Multiple sequence alignment - TraesCS6A01G128300

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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 TraesCS6A01G128300 chr6A 100.000 9901 0 0 1 9901 100743486 100753386 0.000000e+00 18284
1 TraesCS6A01G128300 chr6A 90.732 1230 112 2 1 1229 100356952 100355724 0.000000e+00 1639
2 TraesCS6A01G128300 chr6A 86.642 1325 123 20 8278 9594 100361919 100360641 0.000000e+00 1417
3 TraesCS6A01G128300 chr6A 86.526 1232 160 6 1 1229 100363135 100361907 0.000000e+00 1351
4 TraesCS6A01G128300 chr6A 81.833 1211 212 7 21 1227 98813267 98812061 0.000000e+00 1011
5 TraesCS6A01G128300 chr6A 86.061 782 97 8 8278 9049 100355736 100354957 0.000000e+00 830
6 TraesCS6A01G128300 chr6A 81.304 813 119 21 8426 9226 100366492 100365701 6.530000e-176 628
7 TraesCS6A01G128300 chr6A 78.336 637 129 8 8346 8979 99785322 99784692 4.310000e-108 403
8 TraesCS6A01G128300 chr6D 92.519 7098 433 35 1231 8275 111601122 111608174 0.000000e+00 10076
9 TraesCS6A01G128300 chr6D 93.381 6421 328 23 1238 7613 29207013 29213381 0.000000e+00 9413
10 TraesCS6A01G128300 chr6D 89.358 1231 127 4 1 1229 83204938 83203710 0.000000e+00 1544
11 TraesCS6A01G128300 chr6D 82.125 1214 207 10 21 1229 82138794 82137586 0.000000e+00 1031
12 TraesCS6A01G128300 chr6D 82.005 1217 200 16 22 1227 81935041 81933833 0.000000e+00 1016
13 TraesCS6A01G128300 chr6D 85.016 961 131 9 8278 9236 83203722 83202773 0.000000e+00 965
14 TraesCS6A01G128300 chr6D 82.370 692 105 13 8426 9113 83209472 83208794 3.980000e-163 586
15 TraesCS6A01G128300 chr6D 85.338 532 75 3 8408 8938 46903091 46903620 1.880000e-151 547
16 TraesCS6A01G128300 chr6D 81.120 625 112 3 8278 8902 83019303 83018685 6.910000e-136 496
17 TraesCS6A01G128300 chr6D 84.836 488 74 0 8278 8765 81762397 81761910 8.940000e-135 492
18 TraesCS6A01G128300 chr6D 84.568 486 75 0 8278 8763 81933843 81933358 5.380000e-132 483
19 TraesCS6A01G128300 chr6D 78.912 588 115 8 8346 8929 82963035 82962453 3.350000e-104 390
20 TraesCS6A01G128300 chr6D 81.352 429 68 10 8346 8768 81758101 81757679 1.230000e-88 339
21 TraesCS6A01G128300 chr6D 76.359 423 65 19 8566 8983 82972385 82971993 2.820000e-45 195
22 TraesCS6A01G128300 chr3D 92.648 6991 447 23 1318 8274 24336950 24343907 0.000000e+00 10000
23 TraesCS6A01G128300 chr3D 92.199 7102 466 28 1227 8274 24290561 24297628 0.000000e+00 9965
24 TraesCS6A01G128300 chr3D 93.546 6182 384 12 2101 8274 24444853 24451027 0.000000e+00 9191
25 TraesCS6A01G128300 chr3D 86.107 1965 202 31 1275 3215 587278079 587276162 0.000000e+00 2050
26 TraesCS6A01G128300 chr3D 86.067 890 57 29 1229 2072 24443990 24444858 0.000000e+00 894
27 TraesCS6A01G128300 chr2D 91.766 7068 507 32 1250 8275 323122255 323115221 0.000000e+00 9758
28 TraesCS6A01G128300 chr2D 91.331 6979 521 40 1335 8278 591593107 591586178 0.000000e+00 9459
29 TraesCS6A01G128300 chr2D 92.487 6229 387 24 1233 7410 311561861 311568059 0.000000e+00 8835
30 TraesCS6A01G128300 chr2D 88.745 6948 704 46 1360 8275 44922087 44928988 0.000000e+00 8427
31 TraesCS6A01G128300 chr5D 91.229 6955 530 31 1356 8275 255574563 255567654 0.000000e+00 9391
32 TraesCS6A01G128300 chr5D 88.831 1155 73 11 1330 2461 26847319 26848440 0.000000e+00 1367
33 TraesCS6A01G128300 chr1D 90.781 6975 563 33 1337 8275 68897108 68890178 0.000000e+00 9245
34 TraesCS6A01G128300 chr4D 92.236 6041 431 16 2251 8275 420154489 420148471 0.000000e+00 8523
35 TraesCS6A01G128300 chr4D 92.117 4326 267 18 1223 5496 16932874 16937177 0.000000e+00 6032
36 TraesCS6A01G128300 chr4A 90.409 3399 265 26 1232 4592 248810683 248814058 0.000000e+00 4414
37 TraesCS6A01G128300 chr7A 89.842 2087 129 27 1233 3273 336386556 336384507 0.000000e+00 2603
38 TraesCS6A01G128300 chr6B 94.182 1633 60 15 8275 9901 159391928 159393531 0.000000e+00 2457
39 TraesCS6A01G128300 chr6B 94.897 1215 38 3 10 1224 159390748 159391938 0.000000e+00 1879
40 TraesCS6A01G128300 chr6B 89.439 1231 126 4 1 1229 158189607 158188379 0.000000e+00 1550
41 TraesCS6A01G128300 chr6B 82.164 1211 209 5 21 1229 157027066 157025861 0.000000e+00 1033
42 TraesCS6A01G128300 chr6B 84.576 966 132 11 8278 9236 158188391 158187436 0.000000e+00 942
