Multiple sequence alignment - TraesCS2B01G561700

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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 TraesCS2B01G561700 chr2B 100.000 2300 0 0 1 2300 754550187 754552486 0.000000e+00 4248.0
1 TraesCS2B01G561700 chr2B 82.880 625 64 22 835 1436 754151903 754152507 2.620000e-144 521.0
2 TraesCS2B01G561700 chr2B 84.426 244 24 7 317 557 754004843 754005075 6.390000e-56 228.0
3 TraesCS2B01G561700 chr2B 82.171 129 17 4 483 611 754014149 754014271 3.130000e-19 106.0
4 TraesCS2B01G561700 chr2D 89.852 946 57 8 672 1595 618128994 618129922 0.000000e+00 1179.0
5 TraesCS2B01G561700 chr2D 89.242 567 26 7 1760 2300 618129970 618130527 0.000000e+00 676.0
6 TraesCS2B01G561700 chr2D 82.687 670 70 31 835 1471 618081671 618082327 9.290000e-154 553.0
7 TraesCS2B01G561700 chr2D 90.884 362 20 4 318 672 588529939 588530294 7.440000e-130 473.0
8 TraesCS2B01G561700 chr2D 86.831 243 27 4 317 557 618060917 618061156 1.350000e-67 267.0
9 TraesCS2B01G561700 chr2D 93.023 86 3 2 234 319 588529812 588529894 3.100000e-24 122.0
10 TraesCS2B01G561700 chr2D 100.000 37 0 0 628 664 618128240 618128276 4.100000e-08 69.4
11 TraesCS2B01G561700 chr2A 90.975 687 31 8 1 672 748818097 748818767 0.000000e+00 896.0
12 TraesCS2B01G561700 chr2A 81.923 697 52 32 749 1433 748700609 748701243 2.620000e-144 521.0
13 TraesCS2B01G561700 chr2A 81.571 662 55 30 676 1325 748892802 748893408 3.440000e-133 484.0
14 TraesCS2B01G561700 chr2A 90.149 335 23 4 320 646 723125025 723125357 5.870000e-116 427.0
15 TraesCS2B01G561700 chr2A 79.556 675 74 27 672 1327 748819500 748820129 7.600000e-115 424.0
16 TraesCS2B01G561700 chr2A 84.211 304 33 5 318 620 748688704 748688993 4.840000e-72 281.0
17 TraesCS2B01G561700 chr2A 83.333 276 27 11 325 599 748535202 748535459 1.060000e-58 237.0
18 TraesCS2B01G561700 chr2A 79.830 352 47 16 317 666 748558500 748558829 3.820000e-58 235.0
19 TraesCS2B01G561700 chr2A 92.222 90 3 3 234 322 723124682 723124768 8.630000e-25 124.0
20 TraesCS2B01G561700 chr3B 91.202 341 22 3 318 652 43733486 43733824 7.490000e-125 457.0


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 TraesCS2B01G561700 chr2B 754550187 754552486 2299 False 4248.000000 4248 100.000000 1 2300 1 chr2B.!!$F4 2299
1 TraesCS2B01G561700 chr2B 754151903 754152507 604 False 521.000000 521 82.880000 835 1436 1 chr2B.!!$F3 601
2 TraesCS2B01G561700 chr2D 618128240 618130527 2287 False 641.466667 1179 93.031333 628 2300 3 chr2D.!!$F4 1672
3 TraesCS2B01G561700 chr2D 618081671 618082327 656 False 553.000000 553 82.687000 835 1471 1 chr2D.!!$F2 636
4 TraesCS2B01G561700 chr2A 748818097 748820129 2032 False 660.000000 896 85.265500 1 1327 2 chr2A.!!$F7 1326
5 TraesCS2B01G561700 chr2A 748700609 748701243 634 False 521.000000 521 81.923000 749 1433 1 chr2A.!!$F4 684
6 TraesCS2B01G561700 chr2A 748892802 748893408 606 False 484.000000 484 81.571000 676 1325 1 chr2A.!!$F5 649
7 TraesCS2B01G561700 chr2A 723124682 723125357 675 False 275.500000 427 91.185500 234 646 2 chr2A.!!$F6 412

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
422 686 0.179029 AGTTGGGGGTGTTGAGTTCG 60.179 55.0 0.0 0.0 0.0 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1673 2886 0.0293 CCACACAAAACGGTGCTGAG 59.971 55.0 0.0 0.0 42.55 3.35 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
24 25 2.237143 TGAAGGTAGAGGAAGGTGCATG 59.763 50.000 0.00 0.00 0.00 4.06
72 73 6.013898 CCAGCAATGGAGAGGAAATCTATAGA 60.014 42.308 4.57 4.57 38.84 1.98
153 154 3.060761 CCATCGTGTTGTGTAATGAGTCG 59.939 47.826 0.00 0.00 0.00 4.18
156 157 3.917985 TCGTGTTGTGTAATGAGTCGATG 59.082 43.478 0.00 0.00 0.00 3.84
170 171 6.456795 TGAGTCGATGTTTCAGTATCATCT 57.543 37.500 0.00 0.00 36.72 2.90
252 256 2.320745 GGTATCCCACTAAACCCACG 57.679 55.000 0.00 0.00 0.00 4.94
253 257 1.556451 GGTATCCCACTAAACCCACGT 59.444 52.381 0.00 0.00 0.00 4.49
254 258 2.765699 GGTATCCCACTAAACCCACGTA 59.234 50.000 0.00 0.00 0.00 3.57
255 259 3.181472 GGTATCCCACTAAACCCACGTAG 60.181 52.174 0.00 0.00 0.00 3.51
343 607 4.135153 GCGAGCGGAGAAGGCTGA 62.135 66.667 0.00 0.00 41.72 4.26
345 609 2.498726 GAGCGGAGAAGGCTGAGG 59.501 66.667 0.00 0.00 41.72 3.86
353 617 3.013932 AAGGCTGAGGAGGGGCTG 61.014 66.667 0.00 0.00 38.36 4.85
354 618 3.569361 AAGGCTGAGGAGGGGCTGA 62.569 63.158 0.00 0.00 38.36 4.26
377 641 3.071580 GGTCATGTACCTCAGCTGC 57.928 57.895 9.47 0.00 45.75 5.25
396 660 0.631212 CTGGGGCCCAAATTAGGAGT 59.369 55.000 28.43 0.00 30.80 3.85
401 665 3.656264 GGGGCCCAAATTAGGAGTACTAT 59.344 47.826 26.86 0.00 0.00 2.12
405 669 6.044054 GGGCCCAAATTAGGAGTACTATTAGT 59.956 42.308 19.95 1.30 0.00 2.24
