Multiple sequence alignment - TraesCS6D01G016900

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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 TraesCS6D01G016900 chr6D 100.000 5094 0 0 1 5094 7085014 7090107 0.000000e+00 9407.0
1 TraesCS6D01G016900 chr6D 89.815 648 41 7 4470 5094 107816901 107817546 0.000000e+00 808.0
2 TraesCS6D01G016900 chr6D 86.335 644 48 21 4468 5085 21358993 21359622 0.000000e+00 665.0
3 TraesCS6D01G016900 chr6A 94.694 2582 97 15 1895 4472 6716639 6719184 0.000000e+00 3973.0
4 TraesCS6D01G016900 chr6A 88.778 900 64 8 1 898 6712023 6712887 0.000000e+00 1068.0
5 TraesCS6D01G016900 chr6A 92.491 293 21 1 975 1266 6713103 6713395 7.890000e-113 418.0
6 TraesCS6D01G016900 chr6A 89.655 174 18 0 1329 1502 6713402 6713575 6.640000e-54 222.0
7 TraesCS6D01G016900 chr6B 88.383 1515 159 13 2580 4088 12655182 12656685 0.000000e+00 1807.0
8 TraesCS6D01G016900 chr6B 88.499 1426 154 6 2667 4086 12645538 12646959 0.000000e+00 1716.0
9 TraesCS6D01G016900 chr6B 81.896 939 163 6 685 1622 12640847 12641779 0.000000e+00 785.0
10 TraesCS6D01G016900 chr6B 79.387 1077 183 28 456 1516 12653162 12654215 0.000000e+00 723.0
11 TraesCS6D01G016900 chr6B 77.706 933 185 17 2953 3872 20699857 20698935 2.680000e-152 549.0
12 TraesCS6D01G016900 chr6B 79.281 584 100 15 1958 2537 12643026 12643592 6.180000e-104 388.0
13 TraesCS6D01G016900 chr6B 83.887 391 47 11 4095 4473 12656728 12657114 4.850000e-95 359.0
14 TraesCS6D01G016900 chr6B 80.851 188 32 4 4453 4637 14188405 14188219 1.480000e-30 145.0
15 TraesCS6D01G016900 chr6B 83.459 133 15 6 2543 2671 12643658 12643787 3.220000e-22 117.0
16 TraesCS6D01G016900 chr5D 91.420 641 32 6 4472 5094 488398092 488398727 0.000000e+00 857.0
17 TraesCS6D01G016900 chr5D 88.498 426 30 11 4472 4879 368034215 368033791 9.850000e-137 497.0
18 TraesCS6D01G016900 chr5D 100.000 29 0 0 868 896 500134911 500134883 3.000000e-03 54.7
19 TraesCS6D01G016900 chr1D 90.122 658 38 7 4464 5094 447335393 447336050 0.000000e+00 830.0
20 TraesCS6D01G016900 chr1D 88.594 640 43 12 4472 5088 202538867 202538235 0.000000e+00 750.0
21 TraesCS6D01G016900 chr1D 85.871 637 57 16 4470 5088 93955197 93954576 0.000000e+00 647.0
22 TraesCS6D01G016900 chr1D 96.970 33 1 0 3605 3637 38729346 38729378 7.120000e-04 56.5
23 TraesCS6D01G016900 chr2D 87.097 651 39 18 4472 5094 346044319 346043686 0.000000e+00 695.0
24 TraesCS6D01G016900 chr2D 86.154 650 58 11 4470 5094 333497536 333496894 0.000000e+00 673.0
25 TraesCS6D01G016900 chr2D 84.034 119 10 9 4445 4558 424199805 424199919 6.980000e-19 106.0
26 TraesCS6D01G016900 chr2D 84.848 99 9 5 4458 4555 14884139 14884232 1.510000e-15 95.3
27 TraesCS6D01G016900 chr7D 86.012 672 57 14 4456 5094 51834707 51834040 0.000000e+00 686.0
28 TraesCS6D01G016900 chr7D 81.861 634 93 9 4472 5094 38487371 38486749 9.780000e-142 514.0
29 TraesCS6D01G016900 chr7D 88.010 392 24 5 4726 5094 48846337 48845946 4.680000e-120 442.0
30 TraesCS6D01G016900 chrUn 85.015 654 60 17 4474 5094 283230986 283231634 9.310000e-177 630.0
31 TraesCS6D01G016900 chrUn 85.038 655 59 17 4474 5094 348004945 348004296 9.310000e-177 630.0
32 TraesCS6D01G016900 chr5A 78.049 943 186 19 2943 3873 624723395 624722462 4.420000e-160 575.0
33 TraesCS6D01G016900 chr5A 75.810 1050 221 26 2839 3870 624711914 624710880 7.610000e-138 501.0
34 TraesCS6D01G016900 chr5A 77.327 666 94 26 4457 5088 706695311 706694669 1.760000e-89 340.0
35 TraesCS6D01G016900 chr5A 89.130 46 5 0 3605 3650 33176570 33176525 1.980000e-04 58.4
36 TraesCS6D01G016900 chr3D 74.906 530 98 27 4468 4975 338302553 338302037 5.170000e-50 209.0
37 TraesCS6D01G016900 chr5B 82.979 188 26 4 4453 4637 681213623 681213439 1.130000e-36 165.0
38 TraesCS6D01G016900 chr5B 81.667 180 30 3 4458 4635 558690932 558690754 4.110000e-31 147.0
39 TraesCS6D01G016900 chr5B 91.304 46 4 0 3605 3650 41255434 41255389 4.260000e-06 63.9
