Multiple sequence alignment - TraesCS6B01G400300

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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 TraesCS6B01G400300 chr6B 100.000 2755 0 0 1 2755 675703609 675700855 0.000000e+00 5088.0
1 TraesCS6B01G400300 chr6B 93.256 519 29 3 1 513 23041957 23042475 0.000000e+00 760.0
2 TraesCS6B01G400300 chr6B 92.471 518 33 3 1 513 17383699 17384215 0.000000e+00 736.0
3 TraesCS6B01G400300 chr6B 80.178 1014 108 42 614 1572 676035969 676036944 0.000000e+00 673.0
4 TraesCS6B01G400300 chr6B 78.338 1011 117 40 695 1634 676046954 676047933 6.660000e-156 560.0
5 TraesCS6B01G400300 chr6B 86.405 331 27 6 1771 2095 675672744 675672426 2.030000e-91 346.0
6 TraesCS6B01G400300 chr6B 79.558 543 50 30 1702 2218 676037033 676037540 5.690000e-87 331.0
7 TraesCS6B01G400300 chr6B 78.645 487 54 20 1066 1515 676136376 676136849 7.510000e-71 278.0
8 TraesCS6B01G400300 chr6B 82.081 346 26 15 2419 2755 676048655 676048973 2.100000e-66 263.0
9 TraesCS6B01G400300 chr6B 77.984 486 47 14 1066 1515 675568475 675568014 1.640000e-62 250.0
10 TraesCS6B01G400300 chr6B 80.968 310 32 7 2434 2743 676037843 676038125 1.280000e-53 220.0
11 TraesCS6B01G400300 chr6B 86.034 179 18 4 1826 2004 677087386 677087215 4.690000e-43 185.0
12 TraesCS6B01G400300 chr6B 81.553 206 24 8 1771 1972 675612772 675612577 1.020000e-34 158.0
13 TraesCS6B01G400300 chr6B 81.421 183 21 8 1039 1221 675614442 675614273 1.330000e-28 137.0
14 TraesCS6B01G400300 chr6B 92.958 71 4 1 2116 2186 675672348 675672279 4.850000e-18 102.0
15 TraesCS6B01G400300 chr6D 85.126 1748 132 47 612 2277 446728528 446726827 0.000000e+00 1670.0
16 TraesCS6B01G400300 chr6D 80.556 864 66 30 792 1572 446881996 446882840 3.080000e-159 571.0
17 TraesCS6B01G400300 chr6D 88.477 486 23 7 2276 2755 446726769 446726311 8.620000e-155 556.0
18 TraesCS6B01G400300 chr6D 84.423 520 36 18 1702 2186 446882944 446883453 1.160000e-128 470.0
19 TraesCS6B01G400300 chr6D 77.950 517 54 26 1045 1515 446901999 446902501 4.520000e-68 268.0
20 TraesCS6B01G400300 chr6D 75.248 606 75 37 1039 1581 446934777 446935370 4.620000e-53 219.0
21 TraesCS6B01G400300 chr6D 76.812 483 53 18 1070 1515 446948451 446948911 1.660000e-52 217.0
22 TraesCS6B01G400300 chr6D 89.189 148 11 4 2363 2506 446883667 446883813 2.180000e-41 180.0
23 TraesCS6B01G400300 chr6D 89.256 121 13 0 2635 2755 446883839 446883959 4.750000e-33 152.0
24 TraesCS6B01G400300 chr6A 86.267 1551 72 41 680 2178 593562664 593561203 0.000000e+00 1554.0
25 TraesCS6B01G400300 chr6A 81.705 880 86 29 813 1629 593732562 593733429 0.000000e+00 664.0
26 TraesCS6B01G400300 chr6A 91.749 303 19 4 2454 2755 593560639 593560342 1.530000e-112 416.0
27 TraesCS6B01G400300 chr6A 83.372 433 34 9 1763 2186 593733544 593733947 1.560000e-97 366.0
28 TraesCS6B01G400300 chr6A 80.600 500 67 14 1074 1564 593574295 593574773 2.610000e-95 359.0
29 TraesCS6B01G400300 chr6A 89.796 196 18 1 2544 2739 593734315 593734508 1.640000e-62 250.0
30 TraesCS6B01G400300 chr6A 89.655 174 12 2 2276 2443 593561075 593560902 1.660000e-52 217.0
31 TraesCS6B01G400300 chr6A 76.553 499 48 25 1061 1515 593792295 593792768 2.780000e-50 209.0
32 TraesCS6B01G400300 chr6A 78.869 336 50 5 1114 1449 593692791 593693105 1.000000e-49 207.0
33 TraesCS6B01G400300 chr6A 81.152 191 24 8 1771 1959 593786453 593786633 2.860000e-30 143.0
34 TraesCS6B01G400300 chr6A 92.135 89 5 2 2419 2506 593734221 593734308 1.040000e-24 124.0
35 TraesCS6B01G400300 chr6A 93.939 66 4 0 1702 1767 593733458 593733523 1.750000e-17 100.0
36 TraesCS6B01G400300 chr6A 100.000 28 0 0 2363 2390 593734185 593734212 5.000000e-03 52.8
37 TraesCS6B01G400300 chr4B 93.642 519 28 2 1 514 509032555 509033073 0.000000e+00 771.0
38 TraesCS6B01G400300 chr5B 93.478 506 29 1 12 513 321568285 321568790 0.000000e+00 749.0
39 TraesCS6B01G400300 chr5B 92.996 514 32 1 4 513 689459777 689459264 0.000000e+00 747.0
40 TraesCS6B01G400300 chr5B 92.529 522 33 3 1 517 621506132 621505612 0.000000e+00 743.0
41 TraesCS6B01G400300 chr5B 92.664 518 33 2 1 513 610018521 610019038 0.000000e+00 741.0