407 671 7.444487 GGCCCAAATTAGGAGTACTATTAGTTG 59.556 40.741 0.85 0.00 0.00 3.16
422 686 0.179029 AGTTGGGGGTGTTGAGTTCG 60.179 55.000 0.00 0.00 0.00 3.95
474 738 2.682856 CCCCACATGATCGGTTGTAAAG 59.317 50.000 0.00 0.00 0.00 1.85
486 750 6.228616 TCGGTTGTAAAGATACCATGATGA 57.771 37.500 0.00 0.00 32.12 2.92
487 751 6.826668 TCGGTTGTAAAGATACCATGATGAT 58.173 36.000 0.00 0.00 32.12 2.45
488 752 6.705825 TCGGTTGTAAAGATACCATGATGATG 59.294 38.462 0.00 0.00 32.12 3.07
489 753 6.705825 CGGTTGTAAAGATACCATGATGATGA 59.294 38.462 0.00 0.00 32.12 2.92
490 754 7.307396 CGGTTGTAAAGATACCATGATGATGAC 60.307 40.741 0.00 0.00 32.12 3.06
491 755 7.498900 GGTTGTAAAGATACCATGATGATGACA 59.501 37.037 0.00 0.00 32.12 3.58
492 756 8.892723 GTTGTAAAGATACCATGATGATGACAA 58.107 33.333 0.00 0.00 0.00 3.18
493 757 9.631257 TTGTAAAGATACCATGATGATGACAAT 57.369 29.630 0.00 0.00 0.00 2.71
494 758 9.059260 TGTAAAGATACCATGATGATGACAATG 57.941 33.333 0.00 0.00 0.00 2.82
495 759 9.276590 GTAAAGATACCATGATGATGACAATGA 57.723 33.333 0.00 0.00 0.00 2.57
496 760 8.935614 AAAGATACCATGATGATGACAATGAT 57.064 30.769 0.00 0.00 0.00 2.45
497 761 7.923414 AGATACCATGATGATGACAATGATG 57.077 36.000 0.00 0.00 0.00 3.07
538 802 3.077484 ACATCACCCTCCTTGTTCATG 57.923 47.619 0.00 0.00 0.00 3.07
561 825 3.512329 TGCTTATGTGACTAGTTTCCGGA 59.488 43.478 0.00 0.00 0.00 5.14
607 871 9.665719 ATCTTTATCAAGAGAGGAAGAAAGTTC 57.334 33.333 0.00 0.00 42.53 3.01
611 875 6.485830 TCAAGAGAGGAAGAAAGTTCAGAA 57.514 37.500 0.00 0.00 0.00 3.02
617 881 7.875554 AGAGAGGAAGAAAGTTCAGAATTACAC 59.124 37.037 0.00 0.00 0.00 2.90
668 944 3.373439 GCATACAGAGAAAACAGAGCAGG 59.627 47.826 0.00 0.00 0.00 4.85
672 948 3.118261 ACAGAGAAAACAGAGCAGGTTCA 60.118 43.478 0.00 0.00 0.00 3.18
681 1794 0.590195 GAGCAGGTTCAGCACACAAG 59.410 55.000 0.00 0.00 0.00 3.16
683 1796 0.308993 GCAGGTTCAGCACACAAGTC 59.691 55.000 0.00 0.00 0.00 3.01
732 1845 2.738521 CGTCCGACAGCAACCTGG 60.739 66.667 0.00 0.00 43.53 4.45
1011 2159 1.035385 TTAGTCAGATGGCGAGCGGA 61.035 55.000 0.00 0.00 0.00 5.54
1331 2492 7.590689 GCGGATTAGTCATTACTTACAGACTAC 59.409 40.741 0.00 0.00 41.70 2.73
1360 2539 7.238723 TCCTCTAGATCTTCTTAGATGGCTAGA 59.761 40.741 17.94 17.94 41.23 2.43
1361 2540 7.336931 CCTCTAGATCTTCTTAGATGGCTAGAC 59.663 44.444 0.00 0.00 41.23 2.59
1362 2541 7.984475 TCTAGATCTTCTTAGATGGCTAGACT 58.016 38.462 0.00 6.47 41.23 3.24
1363 2542 9.106977 TCTAGATCTTCTTAGATGGCTAGACTA 57.893 37.037 0.00 7.00 41.23 2.59
1366 2545 8.444783 AGATCTTCTTAGATGGCTAGACTAAGA 58.555 37.037 18.40 18.40 45.37 2.10
1367 2546 7.811117 TCTTCTTAGATGGCTAGACTAAGAC 57.189 40.000 20.53 1.37 46.11 3.01
1370 2549 6.065374 TCTTAGATGGCTAGACTAAGACTGG 58.935 44.000 18.40 2.91 43.58 4.00
1371 2550 4.258457 AGATGGCTAGACTAAGACTGGT 57.742 45.455 0.00 0.00 0.00 4.00
1373 2552 1.825474 TGGCTAGACTAAGACTGGTGC 59.175 52.381 0.00 0.00 0.00 5.01
1374 2553 1.202313 GGCTAGACTAAGACTGGTGCG 60.202 57.143 0.00 0.00 0.00 5.34
1375 2554 1.799548 GCTAGACTAAGACTGGTGCGC 60.800 57.143 0.00 0.00 0.00 6.09
1377 2556 1.835494 AGACTAAGACTGGTGCGCTA 58.165 50.000 9.73 0.00 0.00 4.26
1378 2557 1.746220 AGACTAAGACTGGTGCGCTAG 59.254 52.381 9.73 9.34 0.00 3.42
1414 2602 1.471287 GAGCTCAGCATGCACATTCAA 59.529 47.619 21.98 0.00 34.76 2.69
1476 2672 2.808543 CGGAAGGTTTCAGAAACAGAGG 59.191 50.000 24.37 8.23 43.15 3.69
1595 2808 7.534085 TTTTGTTGTTGTTGTTGTTGTTGTA 57.466 28.000 0.00 0.00 0.00 2.41
1596 2809 7.534085 TTTGTTGTTGTTGTTGTTGTTGTAA 57.466 28.000 0.00 0.00 0.00 2.41
1597 2810 7.534085 TTGTTGTTGTTGTTGTTGTTGTAAA 57.466 28.000 0.00 0.00 0.00 2.01
1599 2812 7.788055 TGTTGTTGTTGTTGTTGTTGTAAATC 58.212 30.769 0.00 0.00 0.00 2.17
1600 2813 7.438160 TGTTGTTGTTGTTGTTGTTGTAAATCA 59.562 29.630 0.00 0.00 0.00 2.57
1601 2814 7.339732 TGTTGTTGTTGTTGTTGTAAATCAC 57.660 32.000 0.00 0.00 0.00 3.06
1602 2815 6.366332 TGTTGTTGTTGTTGTTGTAAATCACC 59.634 34.615 0.00 0.00 0.00 4.02
1603 2816 5.096169 TGTTGTTGTTGTTGTAAATCACCG 58.904 37.500 0.00 0.00 0.00 4.94
1605 2818 4.911053 TGTTGTTGTTGTAAATCACCGTC 58.089 39.130 0.00 0.00 0.00 4.79
1606 2819 3.863396 TGTTGTTGTAAATCACCGTCG 57.137 42.857 0.00 0.00 0.00 5.12
1608 2821 4.366586 TGTTGTTGTAAATCACCGTCGTA 58.633 39.130 0.00 0.00 0.00 3.43
1610 2823 5.107414 TGTTGTTGTAAATCACCGTCGTATG 60.107 40.000 0.00 0.00 0.00 2.39
1612 2825 2.542597 TGTAAATCACCGTCGTATGGC 58.457 47.619 0.00 0.00 0.00 4.40
1613 2826 1.519758 GTAAATCACCGTCGTATGGCG 59.480 52.381 0.88 0.88 43.01 5.69
1622 2835 2.904905 CGTATGGCGAAGGGGGAA 59.095 61.111 0.00 0.00 44.77 3.97
1623 2836 1.450211 CGTATGGCGAAGGGGGAAT 59.550 57.895 0.00 0.00 44.77 3.01
1624 2837 0.884704 CGTATGGCGAAGGGGGAATG 60.885 60.000 0.00 0.00 44.77 2.67
1625 2838 0.537371 GTATGGCGAAGGGGGAATGG 60.537 60.000 0.00 0.00 0.00 3.16