40 TraesCS6D01G016900 chr3A 100.000 31 0 0 866 896 738679576 738679546 1.980000e-04 58.4
41 TraesCS6D01G016900 chr1B 81.690 71 11 2 3606 3674 9581451 9581521 1.980000e-04 58.4
42 TraesCS6D01G016900 chr1B 82.353 68 10 2 3609 3674 9894207 9894140 1.980000e-04 58.4
43 TraesCS6D01G016900 chr1B 82.353 68 10 2 3571 3637 58557961 58558027 1.980000e-04 58.4
44 TraesCS6D01G016900 chr1A 96.970 33 1 0 3605 3637 38703431 38703463 7.120000e-04 56.5


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 TraesCS6D01G016900 chr6D 7085014 7090107 5093 False 9407.00 9407 100.000000 1 5094 1 chr6D.!!$F1 5093
1 TraesCS6D01G016900 chr6D 107816901 107817546 645 False 808.00 808 89.815000 4470 5094 1 chr6D.!!$F3 624
2 TraesCS6D01G016900 chr6D 21358993 21359622 629 False 665.00 665 86.335000 4468 5085 1 chr6D.!!$F2 617
3 TraesCS6D01G016900 chr6A 6712023 6719184 7161 False 1420.25 3973 91.404500 1 4472 4 chr6A.!!$F1 4471
4 TraesCS6D01G016900 chr6B 12653162 12657114 3952 False 963.00 1807 83.885667 456 4473 3 chr6B.!!$F2 4017
5 TraesCS6D01G016900 chr6B 12640847 12646959 6112 False 751.50 1716 83.283750 685 4086 4 chr6B.!!$F1 3401
6 TraesCS6D01G016900 chr6B 20698935 20699857 922 True 549.00 549 77.706000 2953 3872 1 chr6B.!!$R2 919
7 TraesCS6D01G016900 chr5D 488398092 488398727 635 False 857.00 857 91.420000 4472 5094 1 chr5D.!!$F1 622
8 TraesCS6D01G016900 chr1D 447335393 447336050 657 False 830.00 830 90.122000 4464 5094 1 chr1D.!!$F2 630
9 TraesCS6D01G016900 chr1D 202538235 202538867 632 True 750.00 750 88.594000 4472 5088 1 chr1D.!!$R2 616
10 TraesCS6D01G016900 chr1D 93954576 93955197 621 True 647.00 647 85.871000 4470 5088 1 chr1D.!!$R1 618
11 TraesCS6D01G016900 chr2D 346043686 346044319 633 True 695.00 695 87.097000 4472 5094 1 chr2D.!!$R2 622
12 TraesCS6D01G016900 chr2D 333496894 333497536 642 True 673.00 673 86.154000 4470 5094 1 chr2D.!!$R1 624
13 TraesCS6D01G016900 chr7D 51834040 51834707 667 True 686.00 686 86.012000 4456 5094 1 chr7D.!!$R3 638
14 TraesCS6D01G016900 chr7D 38486749 38487371 622 True 514.00 514 81.861000 4472 5094 1 chr7D.!!$R1 622
15 TraesCS6D01G016900 chrUn 283230986 283231634 648 False 630.00 630 85.015000 4474 5094 1 chrUn.!!$F1 620
16 TraesCS6D01G016900 chrUn 348004296 348004945 649 True 630.00 630 85.038000 4474 5094 1 chrUn.!!$R1 620
17 TraesCS6D01G016900 chr5A 624722462 624723395 933 True 575.00 575 78.049000 2943 3873 1 chr5A.!!$R3 930
18 TraesCS6D01G016900 chr5A 624710880 624711914 1034 True 501.00 501 75.810000 2839 3870 1 chr5A.!!$R2 1031
19 TraesCS6D01G016900 chr5A 706694669 706695311 642 True 340.00 340 77.327000 4457 5088 1 chr5A.!!$R4 631
20 TraesCS6D01G016900 chr3D 338302037 338302553 516 True 209.00 209 74.906000 4468 4975 1 chr3D.!!$R1 507

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
620 629 0.178068 GAATGGAGTGCGGCTTCCTA 59.822 55.0 19.73 10.36 0.00 2.94 F
623 632 0.178068 TGGAGTGCGGCTTCCTAATC 59.822 55.0 19.73 1.74 0.00 1.75 F
705 717 0.179092 AAGTAGCCGGCCGTATGAAC 60.179 55.0 26.15 14.22 0.00 3.18 F
1849 3173 0.179124 CAGAGGCCGTGCTCTAGAAC 60.179 60.0 0.00 0.00 0.00 3.01 F
1851 3175 0.179124 GAGGCCGTGCTCTAGAACAG 60.179 60.0 0.00 0.00 0.00 3.16 F
3576 8401 0.249996 ACGTTTGGGTACTTGGACCG 60.250 55.0 0.00 0.00 40.76 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1714 3020 0.179048 TTGCTCCCATGATAGCGGTG 60.179 55.000 12.70 0.03 41.77 4.94 R
1856 3180 0.541863 CATAAACCAGGACCCGCTCT 59.458 55.000 0.00 0.00 0.00 4.09 R
2061 5061 1.601903 ACATCGTCGTGTGCAATTTGT 59.398 42.857 0.00 0.00 0.00 2.83 R
2920 7742 1.817099 CTGCCTTCGGATGTGGCTC 60.817 63.158 14.96 0.00 46.23 4.70 R
3718 8545 2.224917 TGGTCTTGCTTTTAACCCCGAT 60.225 45.455 0.00 0.00 0.00 4.18 R
4682 9587 1.176619 AAGAAACGGCGGGAAAAGGG 61.177 55.000 13.24 0.00 0.00 3.95 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 5.351458 GTTCACAAGAAACAGCAAGGAAAT 58.649 37.500 0.00 0.00 35.08 2.17
63 64 6.072112 TCACAAGAAACAGCAAGGAAATAC 57.928 37.500 0.00 0.00 0.00 1.89