43 TraesCS6A01G128300 chr6B 82.016 734 116 9 8275 9005 157901851 157902571 2.360000e-170 610
44 TraesCS6A01G128300 chrUn 88.526 1621 123 17 1231 2808 26517083 26515483 0.000000e+00 1905
45 TraesCS6A01G128300 chr7D 77.435 811 162 19 8278 9086 561001781 561002572 1.950000e-126 464
46 TraesCS6A01G128300 chr7B 77.628 742 154 9 8278 9017 608901833 608902564 3.280000e-119 440


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 TraesCS6A01G128300 chr6A 100743486 100753386 9900 False 18284.000000 18284 100.000000 1 9901 1 chr6A.!!$F1 9900
1 TraesCS6A01G128300 chr6A 100354957 100366492 11535 True 1173.000000 1639 86.253000 1 9594 5 chr6A.!!$R3 9593
2 TraesCS6A01G128300 chr6A 98812061 98813267 1206 True 1011.000000 1011 81.833000 21 1227 1 chr6A.!!$R1 1206
3 TraesCS6A01G128300 chr6A 99784692 99785322 630 True 403.000000 403 78.336000 8346 8979 1 chr6A.!!$R2 633
4 TraesCS6A01G128300 chr6D 111601122 111608174 7052 False 10076.000000 10076 92.519000 1231 8275 1 chr6D.!!$F3 7044
5 TraesCS6A01G128300 chr6D 29207013 29213381 6368 False 9413.000000 9413 93.381000 1238 7613 1 chr6D.!!$F1 6375
6 TraesCS6A01G128300 chr6D 83202773 83209472 6699 True 1031.666667 1544 85.581333 1 9236 3 chr6D.!!$R7 9235
7 TraesCS6A01G128300 chr6D 82137586 82138794 1208 True 1031.000000 1031 82.125000 21 1229 1 chr6D.!!$R1 1208
8 TraesCS6A01G128300 chr6D 81933358 81935041 1683 True 749.500000 1016 83.286500 22 8763 2 chr6D.!!$R6 8741
9 TraesCS6A01G128300 chr6D 46903091 46903620 529 False 547.000000 547 85.338000 8408 8938 1 chr6D.!!$F2 530
10 TraesCS6A01G128300 chr6D 83018685 83019303 618 True 496.000000 496 81.120000 8278 8902 1 chr6D.!!$R4 624
11 TraesCS6A01G128300 chr6D 81757679 81762397 4718 True 415.500000 492 83.094000 8278 8768 2 chr6D.!!$R5 490
12 TraesCS6A01G128300 chr6D 82962453 82963035 582 True 390.000000 390 78.912000 8346 8929 1 chr6D.!!$R2 583
13 TraesCS6A01G128300 chr3D 24336950 24343907 6957 False 10000.000000 10000 92.648000 1318 8274 1 chr3D.!!$F2 6956
14 TraesCS6A01G128300 chr3D 24290561 24297628 7067 False 9965.000000 9965 92.199000 1227 8274 1 chr3D.!!$F1 7047
15 TraesCS6A01G128300 chr3D 24443990 24451027 7037 False 5042.500000 9191 89.806500 1229 8274 2 chr3D.!!$F3 7045
16 TraesCS6A01G128300 chr3D 587276162 587278079 1917 True 2050.000000 2050 86.107000 1275 3215 1 chr3D.!!$R1 1940
17 TraesCS6A01G128300 chr2D 323115221 323122255 7034 True 9758.000000 9758 91.766000 1250 8275 1 chr2D.!!$R1 7025
18 TraesCS6A01G128300 chr2D 591586178 591593107 6929 True 9459.000000 9459 91.331000 1335 8278 1 chr2D.!!$R2 6943
19 TraesCS6A01G128300 chr2D 311561861 311568059 6198 False 8835.000000 8835 92.487000 1233 7410 1 chr2D.!!$F2 6177
20 TraesCS6A01G128300 chr2D 44922087 44928988 6901 False 8427.000000 8427 88.745000 1360 8275 1 chr2D.!!$F1 6915
21 TraesCS6A01G128300 chr5D 255567654 255574563 6909 True 9391.000000 9391 91.229000 1356 8275 1 chr5D.!!$R1 6919
22 TraesCS6A01G128300 chr5D 26847319 26848440 1121 False 1367.000000 1367 88.831000 1330 2461 1 chr5D.!!$F1 1131
23 TraesCS6A01G128300 chr1D 68890178 68897108 6930 True 9245.000000 9245 90.781000 1337 8275 1 chr1D.!!$R1 6938
24 TraesCS6A01G128300 chr4D 420148471 420154489 6018 True 8523.000000 8523 92.236000 2251 8275 1 chr4D.!!$R1 6024
25 TraesCS6A01G128300 chr4D 16932874 16937177 4303 False 6032.000000 6032 92.117000 1223 5496 1 chr4D.!!$F1 4273
26 TraesCS6A01G128300 chr4A 248810683 248814058 3375 False 4414.000000 4414 90.409000 1232 4592 1 chr4A.!!$F1 3360
27 TraesCS6A01G128300 chr7A 336384507 336386556 2049 True 2603.000000 2603 89.842000 1233 3273 1 chr7A.!!$R1 2040
28 TraesCS6A01G128300 chr6B 159390748 159393531 2783 False 2168.000000 2457 94.539500 10 9901 2 chr6B.!!$F2 9891
29 TraesCS6A01G128300 chr6B 158187436 158189607 2171 True 1246.000000 1550 87.007500 1 9236 2 chr6B.!!$R2 9235
30 TraesCS6A01G128300 chr6B 157025861 157027066 1205 True 1033.000000 1033 82.164000 21 1229 1 chr6B.!!$R1 1208
31 TraesCS6A01G128300 chr6B 157901851 157902571 720 False 610.000000 610 82.016000 8275 9005 1 chr6B.!!$F1 730
32 TraesCS6A01G128300 chrUn 26515483 26517083 1600 True 1905.000000 1905 88.526000 1231 2808 1 chrUn.!!$R1 1577
