Multiple sequence alignment - TraesCS2D01G572000

Loading Multiple Alignment...

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 TraesCS2D01G572000 chr2D 100.000 6046 0 0 1 6046 638143339 638149384 0.000000e+00 11165
1 TraesCS2D01G572000 chr2D 74.185 399 91 11 2439 2831 11292318 11292710 8.110000e-34 156
2 TraesCS2D01G572000 chr2A 96.241 2953 84 12 626 3573 764094472 764091542 0.000000e+00 4813
3 TraesCS2D01G572000 chr2A 96.958 1841 26 5 3564 5378 764091411 764089575 0.000000e+00 3062
4 TraesCS2D01G572000 chr2A 97.701 261 1 1 5376 5636 764089090 764088835 1.550000e-120 444
5 TraesCS2D01G572000 chr2A 84.475 438 48 10 5627 6046 764085108 764084673 1.210000e-111 414
6 TraesCS2D01G572000 chr2A 86.753 385 31 10 1 376 764095782 764095409 1.570000e-110 411
7 TraesCS2D01G572000 chr2A 72.898 797 181 24 2051 2831 11772093 11772870 6.050000e-60 243
8 TraesCS2D01G572000 chr2A 84.980 253 5 4 374 617 764095363 764095135 6.100000e-55 226
9 TraesCS2D01G572000 chr3D 83.661 1120 150 20 2008 3112 61188807 61189908 0.000000e+00 1024
10 TraesCS2D01G572000 chr3D 79.835 605 91 18 3848 4432 61074866 61075459 4.360000e-111 412
11 TraesCS2D01G572000 chr3D 78.916 332 47 13 4338 4650 61195926 61196253 2.860000e-48 204
12 TraesCS2D01G572000 chr3D 89.109 101 10 1 626 725 5864395 5864295 2.290000e-24 124
13 TraesCS2D01G572000 chr3B 82.975 1116 145 33 2023 3112 96838208 96839304 0.000000e+00 966
14 TraesCS2D01G572000 chr3B 80.261 613 77 22 3848 4436 96814890 96815482 7.250000e-114 422
15 TraesCS2D01G572000 chr3A 79.734 602 93 20 3848 4432 69293188 69293777 5.640000e-110 409
16 TraesCS2D01G572000 chr7B 73.990 842 177 35 2042 2858 709524933 709525757 2.740000e-78 303
17 TraesCS2D01G572000 chr7B 72.145 858 199 30 2022 2858 747590674 747589836 2.190000e-54 224
18 TraesCS2D01G572000 chr7B 77.848 158 35 0 2709 2866 746053203 746053360 1.390000e-16 99
19 TraesCS2D01G572000 chr2B 73.301 824 181 31 2044 2849 17594588 17593786 3.590000e-67 267
20 TraesCS2D01G572000 chr7A 75.000 560 106 22 3888 4424 8942823 8942275 1.700000e-55 228
21 TraesCS2D01G572000 chr7A 86.275 204 28 0 3862 4065 8997137 8996934 7.890000e-54 222
22 TraesCS2D01G572000 chr7A 81.347 193 34 2 2656 2847 709296802 709296993 8.110000e-34 156
23 TraesCS2D01G572000 chr1B 94.017 117 4 2 249 364 95236683 95236797 2.240000e-39 174
24 TraesCS2D01G572000 chr1D 93.162 117 5 2 249 364 59620011 59620125 1.040000e-37 169


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 TraesCS2D01G572000 chr2D 638143339 638149384 6045 False 11165.000000 11165 100.000000 1 6046 1 chr2D.!!$F2 6045
1 TraesCS2D01G572000 chr2A 764084673 764095782 11109 True 1561.666667 4813 91.184667 1 6046 6 chr2A.!!$R1 6045
2 TraesCS2D01G572000 chr2A 11772093 11772870 777 False 243.000000 243 72.898000 2051 2831 1 chr2A.!!$F1 780
3 TraesCS2D01G572000 chr3D 61188807 61189908 1101 False 1024.000000 1024 83.661000 2008 3112 1 chr3D.!!$F2 1104
4 TraesCS2D01G572000 chr3D 61074866 61075459 593 False 412.000000 412 79.835000 3848 4432 1 chr3D.!!$F1 584
5 TraesCS2D01G572000 chr3B 96838208 96839304 1096 False 966.000000 966 82.975000 2023 3112 1 chr3B.!!$F2 1089
6 TraesCS2D01G572000 chr3B 96814890 96815482 592 False 422.000000 422 80.261000 3848 4436 1 chr3B.!!$F1 588
7 TraesCS2D01G572000 chr3A 69293188 69293777 589 False 409.000000 409 79.734000 3848 4432 1 chr3A.!!$F1 584
8 TraesCS2D01G572000 chr7B 709524933 709525757 824 False 303.000000 303 73.990000 2042 2858 1 chr7B.!!$F1 816
9 TraesCS2D01G572000 chr7B 747589836 747590674 838 True 224.000000 224 72.145000 2022 2858 1 chr7B.!!$R1 836
10 TraesCS2D01G572000 chr2B 17593786 17594588 802 True 267.000000 267 73.301000 2044 2849 1 chr2B.!!$R1 805
11 TraesCS2D01G572000 chr7A 8942275 8942823 548 True 228.000000 228 75.000000 3888 4424 1 chr7A.!!$R1 536

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
185 189 0.178767 TCATGCCATGCGAGCTACTT 59.821 50.000 0.00 0.00 0.00 2.24 F