42 TraesCS6B01G400300 chr5B 92.802 514 32 3 1 509 489099026 489098513 0.000000e+00 739.0
43 TraesCS6B01G400300 chr1B 92.664 518 33 2 1 513 24113369 24112852 0.000000e+00 741.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G400300 chr6B 675700855 675703609 2754 True 5088.000000 5088 100.000000 1 2755 1 chr6B.!!$R2 2754
1 TraesCS6B01G400300 chr6B 23041957 23042475 518 False 760.000000 760 93.256000 1 513 1 chr6B.!!$F2 512
2 TraesCS6B01G400300 chr6B 17383699 17384215 516 False 736.000000 736 92.471000 1 513 1 chr6B.!!$F1 512
3 TraesCS6B01G400300 chr6B 676046954 676048973 2019 False 411.500000 560 80.209500 695 2755 2 chr6B.!!$F5 2060
4 TraesCS6B01G400300 chr6B 676035969 676038125 2156 False 408.000000 673 80.234667 614 2743 3 chr6B.!!$F4 2129
5 TraesCS6B01G400300 chr6D 446726311 446728528 2217 True 1113.000000 1670 86.801500 612 2755 2 chr6D.!!$R1 2143
6 TraesCS6B01G400300 chr6D 446881996 446883959 1963 False 343.250000 571 85.856000 792 2755 4 chr6D.!!$F4 1963
7 TraesCS6B01G400300 chr6D 446901999 446902501 502 False 268.000000 268 77.950000 1045 1515 1 chr6D.!!$F1 470
8 TraesCS6B01G400300 chr6D 446934777 446935370 593 False 219.000000 219 75.248000 1039 1581 1 chr6D.!!$F2 542
9 TraesCS6B01G400300 chr6A 593560342 593562664 2322 True 729.000000 1554 89.223667 680 2755 3 chr6A.!!$R1 2075
10 TraesCS6B01G400300 chr6A 593732562 593734508 1946 False 259.466667 664 90.157833 813 2739 6 chr6A.!!$F5 1926
11 TraesCS6B01G400300 chr4B 509032555 509033073 518 False 771.000000 771 93.642000 1 514 1 chr4B.!!$F1 513
12 TraesCS6B01G400300 chr5B 321568285 321568790 505 False 749.000000 749 93.478000 12 513 1 chr5B.!!$F1 501
13 TraesCS6B01G400300 chr5B 689459264 689459777 513 True 747.000000 747 92.996000 4 513 1 chr5B.!!$R3 509
14 TraesCS6B01G400300 chr5B 621505612 621506132 520 True 743.000000 743 92.529000 1 517 1 chr5B.!!$R2 516
15 TraesCS6B01G400300 chr5B 610018521 610019038 517 False 741.000000 741 92.664000 1 513 1 chr5B.!!$F2 512
16 TraesCS6B01G400300 chr5B 489098513 489099026 513 True 739.000000 739 92.802000 1 509 1 chr5B.!!$R1 508
17 TraesCS6B01G400300 chr1B 24112852 24113369 517 True 741.000000 741 92.664000 1 513 1 chr1B.!!$R1 512

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
587 594 0.249073 AAAGATCTCGGGCGATGACG 60.249 55.0 0.00 0.0 42.93 4.35 F
925 966 0.251165 ACAGCGCCCACTGGTTTAAT 60.251 50.0 2.29 0.0 42.21 1.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1696 1956 0.108424 GAGGACGAGCTCACTGCATT 60.108 55.0 15.4 0.0 45.94 3.56 R
2135 2476 0.547712 TTCAGGAGTTGGAGGGGGAG 60.548 60.0 0.0 0.0 0.00 4.30 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
37 39 0.671251 CCCTTTTAGCAACGCCACAA 59.329 50.000 0.00 0.00 0.00 3.33
134 136 3.815401 GCTAGCGTTTCCAATCCACATAT 59.185 43.478 0.00 0.00 0.00 1.78
176 178 1.898574 CTGCCTTGGCCAGAAACGT 60.899 57.895 5.11 0.00 32.03 3.99
238 241 2.068834 TTACTTTGGCAACGGGGAAA 57.931 45.000 8.67 0.00 42.51 3.13
295 298 2.200170 CTTGGCGTTGCTTACCTGGC 62.200 60.000 0.00 0.00 0.00 4.85
389 392 1.726533 GGAACGCTAGCTAGCTCGGT 61.727 60.000 36.02 26.15 46.85 4.69
412 415 5.464057 GTGTTTTTATTTGGGGAAGAAACGG 59.536 40.000 0.00 0.00 28.82 4.44
442 449 1.065709 TGGCGTAAAAGGGTCAGATCC 60.066 52.381 0.00 0.00 0.00 3.36
471 478 8.827177 AATACTTTCATGTCGAGTTCACTTTA 57.173 30.769 0.00 0.00 0.00 1.85
479 486 4.576873 TGTCGAGTTCACTTTATGGCAAAA 59.423 37.500 0.00 0.00 0.00 2.44
514 521 1.583054 AGAATAGTGATTTCGGCCGC 58.417 50.000 23.51 6.96 0.00 6.53
515 522 1.134521 AGAATAGTGATTTCGGCCGCA 60.135 47.619 23.51 6.92 0.00 5.69
516 523 1.261619 GAATAGTGATTTCGGCCGCAG 59.738 52.381 23.51 0.00 0.00 5.18
517 524 1.160329 ATAGTGATTTCGGCCGCAGC 61.160 55.000 23.51 13.27 38.76 5.25
518 525 2.514510 TAGTGATTTCGGCCGCAGCA 62.515 55.000 23.51 16.11 42.56 4.41
519 526 3.430862 TGATTTCGGCCGCAGCAC 61.431 61.111 23.51 11.09 42.56 4.40
520 527 3.430862 GATTTCGGCCGCAGCACA 61.431 61.111 23.51 0.00 42.56 4.57
521 528 3.667429 GATTTCGGCCGCAGCACAC 62.667 63.158 23.51 3.96 42.56 3.82
533 540 3.339731 GCACACGGCTGCACTTAA 58.660 55.556 0.50 0.00 40.25 1.85
534 541 1.652012 GCACACGGCTGCACTTAAA 59.348 52.632 0.50 0.00 40.25 1.52
