTTTCTTT 58.623 37.500 0.00 0.00 36.88 2.52
1208 3892 5.827797 TGCATGTACTTCCTCAGTTTCTTTT 59.172 36.000 0.00 0.00 36.88 2.27
1209 3893 6.321181 TGCATGTACTTCCTCAGTTTCTTTTT 59.679 34.615 0.00 0.00 36.88 1.94
1210 3894 7.500892 TGCATGTACTTCCTCAGTTTCTTTTTA 59.499 33.333 0.00 0.00 36.88 1.52
1211 3895 8.515414 GCATGTACTTCCTCAGTTTCTTTTTAT 58.485 33.333 0.00 0.00 36.88 1.40
1214 3898 9.063615 TGTACTTCCTCAGTTTCTTTTTATTCC 57.936 33.333 0.00 0.00 36.88 3.01
1215 3899 7.203255 ACTTCCTCAGTTTCTTTTTATTCCG 57.797 36.000 0.00 0.00 27.32 4.30
1216 3900 5.622770 TCCTCAGTTTCTTTTTATTCCGC 57.377 39.130 0.00 0.00 0.00 5.54
1217 3901 4.153475 TCCTCAGTTTCTTTTTATTCCGCG 59.847 41.667 0.00 0.00 0.00 6.46
1218 3902 4.083484 CCTCAGTTTCTTTTTATTCCGCGT 60.083 41.667 4.92 0.00 0.00 6.01
1219 3903 5.121142 CCTCAGTTTCTTTTTATTCCGCGTA 59.879 40.000 4.92 0.00 0.00 4.42
1220 3904 6.183360 CCTCAGTTTCTTTTTATTCCGCGTAT 60.183 38.462 4.92 0.09 0.00 3.06
1221 3905 7.010738 CCTCAGTTTCTTTTTATTCCGCGTATA 59.989 37.037 4.92 0.00 0.00 1.47
1222 3906 8.254178 TCAGTTTCTTTTTATTCCGCGTATAA 57.746 30.769 4.92 6.09 0.00 0.98
1223 3907 8.719648 TCAGTTTCTTTTTATTCCGCGTATAAA 58.280 29.630 15.50 15.50 0.00 1.40
1224 3908 9.332301 CAGTTTCTTTTTATTCCGCGTATAAAA 57.668 29.630 22.17 22.17 36.29 1.52
1229 3913 9.291664 TCTTTTTATTCCGCGTATAAAATTTGG 57.708 29.630 24.56 18.05 37.32 3.28
1230 3914 8.983307 TTTTTATTCCGCGTATAAAATTTGGT 57.017 26.923 24.56 0.00 37.32 3.67
1231 3915 8.617761 TTTTATTCCGCGTATAAAATTTGGTC 57.382 30.769 22.17 0.00 34.32 4.02
1232 3916 5.821516 ATTCCGCGTATAAAATTTGGTCA 57.178 34.783 4.92 0.00 0.00 4.02
1233 3917 5.624344 TTCCGCGTATAAAATTTGGTCAA 57.376 34.783 4.92 0.00 0.00 3.18
1234 3918 5.624344 TCCGCGTATAAAATTTGGTCAAA 57.376 34.783 4.92 0.00 34.46 2.69
1235 3919 5.632959 TCCGCGTATAAAATTTGGTCAAAG 58.367 37.500 4.92 0.00 33.32 2.77
1236 3920 5.181622 TCCGCGTATAAAATTTGGTCAAAGT 59.818 36.000 4.92 0.00 33.32 2.66
1237 3921 5.510323 CCGCGTATAAAATTTGGTCAAAGTC 59.490 40.000 4.92 0.00 33.32 3.01
1238 3922 6.081049 CGCGTATAAAATTTGGTCAAAGTCA 58.919 36.000 0.00 0.00 33.32 3.41
1239 3923 6.579292 CGCGTATAAAATTTGGTCAAAGTCAA 59.421 34.615 0.00 0.00 33.32 3.18
1240 3924 7.113684 CGCGTATAAAATTTGGTCAAAGTCAAA 59.886 33.333 0.00 0.00 37.29 2.69
1241 3925 8.211838 GCGTATAAAATTTGGTCAAAGTCAAAC 58.788 33.333 0.00 0.00 35.97 2.93
1242 3926 9.458374 CGTATAAAATTTGGTCAAAGTCAAACT 57.542 29.630 0.00 0.00 35.97 2.66
1246 3930 8.474006 AAAATTTGGTCAAAGTCAAACTACAC 57.526 30.769 0.00 0.00 35.97 2.90
1247 3931 6.767524 ATTTGGTCAAAGTCAAACTACACA 57.232 33.333 2.55 0.00 35.97 3.72
1248 3932 6.576662 TTTGGTCAAAGTCAAACTACACAA 57.423 33.333 0.00 0.00 0.00 3.33
1249 3933 6.576662 TTGGTCAAAGTCAAACTACACAAA 57.423 33.333 0.00 0.00 0.00 2.83
1250 3934 6.189677 TGGTCAAAGTCAAACTACACAAAG 57.810 37.500 0.00 0.00 0.00 2.77
1251 3935 5.708230 TGGTCAAAGTCAAACTACACAAAGT 59.292 36.000 0.00 0.00 0.00 2.66
