Multiple sequence alignment - TraesCS3D01G520500

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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 TraesCS3D01G520500 chr3D 100.000 2719 0 0 1 2719 602817580 602820298 0.000000e+00 5022.0
1 TraesCS3D01G520500 chr3B 88.183 1354 68 39 610 1912 810936506 810935194 0.000000e+00 1530.0
2 TraesCS3D01G520500 chr3B 94.050 437 26 0 1 437 810937105 810936669 0.000000e+00 664.0
3 TraesCS3D01G520500 chr3B 87.528 441 32 5 2206 2628 810783981 810783546 3.150000e-134 488.0
4 TraesCS3D01G520500 chr3B 92.949 156 8 3 1843 1996 810787428 810787274 9.800000e-55 224.0
5 TraesCS3D01G520500 chr3B 84.925 199 9 6 2122 2304 810935071 810934878 5.980000e-42 182.0
6 TraesCS3D01G520500 chr3B 91.765 85 3 1 519 599 810936647 810936563 6.150000e-22 115.0
7 TraesCS3D01G520500 chr3A 83.535 1324 102 52 710 1957 733023089 733021806 0.000000e+00 1131.0
8 TraesCS3D01G520500 chr3A 84.786 631 51 20 2104 2717 733021627 733021025 2.330000e-165 592.0
9 TraesCS3D01G520500 chr6B 93.496 246 16 0 225 470 644388219 644387974 1.540000e-97 366.0
10 TraesCS3D01G520500 chr7D 91.463 246 21 0 225 470 115193299 115193054 3.350000e-89 339.0
11 TraesCS3D01G520500 chr4B 91.165 249 22 0 222 470 63796158 63796406 3.350000e-89 339.0
12 TraesCS3D01G520500 chr2D 89.837 246 25 0 225 470 528998727 528998482 1.570000e-82 316.0
13 TraesCS3D01G520500 chr2D 88.353 249 28 1 222 470 257386255 257386502 5.690000e-77 298.0
14 TraesCS3D01G520500 chr4D 88.571 245 26 2 226 469 9484075 9483832 2.050000e-76 296.0
15 TraesCS3D01G520500 chr7A 88.477 243 28 0 228 470 521786662 521786420 7.360000e-76 294.0
16 TraesCS3D01G520500 chr7B 86.742 264 32 2 211 474 86844355 86844095 9.520000e-75 291.0
17 TraesCS3D01G520500 chr5D 80.203 197 31 5 2483 2676 487944801 487944610 1.020000e-29 141.0
18 TraesCS3D01G520500 chr2B 78.173 197 32 9 2483 2676 196007705 196007517 6.150000e-22 115.0
19 TraesCS3D01G520500 chr2A 93.023 43 3 0 2589 2631 54143865 54143907 2.260000e-06 63.9


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 TraesCS3D01G520500 chr3D 602817580 602820298 2718 False 5022.00 5022 100.00000 1 2719 1 chr3D.!!$F1 2718
1 TraesCS3D01G520500 chr3B 810934878 810937105 2227 True 622.75 1530 89.73075 1 2304 4 chr3B.!!$R2 2303
2 TraesCS3D01G520500 chr3B 810783546 810787428 3882 True 356.00 488 90.23850 1843 2628 2 chr3B.!!$R1 785
3 TraesCS3D01G520500 chr3A 733021025 733023089 2064 True 861.50 1131 84.16050 710 2717 2 chr3A.!!$R1 2007

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
488 489 0.247735 CGTGTCGAGTCGTCCATCTC 60.248 60.0 13.12 0.0 0.0 2.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1919 2103 0.106149 AAAAGAAGACTGTCGGCGGT 59.894 50.0 0.0 0.0 36.82 5.68 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
46 47 1.467883 CGGCATGCTTGTGTATGTTGG 60.468 52.381 18.92 0.00 38.33 3.77
54 55 3.378427 GCTTGTGTATGTTGGGAAGATCC 59.622 47.826 0.00 0.00 35.23 3.36
70 71 0.397254 ATCCGGGTGTCTTCCTCGAT 60.397 55.000 0.00 0.00 0.00 3.59
83 84 4.098044 TCTTCCTCGATGGTGTTGTCTATC 59.902 45.833 0.00 0.00 37.07 2.08
104 105 3.055094 TCAACAGTCTTAGATTCAGGGCC 60.055 47.826 0.00 0.00 0.00 5.80
108 109 3.037549 AGTCTTAGATTCAGGGCCAGAG 58.962 50.000 6.18 0.00 0.00 3.35
119 120 0.473326 GGGCCAGAGAAGCATGAGAT 59.527 55.000 4.39 0.00 0.00 2.75
143 144 5.750352 CCCCTAGGCCGTATTATTTCTAA 57.250 43.478 2.05 0.00 0.00 2.10
254 255 1.352056 GCTCCCGACGCTTAAATGC 59.648 57.895 0.00 0.00 0.00 3.56
258 259 0.935196 CCCGACGCTTAAATGCTACC 59.065 55.000 0.00 0.00 0.00 3.18
259 260 0.575390 CCGACGCTTAAATGCTACCG 59.425 55.000 0.00 0.00 0.00 4.02
276 277 1.300931 CGTGATACGGGCATCTGGG 60.301 63.158 0.00 0.00 38.08 4.45
296 297 2.608261 GGCCGTCAGATTCTTAGATCGG 60.608 54.545 0.00 0.00 39.71 4.18
299 300 3.315470 CCGTCAGATTCTTAGATCGGACA 59.685 47.826 14.99 0.00 45.53 4.02
300 301 4.532276 CGTCAGATTCTTAGATCGGACAG 58.468 47.826 14.99 7.05 45.53 3.51