535 542 0.385974 GCACACGGCTGCACTTAAAG 60.386 55.000 0.50 0.00 40.25 1.85
536 543 0.385974 CACACGGCTGCACTTAAAGC 60.386 55.000 0.50 0.00 38.76 3.51
543 550 3.369546 GCTGCACTTAAAGCCTTCAAA 57.630 42.857 0.00 0.00 33.12 2.69
544 551 3.052745 GCTGCACTTAAAGCCTTCAAAC 58.947 45.455 0.00 0.00 33.12 2.93
545 552 3.490761 GCTGCACTTAAAGCCTTCAAACA 60.491 43.478 0.00 0.00 33.12 2.83
546 553 4.040445 TGCACTTAAAGCCTTCAAACAC 57.960 40.909 0.00 0.00 0.00 3.32
547 554 3.445450 TGCACTTAAAGCCTTCAAACACA 59.555 39.130 0.00 0.00 0.00 3.72
548 555 4.099266 TGCACTTAAAGCCTTCAAACACAT 59.901 37.500 0.00 0.00 0.00 3.21
549 556 4.445385 GCACTTAAAGCCTTCAAACACATG 59.555 41.667 0.00 0.00 0.00 3.21
550 557 4.984161 CACTTAAAGCCTTCAAACACATGG 59.016 41.667 0.00 0.00 0.00 3.66
551 558 2.531522 AAAGCCTTCAAACACATGGC 57.468 45.000 0.00 0.00 43.52 4.40
552 559 4.557942 GCCTTCAAACACATGGCG 57.442 55.556 0.00 0.00 33.96 5.69
553 560 1.659794 GCCTTCAAACACATGGCGT 59.340 52.632 0.00 0.00 33.96 5.68
554 561 0.878416 GCCTTCAAACACATGGCGTA 59.122 50.000 0.00 0.00 33.96 4.42
555 562 1.401018 GCCTTCAAACACATGGCGTAC 60.401 52.381 0.00 0.00 33.96 3.67
556 563 1.876799 CCTTCAAACACATGGCGTACA 59.123 47.619 0.00 0.00 0.00 2.90
557 564 2.487762 CCTTCAAACACATGGCGTACAT 59.512 45.455 0.00 0.00 41.57 2.29
564 571 2.513666 ATGGCGTACATGGGCACG 60.514 61.111 11.13 11.13 43.11 5.34
565 572 3.025189 ATGGCGTACATGGGCACGA 62.025 57.895 17.52 1.97 43.11 4.35
566 573 2.435234 GGCGTACATGGGCACGAA 60.435 61.111 17.52 0.00 40.56 3.85
567 574 1.817941 GGCGTACATGGGCACGAAT 60.818 57.895 17.52 0.00 40.56 3.34
568 575 0.531090 GGCGTACATGGGCACGAATA 60.531 55.000 17.52 0.00 40.56 1.75
569 576 1.292061 GCGTACATGGGCACGAATAA 58.708 50.000 17.52 0.00 40.56 1.40
570 577 1.666700 GCGTACATGGGCACGAATAAA 59.333 47.619 17.52 0.00 40.56 1.40
571 578 2.286184 GCGTACATGGGCACGAATAAAG 60.286 50.000 17.52 0.00 40.56 1.85
572 579 3.191669 CGTACATGGGCACGAATAAAGA 58.808 45.455 10.21 0.00 40.56 2.52
573 580 3.807622 CGTACATGGGCACGAATAAAGAT 59.192 43.478 10.21 0.00 40.56 2.40
574 581 4.084537 CGTACATGGGCACGAATAAAGATC 60.085 45.833 10.21 0.00 40.56 2.75
575 582 4.156455 ACATGGGCACGAATAAAGATCT 57.844 40.909 0.00 0.00 0.00 2.75
576 583 4.130118 ACATGGGCACGAATAAAGATCTC 58.870 43.478 0.00 0.00 0.00 2.75
577 584 2.821546 TGGGCACGAATAAAGATCTCG 58.178 47.619 0.00 0.00 38.53 4.04
578 585 2.135933 GGGCACGAATAAAGATCTCGG 58.864 52.381 0.00 0.00 36.90 4.63
579 586 2.135933 GGCACGAATAAAGATCTCGGG 58.864 52.381 0.00 0.00 39.00 5.14
581 588 1.787155 CACGAATAAAGATCTCGGGCG 59.213 52.381 0.00 0.00 36.90 6.13
582 589 1.679680 ACGAATAAAGATCTCGGGCGA 59.320 47.619 0.00 0.00 36.90 5.54
583 590 2.296471 ACGAATAAAGATCTCGGGCGAT 59.704 45.455 0.00 0.00 36.90 4.58
584 591 2.663602 CGAATAAAGATCTCGGGCGATG 59.336 50.000 0.00 0.00 0.00 3.84
585 592 3.611766 CGAATAAAGATCTCGGGCGATGA 60.612 47.826 0.00 0.00 0.00 2.92
586 593 2.795175 TAAAGATCTCGGGCGATGAC 57.205 50.000 0.00 0.00 0.00 3.06
587 594 0.249073 AAAGATCTCGGGCGATGACG 60.249 55.000 0.00 0.00 42.93 4.35
588 595 2.049985 GATCTCGGGCGATGACGG 60.050 66.667 0.00 0.00 40.15 4.79
589 596 2.518587 ATCTCGGGCGATGACGGA 60.519 61.111 0.00 0.00 40.15 4.69
590 597 2.734756 GATCTCGGGCGATGACGGAC 62.735 65.000 0.00 0.00 40.15 4.79
591 598 3.822192 CTCGGGCGATGACGGACA 61.822 66.667 0.00 0.00 40.15 4.02
592 599 4.124351 TCGGGCGATGACGGACAC 62.124 66.667 0.00 0.00 40.15 3.67
593 600 4.129737 CGGGCGATGACGGACACT 62.130 66.667 0.00 0.00 40.15 3.55
594 601 2.509336 GGGCGATGACGGACACTG 60.509 66.667 0.00 0.00 40.15 3.66
595 602 3.188786 GGCGATGACGGACACTGC 61.189 66.667 0.00 0.00 40.15 4.40
596 603 3.188786 GCGATGACGGACACTGCC 61.189 66.667 0.00 0.00 40.15 4.85
597 604 2.509336 CGATGACGGACACTGCCC 60.509 66.667 0.00 0.00 35.72 5.36
598 605 2.982130 GATGACGGACACTGCCCT 59.018 61.111 0.00 0.00 0.00 5.19
599 606 1.153549 GATGACGGACACTGCCCTC 60.154 63.158 0.00 0.00 0.00 4.30
600 607 2.579684 GATGACGGACACTGCCCTCC 62.580 65.000 0.00 0.00 0.00 4.30
601 608 3.311110 GACGGACACTGCCCTCCA 61.311 66.667 0.00 0.00 0.00 3.86
602 609 3.591254 GACGGACACTGCCCTCCAC 62.591 68.421 0.00 0.00 0.00 4.02
603 610 4.394712 CGGACACTGCCCTCCACC 62.395 72.222 0.00 0.00 0.00 4.61