1252 3936 6.207810 TGGTCAAAGTCAAACTACACAAAGTT 59.792 34.615 0.00 0.00 41.46 2.66
1328 4012 7.658525 AGTATGAAATGCATTTTATGGTGGA 57.341 32.000 29.70 13.69 38.44 4.02
1329 4013 8.253867 AGTATGAAATGCATTTTATGGTGGAT 57.746 30.769 29.70 12.53 38.44 3.41
1330 4014 8.362639 AGTATGAAATGCATTTTATGGTGGATC 58.637 33.333 29.70 14.28 38.44 3.36
1331 4015 6.795144 TGAAATGCATTTTATGGTGGATCT 57.205 33.333 24.81 0.00 0.00 2.75
1332 4016 6.575267 TGAAATGCATTTTATGGTGGATCTG 58.425 36.000 24.81 0.00 0.00 2.90
1333 4017 6.380560 TGAAATGCATTTTATGGTGGATCTGA 59.619 34.615 24.81 0.00 0.00 3.27
1334 4018 6.989155 AATGCATTTTATGGTGGATCTGAT 57.011 33.333 5.99 0.00 0.00 2.90
1335 4019 8.481492 AAATGCATTTTATGGTGGATCTGATA 57.519 30.769 18.99 0.00 0.00 2.15
1336 4020 8.481492 AATGCATTTTATGGTGGATCTGATAA 57.519 30.769 5.99 0.00 0.00 1.75
1337 4021 8.660295 ATGCATTTTATGGTGGATCTGATAAT 57.340 30.769 0.00 0.00 0.00 1.28
1338 4022 9.758021 ATGCATTTTATGGTGGATCTGATAATA 57.242 29.630 0.00 0.00 0.00 0.98
1339 4023 9.758021 TGCATTTTATGGTGGATCTGATAATAT 57.242 29.630 0.00 0.00 0.00 1.28
1412 4096 9.984190 AAACTTTACAAAACTTGAGTTTAACCA 57.016 25.926 9.35 0.00 46.47 3.67
1413 4097 9.984190 AACTTTACAAAACTTGAGTTTAACCAA 57.016 25.926 9.35 0.00 46.47 3.67
1414 4098 9.984190 ACTTTACAAAACTTGAGTTTAACCAAA 57.016 25.926 9.35 7.23 46.47 3.28
1451 4135 3.685435 GGTACGGTGGGAACGAGA 58.315 61.111 0.00 0.00 34.93 4.04
1489 4173 0.323451 GAGTCGGGGGCTGGAAAAAT 60.323 55.000 0.00 0.00 0.00 1.82
1493 4177 2.563620 GTCGGGGGCTGGAAAAATTAAA 59.436 45.455 0.00 0.00 0.00 1.52
1506 4190 6.015772 TGGAAAAATTAAAGTACAGTGAGGGC 60.016 38.462 0.00 0.00 0.00 5.19
1538 4222 9.162764 TCTCTAGAACGATTTTTCTAAAATGGG 57.837 33.333 10.29 2.96 37.58 4.00
1598 4282 1.276989 GGTACCATGGAACGAGGAACA 59.723 52.381 21.47 0.00 0.00 3.18
1753 4440 5.759763 CCAATGGAAAATTTATTAGCAGCCC 59.240 40.000 0.00 0.00 0.00 5.19
1802 4489 6.046286 AGGAGTTATTTAGGGGAGTGGAAAAA 59.954 38.462 0.00 0.00 0.00 1.94
1826 4513 1.549170 GGGGCAGAGAGTAAAACGAGA 59.451 52.381 0.00 0.00 0.00 4.04
1867 4554 4.568359 GCTGATCTTTTGCTTACTCGATCA 59.432 41.667 0.00 0.00 36.70 2.92
1918 4605 1.661821 CTGAATCGACGATCCGGCC 60.662 63.158 11.42 0.00 0.00 6.13
1968 4655 1.664321 CCGAATCGACCCTCGTTCCT 61.664 60.000 3.36 0.00 41.35 3.36
2039 4726 2.105821 CCCCATTTCCGGCTACTATGAA 59.894 50.000 0.00 0.00 0.00 2.57
2040 4727 3.139077 CCCATTTCCGGCTACTATGAAC 58.861 50.000 0.00 0.00 0.00 3.18
2041 4728 3.139077 CCATTTCCGGCTACTATGAACC 58.861 50.000 0.00 0.00 0.00 3.62
2042 4729 3.433031 CCATTTCCGGCTACTATGAACCA 60.433 47.826 0.00 0.00 0.00 3.67
2043 4730 3.985019 TTTCCGGCTACTATGAACCAA 57.015 42.857 0.00 0.00 0.00 3.67
2044 4731 3.985019 TTCCGGCTACTATGAACCAAA 57.015 42.857 0.00 0.00 0.00 3.28
2045 4732 3.255969 TCCGGCTACTATGAACCAAAC 57.744 47.619 0.00 0.00 0.00 2.93
2046 4733 2.093341 TCCGGCTACTATGAACCAAACC 60.093 50.000 0.00 0.00 0.00 3.27
2047 4734 2.093128 CCGGCTACTATGAACCAAACCT 60.093 50.000 0.00 0.00 0.00 3.50
