Multiple sequence alignment - TraesCS6B01G456600

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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 TraesCS6B01G456600 chr6B 100.000 3483 0 0 1 3483 712677160 712673678 0.000000e+00 6433
1 TraesCS6B01G456600 chr6B 86.853 1392 154 22 1183 2563 712804372 712802999 0.000000e+00 1530
2 TraesCS6B01G456600 chr6B 81.659 1374 211 23 1137 2497 63417970 63416625 0.000000e+00 1103
3 TraesCS6B01G456600 chr6B 87.015 670 52 16 2848 3483 712802202 712801534 0.000000e+00 723
4 TraesCS6B01G456600 chr6D 86.150 1704 186 34 812 2501 467320224 467318557 0.000000e+00 1794
5 TraesCS6B01G456600 chr6D 85.870 1288 157 15 1214 2497 467547307 467546041 0.000000e+00 1347
6 TraesCS6B01G456600 chr6D 83.862 725 66 25 2757 3474 467318398 467317718 0.000000e+00 643
7 TraesCS6B01G456600 chr6D 83.465 635 67 24 2777 3381 467539823 467539197 1.090000e-154 556
8 TraesCS6B01G456600 chr6D 90.556 360 26 4 3023 3381 467545808 467545456 1.460000e-128 470
9 TraesCS6B01G456600 chr6D 84.014 294 34 11 347 638 467532629 467532347 1.590000e-68 270
10 TraesCS6B01G456600 chr6A 84.154 1685 203 46 812 2480 613773437 613771801 0.000000e+00 1574
11 TraesCS6B01G456600 chr6A 86.052 1226 140 16 1278 2493 613794014 613792810 0.000000e+00 1288
12 TraesCS6B01G456600 chr6A 82.711 723 69 23 2795 3482 613771431 613770730 2.990000e-165 592
13 TraesCS6B01G456600 chr6A 86.475 451 23 13 340 779 613773855 613773432 8.810000e-126 460
14 TraesCS6B01G456600 chr6A 91.205 307 24 3 18 321 613774287 613773981 6.960000e-112 414
15 TraesCS6B01G456600 chr4A 83.691 1024 133 13 1305 2319 705440063 705439065 0.000000e+00 935
16 TraesCS6B01G456600 chr4A 88.119 505 53 6 2976 3475 595780919 595780417 8.320000e-166 593
17 TraesCS6B01G456600 chr4D 91.235 502 40 4 2976 3475 7779028 7779527 0.000000e+00 680


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 TraesCS6B01G456600 chr6B 712673678 712677160 3482 True 6433.0 6433 100.00000 1 3483 1 chr6B.!!$R2 3482
1 TraesCS6B01G456600 chr6B 712801534 712804372 2838 True 1126.5 1530 86.93400 1183 3483 2 chr6B.!!$R3 2300
2 TraesCS6B01G456600 chr6B 63416625 63417970 1345 True 1103.0 1103 81.65900 1137 2497 1 chr6B.!!$R1 1360
3 TraesCS6B01G456600 chr6D 467317718 467320224 2506 True 1218.5 1794 85.00600 812 3474 2 chr6D.!!$R3 2662
4 TraesCS6B01G456600 chr6D 467545456 467547307 1851 True 908.5 1347 88.21300 1214 3381 2 chr6D.!!$R4 2167
5 TraesCS6B01G456600 chr6D 467539197 467539823 626 True 556.0 556 83.46500 2777 3381 1 chr6D.!!$R2 604
6 TraesCS6B01G456600 chr6A 613792810 613794014 1204 True 1288.0 1288 86.05200 1278 2493 1 chr6A.!!$R1 1215
7 TraesCS6B01G456600 chr6A 613770730 613774287 3557 True 760.0 1574 86.13625 18 3482 4 chr6A.!!$R2 3464
8 TraesCS6B01G456600 chr4A 705439065 705440063 998 True 935.0 935 83.69100 1305 2319 1 chr4A.!!$R2 1014
9 TraesCS6B01G456600 chr4A 595780417 595780919 502 True 593.0 593 88.11900 2976 3475 1 chr4A.!!$R1 499

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
796 912 0.027063 CGAACGAAACGCACACCTTT 59.973 50.0 0.0 0.0 0.0 3.11 F
845 961 0.605589 AAACGAAAGGGAAGGAGCGG 60.606 55.0 0.0 0.0 0.0 5.52 F
1022 1150 0.892358 TATAGTAGGGTCGCCGCCTG 60.892 60.0 0.0 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1833 1975 0.250640 AACCAGCAGCTCCAACTCTG 60.251 55.0 0.00 0.00 0.0 3.35 R
1834 1976 0.250640 CAACCAGCAGCTCCAACTCT 60.251 55.0 0.00 0.00 0.0 3.24 R
2958 3953 0.603975 AACTCGAAGCCAGCTTCCAC 60.604 55.0 23.07 3.51 47.0 4.02 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
59 60 8.462016 AGCCTATATCAACAATTTCACAGTTTC 58.538 33.333 0.00 0.00 0.00 2.78
78 79 9.574516 ACAGTTTCAATATGAAAGTAGGAACTT 57.425 29.630 11.63 0.00 45.35 2.66
95 96 6.314917 AGGAACTTTCAAGGGATTAACACAT 58.685 36.000 0.00 0.00 27.25 3.21
