Multiple sequence alignment - TraesCS6A01G041600

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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 TraesCS6A01G041600 chr6A 100.000 2380 0 0 1 2380 21747141 21749520 0.000000e+00 4396
1 TraesCS6A01G041600 chr6A 93.214 1341 40 11 755 2095 21804251 21805540 0.000000e+00 1925
2 TraesCS6A01G041600 chr6A 91.648 455 26 7 212 665 21803822 21804265 9.340000e-174 619
3 TraesCS6A01G041600 chr6A 93.772 289 18 0 2092 2380 21805788 21806076 3.630000e-118 435
4 TraesCS6A01G041600 chr6A 97.628 253 4 1 1663 1915 21805539 21805789 1.310000e-117 433
5 TraesCS6A01G041600 chr6A 95.200 125 5 1 644 767 613616710 613616586 1.870000e-46 196
6 TraesCS6A01G041600 chr6D 90.409 709 55 7 932 1635 22676945 22677645 0.000000e+00 920
7 TraesCS6A01G041600 chr6D 89.563 709 55 8 932 1635 22459783 22460477 0.000000e+00 881
8 TraesCS6A01G041600 chr6D 88.999 709 57 13 932 1635 22566880 22567572 0.000000e+00 857
9 TraesCS6A01G041600 chr6D 88.575 709 58 14 932 1635 22361417 22362107 0.000000e+00 839
10 TraesCS6A01G041600 chr6D 88.083 579 65 4 88 665 22832855 22833430 0.000000e+00 684
11 TraesCS6A01G041600 chr6D 83.333 756 84 22 1632 2380 22713190 22713910 0.000000e+00 660
12 TraesCS6A01G041600 chr6D 85.763 590 66 6 88 676 22672262 22672834 2.020000e-170 608
13 TraesCS6A01G041600 chr6D 85.198 581 64 9 88 665 22450476 22451037 5.700000e-161 577
14 TraesCS6A01G041600 chr6D 89.059 457 50 0 1924 2380 22500298 22500754 3.430000e-158 568
15 TraesCS6A01G041600 chr6D 89.059 457 50 0 1924 2380 22603269 22603725 3.430000e-158 568
16 TraesCS6A01G041600 chr6D 80.181 772 119 20 782 1538 22384335 22385087 4.470000e-152 547
17 TraesCS6A01G041600 chr6D 87.905 463 56 0 1918 2380 22383470 22383932 1.610000e-151 545
18 TraesCS6A01G041600 chr6D 79.793 772 124 20 782 1538 22604129 22604883 1.250000e-147 532
19 TraesCS6A01G041600 chr6D 87.467 383 47 1 88 469 22356575 22356957 7.810000e-120 440
20 TraesCS6A01G041600 chr6D 85.574 305 39 5 782 1085 22501158 22501458 4.940000e-82 315
21 TraesCS6A01G041600 chr6D 83.893 298 46 2 1243 1538 22715048 22715345 1.390000e-72 283
22 TraesCS6A01G041600 chr6D 95.902 122 3 2 652 773 81674744 81674625 1.870000e-46 196
23 TraesCS6A01G041600 chr6D 94.643 112 5 1 1549 1660 22717020 22717130 3.150000e-39 172
24 TraesCS6A01G041600 chr6D 83.505 194 15 4 472 665 22357005 22357181 5.260000e-37 165
25 TraesCS6A01G041600 chr6B 88.842 475 49 4 193 665 37061061 37061533 4.410000e-162 580
26 TraesCS6A01G041600 chr6B 85.798 514 51 5 1394 1906 37068253 37068745 2.100000e-145 525