2048 4735 3.606687 CGGCTACTATGAACCAAACCTT 58.393 45.455 0.00 0.00 0.00 3.50
2049 4736 4.383335 CCGGCTACTATGAACCAAACCTTA 60.383 45.833 0.00 0.00 0.00 2.69
2050 4737 5.365619 CGGCTACTATGAACCAAACCTTAT 58.634 41.667 0.00 0.00 0.00 1.73
2051 4738 6.463331 CCGGCTACTATGAACCAAACCTTATA 60.463 42.308 0.00 0.00 0.00 0.98
2052 4739 7.159372 CGGCTACTATGAACCAAACCTTATAT 58.841 38.462 0.00 0.00 0.00 0.86
2053 4740 7.117812 CGGCTACTATGAACCAAACCTTATATG 59.882 40.741 0.00 0.00 0.00 1.78
2054 4741 7.094762 GGCTACTATGAACCAAACCTTATATGC 60.095 40.741 0.00 0.00 0.00 3.14
2055 4742 7.444183 GCTACTATGAACCAAACCTTATATGCA 59.556 37.037 0.00 0.00 0.00 3.96
2056 4743 7.807977 ACTATGAACCAAACCTTATATGCAG 57.192 36.000 0.00 0.00 0.00 4.41
2057 4744 7.573710 ACTATGAACCAAACCTTATATGCAGA 58.426 34.615 0.00 0.00 0.00 4.26
2058 4745 6.699575 ATGAACCAAACCTTATATGCAGAC 57.300 37.500 0.00 0.00 0.00 3.51
2059 4746 5.815581 TGAACCAAACCTTATATGCAGACT 58.184 37.500 0.00 0.00 0.00 3.24
2060 4747 6.953101 TGAACCAAACCTTATATGCAGACTA 58.047 36.000 0.00 0.00 0.00 2.59
2061 4748 7.398829 TGAACCAAACCTTATATGCAGACTAA 58.601 34.615 0.00 0.00 0.00 2.24
2062 4749 7.885922 TGAACCAAACCTTATATGCAGACTAAA 59.114 33.333 0.00 0.00 0.00 1.85
2063 4750 8.644374 AACCAAACCTTATATGCAGACTAAAA 57.356 30.769 0.00 0.00 0.00 1.52
2064 4751 8.644374 ACCAAACCTTATATGCAGACTAAAAA 57.356 30.769 0.00 0.00 0.00 1.94
2065 4752 8.739972 ACCAAACCTTATATGCAGACTAAAAAG 58.260 33.333 0.00 0.00 0.00 2.27
2066 4753 8.956426 CCAAACCTTATATGCAGACTAAAAAGA 58.044 33.333 0.00 0.00 0.00 2.52
2070 4757 8.665685 ACCTTATATGCAGACTAAAAAGAAACG 58.334 33.333 0.00 0.00 0.00 3.60
2071 4758 8.122952 CCTTATATGCAGACTAAAAAGAAACGG 58.877 37.037 0.00 0.00 0.00 4.44
2072 4759 8.780846 TTATATGCAGACTAAAAAGAAACGGA 57.219 30.769 0.00 0.00 0.00 4.69
2073 4760 7.681939 ATATGCAGACTAAAAAGAAACGGAA 57.318 32.000 0.00 0.00 0.00 4.30
2074 4761 5.418310 TGCAGACTAAAAAGAAACGGAAG 57.582 39.130 0.00 0.00 0.00 3.46
2075 4762 4.274950 TGCAGACTAAAAAGAAACGGAAGG 59.725 41.667 0.00 0.00 0.00 3.46
2076 4763 4.514066 GCAGACTAAAAAGAAACGGAAGGA 59.486 41.667 0.00 0.00 0.00 3.36
2077 4764 5.334182 GCAGACTAAAAAGAAACGGAAGGAG 60.334 44.000 0.00 0.00 0.00 3.69
2078 4765 5.758784 CAGACTAAAAAGAAACGGAAGGAGT 59.241 40.000 0.00 0.00 0.00 3.85
2079 4766 6.927381 CAGACTAAAAAGAAACGGAAGGAGTA 59.073 38.462 0.00 0.00 0.00 2.59
2080 4767 6.927936 AGACTAAAAAGAAACGGAAGGAGTAC 59.072 38.462 0.00 0.00 0.00 2.73
2081 4768 6.824553 ACTAAAAAGAAACGGAAGGAGTACT 58.175 36.000 0.00 0.00 0.00 2.73
2092 4779 3.569277 GGAAGGAGTACTCGGGAATAGTC 59.431 52.174 16.56 4.89 0.00 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.871463 ACGCTTTCTTAATAACTGTGTACTTCT 59.129 33.333 0.00 0.00 0.00 2.85
29 30 3.078837 GTTACCATGTAACAGGTGGGTG 58.921 50.000 11.24 0.00 38.87 4.61
69 70 2.821991 ACATATCTTAGTGGAGCCGC 57.178 50.000 0.00 0.00 0.00 6.53
105 116 6.092092 CCATGTAATTACAATGTGTGTGGTG 58.908 40.000 21.57 11.06 41.89 4.17