320 321 2.175878 CATCCGGGAGATGTTGGATC 57.824 55.000 0.00 0.00 46.32 3.36
354 355 2.584791 CGCAATTTTTGGACTTCTCGG 58.415 47.619 0.00 0.00 0.00 4.63
364 365 1.270893 GGACTTCTCGGAGGCTTTGTT 60.271 52.381 4.96 0.00 0.00 2.83
390 391 4.632153 AGTGTTGCGAAGTAATTGAGAGT 58.368 39.130 0.00 0.00 32.83 3.24
398 399 4.496010 CGAAGTAATTGAGAGTCGTCCGAT 60.496 45.833 0.00 0.00 0.00 4.18
401 402 3.428746 AATTGAGAGTCGTCCGATCTG 57.571 47.619 0.00 0.00 0.00 2.90
414 415 0.663688 CGATCTGAGAATCCGACGGT 59.336 55.000 14.79 0.00 28.86 4.83
425 426 4.796231 CGACGGTCCAGAAGCCCG 62.796 72.222 1.91 0.00 46.93 6.13
437 438 1.344763 AGAAGCCCGTATCATGGTAGC 59.655 52.381 0.00 0.00 0.00 3.58
438 439 1.070134 GAAGCCCGTATCATGGTAGCA 59.930 52.381 0.00 0.00 0.00 3.49
439 440 0.393077 AGCCCGTATCATGGTAGCAC 59.607 55.000 0.00 0.00 0.00 4.40
440 441 0.602905 GCCCGTATCATGGTAGCACC 60.603 60.000 0.00 0.00 39.22 5.01
441 442 1.048601 CCCGTATCATGGTAGCACCT 58.951 55.000 0.00 0.00 39.58 4.00
442 443 2.244695 CCCGTATCATGGTAGCACCTA 58.755 52.381 0.00 0.00 39.58 3.08
443 444 2.631062 CCCGTATCATGGTAGCACCTAA 59.369 50.000 0.00 0.00 39.58 2.69
444 445 3.306088 CCCGTATCATGGTAGCACCTAAG 60.306 52.174 0.00 0.00 39.58 2.18
445 446 3.306088 CCGTATCATGGTAGCACCTAAGG 60.306 52.174 0.00 0.00 39.58 2.69
446 447 3.321111 CGTATCATGGTAGCACCTAAGGT 59.679 47.826 0.00 0.00 39.58 3.50
447 448 4.202223 CGTATCATGGTAGCACCTAAGGTT 60.202 45.833 0.00 0.00 39.58 3.50
448 449 4.862641 ATCATGGTAGCACCTAAGGTTT 57.137 40.909 0.00 0.00 39.58 3.27
449 450 3.950397 TCATGGTAGCACCTAAGGTTTG 58.050 45.455 0.00 0.00 39.58 2.93
450 451 2.871096 TGGTAGCACCTAAGGTTTGG 57.129 50.000 6.83 0.00 39.58 3.28
452 453 3.249752 TGGTAGCACCTAAGGTTTGGTA 58.750 45.455 6.83 0.00 39.58 3.25
453 454 3.262405 TGGTAGCACCTAAGGTTTGGTAG 59.738 47.826 6.83 0.00 39.58 3.18
454 455 2.491675 AGCACCTAAGGTTTGGTAGC 57.508 50.000 0.00 3.42 34.53 3.58
455 456 1.702957 AGCACCTAAGGTTTGGTAGCA 59.297 47.619 14.77 0.00 34.53 3.49
457 458 2.552373 GCACCTAAGGTTTGGTAGCACT 60.552 50.000 0.00 0.00 34.53 4.40
458 459 3.307199 GCACCTAAGGTTTGGTAGCACTA 60.307 47.826 0.00 0.00 34.53 2.74
459 460 4.504858 CACCTAAGGTTTGGTAGCACTAG 58.495 47.826 0.00 0.00 34.53 2.57
460 461 4.222145 CACCTAAGGTTTGGTAGCACTAGA 59.778 45.833 0.00 0.00 34.53 2.43
461 462 5.030820 ACCTAAGGTTTGGTAGCACTAGAT 58.969 41.667 0.00 0.00 34.53 1.98
462 463 6.097839 CACCTAAGGTTTGGTAGCACTAGATA 59.902 42.308 0.00 0.00 34.53 1.98
463 464 6.844917 ACCTAAGGTTTGGTAGCACTAGATAT 59.155 38.462 0.00 0.00 34.53 1.63
464 465 7.347485 ACCTAAGGTTTGGTAGCACTAGATATT 59.653 37.037 0.00 0.00 34.53 1.28
465 466 8.211629 CCTAAGGTTTGGTAGCACTAGATATTT 58.788 37.037 0.00 0.00 0.00 1.40
466 467 9.614792 CTAAGGTTTGGTAGCACTAGATATTTT 57.385 33.333 0.00 0.00 0.00 1.82
467 468 8.507524 AAGGTTTGGTAGCACTAGATATTTTC 57.492 34.615 0.00 0.00 0.00 2.29
468 469 7.054751 AGGTTTGGTAGCACTAGATATTTTCC 58.945 38.462 0.00 0.00 0.00 3.13
469 470 6.262496 GGTTTGGTAGCACTAGATATTTTCCC 59.738 42.308 0.00 0.00 0.00 3.97
470 471 5.209818 TGGTAGCACTAGATATTTTCCCG 57.790 43.478 0.00 0.00 0.00 5.14
471 472 4.652421 TGGTAGCACTAGATATTTTCCCGT 59.348 41.667 0.00 0.00 0.00 5.28
472 473 4.989168 GGTAGCACTAGATATTTTCCCGTG 59.011 45.833 0.00 0.00 0.00 4.94
473 474 4.755266 AGCACTAGATATTTTCCCGTGT 57.245 40.909 0.00 0.00 31.26 4.49
474 475 4.694339 AGCACTAGATATTTTCCCGTGTC 58.306 43.478 0.00 0.00 31.26 3.67
475 476 3.489785 GCACTAGATATTTTCCCGTGTCG 59.510 47.826 0.00 0.00 31.26 4.35
476 477 4.735578 GCACTAGATATTTTCCCGTGTCGA 60.736 45.833 0.00 0.00 31.26 4.20
477 478 4.976731 CACTAGATATTTTCCCGTGTCGAG 59.023 45.833 0.00 0.00 0.00 4.04
478 479 4.643784 ACTAGATATTTTCCCGTGTCGAGT 59.356 41.667 0.00 0.00 0.00 4.18
479 480 4.043037 AGATATTTTCCCGTGTCGAGTC 57.957 45.455 0.00 0.00 0.00 3.36
480 481 2.267188 TATTTTCCCGTGTCGAGTCG 57.733 50.000 6.09 6.09 0.00 4.18
481 482 0.316204 ATTTTCCCGTGTCGAGTCGT 59.684 50.000 13.12 0.00 0.00 4.34