604 611 4.394712 GGACACTGCCCTCCACCG 62.395 72.222 0.00 0.00 0.00 4.94
605 612 3.311110 GACACTGCCCTCCACCGA 61.311 66.667 0.00 0.00 0.00 4.69
606 613 2.847234 ACACTGCCCTCCACCGAA 60.847 61.111 0.00 0.00 0.00 4.30
607 614 2.358737 CACTGCCCTCCACCGAAC 60.359 66.667 0.00 0.00 0.00 3.95
608 615 2.847234 ACTGCCCTCCACCGAACA 60.847 61.111 0.00 0.00 0.00 3.18
609 616 2.358737 CTGCCCTCCACCGAACAC 60.359 66.667 0.00 0.00 0.00 3.32
610 617 3.164977 TGCCCTCCACCGAACACA 61.165 61.111 0.00 0.00 0.00 3.72
642 649 2.138320 CAGAAACTCACGCATCAGTGT 58.862 47.619 0.00 0.00 42.40 3.55
734 741 6.620877 ATCAGAATACTGGTTTGTGTCCTA 57.379 37.500 0.00 0.00 43.60 2.94
777 788 1.126488 TGGTGCAAGAAATTGGCCAA 58.874 45.000 23.00 23.00 0.00 4.52
805 819 8.674263 TTTTGACACAAAATATTCCAAGCAAT 57.326 26.923 5.70 0.00 0.00 3.56
832 851 5.537674 GGCATGACTCCTTTGAATATTGGAT 59.462 40.000 0.00 0.00 0.00 3.41
921 962 4.954970 CCACAGCGCCCACTGGTT 62.955 66.667 2.29 0.00 42.21 3.67
922 963 2.906897 CACAGCGCCCACTGGTTT 60.907 61.111 2.29 0.00 42.21 3.27
923 964 1.599518 CACAGCGCCCACTGGTTTA 60.600 57.895 2.29 0.00 42.21 2.01
924 965 1.149627 ACAGCGCCCACTGGTTTAA 59.850 52.632 2.29 0.00 42.21 1.52
925 966 0.251165 ACAGCGCCCACTGGTTTAAT 60.251 50.000 2.29 0.00 42.21 1.40
926 967 0.887933 CAGCGCCCACTGGTTTAATT 59.112 50.000 2.29 0.00 33.85 1.40
927 968 2.088423 CAGCGCCCACTGGTTTAATTA 58.912 47.619 2.29 0.00 33.85 1.40
928 969 2.490115 CAGCGCCCACTGGTTTAATTAA 59.510 45.455 2.29 0.00 33.85 1.40
929 970 2.752903 AGCGCCCACTGGTTTAATTAAG 59.247 45.455 2.29 0.00 0.00 1.85
979 1058 5.298347 GGAGTTCTCTATAAATTCCACCCG 58.702 45.833 0.00 0.00 33.84 5.28
994 1079 2.427245 CCCGACCCGCTTCTCTCAT 61.427 63.158 0.00 0.00 0.00 2.90
1015 1118 5.600898 TCATGTTTACTCCCGATTCCATCTA 59.399 40.000 0.00 0.00 0.00 1.98
1105 1242 0.464036 AACCACAAGTCGACTCAGCA 59.536 50.000 20.33 0.00 0.00 4.41
1129 1266 1.147153 GTGCTCTCCATACCCAGCC 59.853 63.158 0.00 0.00 0.00 4.85
1247 1423 4.742201 CACCAGGAGCCGACGGTG 62.742 72.222 16.73 5.45 42.72 4.94
1537 1758 2.125673 CCGGCGACAACTACCAGG 60.126 66.667 9.30 0.00 0.00 4.45
1564 1789 2.595124 TCAACGTCGACATGCCATAT 57.405 45.000 17.16 0.00 0.00 1.78
1565 1790 2.899976 TCAACGTCGACATGCCATATT 58.100 42.857 17.16 0.00 0.00 1.28
1634 1892 0.810426 GGTCAGTTTAGCTAGCCCGC 60.810 60.000 12.13 0.00 0.00 6.13
1636 1894 0.611200 TCAGTTTAGCTAGCCCGCAA 59.389 50.000 12.13 0.00 0.00 4.85
1642 1900 1.410004 TAGCTAGCCCGCAACAGTAT 58.590 50.000 12.13 0.00 0.00 2.12
1667 1925 0.682855 AGTGAGCCTCTTCCTCCTCG 60.683 60.000 0.00 0.00 0.00 4.63
1668 1926 0.968393 GTGAGCCTCTTCCTCCTCGT 60.968 60.000 0.00 0.00 0.00 4.18
1669 1927 0.624254 TGAGCCTCTTCCTCCTCGTA 59.376 55.000 0.00 0.00 0.00 3.43
1681 1941 6.711194 TCTTCCTCCTCGTATGTAATCTGTAG 59.289 42.308 0.00 0.00 0.00 2.74
1682 1942 5.938279 TCCTCCTCGTATGTAATCTGTAGT 58.062 41.667 0.00 0.00 0.00 2.73
1683 1943 6.363065 TCCTCCTCGTATGTAATCTGTAGTT 58.637 40.000 0.00 0.00 0.00 2.24
1684 1944 6.485984 TCCTCCTCGTATGTAATCTGTAGTTC 59.514 42.308 0.00 0.00 0.00 3.01
1685 1945 6.487331 CCTCCTCGTATGTAATCTGTAGTTCT 59.513 42.308 0.00 0.00 0.00 3.01
1686 1946 7.260558 TCCTCGTATGTAATCTGTAGTTCTG 57.739 40.000 0.00 0.00 0.00 3.02
1687 1947 6.827251 TCCTCGTATGTAATCTGTAGTTCTGT 59.173 38.462 0.00 0.00 0.00 3.41
1688 1948 7.989170 TCCTCGTATGTAATCTGTAGTTCTGTA 59.011 37.037 0.00 0.00 0.00 2.74
1689 1949 8.068977 CCTCGTATGTAATCTGTAGTTCTGTAC 58.931 40.741 0.00 0.00 0.00 2.90
1690 1950 8.496707 TCGTATGTAATCTGTAGTTCTGTACA 57.503 34.615 0.00 0.00 0.00 2.90
1691 1951 8.393366 TCGTATGTAATCTGTAGTTCTGTACAC 58.607 37.037 0.00 0.00 0.00 2.90
1692 1952 8.179615 CGTATGTAATCTGTAGTTCTGTACACA 58.820 37.037 0.00 0.00 0.00 3.72
1694 1954 8.932945 ATGTAATCTGTAGTTCTGTACACATG 57.067 34.615 0.00 0.00 0.00 3.21
1695 1955 6.811665 TGTAATCTGTAGTTCTGTACACATGC 59.188 38.462 0.00 0.00 0.00 4.06
1696 1956 4.864704 TCTGTAGTTCTGTACACATGCA 57.135 40.909 0.00 0.00 0.00 3.96
1759 2020 3.463944 ACGCCCTTGGTTTTCGATATAG 58.536 45.455 0.00 0.00 0.00 1.31
1810 2123 2.029221 GACGGGAGGCTTATCCGC 59.971 66.667 19.68 11.72 46.87 5.54
1829 2142 3.554752 CCGCCCTTTGATGATTTGTTTGT 60.555 43.478 0.00 0.00 0.00 2.83