117 128 7.604549 TCTCGACAAGTTACCATGTAATTACA 58.395 34.615 20.14 20.14 40.98 2.41
118 129 8.644318 ATCTCGACAAGTTACCATGTAATTAC 57.356 34.615 8.75 8.75 0.00 1.89
119 130 9.740239 GTATCTCGACAAGTTACCATGTAATTA 57.260 33.333 0.00 0.00 0.00 1.40
120 131 8.255206 TGTATCTCGACAAGTTACCATGTAATT 58.745 33.333 0.00 0.00 31.66 1.40
121 132 7.778083 TGTATCTCGACAAGTTACCATGTAAT 58.222 34.615 0.00 0.00 31.66 1.89
194 209 2.544277 CGGTGTATATGTGGGTGGTACG 60.544 54.545 0.00 0.00 0.00 3.67
213 228 1.956170 GTGTGCCCATATCTCGCGG 60.956 63.158 6.13 0.00 0.00 6.46
214 229 1.956170 GGTGTGCCCATATCTCGCG 60.956 63.158 0.00 0.00 0.00 5.87
217 232 2.038387 AAACGGTGTGCCCATATCTC 57.962 50.000 0.00 0.00 0.00 2.75
264 300 2.489938 AAACGGTGTGCTCATACCAT 57.510 45.000 14.66 0.00 42.00 3.55
279 315 5.170803 GTGGTTTCTCGCTTTCTTTAAAACG 59.829 40.000 0.00 0.00 35.90 3.60
315 366 6.381133 GGAATGGTAAAACCTCATCCATTTCT 59.619 38.462 8.73 0.00 45.20 2.52
324 376 3.117093 TGGGTTGGAATGGTAAAACCTCA 60.117 43.478 3.66 0.00 41.51 3.86
370 439 4.468868 AGCAACCGTCTTAGGTACCTATTT 59.531 41.667 22.36 6.54 45.21 1.40
411 2825 2.071778 AGCCAGCCTCTTTTTGTTCA 57.928 45.000 0.00 0.00 0.00 3.18
458 2872 3.996150 CAAGTTTCCATGACTTGTGCT 57.004 42.857 14.59 0.00 45.52 4.40
645 3229 5.168569 TGTGCTGACAACAGTAAGCTATAC 58.831 41.667 6.53 0.00 45.04 1.47
646 3230 5.400066 TGTGCTGACAACAGTAAGCTATA 57.600 39.130 6.53 0.00 45.04 1.31
647 3231 4.271696 TGTGCTGACAACAGTAAGCTAT 57.728 40.909 6.53 0.00 45.04 2.97
680 3266 0.392706 GGTCTGCAAACCAAAAGGGG 59.607 55.000 3.71 0.00 42.91 4.79
777 3366 8.585881 GCAATCCACAAGTCTAATCTATAGGTA 58.414 37.037 0.00 0.00 0.00 3.08
778 3367 7.071196 TGCAATCCACAAGTCTAATCTATAGGT 59.929 37.037 0.00 0.00 0.00 3.08
779 3368 7.386299 GTGCAATCCACAAGTCTAATCTATAGG 59.614 40.741 0.00 0.00 44.06 2.57
780 3369 7.386299 GGTGCAATCCACAAGTCTAATCTATAG 59.614 40.741 0.00 0.00 46.50 1.31
781 3370 7.217200 GGTGCAATCCACAAGTCTAATCTATA 58.783 38.462 0.00 0.00 46.50 1.31
782 3371 6.058183 GGTGCAATCCACAAGTCTAATCTAT 58.942 40.000 0.00 0.00 46.50 1.98
815 3405 1.003108 GCTAGCGGTTTCTTCTCTGC 58.997 55.000 0.00 0.00 36.34 4.26
816 3406 2.266554 CTGCTAGCGGTTTCTTCTCTG 58.733 52.381 15.85 0.00 0.00 3.35
860 3464 8.352942 GCCGATTGATGAAAGTAATTAAGGATT 58.647 33.333 0.00 0.00 0.00 3.01
861 3465 7.040409 GGCCGATTGATGAAAGTAATTAAGGAT 60.040 37.037 0.00 0.00 0.00 3.24
862 3466 6.262273 GGCCGATTGATGAAAGTAATTAAGGA 59.738 38.462 0.00 0.00 0.00 3.36
863 3467 6.438763 GGCCGATTGATGAAAGTAATTAAGG 58.561 40.000 0.00 0.00 0.00 2.69
907 3511 9.547753 TCTTCTTTTTATTCTTCGATCTATGGG 57.452 33.333 0.00 0.00 0.00 4.00
926 3577 4.079672 TCCTCCTCCTCGTATCTCTTCTTT 60.080 45.833 0.00 0.00 0.00 2.52
938 3589 0.539438 CATCCTCCTCCTCCTCCTCG 60.539 65.000 0.00 0.00 0.00 4.63
990 3673 4.665451 TCCTCTCAATCATCCAGCAAAAA 58.335 39.130 0.00 0.00 0.00 1.94
991 3674 4.305539 TCCTCTCAATCATCCAGCAAAA 57.694 40.909 0.00 0.00 0.00 2.44