1627 2840 4.522975 GGCGAAGGGGGAATGGGG 62.523 72.222 0.00 0.00 0.00 4.96
1628 2841 3.416880 GCGAAGGGGGAATGGGGA 61.417 66.667 0.00 0.00 0.00 4.81
1629 2842 2.991329 GCGAAGGGGGAATGGGGAA 61.991 63.158 0.00 0.00 0.00 3.97
1631 2844 1.145571 CGAAGGGGGAATGGGGAATA 58.854 55.000 0.00 0.00 0.00 1.75
1632 2845 1.710809 CGAAGGGGGAATGGGGAATAT 59.289 52.381 0.00 0.00 0.00 1.28
1633 2846 2.555227 CGAAGGGGGAATGGGGAATATG 60.555 54.545 0.00 0.00 0.00 1.78
1634 2847 0.786435 AGGGGGAATGGGGAATATGC 59.214 55.000 0.00 0.00 0.00 3.14
1635 2848 0.786435 GGGGGAATGGGGAATATGCT 59.214 55.000 0.00 0.00 0.00 3.79
1638 2851 2.899900 GGGGAATGGGGAATATGCTTTC 59.100 50.000 0.00 0.00 0.00 2.62
1639 2852 2.899900 GGGAATGGGGAATATGCTTTCC 59.100 50.000 5.41 5.41 43.78 3.13
1640 2853 2.558359 GGAATGGGGAATATGCTTTCCG 59.442 50.000 7.32 0.00 45.17 4.30
1644 2857 1.680338 GGGAATATGCTTTCCGCTGT 58.320 50.000 7.32 0.00 45.17 4.40
1645 2858 1.604278 GGGAATATGCTTTCCGCTGTC 59.396 52.381 7.32 0.00 45.17 3.51
1646 2859 2.288666 GGAATATGCTTTCCGCTGTCA 58.711 47.619 0.00 0.00 36.12 3.58
1647 2860 2.880890 GGAATATGCTTTCCGCTGTCAT 59.119 45.455 0.00 0.00 36.12 3.06
1648 2861 3.058639 GGAATATGCTTTCCGCTGTCATC 60.059 47.826 0.00 0.00 36.12 2.92
1649 2862 2.689553 TATGCTTTCCGCTGTCATCA 57.310 45.000 0.00 0.00 40.11 3.07
1650 2863 2.048444 ATGCTTTCCGCTGTCATCAT 57.952 45.000 0.00 0.00 40.11 2.45
1651 2864 1.825090 TGCTTTCCGCTGTCATCATT 58.175 45.000 0.00 0.00 40.11 2.57
1652 2865 2.161855 TGCTTTCCGCTGTCATCATTT 58.838 42.857 0.00 0.00 40.11 2.32
1653 2866 2.557924 TGCTTTCCGCTGTCATCATTTT 59.442 40.909 0.00 0.00 40.11 1.82
1654 2867 3.174375 GCTTTCCGCTGTCATCATTTTC 58.826 45.455 0.00 0.00 35.14 2.29
1655 2868 3.419915 CTTTCCGCTGTCATCATTTTCG 58.580 45.455 0.00 0.00 0.00 3.46
1656 2869 1.368641 TCCGCTGTCATCATTTTCGG 58.631 50.000 0.00 0.00 37.00 4.30
1657 2870 0.378257 CCGCTGTCATCATTTTCGGG 59.622 55.000 0.00 0.00 32.55 5.14
1658 2871 0.378257 CGCTGTCATCATTTTCGGGG 59.622 55.000 0.00 0.00 0.00 5.73
1659 2872 0.740737 GCTGTCATCATTTTCGGGGG 59.259 55.000 0.00 0.00 0.00 5.40
1660 2873 1.955208 GCTGTCATCATTTTCGGGGGT 60.955 52.381 0.00 0.00 0.00 4.95
1661 2874 2.446435 CTGTCATCATTTTCGGGGGTT 58.554 47.619 0.00 0.00 0.00 4.11
1662 2875 2.825532 CTGTCATCATTTTCGGGGGTTT 59.174 45.455 0.00 0.00 0.00 3.27
1663 2876 3.235200 TGTCATCATTTTCGGGGGTTTT 58.765 40.909 0.00 0.00 0.00 2.43
1664 2877 3.257127 TGTCATCATTTTCGGGGGTTTTC 59.743 43.478 0.00 0.00 0.00 2.29
1665 2878 3.257127 GTCATCATTTTCGGGGGTTTTCA 59.743 43.478 0.00 0.00 0.00 2.69
1666 2879 3.898123 TCATCATTTTCGGGGGTTTTCAA 59.102 39.130 0.00 0.00 0.00 2.69
1667 2880 4.530161 TCATCATTTTCGGGGGTTTTCAAT 59.470 37.500 0.00 0.00 0.00 2.57
1668 2881 4.529109 TCATTTTCGGGGGTTTTCAATC 57.471 40.909 0.00 0.00 0.00 2.67
1669 2882 3.259625 TCATTTTCGGGGGTTTTCAATCC 59.740 43.478 0.00 0.00 0.00 3.01
1670 2883 2.687003 TTTCGGGGGTTTTCAATCCT 57.313 45.000 0.00 0.00 0.00 3.24
1671 2884 3.810721 TTTCGGGGGTTTTCAATCCTA 57.189 42.857 0.00 0.00 0.00 2.94
1672 2885 3.359695 TTCGGGGGTTTTCAATCCTAG 57.640 47.619 0.00 0.00 0.00 3.02
1673 2886 1.064979 TCGGGGGTTTTCAATCCTAGC 60.065 52.381 0.00 0.00 0.00 3.42
1674 2887 1.064685 CGGGGGTTTTCAATCCTAGCT 60.065 52.381 0.00 0.00 0.00 3.32
1675 2888 2.656002 GGGGGTTTTCAATCCTAGCTC 58.344 52.381 0.00 0.00 0.00 4.09
1676 2889 2.025321 GGGGGTTTTCAATCCTAGCTCA 60.025 50.000 0.00 0.00 0.00 4.26
1677 2890 3.282885 GGGGTTTTCAATCCTAGCTCAG 58.717 50.000 0.00 0.00 0.00 3.35
1678 2891 2.685388 GGGTTTTCAATCCTAGCTCAGC 59.315 50.000 0.00 0.00 0.00 4.26
1679 2892 3.347216 GGTTTTCAATCCTAGCTCAGCA 58.653 45.455 0.00 0.00 0.00 4.41
1680 2893 3.127721 GGTTTTCAATCCTAGCTCAGCAC 59.872 47.826 0.00 0.00 0.00 4.40
1681 2894 2.698855 TTCAATCCTAGCTCAGCACC 57.301 50.000 0.00 0.00 0.00 5.01
1682 2895 0.461548 TCAATCCTAGCTCAGCACCG 59.538 55.000 0.00 0.00 0.00 4.94
1683 2896 0.176680 CAATCCTAGCTCAGCACCGT 59.823 55.000 0.00 0.00 0.00 4.83
1684 2897 0.905357 AATCCTAGCTCAGCACCGTT 59.095 50.000 0.00 0.00 0.00 4.44
1685 2898 0.905357 ATCCTAGCTCAGCACCGTTT 59.095 50.000 0.00 0.00 0.00 3.60
1686 2899 0.685097 TCCTAGCTCAGCACCGTTTT 59.315 50.000 0.00 0.00 0.00 2.43
1687 2900 0.798776 CCTAGCTCAGCACCGTTTTG 59.201 55.000 0.00 0.00 0.00 2.44
1688 2901 1.512926 CTAGCTCAGCACCGTTTTGT 58.487 50.000 0.00 0.00 0.00 2.83
1689 2902 1.195448 CTAGCTCAGCACCGTTTTGTG 59.805 52.381 0.00 0.00 39.29 3.33
1690 2903 0.748005 AGCTCAGCACCGTTTTGTGT 60.748 50.000 0.00 0.00 38.52 3.72
1691 2904 0.592247 GCTCAGCACCGTTTTGTGTG 60.592 55.000 0.00 0.00 38.52 3.82
1692 2905 0.029300 CTCAGCACCGTTTTGTGTGG 59.971 55.000 0.00 0.00 38.52 4.17
1693 2906 1.588667 CAGCACCGTTTTGTGTGGC 60.589 57.895 0.00 0.00 38.52 5.01