1861 2185 2.498167 TCTGCTTCTGCTTCTGTTTCC 58.502 47.619 0.00 0.00 40.48 3.13
2087 2412 5.876460 TCGATGAATGAGCTGAGATTTTTCA 59.124 36.000 0.00 0.00 0.00 2.69
2181 2528 2.022195 CAAGAAGATGATGGTGGGCTG 58.978 52.381 0.00 0.00 0.00 4.85
2222 2569 2.096218 GGCGAGCTTCTTGTTTAGTGTG 60.096 50.000 0.00 0.00 0.00 3.82
2227 2574 5.036117 AGCTTCTTGTTTAGTGTGGAAGA 57.964 39.130 0.00 0.00 34.06 2.87
2229 2576 4.574828 GCTTCTTGTTTAGTGTGGAAGACA 59.425 41.667 0.00 0.00 34.06 3.41
2248 2606 7.201530 GGAAGACAATACTTAATCAGTTCCGTG 60.202 40.741 0.00 0.00 36.88 4.94
2334 2802 3.107407 CGTTTGTCTGTGTGTACGTACA 58.893 45.455 24.10 24.10 0.00 2.90
2335 2803 3.732219 CGTTTGTCTGTGTGTACGTACAT 59.268 43.478 29.58 0.00 38.63 2.29
2336 2804 4.374607 CGTTTGTCTGTGTGTACGTACATG 60.375 45.833 29.58 19.26 38.63 3.21
2337 2805 2.668250 TGTCTGTGTGTACGTACATGC 58.332 47.619 29.58 23.54 38.63 4.06
2338 2806 2.295070 TGTCTGTGTGTACGTACATGCT 59.705 45.455 29.58 0.00 38.63 3.79
2339 2807 2.915463 GTCTGTGTGTACGTACATGCTC 59.085 50.000 29.58 17.66 38.63 4.26
2340 2808 2.817844 TCTGTGTGTACGTACATGCTCT 59.182 45.455 29.58 0.00 38.63 4.09
2341 2809 4.004982 TCTGTGTGTACGTACATGCTCTA 58.995 43.478 29.58 12.47 38.63 2.43
2347 2822 5.124936 TGTGTACGTACATGCTCTACAGATT 59.875 40.000 29.58 0.00 38.63 2.40
2475 3256 7.032580 CCAACTCGTAAAAATATCCATTTGCA 58.967 34.615 0.00 0.00 34.53 4.08
2540 3321 2.030562 CACTTTCAGACGCCGGGT 59.969 61.111 2.18 0.00 0.00 5.28
2630 3416 2.064762 GCATATGATCGAGTCAGTGCC 58.935 52.381 6.97 7.99 42.23 5.01
2663 3480 1.817099 GGAAGATCTGCCAGGCACG 60.817 63.158 15.69 7.32 33.79 5.34
2664 3481 1.817099 GAAGATCTGCCAGGCACGG 60.817 63.158 11.22 1.29 33.79 4.94
2665 3482 2.244117 GAAGATCTGCCAGGCACGGA 62.244 60.000 11.22 8.11 33.79 4.69
2666 3483 1.841302 AAGATCTGCCAGGCACGGAA 61.841 55.000 11.22 0.00 33.79 4.30
2667 3484 2.045926 ATCTGCCAGGCACGGAAC 60.046 61.111 11.22 0.00 33.79 3.62
2668 3485 3.628646 ATCTGCCAGGCACGGAACC 62.629 63.158 11.22 0.00 33.79 3.62
2669 3486 4.335647 CTGCCAGGCACGGAACCT 62.336 66.667 11.22 0.00 38.35 3.50
2674 3491 2.203788 AGGCACGGAACCTGGAGA 60.204 61.111 0.00 0.00 35.72 3.71
2675 3492 2.266055 GGCACGGAACCTGGAGAG 59.734 66.667 0.00 0.00 0.00 3.20
2676 3493 2.266055 GCACGGAACCTGGAGAGG 59.734 66.667 0.00 0.00 46.21 3.69
2685 3502 1.298014 CCTGGAGAGGTTCAGTGGC 59.702 63.158 0.00 0.00 34.16 5.01
2686 3503 1.079543 CTGGAGAGGTTCAGTGGCG 60.080 63.158 0.00 0.00 0.00 5.69
2687 3504 2.435059 GGAGAGGTTCAGTGGCGC 60.435 66.667 0.00 0.00 0.00 6.53
2688 3505 2.659610 GAGAGGTTCAGTGGCGCT 59.340 61.111 7.64 0.00 0.00 5.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 10 3.247006 TGCTAAAAGGGTGAGATCGTC 57.753 47.619 0.00 0.00 0.00 4.20
16 18 0.039527 GTGGCGTTGCTAAAAGGGTG 60.040 55.000 0.00 0.00 0.00 4.61
37 39 0.883370 GGAGAAGAAACGCCACGGTT 60.883 55.000 0.00 0.00 40.41 4.44
134 136 1.801309 GCCCACTTGCTTGGCGTTTA 61.801 55.000 0.00 0.00 35.08 2.01
176 178 1.134220 CCTAAACGCCAAGCCCTATGA 60.134 52.381 0.00 0.00 0.00 2.15
295 298 1.374252 AGGTTACTCGCGTTGCAGG 60.374 57.895 5.77 0.00 0.00 4.85
308 311 3.435890 CCAAAGGAGAAACACCCAGGTTA 60.436 47.826 0.00 0.00 0.00 2.85
317 320 0.850100 TCCTGCCCAAAGGAGAAACA 59.150 50.000 0.00 0.00 41.60 2.83
389 392 5.602628 CCGTTTCTTCCCCAAATAAAAACA 58.397 37.500 0.00 0.00 0.00 2.83
471 478 5.760484 ACCCTATCAACAAATTTTGCCAT 57.240 34.783 9.04 1.97 0.00 4.40
516 523 0.385974 CTTTAAGTGCAGCCGTGTGC 60.386 55.000 0.00 0.00 44.27 4.57
517 524 0.385974 GCTTTAAGTGCAGCCGTGTG 60.386 55.000 0.00 0.00 0.00 3.82
518 525 1.515521 GGCTTTAAGTGCAGCCGTGT 61.516 55.000 0.22 0.00 46.19 4.49
519 526 1.210155 GGCTTTAAGTGCAGCCGTG 59.790 57.895 0.22 0.00 46.19 4.94
520 527 3.668386 GGCTTTAAGTGCAGCCGT 58.332 55.556 0.22 0.00 46.19 5.68
523 530 3.052745 GTTTGAAGGCTTTAAGTGCAGC 58.947 45.455 0.00 0.00 35.07 5.25
524 531 4.044426 GTGTTTGAAGGCTTTAAGTGCAG 58.956 43.478 0.00 0.00 0.00 4.41
525 532 3.445450 TGTGTTTGAAGGCTTTAAGTGCA 59.555 39.130 0.00 1.75 0.00 4.57
526 533 4.040445 TGTGTTTGAAGGCTTTAAGTGC 57.960 40.909 0.00 0.00 0.00 4.40
527 534 4.984161 CCATGTGTTTGAAGGCTTTAAGTG 59.016 41.667 0.00 0.00 0.00 3.16