33 TraesCS6A01G128300 chr7D 561001781 561002572 791 False 464.000000 464 77.435000 8278 9086 1 chr7D.!!$F1 808
34 TraesCS6A01G128300 chr7B 608901833 608902564 731 False 440.000000 440 77.628000 8278 9017 1 chr7B.!!$F1 739


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
625 5885 0.827507 GGGCCACAACAACCTGTCAT 60.828 55.0 4.39 0.00 0.00 3.06 F
2253 7572 0.744414 CGGGCGATGGTGTTGATCTT 60.744 55.0 0.00 0.00 0.00 2.40 F
2617 7937 0.039764 TCCTCCTTCCTCAGCTTCGA 59.960 55.0 0.00 0.00 0.00 3.71 F
4137 9496 0.106015 GCCTGATATTGGGGTGGCTT 60.106 55.0 0.00 0.00 37.58 4.35 F
4943 10304 0.325671 CTTGAGCTCCCTAGGGTGGA 60.326 60.0 27.58 7.67 36.47 4.02 F
5777 11147 0.461961 GTGATCAGCTCGGCTAACCT 59.538 55.0 0.00 0.00 36.40 3.50 F
7388 12763 0.380378 CTCTCTGTCGCCTGTAGAGC 59.620 60.0 0.00 0.00 38.22 4.09 F
7685 13062 0.526211 CGGTGATGTGGAAGACTCGA 59.474 55.0 0.00 0.00 0.00 4.04 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2594 7913 0.116143 AGCTGAGGAAGGAGGACACT 59.884 55.000 0.00 0.0 0.00 3.55 R
4137 9496 0.252103 GAGCCCATCCCCGGTATAGA 60.252 60.000 0.00 0.0 0.00 1.98 R
4206 9565 1.412710 CTCCACGGCCTTAGCAATAGA 59.587 52.381 0.00 0.0 42.56 1.98 R
6096 11466 0.323178 CATGCAAGCAGAGAACCCCT 60.323 55.000 0.00 0.0 0.00 4.79 R
6422 11794 1.153168 CGGAGTAATGGGCCCACAG 60.153 63.158 31.51 11.3 0.00 3.66 R
7624 13001 0.814010 CCGGCCCATTTCTCTTACGG 60.814 60.000 0.00 0.0 0.00 4.02 R
8291 13668 0.036388 TTGGCATCTCCGTCAAGGTC 60.036 55.000 0.00 0.0 41.99 3.85 R
9387 19006 0.666913 TCGGCTACAGATTAGCGTCC 59.333 55.000 0.00 0.0 41.24 4.79 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
252 5512 1.131126 CTCAACGCCAGCAATAACAGG 59.869 52.381 0.00 0.00 0.00 4.00
496 5756 3.009473 ACAGGGTGTTCTTGATAGTGCAT 59.991 43.478 0.00 0.00 0.00 3.96
526 5786 1.066143 GCCTCAGAAATCTCCGAACCA 60.066 52.381 0.00 0.00 0.00 3.67
625 5885 0.827507 GGGCCACAACAACCTGTCAT 60.828 55.000 4.39 0.00 0.00 3.06
627 5887 1.317613 GCCACAACAACCTGTCATGA 58.682 50.000 0.00 0.00 0.00 3.07
639 5899 1.297689 GTCATGAGAGCTGCCACCA 59.702 57.895 0.00 0.00 0.00 4.17
654 5914 1.667236 CACCAACACTGAGCAACTGA 58.333 50.000 0.00 0.00 0.00 3.41
842 6102 2.232208 GGCTAGCAGCAAACAATTTCCT 59.768 45.455 18.24 0.00 44.75 3.36
849 6109 4.740334 GCAGCAAACAATTTCCTTGGAGAA 60.740 41.667 0.00 0.00 39.30 2.87
884 6144 7.069986 AGAATAGGCAACCTGAAGTATCTCTA 58.930 38.462 0.00 0.00 34.61 2.43
945 6205 8.529424 TCAGAAATGCATTTCAGATCCTTAAT 57.471 30.769 39.58 21.03 46.50 1.40
1104 6364 4.081972 CCTCTATGGATATCAAGGGTCACG 60.082 50.000 4.83 0.00 38.35 4.35
1148 6408 4.660168 AGAAGCAATCAACTCATTGGACT 58.340 39.130 0.00 0.00 36.39 3.85
1213 6473 4.950475 TGGATGTGTCAAACAACAACCTTA 59.050 37.500 4.13 0.00 43.61 2.69
1214 6474 5.596361 TGGATGTGTCAAACAACAACCTTAT 59.404 36.000 4.13 0.00 43.61 1.73
1215 6475 6.773200 TGGATGTGTCAAACAACAACCTTATA 59.227 34.615 4.13 0.00 43.61 0.98
1216 6476 7.040755 TGGATGTGTCAAACAACAACCTTATAG 60.041 37.037 4.13 0.00 43.61 1.31
1217 6477 6.627395 TGTGTCAAACAACAACCTTATAGG 57.373 37.500 0.00 0.00 37.33 2.57
1218 6478 6.358178 TGTGTCAAACAACAACCTTATAGGA 58.642 36.000 0.00 0.00 35.62 2.94
1219 6479 6.485313 TGTGTCAAACAACAACCTTATAGGAG 59.515 38.462 0.00 0.00 35.62 3.69
1220 6480 6.708949 GTGTCAAACAACAACCTTATAGGAGA 59.291 38.462 0.00 0.00 37.67 3.71
1221 6481 7.227910 GTGTCAAACAACAACCTTATAGGAGAA 59.772 37.037 0.00 0.00 37.67 2.87
1222 6482 7.776030 TGTCAAACAACAACCTTATAGGAGAAA 59.224 33.333 0.00 0.00 37.67 2.52
1223 6483 8.793592 GTCAAACAACAACCTTATAGGAGAAAT 58.206 33.333 0.00 0.00 37.67 2.17
1224 6484 9.362151 TCAAACAACAACCTTATAGGAGAAATT 57.638 29.630 0.00 0.00 37.67 1.82
1225 6485 9.626045 CAAACAACAACCTTATAGGAGAAATTC 57.374 33.333 0.00 0.00 37.67 2.17
1365 6650 1.801025 GCTCTCCTTGCTCTTCTACGC 60.801 57.143 0.00 0.00 0.00 4.42
1580 6865 3.881104 GTTGGTCGGGGTGGTGGT 61.881 66.667 0.00 0.00 0.00 4.16
1581 6866 3.879885 TTGGTCGGGGTGGTGGTG 61.880 66.667 0.00 0.00 0.00 4.17
1588 6873 4.887190 GGGTGGTGGTGCGTTGGT 62.887 66.667 0.00 0.00 0.00 3.67
1589 6874 3.284449 GGTGGTGGTGCGTTGGTC 61.284 66.667 0.00 0.00 0.00 4.02
1590 6875 3.645975 GTGGTGGTGCGTTGGTCG 61.646 66.667 0.00 0.00 43.12 4.79
1591 6876 4.920112 TGGTGGTGCGTTGGTCGG 62.920 66.667 0.00 0.00 40.26 4.79
