Multiple sequence alignment - TraesCS2A01G408000

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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 TraesCS2A01G408000 chr2A 100.000 5755 0 0 1 5755 665704499 665710253 0.000000e+00 10628.0
1 TraesCS2A01G408000 chr2D 93.464 4881 211 50 952 5755 520521063 520525912 0.000000e+00 7147.0
2 TraesCS2A01G408000 chr2D 87.937 945 74 13 1 933 520520162 520521078 0.000000e+00 1077.0
3 TraesCS2A01G408000 chr2D 86.111 72 8 1 1483 1552 586695547 586695618 6.180000e-10 76.8
4 TraesCS2A01G408000 chr2B 93.743 4555 190 43 952 5474 612683761 612688252 0.000000e+00 6745.0
5 TraesCS2A01G408000 chr2B 87.937 572 56 6 365 930 612683209 612683773 0.000000e+00 662.0
6 TraesCS2A01G408000 chr2B 89.189 407 22 12 1 398 612682795 612683188 6.700000e-134 488.0
7 TraesCS2A01G408000 chr2B 97.091 275 8 0 5481 5755 612688292 612688566 1.130000e-126 464.0
8 TraesCS2A01G408000 chr2B 86.111 72 8 1 1483 1552 708185759 708185830 6.180000e-10 76.8
9 TraesCS2A01G408000 chr2B 93.182 44 2 1 1484 1527 335518934 335518892 4.810000e-06 63.9
10 TraesCS2A01G408000 chr1B 88.988 336 29 5 942 1269 31630172 31630507 5.370000e-110 409.0
11 TraesCS2A01G408000 chr1B 86.610 351 37 8 594 934 31629850 31630200 4.210000e-101 379.0
12 TraesCS2A01G408000 chr1B 84.270 356 41 8 160 515 31629511 31629851 3.320000e-87 333.0
13 TraesCS2A01G408000 chr1B 74.622 331 66 16 5288 5610 400312595 400312915 4.680000e-26 130.0
14 TraesCS2A01G408000 chr1D 82.979 141 19 5 5471 5610 297537474 297537610 7.830000e-24 122.0
15 TraesCS2A01G408000 chr1A 84.375 128 17 3 5484 5610 370109095 370109220 7.830000e-24 122.0
16 TraesCS2A01G408000 chr6D 97.500 40 1 0 1483 1522 358227692 358227653 1.030000e-07 69.4
17 TraesCS2A01G408000 chr7A 95.000 40 2 0 1483 1522 643081902 643081863 4.810000e-06 63.9
18 TraesCS2A01G408000 chr6B 95.000 40 2 0 1483 1522 15233253 15233292 4.810000e-06 63.9
19 TraesCS2A01G408000 chr6A 94.872 39 2 0 1483 1521 189573560 189573522 1.730000e-05 62.1


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 TraesCS2A01G408000 chr2A 665704499 665710253 5754 False 10628.000000 10628 100.000000 1 5755 1 chr2A.!!$F1 5754
1 TraesCS2A01G408000 chr2D 520520162 520525912 5750 False 4112.000000 7147 90.700500 1 5755 2 chr2D.!!$F2 5754
2 TraesCS2A01G408000 chr2B 612682795 612688566 5771 False 2089.750000 6745 91.990000 1 5755 4 chr2B.!!$F2 5754
3 TraesCS2A01G408000 chr1B 31629511 31630507 996 False 373.666667 409 86.622667 160 1269 3 chr1B.!!$F2 1109

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
393 465 0.179145 GCTAGCAGCGGTTCTTCGTA 60.179 55.000 10.63 0.00 0.00 3.43 F
396 468 1.084370 AGCAGCGGTTCTTCGTATGC 61.084 55.000 0.00 0.00 41.62 3.14 F
977 1062 1.354368 GTTGGGAATTGGGAGAGTGGA 59.646 52.381 0.00 0.00 0.00 4.02 F
2354 2467 1.609841 GGTCCCAAGTTAGAACCCACG 60.610 57.143 0.00 0.00 0.00 4.94 F
3036 3149 0.621571 TCCCAGTCATTCCCCTCCAG 60.622 60.000 0.00 0.00 0.00 3.86 F
3737 3853 0.319641 GTCCACACTCGGTTCTGGAC 60.320 60.000 11.62 11.62 44.47 4.02 F
4494 4610 0.185416 TCAAACCCGGCCTTTTGGTA 59.815 50.000 16.85 1.75 42.99 3.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2100 2213 0.252103 ACACAGGGTATCCGACTGGT 60.252 55.000 0.00 0.0 36.57 4.00 R
2183 2296 1.490693 CGCCGCTGCTGGTTATGTAG 61.491 60.000 11.14 0.0 34.43 2.74 R
2711 2824 0.458669 GCTTGGGTGGATCAGCATTG 59.541 55.000 0.00 0.0 33.07 2.82 R
3681 3797 0.179065 TCATCAGCATTCTCGGGCAG 60.179 55.000 0.00 0.0 0.00 4.85 R
4470 4586 0.611896 AAAGGCCGGGTTTGATCAGG 60.612 55.000 2.18 0.0 0.00 3.86 R
4572 4689 0.622136 TCATTGCTGCATCCTCACCT 59.378 50.000 1.84 0.0 0.00 4.00 R