77 78 5.333566 AGGAAATACACTTCCCTGGAAAA 57.666 39.130 0.00 0.00 45.28 2.29
114 115 6.240894 TGCAGAAACTTATTTCATCTGGACT 58.759 36.000 2.86 0.00 45.78 3.85
115 116 7.394016 TGCAGAAACTTATTTCATCTGGACTA 58.606 34.615 2.86 0.00 45.78 2.59
187 188 0.836606 TGGACAAGTCAGGAACAGCA 59.163 50.000 2.29 0.00 0.00 4.41
193 194 1.673665 GTCAGGAACAGCAGGGCAG 60.674 63.158 0.00 0.00 0.00 4.85
328 329 1.202782 AGCATCCATGATGAGGACAGC 60.203 52.381 8.21 0.00 42.09 4.40
340 341 1.056700 AGGACAGCCCAGTTGTCTGT 61.057 55.000 10.72 2.37 42.09 3.41
344 345 0.664761 CAGCCCAGTTGTCTGTGTTG 59.335 55.000 0.00 0.00 39.82 3.33
377 378 1.191535 CAGTGGGGACAAGGACGATA 58.808 55.000 0.00 0.00 46.06 2.92
414 415 1.610522 ACAGCACCACAAATCAGCTTC 59.389 47.619 0.00 0.00 32.35 3.86
419 420 3.737774 GCACCACAAATCAGCTTCTTTTC 59.262 43.478 0.00 0.00 0.00 2.29
440 443 1.696063 AGCAACAGCACCACAAATCT 58.304 45.000 0.00 0.00 0.00 2.40
444 447 1.696063 ACAGCACCACAAATCTGCTT 58.304 45.000 0.00 0.00 39.28 3.91
445 448 2.034124 ACAGCACCACAAATCTGCTTT 58.966 42.857 0.00 0.00 39.28 3.51
446 449 2.431782 ACAGCACCACAAATCTGCTTTT 59.568 40.909 0.00 0.00 39.28 2.27
447 450 3.118665 ACAGCACCACAAATCTGCTTTTT 60.119 39.130 0.00 0.00 39.28 1.94
532 535 9.152595 GTAATGTGCTCTAGGCCTATAAATAAC 57.847 37.037 14.30 8.06 40.92 1.89
542 545 9.754382 CTAGGCCTATAAATAACGTAACTTGAA 57.246 33.333 14.30 0.00 0.00 2.69
563 566 9.918630 CTTGAAAAAGGATGTTGATTCATTAGT 57.081 29.630 0.00 0.00 0.00 2.24
620 629 0.178068 GAATGGAGTGCGGCTTCCTA 59.822 55.000 19.73 10.36 0.00 2.94
621 630 0.618458 AATGGAGTGCGGCTTCCTAA 59.382 50.000 19.73 6.25 0.00 2.69
622 631 0.839946 ATGGAGTGCGGCTTCCTAAT 59.160 50.000 19.73 7.87 0.00 1.73
623 632 0.178068 TGGAGTGCGGCTTCCTAATC 59.822 55.000 19.73 1.74 0.00 1.75
624 633 0.533085 GGAGTGCGGCTTCCTAATCC 60.533 60.000 14.28 2.98 0.00 3.01
625 634 0.466124 GAGTGCGGCTTCCTAATCCT 59.534 55.000 0.00 0.00 0.00 3.24
667 679 1.299926 GGACGCAGACAACACGAGT 60.300 57.895 0.00 0.00 0.00 4.18
690 702 4.382320 GCGCCGTGGGGACAAGTA 62.382 66.667 7.20 0.00 46.06 2.24
704 716 0.179094 CAAGTAGCCGGCCGTATGAA 60.179 55.000 26.15 1.11 0.00 2.57
705 717 0.179092 AAGTAGCCGGCCGTATGAAC 60.179 55.000 26.15 14.22 0.00 3.18
707 719 0.460635 GTAGCCGGCCGTATGAACAA 60.461 55.000 26.15 0.00 0.00 2.83
728 740 1.419922 CAATCTTGCCGTTCCGTCG 59.580 57.895 0.00 0.00 0.00 5.12
761 773 1.071471 CAGGTGCCCGAAGAAGTGT 59.929 57.895 0.00 0.00 0.00 3.55
785 797 0.687757 ATCTGAGCTTCGCCTACCCA 60.688 55.000 0.00 0.00 0.00 4.51
794 806 2.253758 CGCCTACCCATTCGGCATG 61.254 63.158 0.00 0.00 43.95 4.06
845 857 2.254350 CTGACCTGCGTCGTCGAA 59.746 61.111 6.17 0.00 42.37 3.71
899 911 4.148825 GGCATCACCGAGGTCGCT 62.149 66.667 0.00 0.00 38.18 4.93
914 935 4.133796 GCTGCCGGCCATTGGTTC 62.134 66.667 26.77 0.00 34.27 3.62
915 936 3.451894 CTGCCGGCCATTGGTTCC 61.452 66.667 26.77 0.00 0.00 3.62
924 945 1.439353 CCATTGGTTCCGGCATCGAG 61.439 60.000 0.00 0.00 39.00 4.04
957 978 3.067833 GCCGGAAATAAGCATCTCCTAC 58.932 50.000 5.05 0.00 0.00 3.18
958 979 3.494398 GCCGGAAATAAGCATCTCCTACA 60.494 47.826 5.05 0.00 0.00 2.74
963 984 5.353394 AAATAAGCATCTCCTACACCGAA 57.647 39.130 0.00 0.00 0.00 4.30
976 1147 2.047560 CCGAAACCGTCCCTGTCC 60.048 66.667 0.00 0.00 0.00 4.02
977 1148 2.431942 CGAAACCGTCCCTGTCCG 60.432 66.667 0.00 0.00 0.00 4.79
1024 1195 4.410400 CTTGGTCACCTCCCGGGC 62.410 72.222 18.49 0.00 39.10 6.13
1035 1206 0.811616 CTCCCGGGCGATCTTTCTTG 60.812 60.000 18.49 0.00 0.00 3.02
1269 1443 3.081409 GGCGAGGAAGGCAGGGTA 61.081 66.667 0.00 0.00 36.61 3.69
1273 1447 0.613777 CGAGGAAGGCAGGGTAAACT 59.386 55.000 0.00 0.00 0.00 2.66
1285 1459 3.326880 CAGGGTAAACTACACAAGTCCCT 59.673 47.826 0.00 0.00 46.38 4.20
1322 1496 0.796312 GTCACAACGGACGATGCAAT 59.204 50.000 0.00 0.00 0.00 3.56
1341 1515 1.750399 CCTGCTGTGGTATGTGGCC 60.750 63.158 0.00 0.00 0.00 5.36
1349 1523 1.146041 GGTATGTGGCCGATCAGCA 59.854 57.895 2.82 0.00 0.00 4.41