1635 6920 1.764054 CGGCTCCTTCCCCTGATCT 60.764 63.158 0.00 0.00 0.00 2.75
1672 6957 1.216977 CCCGTCCGCTGTGATGTTA 59.783 57.895 0.00 0.00 0.00 2.41
1674 6959 0.806102 CCGTCCGCTGTGATGTTAGG 60.806 60.000 0.00 0.00 0.00 2.69
2253 7572 0.744414 CGGGCGATGGTGTTGATCTT 60.744 55.000 0.00 0.00 0.00 2.40
2419 7738 1.383109 TCGAGGCTGGATCCATGGT 60.383 57.895 16.63 1.79 0.00 3.55
2551 7870 3.710722 CTGCCTCTCGCTTGGGGT 61.711 66.667 0.00 0.00 38.78 4.95
2610 7930 0.191064 ACCAGTGTCCTCCTTCCTCA 59.809 55.000 0.00 0.00 0.00 3.86
2617 7937 0.039764 TCCTCCTTCCTCAGCTTCGA 59.960 55.000 0.00 0.00 0.00 3.71
2704 8042 2.204090 TTCCCTCGGGCCCTTCTT 60.204 61.111 22.43 0.00 34.68 2.52
2721 8059 3.107642 TCTTCGACCCTGACTTGTTTC 57.892 47.619 0.00 0.00 0.00 2.78
2734 8072 3.660111 GTTTCGCTTGCCACCGCT 61.660 61.111 0.00 0.00 35.36 5.52
2836 8174 1.266867 TAACCGTACCAAGAGCCCCC 61.267 60.000 0.00 0.00 0.00 5.40
2858 8196 3.420893 CCTTCATACAGTTTGGCTTGGA 58.579 45.455 0.00 0.00 0.00 3.53
2980 8318 0.827368 GATTTCTCCGCAGACCCTCT 59.173 55.000 0.00 0.00 0.00 3.69
3062 8401 7.446931 TCAGAGTATGAATTTGCAGTGGTTTTA 59.553 33.333 0.00 0.00 34.02 1.52
3071 8410 2.312390 GCAGTGGTTTTACCCTCCAAA 58.688 47.619 0.00 0.00 37.50 3.28
3555 8901 6.041296 GCAATCTGAATGGGATAAGTTGGATT 59.959 38.462 0.00 0.00 0.00 3.01
3575 8921 2.103042 GGATGAACGCGAGCTGCTT 61.103 57.895 15.93 0.00 43.27 3.91
3625 8971 0.772124 AAGGAGGACTTGGCTTCCCA 60.772 55.000 0.66 0.00 38.21 4.37
3628 8974 0.394899 GAGGACTTGGCTTCCCATGG 60.395 60.000 4.14 4.14 41.78 3.66
3665 9011 1.554583 GGACCCCCTTCTCTGGTGTC 61.555 65.000 0.00 0.00 30.97 3.67
3708 9054 0.454196 GCAGTCTCCGTCCTTCTCTC 59.546 60.000 0.00 0.00 0.00 3.20
3728 9074 3.153270 GATCGAGGACCTTCCCGCC 62.153 68.421 0.00 0.00 37.19 6.13
3771 9120 4.841246 AGCCCTCAACTAAGAAGAAGAAGA 59.159 41.667 0.00 0.00 0.00 2.87
4045 9404 1.682684 CTACAGGTCCGTCTGCCCT 60.683 63.158 0.00 0.00 38.26 5.19
4046 9405 1.668101 CTACAGGTCCGTCTGCCCTC 61.668 65.000 0.00 0.00 38.26 4.30
4068 9427 2.117865 CATCTCTTCCTGCCTCTCCTT 58.882 52.381 0.00 0.00 0.00 3.36
4119 9478 5.504830 GATGATCATCTGCTGCATATCATGC 60.505 44.000 25.47 15.33 44.01 4.06
4137 9496 0.106015 GCCTGATATTGGGGTGGCTT 60.106 55.000 0.00 0.00 37.58 4.35
4360 9721 3.521560 CAAGCGATCTAAGCCTTGTGTA 58.478 45.455 0.00 0.00 34.64 2.90
4383 9744 1.363744 CCGTGCAGATTGAGTCTTCC 58.636 55.000 0.00 0.00 34.00 3.46
4401 9762 8.637196 AGTCTTCCTATTAAAAACCTTTCCTG 57.363 34.615 0.00 0.00 0.00 3.86
4510 9871 6.951198 ACATATTGACATTTTAGGGTTGGTCA 59.049 34.615 0.00 0.00 33.84 4.02
4665 10026 6.703319 TGATTTCATTGCTTTTGATCATGGT 58.297 32.000 0.00 0.00 0.00 3.55
4735 10096 6.328782 TGTGGGAATTTATGGTGGTATACA 57.671 37.500 5.01 0.00 0.00 2.29
4744 10105 1.200519 GGTGGTATACAGCCCTGTGA 58.799 55.000 11.02 0.00 44.63 3.58
4824 10185 8.570470 TGTAATATTCCTCTTTTAATTGGGGGA 58.430 33.333 0.00 0.00 0.00 4.81
4851 10212 2.172851 ATTTGTTACGTTCTCCGGCA 57.827 45.000 0.00 0.00 42.24 5.69
4911 10272 8.066000 GCCAATGCTTTTAATGATTTCATTAGC 58.934 33.333 15.07 15.07 41.91 3.09
4943 10304 0.325671 CTTGAGCTCCCTAGGGTGGA 60.326 60.000 27.58 7.67 36.47 4.02
4992 10354 2.751036 TCGCATGTCCGGTCGGTA 60.751 61.111 9.36 0.81 36.47 4.02
5017 10379 4.714308 TGGACAGGGTTTTTGTTTCTGATT 59.286 37.500 0.00 0.00 0.00 2.57
5033 10395 2.868583 CTGATTAATGGGACTCGCTGTG 59.131 50.000 0.00 0.00 0.00 3.66
5182 10550 3.005684 TGAGGGTTTTTGTGACATGATGC 59.994 43.478 0.00 0.00 0.00 3.91
5220 10589 2.035632 CTTCTAGCTTCCCCTCATCGT 58.964 52.381 0.00 0.00 0.00 3.73
5307 10676 4.003788 CGGAATAGGGCGGCCGAT 62.004 66.667 33.48 20.86 46.29 4.18
5374 10743 3.118629 GGACCAATCTGCTGACACATCTA 60.119 47.826 0.00 0.00 0.00 1.98
5393 10762 4.244326 GCTCTCCGCCTCTCAGTA 57.756 61.111 0.00 0.00 0.00 2.74
5453 10822 4.791974 CTTCACCAGCAGTCAGAAATTTC 58.208 43.478 10.33 10.33 0.00 2.17
5579 10948 4.565166 CACTCTATTGATTGACGGCGTTAA 59.435 41.667 19.57 19.57 0.00 2.01
5685 11055 1.204467 CTCTGCTCTGACTTCTGGGAC 59.796 57.143 0.00 0.00 0.00 4.46
5745 11115 2.471815 TGGTCCCCTTATCTGACGAT 57.528 50.000 0.00 0.00 0.00 3.73
5763 11133 2.609984 CGATGAGATCTGGCAGGTGATC 60.610 54.545 15.73 10.73 39.32 2.92
5777 11147 0.461961 GTGATCAGCTCGGCTAACCT 59.538 55.000 0.00 0.00 36.40 3.50