5734 5917 2.268280 CTGGACTGCCTGGAGCTG 59.732 66.667 0.00 0.0 44.23 4.24 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
61 62 3.197766 TCTCTGAATATTGGTGCCGAGTT 59.802 43.478 0.00 0.00 0.00 3.01
63 64 5.092554 TCTGAATATTGGTGCCGAGTTTA 57.907 39.130 0.00 0.00 0.00 2.01
254 260 4.947388 GTCTGATTAACTTGGCCCAATACA 59.053 41.667 0.00 0.00 0.00 2.29
269 275 4.744631 CCCAATACAAACACAACTTTCAGC 59.255 41.667 0.00 0.00 0.00 4.26
336 342 3.473923 AAGGCAAAGTCCATTTTGGTG 57.526 42.857 1.28 0.00 39.03 4.17
337 343 1.693606 AGGCAAAGTCCATTTTGGTGG 59.306 47.619 1.28 0.00 39.03 4.61
338 344 1.416030 GGCAAAGTCCATTTTGGTGGT 59.584 47.619 1.28 0.00 39.03 4.16
348 354 7.639378 AGTCCATTTTGGTGGTACTATATTGT 58.361 34.615 0.00 0.00 39.03 2.71
371 431 1.873698 TATAGAACGGGCATTTCGGC 58.126 50.000 0.00 0.00 40.20 5.54
391 463 3.389206 GCTAGCAGCGGTTCTTCG 58.611 61.111 10.63 0.00 0.00 3.79
392 464 1.446272 GCTAGCAGCGGTTCTTCGT 60.446 57.895 10.63 0.00 0.00 3.85
393 465 0.179145 GCTAGCAGCGGTTCTTCGTA 60.179 55.000 10.63 0.00 0.00 3.43
394 466 1.536284 GCTAGCAGCGGTTCTTCGTAT 60.536 52.381 10.63 0.00 0.00 3.06
395 467 2.120232 CTAGCAGCGGTTCTTCGTATG 58.880 52.381 0.00 0.00 0.00 2.39
396 468 1.084370 AGCAGCGGTTCTTCGTATGC 61.084 55.000 0.00 0.00 41.62 3.14
397 469 1.084370 GCAGCGGTTCTTCGTATGCT 61.084 55.000 0.00 0.00 39.78 3.79
398 470 1.359848 CAGCGGTTCTTCGTATGCTT 58.640 50.000 0.00 0.00 0.00 3.91
399 471 1.732259 CAGCGGTTCTTCGTATGCTTT 59.268 47.619 0.00 0.00 0.00 3.51
408 480 5.607939 TCTTCGTATGCTTTGGGAGATAA 57.392 39.130 0.00 0.00 0.00 1.75
412 484 7.872993 TCTTCGTATGCTTTGGGAGATAATTAG 59.127 37.037 0.00 0.00 0.00 1.73
423 495 6.591935 TGGGAGATAATTAGTCCAACATGAC 58.408 40.000 15.35 0.00 35.43 3.06
444 516 4.070009 ACAACCCTTCCTTTCGTTATCAC 58.930 43.478 0.00 0.00 0.00 3.06
445 517 4.202430 ACAACCCTTCCTTTCGTTATCACT 60.202 41.667 0.00 0.00 0.00 3.41
501 577 3.745799 TCACCAGTTTGCCTTTTCGATA 58.254 40.909 0.00 0.00 0.00 2.92
506 582 2.164338 GTTTGCCTTTTCGATACCCCA 58.836 47.619 0.00 0.00 0.00 4.96
525 602 3.308402 CCCAAAATACTTCTGCCTCTCCA 60.308 47.826 0.00 0.00 0.00 3.86
529 606 4.917906 AATACTTCTGCCTCTCCAGTTT 57.082 40.909 0.00 0.00 34.47 2.66
545 622 7.509546 TCTCCAGTTTCAGTTAATCTGTTCTT 58.490 34.615 5.38 0.00 43.97 2.52
547 624 7.509546 TCCAGTTTCAGTTAATCTGTTCTTCT 58.490 34.615 5.38 0.00 43.97 2.85
564 641 9.595823 CTGTTCTTCTTATTTACCTTTCGGATA 57.404 33.333 0.00 0.00 0.00 2.59
580 657 2.915349 GGATACCCCGGAAAACTTCTC 58.085 52.381 0.73 0.00 0.00 2.87
588 665 3.764972 CCCGGAAAACTTCTCTCTCTACT 59.235 47.826 0.73 0.00 0.00 2.57
589 666 4.221041 CCCGGAAAACTTCTCTCTCTACTT 59.779 45.833 0.73 0.00 0.00 2.24
590 667 5.279556 CCCGGAAAACTTCTCTCTCTACTTT 60.280 44.000 0.73 0.00 0.00 2.66
591 668 6.224584 CCGGAAAACTTCTCTCTCTACTTTT 58.775 40.000 0.00 0.00 0.00 2.27
592 669 6.706716 CCGGAAAACTTCTCTCTCTACTTTTT 59.293 38.462 0.00 0.00 0.00 1.94
636 713 5.154222 GTTTGCCTTTTCAATACTCCGAAG 58.846 41.667 0.00 0.00 0.00 3.79
666 743 2.476241 GCGTCAAATTTTGCTCCTTTGG 59.524 45.455 4.19 0.00 32.15 3.28
698 775 2.750948 TCTTGTGACACGGTTAAGCTC 58.249 47.619 2.76 0.00 0.00 4.09
708 785 3.807622 CACGGTTAAGCTCACTGAAGAAA 59.192 43.478 11.02 0.00 0.00 2.52
724 805 7.586300 CACTGAAGAAAACAATACTAAACACGG 59.414 37.037 0.00 0.00 0.00 4.94
727 808 8.675504 TGAAGAAAACAATACTAAACACGGAAA 58.324 29.630 0.00 0.00 0.00 3.13
747 828 4.677673 AACCTGTAACTCTAACCACGTT 57.322 40.909 0.00 0.00 0.00 3.99
828 909 6.263344 GTCTTTGTCTTTTGGGTCTTTGTAC 58.737 40.000 0.00 0.00 0.00 2.90
870 954 3.504134 TGGTGCGCTGTATTTGTTTATGT 59.496 39.130 9.73 0.00 0.00 2.29
921 1006 7.945033 TGGAACATACTTTGAAAATTTGAGC 57.055 32.000 0.00 0.00 0.00 4.26
922 1007 7.725251 TGGAACATACTTTGAAAATTTGAGCT 58.275 30.769 0.00 0.00 0.00 4.09