482 483 0.318107 TTTTCCCGTGTCGAGTCGTC 60.318 55.000 13.12 7.71 0.00 4.20
483 484 2.133742 TTTCCCGTGTCGAGTCGTCC 62.134 60.000 13.12 5.26 0.00 4.79
484 485 3.359523 CCCGTGTCGAGTCGTCCA 61.360 66.667 13.12 7.95 0.00 4.02
485 486 2.697761 CCCGTGTCGAGTCGTCCAT 61.698 63.158 13.12 0.00 0.00 3.41
486 487 1.226323 CCGTGTCGAGTCGTCCATC 60.226 63.158 13.12 5.30 0.00 3.51
487 488 1.645704 CCGTGTCGAGTCGTCCATCT 61.646 60.000 13.12 0.00 0.00 2.90
488 489 0.247735 CGTGTCGAGTCGTCCATCTC 60.248 60.000 13.12 0.00 0.00 2.75
489 490 1.088306 GTGTCGAGTCGTCCATCTCT 58.912 55.000 13.12 0.00 0.00 3.10
490 491 2.277969 GTGTCGAGTCGTCCATCTCTA 58.722 52.381 13.12 0.00 0.00 2.43
491 492 2.873472 GTGTCGAGTCGTCCATCTCTAT 59.127 50.000 13.12 0.00 0.00 1.98
492 493 3.059461 GTGTCGAGTCGTCCATCTCTATC 60.059 52.174 13.12 0.00 0.00 2.08
493 494 3.181464 TGTCGAGTCGTCCATCTCTATCT 60.181 47.826 13.12 0.00 0.00 1.98
494 495 3.430895 GTCGAGTCGTCCATCTCTATCTC 59.569 52.174 13.12 0.00 0.00 2.75
495 496 3.322541 TCGAGTCGTCCATCTCTATCTCT 59.677 47.826 13.12 0.00 0.00 3.10
496 497 4.523558 TCGAGTCGTCCATCTCTATCTCTA 59.476 45.833 13.12 0.00 0.00 2.43
497 498 4.862574 CGAGTCGTCCATCTCTATCTCTAG 59.137 50.000 3.82 0.00 0.00 2.43
498 499 5.336134 CGAGTCGTCCATCTCTATCTCTAGA 60.336 48.000 3.82 0.00 32.96 2.43
499 500 5.790593 AGTCGTCCATCTCTATCTCTAGAC 58.209 45.833 0.00 0.00 30.70 2.59
500 501 5.305902 AGTCGTCCATCTCTATCTCTAGACA 59.694 44.000 0.00 0.00 30.70 3.41
501 502 5.407387 GTCGTCCATCTCTATCTCTAGACAC 59.593 48.000 0.00 0.00 30.70 3.67
502 503 5.305902 TCGTCCATCTCTATCTCTAGACACT 59.694 44.000 0.00 0.00 30.70 3.55
503 504 6.494146 TCGTCCATCTCTATCTCTAGACACTA 59.506 42.308 0.00 0.00 30.70 2.74
504 505 7.179516 TCGTCCATCTCTATCTCTAGACACTAT 59.820 40.741 0.00 0.00 30.70 2.12
505 506 7.277760 CGTCCATCTCTATCTCTAGACACTATG 59.722 44.444 0.00 0.00 30.70 2.23
506 507 8.318412 GTCCATCTCTATCTCTAGACACTATGA 58.682 40.741 0.00 0.00 30.70 2.15
507 508 9.056799 TCCATCTCTATCTCTAGACACTATGAT 57.943 37.037 0.00 0.00 30.70 2.45
513 514 9.898152 TCTATCTCTAGACACTATGATATGTGG 57.102 37.037 0.00 0.00 38.39 4.17
514 515 9.679661 CTATCTCTAGACACTATGATATGTGGT 57.320 37.037 0.00 0.00 38.39 4.16
516 517 8.850007 TCTCTAGACACTATGATATGTGGTAC 57.150 38.462 0.00 0.00 38.39 3.34
517 518 8.661345 TCTCTAGACACTATGATATGTGGTACT 58.339 37.037 0.00 0.00 38.39 2.73
605 610 9.495572 TTGTTTGTATTGGATGCATATATACGA 57.504 29.630 0.00 5.30 0.00 3.43
606 611 9.150348 TGTTTGTATTGGATGCATATATACGAG 57.850 33.333 0.00 0.00 0.00 4.18
608 613 8.702163 TTGTATTGGATGCATATATACGAGTG 57.298 34.615 0.00 0.00 0.00 3.51
650 701 8.767478 AATTTGCAAAAGAAATCAGTAGATGG 57.233 30.769 17.19 0.00 33.90 3.51
660 711 4.989875 ATCAGTAGATGGAAATCCCCAG 57.010 45.455 0.00 0.00 39.97 4.45
704 756 2.979676 CCTGAAAGCAGCACGGCA 60.980 61.111 0.00 0.00 40.91 5.69
793 845 4.400251 CCCCACCCCCGTCTCTCT 62.400 72.222 0.00 0.00 0.00 3.10
795 847 2.760385 CCACCCCCGTCTCTCTCC 60.760 72.222 0.00 0.00 0.00 3.71
796 848 2.037367 CACCCCCGTCTCTCTCCA 59.963 66.667 0.00 0.00 0.00 3.86
797 849 2.037527 ACCCCCGTCTCTCTCCAC 59.962 66.667 0.00 0.00 0.00 4.02
798 850 2.760385 CCCCCGTCTCTCTCCACC 60.760 72.222 0.00 0.00 0.00 4.61
799 851 2.037367 CCCCGTCTCTCTCCACCA 59.963 66.667 0.00 0.00 0.00 4.17
800 852 2.352032 CCCCGTCTCTCTCCACCAC 61.352 68.421 0.00 0.00 0.00 4.16
846 913 1.557269 CCCTCCCCAGTCCAGTCAAG 61.557 65.000 0.00 0.00 0.00 3.02
903 978 3.864789 AAACTCTCTTTCCCTTGCTCA 57.135 42.857 0.00 0.00 0.00 4.26
904 979 2.849294 ACTCTCTTTCCCTTGCTCAC 57.151 50.000 0.00 0.00 0.00 3.51
905 980 2.050144 ACTCTCTTTCCCTTGCTCACA 58.950 47.619 0.00 0.00 0.00 3.58
906 981 2.641815 ACTCTCTTTCCCTTGCTCACAT 59.358 45.455 0.00 0.00 0.00 3.21
907 982 3.840666 ACTCTCTTTCCCTTGCTCACATA 59.159 43.478 0.00 0.00 0.00 2.29
908 983 4.187694 CTCTCTTTCCCTTGCTCACATAC 58.812 47.826 0.00 0.00 0.00 2.39
909 984 3.840666 TCTCTTTCCCTTGCTCACATACT 59.159 43.478 0.00 0.00 0.00 2.12
910 985 4.081420 TCTCTTTCCCTTGCTCACATACTC 60.081 45.833 0.00 0.00 0.00 2.59