487 544 0.319641 GAACAGAGCGAGGAAACGGT 60.320 55.000 0.00 0.00 46.35 4.83 F
1144 1865 0.319405 ACTCGGTAAAGGTGGTTCCG 59.681 55.000 0.00 0.00 41.99 4.30 F
2407 3156 1.132453 CATGTTGTGATGCAGAGGCTG 59.868 52.381 0.00 0.00 41.91 4.85 F
2707 3467 1.687563 AAGCACAGGGGTACACAAAC 58.312 50.000 0.00 0.00 0.00 2.93 F
3184 3956 3.284617 GTGGTTTTAGGTGTTCACCTGT 58.715 45.455 28.23 10.96 40.93 4.00 F
4845 5811 1.202099 TGTAGGGGGTGGCGATTGAA 61.202 55.000 0.00 0.00 0.00 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1005 1726 0.647410 CATGTTTGCTAGACTCGCCG 59.353 55.000 0.00 0.00 0.00 6.46 R
2383 3115 2.418976 CCTCTGCATCACAACATGAGTG 59.581 50.000 14.19 14.19 41.91 3.51 R
2707 3467 4.963276 TTGTTCGCAATCCATTTCTAGG 57.037 40.909 0.00 0.00 31.15 3.02 R
3787 4700 4.084693 CGTCGGTCTAAAAAGGACAACTTC 60.085 45.833 0.00 0.00 38.85 3.01 R
4283 5231 4.634443 CACTAGAACCAAGGGTAAATTCCG 59.366 45.833 0.00 0.00 33.12 4.30 R
4906 5872 4.517285 TCACTTGCAATTAGTCCAGATCC 58.483 43.478 0.00 0.00 0.00 3.36 R
5705 10902 0.319405 CCGAACCACTAAAGGTCGGT 59.681 55.000 9.04 0.00 42.25 4.69 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
107 108 1.032114 GGTTTCTTCCGGCCCTCATG 61.032 60.000 0.00 0.00 0.00 3.07
110 114 1.281419 TTCTTCCGGCCCTCATGTAA 58.719 50.000 0.00 0.00 0.00 2.41
122 126 5.196695 GCCCTCATGTAATCTTCTCCTTTT 58.803 41.667 0.00 0.00 0.00 2.27
140 144 4.142026 CCTTTTTCTTGGTTTTCTTCCGGT 60.142 41.667 0.00 0.00 0.00 5.28
145 149 3.118186 TCTTGGTTTTCTTCCGGTCTTCA 60.118 43.478 0.00 0.00 0.00 3.02
171 175 2.887568 CCGTGCGAGTCCTCATGC 60.888 66.667 0.00 0.00 0.00 4.06
174 178 1.153289 GTGCGAGTCCTCATGCCAT 60.153 57.895 0.00 0.00 0.00 4.40
185 189 0.178767 TCATGCCATGCGAGCTACTT 59.821 50.000 0.00 0.00 0.00 2.24
186 190 1.412343 TCATGCCATGCGAGCTACTTA 59.588 47.619 0.00 0.00 0.00 2.24
191 195 3.511540 TGCCATGCGAGCTACTTATAGAT 59.488 43.478 0.00 0.00 0.00 1.98
197 201 7.201776 CCATGCGAGCTACTTATAGATGATAGT 60.202 40.741 0.00 0.00 0.00 2.12
229 237 0.549950 ATCCTTGGAGTGGATGGCAG 59.450 55.000 0.00 0.00 42.22 4.85
230 238 1.751927 CCTTGGAGTGGATGGCAGC 60.752 63.158 0.00 0.00 0.00 5.25
231 239 2.046023 TTGGAGTGGATGGCAGCG 60.046 61.111 0.00 0.00 0.00 5.18
232 240 4.783621 TGGAGTGGATGGCAGCGC 62.784 66.667 0.00 0.00 0.00 5.92
333 342 2.409651 CGTAGCTGCGGAGAGGTC 59.590 66.667 17.13 0.00 0.00 3.85
398 455 4.891727 CATCGGGGCTTCGGTCGG 62.892 72.222 1.61 0.00 0.00 4.79
432 489 2.173519 GCTGGGTGGTACTGTAGTGTA 58.826 52.381 0.00 0.00 0.00 2.90
487 544 0.319641 GAACAGAGCGAGGAAACGGT 60.320 55.000 0.00 0.00 46.35 4.83
488 545 0.600255 AACAGAGCGAGGAAACGGTG 60.600 55.000 0.00 0.00 43.81 4.94
489 546 1.006102 CAGAGCGAGGAAACGGTGT 60.006 57.895 0.00 0.00 43.81 4.16
490 547 1.006102 AGAGCGAGGAAACGGTGTG 60.006 57.895 0.00 0.00 43.81 3.82
491 548 2.027625 GAGCGAGGAAACGGTGTGG 61.028 63.158 0.00 0.00 43.81 4.17
492 549 3.047877 GCGAGGAAACGGTGTGGG 61.048 66.667 0.00 0.00 0.00 4.61
493 550 2.424302 CGAGGAAACGGTGTGGGT 59.576 61.111 0.00 0.00 0.00 4.51
494 551 1.959226 CGAGGAAACGGTGTGGGTG 60.959 63.158 0.00 0.00 0.00 4.61
495 552 1.599797 GAGGAAACGGTGTGGGTGG 60.600 63.158 0.00 0.00 0.00 4.61
496 553 3.292159 GGAAACGGTGTGGGTGGC 61.292 66.667 0.00 0.00 0.00 5.01
497 554 2.203294 GAAACGGTGTGGGTGGCT 60.203 61.111 0.00 0.00 0.00 4.75
498 555 1.071814 GAAACGGTGTGGGTGGCTA 59.928 57.895 0.00 0.00 0.00 3.93
499 556 0.322187 GAAACGGTGTGGGTGGCTAT 60.322 55.000 0.00 0.00 0.00 2.97
512 569 2.952310 GGTGGCTATTGATTCTCCCAAC 59.048 50.000 0.00 0.00 0.00 3.77
554 620 4.162690 GCGTCGGCTCCCAGGATT 62.163 66.667 0.00 0.00 35.83 3.01
618 684 4.609018 CGGAATCGCTCCCGCCAT 62.609 66.667 0.00 0.00 41.87 4.40
619 685 2.974698 GGAATCGCTCCCGCCATG 60.975 66.667 0.00 0.00 38.44 3.66
620 686 2.203070 GAATCGCTCCCGCCATGT 60.203 61.111 0.00 0.00 0.00 3.21
621 687 1.069090 GAATCGCTCCCGCCATGTA 59.931 57.895 0.00 0.00 0.00 2.29
624 1344 1.188219 ATCGCTCCCGCCATGTAGAT 61.188 55.000 0.00 0.00 0.00 1.98