992 3675 4.515028 ATCCTCTCAATCATCCAGCAAA 57.485 40.909 0.00 0.00 0.00 3.68
993 3676 4.080186 TCAATCCTCTCAATCATCCAGCAA 60.080 41.667 0.00 0.00 0.00 3.91
994 3677 3.457012 TCAATCCTCTCAATCATCCAGCA 59.543 43.478 0.00 0.00 0.00 4.41
995 3678 3.814283 GTCAATCCTCTCAATCATCCAGC 59.186 47.826 0.00 0.00 0.00 4.85
996 3679 5.032327 TGTCAATCCTCTCAATCATCCAG 57.968 43.478 0.00 0.00 0.00 3.86
997 3680 5.188434 GTTGTCAATCCTCTCAATCATCCA 58.812 41.667 0.00 0.00 0.00 3.41
998 3681 4.272018 CGTTGTCAATCCTCTCAATCATCC 59.728 45.833 0.00 0.00 0.00 3.51
999 3682 4.260538 GCGTTGTCAATCCTCTCAATCATC 60.261 45.833 0.00 0.00 0.00 2.92
1000 3683 3.624861 GCGTTGTCAATCCTCTCAATCAT 59.375 43.478 0.00 0.00 0.00 2.45
1001 3684 3.002791 GCGTTGTCAATCCTCTCAATCA 58.997 45.455 0.00 0.00 0.00 2.57
1002 3685 2.029728 CGCGTTGTCAATCCTCTCAATC 59.970 50.000 0.00 0.00 0.00 2.67
1003 3686 2.002586 CGCGTTGTCAATCCTCTCAAT 58.997 47.619 0.00 0.00 0.00 2.57
1004 3687 1.000394 TCGCGTTGTCAATCCTCTCAA 60.000 47.619 5.77 0.00 0.00 3.02
1005 3688 0.601057 TCGCGTTGTCAATCCTCTCA 59.399 50.000 5.77 0.00 0.00 3.27
1006 3689 0.992802 GTCGCGTTGTCAATCCTCTC 59.007 55.000 5.77 0.00 0.00 3.20
1007 3690 0.317160 TGTCGCGTTGTCAATCCTCT 59.683 50.000 5.77 0.00 0.00 3.69
1008 3691 1.144969 TTGTCGCGTTGTCAATCCTC 58.855 50.000 5.77 0.00 0.00 3.71
1009 3692 1.263217 GTTTGTCGCGTTGTCAATCCT 59.737 47.619 5.77 0.00 0.00 3.24
1010 3693 1.662026 GGTTTGTCGCGTTGTCAATCC 60.662 52.381 5.77 11.95 31.47 3.01
1011 3694 1.670326 GGTTTGTCGCGTTGTCAATC 58.330 50.000 5.77 7.19 0.00 2.67
1012 3695 0.041663 CGGTTTGTCGCGTTGTCAAT 60.042 50.000 5.77 0.00 0.00 2.57
1013 3696 1.348938 CGGTTTGTCGCGTTGTCAA 59.651 52.632 5.77 5.39 0.00 3.18
1014 3697 1.754436 GACGGTTTGTCGCGTTGTCA 61.754 55.000 5.77 0.00 37.96 3.58
1036 3719 1.018226 CGCTGCTTGGAGAAGGTCAG 61.018 60.000 0.00 0.00 0.00 3.51
1078 3761 3.157252 GAGGATGGCGAGCTCCCA 61.157 66.667 21.57 21.57 36.66 4.37
1194 3878 4.153475 CGCGGAATAAAAAGAAACTGAGGA 59.847 41.667 0.00 0.00 0.00 3.71
1195 3879 4.083484 ACGCGGAATAAAAAGAAACTGAGG 60.083 41.667 12.47 0.00 0.00 3.86
1196 3880 5.030874 ACGCGGAATAAAAAGAAACTGAG 57.969 39.130 12.47 0.00 0.00 3.35
1197 3881 6.730960 ATACGCGGAATAAAAAGAAACTGA 57.269 33.333 12.47 0.00 0.00 3.41
1198 3882 8.883789 TTTATACGCGGAATAAAAAGAAACTG 57.116 30.769 20.06 0.00 0.00 3.16
1203 3887 9.291664 CCAAATTTTATACGCGGAATAAAAAGA 57.708 29.630 29.20 17.14 40.37 2.52
1204 3888 9.078753 ACCAAATTTTATACGCGGAATAAAAAG 57.921 29.630 29.20 23.55 40.37 2.27
1205 3889 8.983307 ACCAAATTTTATACGCGGAATAAAAA 57.017 26.923 29.20 21.22 40.37 1.94
1206 3890 8.242053 TGACCAAATTTTATACGCGGAATAAAA 58.758 29.630 28.37 28.37 40.91 1.52
1207 3891 7.759465 TGACCAAATTTTATACGCGGAATAAA 58.241 30.769 19.04 19.04 0.00 1.40
1208 3892 7.317842 TGACCAAATTTTATACGCGGAATAA 57.682 32.000 12.47 11.49 0.00 1.40
1209 3893 6.922247 TGACCAAATTTTATACGCGGAATA 57.078 33.333 12.47 5.07 0.00 1.75