5868 11238 7.554118 CGGCCTCTCATTTGTAATATTATCCAT 59.446 37.037 0.00 0.00 0.00 3.41
5920 11290 3.936453 TCGCCTTAATTACGCTGTCATTT 59.064 39.130 3.03 0.00 0.00 2.32
5964 11334 1.004504 GCGGACTTGATCTCGCAATTC 60.005 52.381 0.00 0.00 42.84 2.17
5995 11365 3.810941 TGCCCTTATTAATAACTTCGCCG 59.189 43.478 3.71 0.00 0.00 6.46
6003 11373 2.754946 ATAACTTCGCCGAGTTTCCA 57.245 45.000 7.13 0.00 40.24 3.53
6013 11383 1.087501 CGAGTTTCCAGCTAAAGGGC 58.912 55.000 0.00 0.00 0.00 5.19
6054 11424 3.476552 CATTGCCCATCGTACCATTAGT 58.523 45.455 0.00 0.00 0.00 2.24
6096 11466 7.617225 TCATTAAGGGTCGTTTCATTCTAGAA 58.383 34.615 7.82 7.82 0.00 2.10
6158 11528 1.668751 TCACAAGTCAAAAGCGGTGAC 59.331 47.619 8.81 8.81 44.75 3.67
6226 11598 7.308770 GGCCTTTTTACGTAGAGTTTTATTGGT 60.309 37.037 0.00 0.00 0.00 3.67
6623 11995 0.621082 TGGTTGTGACTGGTGTGGAA 59.379 50.000 0.00 0.00 0.00 3.53
6757 12130 0.682852 CCGGTAGTCACAAAGGTGGA 59.317 55.000 0.00 0.00 45.32 4.02
6812 12185 2.044352 AATGCGGGTAAGGTGGCC 60.044 61.111 0.00 0.00 0.00 5.36
6822 12195 4.041938 CGGGTAAGGTGGCCCTAATTAATA 59.958 45.833 0.00 0.00 41.56 0.98
6847 12220 0.563173 CTCTCCTCCCTCCCCATGTA 59.437 60.000 0.00 0.00 0.00 2.29
6869 12242 7.302948 TGTACCTTATGGGCTTCTATCTCTTA 58.697 38.462 0.00 0.00 39.10 2.10
7035 12409 5.421056 ACTTCCATCATGAATCAATGCTTGT 59.579 36.000 0.00 0.00 0.00 3.16
7123 12497 6.110707 AGGCTAAATATTTTCCGTCTTCGAA 58.889 36.000 5.91 0.00 39.71 3.71
7257 12632 2.630580 GGTTTTGGCTTGATTGGTGGTA 59.369 45.455 0.00 0.00 0.00 3.25
7259 12634 4.262851 GGTTTTGGCTTGATTGGTGGTATT 60.263 41.667 0.00 0.00 0.00 1.89
7388 12763 0.380378 CTCTCTGTCGCCTGTAGAGC 59.620 60.000 0.00 0.00 38.22 4.09
7480 12856 1.801178 CTTTCTGCCTCTGGACGTTTC 59.199 52.381 0.00 0.00 0.00 2.78
7495 12871 5.155643 GGACGTTTCTCTGTTAAGTCTCTC 58.844 45.833 0.00 0.00 0.00 3.20
7501 12877 7.698970 CGTTTCTCTGTTAAGTCTCTCTATTCC 59.301 40.741 0.00 0.00 0.00 3.01
7624 13001 2.115291 GCCCTCGGCTGACCAAATC 61.115 63.158 0.00 0.00 46.69 2.17
7657 13034 2.578664 CCGGGCTCCCAATTTTGC 59.421 61.111 5.70 0.00 35.37 3.68
7685 13062 0.526211 CGGTGATGTGGAAGACTCGA 59.474 55.000 0.00 0.00 0.00 4.04
7721 13098 1.271054 ACTGTCACCTGGCTAAGCTTG 60.271 52.381 9.86 0.01 0.00 4.01
7781 13158 3.130160 CTGCCTCCTTTGCCGAGC 61.130 66.667 0.00 0.00 0.00 5.03
7894 13271 8.204836 ACTAGGAACAAATTTACTATCGAGCAT 58.795 33.333 0.00 0.00 0.00 3.79
7932 13309 4.705023 ACCGGCTGACTGCTTATTTAAATT 59.295 37.500 5.91 0.00 42.39 1.82
7946 13323 7.384932 GCTTATTTAAATTGTGTGCTTTCCTGT 59.615 33.333 5.91 0.00 0.00 4.00
7990 13367 2.048127 GACGACCAAGAGGCGCTT 60.048 61.111 7.64 0.00 39.06 4.68
8095 13472 3.127721 GGATGCTTTAGCTTCAGTTGGAC 59.872 47.826 16.44 0.00 44.21 4.02
8110 13487 0.836400 TGGACCTTTCTCTTCCGGCT 60.836 55.000 0.00 0.00 31.38 5.52
8201 13578 1.199097 GGCTTGGGTGTGTTTGATACG 59.801 52.381 0.00 0.00 0.00 3.06
8225 13602 2.038952 TCTGTGATGCTGTTGCTACCTT 59.961 45.455 0.00 0.00 40.48 3.50
8226 13603 3.260632 TCTGTGATGCTGTTGCTACCTTA 59.739 43.478 0.00 0.00 40.48 2.69
8231 13608 3.502123 TGCTGTTGCTACCTTACCTTT 57.498 42.857 0.00 0.00 40.48 3.11
8797 18405 4.263905 ACCTCCAGCCATTATTCTGTCAAA 60.264 41.667 0.00 0.00 0.00 2.69
8875 18483 3.914426 AGGGGTGTTGTATGATCAGAC 57.086 47.619 13.60 13.60 0.00 3.51
8903 18515 6.952358 TCCTATCGAGGTATTTTGGCTAGTAT 59.048 38.462 0.00 0.00 44.19 2.12
9103 18715 5.607477 AGTATGTAATATTGTGGGACGGTG 58.393 41.667 0.00 0.00 0.00 4.94
9162 18777 2.257894 GACATTCTCGACTCTGCTGTG 58.742 52.381 0.00 0.00 0.00 3.66
9310 18927 6.886459 ACTAGTGCACCATAATCTGTGAAAAT 59.114 34.615 14.63 0.00 34.37 1.82
9314 18931 7.340232 AGTGCACCATAATCTGTGAAAATGTAT 59.660 33.333 14.63 0.00 34.37 2.29
9347 18964 2.474526 CGTCCAATTTTGTAGCTGAGCG 60.475 50.000 0.00 0.00 0.00 5.03
9387 19006 0.104671 CCAAGGTTTTGTGTGCCCAG 59.895 55.000 0.00 0.00 32.21 4.45
9405 19024 0.669077 AGGACGCTAATCTGTAGCCG 59.331 55.000 0.00 0.00 37.26 5.52
9470 19091 4.008074 ACAAGTGATCCAACGACATCTT 57.992 40.909 0.00 0.00 0.00 2.40
9502 19124 1.375853 CGCGCCCCATTCTCAATTCA 61.376 55.000 0.00 0.00 0.00 2.57
9514 19136 7.185453 CCATTCTCAATTCAGACGATTCTTTC 58.815 38.462 0.00 0.00 0.00 2.62
9520 19142 3.319137 TCAGACGATTCTTTCCACAGG 57.681 47.619 0.00 0.00 0.00 4.00