633 1353 3.495983 CCCGCCATGTAGATTTGTGGATA 60.496 47.826 0.00 0.00 33.53 2.59
652 1372 5.836898 TGGATATAGGACGTCATGTAGGTTT 59.163 40.000 18.91 0.00 0.00 3.27
654 1374 2.762535 AGGACGTCATGTAGGTTTGG 57.237 50.000 18.91 0.00 0.00 3.28
660 1380 2.612972 CGTCATGTAGGTTTGGACTGCT 60.613 50.000 0.00 0.00 0.00 4.24
679 1399 0.909610 TCCTCAAGCTAGGGGGTGTG 60.910 60.000 2.62 0.00 37.24 3.82
730 1450 2.170397 ACCCCTTGTTTCTTTGCTTTGG 59.830 45.455 0.00 0.00 0.00 3.28
735 1455 3.518634 TGTTTCTTTGCTTTGGACACC 57.481 42.857 0.00 0.00 0.00 4.16
736 1456 2.828520 TGTTTCTTTGCTTTGGACACCA 59.171 40.909 0.00 0.00 0.00 4.17
737 1457 3.450457 TGTTTCTTTGCTTTGGACACCAT 59.550 39.130 0.00 0.00 31.53 3.55
738 1458 3.731652 TTCTTTGCTTTGGACACCATG 57.268 42.857 0.00 0.00 31.53 3.66
739 1459 2.665165 TCTTTGCTTTGGACACCATGT 58.335 42.857 0.00 0.00 31.53 3.21
740 1460 3.826524 TCTTTGCTTTGGACACCATGTA 58.173 40.909 0.00 0.00 31.53 2.29
741 1461 3.568007 TCTTTGCTTTGGACACCATGTAC 59.432 43.478 0.00 0.00 31.53 2.90
742 1462 2.647683 TGCTTTGGACACCATGTACA 57.352 45.000 0.00 0.00 39.95 2.90
743 1463 2.226330 TGCTTTGGACACCATGTACAC 58.774 47.619 0.00 0.00 41.71 2.90
744 1464 1.196808 GCTTTGGACACCATGTACACG 59.803 52.381 0.00 0.00 41.71 4.49
745 1465 1.196808 CTTTGGACACCATGTACACGC 59.803 52.381 0.00 0.00 41.71 5.34
746 1466 0.604243 TTGGACACCATGTACACGCC 60.604 55.000 0.00 0.00 41.71 5.68
747 1467 1.004320 GGACACCATGTACACGCCA 60.004 57.895 0.00 0.00 29.61 5.69
749 1469 1.296056 GACACCATGTACACGCCACC 61.296 60.000 0.00 0.00 0.00 4.61
750 1470 2.038269 CACCATGTACACGCCACCC 61.038 63.158 0.00 0.00 0.00 4.61
751 1471 2.437716 CCATGTACACGCCACCCC 60.438 66.667 0.00 0.00 0.00 4.95
752 1472 2.817834 CATGTACACGCCACCCCG 60.818 66.667 0.00 0.00 0.00 5.73
753 1473 4.770874 ATGTACACGCCACCCCGC 62.771 66.667 0.00 0.00 0.00 6.13
762 1482 4.973055 CCACCCCGCGTTCGTTCA 62.973 66.667 4.92 0.00 0.00 3.18
775 1495 3.121729 CGTTCGTTCATGCATGTTTTGTG 60.122 43.478 25.43 11.19 0.00 3.33
801 1521 6.374613 CCCTTACTTGTACCCATTCTCTTTTC 59.625 42.308 0.00 0.00 0.00 2.29
826 1546 7.933577 TCTTCTATCAATGGAAAGATACGCAAT 59.066 33.333 0.00 0.00 0.00 3.56
885 1606 4.201773 GCACCTAACTTGTTTTGTTTTGGC 60.202 41.667 0.00 0.00 0.00 4.52
918 1639 6.515272 ACAGTTATATTGTTTTGGCTCCAG 57.485 37.500 0.00 0.00 0.00 3.86
949 1670 1.064463 ACCATATGTGCAACCCCTCTG 60.064 52.381 1.24 0.00 34.36 3.35
990 1711 4.991153 TGCAAGTGTTTGTGTATTTGGA 57.009 36.364 0.00 0.00 36.65 3.53
1026 1747 1.661112 GGCGAGTCTAGCAAACATGAC 59.339 52.381 7.29 0.00 36.08 3.06
1057 1778 7.161404 TGAGTGCATACTACAAGATCAAAGTT 58.839 34.615 0.00 0.00 37.25 2.66
1062 1783 8.845227 TGCATACTACAAGATCAAAGTTCAAAA 58.155 29.630 0.00 0.00 0.00 2.44
1070 1791 5.351458 AGATCAAAGTTCAAAACCAAGTGC 58.649 37.500 0.00 0.00 0.00 4.40
1113 1834 8.055279 TGAAAGAGATCACAAACAACTTTTCT 57.945 30.769 0.00 0.00 0.00 2.52
1143 1864 2.564504 AGTACTCGGTAAAGGTGGTTCC 59.435 50.000 0.00 0.00 0.00 3.62
1144 1865 0.319405 ACTCGGTAAAGGTGGTTCCG 59.681 55.000 0.00 0.00 41.99 4.30
1146 1867 2.036571 CGGTAAAGGTGGTTCCGGC 61.037 63.158 0.00 0.00 41.99 6.13
1198 1920 8.188799 TGTCCATTTAGTCTACTTTCAGATACG 58.811 37.037 0.00 0.00 0.00 3.06
1264 1986 5.777732 TGTGCTACAAAGTGGGGAAATAATT 59.222 36.000 0.00 0.00 0.00 1.40
1318 2040 7.120432 GCTGGTTCTCAGAGTTTATTTCAGAAT 59.880 37.037 0.00 0.00 46.18 2.40
1372 2094 2.341846 ATATTGTGCGATTTCGGGGT 57.658 45.000 1.75 0.00 40.23 4.95
1405 2127 8.820933 CATGAAACAGTGTGGTTATATACAGAG 58.179 37.037 0.00 0.00 0.00 3.35
1456 2178 6.867293 AGATCTCAGAAATTTTGCTTTGCTTC 59.133 34.615 0.00 0.00 0.00 3.86
1463 2185 6.583806 AGAAATTTTGCTTTGCTTCGAGTATG 59.416 34.615 0.00 0.00 0.00 2.39
1550 2273 6.819649 TGTTTTGAAGTTTTCGTCTTCCTCTA 59.180 34.615 0.00 0.00 40.10 2.43
1576 2299 9.845740 AATATTATAGTTTGTGTGGTGCTGATA 57.154 29.630 0.00 0.00 0.00 2.15
1596 2319 3.141002 ACGCTACGAATGTTATGACGT 57.859 42.857 0.00 0.00 41.66 4.34