958 1034 1.071385 CAGCAGTTCACTCCACTCCTT 59.929 52.381 0.00 0.00 0.00 3.36
987 1063 4.021925 ACCAGGACGAAGCTGGCC 62.022 66.667 0.00 0.00 40.70 5.36
1065 1141 3.827898 CTCCTGCTCCCCGTCGTC 61.828 72.222 0.00 0.00 0.00 4.20
1260 1342 3.519930 GCGTCTCCGTCTCCCTCC 61.520 72.222 0.00 0.00 36.15 4.30
1371 1468 3.726517 CGTGAGCGCTGGTTTGGG 61.727 66.667 18.48 0.00 0.00 4.12
1372 1469 4.043200 GTGAGCGCTGGTTTGGGC 62.043 66.667 18.48 0.00 44.71 5.36
1542 1670 1.419107 GCAGTTAGTTAGCCGGCGAC 61.419 60.000 23.20 23.24 0.00 5.19
1648 1783 1.635663 GCAAAGCGTGCGTGATAGGT 61.636 55.000 0.00 0.00 45.10 3.08
1649 1784 0.370273 CAAAGCGTGCGTGATAGGTC 59.630 55.000 0.00 0.00 0.00 3.85
1653 1788 1.226974 CGTGCGTGATAGGTCTGGG 60.227 63.158 0.00 0.00 0.00 4.45
1655 1790 0.460284 GTGCGTGATAGGTCTGGGTG 60.460 60.000 0.00 0.00 0.00 4.61
1767 1937 0.454600 TTTCTACGGAGCAGGCGTAG 59.545 55.000 0.00 0.00 37.51 3.51
1848 2018 5.353400 GGCCGACTTTAATTTTACAGCTAGT 59.647 40.000 0.00 0.00 0.00 2.57
1849 2019 6.536224 GGCCGACTTTAATTTTACAGCTAGTA 59.464 38.462 0.00 0.00 0.00 1.82
1850 2020 7.254353 GGCCGACTTTAATTTTACAGCTAGTAG 60.254 40.741 0.00 0.00 33.43 2.57
1851 2021 7.619328 CCGACTTTAATTTTACAGCTAGTAGC 58.381 38.462 14.62 14.62 42.84 3.58
1853 2023 7.277098 CGACTTTAATTTTACAGCTAGTAGCCA 59.723 37.037 18.65 1.56 43.77 4.75
1912 2096 2.291465 GTGCTGCATGTCAACTTTGAGA 59.709 45.455 5.27 0.00 37.98 3.27
1913 2097 2.551032 TGCTGCATGTCAACTTTGAGAG 59.449 45.455 0.00 0.00 37.98 3.20
1914 2098 2.095364 GCTGCATGTCAACTTTGAGAGG 60.095 50.000 0.00 0.00 37.98 3.69
1916 2100 1.135859 GCATGTCAACTTTGAGAGGCG 60.136 52.381 9.58 0.00 45.64 5.52
1917 2101 2.146342 CATGTCAACTTTGAGAGGCGT 58.854 47.619 0.00 0.00 37.98 5.68
1918 2102 1.865865 TGTCAACTTTGAGAGGCGTC 58.134 50.000 0.00 0.00 37.98 5.19
1919 2103 1.138069 TGTCAACTTTGAGAGGCGTCA 59.862 47.619 9.41 0.00 37.98 4.35
1920 2104 1.527311 GTCAACTTTGAGAGGCGTCAC 59.473 52.381 9.41 2.75 37.98 3.67
1921 2105 0.868406 CAACTTTGAGAGGCGTCACC 59.132 55.000 9.41 0.64 39.61 4.02
1939 2132 0.512952 CCGCCGACAGTCTTCTTTTG 59.487 55.000 0.00 0.00 0.00 2.44
2005 2198 8.844244 GTCTTCTGGCAAAACATGAGAATATAT 58.156 33.333 0.00 0.00 0.00 0.86
2035 2445 3.120511 GGAACTGCGTCAAGATTGAACTC 60.121 47.826 0.00 0.00 39.21 3.01
2044 4049 6.146347 GCGTCAAGATTGAACTCTACTCTTTT 59.854 38.462 0.00 0.00 39.21 2.27
2045 4050 7.307455 GCGTCAAGATTGAACTCTACTCTTTTT 60.307 37.037 0.00 0.00 39.21 1.94
2057 4062 9.852091 AACTCTACTCTTTTTACATACTTACGG 57.148 33.333 0.00 0.00 0.00 4.02
2085 4090 5.047802 AGGAATTGTTGTGAACTTGCATAGG 60.048 40.000 0.00 0.00 0.00 2.57
2088 4093 1.535462 GTTGTGAACTTGCATAGGCGT 59.465 47.619 0.00 0.00 45.35 5.68
2089 4094 2.739913 GTTGTGAACTTGCATAGGCGTA 59.260 45.455 0.00 0.00 45.35 4.42
2090 4095 2.343101 TGTGAACTTGCATAGGCGTAC 58.657 47.619 0.00 0.00 45.35 3.67
2091 4096 2.028476 TGTGAACTTGCATAGGCGTACT 60.028 45.455 0.00 0.00 45.35 2.73
2092 4097 2.348666 GTGAACTTGCATAGGCGTACTG 59.651 50.000 0.00 0.00 45.35 2.74
2093 4098 2.232696 TGAACTTGCATAGGCGTACTGA 59.767 45.455 0.00 0.00 45.35 3.41
2094 4099 3.118775 TGAACTTGCATAGGCGTACTGAT 60.119 43.478 0.00 0.00 45.35 2.90
2095 4100 2.826428 ACTTGCATAGGCGTACTGATG 58.174 47.619 0.00 0.00 45.35 3.07
2096 4101 2.430694 ACTTGCATAGGCGTACTGATGA 59.569 45.455 0.00 0.00 45.35 2.92
2097 4102 3.070159 ACTTGCATAGGCGTACTGATGAT 59.930 43.478 0.00 0.00 45.35 2.45
2098 4103 4.280929 ACTTGCATAGGCGTACTGATGATA 59.719 41.667 0.00 0.00 45.35 2.15
2099 4104 4.440839 TGCATAGGCGTACTGATGATAG 57.559 45.455 0.00 0.00 45.35 2.08
2100 4105 4.079253 TGCATAGGCGTACTGATGATAGA 58.921 43.478 0.00 0.00 45.35 1.98
2101 4106 4.522789 TGCATAGGCGTACTGATGATAGAA 59.477 41.667 0.00 0.00 45.35 2.10
2102 4107 5.185828 TGCATAGGCGTACTGATGATAGAAT 59.814 40.000 0.00 0.00 45.35 2.40
2159 4312 3.129287 CCACCTTGATTTTTCGAGGGATG 59.871 47.826 12.74 4.24 43.94 3.51
2160 4313 3.129287 CACCTTGATTTTTCGAGGGATGG 59.871 47.826 12.74 0.00 43.94 3.51