9528 19150 6.059484 ACGATTCTTTCCACAGGAAGTTAAA 58.941 36.000 0.00 0.00 43.06 1.52
9531 19153 8.082242 CGATTCTTTCCACAGGAAGTTAAATTT 58.918 33.333 0.00 0.00 43.06 1.82
9552 19177 2.654877 CACGTACCTTGGGAGCGT 59.345 61.111 0.00 0.00 37.17 5.07
9782 24305 4.810790 ACGACAGATGAACAAGTAGGAAG 58.189 43.478 0.00 0.00 0.00 3.46
9794 24317 2.104170 AGTAGGAAGAAAGAGAGCCCG 58.896 52.381 0.00 0.00 0.00 6.13
9803 24326 5.615925 AGAAAGAGAGCCCGTATAATGTT 57.384 39.130 0.00 0.00 0.00 2.71
9821 24344 1.103987 TTACAGCGCAAAGGGCACAA 61.104 50.000 11.47 0.00 44.06 3.33
9836 24359 3.687572 GCACAAGGCATCAGTATCAAG 57.312 47.619 0.00 0.00 43.97 3.02
9837 24360 3.012518 GCACAAGGCATCAGTATCAAGT 58.987 45.455 0.00 0.00 43.97 3.16
9838 24361 3.441572 GCACAAGGCATCAGTATCAAGTT 59.558 43.478 0.00 0.00 43.97 2.66
9840 24363 4.696877 CACAAGGCATCAGTATCAAGTTGA 59.303 41.667 8.27 8.27 0.00 3.18
9897 24420 1.343465 GGAGGAGGACAAACTCGAACA 59.657 52.381 0.00 0.00 38.39 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
118 5375 1.147817 AGGGGTTGAAGATGGCAGTTT 59.852 47.619 0.00 0.00 0.00 2.66
183 5443 1.001503 GGTGGATGGAAATGGCCCA 59.998 57.895 0.00 0.00 38.19 5.36
217 5477 4.752101 GGCGTTGAGTGCTATCAGATTATT 59.248 41.667 0.00 0.00 0.00 1.40
252 5512 2.011947 GTTGGTATCGCCCCAGTAAAC 58.988 52.381 0.00 0.00 36.04 2.01
496 5756 5.045012 AGATTTCTGAGGCTGAATATGCA 57.955 39.130 0.00 0.00 0.00 3.96
526 5786 6.394345 AAAGTAGTTCCCTCCAAGATCAAT 57.606 37.500 0.00 0.00 0.00 2.57
625 5885 1.227943 GTGTTGGTGGCAGCTCTCA 60.228 57.895 18.53 10.95 0.00 3.27
627 5887 1.228063 CAGTGTTGGTGGCAGCTCT 60.228 57.895 18.53 8.12 0.00 4.09
842 6102 2.287977 TCTCGGTGAGAGTTCTCCAA 57.712 50.000 6.68 0.00 46.86 3.53
849 6109 2.145397 TGCCTATTCTCGGTGAGAGT 57.855 50.000 0.00 0.00 46.86 3.24
884 6144 4.799564 TTTTTGCCAAGTGACAAGAAGT 57.200 36.364 0.00 0.00 0.00 3.01
945 6205 3.074412 GGTGCTAAGTTTCTTGCTGCTA 58.926 45.455 0.00 0.00 0.00 3.49
1142 6402 2.840511 TCCAGCCTGGTATTAGTCCAA 58.159 47.619 11.27 0.00 39.03 3.53
1148 6408 4.689612 GAGTTGATCCAGCCTGGTATTA 57.310 45.455 11.27 0.00 39.03 0.98
1242 6502 2.448453 GGACGAAGGGAGAGAAGAGAA 58.552 52.381 0.00 0.00 0.00 2.87
1324 6584 4.452733 CCCGACCCGCAGAAGACC 62.453 72.222 0.00 0.00 0.00 3.85
1327 6612 2.742372 CAACCCGACCCGCAGAAG 60.742 66.667 0.00 0.00 0.00 2.85
1445 6730 4.082523 ACCGGCACCACCATCGAG 62.083 66.667 0.00 0.00 39.03 4.04
1572 6857 3.284449 GACCAACGCACCACCACC 61.284 66.667 0.00 0.00 0.00 4.61
1573 6858 3.645975 CGACCAACGCACCACCAC 61.646 66.667 0.00 0.00 34.51 4.16
1574 6859 4.920112 CCGACCAACGCACCACCA 62.920 66.667 0.00 0.00 41.07 4.17
1635 6920 0.903454 GGAAGGACCGAGGAGACCAA 60.903 60.000 0.00 0.00 0.00 3.67
1672 6957 0.467290 ACGCCACATCAACCAAACCT 60.467 50.000 0.00 0.00 0.00 3.50
1674 6959 0.951558 AGACGCCACATCAACCAAAC 59.048 50.000 0.00 0.00 0.00 2.93
2089 7405 2.842462 TGGCGGATAGGGCGATGT 60.842 61.111 0.00 0.00 34.76 3.06
2343 7662 4.379243 CTGGCGGCGGAACACTCT 62.379 66.667 13.52 0.00 0.00 3.24
2349 7668 4.161295 CCAGATCTGGCGGCGGAA 62.161 66.667 28.45 8.50 44.73 4.30
2419 7738 2.125391 CGAAGCAGCAGCAGCCTA 60.125 61.111 6.10 0.00 45.49 3.93
2594 7913 0.116143 AGCTGAGGAAGGAGGACACT 59.884 55.000 0.00 0.00 0.00 3.55
2605 7925 2.650116 GGGCACTCGAAGCTGAGGA 61.650 63.158 9.11 0.00 40.39 3.71
2610 7930 1.915769 AGAAGGGGCACTCGAAGCT 60.916 57.895 9.11 0.00 0.00 3.74
2678 8016 2.202932 CCGAGGGAACAGGATGCG 60.203 66.667 0.00 0.00 42.53 4.73
2704 8042 0.599204 GCGAAACAAGTCAGGGTCGA 60.599 55.000 0.00 0.00 0.00 4.20
2734 8072 4.680708 GCATCTAGATTGGAAGTGGTTCGA 60.681 45.833 1.33 0.00 32.92 3.71
2836 8174 2.493278 CCAAGCCAAACTGTATGAAGGG 59.507 50.000 0.00 0.00 0.00 3.95
2858 8196 2.053244 AGAATGAGCATCCGGGAAGAT 58.947 47.619 0.00 0.00 0.00 2.40
2980 8318 4.382470 CGCCCATATTTTCAAACCATCCAA 60.382 41.667 0.00 0.00 0.00 3.53
3062 8401 2.907042 CCTTAGACAGTCTTTGGAGGGT 59.093 50.000 8.80 0.00 0.00 4.34
3138 8477 1.271379 ACCACAAGTAGCCGCTTTGAT 60.271 47.619 11.03 0.00 0.00 2.57
3226 8565 1.065199 ACGCCATCATGAACTCCACAT 60.065 47.619 0.00 0.00 0.00 3.21
3501 8847 1.550524 CGAATCAGTCCCTCCACTTGA 59.449 52.381 0.00 0.00 0.00 3.02
3555 8901 2.202610 CAGCTCGCGTTCATCCGA 60.203 61.111 5.77 0.00 0.00 4.55
3575 8921 1.705186 GGAGCAGGGGCATTATCCTTA 59.295 52.381 0.00 0.00 44.61 2.69