27 TraesCS6A01G041600 chr6B 79.895 761 112 27 882 1624 37073184 37073921 9.750000e-144 520
28 TraesCS6A01G041600 chr6B 88.863 422 44 2 1917 2336 37068801 37069221 1.260000e-142 516
29 TraesCS6A01G041600 chr6B 85.624 473 48 11 932 1402 37064510 37064964 1.650000e-131 479
30 TraesCS6A01G041600 chr6B 86.740 181 20 1 755 935 37061519 37061695 5.190000e-47 198
31 TraesCS6A01G041600 chr6B 92.481 133 9 1 652 783 623357772 623357904 3.120000e-44 189
32 TraesCS6A01G041600 chr7D 85.455 440 59 3 230 665 560472878 560473316 1.000000e-123 453
33 TraesCS6A01G041600 chr7D 85.194 439 60 3 231 665 560538450 560538887 1.680000e-121 446
34 TraesCS6A01G041600 chr7D 91.011 89 8 0 6 94 56912069 56911981 1.160000e-23 121
35 TraesCS6A01G041600 chr7B 77.922 616 85 24 85 665 608304063 608304662 1.050000e-88 337
36 TraesCS6A01G041600 chr7B 93.893 131 5 3 639 767 113133330 113133201 6.710000e-46 195
37 TraesCS6A01G041600 chr7B 92.135 89 7 0 6 94 376416268 376416180 2.480000e-25 126
38 TraesCS6A01G041600 chr5B 98.261 115 2 0 644 758 18337337 18337223 4.010000e-48 202
39 TraesCS6A01G041600 chr4A 98.261 115 2 0 652 766 655433839 655433725 4.010000e-48 202
40 TraesCS6A01G041600 chr3A 98.261 115 1 1 645 759 583676585 583676698 1.440000e-47 200
41 TraesCS6A01G041600 chr2B 95.161 124 4 2 644 767 133013599 133013720 6.710000e-46 195
42 TraesCS6A01G041600 chrUn 95.798 119 3 2 646 762 301836914 301837032 8.680000e-45 191
43 TraesCS6A01G041600 chrUn 90.323 93 9 0 3 95 121739497 121739589 3.210000e-24 122
44 TraesCS6A01G041600 chr7A 90.441 136 13 0 438 573 644541293 644541428 1.880000e-41 180
45 TraesCS6A01G041600 chr1A 93.258 89 6 0 3 91 58287594 58287682 5.340000e-27 132
46 TraesCS6A01G041600 chr2A 92.135 89 7 0 3 91 631841971 631842059 2.480000e-25 126
47 TraesCS6A01G041600 chr1D 92.135 89 7 0 6 94 319516620 319516532 2.480000e-25 126
48 TraesCS6A01G041600 chr1D 89.888 89 6 1 3 91 113831206 113831291 6.950000e-21 111
49 TraesCS6A01G041600 chr4D 91.011 89 8 0 3 91 132949746 132949834 1.160000e-23 121
50 TraesCS6A01G041600 chr2D 89.888 89 9 0 3 91 460731511 460731599 5.380000e-22 115


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 TraesCS6A01G041600 chr6A 21747141 21749520 2379 False 4396.000000 4396 100.000000 1 2380 1 chr6A.!!$F1 2379
1 TraesCS6A01G041600 chr6A 21803822 21806076 2254 False 853.000000 1925 94.065500 212 2380 4 chr6A.!!$F2 2168
2 TraesCS6A01G041600 chr6D 22676945 22677645 700 False 920.000000 920 90.409000 932 1635 1 chr6D.!!$F6 703
3 TraesCS6A01G041600 chr6D 22459783 22460477 694 False 881.000000 881 89.563000 932 1635 1 chr6D.!!$F3 703