1210 3894 5.821516 TGACCAAATTTTATACGCGGAAT 57.178 34.783 12.47 6.22 0.00 3.01
1211 3895 5.624344 TTGACCAAATTTTATACGCGGAA 57.376 34.783 12.47 0.00 0.00 4.30
1212 3896 5.181622 ACTTTGACCAAATTTTATACGCGGA 59.818 36.000 12.47 0.00 0.00 5.54
1213 3897 5.395642 ACTTTGACCAAATTTTATACGCGG 58.604 37.500 12.47 0.00 0.00 6.46
1214 3898 6.081049 TGACTTTGACCAAATTTTATACGCG 58.919 36.000 3.53 3.53 0.00 6.01
1215 3899 7.861176 TTGACTTTGACCAAATTTTATACGC 57.139 32.000 0.00 0.00 0.00 4.42
1216 3900 9.458374 AGTTTGACTTTGACCAAATTTTATACG 57.542 29.630 0.00 0.00 35.14 3.06
1220 3904 9.575783 GTGTAGTTTGACTTTGACCAAATTTTA 57.424 29.630 0.00 0.00 35.14 1.52
1221 3905 8.091449 TGTGTAGTTTGACTTTGACCAAATTTT 58.909 29.630 0.00 0.00 35.14 1.82
1222 3906 7.607250 TGTGTAGTTTGACTTTGACCAAATTT 58.393 30.769 0.00 0.00 35.14 1.82
1223 3907 7.164230 TGTGTAGTTTGACTTTGACCAAATT 57.836 32.000 0.00 0.00 35.14 1.82
1224 3908 6.767524 TGTGTAGTTTGACTTTGACCAAAT 57.232 33.333 0.00 0.00 35.14 2.32
1225 3909 6.576662 TTGTGTAGTTTGACTTTGACCAAA 57.423 33.333 0.00 0.00 0.00 3.28
1226 3910 6.207810 ACTTTGTGTAGTTTGACTTTGACCAA 59.792 34.615 0.00 0.00 0.00 3.67
1227 3911 5.708230 ACTTTGTGTAGTTTGACTTTGACCA 59.292 36.000 0.00 0.00 0.00 4.02
1228 3912 6.190954 ACTTTGTGTAGTTTGACTTTGACC 57.809 37.500 0.00 0.00 0.00 4.02
1302 3986 9.365906 TCCACCATAAAATGCATTTCATACTAT 57.634 29.630 24.28 14.76 34.33 2.12
1303 3987 8.759481 TCCACCATAAAATGCATTTCATACTA 57.241 30.769 24.28 13.18 34.33 1.82
1304 3988 7.658525 TCCACCATAAAATGCATTTCATACT 57.341 32.000 24.28 11.39 34.33 2.12
1305 3989 8.362639 AGATCCACCATAAAATGCATTTCATAC 58.637 33.333 24.28 8.44 34.33 2.39
1306 3990 8.361889 CAGATCCACCATAAAATGCATTTCATA 58.638 33.333 24.28 14.57 34.33 2.15
1307 3991 7.070198 TCAGATCCACCATAAAATGCATTTCAT 59.930 33.333 24.28 13.62 36.87 2.57
1308 3992 6.380560 TCAGATCCACCATAAAATGCATTTCA 59.619 34.615 24.28 11.63 32.27 2.69
1309 3993 6.808829 TCAGATCCACCATAAAATGCATTTC 58.191 36.000 24.28 8.55 32.27 2.17
1310 3994 6.795144 TCAGATCCACCATAAAATGCATTT 57.205 33.333 18.99 18.99 34.92 2.32
1311 3995 6.989155 ATCAGATCCACCATAAAATGCATT 57.011 33.333 5.99 5.99 0.00 3.56
1312 3996 8.660295 ATTATCAGATCCACCATAAAATGCAT 57.340 30.769 0.00 0.00 0.00 3.96
1313 3997 9.758021 ATATTATCAGATCCACCATAAAATGCA 57.242 29.630 0.00 0.00 0.00 3.96
1386 4070 9.984190 TGGTTAAACTCAAGTTTTGTAAAGTTT 57.016 25.926 12.95 10.16 45.07 2.66
1387 4071 9.984190 TTGGTTAAACTCAAGTTTTGTAAAGTT 57.016 25.926 12.95 0.00 45.07 2.66
1388 4072 9.984190 TTTGGTTAAACTCAAGTTTTGTAAAGT 57.016 25.926 12.95 0.00 45.07 2.66
1390 4074 9.205719 GGTTTGGTTAAACTCAAGTTTTGTAAA 57.794 29.630 12.95 7.75 45.07 2.01
1391 4075 8.365647 TGGTTTGGTTAAACTCAAGTTTTGTAA 58.634 29.630 12.95 0.12 45.07 2.41
1392 4076 7.893658 TGGTTTGGTTAAACTCAAGTTTTGTA 58.106 30.769 12.95 0.00 45.07 2.41
1393 4077 6.760291 TGGTTTGGTTAAACTCAAGTTTTGT 58.240 32.000 12.95 0.00 45.07 2.83
1394 4078 7.841915 ATGGTTTGGTTAAACTCAAGTTTTG 57.158 32.000 12.95 0.00 45.07 2.44