2169 4328 1.065928 CGAGGGATGGACGTGCTAC 59.934 63.158 8.99 2.01 0.00 3.58
2175 5495 2.925162 GATGGACGTGCTACCAGCCC 62.925 65.000 8.99 0.00 41.51 5.19
2202 5528 4.742201 CGCGTGGTGGAGGTGGAG 62.742 72.222 0.00 0.00 0.00 3.86
2204 5530 3.314331 CGTGGTGGAGGTGGAGCT 61.314 66.667 0.00 0.00 0.00 4.09
2205 5531 1.982395 CGTGGTGGAGGTGGAGCTA 60.982 63.158 0.00 0.00 0.00 3.32
2206 5532 1.901085 GTGGTGGAGGTGGAGCTAG 59.099 63.158 0.00 0.00 0.00 3.42
2227 5553 0.539051 AAGCATCTTCTCCACTCCGG 59.461 55.000 0.00 0.00 0.00 5.14
2253 5579 4.282881 CATGGATGGAAAGGGGGC 57.717 61.111 0.00 0.00 0.00 5.80
2366 5709 1.079197 TGCTGGCCGGATATATGCG 60.079 57.895 18.31 18.65 41.50 4.73
2402 5750 2.988010 TGGGACACATGCAGATAGAC 57.012 50.000 0.00 0.00 0.00 2.59
2403 5751 1.136891 TGGGACACATGCAGATAGACG 59.863 52.381 0.00 0.00 0.00 4.18
2404 5752 1.212616 GGACACATGCAGATAGACGC 58.787 55.000 0.00 0.00 0.00 5.19
2405 5753 0.848942 GACACATGCAGATAGACGCG 59.151 55.000 3.53 3.53 0.00 6.01
2406 5754 1.148157 ACACATGCAGATAGACGCGC 61.148 55.000 5.73 0.00 0.00 6.86
2426 5774 2.410469 GGATGATGGCGCAACTGC 59.590 61.111 10.83 0.00 37.78 4.40
2454 5802 3.936585 GTGCAAAACCACGACATGT 57.063 47.368 0.00 0.00 0.00 3.21
2494 5842 6.578023 TGGTTGGTTTCTCTTGTATTTTTGG 58.422 36.000 0.00 0.00 0.00 3.28
2652 6001 8.960075 AGTCAAATTAACGGTTAAAATTGAACG 58.040 29.630 28.02 13.68 37.07 3.95
2693 6043 0.886563 AAGTTGGTCGACGGAGGTAG 59.113 55.000 9.92 0.00 0.00 3.18
2710 6060 3.316253 GTAGTACTTCTACAGGTCGCG 57.684 52.381 0.00 0.00 45.88 5.87
2711 6061 1.818642 AGTACTTCTACAGGTCGCGT 58.181 50.000 5.77 0.00 0.00 6.01
2714 6064 1.779569 ACTTCTACAGGTCGCGTTTG 58.220 50.000 5.77 5.84 0.00 2.93
2716 6066 0.390124 TTCTACAGGTCGCGTTTGGT 59.610 50.000 5.77 3.66 0.00 3.67
2717 6067 0.038892 TCTACAGGTCGCGTTTGGTC 60.039 55.000 5.77 0.00 0.00 4.02
2718 6068 1.342082 CTACAGGTCGCGTTTGGTCG 61.342 60.000 5.77 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 47 3.762674 GAAGACACCCGGATCTTCC 57.237 57.895 22.70 11.44 43.35 3.46
54 55 1.141881 CCATCGAGGAAGACACCCG 59.858 63.158 0.00 0.00 41.22 5.28
83 84 3.274288 GGCCCTGAATCTAAGACTGTTG 58.726 50.000 0.00 0.00 0.00 3.33
130 131 9.038803 GGTCTAACCCACTTTAGAAATAATACG 57.961 37.037 0.00 0.00 39.31 3.06
258 259 1.300931 CCCAGATGCCCGTATCACG 60.301 63.158 0.00 0.00 42.11 4.35
259 260 1.598130 GCCCAGATGCCCGTATCAC 60.598 63.158 0.00 0.00 0.00 3.06
276 277 2.293677 TCCGATCTAAGAATCTGACGGC 59.706 50.000 0.00 0.00 39.13 5.68
296 297 4.766970 CATCTCCCGGATGCTGTC 57.233 61.111 0.73 0.00 44.21 3.51
320 321 0.816825 ATTGCGCATAGGTCCAGCAG 60.817 55.000 12.75 0.00 39.11 4.24
354 355 2.195922 CAACACTTGCAACAAAGCCTC 58.804 47.619 0.00 0.00 0.00 4.70
376 377 4.352600 TCGGACGACTCTCAATTACTTC 57.647 45.455 0.00 0.00 0.00 3.01
383 384 2.010497 CTCAGATCGGACGACTCTCAA 58.990 52.381 0.00 0.00 0.00 3.02
390 391 0.945099 CGGATTCTCAGATCGGACGA 59.055 55.000 0.00 0.00 0.00 4.20
398 399 0.323087 TGGACCGTCGGATTCTCAGA 60.323 55.000 20.51 0.00 0.00 3.27
401 402 0.815734 TTCTGGACCGTCGGATTCTC 59.184 55.000 20.51 4.48 0.00 2.87
414 415 0.758734 CCATGATACGGGCTTCTGGA 59.241 55.000 0.00 0.00 0.00 3.86
425 426 4.957684 ACCTTAGGTGCTACCATGATAC 57.042 45.455 1.74 0.00 41.95 2.24
437 438 3.418684 AGTGCTACCAAACCTTAGGTG 57.581 47.619 3.99 0.00 38.87 4.00
438 439 4.422984 TCTAGTGCTACCAAACCTTAGGT 58.577 43.478 0.00 0.00 41.89 3.08
439 440 5.615925 ATCTAGTGCTACCAAACCTTAGG 57.384 43.478 0.00 0.00 0.00 2.69
440 441 9.614792 AAAATATCTAGTGCTACCAAACCTTAG 57.385 33.333 0.00 0.00 0.00 2.18
441 442 9.609346 GAAAATATCTAGTGCTACCAAACCTTA 57.391 33.333 0.00 0.00 0.00 2.69
442 443 7.556635 GGAAAATATCTAGTGCTACCAAACCTT 59.443 37.037 0.00 0.00 0.00 3.50
443 444 7.054751 GGAAAATATCTAGTGCTACCAAACCT 58.945 38.462 0.00 0.00 0.00 3.50
444 445 6.262496 GGGAAAATATCTAGTGCTACCAAACC 59.738 42.308 0.00 0.00 0.00 3.27
445 446 6.018180 CGGGAAAATATCTAGTGCTACCAAAC 60.018 42.308 0.00 0.00 0.00 2.93