1416 1590 2.517638 AGCAACAGCAGCTGCACA 60.518 55.556 38.24 0.00 45.16 4.57
1421 1595 1.808343 CAACAGCAGCTGCACAGATAA 59.192 47.619 38.24 0.00 45.16 1.75
1428 1602 3.426695 GCAGCTGCACAGATAACGATTTT 60.427 43.478 33.36 0.00 41.59 1.82
1446 1620 5.636121 CGATTTTACATATAGCGGCTACCAA 59.364 40.000 12.67 1.35 0.00 3.67
1456 1630 1.490693 CGGCTACCAATGCTACTGCG 61.491 60.000 0.00 0.00 43.34 5.18
1494 1668 1.335132 ATCCCTATGTTCGCGGTGGT 61.335 55.000 6.13 0.00 0.00 4.16
1520 1694 1.792006 CGCGACAAAGGTAACCTTCT 58.208 50.000 0.00 0.00 43.92 2.85
1522 1696 2.546789 CGCGACAAAGGTAACCTTCTTT 59.453 45.455 0.00 0.00 43.92 2.52
1594 2306 7.130269 GGTAAGTTTTACTGTGCACTTTGTAG 58.870 38.462 19.41 9.04 31.83 2.74
1615 2329 4.658063 AGAACATCACCGGGAACAATTAA 58.342 39.130 6.32 0.00 0.00 1.40
1618 2759 6.887545 AGAACATCACCGGGAACAATTAATTA 59.112 34.615 6.32 0.00 0.00 1.40
1626 2767 7.225341 CACCGGGAACAATTAATTAGTACTACC 59.775 40.741 6.32 0.00 0.00 3.18
1630 2771 7.654923 GGGAACAATTAATTAGTACTACCTCCG 59.345 40.741 0.91 0.00 0.00 4.63
1631 2772 8.200120 GGAACAATTAATTAGTACTACCTCCGT 58.800 37.037 0.91 0.00 0.00 4.69
1632 2773 9.242477 GAACAATTAATTAGTACTACCTCCGTC 57.758 37.037 0.91 0.00 0.00 4.79
1633 2774 7.720442 ACAATTAATTAGTACTACCTCCGTCC 58.280 38.462 0.91 0.00 0.00 4.79
1634 2775 6.566197 ATTAATTAGTACTACCTCCGTCCG 57.434 41.667 0.91 0.00 0.00 4.79
1637 2778 2.496899 AGTACTACCTCCGTCCGAAA 57.503 50.000 0.00 0.00 0.00 3.46
1694 3000 4.530857 CCCGTCCTCATCGCACCC 62.531 72.222 0.00 0.00 0.00 4.61
1695 3001 3.770040 CCGTCCTCATCGCACCCA 61.770 66.667 0.00 0.00 0.00 4.51
1696 3002 2.501128 CGTCCTCATCGCACCCAT 59.499 61.111 0.00 0.00 0.00 4.00
1698 3004 0.319040 CGTCCTCATCGCACCCATAG 60.319 60.000 0.00 0.00 0.00 2.23
1700 3006 1.139058 GTCCTCATCGCACCCATAGTT 59.861 52.381 0.00 0.00 0.00 2.24
1701 3007 1.837439 TCCTCATCGCACCCATAGTTT 59.163 47.619 0.00 0.00 0.00 2.66
1702 3008 1.942657 CCTCATCGCACCCATAGTTTG 59.057 52.381 0.00 0.00 0.00 2.93
1704 3010 2.868583 CTCATCGCACCCATAGTTTGAG 59.131 50.000 0.00 0.00 0.00 3.02
1705 3011 2.236146 TCATCGCACCCATAGTTTGAGT 59.764 45.455 0.00 0.00 0.00 3.41
1706 3012 2.380084 TCGCACCCATAGTTTGAGTC 57.620 50.000 0.00 0.00 0.00 3.36
1708 3014 2.236146 TCGCACCCATAGTTTGAGTCAT 59.764 45.455 0.00 0.00 0.00 3.06
1709 3015 2.609459 CGCACCCATAGTTTGAGTCATC 59.391 50.000 0.00 0.00 0.00 2.92
1710 3016 2.609459 GCACCCATAGTTTGAGTCATCG 59.391 50.000 0.00 0.00 0.00 3.84
1711 3017 2.609459 CACCCATAGTTTGAGTCATCGC 59.391 50.000 0.00 0.00 0.00 4.58
1712 3018 2.236146 ACCCATAGTTTGAGTCATCGCA 59.764 45.455 0.00 0.00 0.00 5.10
1713 3019 2.609459 CCCATAGTTTGAGTCATCGCAC 59.391 50.000 0.00 0.00 0.00 5.34
1714 3020 2.609459 CCATAGTTTGAGTCATCGCACC 59.391 50.000 0.00 0.00 0.00 5.01
1718 3024 0.948623 TTTGAGTCATCGCACCACCG 60.949 55.000 0.00 0.00 0.00 4.94
1725 3031 0.601046 CATCGCACCACCGCTATCAT 60.601 55.000 0.00 0.00 0.00 2.45
1732 3038 1.447217 CACCGCTATCATGGGAGCA 59.553 57.895 16.73 0.00 38.69 4.26
1766 3072 2.034066 CGGGCACACCTCCATGTT 59.966 61.111 0.00 0.00 36.97 2.71
1822 3146 1.141053 CAGAGCCAACCCATACTACCC 59.859 57.143 0.00 0.00 0.00 3.69
1823 3147 0.472898 GAGCCAACCCATACTACCCC 59.527 60.000 0.00 0.00 0.00 4.95
1829 3153 1.889174 ACCCATACTACCCCAACCTC 58.111 55.000 0.00 0.00 0.00 3.85
1834 3158 2.544844 TACTACCCCAACCTCCAGAG 57.455 55.000 0.00 0.00 0.00 3.35
1844 3168 3.073735 CTCCAGAGGCCGTGCTCT 61.074 66.667 0.00 0.00 0.00 4.09
1845 3169 1.754621 CTCCAGAGGCCGTGCTCTA 60.755 63.158 0.00 0.00 0.00 2.43
1846 3170 1.733402 CTCCAGAGGCCGTGCTCTAG 61.733 65.000 0.00 0.00 0.00 2.43
1848 3172 1.323271 CCAGAGGCCGTGCTCTAGAA 61.323 60.000 0.00 0.00 0.00 2.10
1849 3173 0.179124 CAGAGGCCGTGCTCTAGAAC 60.179 60.000 0.00 0.00 0.00 3.01
1851 3175 0.179124 GAGGCCGTGCTCTAGAACAG 60.179 60.000 0.00 0.00 0.00 3.16
1852 3176 1.811679 GGCCGTGCTCTAGAACAGC 60.812 63.158 0.00 0.00 37.40 4.40
1862 4138 0.524392 CTAGAACAGCACGAGAGCGG 60.524 60.000 0.00 0.00 43.17 5.52