116 117 0.179067 GACCACCAGTTGACACCGAA 60.179 55.000 0.00 0.00 0.00 4.30
122 123 1.021202 CAGTTGACACCGAAGCCAAA 58.979 50.000 0.00 0.00 0.00 3.28
136 137 5.182380 CCGAAGCCAAAAAGTATAAGGACAA 59.818 40.000 0.00 0.00 0.00 3.18
144 145 8.842280 CCAAAAAGTATAAGGACAACACAACTA 58.158 33.333 0.00 0.00 0.00 2.24
151 152 3.921677 AGGACAACACAACTACATACCG 58.078 45.455 0.00 0.00 0.00 4.02
157 158 4.339872 ACACAACTACATACCGGACAAA 57.660 40.909 9.46 0.00 0.00 2.83
164 165 1.002773 ACATACCGGACAAACCCACTC 59.997 52.381 9.46 0.00 34.64 3.51
259 262 2.028130 AGCAAATCCAAACAACCGACA 58.972 42.857 0.00 0.00 0.00 4.35
260 263 2.428890 AGCAAATCCAAACAACCGACAA 59.571 40.909 0.00 0.00 0.00 3.18
276 279 6.352016 ACCGACAATGATTATCTGCTAGAT 57.648 37.500 0.00 4.45 38.70 1.98
306 310 4.189639 ACTTAATCCCACGAGTGAAGAC 57.810 45.455 4.59 0.00 0.00 3.01
308 312 1.348064 AATCCCACGAGTGAAGACCA 58.652 50.000 4.59 0.00 0.00 4.02
310 314 0.469331 TCCCACGAGTGAAGACCAGT 60.469 55.000 4.59 0.00 0.00 4.00
323 327 2.631428 CCAGTGTGGTGAAACGCG 59.369 61.111 3.53 3.53 38.12 6.01
324 328 2.052237 CAGTGTGGTGAAACGCGC 60.052 61.111 5.73 0.00 38.12 6.86
325 329 2.203015 AGTGTGGTGAAACGCGCT 60.203 55.556 5.73 0.00 38.12 5.92
326 330 1.068417 AGTGTGGTGAAACGCGCTA 59.932 52.632 5.73 0.00 38.12 4.26
327 331 0.944311 AGTGTGGTGAAACGCGCTAG 60.944 55.000 5.73 0.00 38.12 3.42
330 334 1.301401 TGGTGAAACGCGCTAGCTT 60.301 52.632 13.93 0.00 42.32 3.74
347 376 7.201478 GCGCTAGCTTCTAGTATATTTGATTGG 60.201 40.741 13.93 0.00 41.01 3.16
371 482 1.803519 CGAGTTCAGAGCAGGACGC 60.804 63.158 0.00 0.00 42.91 5.19
404 515 4.614993 CGAACCACTTCAGTTGTTGTGTTT 60.615 41.667 1.31 0.00 34.57 2.83
414 525 5.650266 TCAGTTGTTGTGTTTCCTTACATGT 59.350 36.000 2.69 2.69 0.00 3.21
534 647 7.769272 TTTTTCTGCAAAATCGATGAACTTT 57.231 28.000 0.00 0.00 31.39 2.66
566 679 9.578439 AAATTCAAAGAACTTTTTCAGACTCAG 57.422 29.630 0.00 0.00 33.72 3.35
606 719 8.987890 ACATTTCGATGAACCTTTTTAAATTGG 58.012 29.630 5.70 5.70 0.00 3.16
607 720 8.987890 CATTTCGATGAACCTTTTTAAATTGGT 58.012 29.630 6.77 6.77 0.00 3.67
609 722 7.278461 TCGATGAACCTTTTTAAATTGGTGA 57.722 32.000 11.75 4.20 32.53 4.02
610 723 7.717568 TCGATGAACCTTTTTAAATTGGTGAA 58.282 30.769 11.75 5.79 32.53 3.18
611 724 7.650104 TCGATGAACCTTTTTAAATTGGTGAAC 59.350 33.333 11.75 8.36 32.53 3.18
615 728 9.454859 TGAACCTTTTTAAATTGGTGAACATTT 57.545 25.926 11.75 0.00 32.53 2.32
641 754 9.587772 TTTTTCAAATTCGATGTACTTTTTCCA 57.412 25.926 0.00 0.00 0.00 3.53
642 755 9.587772 TTTTCAAATTCGATGTACTTTTTCCAA 57.412 25.926 0.00 0.00 0.00 3.53
643 756 9.587772 TTTCAAATTCGATGTACTTTTTCCAAA 57.412 25.926 0.00 0.00 0.00 3.28
751 867 2.613026 TCAGTTTTGTGAGCGAAGGA 57.387 45.000 0.00 0.00 0.00 3.36
760 876 0.103390 TGAGCGAAGGAACGAACACA 59.897 50.000 0.00 0.00 35.09 3.72
762 878 1.595794 GAGCGAAGGAACGAACACAAA 59.404 47.619 0.00 0.00 35.09 2.83
786 902 4.787496 AAAACGAACAAACGAACGAAAC 57.213 36.364 0.14 0.00 37.03 2.78
787 903 2.061956 ACGAACAAACGAACGAAACG 57.938 45.000 0.14 0.00 37.03 3.60
788 904 0.754555 CGAACAAACGAACGAAACGC 59.245 50.000 0.14 0.00 35.09 4.84
789 905 1.800399 GAACAAACGAACGAAACGCA 58.200 45.000 0.14 0.00 0.00 5.24
790 906 1.505921 GAACAAACGAACGAAACGCAC 59.494 47.619 0.14 0.00 0.00 5.34
791 907 0.443088 ACAAACGAACGAAACGCACA 59.557 45.000 0.14 0.00 0.00 4.57
792 908 0.828959 CAAACGAACGAAACGCACAC 59.171 50.000 0.14 0.00 0.00 3.82
793 909 0.247775 AAACGAACGAAACGCACACC 60.248 50.000 0.14 0.00 0.00 4.16
794 910 1.085501 AACGAACGAAACGCACACCT 61.086 50.000 0.14 0.00 0.00 4.00
795 911 1.085501 ACGAACGAAACGCACACCTT 61.086 50.000 0.14 0.00 0.00 3.50
796 912 0.027063 CGAACGAAACGCACACCTTT 59.973 50.000 0.00 0.00 0.00 3.11
797 913 1.530236 CGAACGAAACGCACACCTTTT 60.530 47.619 0.00 0.00 0.00 2.27