1694 2907 1.752694 AGCACCGTTTTGTGTGGCT 60.753 52.632 0.00 0.00 38.52 4.75
1695 2908 1.588667 GCACCGTTTTGTGTGGCTG 60.589 57.895 0.00 0.00 38.52 4.85
1696 2909 1.065600 CACCGTTTTGTGTGGCTGG 59.934 57.895 0.00 0.00 0.00 4.85
1697 2910 1.077357 ACCGTTTTGTGTGGCTGGA 60.077 52.632 0.00 0.00 0.00 3.86
1698 2911 0.467290 ACCGTTTTGTGTGGCTGGAT 60.467 50.000 0.00 0.00 0.00 3.41
1699 2912 0.039256 CCGTTTTGTGTGGCTGGATG 60.039 55.000 0.00 0.00 0.00 3.51
1700 2913 0.950836 CGTTTTGTGTGGCTGGATGA 59.049 50.000 0.00 0.00 0.00 2.92
1701 2914 1.541147 CGTTTTGTGTGGCTGGATGAT 59.459 47.619 0.00 0.00 0.00 2.45
1702 2915 2.669113 CGTTTTGTGTGGCTGGATGATG 60.669 50.000 0.00 0.00 0.00 3.07
1703 2916 2.291209 TTTGTGTGGCTGGATGATGT 57.709 45.000 0.00 0.00 0.00 3.06
1704 2917 1.536940 TTGTGTGGCTGGATGATGTG 58.463 50.000 0.00 0.00 0.00 3.21
1705 2918 0.691904 TGTGTGGCTGGATGATGTGA 59.308 50.000 0.00 0.00 0.00 3.58
1706 2919 1.339342 TGTGTGGCTGGATGATGTGAG 60.339 52.381 0.00 0.00 0.00 3.51
1707 2920 0.393402 TGTGGCTGGATGATGTGAGC 60.393 55.000 0.00 0.00 0.00 4.26
1708 2921 0.107312 GTGGCTGGATGATGTGAGCT 60.107 55.000 0.00 0.00 0.00 4.09
1709 2922 0.179702 TGGCTGGATGATGTGAGCTC 59.820 55.000 6.82 6.82 0.00 4.09
1710 2923 0.179702 GGCTGGATGATGTGAGCTCA 59.820 55.000 13.74 13.74 0.00 4.26
1711 2924 1.407851 GGCTGGATGATGTGAGCTCAA 60.408 52.381 20.19 9.51 0.00 3.02
1712 2925 2.573369 GCTGGATGATGTGAGCTCAAT 58.427 47.619 20.19 14.05 0.00 2.57
1713 2926 3.495629 GGCTGGATGATGTGAGCTCAATA 60.496 47.826 20.19 11.35 0.00 1.90
1714 2927 4.325119 GCTGGATGATGTGAGCTCAATAT 58.675 43.478 20.19 15.94 0.00 1.28
1715 2928 4.154375 GCTGGATGATGTGAGCTCAATATG 59.846 45.833 20.19 4.57 0.00 1.78
1716 2929 4.070009 TGGATGATGTGAGCTCAATATGC 58.930 43.478 20.19 15.08 0.00 3.14
1717 2930 3.124806 GGATGATGTGAGCTCAATATGCG 59.875 47.826 20.19 0.00 35.28 4.73
1718 2931 1.869132 TGATGTGAGCTCAATATGCGC 59.131 47.619 20.19 0.00 35.28 6.09
1719 2932 1.869132 GATGTGAGCTCAATATGCGCA 59.131 47.619 20.19 14.96 37.86 6.09
1720 2933 1.957668 TGTGAGCTCAATATGCGCAT 58.042 45.000 28.23 28.23 41.70 4.73
1721 2934 2.291365 TGTGAGCTCAATATGCGCATT 58.709 42.857 30.42 9.76 41.70 3.56
1722 2935 2.288729 TGTGAGCTCAATATGCGCATTC 59.711 45.455 30.42 18.09 41.70 2.67
1723 2936 2.288729 GTGAGCTCAATATGCGCATTCA 59.711 45.455 30.42 20.59 41.70 2.57
1724 2937 2.288729 TGAGCTCAATATGCGCATTCAC 59.711 45.455 30.42 12.31 35.47 3.18
1725 2938 2.547211 GAGCTCAATATGCGCATTCACT 59.453 45.455 30.42 16.80 28.96 3.41
1726 2939 2.547211 AGCTCAATATGCGCATTCACTC 59.453 45.455 30.42 13.42 28.96 3.51
1727 2940 2.547211 GCTCAATATGCGCATTCACTCT 59.453 45.455 30.42 5.23 0.00 3.24
1728 2941 3.363772 GCTCAATATGCGCATTCACTCTC 60.364 47.826 30.42 9.11 0.00 3.20
1729 2942 2.796593 TCAATATGCGCATTCACTCTCG 59.203 45.455 30.42 8.83 0.00 4.04
1730 2943 2.796593 CAATATGCGCATTCACTCTCGA 59.203 45.455 30.42 7.25 0.00 4.04
1731 2944 2.125461 TATGCGCATTCACTCTCGAG 57.875 50.000 30.42 5.93 0.00 4.04
1732 2945 1.150567 ATGCGCATTCACTCTCGAGC 61.151 55.000 19.28 0.00 0.00 5.03
1733 2946 1.518133 GCGCATTCACTCTCGAGCT 60.518 57.895 7.81 0.00 0.00 4.09
1734 2947 1.080995 GCGCATTCACTCTCGAGCTT 61.081 55.000 7.81 0.00 0.00 3.74
1735 2948 0.644331 CGCATTCACTCTCGAGCTTG 59.356 55.000 7.81 7.17 0.00 4.01
1736 2949 1.719600 GCATTCACTCTCGAGCTTGT 58.280 50.000 7.81 3.61 0.00 3.16
1737 2950 1.392853 GCATTCACTCTCGAGCTTGTG 59.607 52.381 19.69 19.69 0.00 3.33
1738 2951 2.681706 CATTCACTCTCGAGCTTGTGT 58.318 47.619 22.59 9.66 0.00 3.72
1739 2952 3.838120 CATTCACTCTCGAGCTTGTGTA 58.162 45.455 22.59 17.45 0.00 2.90
1740 2953 4.237724 CATTCACTCTCGAGCTTGTGTAA 58.762 43.478 22.59 17.77 0.00 2.41
1741 2954 3.560902 TCACTCTCGAGCTTGTGTAAG 57.439 47.619 22.59 10.93 36.97 2.34
1742 2955 3.146847 TCACTCTCGAGCTTGTGTAAGA 58.853 45.455 22.59 9.15 35.92 2.10
1743 2956 3.759086 TCACTCTCGAGCTTGTGTAAGAT 59.241 43.478 22.59 0.00 35.92 2.40
1744 2957 3.856521 CACTCTCGAGCTTGTGTAAGATG 59.143 47.826 7.81 0.00 35.92 2.90
1745 2958 2.857152 CTCTCGAGCTTGTGTAAGATGC 59.143 50.000 7.81 0.00 35.92 3.91
1746 2959 1.585668 CTCGAGCTTGTGTAAGATGCG 59.414 52.381 0.00 0.00 35.32 4.73
1747 2960 0.647410 CGAGCTTGTGTAAGATGCGG 59.353 55.000 0.00 0.00 35.32 5.69
1748 2961 1.726853 GAGCTTGTGTAAGATGCGGT 58.273 50.000 0.00 0.00 35.32 5.68
1749 2962 2.734175 CGAGCTTGTGTAAGATGCGGTA 60.734 50.000 0.00 0.00 35.32 4.02
1750 2963 2.603560 GAGCTTGTGTAAGATGCGGTAC 59.396 50.000 0.00 0.00 35.32 3.34
1751 2964 2.028476 AGCTTGTGTAAGATGCGGTACA 60.028 45.455 0.00 0.00 35.32 2.90
1752 2965 2.936498 GCTTGTGTAAGATGCGGTACAT 59.064 45.455 0.00 0.00 43.54 2.29
1753 2966 4.116961 GCTTGTGTAAGATGCGGTACATA 58.883 43.478 0.00 0.00 39.84 2.29