1604 2327 7.994894 GCTACGAATGTTATGACGTATTAACAC 59.005 37.037 19.38 10.70 39.73 3.32
1620 2343 5.585820 TTAACACGTGGTGCTGATATCTA 57.414 39.130 18.38 0.00 36.98 1.98
1623 2346 4.621991 ACACGTGGTGCTGATATCTAATC 58.378 43.478 21.57 0.00 36.98 1.75
1701 2424 1.994507 GCTCAGCAGCTGCCATGAAG 61.995 60.000 34.39 23.16 43.09 3.02
1708 2431 2.925306 GCAGCTGCCATGAAGAAGTTTG 60.925 50.000 28.76 0.00 34.31 2.93
1713 2436 2.892852 TGCCATGAAGAAGTTTGAAGGG 59.107 45.455 0.00 0.00 0.00 3.95
1722 2445 9.753674 ATGAAGAAGTTTGAAGGGATAATTACA 57.246 29.630 0.00 0.00 0.00 2.41
1772 2495 7.831690 TGGCTGTAGAGGATTAGATAGACATAG 59.168 40.741 0.00 0.00 0.00 2.23
1824 2548 6.926313 AGTTTCTTGCTAGACTCGAAAGTAT 58.074 36.000 0.00 0.00 35.28 2.12
1842 2566 9.214957 CGAAAGTATAAACATGCCATCCTTATA 57.785 33.333 0.00 0.00 0.00 0.98
1865 2589 8.901472 ATATAATGGATGCTCAGGTACTCTTA 57.099 34.615 0.00 0.00 34.60 2.10
1885 2609 9.308000 ACTCTTAGACCTCTCCTAATATGATTG 57.692 37.037 0.00 0.00 0.00 2.67
1887 2611 7.676043 TCTTAGACCTCTCCTAATATGATTGGG 59.324 40.741 0.00 0.00 0.00 4.12
2005 2729 2.359848 CGGTCAACCTATATGTCCACGA 59.640 50.000 0.00 0.00 0.00 4.35
2383 3115 8.298140 TCTAGTCTCTTTAGCACTACAAAGTTC 58.702 37.037 0.00 0.00 31.97 3.01
2407 3156 1.132453 CATGTTGTGATGCAGAGGCTG 59.868 52.381 0.00 0.00 41.91 4.85
2707 3467 1.687563 AAGCACAGGGGTACACAAAC 58.312 50.000 0.00 0.00 0.00 2.93
3184 3956 3.284617 GTGGTTTTAGGTGTTCACCTGT 58.715 45.455 28.23 10.96 40.93 4.00
3208 3980 4.122046 TCAGTCGATTTATCATGGCTGTG 58.878 43.478 0.00 0.00 0.00 3.66
3248 4020 7.922278 CACATTTGGTATGGTAGGATTGATTTG 59.078 37.037 0.00 0.00 0.00 2.32
3760 4673 3.734463 TGTCTTGGAGCGTAATTTCACA 58.266 40.909 0.00 0.00 0.00 3.58
3819 4732 6.366877 TCCTTTTTAGACCGACGATGTAAAAG 59.633 38.462 4.66 8.84 33.43 2.27
3842 4755 9.807921 AAAGTTTTATTTATCTTCTCCTCACCA 57.192 29.630 0.00 0.00 0.00 4.17
4283 5231 4.757149 AGTTGCTCAAGTGAATGGTACTTC 59.243 41.667 0.00 0.00 36.29 3.01
4446 5394 6.833416 AGCTTGCCTTTATATAACAATGGACA 59.167 34.615 0.00 0.00 0.00 4.02
4501 5449 7.784633 ATGTTCTCTTCTTTAGCTTATCTGC 57.215 36.000 0.00 0.00 0.00 4.26
4504 5452 6.537453 TCTCTTCTTTAGCTTATCTGCTGT 57.463 37.500 0.00 0.00 43.87 4.40
4597 5545 1.474077 GGCCTATTGTTGAGTGCCTTG 59.526 52.381 0.00 0.00 35.99 3.61
4655 5603 6.313905 AGAGTGTAATTCTTGGCTTAACATCG 59.686 38.462 0.00 0.00 21.73 3.84
4688 5636 3.492829 GGTGAACAAATTAACCCCGCAAA 60.493 43.478 0.00 0.00 33.44 3.68
4845 5811 1.202099 TGTAGGGGGTGGCGATTGAA 61.202 55.000 0.00 0.00 0.00 2.69
4867 5833 9.677567 TTGAACTAGTTGTGCATAATTCTTTTC 57.322 29.630 14.14 0.50 33.47 2.29
5009 5975 4.983053 AGAAGATGATGGATGATGAACCC 58.017 43.478 0.00 0.00 0.00 4.11
5038 6004 0.249911 GCCCTCGGAAGCGATTACAT 60.250 55.000 0.00 0.00 0.00 2.29
5048 6014 4.202161 GGAAGCGATTACATCCTCTGAGAA 60.202 45.833 6.17 0.00 0.00 2.87
5271 6245 4.098960 TCCTAACGGATCAACTGTGATACC 59.901 45.833 0.00 0.00 44.83 2.73
5368 6342 0.817634 CCACAACAGGAAGCCGTGAA 60.818 55.000 0.00 0.00 32.83 3.18
5416 6877 6.265577 TCATGAATCGTACTGTGTGAGTATG 58.734 40.000 0.00 0.00 43.25 2.39
5585 7046 4.916041 TTGAGTGGAAATGAGATCAGGT 57.084 40.909 0.00 0.00 0.00 4.00
5586 7047 4.916041 TGAGTGGAAATGAGATCAGGTT 57.084 40.909 0.00 0.00 0.00 3.50
5587 7048 5.246981 TGAGTGGAAATGAGATCAGGTTT 57.753 39.130 0.00 0.00 0.00 3.27
5588 7049 6.373005 TGAGTGGAAATGAGATCAGGTTTA 57.627 37.500 0.00 0.00 0.00 2.01
5589 7050 6.778821 TGAGTGGAAATGAGATCAGGTTTAA 58.221 36.000 0.00 0.00 0.00 1.52
5665 10862 0.031857 TTGTTGAAGGCATTGCGTGG 59.968 50.000 4.36 0.00 0.00 4.94
5674 10871 1.975363 GCATTGCGTGGAGTCTGCTC 61.975 60.000 0.00 0.00 40.93 4.26
5678 10875 2.179517 CGTGGAGTCTGCTCGGAC 59.820 66.667 7.82 0.68 42.53 4.79
5684 10881 2.505118 GTCTGCTCGGACGTGCTC 60.505 66.667 17.76 6.80 35.85 4.26
5686 10883 2.202544 CTGCTCGGACGTGCTCTC 60.203 66.667 17.76 0.00 35.85 3.20
5705 10902 4.097418 TCTCCAAGGTGAAAACCCAAAAA 58.903 39.130 0.00 0.00 0.00 1.94