1873 4149 1.601419 CGAGAGCGGGTCCTGGTTTA 61.601 60.000 3.34 0.00 0.00 2.01
1882 4158 3.558321 CGGGTCCTGGTTTATGTTTCTCA 60.558 47.826 0.00 0.00 0.00 3.27
1923 4920 8.815565 TGTCTTTAATTTGGCTGGTCATATTA 57.184 30.769 0.00 0.00 0.00 0.98
1935 4932 9.420118 TGGCTGGTCATATTATTAGAAAAATGT 57.580 29.630 0.00 0.00 0.00 2.71
1936 4933 9.899226 GGCTGGTCATATTATTAGAAAAATGTC 57.101 33.333 0.00 0.00 0.00 3.06
1995 4992 2.834574 TTAAACACAACGTGGCACAG 57.165 45.000 19.09 12.74 41.80 3.66
2015 5012 6.144402 GCACAGTACATTTCATCCAAAACTTG 59.856 38.462 0.00 0.00 0.00 3.16
2031 5031 8.447053 TCCAAAACTTGTAATTTTTCTTTGTGC 58.553 29.630 0.00 0.00 0.00 4.57
2050 5050 7.652524 TTGTGCAAATAGGATATAAGCCAAA 57.347 32.000 0.00 0.00 0.00 3.28
2056 5056 8.359642 GCAAATAGGATATAAGCCAAATCAACA 58.640 33.333 0.00 0.00 0.00 3.33
2061 5061 7.118723 AGGATATAAGCCAAATCAACAAGTGA 58.881 34.615 0.00 0.00 41.67 3.41
2105 5105 5.543405 TGGAAACATTGACATCCAATTTCCT 59.457 36.000 16.96 0.00 45.44 3.36
2168 5168 4.329801 CAGCTGAATTGCACTAATACGACA 59.670 41.667 8.42 0.00 34.99 4.35
2240 5240 4.713792 AAATATTGAGGAGGGGCTAGTG 57.286 45.455 0.00 0.00 0.00 2.74
2282 5282 4.769859 TTATTACAACCTGCGGTTTTCC 57.230 40.909 9.78 0.00 44.33 3.13
2300 5300 5.570262 TTTCCGCGAATTATATTGACGAG 57.430 39.130 8.23 0.00 0.00 4.18
2345 5345 1.838112 ATTGGCACACATCATCGGTT 58.162 45.000 0.00 0.00 39.29 4.44
2411 5411 4.697514 ACATGTCTAGGTATGCATGTGTC 58.302 43.478 10.16 0.00 46.70 3.67
2416 5416 2.034104 AGGTATGCATGTGTCAGCAG 57.966 50.000 10.16 0.00 44.94 4.24
2430 5430 2.011947 TCAGCAGCAATAGCACATGTC 58.988 47.619 0.00 0.00 45.49 3.06
2510 5510 4.261741 GGCTATCAAGGAAATCCGTACGTA 60.262 45.833 15.21 0.00 42.08 3.57
2512 5512 4.724074 ATCAAGGAAATCCGTACGTACA 57.276 40.909 24.50 7.36 42.08 2.90
2516 5516 5.357878 TCAAGGAAATCCGTACGTACATACT 59.642 40.000 24.50 8.59 42.08 2.12
2549 5549 1.376249 ATCCCTCCCTCCCTCTCTCC 61.376 65.000 0.00 0.00 0.00 3.71
2550 5550 2.612251 CCTCCCTCCCTCTCTCCC 59.388 72.222 0.00 0.00 0.00 4.30
2551 5551 2.018086 CCTCCCTCCCTCTCTCCCT 61.018 68.421 0.00 0.00 0.00 4.20
2552 5552 1.232792 CTCCCTCCCTCTCTCCCTG 59.767 68.421 0.00 0.00 0.00 4.45
2573 5636 6.093633 CCCTGTCTTAAAAAGTTTATCCCTCG 59.906 42.308 0.00 0.00 0.00 4.63
2665 5730 4.855340 AGGTTTGTCATAATACTGTGGGG 58.145 43.478 0.00 0.00 0.00 4.96
2671 5736 5.155161 TGTCATAATACTGTGGGGAGCTAT 58.845 41.667 0.00 0.00 0.00 2.97
2920 7742 7.382218 GGAGTTTTCATTGTACACAAATGGAAG 59.618 37.037 0.00 0.00 39.55 3.46
2924 7746 4.458989 TCATTGTACACAAATGGAAGAGCC 59.541 41.667 0.00 0.00 39.55 4.70
3576 8401 0.249996 ACGTTTGGGTACTTGGACCG 60.250 55.000 0.00 0.00 40.76 4.79
3718 8545 8.232913 AGCAAAACTTGTCAAACTATTTCCTA 57.767 30.769 0.00 0.00 0.00 2.94
4135 9008 6.832804 TGCATCAATAAACAATGCACATTTG 58.167 32.000 5.22 0.00 42.46 2.32
4682 9587 0.653636 CTCTGTCGGCGAGTAGAGAC 59.346 60.000 31.62 13.83 39.13 3.36
4754 9703 0.536006 CATTCCTCCCGCCAATCTCC 60.536 60.000 0.00 0.00 0.00 3.71
4756 9705 2.770048 CCTCCCGCCAATCTCCCT 60.770 66.667 0.00 0.00 0.00 4.20
4811 9781 3.251571 GAAGAAGTACAACGGCTTCGAT 58.748 45.455 0.00 0.00 44.07 3.59
4916 9886 1.874345 GAAGTTCAGCGTCGGGAGGA 61.874 60.000 0.00 0.00 0.00 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 0.782384 GAACGAACGTGAAGCGACAT 59.218 50.000 0.00 0.00 44.77 3.06
23 24 0.525882 TGAACGAACGTGAAGCGACA 60.526 50.000 0.00 4.87 44.77 4.35
33 34 2.222931 TGCTGTTTCTTGTGAACGAACG 60.223 45.455 0.00 0.00 31.02 3.95
77 78 4.729868 AGTTTCTGCACTGGTAAGGATTT 58.270 39.130 0.00 0.00 0.00 2.17
86 87 6.320171 CAGATGAAATAAGTTTCTGCACTGG 58.680 40.000 3.00 0.00 43.30 4.00
114 115 3.165875 GCTCCTGGCCATGTACTCTATA 58.834 50.000 5.51 0.00 34.27 1.31
115 116 1.974236 GCTCCTGGCCATGTACTCTAT 59.026 52.381 5.51 0.00 34.27 1.98
187 188 3.083349 TACATCGCTGCCTGCCCT 61.083 61.111 0.00 0.00 38.78 5.19
193 194 0.179468 TAAAGGGGTACATCGCTGCC 59.821 55.000 0.00 0.00 0.00 4.85
206 207 9.705290 AAATGTTTATTGTAGCAAACTAAAGGG 57.295 29.630 0.00 0.00 35.98 3.95