1754 2967 4.025979 GCTTGTGTAAGATGCGGTACATAC 60.026 45.833 0.00 0.00 39.84 2.39
1755 2968 4.994907 TGTGTAAGATGCGGTACATACT 57.005 40.909 0.00 0.00 39.84 2.12
1756 2969 4.678622 TGTGTAAGATGCGGTACATACTG 58.321 43.478 0.00 0.00 39.84 2.74
1757 2970 4.158949 TGTGTAAGATGCGGTACATACTGT 59.841 41.667 0.00 0.00 39.84 3.55
1758 2971 5.357596 TGTGTAAGATGCGGTACATACTGTA 59.642 40.000 0.00 0.00 39.84 2.74
1856 3069 0.961857 TGCATGCGGTTGCTCAGAAT 60.962 50.000 14.09 0.00 43.18 2.40
1857 3070 0.248377 GCATGCGGTTGCTCAGAATC 60.248 55.000 0.00 0.00 43.34 2.52
1867 3087 1.523258 CTCAGAATCCGCAGCAGGG 60.523 63.158 0.00 0.00 0.00 4.45
1868 3088 1.964608 CTCAGAATCCGCAGCAGGGA 61.965 60.000 0.00 0.00 38.10 4.20
1898 3118 6.931281 CCTTCATACAATCCATCATCGTTACT 59.069 38.462 0.00 0.00 0.00 2.24
1899 3119 7.116948 CCTTCATACAATCCATCATCGTTACTC 59.883 40.741 0.00 0.00 0.00 2.59
1900 3120 6.149633 TCATACAATCCATCATCGTTACTCG 58.850 40.000 0.00 0.00 41.41 4.18
1901 3121 4.386867 ACAATCCATCATCGTTACTCGT 57.613 40.909 0.00 0.00 40.80 4.18
1902 3122 4.755411 ACAATCCATCATCGTTACTCGTT 58.245 39.130 0.00 0.00 40.80 3.85
1903 3123 5.898174 ACAATCCATCATCGTTACTCGTTA 58.102 37.500 0.00 0.00 40.80 3.18
1904 3124 5.747197 ACAATCCATCATCGTTACTCGTTAC 59.253 40.000 0.00 0.00 40.80 2.50
1905 3125 5.769484 ATCCATCATCGTTACTCGTTACT 57.231 39.130 0.00 0.00 40.80 2.24
1921 3141 0.535335 TACTTCGTTAGGCAGGCAGG 59.465 55.000 0.00 0.00 0.00 4.85
1942 3162 3.495100 GGCATATGACGAAGGGAAGACAT 60.495 47.826 6.97 0.00 0.00 3.06
1981 3208 1.762419 CGGCATATTGCTGCATGAAC 58.238 50.000 1.84 0.00 43.46 3.18
1984 3211 3.189910 CGGCATATTGCTGCATGAACTAT 59.810 43.478 1.84 0.00 43.46 2.12
1989 3216 2.945447 TGCTGCATGAACTATTTGCC 57.055 45.000 0.00 0.00 35.51 4.52
1990 3217 2.169330 TGCTGCATGAACTATTTGCCA 58.831 42.857 0.00 0.00 35.51 4.92
1997 3224 4.082571 GCATGAACTATTTGCCAACAGAGT 60.083 41.667 0.00 0.00 0.00 3.24
1998 3225 5.123820 GCATGAACTATTTGCCAACAGAGTA 59.876 40.000 0.00 0.00 0.00 2.59
2039 3266 2.224281 TGCTCGGTTGCTCCCATATAAG 60.224 50.000 0.00 0.00 0.00 1.73
2098 3337 7.756395 AGTAGCAATCCATTTCCTTGATATG 57.244 36.000 0.00 0.00 0.00 1.78
2140 3379 1.070105 ACGCGAGCAGGGTGTTAAA 59.930 52.632 15.93 0.00 44.86 1.52
2142 3381 0.165944 CGCGAGCAGGGTGTTAAAAG 59.834 55.000 0.00 0.00 0.00 2.27
2204 3443 6.694411 GCATCAGTTTCACATATCAAACCATC 59.306 38.462 0.00 0.00 33.66 3.51
2227 3466 5.526479 TCATGAAGATATTCTGAGCAACTGC 59.474 40.000 1.19 0.00 42.49 4.40
2237 3476 0.603975 GAGCAACTGCCTCTTTCGGT 60.604 55.000 0.00 0.00 43.38 4.69
2242 3481 1.376037 CTGCCTCTTTCGGTCCACC 60.376 63.158 0.00 0.00 0.00 4.61
2251 3490 3.434319 CGGTCCACCTGCACATGC 61.434 66.667 0.00 0.00 42.50 4.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 2.182842 GGACGGATCATGTGCTGCC 61.183 63.158 0.00 0.00 0.00 4.85
72 73 7.264294 ACACTAAATCTCCTCTCTTCCATTT 57.736 36.000 0.00 0.00 0.00 2.32
127 128 5.142061 TCATTACACAACACGATGGTAGT 57.858 39.130 0.00 0.00 0.00 2.73
135 136 3.673338 ACATCGACTCATTACACAACACG 59.327 43.478 0.00 0.00 0.00 4.49
153 154 9.897744 TTTTTGTGAAGATGATACTGAAACATC 57.102 29.630 0.00 0.00 40.14 3.06
201 205 7.915293 AAACGTACATTCATCTATTCCAACA 57.085 32.000 0.00 0.00 0.00 3.33
343 607 4.787280 CCGTCCTCAGCCCCTCCT 62.787 72.222 0.00 0.00 0.00 3.69
345 609 3.462678 GACCGTCCTCAGCCCCTC 61.463 72.222 0.00 0.00 0.00 4.30
377 641 0.631212 ACTCCTAATTTGGGCCCCAG 59.369 55.000 22.27 8.38 33.81 4.45
396 660 5.095809 ACTCAACACCCCCAACTAATAGTA 58.904 41.667 0.00 0.00 0.00 1.82
401 665 2.485835 CGAACTCAACACCCCCAACTAA 60.486 50.000 0.00 0.00 0.00 2.24
405 669 0.256464 AACGAACTCAACACCCCCAA 59.744 50.000 0.00 0.00 0.00 4.12
407 671 1.792118 GCAACGAACTCAACACCCCC 61.792 60.000 0.00 0.00 0.00 5.40
474 738 7.916914 TCATCATTGTCATCATCATGGTATC 57.083 36.000 0.00 0.00 0.00 2.24
486 750 5.969423 AGCCGAAATTTTCATCATTGTCAT 58.031 33.333 9.66 0.00 0.00 3.06
487 751 5.389859 AGCCGAAATTTTCATCATTGTCA 57.610 34.783 9.66 0.00 0.00 3.58
488 752 7.195646 TCATAGCCGAAATTTTCATCATTGTC 58.804 34.615 9.66 0.00 0.00 3.18
489 753 7.099266 TCATAGCCGAAATTTTCATCATTGT 57.901 32.000 9.66 0.00 0.00 2.71
490 754 7.198390 ACTCATAGCCGAAATTTTCATCATTG 58.802 34.615 9.66 2.08 0.00 2.82
491 755 7.338800 ACTCATAGCCGAAATTTTCATCATT 57.661 32.000 9.66 0.00 0.00 2.57
492 756 6.949352 ACTCATAGCCGAAATTTTCATCAT 57.051 33.333 9.66 0.00 0.00 2.45
493 757 6.757897 AACTCATAGCCGAAATTTTCATCA 57.242 33.333 9.66 0.00 0.00 3.07
494 758 8.181573 TGTAAACTCATAGCCGAAATTTTCATC 58.818 33.333 9.66 0.63 0.00 2.92
495 759 8.050778 TGTAAACTCATAGCCGAAATTTTCAT 57.949 30.769 9.66 0.00 0.00 2.57
496 760 7.441890 TGTAAACTCATAGCCGAAATTTTCA 57.558 32.000 9.66 0.00 0.00 2.69