798 914 2.521996 GAACGAAACGCACACCTTTTT 58.478 42.857 0.00 0.00 0.00 1.94
826 942 2.069465 AAATGAAACGCGCACCTGCA 62.069 50.000 5.73 0.00 42.21 4.41
833 949 2.025441 GCGCACCTGCAAACGAAA 59.975 55.556 0.30 0.00 42.21 3.46
836 952 1.007387 GCACCTGCAAACGAAAGGG 60.007 57.895 0.00 0.00 41.59 3.95
845 961 0.605589 AAACGAAAGGGAAGGAGCGG 60.606 55.000 0.00 0.00 0.00 5.52
898 1025 2.431260 TAAGCGAACCGGTGCGTC 60.431 61.111 34.54 25.79 37.73 5.19
917 1044 4.456253 GGCGCGACGTCTCGAGAA 62.456 66.667 30.15 0.00 41.82 2.87
970 1097 3.252701 TCTGTAGCTTTCGAGAACGTTCT 59.747 43.478 30.12 30.12 41.00 3.01
971 1098 4.453478 TCTGTAGCTTTCGAGAACGTTCTA 59.547 41.667 29.79 13.68 37.73 2.10
999 1127 3.386768 TCGAGAAGGTTGTTTCCTCTG 57.613 47.619 0.00 0.00 36.74 3.35
1000 1128 2.037251 TCGAGAAGGTTGTTTCCTCTGG 59.963 50.000 0.00 0.00 36.74 3.86
1015 1143 5.432680 TCCTCTGGTATATAGTAGGGTCG 57.567 47.826 0.00 0.00 0.00 4.79
1017 1145 3.946558 CTCTGGTATATAGTAGGGTCGCC 59.053 52.174 0.00 0.00 0.00 5.54
1018 1146 2.681848 CTGGTATATAGTAGGGTCGCCG 59.318 54.545 0.00 0.00 0.00 6.46
1020 1148 1.403323 GTATATAGTAGGGTCGCCGCC 59.597 57.143 0.00 0.00 0.00 6.13
1022 1150 0.892358 TATAGTAGGGTCGCCGCCTG 60.892 60.000 0.00 0.00 0.00 4.85
1114 1242 3.102276 GACGTCGACTTCATCATCTCAC 58.898 50.000 16.45 0.00 0.00 3.51
1119 1247 3.068732 TCGACTTCATCATCTCACCATCC 59.931 47.826 0.00 0.00 0.00 3.51
1123 1251 4.411212 ACTTCATCATCTCACCATCCATCA 59.589 41.667 0.00 0.00 0.00 3.07
1238 1374 1.221840 GCTGCCGATCCCTTCTTCA 59.778 57.895 0.00 0.00 0.00 3.02
1761 1903 2.721167 TTGACGCGCTAGAGGCCAT 61.721 57.895 5.73 0.00 37.74 4.40
1763 1905 3.432051 GACGCGCTAGAGGCCATGT 62.432 63.158 5.73 0.00 37.74 3.21
1765 1907 2.659897 GCGCTAGAGGCCATGTCG 60.660 66.667 5.01 2.48 37.74 4.35
1806 1948 1.372087 CCGGAAGTTCAGGATGCAGC 61.372 60.000 16.28 0.00 33.29 5.25
1828 1970 1.964223 GACGAAGCAGAGGATGGGATA 59.036 52.381 0.00 0.00 0.00 2.59
1829 1971 1.967066 ACGAAGCAGAGGATGGGATAG 59.033 52.381 0.00 0.00 0.00 2.08
1830 1972 2.242926 CGAAGCAGAGGATGGGATAGA 58.757 52.381 0.00 0.00 0.00 1.98
1831 1973 2.630098 CGAAGCAGAGGATGGGATAGAA 59.370 50.000 0.00 0.00 0.00 2.10
1832 1974 3.260380 CGAAGCAGAGGATGGGATAGAAT 59.740 47.826 0.00 0.00 0.00 2.40
1833 1975 4.620332 CGAAGCAGAGGATGGGATAGAATC 60.620 50.000 0.00 0.00 0.00 2.52
1834 1976 3.866816 AGCAGAGGATGGGATAGAATCA 58.133 45.455 0.00 0.00 0.00 2.57
1848 1996 1.907936 AGAATCAGAGTTGGAGCTGCT 59.092 47.619 6.82 0.00 32.27 4.24
1878 2026 2.154462 CAACACTGTGGTGGATTCTCC 58.846 52.381 17.96 0.00 46.85 3.71
1881 2029 1.221840 CTGTGGTGGATTCTCCGGG 59.778 63.158 0.00 0.00 40.17 5.73
1957 2111 0.536687 TCGACGAGGACAACCAGACT 60.537 55.000 0.00 0.00 38.94 3.24
1964 2118 1.048601 GGACAACCAGACTGAGACCA 58.951 55.000 3.32 0.00 35.97 4.02
1993 2147 1.544825 CGGAAGTGGAGAAGGCCTCA 61.545 60.000 5.23 0.00 43.76 3.86
2078 2238 2.446534 ATGCACCACCCAAGGCAT 59.553 55.556 0.00 0.00 41.81 4.40
2079 2239 1.229272 ATGCACCACCCAAGGCATT 60.229 52.632 0.00 0.00 43.97 3.56
2099 2259 1.579932 CAGCAGCAAGAACCAGCAG 59.420 57.895 0.00 0.00 0.00 4.24
2100 2260 1.602888 AGCAGCAAGAACCAGCAGG 60.603 57.895 0.00 0.00 42.21 4.85
2101 2261 1.601759 GCAGCAAGAACCAGCAGGA 60.602 57.895 0.35 0.00 38.69 3.86
2116 2282 2.042979 AGCAGGAGAGGAGAAGAAGACT 59.957 50.000 0.00 0.00 0.00 3.24
2149 2315 1.135774 GGGTTGGACGCGAAGAAATTC 60.136 52.381 15.93 0.00 0.00 2.17
2236 2402 4.351938 CGGGTCGACACGCTGGAA 62.352 66.667 29.08 0.00 35.32 3.53
2238 2404 2.028484 GGTCGACACGCTGGAACA 59.972 61.111 18.91 0.00 0.00 3.18
2296 2462 2.846193 CGGAGGAACAAGAAGACCAAA 58.154 47.619 0.00 0.00 0.00 3.28
2303 2469 4.401202 GGAACAAGAAGACCAAAAAGGACA 59.599 41.667 0.00 0.00 41.22 4.02
2319 2485 3.620488 AGGACAGCAAGAAGAACACAAA 58.380 40.909 0.00 0.00 0.00 2.83
2355 2521 9.929722 CAGCGACTAGTAGATGATAAATAGATC 57.070 37.037 15.18 0.00 0.00 2.75