923 1008 7.652909 TGGAACATACTTTGAAAATTTGAGCTG 59.347 33.333 0.00 0.00 0.00 4.24
924 1009 7.653311 GGAACATACTTTGAAAATTTGAGCTGT 59.347 33.333 0.00 0.00 0.00 4.40
925 1010 8.947055 AACATACTTTGAAAATTTGAGCTGTT 57.053 26.923 0.00 0.64 0.00 3.16
926 1011 8.356533 ACATACTTTGAAAATTTGAGCTGTTG 57.643 30.769 0.00 0.00 0.00 3.33
927 1012 7.439056 ACATACTTTGAAAATTTGAGCTGTTGG 59.561 33.333 0.00 0.00 0.00 3.77
928 1013 5.118286 ACTTTGAAAATTTGAGCTGTTGGG 58.882 37.500 0.00 0.00 0.00 4.12
929 1014 5.104982 ACTTTGAAAATTTGAGCTGTTGGGA 60.105 36.000 0.00 0.00 0.00 4.37
930 1015 4.320608 TGAAAATTTGAGCTGTTGGGAC 57.679 40.909 0.00 0.00 0.00 4.46
931 1016 3.960102 TGAAAATTTGAGCTGTTGGGACT 59.040 39.130 0.00 0.00 0.00 3.85
932 1017 4.405358 TGAAAATTTGAGCTGTTGGGACTT 59.595 37.500 0.00 0.00 0.00 3.01
933 1018 5.104982 TGAAAATTTGAGCTGTTGGGACTTT 60.105 36.000 0.00 0.00 0.00 2.66
934 1019 5.357742 AAATTTGAGCTGTTGGGACTTTT 57.642 34.783 0.00 0.00 0.00 2.27
935 1020 5.357742 AATTTGAGCTGTTGGGACTTTTT 57.642 34.783 0.00 0.00 0.00 1.94
964 1049 3.038280 TGAGAGAGTGAGTTGTTGGGAA 58.962 45.455 0.00 0.00 0.00 3.97
977 1062 1.354368 GTTGGGAATTGGGAGAGTGGA 59.646 52.381 0.00 0.00 0.00 4.02
1154 1253 6.456718 CCAACATGGCAAACAAAAGTTACAAG 60.457 38.462 0.00 0.00 0.00 3.16
1444 1543 6.537566 CAGATGTAAGTTTTGAATCGACTGG 58.462 40.000 0.00 0.00 0.00 4.00
1449 1548 6.540914 TGTAAGTTTTGAATCGACTGGAAACT 59.459 34.615 11.01 11.01 38.54 2.66
1450 1549 7.711772 TGTAAGTTTTGAATCGACTGGAAACTA 59.288 33.333 15.02 2.91 36.60 2.24
1451 1550 6.541111 AGTTTTGAATCGACTGGAAACTAC 57.459 37.500 13.77 0.00 36.06 2.73
1452 1551 5.176958 AGTTTTGAATCGACTGGAAACTACG 59.823 40.000 13.77 0.00 36.06 3.51
1509 1608 4.566004 TCTCTGTCCCAAAATAAGTGTCG 58.434 43.478 0.00 0.00 0.00 4.35
1512 1611 3.142951 TGTCCCAAAATAAGTGTCGTGG 58.857 45.455 0.00 0.00 0.00 4.94
1522 1621 3.470645 AAGTGTCGTGGCTTTAGTTCT 57.529 42.857 0.00 0.00 0.00 3.01
1523 1622 3.470645 AGTGTCGTGGCTTTAGTTCTT 57.529 42.857 0.00 0.00 0.00 2.52
1524 1623 3.131396 AGTGTCGTGGCTTTAGTTCTTG 58.869 45.455 0.00 0.00 0.00 3.02
1525 1624 3.128349 GTGTCGTGGCTTTAGTTCTTGA 58.872 45.455 0.00 0.00 0.00 3.02
1533 1646 6.401153 CGTGGCTTTAGTTCTTGATTACACTC 60.401 42.308 0.00 0.00 0.00 3.51
1587 1700 7.681065 GCGCTATAAACCTCAAAATGTGGTAAT 60.681 37.037 0.00 5.07 42.79 1.89
1627 1740 8.621532 AAGCTTTTGAAGACACTTATGTATGA 57.378 30.769 0.00 0.00 39.95 2.15
1656 1769 2.497675 AGGTGTGGCAGAGTACTATGTG 59.502 50.000 18.25 7.12 0.00 3.21
1784 1897 5.070770 TGCGAATACAATCAATTGCCTTT 57.929 34.783 0.00 0.00 41.38 3.11
1829 1942 1.926510 GCTGAAACAATTTATGCCGGC 59.073 47.619 22.73 22.73 0.00 6.13
1904 2017 5.604565 CCCTTGAAGCAAACAGAAAGAAAT 58.395 37.500 0.00 0.00 0.00 2.17
2126 2239 4.099573 AGTCGGATACCCTGTGTTATTCAG 59.900 45.833 0.00 0.00 0.00 3.02
2183 2296 2.286831 CCATCAATCAGCGAATGCAGAC 60.287 50.000 0.00 0.00 46.23 3.51
2352 2465 1.982958 GAGGTCCCAAGTTAGAACCCA 59.017 52.381 0.00 0.00 0.00 4.51
2354 2467 1.609841 GGTCCCAAGTTAGAACCCACG 60.610 57.143 0.00 0.00 0.00 4.94
2371 2484 4.019681 ACCCACGGAATCTGATGAAGTAAA 60.020 41.667 0.00 0.00 0.00 2.01
2383 2496 8.621532 TCTGATGAAGTAAATAAGTTGCAAGT 57.378 30.769 0.00 0.00 0.00 3.16
2498 2611 4.702131 AGGAAACCATCACAGCTAAATGAC 59.298 41.667 4.23 0.00 0.00 3.06
2711 2824 6.331061 CACCATGAGTAGTAGTACTTTCCAC 58.669 44.000 8.40 0.26 39.78 4.02
2958 3071 7.095910 TCAAGATGAAGACATTTCTCAGACTC 58.904 38.462 0.00 0.00 36.82 3.36
3036 3149 0.621571 TCCCAGTCATTCCCCTCCAG 60.622 60.000 0.00 0.00 0.00 3.86
3137 3250 1.672356 CCCACCAAGCGAAGACCAG 60.672 63.158 0.00 0.00 0.00 4.00
3165 3278 2.119801 ATCGACCAATGCAAGCTCTT 57.880 45.000 0.00 0.00 0.00 2.85