528 535 4.501400 GCCATGTGTTTGAAGGCTTTAAGT 60.501 41.667 0.00 0.00 42.01 2.24
529 536 3.989817 GCCATGTGTTTGAAGGCTTTAAG 59.010 43.478 0.00 0.00 42.01 1.85
530 537 3.551863 CGCCATGTGTTTGAAGGCTTTAA 60.552 43.478 0.00 0.00 43.07 1.52
531 538 2.030363 CGCCATGTGTTTGAAGGCTTTA 60.030 45.455 0.00 0.00 43.07 1.85
532 539 1.269726 CGCCATGTGTTTGAAGGCTTT 60.270 47.619 0.00 0.00 43.07 3.51
533 540 0.314935 CGCCATGTGTTTGAAGGCTT 59.685 50.000 0.00 0.00 43.07 4.35
534 541 0.823356 ACGCCATGTGTTTGAAGGCT 60.823 50.000 0.00 0.00 43.07 4.58
535 542 0.878416 TACGCCATGTGTTTGAAGGC 59.122 50.000 0.00 0.00 41.86 4.35
536 543 1.876799 TGTACGCCATGTGTTTGAAGG 59.123 47.619 0.00 0.00 0.00 3.46
537 544 3.491356 CATGTACGCCATGTGTTTGAAG 58.509 45.455 7.35 0.00 44.96 3.02
538 545 3.550950 CATGTACGCCATGTGTTTGAA 57.449 42.857 7.35 0.00 44.96 2.69
547 554 2.513666 CGTGCCCATGTACGCCAT 60.514 61.111 0.00 0.00 43.41 4.40
552 559 5.057149 AGATCTTTATTCGTGCCCATGTAC 58.943 41.667 0.00 0.00 0.00 2.90
553 560 5.290493 AGATCTTTATTCGTGCCCATGTA 57.710 39.130 0.00 0.00 0.00 2.29
554 561 4.130118 GAGATCTTTATTCGTGCCCATGT 58.870 43.478 0.00 0.00 0.00 3.21
555 562 3.185188 CGAGATCTTTATTCGTGCCCATG 59.815 47.826 0.00 0.00 0.00 3.66
556 563 3.393800 CGAGATCTTTATTCGTGCCCAT 58.606 45.455 0.00 0.00 0.00 4.00
557 564 2.483013 CCGAGATCTTTATTCGTGCCCA 60.483 50.000 0.00 0.00 32.73 5.36
558 565 2.135933 CCGAGATCTTTATTCGTGCCC 58.864 52.381 0.00 0.00 32.73 5.36
559 566 2.135933 CCCGAGATCTTTATTCGTGCC 58.864 52.381 0.00 0.00 32.73 5.01
560 567 1.527311 GCCCGAGATCTTTATTCGTGC 59.473 52.381 0.00 0.00 31.30 5.34
561 568 1.787155 CGCCCGAGATCTTTATTCGTG 59.213 52.381 0.00 0.00 32.73 4.35
562 569 1.679680 TCGCCCGAGATCTTTATTCGT 59.320 47.619 0.00 0.00 32.73 3.85
563 570 2.417339 TCGCCCGAGATCTTTATTCG 57.583 50.000 0.00 0.00 0.00 3.34
564 571 3.675698 GTCATCGCCCGAGATCTTTATTC 59.324 47.826 0.00 0.00 0.00 1.75
565 572 3.654414 GTCATCGCCCGAGATCTTTATT 58.346 45.455 0.00 0.00 0.00 1.40
566 573 2.351835 CGTCATCGCCCGAGATCTTTAT 60.352 50.000 0.00 0.00 0.00 1.40
567 574 1.001706 CGTCATCGCCCGAGATCTTTA 60.002 52.381 0.00 0.00 0.00 1.85
568 575 0.249073 CGTCATCGCCCGAGATCTTT 60.249 55.000 0.00 0.00 0.00 2.52
569 576 1.360551 CGTCATCGCCCGAGATCTT 59.639 57.895 0.00 0.00 0.00 2.40
570 577 2.556459 CCGTCATCGCCCGAGATCT 61.556 63.158 0.00 0.00 35.54 2.75
571 578 2.049985 CCGTCATCGCCCGAGATC 60.050 66.667 0.00 0.00 35.54 2.75
572 579 2.518587 TCCGTCATCGCCCGAGAT 60.519 61.111 0.00 0.00 35.54 2.75
573 580 3.515286 GTCCGTCATCGCCCGAGA 61.515 66.667 0.00 0.00 35.54 4.04
574 581 3.822192 TGTCCGTCATCGCCCGAG 61.822 66.667 0.00 0.00 35.54 4.63
575 582 4.124351 GTGTCCGTCATCGCCCGA 62.124 66.667 0.00 0.00 35.54 5.14
576 583 4.129737 AGTGTCCGTCATCGCCCG 62.130 66.667 0.00 0.00 35.54 6.13
577 584 2.509336 CAGTGTCCGTCATCGCCC 60.509 66.667 0.00 0.00 35.54 6.13
578 585 3.188786 GCAGTGTCCGTCATCGCC 61.189 66.667 0.00 0.00 35.54 5.54
579 586 3.188786 GGCAGTGTCCGTCATCGC 61.189 66.667 0.00 0.00 35.54 4.58
580 587 2.509336 GGGCAGTGTCCGTCATCG 60.509 66.667 0.00 0.00 0.00 3.84
581 588 1.153549 GAGGGCAGTGTCCGTCATC 60.154 63.158 8.44 0.00 39.95 2.92
582 589 2.660064 GGAGGGCAGTGTCCGTCAT 61.660 63.158 20.40 1.41 41.47 3.06
583 590 3.311110 GGAGGGCAGTGTCCGTCA 61.311 66.667 20.40 0.00 41.47 4.35
584 591 3.311110 TGGAGGGCAGTGTCCGTC 61.311 66.667 8.44 12.15 39.58 4.79
585 592 3.626924 GTGGAGGGCAGTGTCCGT 61.627 66.667 8.44 3.23 35.37 4.69
586 593 4.394712 GGTGGAGGGCAGTGTCCG 62.395 72.222 8.44 0.00 35.37 4.79
587 594 4.394712 CGGTGGAGGGCAGTGTCC 62.395 72.222 5.33 5.33 0.00 4.02
588 595 2.879233 TTCGGTGGAGGGCAGTGTC 61.879 63.158 0.00 0.00 0.00 3.67
589 596 2.847234 TTCGGTGGAGGGCAGTGT 60.847 61.111 0.00 0.00 0.00 3.55
590 597 2.358737 GTTCGGTGGAGGGCAGTG 60.359 66.667 0.00 0.00 0.00 3.66
591 598 2.847234 TGTTCGGTGGAGGGCAGT 60.847 61.111 0.00 0.00 0.00 4.40
592 599 2.358737 GTGTTCGGTGGAGGGCAG 60.359 66.667 0.00 0.00 0.00 4.85
593 600 3.164977 TGTGTTCGGTGGAGGGCA 61.165 61.111 0.00 0.00 0.00 5.36
594 601 2.668550 GTGTGTTCGGTGGAGGGC 60.669 66.667 0.00 0.00 0.00 5.19
595 602 2.032071 GGTGTGTTCGGTGGAGGG 59.968 66.667 0.00 0.00 0.00 4.30