4 TraesCS6A01G041600 chr6D 22566880 22567572 692 False 857.000000 857 88.999000 932 1635 1 chr6D.!!$F4 703
5 TraesCS6A01G041600 chr6D 22361417 22362107 690 False 839.000000 839 88.575000 932 1635 1 chr6D.!!$F1 703
6 TraesCS6A01G041600 chr6D 22832855 22833430 575 False 684.000000 684 88.083000 88 665 1 chr6D.!!$F7 577
7 TraesCS6A01G041600 chr6D 22672262 22672834 572 False 608.000000 608 85.763000 88 676 1 chr6D.!!$F5 588
8 TraesCS6A01G041600 chr6D 22450476 22451037 561 False 577.000000 577 85.198000 88 665 1 chr6D.!!$F2 577
9 TraesCS6A01G041600 chr6D 22603269 22604883 1614 False 550.000000 568 84.426000 782 2380 2 chr6D.!!$F11 1598
10 TraesCS6A01G041600 chr6D 22383470 22385087 1617 False 546.000000 547 84.043000 782 2380 2 chr6D.!!$F9 1598
11 TraesCS6A01G041600 chr6D 22500298 22501458 1160 False 441.500000 568 87.316500 782 2380 2 chr6D.!!$F10 1598
12 TraesCS6A01G041600 chr6D 22713190 22717130 3940 False 371.666667 660 87.289667 1243 2380 3 chr6D.!!$F12 1137
13 TraesCS6A01G041600 chr6D 22356575 22357181 606 False 302.500000 440 85.486000 88 665 2 chr6D.!!$F8 577
14 TraesCS6A01G041600 chr6B 37061061 37073921 12860 False 469.666667 580 85.960333 193 2336 6 chr6B.!!$F2 2143
15 TraesCS6A01G041600 chr7B 608304063 608304662 599 False 337.000000 337 77.922000 85 665 1 chr7B.!!$F1 580

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
95 96 0.248949 GTAGTGGGAGGCGATCGAAC 60.249 60.000 21.57 10.88 0.0 3.95 F
749 835 1.060122 GCGACAAGTAATTCCGAACGG 59.940 52.381 6.94 6.94 0.0 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1087 4185 0.038021 TGCTATCTTGCAGGCCAACA 59.962 50.0 5.01 0.0 38.12 3.33 R
2110 16336 0.179004 TGACCGCCCACAGATTTTGT 60.179 50.0 0.00 0.0 41.94 2.83 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
45 46 3.971702 GCCTCACCACAGGGGCTT 61.972 66.667 0.00 0.00 42.05 4.35
46 47 2.352805 CCTCACCACAGGGGCTTC 59.647 66.667 0.00 0.00 42.05 3.86
47 48 2.046892 CTCACCACAGGGGCTTCG 60.047 66.667 0.00 0.00 42.05 3.79
48 49 4.329545 TCACCACAGGGGCTTCGC 62.330 66.667 0.00 0.00 42.05 4.70
58 59 4.643387 GGCTTCGCCCTGTGGTGT 62.643 66.667 0.00 0.00 44.06 4.16
59 60 3.050275 GCTTCGCCCTGTGGTGTC 61.050 66.667 0.00 0.00 43.03 3.67
60 61 2.358737 CTTCGCCCTGTGGTGTCC 60.359 66.667 0.00 0.00 43.03 4.02
61 62 2.847234 TTCGCCCTGTGGTGTCCT 60.847 61.111 0.00 0.00 43.03 3.85
62 63 2.788191 CTTCGCCCTGTGGTGTCCTC 62.788 65.000 0.00 0.00 43.03 3.71
63 64 3.625897 CGCCCTGTGGTGTCCTCA 61.626 66.667 0.00 0.00 37.37 3.86
65 66 1.600916 GCCCTGTGGTGTCCTCAAC 60.601 63.158 0.00 0.00 0.00 3.18
67 68 1.745890 CCTGTGGTGTCCTCAACGA 59.254 57.895 0.00 0.00 33.30 3.85