3166 3279 1.442769 TCGACCAATGCAAGCTCTTC 58.557 50.000 0.00 0.00 0.00 2.87
3167 3280 1.159285 CGACCAATGCAAGCTCTTCA 58.841 50.000 0.00 0.00 0.00 3.02
3186 3299 7.468141 TCTTCATCAGCTAGTAAAGAGTTGA 57.532 36.000 0.00 0.00 38.34 3.18
3251 3364 5.819901 GCACACTATTTCTCAGGAGCTAATT 59.180 40.000 0.00 0.00 0.00 1.40
3262 3375 5.918608 TCAGGAGCTAATTGATGAAGGTAC 58.081 41.667 0.00 0.00 0.00 3.34
3404 3518 3.996921 ACCTACAACTCTCTACCGAGA 57.003 47.619 0.00 0.00 43.82 4.04
3405 3519 3.608796 ACCTACAACTCTCTACCGAGAC 58.391 50.000 0.00 0.00 41.26 3.36
3424 3538 4.766375 AGACCGAAACTTCAAGTGAAAGA 58.234 39.130 0.00 0.00 33.07 2.52
3432 3546 7.698130 CGAAACTTCAAGTGAAAGATTTGAACT 59.302 33.333 0.00 0.00 36.28 3.01
3490 3605 6.643770 AGCAATTTTGATACAAAGTTGAGCTG 59.356 34.615 25.06 9.08 31.19 4.24
3560 3676 2.257207 TCTTCCGAAGAACCACATCCT 58.743 47.619 8.45 0.00 33.83 3.24
3561 3677 2.028112 TCTTCCGAAGAACCACATCCTG 60.028 50.000 8.45 0.00 33.83 3.86
3581 3697 4.821805 CCTGTGAATGTGTTACCAGAAGTT 59.178 41.667 0.00 0.00 0.00 2.66
3584 3700 6.588204 TGTGAATGTGTTACCAGAAGTTACT 58.412 36.000 0.00 0.00 0.00 2.24
3645 3761 1.354040 CAGTCCATCAGCAGTCGTTC 58.646 55.000 0.00 0.00 0.00 3.95
3681 3797 2.070783 CCATGTTGACATTTGCTTGCC 58.929 47.619 0.00 0.00 33.61 4.52
3737 3853 0.319641 GTCCACACTCGGTTCTGGAC 60.320 60.000 11.62 11.62 44.47 4.02
3817 3933 8.477419 TGAGTGAAAATAAGAAATTCCACCTT 57.523 30.769 0.00 0.00 0.00 3.50
3818 3934 8.923270 TGAGTGAAAATAAGAAATTCCACCTTT 58.077 29.630 0.00 0.00 0.00 3.11
3819 3935 9.764363 GAGTGAAAATAAGAAATTCCACCTTTT 57.236 29.630 0.00 0.00 0.00 2.27
4040 4156 2.223758 GCTGTTCGGAGAGGTGGTATAC 60.224 54.545 0.00 0.00 38.43 1.47
4200 4316 4.766891 CCATGGGTAGCTTTTCTGAAGAAA 59.233 41.667 2.85 1.31 41.77 2.52
4218 4334 2.624674 AAAACGTGAGGCCAGCACCT 62.625 55.000 19.35 8.38 45.04 4.00
4280 4396 3.885724 TTGCCTTGTCGATGATACTGA 57.114 42.857 0.00 0.00 0.00 3.41
4291 4407 6.708502 TGTCGATGATACTGAAACTCCAAAAA 59.291 34.615 0.00 0.00 0.00 1.94
4293 4409 6.015504 CGATGATACTGAAACTCCAAAAACG 58.984 40.000 0.00 0.00 0.00 3.60
4347 4463 2.186903 CCGTGGATGGACCTTCGG 59.813 66.667 1.51 0.00 44.31 4.30
4356 4472 3.195698 GACCTTCGGTGCGATGCC 61.196 66.667 0.00 0.00 35.25 4.40
4368 4484 2.094659 CGATGCCGAAGACGCTGTT 61.095 57.895 0.00 0.00 38.22 3.16
4437 4553 6.675026 GGTATTTGACCTGTGGTTTTAAGAC 58.325 40.000 0.00 0.00 45.89 3.01
4464 4580 8.539544 TGTAGATCTTTGTAGTCATCCATGAAA 58.460 33.333 0.00 0.00 38.75 2.69
4470 4586 8.946085 TCTTTGTAGTCATCCATGAAATTACAC 58.054 33.333 0.00 0.00 38.75 2.90
4472 4588 6.957631 TGTAGTCATCCATGAAATTACACCT 58.042 36.000 0.00 0.00 38.75 4.00
4494 4610 0.185416 TCAAACCCGGCCTTTTGGTA 59.815 50.000 16.85 1.75 42.99 3.25
4572 4689 8.902540 TCAGCAGTGTTTTCTTTTATAGAGAA 57.097 30.769 0.00 0.00 33.51 2.87
4573 4690 8.993121 TCAGCAGTGTTTTCTTTTATAGAGAAG 58.007 33.333 0.00 0.00 34.84 2.85
4574 4691 8.233190 CAGCAGTGTTTTCTTTTATAGAGAAGG 58.767 37.037 0.00 0.00 34.84 3.46
4582 4699 9.672673 TTTTCTTTTATAGAGAAGGTGAGGATG 57.327 33.333 2.22 0.00 34.84 3.51
4591 4708 0.622136 AGGTGAGGATGCAGCAATGA 59.378 50.000 3.51 0.00 38.68 2.57
4592 4709 1.214673 AGGTGAGGATGCAGCAATGAT 59.785 47.619 3.51 0.00 38.68 2.45
4613 4731 7.841282 TGATCTGTTATAAGGAGGTAAGGAG 57.159 40.000 0.00 0.00 0.00 3.69
4618 4736 7.342284 TCTGTTATAAGGAGGTAAGGAGAAGTG 59.658 40.741 0.00 0.00 0.00 3.16
4751 4873 5.357257 CCGGTGCTGTTAGTTGTATAATCT 58.643 41.667 0.00 0.00 0.00 2.40
4825 4947 3.563808 TCACTTGATGTTGTTGGCTGTAC 59.436 43.478 0.00 0.00 0.00 2.90
4842 4964 4.440802 GCTGTACAGGTGTGAGAATAGGAG 60.441 50.000 23.95 0.00 0.00 3.69
4962 5094 2.983229 ACTCTGGTGAATCATGTCAGC 58.017 47.619 8.21 8.21 44.52 4.26
4997 5133 1.285962 GCCCATGCCCATCCATATACT 59.714 52.381 0.00 0.00 0.00 2.12