596 603 0.179029 AAAGGTGTGTTCGGTGGAGG 60.179 55.000 0.00 0.00 0.00 4.30
597 604 1.602377 GAAAAGGTGTGTTCGGTGGAG 59.398 52.381 0.00 0.00 0.00 3.86
598 605 1.210967 AGAAAAGGTGTGTTCGGTGGA 59.789 47.619 0.00 0.00 0.00 4.02
599 606 1.333619 CAGAAAAGGTGTGTTCGGTGG 59.666 52.381 0.00 0.00 0.00 4.61
600 607 2.285083 TCAGAAAAGGTGTGTTCGGTG 58.715 47.619 0.00 0.00 0.00 4.94
601 608 2.681344 GTTCAGAAAAGGTGTGTTCGGT 59.319 45.455 0.00 0.00 0.00 4.69
602 609 2.680841 TGTTCAGAAAAGGTGTGTTCGG 59.319 45.455 0.00 0.00 0.00 4.30
603 610 3.621268 TCTGTTCAGAAAAGGTGTGTTCG 59.379 43.478 0.09 0.00 0.00 3.95
604 611 5.560966 TTCTGTTCAGAAAAGGTGTGTTC 57.439 39.130 12.08 0.00 0.00 3.18
605 612 5.476945 AGTTTCTGTTCAGAAAAGGTGTGTT 59.523 36.000 23.60 5.71 39.20 3.32
606 613 5.010282 AGTTTCTGTTCAGAAAAGGTGTGT 58.990 37.500 23.60 6.00 39.20 3.72
607 614 5.123820 TGAGTTTCTGTTCAGAAAAGGTGTG 59.876 40.000 23.60 0.00 39.20 3.82
608 615 5.123979 GTGAGTTTCTGTTCAGAAAAGGTGT 59.876 40.000 23.60 10.56 39.20 4.16
609 616 5.573146 GTGAGTTTCTGTTCAGAAAAGGTG 58.427 41.667 23.60 0.00 39.20 4.00
610 617 4.332819 CGTGAGTTTCTGTTCAGAAAAGGT 59.667 41.667 23.60 14.36 39.20 3.50
642 649 0.256464 ACGGTTTCCCCTGTGAACAA 59.744 50.000 0.00 0.00 0.00 2.83
651 658 1.812235 AACATACGAACGGTTTCCCC 58.188 50.000 0.00 0.00 0.00 4.81
706 713 7.148407 GGACACAAACCAGTATTCTGATTACTG 60.148 40.741 23.29 23.29 43.76 2.74
708 715 6.879458 AGGACACAAACCAGTATTCTGATTAC 59.121 38.462 0.12 2.31 43.76 1.89
741 751 6.701145 TGCACCACAAATCAGTACTTTAAA 57.299 33.333 0.00 0.00 0.00 1.52
742 752 6.544197 TCTTGCACCACAAATCAGTACTTTAA 59.456 34.615 0.00 0.00 37.96 1.52
743 753 6.058833 TCTTGCACCACAAATCAGTACTTTA 58.941 36.000 0.00 0.00 37.96 1.85
753 764 3.140623 GCCAATTTCTTGCACCACAAAT 58.859 40.909 0.00 0.00 37.96 2.32
777 788 7.714377 TGCTTGGAATATTTTGTGTCAAAATGT 59.286 29.630 22.47 16.47 32.64 2.71
805 819 3.726557 ATTCAAAGGAGTCATGCCAGA 57.273 42.857 0.00 0.00 0.00 3.86
832 851 1.151899 AAGGCAGGTAGGTCCACCA 60.152 57.895 11.62 0.00 41.40 4.17
916 957 5.009310 GGGATTACGGGCTTAATTAAACCAG 59.991 44.000 17.34 15.66 0.00 4.00
917 958 4.888823 GGGATTACGGGCTTAATTAAACCA 59.111 41.667 17.34 0.00 0.00 3.67
918 959 4.279169 GGGGATTACGGGCTTAATTAAACC 59.721 45.833 8.86 8.86 0.00 3.27
919 960 4.888823 TGGGGATTACGGGCTTAATTAAAC 59.111 41.667 0.00 0.00 0.00 2.01
920 961 4.888823 GTGGGGATTACGGGCTTAATTAAA 59.111 41.667 0.00 0.00 0.00 1.52
921 962 4.463070 GTGGGGATTACGGGCTTAATTAA 58.537 43.478 0.00 0.00 0.00 1.40
922 963 3.181441 GGTGGGGATTACGGGCTTAATTA 60.181 47.826 0.00 0.00 0.00 1.40
923 964 2.423803 GGTGGGGATTACGGGCTTAATT 60.424 50.000 0.00 0.00 0.00 1.40
924 965 1.144298 GGTGGGGATTACGGGCTTAAT 59.856 52.381 0.00 0.00 0.00 1.40
925 966 0.547553 GGTGGGGATTACGGGCTTAA 59.452 55.000 0.00 0.00 0.00 1.85
926 967 1.347243 GGGTGGGGATTACGGGCTTA 61.347 60.000 0.00 0.00 0.00 3.09
927 968 2.686572 GGGTGGGGATTACGGGCTT 61.687 63.158 0.00 0.00 0.00 4.35
928 969 3.094498 GGGTGGGGATTACGGGCT 61.094 66.667 0.00 0.00 0.00 5.19
929 970 3.413300 TGGGTGGGGATTACGGGC 61.413 66.667 0.00 0.00 0.00 6.13
979 1058 2.100605 AAACATGAGAGAAGCGGGTC 57.899 50.000 0.00 0.00 0.00 4.46
1015 1118 2.264794 GAATCGGGTGCGTGGAGT 59.735 61.111 0.00 0.00 0.00 3.85
1105 1242 2.041922 TATGGAGAGCACCGGCCT 60.042 61.111 0.00 0.00 42.56 5.19
1242 1418 3.052082 GAGCACATGCAGCACCGT 61.052 61.111 12.59 0.00 45.16 4.83
1247 1423 2.125391 TCGAGGAGCACATGCAGC 60.125 61.111 6.64 2.68 45.16 5.25
1383 1565 2.176273 GCTGTCCATGCGCTTCGAT 61.176 57.895 9.73 0.00 0.00 3.59
1537 1758 3.357823 GCATGTCGACGTTGATTTGTTTC 59.642 43.478 19.15 0.00 0.00 2.78
1589 1847 3.954904 TCGGAGTCAAATTGGGTCAAAAA 59.045 39.130 0.00 0.00 0.00 1.94
1634 1892 2.350522 GCTCACTCCACCATACTGTTG 58.649 52.381 0.00 0.00 0.00 3.33
1636 1894 0.905357 GGCTCACTCCACCATACTGT 59.095 55.000 0.00 0.00 0.00 3.55
1669 1927 7.492669 GCATGTGTACAGAACTACAGATTACAT 59.507 37.037 0.00 0.00 30.22 2.29
1681 1941 3.058016 ACTGCATTGCATGTGTACAGAAC 60.058 43.478 12.53 0.00 38.13 3.01
1682 1942 3.058085 CACTGCATTGCATGTGTACAGAA 60.058 43.478 22.38 0.00 38.13 3.02
1683 1943 2.485038 CACTGCATTGCATGTGTACAGA 59.515 45.455 22.38 0.00 38.13 3.41