1395 4079 8.755028 ACTATGGTTTGGTTAAACTCAAGTTTT 58.245 29.630 12.95 0.00 45.07 2.43
1396 4080 8.755028 AACTATGGTTTGGTTAAACTCAAGTTT 58.245 29.630 12.41 12.41 44.39 2.66
1397 4081 7.891498 ACTATGGTTTGGTTAAACTCAAGTT 57.109 32.000 0.00 0.00 44.39 2.66
1398 4082 7.683463 GCAACTATGGTTTGGTTAAACTCAAGT 60.683 37.037 0.00 0.00 44.39 3.16
1399 4083 6.640907 GCAACTATGGTTTGGTTAAACTCAAG 59.359 38.462 0.00 0.00 44.39 3.02
1400 4084 6.461788 GGCAACTATGGTTTGGTTAAACTCAA 60.462 38.462 0.00 0.00 44.39 3.02
1401 4085 5.010213 GGCAACTATGGTTTGGTTAAACTCA 59.990 40.000 0.00 0.00 44.39 3.41
1402 4086 5.010213 TGGCAACTATGGTTTGGTTAAACTC 59.990 40.000 0.00 0.00 41.18 3.01
1403 4087 4.896482 TGGCAACTATGGTTTGGTTAAACT 59.104 37.500 0.00 0.00 41.18 2.66
1404 4088 5.203060 TGGCAACTATGGTTTGGTTAAAC 57.797 39.130 0.00 0.00 40.91 2.01
1405 4089 5.305644 ACATGGCAACTATGGTTTGGTTAAA 59.694 36.000 0.00 0.00 32.73 1.52
1406 4090 4.835615 ACATGGCAACTATGGTTTGGTTAA 59.164 37.500 0.00 0.00 32.73 2.01
1407 4091 4.411927 ACATGGCAACTATGGTTTGGTTA 58.588 39.130 0.00 0.00 32.73 2.85
1408 4092 3.238597 ACATGGCAACTATGGTTTGGTT 58.761 40.909 0.00 0.00 32.73 3.67
1409 4093 2.888212 ACATGGCAACTATGGTTTGGT 58.112 42.857 0.00 0.00 32.73 3.67
1410 4094 3.959535 AACATGGCAACTATGGTTTGG 57.040 42.857 0.00 0.00 32.73 3.28
1411 4095 4.244862 GGAAACATGGCAACTATGGTTTG 58.755 43.478 0.00 0.00 35.89 2.93
1412 4096 3.056891 CGGAAACATGGCAACTATGGTTT 60.057 43.478 0.00 0.00 35.89 3.27
1413 4097 2.491693 CGGAAACATGGCAACTATGGTT 59.508 45.455 0.00 0.00 37.60 3.67
1414 4098 2.091541 CGGAAACATGGCAACTATGGT 58.908 47.619 0.00 0.00 37.61 3.55
1451 4135 2.281002 CGTTCCCCGTTCCCGTTT 60.281 61.111 0.00 0.00 0.00 3.60
1465 4149 3.382832 CAGCCCCCGACTCTCGTT 61.383 66.667 0.00 0.00 38.40 3.85
1489 4173 5.748670 TGTATGCCCTCACTGTACTTTAA 57.251 39.130 0.00 0.00 0.00 1.52
1493 4177 3.639094 GAGATGTATGCCCTCACTGTACT 59.361 47.826 0.00 0.00 0.00 2.73
1538 4222 3.242739 CCGGAATTGATTGGATCACGTTC 60.243 47.826 0.00 0.00 39.39 3.95
1577 4261 1.276989 GTTCCTCGTTCCATGGTACCA 59.723 52.381 18.99 18.99 0.00 3.25
1598 4282 2.494059 CCCGCATCCGTAAAGATTCAT 58.506 47.619 0.00 0.00 0.00 2.57
1753 4440 4.187694 GTTCTGCTCTCCAATTACTCCAG 58.812 47.826 0.00 0.00 0.00 3.86
1802 4489 2.501261 GTTTTACTCTCTGCCCCGTTT 58.499 47.619 0.00 0.00 0.00 3.60
1826 4513 4.769688 TCAGCCATATCAATCACGAACTT 58.230 39.130 0.00 0.00 0.00 2.66
1867 4554 4.703897 TCGACAGTCTTGGTTCTTGAATT 58.296 39.130 0.00 0.00 0.00 2.17
2022 4709 4.497291 TTGGTTCATAGTAGCCGGAAAT 57.503 40.909 5.05 0.00 0.00 2.17
2039 4726 8.644374 TTTTTAGTCTGCATATAAGGTTTGGT 57.356 30.769 0.00 0.00 0.00 3.67
2040 4727 8.956426 TCTTTTTAGTCTGCATATAAGGTTTGG 58.044 33.333 0.00 0.00 0.00 3.28
2044 4731 8.665685 CGTTTCTTTTTAGTCTGCATATAAGGT 58.334 33.333 0.00 0.00 0.00 3.50
2045 4732 8.122952 CCGTTTCTTTTTAGTCTGCATATAAGG 58.877 37.037 0.00 0.00 0.00 2.69
2046 4733 8.879759 TCCGTTTCTTTTTAGTCTGCATATAAG 58.120 33.333 0.00 0.00 0.00 1.73