2366 2536 8.844244 AGATGATAAATAGATCCAACAAACTGC 58.156 33.333 0.00 0.00 0.00 4.40
2369 2539 5.649782 AAATAGATCCAACAAACTGCCTG 57.350 39.130 0.00 0.00 0.00 4.85
2371 2541 0.961019 GATCCAACAAACTGCCTGCA 59.039 50.000 0.00 0.00 0.00 4.41
2375 2545 2.170187 TCCAACAAACTGCCTGCAATTT 59.830 40.909 0.00 0.00 0.00 1.82
2564 2923 9.790389 TTTTTCTTGCGTTTTAGTTAATCTTCA 57.210 25.926 0.00 0.00 0.00 3.02
2565 2924 9.959749 TTTTCTTGCGTTTTAGTTAATCTTCAT 57.040 25.926 0.00 0.00 0.00 2.57
2570 2929 9.697250 TTGCGTTTTAGTTAATCTTCATATTCG 57.303 29.630 0.00 0.00 0.00 3.34
2571 2930 9.089601 TGCGTTTTAGTTAATCTTCATATTCGA 57.910 29.630 0.00 0.00 0.00 3.71
2612 2971 9.512435 CATTTTAGTTCATCTTGGCAATCTAAG 57.488 33.333 0.00 0.00 0.00 2.18
2647 3615 8.641498 ATTCTGTCACCAAATTTTATCAGTCT 57.359 30.769 0.00 0.00 0.00 3.24
2648 3616 7.439157 TCTGTCACCAAATTTTATCAGTCTG 57.561 36.000 0.00 0.00 0.00 3.51
2649 3617 7.223584 TCTGTCACCAAATTTTATCAGTCTGA 58.776 34.615 4.68 4.68 0.00 3.27
2650 3618 7.884877 TCTGTCACCAAATTTTATCAGTCTGAT 59.115 33.333 19.12 19.12 40.72 2.90
2651 3619 7.819644 TGTCACCAAATTTTATCAGTCTGATG 58.180 34.615 23.17 7.83 37.70 3.07
2652 3620 6.749118 GTCACCAAATTTTATCAGTCTGATGC 59.251 38.462 23.17 0.13 37.70 3.91
2653 3621 6.660521 TCACCAAATTTTATCAGTCTGATGCT 59.339 34.615 23.17 2.75 37.70 3.79
2694 3674 3.765381 TGATCATCACAACACCAACCAT 58.235 40.909 0.00 0.00 0.00 3.55
2695 3675 4.916183 TGATCATCACAACACCAACCATA 58.084 39.130 0.00 0.00 0.00 2.74
2702 3685 2.298729 ACAACACCAACCATAACATGCC 59.701 45.455 0.00 0.00 0.00 4.40
2715 3698 2.537633 ACATGCCAAGTTCATCCCAT 57.462 45.000 0.00 0.00 0.00 4.00
2725 3708 5.195940 CAAGTTCATCCCATAACAGACCAT 58.804 41.667 0.00 0.00 0.00 3.55
2729 3712 6.828785 AGTTCATCCCATAACAGACCATAAAC 59.171 38.462 0.00 0.00 0.00 2.01
2730 3713 6.320434 TCATCCCATAACAGACCATAAACA 57.680 37.500 0.00 0.00 0.00 2.83
2731 3714 6.119536 TCATCCCATAACAGACCATAAACAC 58.880 40.000 0.00 0.00 0.00 3.32
2741 3725 8.561738 AACAGACCATAAACACGAGAATTATT 57.438 30.769 0.00 0.00 0.00 1.40
2744 3728 8.765219 CAGACCATAAACACGAGAATTATTAGG 58.235 37.037 0.00 0.00 0.00 2.69
2746 3730 6.202188 ACCATAAACACGAGAATTATTAGGCG 59.798 38.462 0.00 0.00 0.00 5.52
2752 3736 5.640357 ACACGAGAATTATTAGGCGAAAACA 59.360 36.000 0.00 0.00 0.00 2.83
2779 3763 2.026641 CATCCGGCCATCTGTGAAATT 58.973 47.619 2.24 0.00 0.00 1.82
2780 3764 2.214376 TCCGGCCATCTGTGAAATTT 57.786 45.000 2.24 0.00 0.00 1.82
2781 3765 2.091541 TCCGGCCATCTGTGAAATTTC 58.908 47.619 11.41 11.41 0.00 2.17
2782 3766 1.818060 CCGGCCATCTGTGAAATTTCA 59.182 47.619 16.91 16.91 34.20 2.69
2829 3816 9.783256 AACAGTGTACATCTTTTACAACTTTTC 57.217 29.630 0.00 0.00 31.27 2.29
2830 3817 8.952278 ACAGTGTACATCTTTTACAACTTTTCA 58.048 29.630 0.00 0.00 31.27 2.69
2831 3818 9.950680 CAGTGTACATCTTTTACAACTTTTCAT 57.049 29.630 0.00 0.00 31.27 2.57
2859 3846 2.432444 TGTATGCACACAGGCCTAAAC 58.568 47.619 3.98 0.00 0.00 2.01
2864 3851 2.039746 TGCACACAGGCCTAAACACTAT 59.960 45.455 3.98 0.00 0.00 2.12
2957 3952 8.195165 TCATCTCCCTATAAACGAATCTCAAT 57.805 34.615 0.00 0.00 0.00 2.57
2958 3953 8.090831 TCATCTCCCTATAAACGAATCTCAATG 58.909 37.037 0.00 0.00 0.00 2.82
2962 3957 6.099125 TCCCTATAAACGAATCTCAATGTGGA 59.901 38.462 0.00 0.00 0.00 4.02
2963 3958 6.765989 CCCTATAAACGAATCTCAATGTGGAA 59.234 38.462 0.00 0.00 0.00 3.53
2965 3960 4.425577 AAACGAATCTCAATGTGGAAGC 57.574 40.909 0.00 0.00 0.00 3.86
2968 3963 2.353889 CGAATCTCAATGTGGAAGCTGG 59.646 50.000 0.00 0.00 0.00 4.85
2969 3964 1.760192 ATCTCAATGTGGAAGCTGGC 58.240 50.000 0.00 0.00 0.00 4.85
2970 3965 0.694771 TCTCAATGTGGAAGCTGGCT 59.305 50.000 0.00 0.00 0.00 4.75
3039 4067 1.450669 GAAGCCGGCGGATTGGTAA 60.451 57.895 36.00 0.00 28.48 2.85
3069 4097 0.964358 GCTTGGGCAGCTTGATCACT 60.964 55.000 0.00 0.00 46.27 3.41