3625 8971 1.243902 CTTACCACCAACAACGCCAT 58.756 50.000 0.00 0.00 0.00 4.40
3628 8974 1.520600 CCCCTTACCACCAACAACGC 61.521 60.000 0.00 0.00 0.00 4.84
3665 9011 1.661341 GAGTAGGCACATTGGAGCAG 58.339 55.000 5.84 0.00 31.64 4.24
3708 9054 2.846652 CGGGAAGGTCCTCGATCCG 61.847 68.421 0.00 0.00 36.57 4.18
3728 9074 4.864334 GTGGAGCGCATGGGGGAG 62.864 72.222 11.47 0.00 0.00 4.30
3771 9120 1.403780 CGAGAATTTCCGGACCGAAGT 60.404 52.381 17.49 0.88 0.00 3.01
4035 9394 2.765807 AGATGGGAGGGCAGACGG 60.766 66.667 0.00 0.00 0.00 4.79
4045 9404 0.341258 AGAGGCAGGAAGAGATGGGA 59.659 55.000 0.00 0.00 0.00 4.37
4046 9405 0.758123 GAGAGGCAGGAAGAGATGGG 59.242 60.000 0.00 0.00 0.00 4.00
4068 9427 2.292292 GAGCTGGTAAAACAAGGCGAAA 59.708 45.455 0.00 0.00 0.00 3.46
4119 9478 1.496429 AGAAGCCACCCCAATATCAGG 59.504 52.381 0.00 0.00 0.00 3.86
4137 9496 0.252103 GAGCCCATCCCCGGTATAGA 60.252 60.000 0.00 0.00 0.00 1.98
4163 9522 4.265073 CCCTAATGACAGAAAGAAGGTGG 58.735 47.826 0.00 0.00 0.00 4.61
4202 9561 1.486726 ACGGCCTTAGCAATAGAAGCT 59.513 47.619 0.00 0.00 45.77 3.74
4206 9565 1.412710 CTCCACGGCCTTAGCAATAGA 59.587 52.381 0.00 0.00 42.56 1.98
4360 9721 2.270205 CTCAATCTGCACGGGGCT 59.730 61.111 2.92 0.00 45.15 5.19
4383 9744 9.143631 CTCATTTGCAGGAAAGGTTTTTAATAG 57.856 33.333 0.00 0.00 0.00 1.73
4401 9762 5.824904 TCCAGAATAAAGCTCTCATTTGC 57.175 39.130 0.00 0.00 0.00 3.68
4453 9814 3.328931 ACCAAGTCATGAATCTGGTCACT 59.671 43.478 18.22 0.00 0.00 3.41
4510 9871 6.463331 GGGGAAAAGGATTCCTTAAACGTTTT 60.463 38.462 20.19 7.14 43.92 2.43
4665 10026 4.202524 ACCACACAACTAGCCCAAAAGATA 60.203 41.667 0.00 0.00 0.00 1.98
4702 10063 6.098982 ACCATAAATTCCCACAAAGTGTTCAA 59.901 34.615 0.00 0.00 0.00 2.69
4735 10096 1.672356 GCGTGTGATTCACAGGGCT 60.672 57.895 30.17 0.00 45.43 5.19
4744 10105 0.322975 AGAGGAGCAAGCGTGTGATT 59.677 50.000 0.59 0.00 0.00 2.57
4824 10185 6.348213 CCGGAGAACGTAACAAATTGAAATCT 60.348 38.462 0.00 0.00 42.24 2.40
4851 10212 9.007901 CAAGAGAAATTAGGATTGTTCTTGTCT 57.992 33.333 12.75 0.00 39.16 3.41
4911 10272 1.334054 GCTCAAGAAGCGCACAATTG 58.666 50.000 11.47 9.24 42.21 2.32
4925 10286 0.325671 CTCCACCCTAGGGAGCTCAA 60.326 60.000 35.38 11.73 44.95 3.02
4992 10354 3.447229 CAGAAACAAAAACCCTGTCCAGT 59.553 43.478 0.00 0.00 0.00 4.00
5211 10580 1.679032 GGACCAAAGGAACGATGAGGG 60.679 57.143 0.00 0.00 0.00 4.30
5220 10589 1.999295 TCATCCATGGGACCAAAGGAA 59.001 47.619 13.02 2.82 37.60 3.36
5307 10676 3.449018 GGGACTCTTTGTCTCTATGCAGA 59.551 47.826 0.00 0.00 42.75 4.26
5393 10762 2.760385 GGGAGTAGCGAGTGGCCT 60.760 66.667 3.32 0.00 45.17 5.19
5439 10808 1.135575 CGCCAGGAAATTTCTGACTGC 60.136 52.381 17.42 11.81 34.36 4.40
5685 11055 2.510613 GGAGAGATCTTAGACCCCTCG 58.489 57.143 0.00 0.00 0.00 4.63
5745 11115 1.761198 CTGATCACCTGCCAGATCTCA 59.239 52.381 0.00 0.00 0.00 3.27
5763 11133 1.078759 CGTTCAGGTTAGCCGAGCTG 61.079 60.000 8.44 9.22 44.40 4.24
5834 11204 2.475371 AATGAGAGGCCGCAACTGCT 62.475 55.000 9.88 0.00 39.32 4.24
5868 11238 1.756024 CGTACCCAACCAGAACCCA 59.244 57.895 0.00 0.00 0.00 4.51
5995 11365 2.498644 AGCCCTTTAGCTGGAAACTC 57.501 50.000 0.00 0.00 42.95 3.01
6003 11373 0.833949 GAGTGGCTAGCCCTTTAGCT 59.166 55.000 30.81 17.49 44.32 3.32
6054 11424 2.631160 TGAAAGCCGACTGAAAAGGA 57.369 45.000 0.00 0.00 0.00 3.36
6096 11466 0.323178 CATGCAAGCAGAGAACCCCT 60.323 55.000 0.00 0.00 0.00 4.79
6158 11528 8.553459 TGCCTTCTCAAAGTCTAATTTTAGAG 57.447 34.615 0.29 0.00 40.23 2.43
6226 11598 1.155155 GGCCCCTCAAACCCTTTGA 59.845 57.895 0.00 0.00 46.68 2.69
6422 11794 1.153168 CGGAGTAATGGGCCCACAG 60.153 63.158 31.51 11.30 0.00 3.66
6430 11802 6.113411 AGATTAGAACAAACCGGAGTAATGG 58.887 40.000 9.46 0.00 0.00 3.16
6806 12179 3.572682 GGCAAGTATTAATTAGGGCCACC 59.427 47.826 6.18 0.00 39.88 4.61
6812 12185 6.468543 GGAGGAGAGGCAAGTATTAATTAGG 58.531 44.000 0.00 0.00 0.00 2.69
6822 12195 1.306568 GGAGGGAGGAGAGGCAAGT 60.307 63.158 0.00 0.00 0.00 3.16
6847 12220 6.153680 CGATAAGAGATAGAAGCCCATAAGGT 59.846 42.308 0.00 0.00 38.26 3.50
6869 12242 2.068821 AGCATGAGTCCCAGCCGAT 61.069 57.895 0.00 0.00 0.00 4.18
6928 12301 1.329599 GGTATTTGCGACGATTGTCCC 59.670 52.381 7.54 0.00 42.37 4.46