2047 4734 8.780846 TCCGTTTCTTTTTAGTCTGCATATAA 57.219 30.769 0.00 0.00 0.00 0.98
2048 4735 8.780846 TTCCGTTTCTTTTTAGTCTGCATATA 57.219 30.769 0.00 0.00 0.00 0.86
2049 4736 7.148239 CCTTCCGTTTCTTTTTAGTCTGCATAT 60.148 37.037 0.00 0.00 0.00 1.78
2050 4737 6.148811 CCTTCCGTTTCTTTTTAGTCTGCATA 59.851 38.462 0.00 0.00 0.00 3.14
2051 4738 5.048713 CCTTCCGTTTCTTTTTAGTCTGCAT 60.049 40.000 0.00 0.00 0.00 3.96
2052 4739 4.274950 CCTTCCGTTTCTTTTTAGTCTGCA 59.725 41.667 0.00 0.00 0.00 4.41
2053 4740 4.514066 TCCTTCCGTTTCTTTTTAGTCTGC 59.486 41.667 0.00 0.00 0.00 4.26
2054 4741 5.758784 ACTCCTTCCGTTTCTTTTTAGTCTG 59.241 40.000 0.00 0.00 0.00 3.51
2055 4742 5.926663 ACTCCTTCCGTTTCTTTTTAGTCT 58.073 37.500 0.00 0.00 0.00 3.24
2056 4743 6.927936 AGTACTCCTTCCGTTTCTTTTTAGTC 59.072 38.462 0.00 0.00 0.00 2.59
2057 4744 6.824553 AGTACTCCTTCCGTTTCTTTTTAGT 58.175 36.000 0.00 0.00 0.00 2.24
2058 4745 6.089150 CGAGTACTCCTTCCGTTTCTTTTTAG 59.911 42.308 17.23 0.00 0.00 1.85
2059 4746 5.922544 CGAGTACTCCTTCCGTTTCTTTTTA 59.077 40.000 17.23 0.00 0.00 1.52
2060 4747 4.748600 CGAGTACTCCTTCCGTTTCTTTTT 59.251 41.667 17.23 0.00 0.00 1.94
2061 4748 4.304939 CGAGTACTCCTTCCGTTTCTTTT 58.695 43.478 17.23 0.00 0.00 2.27
2062 4749 3.305881 CCGAGTACTCCTTCCGTTTCTTT 60.306 47.826 17.23 0.00 0.00 2.52
2063 4750 2.230750 CCGAGTACTCCTTCCGTTTCTT 59.769 50.000 17.23 0.00 0.00 2.52
2064 4751 1.817447 CCGAGTACTCCTTCCGTTTCT 59.183 52.381 17.23 0.00 0.00 2.52
2065 4752 1.135170 CCCGAGTACTCCTTCCGTTTC 60.135 57.143 17.23 0.00 0.00 2.78
2066 4753 0.893447 CCCGAGTACTCCTTCCGTTT 59.107 55.000 17.23 0.00 0.00 3.60
2067 4754 0.038744 TCCCGAGTACTCCTTCCGTT 59.961 55.000 17.23 0.00 0.00 4.44
2068 4755 0.038744 TTCCCGAGTACTCCTTCCGT 59.961 55.000 17.23 0.00 0.00 4.69
2069 4756 1.400737 ATTCCCGAGTACTCCTTCCG 58.599 55.000 17.23 5.64 0.00 4.30
2070 4757 3.564264 ACTATTCCCGAGTACTCCTTCC 58.436 50.000 17.23 0.00 0.00 3.46
2071 4758 4.463070 AGACTATTCCCGAGTACTCCTTC 58.537 47.826 17.23 2.68 0.00 3.46
2072 4759 4.523168 AGACTATTCCCGAGTACTCCTT 57.477 45.455 17.23 0.74 0.00 3.36
2073 4760 4.523168 AAGACTATTCCCGAGTACTCCT 57.477 45.455 17.23 2.19 0.00 3.69
2074 4761 5.595257 AAAAGACTATTCCCGAGTACTCC 57.405 43.478 17.23 0.00 0.00 3.85
2075 4762 8.249638 ACTTAAAAAGACTATTCCCGAGTACTC 58.750 37.037 13.18 13.18 0.00 2.59
2076 4763 8.131847 ACTTAAAAAGACTATTCCCGAGTACT 57.868 34.615 0.00 0.00 0.00 2.73
2077 4764 8.654215 CAACTTAAAAAGACTATTCCCGAGTAC 58.346 37.037 0.00 0.00 0.00 2.73
2078 4765 8.587608 TCAACTTAAAAAGACTATTCCCGAGTA 58.412 33.333 0.00 0.00 0.00 2.59
2079 4766 7.447594 TCAACTTAAAAAGACTATTCCCGAGT 58.552 34.615 0.00 0.00 0.00 4.18
2080 4767 7.900782 TCAACTTAAAAAGACTATTCCCGAG 57.099 36.000 0.00 0.00 0.00 4.63
2081 4768 8.098286 TCATCAACTTAAAAAGACTATTCCCGA 58.902 33.333 0.00 0.00 0.00 5.14


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

AutoCloner maintained by Alex Coulton.