5708 10905 2.933260 CAAGGTGAAAACCCAAAAACCG 59.067 45.455 0.00 0.00 32.83 4.44
5719 10916 2.295070 CCCAAAAACCGACCTTTAGTGG 59.705 50.000 0.00 0.00 0.00 4.00
5737 10934 1.196012 GGTTCGGAGAGGGAACATCT 58.804 55.000 6.95 0.00 44.29 2.90
5803 11000 1.541147 CAGCACATTGTTCGACCCAAT 59.459 47.619 4.13 4.13 32.88 3.16
5877 11085 6.793492 AGTTTGAAGATAACTCACTCAAGC 57.207 37.500 0.00 0.00 30.20 4.01
5878 11086 6.529220 AGTTTGAAGATAACTCACTCAAGCT 58.471 36.000 0.00 0.00 34.82 3.74
5881 11089 6.842437 TGAAGATAACTCACTCAAGCTAGT 57.158 37.500 0.00 0.00 0.00 2.57
5888 11101 5.730296 ACTCACTCAAGCTAGTAACATGT 57.270 39.130 0.00 0.00 0.00 3.21
5898 11111 1.584724 AGTAACATGTGGAGGAGGGG 58.415 55.000 0.00 0.00 0.00 4.79
5905 11118 3.923645 TGGAGGAGGGGTCGGTGT 61.924 66.667 0.00 0.00 0.00 4.16
5907 11120 2.037527 GAGGAGGGGTCGGTGTCT 59.962 66.667 0.00 0.00 0.00 3.41
5917 11130 0.460284 GTCGGTGTCTGTGGCATAGG 60.460 60.000 11.54 0.00 0.00 2.57
5922 11135 0.250234 TGTCTGTGGCATAGGTCTGC 59.750 55.000 11.54 0.00 41.53 4.26
5930 11144 1.668419 GCATAGGTCTGCCGTTCATT 58.332 50.000 0.00 0.00 40.50 2.57
5940 11154 2.865551 CTGCCGTTCATTGCAAAAAGTT 59.134 40.909 1.71 0.00 36.98 2.66
5945 11159 3.179599 CGTTCATTGCAAAAAGTTCGTCC 59.820 43.478 1.71 0.00 0.00 4.79
5947 11161 4.582701 TCATTGCAAAAAGTTCGTCCAT 57.417 36.364 1.71 0.00 0.00 3.41
5964 11178 1.734465 CCATCAGCTCTTTCAACGACC 59.266 52.381 0.00 0.00 0.00 4.79
5969 11183 1.222115 GCTCTTTCAACGACCGCACT 61.222 55.000 0.00 0.00 0.00 4.40
5976 11190 2.109739 AACGACCGCACTTGCACAA 61.110 52.632 1.48 0.00 42.21 3.33
6026 11240 2.780094 CCGCGATCTCTGTGCCTCT 61.780 63.158 8.23 0.00 0.00 3.69
6031 11245 0.103937 GATCTCTGTGCCTCTTCCCG 59.896 60.000 0.00 0.00 0.00 5.14
6032 11246 1.965754 ATCTCTGTGCCTCTTCCCGC 61.966 60.000 0.00 0.00 0.00 6.13
6033 11247 2.922503 TCTGTGCCTCTTCCCGCA 60.923 61.111 0.00 0.00 0.00 5.69
6037 11251 2.604686 TGCCTCTTCCCGCAGTCT 60.605 61.111 0.00 0.00 0.00 3.24
6042 11256 1.181786 CTCTTCCCGCAGTCTCTTCT 58.818 55.000 0.00 0.00 0.00 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
77 78 4.699522 AGAAACCTGGCGACCGGC 62.700 66.667 0.00 9.09 42.51 6.13
78 79 2.032071 AAGAAACCTGGCGACCGG 59.968 61.111 0.00 0.00 0.00 5.28
79 80 2.033194 GGAAGAAACCTGGCGACCG 61.033 63.158 0.00 0.00 0.00 4.79
80 81 2.033194 CGGAAGAAACCTGGCGACC 61.033 63.158 0.00 0.00 0.00 4.79
81 82 2.033194 CCGGAAGAAACCTGGCGAC 61.033 63.158 0.00 0.00 0.00 5.19
82 83 2.345991 CCGGAAGAAACCTGGCGA 59.654 61.111 0.00 0.00 0.00 5.54
107 108 9.464714 GAAAACCAAGAAAAAGGAGAAGATTAC 57.535 33.333 0.00 0.00 0.00 1.89
110 114 7.904558 AGAAAACCAAGAAAAAGGAGAAGAT 57.095 32.000 0.00 0.00 0.00 2.40
122 126 3.570912 AGACCGGAAGAAAACCAAGAA 57.429 42.857 9.46 0.00 0.00 2.52
140 144 1.737735 CACGGCTGCACGATGAAGA 60.738 57.895 15.53 0.00 37.61 2.87
162 166 2.541120 GCTCGCATGGCATGAGGAC 61.541 63.158 30.69 18.12 0.00 3.85
171 175 5.316327 TCATCTATAAGTAGCTCGCATGG 57.684 43.478 0.00 0.00 0.00 3.66
174 178 8.258708 TCTACTATCATCTATAAGTAGCTCGCA 58.741 37.037 0.00 0.00 31.96 5.10
197 201 7.568738 TCCACTCCAAGGATAATTTCAGATCTA 59.431 37.037 0.00 0.00 0.00 1.98
211 219 1.993653 CTGCCATCCACTCCAAGGA 59.006 57.895 0.00 0.00 39.97 3.36
212 220 1.751927 GCTGCCATCCACTCCAAGG 60.752 63.158 0.00 0.00 0.00 3.61
300 309 1.752501 TACGCGGTCGAGTACTACGC 61.753 60.000 12.47 18.17 46.04 4.42
432 489 2.681778 CTCTCGCCACCCCAGTCT 60.682 66.667 0.00 0.00 0.00 3.24
487 544 2.092429 GGAGAATCAATAGCCACCCACA 60.092 50.000 0.00 0.00 36.25 4.17
488 545 2.576615 GGAGAATCAATAGCCACCCAC 58.423 52.381 0.00 0.00 36.25 4.61
489 546 1.494721 GGGAGAATCAATAGCCACCCA 59.505 52.381 0.00 0.00 36.25 4.51
490 547 1.494721 TGGGAGAATCAATAGCCACCC 59.505 52.381 0.00 0.00 36.25 4.61
491 548 2.952310 GTTGGGAGAATCAATAGCCACC 59.048 50.000 0.00 0.00 36.25 4.61
492 549 2.952310 GGTTGGGAGAATCAATAGCCAC 59.048 50.000 0.00 0.00 36.25 5.01
493 550 2.091885 GGGTTGGGAGAATCAATAGCCA 60.092 50.000 0.00 0.00 36.25 4.75