446 447 6.053005 CGGGAAAATATCTAGTGCTACCAAA 58.947 40.000 0.00 0.00 0.00 3.28
447 448 5.129815 ACGGGAAAATATCTAGTGCTACCAA 59.870 40.000 0.00 0.00 0.00 3.67
448 449 4.652421 ACGGGAAAATATCTAGTGCTACCA 59.348 41.667 0.00 0.00 0.00 3.25
449 450 4.989168 CACGGGAAAATATCTAGTGCTACC 59.011 45.833 0.00 0.00 32.13 3.18
450 451 5.598769 ACACGGGAAAATATCTAGTGCTAC 58.401 41.667 0.00 0.00 38.24 3.58
452 453 4.694339 GACACGGGAAAATATCTAGTGCT 58.306 43.478 0.00 0.00 38.24 4.40
453 454 3.489785 CGACACGGGAAAATATCTAGTGC 59.510 47.826 0.00 0.00 38.24 4.40
454 455 4.928601 TCGACACGGGAAAATATCTAGTG 58.071 43.478 0.00 0.00 39.52 2.74
455 456 4.643784 ACTCGACACGGGAAAATATCTAGT 59.356 41.667 0.00 0.00 0.00 2.57
457 458 4.260907 CGACTCGACACGGGAAAATATCTA 60.261 45.833 0.00 0.00 0.00 1.98
458 459 3.488721 CGACTCGACACGGGAAAATATCT 60.489 47.826 0.00 0.00 0.00 1.98
459 460 2.787680 CGACTCGACACGGGAAAATATC 59.212 50.000 0.00 0.00 0.00 1.63
460 461 2.165030 ACGACTCGACACGGGAAAATAT 59.835 45.455 5.20 0.00 0.00 1.28
461 462 1.541147 ACGACTCGACACGGGAAAATA 59.459 47.619 5.20 0.00 0.00 1.40
462 463 0.316204 ACGACTCGACACGGGAAAAT 59.684 50.000 5.20 0.00 0.00 1.82
463 464 0.318107 GACGACTCGACACGGGAAAA 60.318 55.000 5.20 0.00 0.00 2.29
464 465 1.283793 GACGACTCGACACGGGAAA 59.716 57.895 5.20 0.00 0.00 3.13
465 466 2.620112 GGACGACTCGACACGGGAA 61.620 63.158 5.20 0.00 0.00 3.97
466 467 3.052082 GGACGACTCGACACGGGA 61.052 66.667 5.20 0.00 0.00 5.14
467 468 2.594119 GATGGACGACTCGACACGGG 62.594 65.000 5.20 0.00 0.00 5.28
468 469 1.226323 GATGGACGACTCGACACGG 60.226 63.158 5.20 0.00 0.00 4.94
469 470 0.247735 GAGATGGACGACTCGACACG 60.248 60.000 5.20 5.19 0.00 4.49
470 471 1.088306 AGAGATGGACGACTCGACAC 58.912 55.000 5.20 0.00 38.08 3.67
471 472 2.685850 TAGAGATGGACGACTCGACA 57.314 50.000 5.20 4.32 38.08 4.35
472 473 3.395639 AGATAGAGATGGACGACTCGAC 58.604 50.000 5.20 0.00 38.08 4.20
473 474 3.322541 AGAGATAGAGATGGACGACTCGA 59.677 47.826 5.20 0.00 38.08 4.04
474 475 3.659786 AGAGATAGAGATGGACGACTCG 58.340 50.000 0.00 0.00 38.08 4.18
475 476 5.867716 GTCTAGAGATAGAGATGGACGACTC 59.132 48.000 0.00 0.00 0.00 3.36
476 477 5.305902 TGTCTAGAGATAGAGATGGACGACT 59.694 44.000 0.00 0.00 0.00 4.18
477 478 5.407387 GTGTCTAGAGATAGAGATGGACGAC 59.593 48.000 0.00 0.00 0.00 4.34
478 479 5.305902 AGTGTCTAGAGATAGAGATGGACGA 59.694 44.000 0.00 0.00 0.00 4.20
479 480 5.547465 AGTGTCTAGAGATAGAGATGGACG 58.453 45.833 0.00 0.00 0.00 4.79
480 481 8.318412 TCATAGTGTCTAGAGATAGAGATGGAC 58.682 40.741 0.00 0.00 0.00 4.02
481 482 8.442660 TCATAGTGTCTAGAGATAGAGATGGA 57.557 38.462 0.00 0.00 0.00 3.41
487 488 9.898152 CCACATATCATAGTGTCTAGAGATAGA 57.102 37.037 0.00 0.00 33.99 1.98
488 489 9.679661 ACCACATATCATAGTGTCTAGAGATAG 57.320 37.037 0.00 0.00 33.99 2.08
490 491 9.456147 GTACCACATATCATAGTGTCTAGAGAT 57.544 37.037 0.00 0.00 33.99 2.75
491 492 8.661345 AGTACCACATATCATAGTGTCTAGAGA 58.339 37.037 0.00 0.00 33.99 3.10
492 493 8.856153 AGTACCACATATCATAGTGTCTAGAG 57.144 38.462 0.00 0.00 33.99 2.43
493 494 8.437575 TGAGTACCACATATCATAGTGTCTAGA 58.562 37.037 0.00 0.00 33.99 2.43
494 495 8.508062 GTGAGTACCACATATCATAGTGTCTAG 58.492 40.741 8.95 0.00 45.03 2.43
495 496 8.392372 GTGAGTACCACATATCATAGTGTCTA 57.608 38.462 8.95 0.00 45.03 2.59
496 497 7.278461 GTGAGTACCACATATCATAGTGTCT 57.722 40.000 8.95 0.00 45.03 3.41
510 511 3.825014 TCTACAGAGGTTGTGAGTACCAC 59.175 47.826 7.34 7.34 45.88 4.16
511 512 3.825014 GTCTACAGAGGTTGTGAGTACCA 59.175 47.826 0.00 0.00 41.10 3.25
512 513 3.193056 GGTCTACAGAGGTTGTGAGTACC 59.807 52.174 0.00 0.00 41.10 3.34
513 514 3.193056 GGGTCTACAGAGGTTGTGAGTAC 59.807 52.174 0.00 0.00 41.10 2.73
514 515 3.075582 AGGGTCTACAGAGGTTGTGAGTA 59.924 47.826 0.00 0.00 41.10 2.59
515 516 2.158295 AGGGTCTACAGAGGTTGTGAGT 60.158 50.000 0.00 0.00 41.10 3.41
516 517 2.530701 AGGGTCTACAGAGGTTGTGAG 58.469 52.381 0.00 0.00 41.10 3.51
517 518 2.696526 AGGGTCTACAGAGGTTGTGA 57.303 50.000 0.00 0.00 41.10 3.58