497 761 8.181573 TGATGTAAACTCATAGCCGAAATTTTC 58.818 33.333 0.00 0.00 0.00 2.29
538 802 3.617263 CCGGAAACTAGTCACATAAGCAC 59.383 47.826 0.00 0.00 0.00 4.40
580 844 9.665719 AACTTTCTTCCTCTCTTGATAAAGATC 57.334 33.333 0.00 0.00 0.00 2.75
607 871 6.159293 TGCTGAGTTACTCTGTGTAATTCTG 58.841 40.000 18.05 18.85 43.74 3.02
611 875 5.409826 GCTTTGCTGAGTTACTCTGTGTAAT 59.590 40.000 18.05 0.00 42.36 1.89
617 881 3.364764 GCTTGCTTTGCTGAGTTACTCTG 60.365 47.826 13.86 13.81 33.52 3.35
668 944 3.806257 CACGACTTGTGTGCTGAAC 57.194 52.632 0.00 0.00 43.88 3.18
732 1845 2.280457 CTAGCTAGCTTGGCGCCC 60.280 66.667 26.77 8.84 40.39 6.13
854 1979 4.083271 GGTTTTTATAGGAGATGCCGATGC 60.083 45.833 0.00 0.00 43.43 3.91
955 2100 2.551032 CCTACGTAGATATCACCGTGCA 59.449 50.000 24.15 8.80 34.95 4.57
982 2129 3.309954 GCCATCTGACTAATTGTTCGGTC 59.690 47.826 0.00 0.00 0.00 4.79
1331 2492 7.178983 AGCCATCTAAGAAGATCTAGAGGATTG 59.821 40.741 6.48 0.00 40.65 2.67
1333 2494 6.804083 AGCCATCTAAGAAGATCTAGAGGAT 58.196 40.000 6.48 1.61 40.65 3.24
1360 2539 0.173708 GCTAGCGCACCAGTCTTAGT 59.826 55.000 11.47 0.00 35.78 2.24
1361 2540 0.457851 AGCTAGCGCACCAGTCTTAG 59.542 55.000 11.47 0.24 39.10 2.18
1362 2541 0.173481 CAGCTAGCGCACCAGTCTTA 59.827 55.000 11.47 0.00 39.10 2.10
1363 2542 1.079543 CAGCTAGCGCACCAGTCTT 60.080 57.895 11.47 0.00 39.10 3.01
1366 2545 4.767255 GCCAGCTAGCGCACCAGT 62.767 66.667 11.47 0.00 39.10 4.00
1367 2546 4.463879 AGCCAGCTAGCGCACCAG 62.464 66.667 11.47 4.54 39.10 4.00
1370 2549 3.746949 ATCCAGCCAGCTAGCGCAC 62.747 63.158 11.47 6.59 39.10 5.34
1371 2550 3.473647 ATCCAGCCAGCTAGCGCA 61.474 61.111 11.47 0.00 39.10 6.09
1373 2552 0.949588 CATCATCCAGCCAGCTAGCG 60.950 60.000 9.55 4.28 38.01 4.26
1374 2553 0.108207 ACATCATCCAGCCAGCTAGC 59.892 55.000 6.62 6.62 0.00 3.42
1375 2554 1.415289 TCACATCATCCAGCCAGCTAG 59.585 52.381 0.00 0.00 0.00 3.42
1377 2556 0.180642 CTCACATCATCCAGCCAGCT 59.819 55.000 0.00 0.00 0.00 4.24
1378 2557 1.445716 GCTCACATCATCCAGCCAGC 61.446 60.000 0.00 0.00 0.00 4.85
1414 2602 4.886247 GTGTCTTACACTAGCTCGAGAT 57.114 45.455 18.75 13.81 45.27 2.75
1476 2672 2.444351 GCTAAGCATTGCGATGTCAAC 58.556 47.619 15.45 0.00 35.63 3.18
1605 2818 0.884704 CATTCCCCCTTCGCCATACG 60.885 60.000 0.00 0.00 45.62 3.06
1606 2819 0.537371 CCATTCCCCCTTCGCCATAC 60.537 60.000 0.00 0.00 0.00 2.39
1608 2821 2.603008 CCATTCCCCCTTCGCCAT 59.397 61.111 0.00 0.00 0.00 4.40
1610 2823 4.522975 CCCCATTCCCCCTTCGCC 62.523 72.222 0.00 0.00 0.00 5.54
1612 2825 1.145571 TATTCCCCATTCCCCCTTCG 58.854 55.000 0.00 0.00 0.00 3.79
1613 2826 2.823152 GCATATTCCCCATTCCCCCTTC 60.823 54.545 0.00 0.00 0.00 3.46
1614 2827 1.149923 GCATATTCCCCATTCCCCCTT 59.850 52.381 0.00 0.00 0.00 3.95
1615 2828 0.786435 GCATATTCCCCATTCCCCCT 59.214 55.000 0.00 0.00 0.00 4.79
1616 2829 0.786435 AGCATATTCCCCATTCCCCC 59.214 55.000 0.00 0.00 0.00 5.40
1618 2831 2.899900 GGAAAGCATATTCCCCATTCCC 59.100 50.000 4.98 0.00 42.57 3.97
1619 2832 2.558359 CGGAAAGCATATTCCCCATTCC 59.442 50.000 9.53 0.00 45.03 3.01
1621 2834 1.963515 GCGGAAAGCATATTCCCCATT 59.036 47.619 9.53 0.00 45.03 3.16
1622 2835 1.620822 GCGGAAAGCATATTCCCCAT 58.379 50.000 9.53 0.00 45.03 4.00
1623 2836 3.109847 GCGGAAAGCATATTCCCCA 57.890 52.632 9.53 0.00 45.03 4.96
1634 2847 3.419915 CGAAAATGATGACAGCGGAAAG 58.580 45.455 0.00 0.00 0.00 2.62
1635 2848 2.161410 CCGAAAATGATGACAGCGGAAA 59.839 45.455 0.00 0.00 39.62 3.13
1638 2851 0.378257 CCCGAAAATGATGACAGCGG 59.622 55.000 0.00 0.00 37.20 5.52
1639 2852 0.378257 CCCCGAAAATGATGACAGCG 59.622 55.000 0.00 0.00 0.00 5.18
1640 2853 0.740737 CCCCCGAAAATGATGACAGC 59.259 55.000 0.00 0.00 0.00 4.40
1641 2854 2.128771 ACCCCCGAAAATGATGACAG 57.871 50.000 0.00 0.00 0.00 3.51
1642 2855 2.595750 AACCCCCGAAAATGATGACA 57.404 45.000 0.00 0.00 0.00 3.58
1643 2856 3.257127 TGAAAACCCCCGAAAATGATGAC 59.743 43.478 0.00 0.00 0.00 3.06
1644 2857 3.501349 TGAAAACCCCCGAAAATGATGA 58.499 40.909 0.00 0.00 0.00 2.92
1645 2858 3.951775 TGAAAACCCCCGAAAATGATG 57.048 42.857 0.00 0.00 0.00 3.07
1646 2859 4.081142 GGATTGAAAACCCCCGAAAATGAT 60.081 41.667 0.00 0.00 0.00 2.45
1647 2860 3.259625 GGATTGAAAACCCCCGAAAATGA 59.740 43.478 0.00 0.00 0.00 2.57
1648 2861 3.260632 AGGATTGAAAACCCCCGAAAATG 59.739 43.478 0.00 0.00 15.05 2.32
1649 2862 3.516586 AGGATTGAAAACCCCCGAAAAT 58.483 40.909 0.00 0.00 15.05 1.82
1650 2863 2.965562 AGGATTGAAAACCCCCGAAAA 58.034 42.857 0.00 0.00 15.05 2.29
1651 2864 2.687003 AGGATTGAAAACCCCCGAAA 57.313 45.000 0.00 0.00 15.05 3.46
1652 2865 2.619590 GCTAGGATTGAAAACCCCCGAA 60.620 50.000 0.00 0.00 15.05 4.30
1653 2866 1.064979 GCTAGGATTGAAAACCCCCGA 60.065 52.381 0.00 0.00 15.05 5.14
1654 2867 1.064685 AGCTAGGATTGAAAACCCCCG 60.065 52.381 0.00 0.00 15.05 5.73