3107 4135 2.970639 CGAGAAGACCGAGGCCAA 59.029 61.111 5.01 0.00 0.00 4.52
3236 4271 2.289820 GACATGTTCAGCGATGATGCAT 59.710 45.455 3.25 9.73 37.31 3.96
3237 4272 2.032924 ACATGTTCAGCGATGATGCATG 59.967 45.455 30.03 30.03 37.46 4.06
3238 4273 1.018910 TGTTCAGCGATGATGCATGG 58.981 50.000 2.46 0.00 37.31 3.66
3264 4299 7.039363 GCATAGGAGATCATTCTAGGTACAAGT 60.039 40.741 0.00 0.00 30.30 3.16
3333 4370 1.076024 ACCTGGACATGGCAGACATTT 59.924 47.619 0.00 0.00 37.84 2.32
3361 4400 8.708742 CAGTCGAGAATAACAACTGAAACATAA 58.291 33.333 0.00 0.00 39.72 1.90
3438 4477 0.108424 GCTCAGCAGTCACGGAGAAT 60.108 55.000 0.00 0.00 0.00 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 4.057432 CACAAATGCCCGTGAGAATTTTT 58.943 39.130 0.00 0.00 35.02 1.94
4 5 3.652274 CACAAATGCCCGTGAGAATTTT 58.348 40.909 0.00 0.00 35.02 1.82
5 6 2.610232 GCACAAATGCCCGTGAGAATTT 60.610 45.455 0.00 0.00 46.97 1.82
6 7 1.067635 GCACAAATGCCCGTGAGAATT 60.068 47.619 0.00 0.00 46.97 2.17
7 8 0.527565 GCACAAATGCCCGTGAGAAT 59.472 50.000 0.00 0.00 46.97 2.40
8 9 1.956043 GCACAAATGCCCGTGAGAA 59.044 52.632 0.00 0.00 46.97 2.87
9 10 3.667087 GCACAAATGCCCGTGAGA 58.333 55.556 0.00 0.00 46.97 3.27
69 70 6.713450 TGTGTTAATCCCTTGAAAGTTCCTAC 59.287 38.462 0.00 0.00 0.00 3.18
78 79 6.177610 GTGGTCTATGTGTTAATCCCTTGAA 58.822 40.000 0.00 0.00 0.00 2.69
79 80 5.338871 GGTGGTCTATGTGTTAATCCCTTGA 60.339 44.000 0.00 0.00 0.00 3.02
95 96 0.677288 CGGTGTCAACTGGTGGTCTA 59.323 55.000 0.00 0.00 0.00 2.59
116 117 5.830991 TGTGTTGTCCTTATACTTTTTGGCT 59.169 36.000 0.00 0.00 0.00 4.75
136 137 4.060205 GTTTGTCCGGTATGTAGTTGTGT 58.940 43.478 0.00 0.00 0.00 3.72
144 145 1.002773 GAGTGGGTTTGTCCGGTATGT 59.997 52.381 0.00 0.00 37.00 2.29
151 152 1.168714 GATGCTGAGTGGGTTTGTCC 58.831 55.000 0.00 0.00 0.00 4.02
157 158 0.321653 GTTTCGGATGCTGAGTGGGT 60.322 55.000 0.00 0.00 0.00 4.51
164 165 4.701956 AAGGTATTTGTTTCGGATGCTG 57.298 40.909 0.00 0.00 0.00 4.41
247 250 5.512788 GCAGATAATCATTGTCGGTTGTTTG 59.487 40.000 0.00 0.00 0.00 2.93
306 310 2.631428 CGCGTTTCACCACACTGG 59.369 61.111 0.00 0.00 45.02 4.00
308 312 0.944311 CTAGCGCGTTTCACCACACT 60.944 55.000 8.43 0.00 0.00 3.55
310 314 2.314647 GCTAGCGCGTTTCACCACA 61.315 57.895 8.43 0.00 0.00 4.17
321 325 7.201478 CCAATCAAATATACTAGAAGCTAGCGC 60.201 40.741 9.55 0.00 0.00 5.92
323 327 9.145865 GTCCAATCAAATATACTAGAAGCTAGC 57.854 37.037 6.62 6.62 0.00 3.42
324 328 9.347934 CGTCCAATCAAATATACTAGAAGCTAG 57.652 37.037 0.00 0.00 0.00 3.42
325 329 9.074576 TCGTCCAATCAAATATACTAGAAGCTA 57.925 33.333 0.00 0.00 0.00 3.32
326 330 7.952671 TCGTCCAATCAAATATACTAGAAGCT 58.047 34.615 0.00 0.00 0.00 3.74
327 331 7.148722 GCTCGTCCAATCAAATATACTAGAAGC 60.149 40.741 0.00 0.00 0.00 3.86
330 334 6.206048 TCGCTCGTCCAATCAAATATACTAGA 59.794 38.462 0.00 0.00 0.00 2.43
347 376 0.796491 CTGCTCTGAACTCGCTCGTC 60.796 60.000 0.00 0.00 0.00 4.20
371 482 2.688526 AAGTGGTTCGGTGGTCGTCG 62.689 60.000 0.00 0.00 40.32 5.12
375 486 2.914379 CTGAAGTGGTTCGGTGGTC 58.086 57.895 0.00 0.00 34.70 4.02
382 493 4.434713 AACACAACAACTGAAGTGGTTC 57.565 40.909 0.00 0.00 40.03 3.62
383 494 4.321675 GGAAACACAACAACTGAAGTGGTT 60.322 41.667 8.54 8.54 43.91 3.67
404 515 7.176589 ACAAAAGGACAAAAACATGTAAGGA 57.823 32.000 0.00 0.00 32.57 3.36
414 525 8.147704 ACAGAAGAAAGAACAAAAGGACAAAAA 58.852 29.630 0.00 0.00 0.00 1.94
485 596 8.579682 AATTCATGAAGGAAAAAGTTTTCTCG 57.420 30.769 14.54 0.95 44.49 4.04
581 694 8.987890 ACCAATTTAAAAAGGTTCATCGAAATG 58.012 29.630 8.64 0.00 0.00 2.32
615 728 9.587772 TGGAAAAAGTACATCGAATTTGAAAAA 57.412 25.926 0.00 0.00 0.00 1.94
623 736 9.927668 ATGAAATTTGGAAAAAGTACATCGAAT 57.072 25.926 0.00 0.00 0.00 3.34
625 738 8.572185 TCATGAAATTTGGAAAAAGTACATCGA 58.428 29.630 0.00 0.00 0.00 3.59