494 551 2.587522 GGGTTGGGAGAATCAATAGCC 58.412 52.381 0.00 0.00 36.25 3.93
495 552 2.587522 GGGGTTGGGAGAATCAATAGC 58.412 52.381 0.00 0.00 36.25 2.97
496 553 3.229697 GGGGGTTGGGAGAATCAATAG 57.770 52.381 0.00 0.00 36.25 1.73
574 640 3.976701 AAACCTCGCCGGGAGCATG 62.977 63.158 2.18 0.00 44.04 4.06
617 683 7.232737 TGACGTCCTATATCCACAAATCTACAT 59.767 37.037 14.12 0.00 0.00 2.29
618 684 6.548251 TGACGTCCTATATCCACAAATCTACA 59.452 38.462 14.12 0.00 0.00 2.74
619 685 6.978338 TGACGTCCTATATCCACAAATCTAC 58.022 40.000 14.12 0.00 0.00 2.59
620 686 7.232737 ACATGACGTCCTATATCCACAAATCTA 59.767 37.037 14.12 0.00 0.00 1.98
621 687 6.042093 ACATGACGTCCTATATCCACAAATCT 59.958 38.462 14.12 0.00 0.00 2.40
624 1344 5.607939 ACATGACGTCCTATATCCACAAA 57.392 39.130 14.12 0.00 0.00 2.83
633 1353 4.028131 TCCAAACCTACATGACGTCCTAT 58.972 43.478 14.12 0.00 0.00 2.57
660 1380 0.909610 CACACCCCCTAGCTTGAGGA 60.910 60.000 3.93 0.00 39.15 3.71
679 1399 1.926510 GAACAAGCAAACAACACAGCC 59.073 47.619 0.00 0.00 0.00 4.85
730 1450 1.296056 GGTGGCGTGTACATGGTGTC 61.296 60.000 16.68 1.50 0.00 3.67
735 1455 2.817834 CGGGGTGGCGTGTACATG 60.818 66.667 10.89 10.89 0.00 3.21
736 1456 4.770874 GCGGGGTGGCGTGTACAT 62.771 66.667 0.00 0.00 0.00 2.29
745 1465 4.973055 TGAACGAACGCGGGGTGG 62.973 66.667 12.47 0.00 43.17 4.61
746 1466 2.740826 ATGAACGAACGCGGGGTG 60.741 61.111 12.47 0.00 43.17 4.61
747 1467 2.740826 CATGAACGAACGCGGGGT 60.741 61.111 12.47 0.00 43.17 4.95
749 1469 2.749865 ATGCATGAACGAACGCGGG 61.750 57.895 12.47 1.02 43.17 6.13
750 1470 1.580893 CATGCATGAACGAACGCGG 60.581 57.895 22.59 0.00 43.17 6.46
751 1471 0.452618 AACATGCATGAACGAACGCG 60.453 50.000 32.75 3.53 44.79 6.01
752 1472 1.685302 AAACATGCATGAACGAACGC 58.315 45.000 32.75 0.00 0.00 4.84
753 1473 3.042189 ACAAAACATGCATGAACGAACG 58.958 40.909 32.75 15.24 0.00 3.95
754 1474 3.361917 GCACAAAACATGCATGAACGAAC 60.362 43.478 32.75 12.24 42.88 3.95
755 1475 2.793790 GCACAAAACATGCATGAACGAA 59.206 40.909 32.75 0.00 42.88 3.85
756 1476 2.392821 GCACAAAACATGCATGAACGA 58.607 42.857 32.75 0.00 42.88 3.85
757 1477 1.456544 GGCACAAAACATGCATGAACG 59.543 47.619 32.75 18.63 45.27 3.95
758 1478 1.799994 GGGCACAAAACATGCATGAAC 59.200 47.619 32.75 12.50 45.27 3.18
759 1479 1.693062 AGGGCACAAAACATGCATGAA 59.307 42.857 32.75 0.00 45.27 2.57
760 1480 1.340088 AGGGCACAAAACATGCATGA 58.660 45.000 32.75 0.00 45.27 3.07
761 1481 2.172851 AAGGGCACAAAACATGCATG 57.827 45.000 25.09 25.09 45.27 4.06
762 1482 2.899256 AGTAAGGGCACAAAACATGCAT 59.101 40.909 0.00 0.00 45.27 3.96
775 1495 3.200165 AGAGAATGGGTACAAGTAAGGGC 59.800 47.826 0.00 0.00 0.00 5.19
801 1521 7.482654 TTGCGTATCTTTCCATTGATAGAAG 57.517 36.000 0.00 0.00 33.19 2.85
847 1567 3.022557 AGGTGCATGCCATTCACTATT 57.977 42.857 16.68 0.00 0.00 1.73
849 1569 3.054434 AGTTAGGTGCATGCCATTCACTA 60.054 43.478 16.68 5.70 0.00 2.74
858 1578 3.716601 ACAAAACAAGTTAGGTGCATGC 58.283 40.909 11.82 11.82 0.00 4.06
859 1579 6.456718 CCAAAACAAAACAAGTTAGGTGCATG 60.457 38.462 0.00 0.00 0.00 4.06
906 1627 1.821136 CCCTCAATCTGGAGCCAAAAC 59.179 52.381 0.00 0.00 33.47 2.43
908 1629 0.332632 CCCCTCAATCTGGAGCCAAA 59.667 55.000 0.00 0.00 33.47 3.28
909 1630 2.001803 CCCCTCAATCTGGAGCCAA 58.998 57.895 0.00 0.00 33.47 4.52
910 1631 2.683465 GCCCCTCAATCTGGAGCCA 61.683 63.158 0.00 0.00 33.47 4.75
911 1632 2.194326 GCCCCTCAATCTGGAGCC 59.806 66.667 0.00 0.00 33.47 4.70
912 1633 1.452833 GTGCCCCTCAATCTGGAGC 60.453 63.158 0.00 0.00 33.47 4.70
913 1634 1.225704 GGTGCCCCTCAATCTGGAG 59.774 63.158 0.00 0.00 34.62 3.86
918 1639 2.233271 CACATATGGTGCCCCTCAATC 58.767 52.381 7.80 0.00 41.36 2.67
936 1657 3.842925 TTCCGCAGAGGGGTTGCAC 62.843 63.158 0.00 0.00 41.59 4.57
942 1663 1.341156 ATTCTCCTTCCGCAGAGGGG 61.341 60.000 0.00 0.00 39.73 4.79
949 1670 4.096382 TGCAAGAATTTATTCTCCTTCCGC 59.904 41.667 5.51 3.75 45.83 5.54
1005 1726 0.647410 CATGTTTGCTAGACTCGCCG 59.353 55.000 0.00 0.00 0.00 6.46