270 271 7.114866 ACTAGGCAAGGTCTAAGAATAAGTC 57.885 40.000 0.00 0.00 0.00 3.01
275 276 4.362677 TGGACTAGGCAAGGTCTAAGAAT 58.637 43.478 0.00 0.00 33.46 2.40
371 372 2.034685 TGTAGCATCAGCCACTATCGTC 59.965 50.000 0.00 0.00 43.56 4.20
377 378 2.484417 GCTGTATGTAGCATCAGCCACT 60.484 50.000 15.76 0.00 44.84 4.00
379 380 2.245159 GCTGTATGTAGCATCAGCCA 57.755 50.000 15.76 0.00 44.84 4.75
387 388 3.689161 TGATTTGTGGTGCTGTATGTAGC 59.311 43.478 0.00 0.00 43.95 3.58
388 389 4.201851 GCTGATTTGTGGTGCTGTATGTAG 60.202 45.833 0.00 0.00 0.00 2.74
389 390 3.689161 GCTGATTTGTGGTGCTGTATGTA 59.311 43.478 0.00 0.00 0.00 2.29
390 391 2.489329 GCTGATTTGTGGTGCTGTATGT 59.511 45.455 0.00 0.00 0.00 2.29
391 392 2.751259 AGCTGATTTGTGGTGCTGTATG 59.249 45.455 0.00 0.00 32.32 2.39
392 393 3.077484 AGCTGATTTGTGGTGCTGTAT 57.923 42.857 0.00 0.00 32.32 2.29
393 394 2.566833 AGCTGATTTGTGGTGCTGTA 57.433 45.000 0.00 0.00 32.32 2.74
394 395 1.610522 GAAGCTGATTTGTGGTGCTGT 59.389 47.619 0.00 0.00 33.96 4.40
395 396 1.884579 AGAAGCTGATTTGTGGTGCTG 59.115 47.619 0.00 0.00 33.96 4.41
396 397 2.283145 AGAAGCTGATTTGTGGTGCT 57.717 45.000 0.00 0.00 35.30 4.40
414 415 2.618241 TGTGGTGCTGTTGCTAGAAAAG 59.382 45.455 0.00 0.00 40.48 2.27
419 420 2.816087 AGATTTGTGGTGCTGTTGCTAG 59.184 45.455 0.00 0.00 40.48 3.42
444 447 4.218417 GCCTCTGCAAAGAGATGGTAAAAA 59.782 41.667 4.59 0.00 38.13 1.94
445 448 3.758554 GCCTCTGCAAAGAGATGGTAAAA 59.241 43.478 4.59 0.00 38.13 1.52
446 449 3.347216 GCCTCTGCAAAGAGATGGTAAA 58.653 45.455 4.59 0.00 38.13 2.01
447 450 2.356125 GGCCTCTGCAAAGAGATGGTAA 60.356 50.000 4.59 0.00 40.13 2.85
448 451 1.210478 GGCCTCTGCAAAGAGATGGTA 59.790 52.381 4.59 0.00 40.13 3.25
449 452 0.034670 GGCCTCTGCAAAGAGATGGT 60.035 55.000 4.59 0.00 40.13 3.55
450 453 0.255318 AGGCCTCTGCAAAGAGATGG 59.745 55.000 0.00 0.00 40.13 3.51
451 454 1.666054 GAGGCCTCTGCAAAGAGATG 58.334 55.000 26.25 0.00 40.13 2.90
532 535 7.860373 TGAATCAACATCCTTTTTCAAGTTACG 59.140 33.333 0.00 0.00 0.00 3.18
542 545 9.520515 ACTGTACTAATGAATCAACATCCTTTT 57.479 29.630 0.00 0.00 0.00 2.27
570 574 4.159693 TCCGCTCTGCTCTATCTGTTTTAA 59.840 41.667 0.00 0.00 0.00 1.52
620 629 0.877071 CAAGCACAAGCACGAGGATT 59.123 50.000 0.00 0.00 45.49 3.01
621 630 1.580845 GCAAGCACAAGCACGAGGAT 61.581 55.000 0.00 0.00 45.49 3.24
622 631 2.253758 GCAAGCACAAGCACGAGGA 61.254 57.895 0.00 0.00 45.49 3.71
623 632 2.253452 GCAAGCACAAGCACGAGG 59.747 61.111 0.00 0.00 45.49 4.63
624 633 2.127496 CGCAAGCACAAGCACGAG 60.127 61.111 0.00 0.00 45.49 4.18
625 634 2.468670 AACGCAAGCACAAGCACGA 61.469 52.632 0.00 0.00 45.49 4.35
680 692 4.484872 GGCCGGCTACTTGTCCCC 62.485 72.222 28.56 0.41 0.00 4.81
682 694 2.024590 ATACGGCCGGCTACTTGTCC 62.025 60.000 31.76 5.59 0.00 4.02
690 702 1.003112 TTTGTTCATACGGCCGGCT 60.003 52.632 31.76 13.62 0.00 5.52
813 825 0.108019 GTCAGGTTGAAGTCGGGGTT 59.892 55.000 0.00 0.00 0.00 4.11
861 873 4.760047 GCGCAAGAAGAGCCGGGA 62.760 66.667 0.30 0.00 37.02 5.14
864 876 3.843240 GTCGCGCAAGAAGAGCCG 61.843 66.667 8.75 0.00 40.24 5.52
898 910 3.451894 GGAACCAATGGCCGGCAG 61.452 66.667 30.85 14.55 0.00 4.85
906 927 1.439353 CCTCGATGCCGGAACCAATG 61.439 60.000 5.05 0.00 36.24 2.82
907 928 1.153168 CCTCGATGCCGGAACCAAT 60.153 57.895 5.05 0.00 36.24 3.16
908 929 2.267642 CCTCGATGCCGGAACCAA 59.732 61.111 5.05 0.00 36.24 3.67
909 930 3.000819 ACCTCGATGCCGGAACCA 61.001 61.111 5.05 0.00 36.24 3.67
910 931 2.202892 GACCTCGATGCCGGAACC 60.203 66.667 5.05 0.00 36.24 3.62
911 932 2.582498 CGACCTCGATGCCGGAAC 60.582 66.667 5.05 0.00 43.02 3.62
912 933 3.833645 CCGACCTCGATGCCGGAA 61.834 66.667 9.77 0.00 44.29 4.30
938 959 4.058817 GGTGTAGGAGATGCTTATTTCCG 58.941 47.826 0.00 0.00 34.87 4.30
940 961 4.945246 TCGGTGTAGGAGATGCTTATTTC 58.055 43.478 0.00 0.00 0.00 2.17
942 963 5.116882 GTTTCGGTGTAGGAGATGCTTATT 58.883 41.667 0.00 0.00 0.00 1.40
957 978 1.666872 GACAGGGACGGTTTCGGTG 60.667 63.158 0.00 0.00 36.51 4.94