1655 2868 2.025321 TGAGCTAGGATTGAAAACCCCC 60.025 50.000 0.00 0.00 15.05 5.40
1656 2869 3.282885 CTGAGCTAGGATTGAAAACCCC 58.717 50.000 0.00 0.00 15.05 4.95
1657 2870 2.685388 GCTGAGCTAGGATTGAAAACCC 59.315 50.000 0.00 0.00 0.00 4.11
1658 2871 3.127721 GTGCTGAGCTAGGATTGAAAACC 59.872 47.826 5.83 0.00 0.00 3.27
1659 2872 3.127721 GGTGCTGAGCTAGGATTGAAAAC 59.872 47.826 5.83 0.00 0.00 2.43
1660 2873 3.347216 GGTGCTGAGCTAGGATTGAAAA 58.653 45.455 5.83 0.00 0.00 2.29
1661 2874 2.677902 CGGTGCTGAGCTAGGATTGAAA 60.678 50.000 5.83 0.00 0.00 2.69
1662 2875 1.134699 CGGTGCTGAGCTAGGATTGAA 60.135 52.381 5.83 0.00 0.00 2.69
1663 2876 0.461548 CGGTGCTGAGCTAGGATTGA 59.538 55.000 5.83 0.00 0.00 2.57
1664 2877 0.176680 ACGGTGCTGAGCTAGGATTG 59.823 55.000 5.83 0.00 0.00 2.67
1665 2878 0.905357 AACGGTGCTGAGCTAGGATT 59.095 50.000 5.83 0.00 0.00 3.01
1666 2879 0.905357 AAACGGTGCTGAGCTAGGAT 59.095 50.000 5.83 0.00 0.00 3.24
1667 2880 0.685097 AAAACGGTGCTGAGCTAGGA 59.315 50.000 5.83 0.00 0.00 2.94
1668 2881 0.798776 CAAAACGGTGCTGAGCTAGG 59.201 55.000 5.83 0.00 0.00 3.02
1669 2882 1.195448 CACAAAACGGTGCTGAGCTAG 59.805 52.381 5.83 0.00 31.10 3.42
1670 2883 1.225855 CACAAAACGGTGCTGAGCTA 58.774 50.000 5.83 0.00 31.10 3.32
1671 2884 0.748005 ACACAAAACGGTGCTGAGCT 60.748 50.000 5.83 0.00 42.55 4.09
1672 2885 0.592247 CACACAAAACGGTGCTGAGC 60.592 55.000 0.00 0.00 42.55 4.26
1673 2886 0.029300 CCACACAAAACGGTGCTGAG 59.971 55.000 0.00 0.00 42.55 3.35
1674 2887 1.999071 GCCACACAAAACGGTGCTGA 61.999 55.000 0.00 0.00 42.55 4.26
1675 2888 1.588667 GCCACACAAAACGGTGCTG 60.589 57.895 0.00 0.00 42.55 4.41
1676 2889 1.752694 AGCCACACAAAACGGTGCT 60.753 52.632 0.00 0.00 42.55 4.40
1677 2890 1.588667 CAGCCACACAAAACGGTGC 60.589 57.895 0.00 0.00 42.55 5.01
1678 2891 1.065600 CCAGCCACACAAAACGGTG 59.934 57.895 0.00 0.00 44.35 4.94
1679 2892 0.467290 ATCCAGCCACACAAAACGGT 60.467 50.000 0.00 0.00 0.00 4.83
1680 2893 0.039256 CATCCAGCCACACAAAACGG 60.039 55.000 0.00 0.00 0.00 4.44
1681 2894 0.950836 TCATCCAGCCACACAAAACG 59.049 50.000 0.00 0.00 0.00 3.60
1682 2895 2.297033 ACATCATCCAGCCACACAAAAC 59.703 45.455 0.00 0.00 0.00 2.43
1683 2896 2.296752 CACATCATCCAGCCACACAAAA 59.703 45.455 0.00 0.00 0.00 2.44
1684 2897 1.887854 CACATCATCCAGCCACACAAA 59.112 47.619 0.00 0.00 0.00 2.83
1685 2898 1.073603 TCACATCATCCAGCCACACAA 59.926 47.619 0.00 0.00 0.00 3.33
1686 2899 0.691904 TCACATCATCCAGCCACACA 59.308 50.000 0.00 0.00 0.00 3.72
1687 2900 1.376543 CTCACATCATCCAGCCACAC 58.623 55.000 0.00 0.00 0.00 3.82
1688 2901 0.393402 GCTCACATCATCCAGCCACA 60.393 55.000 0.00 0.00 0.00 4.17
1689 2902 0.107312 AGCTCACATCATCCAGCCAC 60.107 55.000 0.00 0.00 31.81 5.01
1690 2903 0.179702 GAGCTCACATCATCCAGCCA 59.820 55.000 9.40 0.00 31.81 4.75
1691 2904 0.179702 TGAGCTCACATCATCCAGCC 59.820 55.000 13.74 0.00 31.81 4.85
1692 2905 2.034104 TTGAGCTCACATCATCCAGC 57.966 50.000 18.03 0.00 0.00 4.85
1693 2906 4.154375 GCATATTGAGCTCACATCATCCAG 59.846 45.833 18.03 2.41 0.00 3.86
1694 2907 4.070009 GCATATTGAGCTCACATCATCCA 58.930 43.478 18.03 0.00 0.00 3.41
1695 2908 3.124806 CGCATATTGAGCTCACATCATCC 59.875 47.826 18.03 1.03 0.00 3.51
1696 2909 3.424565 GCGCATATTGAGCTCACATCATC 60.425 47.826 18.03 3.53 40.12 2.92
1697 2910 2.483106 GCGCATATTGAGCTCACATCAT 59.517 45.455 18.03 9.99 40.12 2.45
1698 2911 1.869132 GCGCATATTGAGCTCACATCA 59.131 47.619 18.03 1.16 40.12 3.07
1699 2912 1.869132 TGCGCATATTGAGCTCACATC 59.131 47.619 18.03 3.33 43.72 3.06
1700 2913 1.957668 TGCGCATATTGAGCTCACAT 58.042 45.000 18.03 15.14 43.72 3.21
1701 2914 1.957668 ATGCGCATATTGAGCTCACA 58.042 45.000 24.02 9.77 43.72 3.58
1702 2915 2.288729 TGAATGCGCATATTGAGCTCAC 59.711 45.455 25.61 3.24 43.72 3.51
1703 2916 2.288729 GTGAATGCGCATATTGAGCTCA 59.711 45.455 25.61 18.44 43.72 4.26
1704 2917 2.547211 AGTGAATGCGCATATTGAGCTC 59.453 45.455 25.61 15.88 43.72 4.09
1705 2918 2.547211 GAGTGAATGCGCATATTGAGCT 59.453 45.455 25.61 15.31 43.72 4.09
1706 2919 2.547211 AGAGTGAATGCGCATATTGAGC 59.453 45.455 25.61 11.76 43.64 4.26
1707 2920 3.121092 CGAGAGTGAATGCGCATATTGAG 60.121 47.826 25.61 6.93 0.00 3.02
1708 2921 2.796593 CGAGAGTGAATGCGCATATTGA 59.203 45.455 25.61 0.00 0.00 2.57
1709 2922 2.796593 TCGAGAGTGAATGCGCATATTG 59.203 45.455 25.61 3.09 0.00 1.90
1710 2923 3.055591 CTCGAGAGTGAATGCGCATATT 58.944 45.455 25.61 10.16 0.00 1.28
1711 2924 2.670479 CTCGAGAGTGAATGCGCATAT 58.330 47.619 25.61 13.97 0.00 1.78
1712 2925 1.865655 GCTCGAGAGTGAATGCGCATA 60.866 52.381 25.61 5.93 0.00 3.14
1713 2926 1.150567 GCTCGAGAGTGAATGCGCAT 61.151 55.000 19.28 19.28 0.00 4.73
1714 2927 1.807165 GCTCGAGAGTGAATGCGCA 60.807 57.895 18.75 14.96 0.00 6.09