1026 1747 5.237815 TCTTGTAGTATGCACTCAAGGTTG 58.762 41.667 13.88 0.00 38.76 3.77
1057 1778 4.275689 CAGTGATACAGCACTTGGTTTTGA 59.724 41.667 0.00 0.00 46.42 2.69
1062 1783 3.769739 TTCAGTGATACAGCACTTGGT 57.230 42.857 0.00 0.00 46.42 3.67
1143 1864 7.887996 TTAATTTACCTTATATACCACGCCG 57.112 36.000 0.00 0.00 0.00 6.46
1225 1947 1.956477 AGCACACCCTGTTTTCACATC 59.044 47.619 0.00 0.00 30.39 3.06
1264 1986 1.270518 GGCTCAAGTCTCTTCACAGCA 60.271 52.381 0.00 0.00 0.00 4.41
1318 2040 4.657504 AGCCTCATAAGATGATCAACCTCA 59.342 41.667 0.00 0.00 38.85 3.86
1372 2094 2.884012 CCACACTGTTTCATGGCAGTAA 59.116 45.455 14.73 0.00 43.27 2.24
1405 2127 4.726591 GCAAAAACTTTTTGCCCTTCGAAC 60.727 41.667 29.87 9.20 46.51 3.95
1444 2166 3.188460 GGACATACTCGAAGCAAAGCAAA 59.812 43.478 0.00 0.00 0.00 3.68
1456 2178 3.492829 GGCTTCCTTTAGGGACATACTCG 60.493 52.174 0.00 0.00 45.03 4.18
1463 2185 3.282885 CATCAAGGCTTCCTTTAGGGAC 58.717 50.000 0.00 0.00 41.69 4.46
1550 2273 8.752005 ATCAGCACCACACAAACTATAATATT 57.248 30.769 0.00 0.00 0.00 1.28
1556 2279 3.932710 CGTATCAGCACCACACAAACTAT 59.067 43.478 0.00 0.00 0.00 2.12
1576 2299 3.141002 ACGTCATAACATTCGTAGCGT 57.859 42.857 0.00 0.00 34.78 5.07
1596 2319 6.156748 AGATATCAGCACCACGTGTTAATA 57.843 37.500 15.65 4.11 35.75 0.98
1604 2327 5.518128 GCATAGATTAGATATCAGCACCACG 59.482 44.000 5.32 0.00 0.00 4.94
1620 2343 7.991084 TGCTCTGCTTTATTATGCATAGATT 57.009 32.000 6.50 0.00 38.59 2.40
1623 2346 8.260270 TGTATGCTCTGCTTTATTATGCATAG 57.740 34.615 6.50 0.00 40.85 2.23
1642 2365 9.651718 CGAAAGGACTAAATTTCTATTGTATGC 57.348 33.333 0.00 0.00 34.05 3.14
1696 2419 9.753674 TGTAATTATCCCTTCAAACTTCTTCAT 57.246 29.630 0.00 0.00 0.00 2.57
1701 2424 8.470002 AGCATTGTAATTATCCCTTCAAACTTC 58.530 33.333 0.00 0.00 0.00 3.01
1708 2431 7.807977 TCTTCAGCATTGTAATTATCCCTTC 57.192 36.000 0.00 0.00 0.00 3.46
1722 2445 4.677584 GACGTCTGACTATCTTCAGCATT 58.322 43.478 8.70 0.00 42.52 3.56
1772 2495 6.722129 TCTCCCAGTTATTCTCTAATCTAGCC 59.278 42.308 0.00 0.00 0.00 3.93
1811 2535 5.730550 TGGCATGTTTATACTTTCGAGTCT 58.269 37.500 0.00 0.00 0.00 3.24
1842 2566 7.013220 TCTAAGAGTACCTGAGCATCCATTAT 58.987 38.462 0.00 0.00 0.00 1.28
1865 2589 5.982391 TCCCAATCATATTAGGAGAGGTCT 58.018 41.667 0.00 0.00 0.00 3.85
1894 2618 6.718454 CCAATTGCACATATTAGGGAAGATCT 59.282 38.462 0.00 0.00 0.00 2.75
2383 3115 2.418976 CCTCTGCATCACAACATGAGTG 59.581 50.000 14.19 14.19 41.91 3.51
2707 3467 4.963276 TTGTTCGCAATCCATTTCTAGG 57.037 40.909 0.00 0.00 31.15 3.02
3184 3956 5.065090 CACAGCCATGATAAATCGACTGAAA 59.935 40.000 0.00 0.00 0.00 2.69
3353 4125 9.503427 GAGTTGAGCAAATTTATACATGTTACC 57.497 33.333 2.30 0.00 0.00 2.85
3608 4521 8.407832 CAGTTGCAATATTGAGGATGAATTGTA 58.592 33.333 19.73 0.00 31.65 2.41
3707 4620 7.747799 GTGCATATGACATTCAAGTATGTATGC 59.252 37.037 6.97 14.13 42.66 3.14
3787 4700 4.084693 CGTCGGTCTAAAAAGGACAACTTC 60.085 45.833 0.00 0.00 38.85 3.01
3819 4732 9.232473 AGTTGGTGAGGAGAAGATAAATAAAAC 57.768 33.333 0.00 0.00 0.00 2.43
3842 4755 5.012458 TGAGTCCATTTGAGATCTGACAGTT 59.988 40.000 0.00 0.00 0.00 3.16
4283 5231 4.634443 CACTAGAACCAAGGGTAAATTCCG 59.366 45.833 0.00 0.00 33.12 4.30
4500 5448 7.695618 CAGCTTTCTTATTGAGAATGTTACAGC 59.304 37.037 0.00 4.75 43.65 4.40
4501 5449 8.180267 CCAGCTTTCTTATTGAGAATGTTACAG 58.820 37.037 0.00 0.00 43.65 2.74
4504 5452 7.665559 ACACCAGCTTTCTTATTGAGAATGTTA 59.334 33.333 6.12 0.00 43.65 2.41
4655 5603 7.116233 GGTTAATTTGTTCACCATTCACACATC 59.884 37.037 0.00 0.00 0.00 3.06
4845 5811 6.653320 TCCGAAAAGAATTATGCACAACTAGT 59.347 34.615 0.00 0.00 0.00 2.57
4900 5866 6.855763 TGCAATTAGTCCAGATCCAAAAAT 57.144 33.333 0.00 0.00 0.00 1.82
4906 5872 4.517285 TCACTTGCAATTAGTCCAGATCC 58.483 43.478 0.00 0.00 0.00 3.36
5038 6004 6.669591 TCATGAAACCTATTCTTCTCAGAGGA 59.330 38.462 0.00 0.00 0.00 3.71
5271 6245 5.954349 GCGAGACAGAAATCTTACAAATTCG 59.046 40.000 0.00 0.00 0.00 3.34
5352 6326 1.466167 CATCTTCACGGCTTCCTGTTG 59.534 52.381 0.00 0.00 0.00 3.33