958 979 2.739132 GACAGGGACGGTTTCGGT 59.261 61.111 0.00 0.00 36.51 4.69
963 984 3.692406 GAGCGGACAGGGACGGTT 61.692 66.667 0.00 0.00 41.25 4.44
993 1164 3.997021 GTGACCAAGAGGACATGTTGTAG 59.003 47.826 0.00 0.00 41.48 2.74
1024 1195 4.376819 GGCATCGAATAGCAAGAAAGATCG 60.377 45.833 9.57 0.00 0.00 3.69
1035 1206 3.665323 CGTTTATGCTGGCATCGAATAGC 60.665 47.826 11.53 0.00 37.82 2.97
1141 1312 1.787057 ATCGTCTCCGTGATCTCGCC 61.787 60.000 11.58 0.00 35.01 5.54
1181 1352 4.320456 CGGAGCAGCACCAGGTGT 62.320 66.667 21.26 5.18 44.89 4.16
1261 1435 3.072211 GACTTGTGTAGTTTACCCTGCC 58.928 50.000 0.00 0.00 37.17 4.85
1285 1459 2.143122 GACGCTGATCTTGTTCCACAA 58.857 47.619 0.00 0.00 36.54 3.33
1305 1479 0.096976 GGATTGCATCGTCCGTTGTG 59.903 55.000 0.00 0.00 0.00 3.33
1322 1496 1.299648 GCCACATACCACAGCAGGA 59.700 57.895 0.00 0.00 0.00 3.86
1328 1502 0.177836 CTGATCGGCCACATACCACA 59.822 55.000 2.24 0.00 0.00 4.17
1333 1507 1.209261 TCTTTGCTGATCGGCCACATA 59.791 47.619 23.64 1.33 0.00 2.29
1341 1515 3.911989 GGCACATCTTTGCTGATCG 57.088 52.632 0.00 0.00 42.56 3.69
1349 1523 3.118454 CGGCGTCGGCACATCTTT 61.118 61.111 19.59 0.00 42.47 2.52
1404 1578 0.372679 CGTTATCTGTGCAGCTGCTG 59.627 55.000 36.61 24.80 42.66 4.41
1416 1590 7.321153 AGCCGCTATATGTAAAATCGTTATCT 58.679 34.615 0.00 0.00 0.00 1.98
1421 1595 5.166398 GGTAGCCGCTATATGTAAAATCGT 58.834 41.667 2.79 0.00 0.00 3.73
1428 1602 3.513912 AGCATTGGTAGCCGCTATATGTA 59.486 43.478 2.79 0.00 31.60 2.29
1446 1620 4.873129 CCGCCGTCGCAGTAGCAT 62.873 66.667 0.00 0.00 42.27 3.79
1456 1630 2.028631 GCCTACATACCCGCCGTC 59.971 66.667 0.00 0.00 0.00 4.79
1564 2271 5.007332 AGTGCACAGTAAAACTTACCGAAAG 59.993 40.000 21.04 0.00 41.33 2.62
1569 2277 5.886992 ACAAAGTGCACAGTAAAACTTACC 58.113 37.500 21.04 0.00 32.69 2.85
1594 2306 5.576447 ATTAATTGTTCCCGGTGATGTTC 57.424 39.130 0.00 0.00 0.00 3.18
1615 2329 3.845781 TCGGACGGAGGTAGTACTAAT 57.154 47.619 3.61 0.00 0.00 1.73
1618 2759 2.496899 TTTCGGACGGAGGTAGTACT 57.503 50.000 0.00 0.00 0.00 2.73
1637 2778 2.517402 TGGCGGCTCCGTTGTTTT 60.517 55.556 11.43 0.00 42.09 2.43
1659 2964 3.585428 TTGGGTTGCGATGGGGGT 61.585 61.111 0.00 0.00 0.00 4.95
1694 3000 3.062639 GTGGTGCGATGACTCAAACTATG 59.937 47.826 0.00 0.00 0.00 2.23
1695 3001 3.262420 GTGGTGCGATGACTCAAACTAT 58.738 45.455 0.00 0.00 0.00 2.12
1696 3002 2.611971 GGTGGTGCGATGACTCAAACTA 60.612 50.000 0.00 0.00 0.00 2.24
1698 3004 0.517316 GGTGGTGCGATGACTCAAAC 59.483 55.000 0.00 0.00 0.00 2.93
1700 3006 1.374125 CGGTGGTGCGATGACTCAA 60.374 57.895 0.00 0.00 0.00 3.02
1701 3007 2.261361 CGGTGGTGCGATGACTCA 59.739 61.111 0.00 0.00 0.00 3.41
1702 3008 2.279502 TAGCGGTGGTGCGATGACTC 62.280 60.000 0.00 0.00 40.67 3.36
1704 3010 1.215655 GATAGCGGTGGTGCGATGAC 61.216 60.000 0.00 0.00 40.67 3.06
1705 3011 1.067416 GATAGCGGTGGTGCGATGA 59.933 57.895 0.00 0.00 40.67 2.92
1706 3012 0.601046 ATGATAGCGGTGGTGCGATG 60.601 55.000 0.00 0.00 40.67 3.84
1708 3014 1.227234 CATGATAGCGGTGGTGCGA 60.227 57.895 0.00 0.00 40.67 5.10
1709 3015 2.246739 CCATGATAGCGGTGGTGCG 61.247 63.158 0.00 0.00 40.67 5.34
1710 3016 1.893808 CCCATGATAGCGGTGGTGC 60.894 63.158 0.00 0.00 0.00 5.01
1711 3017 0.250038 CTCCCATGATAGCGGTGGTG 60.250 60.000 0.00 0.00 0.00 4.17
1712 3018 2.044806 GCTCCCATGATAGCGGTGGT 62.045 60.000 0.00 0.00 0.00 4.16
1713 3019 1.302033 GCTCCCATGATAGCGGTGG 60.302 63.158 0.00 0.00 0.00 4.61
1714 3020 0.179048 TTGCTCCCATGATAGCGGTG 60.179 55.000 12.70 0.03 41.77 4.94
1718 3024 1.419387 AGGTCTTGCTCCCATGATAGC 59.581 52.381 11.16 11.16 39.25 2.97
1725 3031 1.984570 CGAGGAGGTCTTGCTCCCA 60.985 63.158 0.00 0.00 40.89 4.37
1732 3038 2.344203 CGCCAGTCGAGGAGGTCTT 61.344 63.158 0.00 0.00 41.67 3.01
1752 3058 2.040544 CGGGAACATGGAGGTGTGC 61.041 63.158 0.00 0.00 31.49 4.57
1755 3061 1.377202 CCACGGGAACATGGAGGTG 60.377 63.158 0.00 0.00 38.26 4.00
1758 3064 2.819595 CGCCACGGGAACATGGAG 60.820 66.667 0.00 0.00 38.26 3.86
1789 3095 2.650116 GCTCTGGAGTTCCCTGCGA 61.650 63.158 0.00 0.00 34.22 5.10