626 739 8.741101 TCATGAAATTTGGAAAAAGTACATCG 57.259 30.769 0.00 0.00 0.00 3.84
632 745 9.187996 ACCAATTTCATGAAATTTGGAAAAAGT 57.812 25.926 36.83 24.60 45.67 2.66
744 860 2.461897 TTTTGTGTTCGTTCCTTCGC 57.538 45.000 0.00 0.00 0.00 4.70
769 885 0.754555 GCGTTTCGTTCGTTTGTTCG 59.245 50.000 0.00 0.00 0.00 3.95
770 886 1.505921 GTGCGTTTCGTTCGTTTGTTC 59.494 47.619 0.00 0.00 0.00 3.18
771 887 1.136029 TGTGCGTTTCGTTCGTTTGTT 60.136 42.857 0.00 0.00 0.00 2.83
772 888 0.443088 TGTGCGTTTCGTTCGTTTGT 59.557 45.000 0.00 0.00 0.00 2.83
773 889 0.828959 GTGTGCGTTTCGTTCGTTTG 59.171 50.000 0.00 0.00 0.00 2.93
774 890 0.247775 GGTGTGCGTTTCGTTCGTTT 60.248 50.000 0.00 0.00 0.00 3.60
775 891 1.085501 AGGTGTGCGTTTCGTTCGTT 61.086 50.000 0.00 0.00 0.00 3.85
776 892 1.085501 AAGGTGTGCGTTTCGTTCGT 61.086 50.000 0.00 0.00 0.00 3.85
777 893 0.027063 AAAGGTGTGCGTTTCGTTCG 59.973 50.000 0.00 0.00 0.00 3.95
778 894 2.182904 AAAAGGTGTGCGTTTCGTTC 57.817 45.000 0.00 0.00 32.30 3.95
779 895 2.640346 AAAAAGGTGTGCGTTTCGTT 57.360 40.000 0.00 0.00 32.30 3.85
798 914 4.205385 GTGCGCGTTTCATTTGTCTAAAAA 59.795 37.500 8.43 0.00 0.00 1.94
799 915 3.726730 GTGCGCGTTTCATTTGTCTAAAA 59.273 39.130 8.43 0.00 0.00 1.52
800 916 3.293262 GTGCGCGTTTCATTTGTCTAAA 58.707 40.909 8.43 0.00 0.00 1.85
801 917 2.350007 GGTGCGCGTTTCATTTGTCTAA 60.350 45.455 8.43 0.00 0.00 2.10
802 918 1.195900 GGTGCGCGTTTCATTTGTCTA 59.804 47.619 8.43 0.00 0.00 2.59
803 919 0.040425 GGTGCGCGTTTCATTTGTCT 60.040 50.000 8.43 0.00 0.00 3.41
804 920 0.040425 AGGTGCGCGTTTCATTTGTC 60.040 50.000 8.43 0.00 0.00 3.18
807 923 1.371635 GCAGGTGCGCGTTTCATTT 60.372 52.632 8.43 0.00 0.00 2.32
810 926 2.765356 TTTGCAGGTGCGCGTTTCA 61.765 52.632 8.43 0.00 45.83 2.69
826 942 0.605589 CCGCTCCTTCCCTTTCGTTT 60.606 55.000 0.00 0.00 0.00 3.60
836 952 3.718210 CTACCACGCCCGCTCCTTC 62.718 68.421 0.00 0.00 0.00 3.46
900 1027 3.940975 TTTCTCGAGACGTCGCGCC 62.941 63.158 32.63 12.53 46.39 6.53
902 1029 2.478157 CGTTTCTCGAGACGTCGCG 61.478 63.158 31.85 31.85 46.39 5.87
903 1030 2.144680 CCGTTTCTCGAGACGTCGC 61.145 63.158 16.36 9.96 46.39 5.19
906 1033 0.167689 GCTACCGTTTCTCGAGACGT 59.832 55.000 16.36 11.30 42.86 4.34
907 1034 0.856490 CGCTACCGTTTCTCGAGACG 60.856 60.000 16.36 16.85 42.86 4.18
909 1036 1.136147 GCGCTACCGTTTCTCGAGA 59.864 57.895 12.08 12.08 42.86 4.04
910 1037 1.872679 GGCGCTACCGTTTCTCGAG 60.873 63.158 7.64 5.93 42.86 4.04
911 1038 2.180017 GGCGCTACCGTTTCTCGA 59.820 61.111 7.64 0.00 42.86 4.04
912 1039 2.884207 GGGCGCTACCGTTTCTCG 60.884 66.667 7.64 0.00 40.62 4.04
913 1040 1.810030 CAGGGCGCTACCGTTTCTC 60.810 63.158 7.64 0.00 40.62 2.87
914 1041 2.264794 CAGGGCGCTACCGTTTCT 59.735 61.111 7.64 0.00 40.62 2.52
915 1042 3.497031 GCAGGGCGCTACCGTTTC 61.497 66.667 7.64 0.00 40.62 2.78
970 1097 1.526575 AACCTTCTCGAACGGGCGTA 61.527 55.000 0.00 0.00 0.00 4.42
971 1098 2.864471 AACCTTCTCGAACGGGCGT 61.864 57.895 0.00 0.00 0.00 5.68
975 1103 1.529865 GGAAACAACCTTCTCGAACGG 59.470 52.381 0.00 0.00 0.00 4.44
999 1127 1.403323 GCGGCGACCCTACTATATACC 59.597 57.143 12.98 0.00 0.00 2.73
1000 1128 1.403323 GGCGGCGACCCTACTATATAC 59.597 57.143 12.98 0.00 0.00 1.47
1020 1148 0.249120 TTGTGTAGGATGGACCGCAG 59.751 55.000 0.00 0.00 44.74 5.18
1022 1150 0.036765 TGTTGTGTAGGATGGACCGC 60.037 55.000 0.00 0.00 44.74 5.68
1023 1151 2.073816 GTTGTTGTGTAGGATGGACCG 58.926 52.381 0.00 0.00 44.74 4.79
1024 1152 3.134574 TGTTGTTGTGTAGGATGGACC 57.865 47.619 0.00 0.00 39.35 4.46
1025 1153 4.336993 TGTTTGTTGTTGTGTAGGATGGAC 59.663 41.667 0.00 0.00 0.00 4.02
1026 1154 4.527944 TGTTTGTTGTTGTGTAGGATGGA 58.472 39.130 0.00 0.00 0.00 3.41
1028 1156 5.749596 TCTGTTTGTTGTTGTGTAGGATG 57.250 39.130 0.00 0.00 0.00 3.51
1029 1157 6.545666 TGATTCTGTTTGTTGTTGTGTAGGAT 59.454 34.615 0.00 0.00 0.00 3.24