5057 5193 5.300034 TCTTTGGCATCCATTGTCATGATAC 59.700 40.000 0.00 0.00 40.31 2.24
5079 5217 0.899720 AATGCAATGCAACTGAGGGG 59.100 50.000 13.45 0.00 43.62 4.79
5088 5226 1.623686 AACTGAGGGGCCATGGGAT 60.624 57.895 15.13 0.00 0.00 3.85
5171 5315 7.087639 GCTGCTATCTTCCATTAGTGTACTAG 58.912 42.308 0.00 0.00 0.00 2.57
5211 5355 6.567701 GCATAATGTACATATTGTTGGACGGG 60.568 42.308 9.21 0.00 32.77 5.28
5255 5399 3.391382 GGTCCAGGTCCAGGTCCG 61.391 72.222 0.83 0.00 0.00 4.79
5433 5583 8.582437 AGAACAGATTCATCACATCACAAATTT 58.418 29.630 0.00 0.00 37.29 1.82
5434 5584 9.199982 GAACAGATTCATCACATCACAAATTTT 57.800 29.630 0.00 0.00 34.70 1.82
5451 5601 7.224362 CACAAATTTTCACAATTCAAGCCTGTA 59.776 33.333 0.00 0.00 0.00 2.74
5454 5604 8.538409 AATTTTCACAATTCAAGCCTGTAATC 57.462 30.769 0.00 0.00 0.00 1.75
5491 5674 0.959867 TGTGGTGATCATGGTTGCCG 60.960 55.000 0.00 0.00 0.00 5.69
5736 5919 2.202362 CTCGTGCTCCGACGACAG 60.202 66.667 0.00 0.00 43.26 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 0.618968 AGAATCCGACCTCTGGGCTT 60.619 55.000 0.00 0.00 35.63 4.35
17 18 4.720649 TTAACTCAGAATCCGACCTCTG 57.279 45.455 3.76 3.76 40.42 3.35
18 19 5.205056 AGATTAACTCAGAATCCGACCTCT 58.795 41.667 0.00 0.00 34.42 3.69
61 62 1.270625 CCTTGTGTTCCGCCTCTGTAA 60.271 52.381 0.00 0.00 0.00 2.41
63 64 1.071471 CCTTGTGTTCCGCCTCTGT 59.929 57.895 0.00 0.00 0.00 3.41
210 215 4.973168 ACTGTCTAGCCAGATGTTGAAAA 58.027 39.130 7.98 0.00 36.30 2.29
215 220 3.435275 TCAGACTGTCTAGCCAGATGTT 58.565 45.455 7.98 0.00 36.30 2.71
216 221 3.093057 TCAGACTGTCTAGCCAGATGT 57.907 47.619 7.98 0.00 36.30 3.06
269 275 1.060713 CGACGGAGCACTACAACAAG 58.939 55.000 0.00 0.00 0.00 3.16
303 309 3.243839 ACTTTGCCTTTGCGTCATTGATT 60.244 39.130 0.00 0.00 41.78 2.57
304 310 2.297033 ACTTTGCCTTTGCGTCATTGAT 59.703 40.909 0.00 0.00 41.78 2.57
305 311 1.680735 ACTTTGCCTTTGCGTCATTGA 59.319 42.857 0.00 0.00 41.78 2.57
306 312 2.053627 GACTTTGCCTTTGCGTCATTG 58.946 47.619 0.00 0.00 41.78 2.82
348 354 4.439016 GCCGAAATGCCCGTTCTATAAAAA 60.439 41.667 0.00 0.00 0.00 1.94
371 431 1.078848 AAGAACCGCTGCTAGCTGG 60.079 57.895 21.46 18.79 39.60 4.85
384 444 3.596214 TCTCCCAAAGCATACGAAGAAC 58.404 45.455 0.00 0.00 0.00 3.01
387 459 6.867662 AATTATCTCCCAAAGCATACGAAG 57.132 37.500 0.00 0.00 0.00 3.79
388 460 7.506114 ACTAATTATCTCCCAAAGCATACGAA 58.494 34.615 0.00 0.00 0.00 3.85
389 461 7.062749 ACTAATTATCTCCCAAAGCATACGA 57.937 36.000 0.00 0.00 0.00 3.43
390 462 6.369065 GGACTAATTATCTCCCAAAGCATACG 59.631 42.308 0.00 0.00 0.00 3.06
391 463 7.224297 TGGACTAATTATCTCCCAAAGCATAC 58.776 38.462 6.80 0.00 0.00 2.39
392 464 7.387265 TGGACTAATTATCTCCCAAAGCATA 57.613 36.000 6.80 0.00 0.00 3.14
393 465 6.266131 TGGACTAATTATCTCCCAAAGCAT 57.734 37.500 6.80 0.00 0.00 3.79
394 466 5.708736 TGGACTAATTATCTCCCAAAGCA 57.291 39.130 6.80 0.00 0.00 3.91
395 467 5.885912 TGTTGGACTAATTATCTCCCAAAGC 59.114 40.000 0.00 0.00 35.71 3.51
396 468 7.775093 TCATGTTGGACTAATTATCTCCCAAAG 59.225 37.037 0.00 0.00 35.71 2.77
397 469 7.556275 GTCATGTTGGACTAATTATCTCCCAAA 59.444 37.037 0.00 0.00 35.71 3.28
398 470 7.054124 GTCATGTTGGACTAATTATCTCCCAA 58.946 38.462 6.80 0.00 34.92 4.12
399 471 6.157820 TGTCATGTTGGACTAATTATCTCCCA 59.842 38.462 6.80 0.00 38.61 4.37
408 480 4.657814 AGGGTTGTCATGTTGGACTAAT 57.342 40.909 0.00 0.00 38.61 1.73
412 484 1.886542 GGAAGGGTTGTCATGTTGGAC 59.113 52.381 0.00 0.00 38.29 4.02
423 495 4.154195 CAGTGATAACGAAAGGAAGGGTTG 59.846 45.833 0.00 0.00 0.00 3.77
463 539 5.529060 ACTGGTGAACTCTGAAGATTTCAAC 59.471 40.000 17.15 17.15 45.77 3.18
484 560 2.163613 GGGGTATCGAAAAGGCAAACTG 59.836 50.000 0.00 0.00 0.00 3.16
486 562 2.164338 TGGGGTATCGAAAAGGCAAAC 58.836 47.619 0.00 0.00 0.00 2.93