1803 3109 1.508256 GGGTAGTATGGGTTGGCTCT 58.492 55.000 0.00 0.00 0.00 4.09
1829 3153 1.323271 TTCTAGAGCACGGCCTCTGG 61.323 60.000 14.96 12.64 42.01 3.86
1834 3158 1.811679 GCTGTTCTAGAGCACGGCC 60.812 63.158 14.95 0.00 37.55 6.13
1844 3168 1.506718 CCGCTCTCGTGCTGTTCTA 59.493 57.895 0.00 0.00 0.00 2.10
1845 3169 2.259818 CCGCTCTCGTGCTGTTCT 59.740 61.111 0.00 0.00 0.00 3.01
1846 3170 2.811317 CCCGCTCTCGTGCTGTTC 60.811 66.667 0.00 0.00 0.00 3.18
1848 3172 4.057428 GACCCGCTCTCGTGCTGT 62.057 66.667 0.00 0.00 0.00 4.40
1849 3173 4.803426 GGACCCGCTCTCGTGCTG 62.803 72.222 0.00 0.00 0.00 4.41
1851 3175 4.803426 CAGGACCCGCTCTCGTGC 62.803 72.222 0.00 0.00 0.00 5.34
1852 3176 4.135153 CCAGGACCCGCTCTCGTG 62.135 72.222 0.00 0.00 0.00 4.35
1854 3178 1.601419 TAAACCAGGACCCGCTCTCG 61.601 60.000 0.00 0.00 0.00 4.04
1856 3180 0.541863 CATAAACCAGGACCCGCTCT 59.458 55.000 0.00 0.00 0.00 4.09
1862 4138 4.215613 GTGTGAGAAACATAAACCAGGACC 59.784 45.833 0.00 0.00 41.97 4.46
1873 4149 8.767085 CATAATTTTTGCAAGTGTGAGAAACAT 58.233 29.630 0.00 0.00 41.97 2.71
1965 4962 6.525280 CCACGTTGTGTTTAATATAACAAGCC 59.475 38.462 2.87 0.00 39.54 4.35
1971 4968 6.205076 ACTGTGCCACGTTGTGTTTAATATAA 59.795 34.615 0.00 0.00 0.00 0.98
2050 5050 4.805192 GTGTGCAATTTGTCACTTGTTGAT 59.195 37.500 18.26 0.00 36.32 2.57
2056 5056 2.538737 CGTCGTGTGCAATTTGTCACTT 60.539 45.455 18.26 0.00 34.49 3.16
2061 5061 1.601903 ACATCGTCGTGTGCAATTTGT 59.398 42.857 0.00 0.00 0.00 2.83
2168 5168 8.375506 TCATCTTTCATTTGTAGTGTAGAGGTT 58.624 33.333 0.00 0.00 0.00 3.50
2275 5275 4.901881 CGTCAATATAATTCGCGGAAAACC 59.098 41.667 6.13 0.00 0.00 3.27
2282 5282 5.573282 AGATTCCTCGTCAATATAATTCGCG 59.427 40.000 0.00 0.00 0.00 5.87
2283 5283 6.952935 AGATTCCTCGTCAATATAATTCGC 57.047 37.500 0.00 0.00 0.00 4.70
2411 5411 2.014857 AGACATGTGCTATTGCTGCTG 58.985 47.619 1.15 0.00 40.48 4.41
2416 5416 4.095334 TGACAATCAGACATGTGCTATTGC 59.905 41.667 1.15 7.00 40.20 3.56
2430 5430 6.019237 CCATTCATCGTAGAGTTGACAATCAG 60.019 42.308 0.00 0.00 43.63 2.90
2510 5510 4.080526 GGATTACCCTGACAACCAGTATGT 60.081 45.833 0.00 0.00 41.33 2.29
2512 5512 4.772886 GGATTACCCTGACAACCAGTAT 57.227 45.455 0.00 0.00 41.33 2.12
2549 5549 6.403309 GCGAGGGATAAACTTTTTAAGACAGG 60.403 42.308 0.00 0.00 0.00 4.00
2550 5550 6.543736 GCGAGGGATAAACTTTTTAAGACAG 58.456 40.000 0.00 0.00 0.00 3.51
2551 5551 5.121142 CGCGAGGGATAAACTTTTTAAGACA 59.879 40.000 0.00 0.00 0.00 3.41
2552 5552 5.557388 CGCGAGGGATAAACTTTTTAAGAC 58.443 41.667 0.00 0.00 0.00 3.01
2573 5636 3.669251 ATCTCATCTAGTTTAGGCCGC 57.331 47.619 0.00 0.00 0.00 6.53
2665 5730 4.035675 GGACACTTGGTGCAATAATAGCTC 59.964 45.833 0.00 0.00 37.84 4.09
2671 5736 2.107378 TGGAGGACACTTGGTGCAATAA 59.893 45.455 0.00 0.00 40.89 1.40
2753 7573 7.423844 TGATGATACTCAAACACTCACCTAT 57.576 36.000 0.00 0.00 0.00 2.57
2778 7598 9.968870 TTGTTTTATTTTACTTAGCGGTGAATT 57.031 25.926 0.00 0.00 0.00 2.17
2920 7742 1.817099 CTGCCTTCGGATGTGGCTC 60.817 63.158 14.96 0.00 46.23 4.70
3718 8545 2.224917 TGGTCTTGCTTTTAACCCCGAT 60.225 45.455 0.00 0.00 0.00 4.18
4135 9008 4.814771 GGTACATATGGTGCTTGACCTTAC 59.185 45.833 7.80 0.00 46.32 2.34
4412 9290 6.218746 TGTACTTTTAAAAGAGTCGAGGGAC 58.781 40.000 29.97 10.65 40.11 4.46
4427 9305 6.325286 AGTTGAGGGCCATTTTTGTACTTTTA 59.675 34.615 6.18 0.00 0.00 1.52
4677 9582 2.955881 CGGCGGGAAAAGGGTCTCT 61.956 63.158 0.00 0.00 0.00 3.10
4682 9587 1.176619 AAGAAACGGCGGGAAAAGGG 61.177 55.000 13.24 0.00 0.00 3.95
4727 9642 1.521681 CGGGAGGAATGGAGCGAAC 60.522 63.158 0.00 0.00 0.00 3.95
4754 9703 1.827789 CTGAGAGGCGAGGAGGAGG 60.828 68.421 0.00 0.00 0.00 4.30
4756 9705 2.441164 GCTGAGAGGCGAGGAGGA 60.441 66.667 0.00 0.00 0.00 3.71
4884 9854 1.827399 GAACTTCCGCCCTCCAGTCA 61.827 60.000 0.00 0.00 0.00 3.41
4916 9886 4.388499 GCCGGTCGGTGGTGACAT 62.388 66.667 11.25 0.00 46.14 3.06


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

AutoCloner maintained by Alex Coulton.