5368 6342 8.043113 TGATCAGCAGTATCAAAAAGTACATCT 58.957 33.333 0.00 0.00 30.52 2.90
5416 6877 8.806177 AAACCAAATATAAAAGGTCAAACGAC 57.194 30.769 0.00 0.00 32.05 4.34
5585 7046 6.149807 GTGGAACCATCGTAGGTGAAATTAAA 59.850 38.462 2.43 0.00 42.25 1.52
5586 7047 5.644636 GTGGAACCATCGTAGGTGAAATTAA 59.355 40.000 2.43 0.00 42.25 1.40
5587 7048 5.180271 GTGGAACCATCGTAGGTGAAATTA 58.820 41.667 2.43 0.00 42.25 1.40
5588 7049 4.007659 GTGGAACCATCGTAGGTGAAATT 58.992 43.478 2.43 0.00 42.25 1.82
5589 7050 3.606687 GTGGAACCATCGTAGGTGAAAT 58.393 45.455 2.43 0.00 42.25 2.17
5638 10835 1.098869 TGCCTTCAACAAAAGCACGA 58.901 45.000 0.00 0.00 0.00 4.35
5660 10857 3.749064 TCCGAGCAGACTCCACGC 61.749 66.667 0.00 0.00 40.03 5.34
5665 10862 2.505118 GCACGTCCGAGCAGACTC 60.505 66.667 4.25 0.00 39.75 3.36
5674 10871 2.125912 CCTTGGAGAGCACGTCCG 60.126 66.667 0.00 0.00 36.82 4.79
5678 10875 1.264288 GTTTTCACCTTGGAGAGCACG 59.736 52.381 0.00 0.00 0.00 5.34
5684 10881 4.188462 GTTTTTGGGTTTTCACCTTGGAG 58.812 43.478 0.00 0.00 43.65 3.86
5686 10883 3.275143 GGTTTTTGGGTTTTCACCTTGG 58.725 45.455 0.00 0.00 43.65 3.61
5705 10902 0.319405 CCGAACCACTAAAGGTCGGT 59.681 55.000 9.04 0.00 42.25 4.69
5708 10905 2.094130 CCTCTCCGAACCACTAAAGGTC 60.094 54.545 0.00 0.00 42.25 3.85
5719 10916 3.700038 TCTTAGATGTTCCCTCTCCGAAC 59.300 47.826 0.00 0.00 40.06 3.95
5737 10934 3.519510 AGCAAGCCCAATGACTACTCTTA 59.480 43.478 0.00 0.00 0.00 2.10
5774 10971 2.819595 AATGTGCTGGTAGCCGCG 60.820 61.111 0.00 0.00 41.51 6.46
5803 11000 2.483714 GGCTTACAGCAGATTCCATCGA 60.484 50.000 0.00 0.00 44.75 3.59
5805 11002 2.923121 TGGCTTACAGCAGATTCCATC 58.077 47.619 0.00 0.00 44.75 3.51
5811 11008 5.557576 TTATCTCATGGCTTACAGCAGAT 57.442 39.130 0.00 0.50 44.75 2.90
5814 11011 7.066307 TCTTATTATCTCATGGCTTACAGCA 57.934 36.000 0.00 0.00 44.75 4.41
5816 11013 9.716531 TTCATCTTATTATCTCATGGCTTACAG 57.283 33.333 0.00 0.00 0.00 2.74
5856 11064 7.671302 ACTAGCTTGAGTGAGTTATCTTCAAA 58.329 34.615 1.04 0.00 32.86 2.69
5858 11066 6.842437 ACTAGCTTGAGTGAGTTATCTTCA 57.158 37.500 1.04 0.00 0.00 3.02
5859 11067 8.244802 TGTTACTAGCTTGAGTGAGTTATCTTC 58.755 37.037 1.04 0.00 0.00 2.87
5864 11072 7.090808 CACATGTTACTAGCTTGAGTGAGTTA 58.909 38.462 1.04 0.00 0.00 2.24
5872 11080 4.093743 TCCTCCACATGTTACTAGCTTGA 58.906 43.478 1.04 0.00 0.00 3.02
5873 11081 4.437239 CTCCTCCACATGTTACTAGCTTG 58.563 47.826 0.00 0.00 0.00 4.01
5875 11083 3.034635 CCTCCTCCACATGTTACTAGCT 58.965 50.000 0.00 0.00 0.00 3.32
5876 11084 2.103263 CCCTCCTCCACATGTTACTAGC 59.897 54.545 0.00 0.00 0.00 3.42
5877 11085 2.700897 CCCCTCCTCCACATGTTACTAG 59.299 54.545 0.00 0.00 0.00 2.57
5878 11086 2.045326 ACCCCTCCTCCACATGTTACTA 59.955 50.000 0.00 0.00 0.00 1.82
5881 11089 1.580059 GACCCCTCCTCCACATGTTA 58.420 55.000 0.00 0.00 0.00 2.41
5888 11101 3.899545 GACACCGACCCCTCCTCCA 62.900 68.421 0.00 0.00 0.00 3.86
5898 11111 0.460284 CCTATGCCACAGACACCGAC 60.460 60.000 0.00 0.00 0.00 4.79
5917 11130 2.132740 TTTTGCAATGAACGGCAGAC 57.867 45.000 0.00 0.00 41.68 3.51
5922 11135 3.112580 ACGAACTTTTTGCAATGAACGG 58.887 40.909 0.00 0.00 0.00 4.44
5930 11144 2.287547 GCTGATGGACGAACTTTTTGCA 60.288 45.455 0.00 0.00 0.00 4.08
5940 11154 2.688507 GTTGAAAGAGCTGATGGACGA 58.311 47.619 0.00 0.00 0.00 4.20
5945 11159 1.391485 CGGTCGTTGAAAGAGCTGATG 59.609 52.381 8.52 0.00 34.29 3.07
5947 11161 0.944311 GCGGTCGTTGAAAGAGCTGA 60.944 55.000 8.52 0.00 34.29 4.26
5976 11190 3.552890 CGGTCCATCATCGACACACATAT 60.553 47.826 0.00 0.00 31.55 1.78
5982 11196 0.527817 GACCGGTCCATCATCGACAC 60.528 60.000 24.75 0.00 31.55 3.67
5984 11198 0.460311 AAGACCGGTCCATCATCGAC 59.540 55.000 30.82 2.35 0.00 4.20
5985 11199 0.744874 GAAGACCGGTCCATCATCGA 59.255 55.000 30.82 0.00 0.00 3.59
6026 11240 1.633774 AAGAGAAGAGACTGCGGGAA 58.366 50.000 0.00 0.00 0.00 3.97


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

AutoCloner maintained by Alex Coulton.