526 527 9.614792 AAATAAAGTAAGCATAAGGGTCTACAG 57.385 33.333 0.00 0.00 0.00 2.74
527 528 9.969001 AAAATAAAGTAAGCATAAGGGTCTACA 57.031 29.630 0.00 0.00 0.00 2.74
605 610 7.761249 GCAAATTCTTTTTATGGAGTATGCACT 59.239 33.333 0.00 0.00 41.42 4.40
606 611 7.545265 TGCAAATTCTTTTTATGGAGTATGCAC 59.455 33.333 0.00 0.00 41.42 4.57
608 613 8.477984 TTGCAAATTCTTTTTATGGAGTATGC 57.522 30.769 0.00 0.00 0.00 3.14
624 675 8.866956 CCATCTACTGATTTCTTTTGCAAATTC 58.133 33.333 13.65 6.23 0.00 2.17
626 677 8.125978 TCCATCTACTGATTTCTTTTGCAAAT 57.874 30.769 13.65 0.00 0.00 2.32
627 678 7.523293 TCCATCTACTGATTTCTTTTGCAAA 57.477 32.000 8.05 8.05 0.00 3.68
629 680 7.523293 TTTCCATCTACTGATTTCTTTTGCA 57.477 32.000 0.00 0.00 0.00 4.08
640 691 4.007581 TCTGGGGATTTCCATCTACTGA 57.992 45.455 0.00 0.00 36.05 3.41
648 699 0.032217 GGGCATTCTGGGGATTTCCA 60.032 55.000 0.00 0.00 37.91 3.53
650 701 0.262876 AGGGGCATTCTGGGGATTTC 59.737 55.000 0.00 0.00 0.00 2.17
704 756 1.148273 TGGAGTCACGGCTGCTTTT 59.852 52.632 0.00 0.00 0.00 2.27
713 765 0.600255 GTTGGTCAGGTGGAGTCACG 60.600 60.000 0.00 0.00 44.50 4.35
787 839 0.104672 TTTGGGGTGGTGGAGAGAGA 60.105 55.000 0.00 0.00 0.00 3.10
791 843 2.840753 GGCTTTGGGGTGGTGGAGA 61.841 63.158 0.00 0.00 0.00 3.71
792 844 2.283173 GGCTTTGGGGTGGTGGAG 60.283 66.667 0.00 0.00 0.00 3.86
793 845 2.243774 TTTGGCTTTGGGGTGGTGGA 62.244 55.000 0.00 0.00 0.00 4.02
795 847 1.747774 CTTTGGCTTTGGGGTGGTG 59.252 57.895 0.00 0.00 0.00 4.17
796 848 2.140138 GCTTTGGCTTTGGGGTGGT 61.140 57.895 0.00 0.00 35.22 4.16
797 849 2.743060 GCTTTGGCTTTGGGGTGG 59.257 61.111 0.00 0.00 35.22 4.61
903 978 3.031736 ACTAGACGGCAATGGAGTATGT 58.968 45.455 0.00 0.00 0.00 2.29
904 979 3.735237 ACTAGACGGCAATGGAGTATG 57.265 47.619 0.00 0.00 0.00 2.39
905 980 3.573110 GGTACTAGACGGCAATGGAGTAT 59.427 47.826 0.00 0.00 0.00 2.12
906 981 2.954318 GGTACTAGACGGCAATGGAGTA 59.046 50.000 0.00 0.00 0.00 2.59
907 982 1.755380 GGTACTAGACGGCAATGGAGT 59.245 52.381 0.00 0.00 0.00 3.85
908 983 1.754803 TGGTACTAGACGGCAATGGAG 59.245 52.381 0.00 0.00 0.00 3.86
909 984 1.754803 CTGGTACTAGACGGCAATGGA 59.245 52.381 0.00 0.00 0.00 3.41
910 985 1.806623 GCTGGTACTAGACGGCAATGG 60.807 57.143 10.90 0.00 0.00 3.16
987 1063 2.009108 CCTCATGGATCAACGCACG 58.991 57.895 0.00 0.00 34.57 5.34
991 1067 2.537560 GGCGCCTCATGGATCAACG 61.538 63.158 22.15 0.00 34.57 4.10
993 1069 1.146930 GAGGCGCCTCATGGATCAA 59.853 57.895 44.10 0.00 42.31 2.57
1285 1367 2.581354 CTCCAGCTGAACCTCCCG 59.419 66.667 17.39 0.00 0.00 5.14
1640 1775 0.460311 CGACCACCCAGACCTATCAC 59.540 60.000 0.00 0.00 0.00 3.06
1648 1783 1.946984 AGAATTACCGACCACCCAGA 58.053 50.000 0.00 0.00 0.00 3.86
1649 1784 2.781681 AAGAATTACCGACCACCCAG 57.218 50.000 0.00 0.00 0.00 4.45
1653 1788 2.026542 AGGGGAAAGAATTACCGACCAC 60.027 50.000 0.00 0.00 40.91 4.16
1655 1790 2.421107 GGAGGGGAAAGAATTACCGACC 60.421 54.545 0.00 0.00 40.91 4.79
1690 1832 3.607741 CATGCATATCCATCCACTCCTC 58.392 50.000 0.00 0.00 0.00 3.71
1786 1956 2.182614 AATTGCTCGCCGTTCCGTTG 62.183 55.000 0.00 0.00 0.00 4.10
1801 1971 2.654863 AGAATTGGAGCCCCGTAATTG 58.345 47.619 0.00 0.00 34.29 2.32
1827 1997 7.277098 TGGCTACTAGCTGTAAAATTAAAGTCG 59.723 37.037 7.99 0.00 41.99 4.18
1850 2020 3.605749 TAACTCCACAGCGGCTGGC 62.606 63.158 31.38 0.00 44.05 4.85
1851 2021 1.741770 GTAACTCCACAGCGGCTGG 60.742 63.158 31.38 20.23 35.51 4.85
1853 2023 1.592223 GAGTAACTCCACAGCGGCT 59.408 57.895 0.00 0.00 33.14 5.52
1916 2100 1.733399 GAAGACTGTCGGCGGTGAC 60.733 63.158 6.03 0.00 39.37 3.67
1917 2101 1.461091 AAGAAGACTGTCGGCGGTGA 61.461 55.000 6.03 0.00 33.67 4.02
1918 2102 0.600255 AAAGAAGACTGTCGGCGGTG 60.600 55.000 6.03 0.00 33.67 4.94
1919 2103 0.106149 AAAAGAAGACTGTCGGCGGT 59.894 50.000 0.00 0.00 36.82 5.68
1920 2104 0.512952 CAAAAGAAGACTGTCGGCGG 59.487 55.000 7.21 0.00 0.00 6.13
1921 2105 0.110644 GCAAAAGAAGACTGTCGGCG 60.111 55.000 0.00 0.00 0.00 6.46
1939 2132 1.190763 CAAACGCATTGCACAAAGAGC 59.809 47.619 9.69 0.00 31.00 4.09