1684 1944 2.485038 TCACTGCATTGCATGTGTACAG 59.515 45.455 26.11 12.44 38.13 2.74
1685 1945 2.485038 CTCACTGCATTGCATGTGTACA 59.515 45.455 26.11 15.04 38.13 2.90
1686 1946 2.730090 GCTCACTGCATTGCATGTGTAC 60.730 50.000 26.11 19.76 42.31 2.90
1687 1947 1.469703 GCTCACTGCATTGCATGTGTA 59.530 47.619 26.11 17.75 42.31 2.90
1688 1948 0.242825 GCTCACTGCATTGCATGTGT 59.757 50.000 26.11 15.16 42.31 3.72
1689 1949 0.526211 AGCTCACTGCATTGCATGTG 59.474 50.000 23.66 23.66 45.94 3.21
1690 1950 0.809385 GAGCTCACTGCATTGCATGT 59.191 50.000 12.53 9.58 45.94 3.21
1691 1951 0.248094 CGAGCTCACTGCATTGCATG 60.248 55.000 15.40 12.31 45.94 4.06
1692 1952 0.675837 ACGAGCTCACTGCATTGCAT 60.676 50.000 15.40 0.00 45.94 3.96
1693 1953 1.293963 GACGAGCTCACTGCATTGCA 61.294 55.000 15.40 11.50 45.94 4.08
1694 1954 1.423056 GACGAGCTCACTGCATTGC 59.577 57.895 15.40 0.46 45.94 3.56
1695 1955 0.390866 AGGACGAGCTCACTGCATTG 60.391 55.000 15.40 0.00 45.94 2.82
1696 1956 0.108424 GAGGACGAGCTCACTGCATT 60.108 55.000 15.40 0.00 45.94 3.56
1759 2020 3.208594 TGAGATGCATGAACCATGTAGC 58.791 45.455 2.46 6.93 43.10 3.58
1810 2123 3.674753 GCGACAAACAAATCATCAAAGGG 59.325 43.478 0.00 0.00 0.00 3.95
1829 2142 2.032054 CAGAAGCAGAAAGTTGTTGCGA 59.968 45.455 6.29 0.00 42.47 5.10
1861 2185 0.798776 GCATCCACACTCCAGAAACG 59.201 55.000 0.00 0.00 0.00 3.60
1984 2308 4.812476 CGCCTGATCCGTTCGGCA 62.812 66.667 6.35 0.00 41.30 5.69
2020 2344 3.642778 ATGTCGTCGGAACCGCTGG 62.643 63.158 8.48 0.59 39.59 4.85
2021 2345 1.289109 AAATGTCGTCGGAACCGCTG 61.289 55.000 8.48 3.54 39.59 5.18
2022 2346 1.005394 AAATGTCGTCGGAACCGCT 60.005 52.632 8.48 0.00 39.59 5.52
2036 2360 7.233689 TCGATCGTGAAAATTCTACACAAATG 58.766 34.615 15.94 0.00 34.69 2.32
2074 2399 8.084684 ACAACTAGGAAAATGAAAAATCTCAGC 58.915 33.333 0.00 0.00 0.00 4.26
2135 2476 0.547712 TTCAGGAGTTGGAGGGGGAG 60.548 60.000 0.00 0.00 0.00 4.30
2181 2528 2.493973 CTCTCCTCTGCGAGTGCC 59.506 66.667 0.00 0.00 41.78 5.01
2222 2569 6.817140 ACGGAACTGATTAAGTATTGTCTTCC 59.183 38.462 0.00 0.00 38.56 3.46
2227 2574 6.698380 AGACACGGAACTGATTAAGTATTGT 58.302 36.000 0.00 0.00 38.56 2.71
2229 2576 6.530534 CGAAGACACGGAACTGATTAAGTATT 59.469 38.462 0.00 0.00 38.56 1.89
2248 2606 1.128692 CAACTCATTTCCGGCGAAGAC 59.871 52.381 9.30 0.00 0.00 3.01
2334 2802 2.743183 GCCCAACGAATCTGTAGAGCAT 60.743 50.000 0.00 0.00 0.00 3.79
2335 2803 1.405526 GCCCAACGAATCTGTAGAGCA 60.406 52.381 0.00 0.00 0.00 4.26
2336 2804 1.291132 GCCCAACGAATCTGTAGAGC 58.709 55.000 0.00 0.00 0.00 4.09
2337 2805 2.672961 TGCCCAACGAATCTGTAGAG 57.327 50.000 0.00 0.00 0.00 2.43
2338 2806 2.236146 ACATGCCCAACGAATCTGTAGA 59.764 45.455 0.00 0.00 0.00 2.59
2339 2807 2.632377 ACATGCCCAACGAATCTGTAG 58.368 47.619 0.00 0.00 0.00 2.74
2340 2808 2.779755 ACATGCCCAACGAATCTGTA 57.220 45.000 0.00 0.00 0.00 2.74
2341 2809 2.027192 ACTACATGCCCAACGAATCTGT 60.027 45.455 0.00 0.00 0.00 3.41
2347 2822 1.134818 CAGCTACTACATGCCCAACGA 60.135 52.381 0.00 0.00 0.00 3.85
2429 2923 4.340666 TGGTTACAACGTACTACCAACTCA 59.659 41.667 8.70 0.00 36.03 3.41
2667 3484 1.298014 GCCACTGAACCTCTCCAGG 59.702 63.158 0.00 0.00 46.87 4.45
2668 3485 1.079543 CGCCACTGAACCTCTCCAG 60.080 63.158 0.00 0.00 36.53 3.86
2669 3486 3.059982 CGCCACTGAACCTCTCCA 58.940 61.111 0.00 0.00 0.00 3.86
2670 3487 2.435059 GCGCCACTGAACCTCTCC 60.435 66.667 0.00 0.00 0.00 3.71
2671 3488 1.004440 AAGCGCCACTGAACCTCTC 60.004 57.895 2.29 0.00 0.00 3.20
2672 3489 1.302033 CAAGCGCCACTGAACCTCT 60.302 57.895 2.29 0.00 0.00 3.69
2673 3490 1.301716 TCAAGCGCCACTGAACCTC 60.302 57.895 2.29 0.00 0.00 3.85
2674 3491 1.598130 GTCAAGCGCCACTGAACCT 60.598 57.895 2.29 0.00 0.00 3.50
2675 3492 2.617274 GGTCAAGCGCCACTGAACC 61.617 63.158 2.29 5.79 0.00 3.62
2676 3493 2.946762 GGTCAAGCGCCACTGAAC 59.053 61.111 2.29 3.53 0.00 3.18
2677 3494 2.664851 CGGTCAAGCGCCACTGAA 60.665 61.111 2.29 0.00 0.00 3.02
2678 3495 4.680237 CCGGTCAAGCGCCACTGA 62.680 66.667 2.29 1.27 0.00 3.41
2687 3504 2.361610 ATTGCCTGCCCGGTCAAG 60.362 61.111 0.00 0.00 34.07 3.02
2688 3505 2.361104 GATTGCCTGCCCGGTCAA 60.361 61.111 0.00 0.00 34.72 3.18


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

AutoCloner maintained by Alex Coulton.