501 577 2.649816 AGAGGCAGAAGTATTTTGGGGT 59.350 45.455 0.00 0.00 0.00 4.95
506 582 4.917906 ACTGGAGAGGCAGAAGTATTTT 57.082 40.909 0.00 0.00 0.00 1.82
560 637 2.504585 AGAGAAGTTTTCCGGGGTATCC 59.495 50.000 0.00 0.00 0.00 2.59
564 641 1.624312 GAGAGAGAAGTTTTCCGGGGT 59.376 52.381 0.00 0.00 0.00 4.95
592 669 7.308229 GCAAACATGCCACATATTTGGTAAAAA 60.308 33.333 9.62 0.00 39.09 1.94
666 743 5.022021 CGTGTCACAAGAACTTGAAAGAAC 58.978 41.667 19.35 10.26 42.93 3.01
698 775 7.586300 CCGTGTTTAGTATTGTTTTCTTCAGTG 59.414 37.037 0.00 0.00 0.00 3.66
708 785 5.824097 ACAGGTTTCCGTGTTTAGTATTGTT 59.176 36.000 0.00 0.00 36.31 2.83
724 805 4.625028 ACGTGGTTAGAGTTACAGGTTTC 58.375 43.478 0.00 0.00 0.00 2.78
727 808 3.638160 TCAACGTGGTTAGAGTTACAGGT 59.362 43.478 0.00 0.00 33.89 4.00
747 828 0.810648 GGATGCAAATGTCGGCTTCA 59.189 50.000 0.00 0.00 36.30 3.02
828 909 7.254185 CGCACCAAATAAATGAATGAGAAATGG 60.254 37.037 0.00 0.00 0.00 3.16
870 954 6.308015 AGTGAATGGTGGCATAACTAACTA 57.692 37.500 0.00 0.00 0.00 2.24
912 997 5.357742 AAAAGTCCCAACAGCTCAAATTT 57.642 34.783 0.00 0.00 0.00 1.82
933 1018 8.110860 ACAACTCACTCTCTCAAAAAGAAAAA 57.889 30.769 0.00 0.00 32.23 1.94
934 1019 7.687941 ACAACTCACTCTCTCAAAAAGAAAA 57.312 32.000 0.00 0.00 32.23 2.29
935 1020 7.362056 CCAACAACTCACTCTCTCAAAAAGAAA 60.362 37.037 0.00 0.00 32.23 2.52
936 1021 6.094048 CCAACAACTCACTCTCTCAAAAAGAA 59.906 38.462 0.00 0.00 32.23 2.52
937 1022 5.586243 CCAACAACTCACTCTCTCAAAAAGA 59.414 40.000 0.00 0.00 0.00 2.52
938 1023 5.220931 CCCAACAACTCACTCTCTCAAAAAG 60.221 44.000 0.00 0.00 0.00 2.27
939 1024 4.640201 CCCAACAACTCACTCTCTCAAAAA 59.360 41.667 0.00 0.00 0.00 1.94
940 1025 4.080582 TCCCAACAACTCACTCTCTCAAAA 60.081 41.667 0.00 0.00 0.00 2.44
941 1026 3.454447 TCCCAACAACTCACTCTCTCAAA 59.546 43.478 0.00 0.00 0.00 2.69
942 1027 3.038280 TCCCAACAACTCACTCTCTCAA 58.962 45.455 0.00 0.00 0.00 3.02
943 1028 2.677914 TCCCAACAACTCACTCTCTCA 58.322 47.619 0.00 0.00 0.00 3.27
944 1029 3.753294 TTCCCAACAACTCACTCTCTC 57.247 47.619 0.00 0.00 0.00 3.20
945 1030 4.392940 CAATTCCCAACAACTCACTCTCT 58.607 43.478 0.00 0.00 0.00 3.10
946 1031 3.503748 CCAATTCCCAACAACTCACTCTC 59.496 47.826 0.00 0.00 0.00 3.20
947 1032 3.490348 CCAATTCCCAACAACTCACTCT 58.510 45.455 0.00 0.00 0.00 3.24
948 1033 2.558359 CCCAATTCCCAACAACTCACTC 59.442 50.000 0.00 0.00 0.00 3.51
949 1034 2.176798 TCCCAATTCCCAACAACTCACT 59.823 45.455 0.00 0.00 0.00 3.41
950 1035 2.558359 CTCCCAATTCCCAACAACTCAC 59.442 50.000 0.00 0.00 0.00 3.51
964 1049 2.721906 TCCCTTTTTCCACTCTCCCAAT 59.278 45.455 0.00 0.00 0.00 3.16
977 1062 2.421388 GGCAACCAAAGCTTCCCTTTTT 60.421 45.455 0.00 0.00 41.75 1.94
1046 1138 1.902504 GCATAAAGCACACGCGTAAAC 59.097 47.619 13.44 3.55 45.49 2.01
1154 1253 1.627550 GAACCTTCTCGTTCCGCTGC 61.628 60.000 0.00 0.00 36.87 5.25
1178 1277 0.907704 TCAGCCCCGACATACAACCT 60.908 55.000 0.00 0.00 0.00 3.50
1256 1355 5.248640 AGTTCCTCACCTGAATATGTGTTG 58.751 41.667 0.00 0.00 34.14 3.33
1318 1417 8.025445 GCAAATTCATGGACCAGATAATACATC 58.975 37.037 0.00 0.00 0.00 3.06
1509 1608 6.426937 TGAGTGTAATCAAGAACTAAAGCCAC 59.573 38.462 0.00 0.00 0.00 5.01
1512 1611 9.899226 AAAATGAGTGTAATCAAGAACTAAAGC 57.101 29.630 0.00 0.00 31.76 3.51
1522 1621 4.457603 CCGTCCCAAAATGAGTGTAATCAA 59.542 41.667 0.00 0.00 31.76 2.57
1523 1622 4.006989 CCGTCCCAAAATGAGTGTAATCA 58.993 43.478 0.00 0.00 0.00 2.57
1524 1623 4.258543 TCCGTCCCAAAATGAGTGTAATC 58.741 43.478 0.00 0.00 0.00 1.75
1525 1624 4.261801 CTCCGTCCCAAAATGAGTGTAAT 58.738 43.478 0.00 0.00 0.00 1.89
1533 1646 1.032114 GCTCCCTCCGTCCCAAAATG 61.032 60.000 0.00 0.00 0.00 2.32
1587 1700 9.150348 CTTCAAAAGCTTAAAGAAGTTCCAAAA 57.850 29.630 19.46 0.00 34.90 2.44