1030 1158 5.883115 TGATTCTGTTTGTTGTTGTGTAGGA 59.117 36.000 0.00 0.00 0.00 2.94
1031 1159 6.130298 TGATTCTGTTTGTTGTTGTGTAGG 57.870 37.500 0.00 0.00 0.00 3.18
1032 1160 6.201517 CCTGATTCTGTTTGTTGTTGTGTAG 58.798 40.000 0.00 0.00 0.00 2.74
1033 1161 5.449862 GCCTGATTCTGTTTGTTGTTGTGTA 60.450 40.000 0.00 0.00 0.00 2.90
1119 1247 4.303603 CGCGGCGAGCCATTGATG 62.304 66.667 19.16 0.00 44.76 3.07
1238 1374 3.532155 GAGAGGCTCGGCGTCCAT 61.532 66.667 19.34 9.95 43.36 3.41
1394 1530 2.348998 CTCAAAGCAGTCCGGGCT 59.651 61.111 0.35 0.35 45.15 5.19
1741 1883 3.248171 GCCTCTAGCGCGTCAACG 61.248 66.667 8.43 0.00 43.27 4.10
1781 1923 2.040544 CCTGAACTTCCGGCGCATT 61.041 57.895 10.83 0.00 0.00 3.56
1806 1948 1.227089 CCATCCTCTGCTTCGTCCG 60.227 63.158 0.00 0.00 0.00 4.79
1828 1970 1.907936 AGCAGCTCCAACTCTGATTCT 59.092 47.619 0.00 0.00 32.26 2.40
1829 1971 2.008329 CAGCAGCTCCAACTCTGATTC 58.992 52.381 0.00 0.00 32.26 2.52
1830 1972 1.339824 CCAGCAGCTCCAACTCTGATT 60.340 52.381 0.00 0.00 32.26 2.57
1831 1973 0.252479 CCAGCAGCTCCAACTCTGAT 59.748 55.000 0.00 0.00 32.26 2.90
1832 1974 1.123861 ACCAGCAGCTCCAACTCTGA 61.124 55.000 0.00 0.00 32.26 3.27
1833 1975 0.250640 AACCAGCAGCTCCAACTCTG 60.251 55.000 0.00 0.00 0.00 3.35
1834 1976 0.250640 CAACCAGCAGCTCCAACTCT 60.251 55.000 0.00 0.00 0.00 3.24
1881 2029 1.374252 ATGTCGGTTGTCTCGGCAC 60.374 57.895 0.00 0.00 45.06 5.01
1947 2101 2.505819 AGTTTGGTCTCAGTCTGGTTGT 59.494 45.455 0.00 0.00 0.00 3.32
1949 2103 2.158755 CCAGTTTGGTCTCAGTCTGGTT 60.159 50.000 0.00 0.00 38.97 3.67
1950 2104 1.417890 CCAGTTTGGTCTCAGTCTGGT 59.582 52.381 0.00 0.00 38.97 4.00
1964 2118 1.528309 CCACTTCCGCCACCAGTTT 60.528 57.895 0.00 0.00 0.00 2.66
2094 2254 2.166254 GTCTTCTTCTCCTCTCCTGCTG 59.834 54.545 0.00 0.00 0.00 4.41
2099 2259 3.192633 GTCACAGTCTTCTTCTCCTCTCC 59.807 52.174 0.00 0.00 0.00 3.71
2100 2260 3.192633 GGTCACAGTCTTCTTCTCCTCTC 59.807 52.174 0.00 0.00 0.00 3.20
2101 2261 3.161866 GGTCACAGTCTTCTTCTCCTCT 58.838 50.000 0.00 0.00 0.00 3.69
2116 2282 3.155861 AACCCGTCGGTGGTCACA 61.156 61.111 11.06 0.00 43.71 3.58
2132 2298 2.161410 CCATGAATTTCTTCGCGTCCAA 59.839 45.455 5.77 0.00 33.86 3.53
2149 2315 2.903855 GCCGCCACCATCTCCATG 60.904 66.667 0.00 0.00 0.00 3.66
2275 2441 0.685097 TGGTCTTCTTGTTCCTCCGG 59.315 55.000 0.00 0.00 0.00 5.14
2296 2462 3.620488 TGTGTTCTTCTTGCTGTCCTTT 58.380 40.909 0.00 0.00 0.00 3.11
2303 2469 5.767168 AGAAGCTATTTGTGTTCTTCTTGCT 59.233 36.000 0.00 0.00 40.12 3.91
2340 2506 8.844244 GCAGTTTGTTGGATCTATTTATCATCT 58.156 33.333 0.00 0.00 0.00 2.90
2341 2507 8.078596 GGCAGTTTGTTGGATCTATTTATCATC 58.921 37.037 0.00 0.00 0.00 2.92
2355 2521 2.243602 AATTGCAGGCAGTTTGTTGG 57.756 45.000 0.00 0.00 0.00 3.77
2437 2618 9.658475 CTGACACGATTTAAGTTTTTCACATAA 57.342 29.630 0.00 0.00 0.00 1.90
2440 2621 5.968848 GCTGACACGATTTAAGTTTTTCACA 59.031 36.000 0.00 0.00 0.00 3.58
2441 2622 5.968848 TGCTGACACGATTTAAGTTTTTCAC 59.031 36.000 0.00 0.00 0.00 3.18
2442 2623 6.125327 TGCTGACACGATTTAAGTTTTTCA 57.875 33.333 0.00 0.00 0.00 2.69
2443 2624 7.444558 TTTGCTGACACGATTTAAGTTTTTC 57.555 32.000 0.00 0.00 0.00 2.29
2444 2625 8.419076 AATTTGCTGACACGATTTAAGTTTTT 57.581 26.923 0.00 0.00 0.00 1.94
2445 2626 8.419076 AAATTTGCTGACACGATTTAAGTTTT 57.581 26.923 0.00 0.00 0.00 2.43
2581 2940 8.954950 TTGCCAAGATGAACTAAAATGAAAAA 57.045 26.923 0.00 0.00 0.00 1.94
2582 2941 9.206870 GATTGCCAAGATGAACTAAAATGAAAA 57.793 29.630 0.00 0.00 0.00 2.29
2588 2947 7.669722 ACCTTAGATTGCCAAGATGAACTAAAA 59.330 33.333 0.00 0.00 0.00 1.52
2598 2957 9.920946 AATATTCTTAACCTTAGATTGCCAAGA 57.079 29.630 0.00 0.00 0.00 3.02
2602 2961 9.343539 ACAGAATATTCTTAACCTTAGATTGCC 57.656 33.333 15.49 0.00 34.74 4.52
2625 2984 7.439157 TCAGACTGATAAAATTTGGTGACAG 57.561 36.000 0.00 0.00 44.54 3.51