1715 2928 1.080995 AAGCTCGAGAGTGAATGCGC 61.081 55.000 18.75 0.00 0.00 6.09
1716 2929 0.644331 CAAGCTCGAGAGTGAATGCG 59.356 55.000 18.75 0.00 0.00 4.73
1717 2930 1.392853 CACAAGCTCGAGAGTGAATGC 59.607 52.381 18.75 0.00 33.99 3.56
1718 2931 2.681706 ACACAAGCTCGAGAGTGAATG 58.318 47.619 28.23 17.10 35.97 2.67
1719 2932 4.218635 TCTTACACAAGCTCGAGAGTGAAT 59.781 41.667 28.23 15.87 35.97 2.57
1720 2933 3.568430 TCTTACACAAGCTCGAGAGTGAA 59.432 43.478 28.23 19.49 35.97 3.18
1721 2934 3.146847 TCTTACACAAGCTCGAGAGTGA 58.853 45.455 28.23 15.46 35.97 3.41
1722 2935 3.560902 TCTTACACAAGCTCGAGAGTG 57.439 47.619 18.75 21.54 37.95 3.51
1723 2936 3.674682 GCATCTTACACAAGCTCGAGAGT 60.675 47.826 18.75 8.25 0.00 3.24
1724 2937 2.857152 GCATCTTACACAAGCTCGAGAG 59.143 50.000 18.75 7.54 0.00 3.20
1725 2938 2.732282 CGCATCTTACACAAGCTCGAGA 60.732 50.000 18.75 0.00 0.00 4.04
1726 2939 1.585668 CGCATCTTACACAAGCTCGAG 59.414 52.381 8.45 8.45 0.00 4.04
1727 2940 1.629013 CGCATCTTACACAAGCTCGA 58.371 50.000 0.00 0.00 0.00 4.04
1728 2941 0.647410 CCGCATCTTACACAAGCTCG 59.353 55.000 0.00 0.00 0.00 5.03
1729 2942 1.726853 ACCGCATCTTACACAAGCTC 58.273 50.000 0.00 0.00 0.00 4.09
1730 2943 2.028476 TGTACCGCATCTTACACAAGCT 60.028 45.455 0.00 0.00 0.00 3.74
1731 2944 2.343101 TGTACCGCATCTTACACAAGC 58.657 47.619 0.00 0.00 0.00 4.01
1732 2945 5.232202 CAGTATGTACCGCATCTTACACAAG 59.768 44.000 0.00 0.00 38.94 3.16
1733 2946 5.106442 CAGTATGTACCGCATCTTACACAA 58.894 41.667 0.00 0.00 38.94 3.33
1734 2947 4.678622 CAGTATGTACCGCATCTTACACA 58.321 43.478 0.00 0.00 38.94 3.72
1750 2963 3.903714 TGGGGTCATGGAGATACAGTATG 59.096 47.826 0.00 0.00 46.00 2.39
1751 2964 4.140686 TCTGGGGTCATGGAGATACAGTAT 60.141 45.833 0.00 0.00 0.00 2.12
1752 2965 3.206639 TCTGGGGTCATGGAGATACAGTA 59.793 47.826 0.00 0.00 0.00 2.74
1753 2966 2.023015 TCTGGGGTCATGGAGATACAGT 60.023 50.000 0.00 0.00 0.00 3.55
1754 2967 2.682594 TCTGGGGTCATGGAGATACAG 58.317 52.381 0.00 0.00 0.00 2.74
1755 2968 2.866923 TCTGGGGTCATGGAGATACA 57.133 50.000 0.00 0.00 0.00 2.29
1756 2969 2.370189 CCTTCTGGGGTCATGGAGATAC 59.630 54.545 0.00 0.00 0.00 2.24
1757 2970 2.250008 TCCTTCTGGGGTCATGGAGATA 59.750 50.000 0.00 0.00 35.33 1.98
1758 2971 1.010046 TCCTTCTGGGGTCATGGAGAT 59.990 52.381 0.00 0.00 35.33 2.75
1817 3030 2.202987 CTGCAGCTAAGCCGGGAG 60.203 66.667 2.18 0.00 0.00 4.30
1841 3054 1.741401 CGGATTCTGAGCAACCGCA 60.741 57.895 0.00 0.00 42.27 5.69
1867 3087 3.297134 TGGATTGTATGAAGGCCCTTC 57.703 47.619 16.88 16.88 40.54 3.46
1868 3088 3.205056 TGATGGATTGTATGAAGGCCCTT 59.795 43.478 0.00 0.00 0.00 3.95
1898 3118 1.403249 GCCTGCCTAACGAAGTAACGA 60.403 52.381 0.00 0.00 45.00 3.85
1899 3119 0.997196 GCCTGCCTAACGAAGTAACG 59.003 55.000 0.00 0.00 45.00 3.18
1900 3120 2.000447 CTGCCTGCCTAACGAAGTAAC 59.000 52.381 0.00 0.00 45.00 2.50
1901 3121 1.066430 CCTGCCTGCCTAACGAAGTAA 60.066 52.381 0.00 0.00 45.00 2.24
1902 3122 0.535335 CCTGCCTGCCTAACGAAGTA 59.465 55.000 0.00 0.00 45.00 2.24
1904 3124 2.109126 GCCTGCCTGCCTAACGAAG 61.109 63.158 0.00 0.00 0.00 3.79
1905 3125 2.046314 GCCTGCCTGCCTAACGAA 60.046 61.111 0.00 0.00 0.00 3.85
1921 3141 3.179443 TGTCTTCCCTTCGTCATATGC 57.821 47.619 0.00 0.00 0.00 3.14
1942 3162 3.243367 CCGTTTTTGACAGCTGAATGGAA 60.243 43.478 23.35 6.61 0.00 3.53
1952 3172 3.609373 CAGCAATATGCCGTTTTTGACAG 59.391 43.478 0.00 0.00 46.52 3.51
1981 3208 3.624861 CAGGCTACTCTGTTGGCAAATAG 59.375 47.826 0.00 3.81 36.47 1.73
1984 3211 1.545428 CCAGGCTACTCTGTTGGCAAA 60.545 52.381 0.00 0.00 36.47 3.68
1989 3216 1.625818 AGGAACCAGGCTACTCTGTTG 59.374 52.381 0.00 0.00 33.14 3.33
1990 3217 1.625818 CAGGAACCAGGCTACTCTGTT 59.374 52.381 0.00 0.00 33.14 3.16
1997 3224 1.203313 AGGACTTCAGGAACCAGGCTA 60.203 52.381 0.00 0.00 0.00 3.93
1998 3225 0.474660 AGGACTTCAGGAACCAGGCT 60.475 55.000 0.00 0.00 0.00 4.58
2063 3302 8.757982 AAATGGATTGCTACTTCTGAACATAT 57.242 30.769 0.00 0.00 0.00 1.78
2077 3316 7.418254 GGAAACATATCAAGGAAATGGATTGCT 60.418 37.037 0.00 0.00 42.14 3.91
2098 3337 1.627550 GAGGCTCGTCGCTTGGAAAC 61.628 60.000 0.00 0.00 39.13 2.78
2140 3379 3.845781 TCCTGTCTTGAGCAAGTTCTT 57.154 42.857 9.79 0.00 39.38 2.52
2142 3381 3.124297 CGATTCCTGTCTTGAGCAAGTTC 59.876 47.826 9.79 5.88 39.38 3.01
2204 3443 5.277876 GGCAGTTGCTCAGAATATCTTCATG 60.278 44.000 3.88 0.00 41.70 3.07
2227 3466 1.376037 GCAGGTGGACCGAAAGAGG 60.376 63.158 0.00 0.00 42.08 3.69
2237 3476 1.679641 CATGGCATGTGCAGGTGGA 60.680 57.895 19.32 0.00 44.36 4.02
2242 3481 3.611766 GCATCTTATCATGGCATGTGCAG 60.612 47.826 25.62 18.42 44.36 4.41
2251 3490 9.833917 AGTCATAATAGATGCATCTTATCATGG 57.166 33.333 32.94 16.75 38.32 3.66


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

AutoCloner maintained by Alex Coulton.