1625 1738 5.815581 ACTCTGCCACACCTAAAATATTCA 58.184 37.500 0.00 0.00 0.00 2.57
1627 1740 6.958767 AGTACTCTGCCACACCTAAAATATT 58.041 36.000 0.00 0.00 0.00 1.28
1639 1752 6.332735 TGATATCACATAGTACTCTGCCAC 57.667 41.667 8.10 0.00 0.00 5.01
1693 1806 9.344772 TCCAACATACCGCATATAACTAAAAAT 57.655 29.630 0.00 0.00 0.00 1.82
1784 1897 4.081254 CCATGGTCTCTGTCATTCTGAGAA 60.081 45.833 2.57 0.00 47.00 2.87
1829 1942 3.118629 TCAGTGCTCTAATACTTGGCCTG 60.119 47.826 3.32 0.00 0.00 4.85
1904 2017 4.079970 CACTAGAGAATATCCCCAGCGTA 58.920 47.826 0.00 0.00 0.00 4.42
2100 2213 0.252103 ACACAGGGTATCCGACTGGT 60.252 55.000 0.00 0.00 36.57 4.00
2126 2239 2.680339 GGCCACATCTTCTAGTGCTTTC 59.320 50.000 0.00 0.00 34.48 2.62
2183 2296 1.490693 CGCCGCTGCTGGTTATGTAG 61.491 60.000 11.14 0.00 34.43 2.74
2352 2465 8.883731 CAACTTATTTACTTCATCAGATTCCGT 58.116 33.333 0.00 0.00 0.00 4.69
2354 2467 8.677300 TGCAACTTATTTACTTCATCAGATTCC 58.323 33.333 0.00 0.00 0.00 3.01
2371 2484 4.377022 CGTTAGTCGCAACTTGCAACTTAT 60.377 41.667 12.51 0.00 37.33 1.73
2383 2496 1.801395 GCTCTATGCCGTTAGTCGCAA 60.801 52.381 0.00 0.00 38.35 4.85
2711 2824 0.458669 GCTTGGGTGGATCAGCATTG 59.541 55.000 0.00 0.00 33.07 2.82
2809 2922 7.778470 AAGTTTGTTTTCTTGTCAACAACAA 57.222 28.000 8.11 8.11 45.60 2.83
2810 2923 7.778470 AAAGTTTGTTTTCTTGTCAACAACA 57.222 28.000 0.00 0.00 41.49 3.33
2811 2924 9.187455 TCTAAAGTTTGTTTTCTTGTCAACAAC 57.813 29.630 0.00 0.00 41.49 3.32
2812 2925 9.405587 CTCTAAAGTTTGTTTTCTTGTCAACAA 57.594 29.630 0.00 0.00 40.36 2.83
2979 3092 5.455326 CCTCCGGATGTGAAATTAATCTCCT 60.455 44.000 3.57 0.00 0.00 3.69
3036 3149 5.362430 CCTGAGATATACTAATGCCCTCCTC 59.638 48.000 0.00 0.00 0.00 3.71
3137 3250 1.936547 GCATTGGTCGATTCTGTCTCC 59.063 52.381 0.00 0.00 0.00 3.71
3165 3278 7.840931 TCATTCAACTCTTTACTAGCTGATGA 58.159 34.615 0.00 0.00 0.00 2.92
3166 3279 8.386606 GTTCATTCAACTCTTTACTAGCTGATG 58.613 37.037 0.00 0.00 31.50 3.07
3167 3280 8.317679 AGTTCATTCAACTCTTTACTAGCTGAT 58.682 33.333 0.00 0.00 42.07 2.90
3186 3299 4.778579 CCATGATCTGTCCTGAGTTCATT 58.221 43.478 0.00 0.00 32.41 2.57
3216 3329 5.675538 AGAAATAGTGTGCTCCTCCAATAC 58.324 41.667 0.00 0.00 0.00 1.89
3251 3364 3.261580 CATGAGCAACGTACCTTCATCA 58.738 45.455 0.00 0.00 0.00 3.07
3262 3375 9.849607 CTTACACTTTATAATACATGAGCAACG 57.150 33.333 0.00 0.00 0.00 4.10
3290 3403 5.568620 AAACTAAAGCTGAAGAGAAGGGA 57.431 39.130 2.72 0.00 0.00 4.20
3374 3488 4.409247 AGAGAGTTGTAGGTTTTCCACTGT 59.591 41.667 0.00 0.00 43.73 3.55
3404 3518 6.094881 TCAAATCTTTCACTTGAAGTTTCGGT 59.905 34.615 0.00 0.00 35.21 4.69
3405 3519 6.494842 TCAAATCTTTCACTTGAAGTTTCGG 58.505 36.000 0.00 0.00 35.21 4.30
3473 3588 7.333528 AGAAAAACAGCTCAACTTTGTATCA 57.666 32.000 0.00 0.00 0.00 2.15
3560 3676 6.481976 CAGTAACTTCTGGTAACACATTCACA 59.518 38.462 0.00 0.00 46.17 3.58
3561 3677 6.482308 ACAGTAACTTCTGGTAACACATTCAC 59.518 38.462 0.00 0.00 46.17 3.18
3581 3697 2.497675 GTCCTCAGGAGAATGCACAGTA 59.502 50.000 0.00 0.00 29.39 2.74
3584 3700 0.615331 GGTCCTCAGGAGAATGCACA 59.385 55.000 0.00 0.00 29.39 4.57
3645 3761 1.538512 CATGGATGGCTTGGCTAATCG 59.461 52.381 0.00 0.00 0.00 3.34
3681 3797 0.179065 TCATCAGCATTCTCGGGCAG 60.179 55.000 0.00 0.00 0.00 4.85
3737 3853 3.288092 GGTACTATTTGCCAAGGAAGGG 58.712 50.000 0.00 0.00 0.00 3.95
4040 4156 1.073964 CTCAAGCACTGACACATCCG 58.926 55.000 0.00 0.00 0.00 4.18
4200 4316 2.594592 GGTGCTGGCCTCACGTTT 60.595 61.111 18.13 0.00 35.39 3.60
4218 4334 2.108168 CTAACGAGTTCCATCCCCAGA 58.892 52.381 0.00 0.00 0.00 3.86
4263 4379 4.806247 GGAGTTTCAGTATCATCGACAAGG 59.194 45.833 0.00 0.00 0.00 3.61
4280 4396 5.826208 ACCTCATCTAACGTTTTTGGAGTTT 59.174 36.000 5.91 0.00 0.00 2.66