7035 12409 8.694540 CATAATCTTCCACCACCATTTAATCAA 58.305 33.333 0.00 0.00 0.00 2.57
7123 12497 1.665442 GGCAAAGCAAACATCGGGT 59.335 52.632 0.00 0.00 0.00 5.28
7388 12763 3.904136 AAGACGTTGCCAATCTTCAAG 57.096 42.857 0.00 0.00 0.00 3.02
7480 12856 6.978080 GCTTGGAATAGAGAGACTTAACAGAG 59.022 42.308 0.00 0.00 0.00 3.35
7501 12877 2.639286 GTGCCACCAACGAGCTTG 59.361 61.111 0.00 0.00 0.00 4.01
7618 12995 3.066760 GCCCATTTCTCTTACGGATTTGG 59.933 47.826 0.00 0.00 0.00 3.28
7624 13001 0.814010 CCGGCCCATTTCTCTTACGG 60.814 60.000 0.00 0.00 0.00 4.02
7721 13098 2.051345 CCGCACGCAACTCCAAAC 60.051 61.111 0.00 0.00 0.00 2.93
7781 13158 4.112341 GGAAGCCAAGCTGCGCAG 62.112 66.667 32.83 32.83 39.62 5.18
7932 13309 1.140852 ACTGCTACAGGAAAGCACACA 59.859 47.619 0.00 0.00 44.78 3.72
7946 13323 6.115446 CCTTAGTCAATGATTTCCACTGCTA 58.885 40.000 0.00 0.00 0.00 3.49
7990 13367 5.991606 CCGGATTTTGTAGATCAGCATAGAA 59.008 40.000 0.00 0.00 0.00 2.10
8095 13472 1.639298 CGCAAGCCGGAAGAGAAAGG 61.639 60.000 5.05 0.00 0.00 3.11
8110 13487 1.952133 GCCAGTACACGACACGCAA 60.952 57.895 0.00 0.00 0.00 4.85
8201 13578 3.557595 GGTAGCAACAGCATCACAGATAC 59.442 47.826 0.00 0.00 0.00 2.24
8254 13631 7.633789 TCCAATTTTTAGAGAGAAGGCATACT 58.366 34.615 0.00 0.00 0.00 2.12
8291 13668 0.036388 TTGGCATCTCCGTCAAGGTC 60.036 55.000 0.00 0.00 41.99 3.85
8797 18405 5.815222 GCCACCTTGTAATCAGTTTGTTTTT 59.185 36.000 0.00 0.00 0.00 1.94
9162 18777 9.852091 AATGATTTTTATGCTCTGAAAAGAGTC 57.148 29.630 4.77 0.00 38.16 3.36
9275 18892 7.563888 TTATGGTGCACTAGTAGTAGTACTG 57.436 40.000 17.98 11.58 39.96 2.74
9278 18895 7.997223 ACAGATTATGGTGCACTAGTAGTAGTA 59.003 37.037 17.98 0.00 37.40 1.82
9279 18896 6.834451 ACAGATTATGGTGCACTAGTAGTAGT 59.166 38.462 17.98 4.29 40.38 2.73
9280 18897 7.013369 TCACAGATTATGGTGCACTAGTAGTAG 59.987 40.741 17.98 2.87 35.04 2.57
9281 18898 6.831868 TCACAGATTATGGTGCACTAGTAGTA 59.168 38.462 17.98 0.00 35.04 1.82
9282 18899 5.656859 TCACAGATTATGGTGCACTAGTAGT 59.343 40.000 17.98 0.00 35.04 2.73
9283 18900 6.149129 TCACAGATTATGGTGCACTAGTAG 57.851 41.667 17.98 0.00 35.04 2.57
9310 18927 2.560981 TGGACGTTCTCTGCTTCATACA 59.439 45.455 0.00 0.00 0.00 2.29
9314 18931 2.839486 ATTGGACGTTCTCTGCTTCA 57.161 45.000 0.00 0.00 0.00 3.02
9347 18964 2.416431 GGATGCACTCCTCACAAAATGC 60.416 50.000 7.65 0.00 41.29 3.56
9387 19006 0.666913 TCGGCTACAGATTAGCGTCC 59.333 55.000 0.00 0.00 41.24 4.79
9405 19024 2.904932 CCGTCGTACGTGAAGTAGTTTC 59.095 50.000 16.05 0.00 40.58 2.78
9449 19068 3.685139 AGATGTCGTTGGATCACTTGT 57.315 42.857 0.00 0.00 0.00 3.16
9502 19124 3.325135 ACTTCCTGTGGAAAGAATCGTCT 59.675 43.478 0.53 0.00 41.54 4.18
9514 19136 5.528870 GTGGTGAAATTTAACTTCCTGTGG 58.471 41.667 5.64 0.00 0.00 4.17
9520 19142 6.549912 AGGTACGTGGTGAAATTTAACTTC 57.450 37.500 5.64 0.00 0.00 3.01
9552 19177 2.377628 GAAGCAGGTCCGTGGACACA 62.378 60.000 20.02 0.00 46.20 3.72
9596 19222 2.292267 CCAGAACTCAATCGGATTGGG 58.708 52.381 25.25 25.25 46.21 4.12
9782 24305 6.278363 TGTAACATTATACGGGCTCTCTTTC 58.722 40.000 0.00 0.00 0.00 2.62
9794 24317 4.788521 GCCCTTTGCGCTGTAACATTATAC 60.789 45.833 9.73 0.00 0.00 1.47
9837 24360 3.770388 TGGTGGACGGTTGATAGTATCAA 59.230 43.478 19.51 19.51 46.30 2.57
9838 24361 3.367321 TGGTGGACGGTTGATAGTATCA 58.633 45.455 8.84 8.84 37.55 2.15
9840 24363 2.698797 CCTGGTGGACGGTTGATAGTAT 59.301 50.000 0.00 0.00 34.57 2.12
9843 24366 0.902531 ACCTGGTGGACGGTTGATAG 59.097 55.000 0.00 0.00 37.04 2.08
9844 24367 0.899720 GACCTGGTGGACGGTTGATA 59.100 55.000 2.82 0.00 37.04 2.15
9845 24368 1.677552 GACCTGGTGGACGGTTGAT 59.322 57.895 2.82 0.00 37.04 2.57
9846 24369 2.513259 GGACCTGGTGGACGGTTGA 61.513 63.158 2.82 0.00 37.04 3.18
9847 24370 2.032071 GGACCTGGTGGACGGTTG 59.968 66.667 2.82 0.00 37.04 3.77
9849 24372 0.545787 TAATGGACCTGGTGGACGGT 60.546 55.000 2.82 0.00 37.04 4.83
9850 24373 0.616371 TTAATGGACCTGGTGGACGG 59.384 55.000 2.82 0.00 37.04 4.79
9851 24374 2.170607 AGATTAATGGACCTGGTGGACG 59.829 50.000 2.82 0.00 37.04 4.79
9852 24375 3.933861 AGATTAATGGACCTGGTGGAC 57.066 47.619 2.82 0.00 37.04 4.02
9853 24376 5.307976 CAGATAGATTAATGGACCTGGTGGA 59.692 44.000 2.82 0.00 37.04 4.02



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

AutoCloner maintained by Alex Coulton.