2647 3615 6.829229 ATGAAAATCTGAACTGAAGCATCA 57.171 33.333 0.00 0.00 0.00 3.07
2648 3616 9.234384 CATAATGAAAATCTGAACTGAAGCATC 57.766 33.333 0.00 0.00 0.00 3.91
2649 3617 8.963725 TCATAATGAAAATCTGAACTGAAGCAT 58.036 29.630 0.00 0.00 0.00 3.79
2650 3618 8.339344 TCATAATGAAAATCTGAACTGAAGCA 57.661 30.769 0.00 0.00 0.00 3.91
2651 3619 9.448294 GATCATAATGAAAATCTGAACTGAAGC 57.552 33.333 0.00 0.00 0.00 3.86
2694 3674 3.448093 TGGGATGAACTTGGCATGTTA 57.552 42.857 17.51 7.95 0.00 2.41
2695 3675 2.307496 TGGGATGAACTTGGCATGTT 57.693 45.000 17.51 17.51 0.00 2.71
2702 3685 4.588899 TGGTCTGTTATGGGATGAACTTG 58.411 43.478 0.00 0.00 0.00 3.16
2715 3698 9.661563 AATAATTCTCGTGTTTATGGTCTGTTA 57.338 29.630 0.00 0.00 0.00 2.41
2725 3708 7.830940 TTTCGCCTAATAATTCTCGTGTTTA 57.169 32.000 0.00 0.00 0.00 2.01
2729 3712 6.102006 TGTTTTCGCCTAATAATTCTCGTG 57.898 37.500 0.00 0.00 0.00 4.35
2730 3713 6.730960 TTGTTTTCGCCTAATAATTCTCGT 57.269 33.333 0.00 0.00 0.00 4.18
2731 3714 7.186804 ACATTGTTTTCGCCTAATAATTCTCG 58.813 34.615 0.00 0.00 0.00 4.04
2741 3725 4.093703 CGGATGTAACATTGTTTTCGCCTA 59.906 41.667 7.45 0.00 0.00 3.93
2744 3728 3.168193 CCGGATGTAACATTGTTTTCGC 58.832 45.455 7.45 0.00 0.00 4.70
2746 3730 3.057174 TGGCCGGATGTAACATTGTTTTC 60.057 43.478 5.05 3.28 0.00 2.29
2752 3736 2.092429 ACAGATGGCCGGATGTAACATT 60.092 45.455 5.05 0.00 0.00 2.71
2805 3792 9.950680 ATGAAAAGTTGTAAAAGATGTACACTG 57.049 29.630 0.00 0.00 31.27 3.66
2827 3814 3.431912 GTGTGCATACAAGTGTCGATGAA 59.568 43.478 8.93 0.00 38.82 2.57
2828 3815 2.993220 GTGTGCATACAAGTGTCGATGA 59.007 45.455 8.93 0.00 38.82 2.92
2829 3816 2.736192 TGTGTGCATACAAGTGTCGATG 59.264 45.455 14.48 0.00 38.82 3.84
2830 3817 2.995939 CTGTGTGCATACAAGTGTCGAT 59.004 45.455 17.46 0.00 38.82 3.59
2831 3818 2.403259 CTGTGTGCATACAAGTGTCGA 58.597 47.619 17.46 0.00 38.82 4.20
2832 3819 1.460743 CCTGTGTGCATACAAGTGTCG 59.539 52.381 17.46 4.65 38.82 4.35
2864 3851 8.981659 CAGATCAGATAGACTAGGATAGAGAGA 58.018 40.741 0.00 0.00 42.77 3.10
2914 3903 6.756299 AGATGATTCTTTTTCTCCTCTTGC 57.244 37.500 0.00 0.00 0.00 4.01
2940 3933 7.225538 AGCTTCCACATTGAGATTCGTTTATAG 59.774 37.037 0.00 0.00 0.00 1.31
2957 3952 1.004560 CTCGAAGCCAGCTTCCACA 60.005 57.895 23.07 9.29 47.00 4.17
2958 3953 0.603975 AACTCGAAGCCAGCTTCCAC 60.604 55.000 23.07 3.51 47.00 4.02
2962 3957 1.070134 TGTGTAACTCGAAGCCAGCTT 59.930 47.619 4.17 4.17 38.04 3.74
2963 3958 0.679505 TGTGTAACTCGAAGCCAGCT 59.320 50.000 0.00 0.00 38.04 4.24
2965 3960 2.148916 TGTGTGTAACTCGAAGCCAG 57.851 50.000 0.00 0.00 38.04 4.85
2968 3963 2.348591 GCTGTTGTGTGTAACTCGAAGC 60.349 50.000 0.00 0.00 38.04 3.86
2969 3964 3.060272 CAGCTGTTGTGTGTAACTCGAAG 60.060 47.826 5.25 0.00 38.04 3.79
2970 3965 2.863740 CAGCTGTTGTGTGTAACTCGAA 59.136 45.455 5.25 0.00 38.04 3.71
2972 3967 1.526887 CCAGCTGTTGTGTGTAACTCG 59.473 52.381 13.81 0.00 38.04 4.18
2973 3968 1.264288 GCCAGCTGTTGTGTGTAACTC 59.736 52.381 13.81 0.00 38.04 3.01
3039 4067 0.537143 TGCCCAAGCTGTCGAACAAT 60.537 50.000 0.00 0.00 40.80 2.71
3084 4112 2.676822 TCGGTCTTCTCGCTGGCT 60.677 61.111 0.00 0.00 0.00 4.75
3193 4225 2.296471 CTGACCTTTACGACTGTCCACT 59.704 50.000 1.55 0.00 0.00 4.00
3196 4228 1.891150 TCCTGACCTTTACGACTGTCC 59.109 52.381 1.55 0.00 0.00 4.02
3236 4271 4.756564 ACCTAGAATGATCTCCTATGCCA 58.243 43.478 0.00 0.00 37.10 4.92
3237 4272 5.717178 TGTACCTAGAATGATCTCCTATGCC 59.283 44.000 0.00 0.00 37.10 4.40
3238 4273 6.842437 TGTACCTAGAATGATCTCCTATGC 57.158 41.667 0.00 0.00 37.10 3.14
3264 4299 1.666011 GTCGCTCCTCAGGTTGACA 59.334 57.895 7.56 0.00 0.00 3.58
3368 4407 1.274728 TGTGTTGCTGGTGTTTGCTTT 59.725 42.857 0.00 0.00 0.00 3.51
3438 4477 4.955811 ACAGATCACTTACAGTGTTCCA 57.044 40.909 0.00 0.00 46.03 3.53


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

AutoCloner maintained by Alex Coulton.