4291 4407 1.066858 CAGCACCACCTCATCTAACGT 60.067 52.381 0.00 0.00 0.00 3.99
4293 4409 3.334583 TTCAGCACCACCTCATCTAAC 57.665 47.619 0.00 0.00 0.00 2.34
4347 4463 4.210304 GCGTCTTCGGCATCGCAC 62.210 66.667 0.00 0.00 46.40 5.34
4356 4472 3.367932 ACACATCAATAACAGCGTCTTCG 59.632 43.478 0.00 0.00 40.37 3.79
4368 4484 4.104579 AGCATACCATCCCACACATCAATA 59.895 41.667 0.00 0.00 0.00 1.90
4437 4553 7.720442 TCATGGATGACTACAAAGATCTACAG 58.280 38.462 0.00 0.00 0.00 2.74
4464 4580 2.944094 GCCGGGTTTGATCAGGTGTAAT 60.944 50.000 2.18 0.00 0.00 1.89
4470 4586 0.611896 AAAGGCCGGGTTTGATCAGG 60.612 55.000 2.18 0.00 0.00 3.86
4472 4588 0.965439 CAAAAGGCCGGGTTTGATCA 59.035 50.000 19.17 0.00 36.96 2.92
4548 4665 8.233190 CCTTCTCTATAAAAGAAAACACTGCTG 58.767 37.037 0.00 0.00 32.60 4.41
4552 4669 9.495572 CTCACCTTCTCTATAAAAGAAAACACT 57.504 33.333 0.42 0.00 32.60 3.55
4563 4680 4.039730 GCTGCATCCTCACCTTCTCTATAA 59.960 45.833 0.00 0.00 0.00 0.98
4572 4689 0.622136 TCATTGCTGCATCCTCACCT 59.378 50.000 1.84 0.00 0.00 4.00
4573 4690 1.607628 GATCATTGCTGCATCCTCACC 59.392 52.381 1.84 0.00 0.00 4.02
4574 4691 2.290916 CAGATCATTGCTGCATCCTCAC 59.709 50.000 1.84 0.00 0.00 3.51
4582 4699 5.180868 CCTCCTTATAACAGATCATTGCTGC 59.819 44.000 0.00 0.00 36.86 5.25
4591 4708 8.068733 ACTTCTCCTTACCTCCTTATAACAGAT 58.931 37.037 0.00 0.00 0.00 2.90
4592 4709 7.342284 CACTTCTCCTTACCTCCTTATAACAGA 59.658 40.741 0.00 0.00 0.00 3.41
4613 4731 8.845227 TCTCATCTATCATACTCACTTCACTTC 58.155 37.037 0.00 0.00 0.00 3.01
4618 4736 9.230122 TGAGATCTCATCTATCATACTCACTTC 57.770 37.037 21.67 0.00 40.38 3.01
4648 4766 8.484214 TGATGAACTGCCTAACTCTATAATCT 57.516 34.615 0.00 0.00 0.00 2.40
4691 4809 5.551760 ACTGTTATTCGCTCCATCAAAAG 57.448 39.130 0.00 0.00 0.00 2.27
4751 4873 6.068010 AGTGTCTGGAACCACATTTATTCAA 58.932 36.000 0.00 0.00 33.99 2.69
4770 4892 6.151144 AGCATAACCAAACAATTCCTAGTGTC 59.849 38.462 0.00 0.00 29.99 3.67
4825 4947 5.128499 ACTCAATCTCCTATTCTCACACCTG 59.872 44.000 0.00 0.00 0.00 4.00
4842 4964 7.336931 ACAATCTATACACACCCAAACTCAATC 59.663 37.037 0.00 0.00 0.00 2.67
4992 5128 8.467598 GTCACTTGTGAATGTTCCTCTAGTATA 58.532 37.037 4.93 0.00 0.00 1.47
4997 5133 5.545063 TGTCACTTGTGAATGTTCCTCTA 57.455 39.130 4.93 0.00 0.00 2.43
5057 5193 2.416836 CCCTCAGTTGCATTGCATTCTG 60.417 50.000 25.19 25.19 38.76 3.02
5079 5217 2.701951 ACATTCATTCCAATCCCATGGC 59.298 45.455 6.09 0.00 40.46 4.40
5088 5226 3.364549 CTTGGGGCTACATTCATTCCAA 58.635 45.455 0.00 0.00 0.00 3.53
5171 5315 6.317789 ACATTATGCCATAACATGTAGTGC 57.682 37.500 0.00 0.40 0.00 4.40
5211 5355 3.508744 CCAAAATGCTGGTCCATACAC 57.491 47.619 0.00 0.00 0.00 2.90
5255 5399 1.876156 GATCATTCGTTCATCCTGCCC 59.124 52.381 0.00 0.00 0.00 5.36
5268 5412 5.732633 AGGAAGATCGGATGATGATCATTC 58.267 41.667 10.14 6.50 43.73 2.67
5282 5426 1.009449 GAGTCGGCGAGGAAGATCG 60.009 63.158 11.20 0.00 45.48 3.69
5401 5548 3.503363 TGTGATGAATCTGTTCTTGTGGC 59.497 43.478 0.00 0.00 35.33 5.01
5402 5549 5.413523 TGATGTGATGAATCTGTTCTTGTGG 59.586 40.000 0.00 0.00 35.33 4.17
5433 5583 6.003326 TCTGATTACAGGCTTGAATTGTGAA 58.997 36.000 1.40 0.00 43.60 3.18
5434 5584 5.559770 TCTGATTACAGGCTTGAATTGTGA 58.440 37.500 1.40 0.00 43.60 3.58
5451 5601 4.520492 ACACCAAAGCTTTTCGATCTGATT 59.480 37.500 9.53 0.00 0.00 2.57
5454 5604 3.558505 CACACCAAAGCTTTTCGATCTG 58.441 45.455 9.53 0.00 0.00 2.90
5491 5674 3.365364 GCAAGATACAGCACAACAAGGTC 60.365 47.826 0.00 0.00 0.00 3.85
5734 5917 2.268280 CTGGACTGCCTGGAGCTG 59.732 66.667 0.00 0.00 44.23 4.24
5736 5919 3.972971 CTGCTGGACTGCCTGGAGC 62.973 68.421 0.00 0.00 42.76 4.70


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

AutoCloner maintained by Alex Coulton.