2018 2428 4.218635 AGAGTAGAGTTCAATCTTGACGCA 59.781 41.667 0.00 0.00 36.83 5.24
2020 2430 7.644986 AAAAGAGTAGAGTTCAATCTTGACG 57.355 36.000 0.00 0.00 36.83 4.35
2035 2445 7.263496 AGCCCGTAAGTATGTAAAAAGAGTAG 58.737 38.462 0.00 0.00 0.00 2.57
2044 4049 6.098695 ACAATTCCTAGCCCGTAAGTATGTAA 59.901 38.462 0.00 0.00 0.00 2.41
2045 4050 5.599656 ACAATTCCTAGCCCGTAAGTATGTA 59.400 40.000 0.00 0.00 0.00 2.29
2047 4052 4.957296 ACAATTCCTAGCCCGTAAGTATG 58.043 43.478 0.00 0.00 0.00 2.39
2051 4056 3.374058 CACAACAATTCCTAGCCCGTAAG 59.626 47.826 0.00 0.00 0.00 2.34
2052 4057 3.008157 TCACAACAATTCCTAGCCCGTAA 59.992 43.478 0.00 0.00 0.00 3.18
2053 4058 2.568062 TCACAACAATTCCTAGCCCGTA 59.432 45.455 0.00 0.00 0.00 4.02
2054 4059 1.349688 TCACAACAATTCCTAGCCCGT 59.650 47.619 0.00 0.00 0.00 5.28
2057 4062 4.798574 CAAGTTCACAACAATTCCTAGCC 58.201 43.478 0.00 0.00 0.00 3.93
2085 4090 5.124776 AGCCTCTATTCTATCATCAGTACGC 59.875 44.000 0.00 0.00 0.00 4.42
2088 4093 8.166726 TCTTCAGCCTCTATTCTATCATCAGTA 58.833 37.037 0.00 0.00 0.00 2.74
2089 4094 7.009550 TCTTCAGCCTCTATTCTATCATCAGT 58.990 38.462 0.00 0.00 0.00 3.41
2090 4095 7.394077 TCTCTTCAGCCTCTATTCTATCATCAG 59.606 40.741 0.00 0.00 0.00 2.90
2091 4096 7.237255 TCTCTTCAGCCTCTATTCTATCATCA 58.763 38.462 0.00 0.00 0.00 3.07
2092 4097 7.701539 TCTCTTCAGCCTCTATTCTATCATC 57.298 40.000 0.00 0.00 0.00 2.92
2093 4098 8.367156 GTTTCTCTTCAGCCTCTATTCTATCAT 58.633 37.037 0.00 0.00 0.00 2.45
2094 4099 7.343057 TGTTTCTCTTCAGCCTCTATTCTATCA 59.657 37.037 0.00 0.00 0.00 2.15
2095 4100 7.721402 TGTTTCTCTTCAGCCTCTATTCTATC 58.279 38.462 0.00 0.00 0.00 2.08
2096 4101 7.667575 TGTTTCTCTTCAGCCTCTATTCTAT 57.332 36.000 0.00 0.00 0.00 1.98
2097 4102 7.179338 ACTTGTTTCTCTTCAGCCTCTATTCTA 59.821 37.037 0.00 0.00 0.00 2.10
2098 4103 6.013812 ACTTGTTTCTCTTCAGCCTCTATTCT 60.014 38.462 0.00 0.00 0.00 2.40
2099 4104 6.091986 CACTTGTTTCTCTTCAGCCTCTATTC 59.908 42.308 0.00 0.00 0.00 1.75
2100 4105 5.936956 CACTTGTTTCTCTTCAGCCTCTATT 59.063 40.000 0.00 0.00 0.00 1.73
2101 4106 5.486526 CACTTGTTTCTCTTCAGCCTCTAT 58.513 41.667 0.00 0.00 0.00 1.98
2102 4107 4.262635 CCACTTGTTTCTCTTCAGCCTCTA 60.263 45.833 0.00 0.00 0.00 2.43
2203 5529 3.456280 GAGTGGAGAAGATGCTTGCTAG 58.544 50.000 0.00 0.00 0.00 3.42
2204 5530 2.169352 GGAGTGGAGAAGATGCTTGCTA 59.831 50.000 0.00 0.00 0.00 3.49
2205 5531 1.065564 GGAGTGGAGAAGATGCTTGCT 60.066 52.381 0.00 0.00 0.00 3.91
2206 5532 1.377536 GGAGTGGAGAAGATGCTTGC 58.622 55.000 0.00 0.00 0.00 4.01
2253 5579 2.750637 CTTCAGCCAGGCAGCCAG 60.751 66.667 15.80 5.28 0.00 4.85
2308 5651 3.060000 TCCACGACGAGACGCCAT 61.060 61.111 0.00 0.00 36.70 4.40
2348 5691 1.079197 CGCATATATCCGGCCAGCA 60.079 57.895 2.24 0.00 0.00 4.41
2426 5774 1.555477 GGTTTTGCACCGTCAAACAG 58.445 50.000 11.84 0.00 35.86 3.16
2454 5802 4.781087 ACCAACCAGTAAAGCCACTATCTA 59.219 41.667 0.00 0.00 0.00 1.98
2553 5902 0.252197 AAGTGGTTCCCGATGCTACC 59.748 55.000 0.00 0.00 0.00 3.18
2557 5906 0.672401 TCGAAAGTGGTTCCCGATGC 60.672 55.000 0.00 0.00 31.99 3.91
2641 5990 9.463902 TCCCCTTTGTATATTCGTTCAATTTTA 57.536 29.630 0.00 0.00 0.00 1.52
2652 6001 8.762481 ACTTTATTGGTCCCCTTTGTATATTC 57.238 34.615 0.00 0.00 0.00 1.75
2655 6004 6.893005 CCAACTTTATTGGTCCCCTTTGTATA 59.107 38.462 0.00 0.00 34.92 1.47
2676 6026 1.131315 GTACTACCTCCGTCGACCAAC 59.869 57.143 10.58 0.00 0.00 3.77
2677 6027 1.003580 AGTACTACCTCCGTCGACCAA 59.996 52.381 10.58 0.00 0.00 3.67
2678 6028 0.615331 AGTACTACCTCCGTCGACCA 59.385 55.000 10.58 0.00 0.00 4.02
2679 6029 1.668237 GAAGTACTACCTCCGTCGACC 59.332 57.143 10.58 0.00 0.00 4.79
2680 6030 2.626840 AGAAGTACTACCTCCGTCGAC 58.373 52.381 5.18 5.18 0.00 4.20
2681 6031 3.786635 GTAGAAGTACTACCTCCGTCGA 58.213 50.000 0.00 0.00 43.90 4.20
2693 6043 2.626088 AACGCGACCTGTAGAAGTAC 57.374 50.000 15.93 0.00 0.00 2.73


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

AutoCloner maintained by Alex Coulton.