68 69 0.321671 CCTGTGGTGTCCTCAACGAT 59.678 55.000 0.00 0.00 33.30 3.73
69 70 1.432514 CTGTGGTGTCCTCAACGATG 58.567 55.000 0.00 0.00 33.30 3.84
71 72 1.003839 TGGTGTCCTCAACGATGGC 60.004 57.895 0.00 0.00 33.30 4.40
74 75 3.195698 GTCCTCAACGATGGCGGC 61.196 66.667 0.00 0.00 43.17 6.53
75 76 4.812476 TCCTCAACGATGGCGGCG 62.812 66.667 0.51 0.51 43.17 6.46
78 79 3.709880 CTCAACGATGGCGGCGGTA 62.710 63.158 9.78 0.00 43.17 4.02
79 80 3.261951 CAACGATGGCGGCGGTAG 61.262 66.667 9.78 0.00 43.17 3.18
80 81 3.766691 AACGATGGCGGCGGTAGT 61.767 61.111 9.78 0.00 43.17 2.73
81 82 4.508128 ACGATGGCGGCGGTAGTG 62.508 66.667 9.78 0.00 43.17 2.74
83 84 4.910585 GATGGCGGCGGTAGTGGG 62.911 72.222 9.78 0.00 0.00 4.61
95 96 0.248949 GTAGTGGGAGGCGATCGAAC 60.249 60.000 21.57 10.88 0.00 3.95
106 107 2.789893 GGCGATCGAACACTATCTTGAC 59.210 50.000 21.57 0.00 0.00 3.18
114 115 6.285224 TCGAACACTATCTTGACCTTTGAAA 58.715 36.000 0.00 0.00 0.00 2.69
128 129 3.610911 CTTTGAAAAGGTAGATCGGGCT 58.389 45.455 0.00 0.00 32.40 5.19
130 131 2.184533 TGAAAAGGTAGATCGGGCTGA 58.815 47.619 0.00 0.00 0.00 4.26
251 271 8.573035 ACGGATAAGTGTGTAAAAATTGACAAT 58.427 29.630 0.00 0.00 0.00 2.71
275 297 2.588464 TTGTTAAATTCGGCCCTCCA 57.412 45.000 0.00 0.00 0.00 3.86
345 367 5.640732 CAATATTTTGTCTAAACCTGCGCT 58.359 37.500 9.73 0.00 0.00 5.92
368 390 7.265673 GCTAATTAATTTGGAAAGGGAGGAAC 58.734 38.462 5.91 0.00 0.00 3.62
477 563 5.894298 ATCTACCACCATTATTGCTCTCA 57.106 39.130 0.00 0.00 0.00 3.27
510 596 1.502231 ACATGGATTACGATCGCAGC 58.498 50.000 16.60 4.65 32.84 5.25
552 638 9.364989 GGACGACTATAGTACGAGATATTAAGT 57.635 37.037 22.83 5.04 0.00 2.24
556 642 9.771915 GACTATAGTACGAGATATTAAGTTGCC 57.228 37.037 5.09 0.00 0.00 4.52
578 664 3.563808 CGAATTAATGGGCGATCCTTTCA 59.436 43.478 0.00 0.00 35.00 2.69
661 747 9.064706 TCCTATTGTAAATAAGTACTCTCTCCG 57.935 37.037 0.00 0.00 0.00 4.63
665 751 6.779117 TGTAAATAAGTACTCTCTCCGTTCG 58.221 40.000 0.00 0.00 0.00 3.95
666 752 4.897025 AATAAGTACTCTCTCCGTTCGG 57.103 45.455 4.74 4.74 0.00 4.30
668 754 2.486472 AGTACTCTCTCCGTTCGGAA 57.514 50.000 14.79 5.84 33.41 4.30
669 755 3.002038 AGTACTCTCTCCGTTCGGAAT 57.998 47.619 14.79 2.09 33.41 3.01
671 757 4.521146 AGTACTCTCTCCGTTCGGAATTA 58.479 43.478 14.79 3.46 33.41 1.40
673 759 3.354467 ACTCTCTCCGTTCGGAATTACT 58.646 45.455 14.79 0.00 33.41 2.24
674 760 3.762823 ACTCTCTCCGTTCGGAATTACTT 59.237 43.478 14.79 0.00 33.41 2.24
675 761 4.106029 TCTCTCCGTTCGGAATTACTTG 57.894 45.455 14.79 2.23 33.41 3.16
676 762 3.508793 TCTCTCCGTTCGGAATTACTTGT 59.491 43.478 14.79 0.00 33.41 3.16
677 763 3.841643 TCTCCGTTCGGAATTACTTGTC 58.158 45.455 14.79 0.00 33.41 3.18
678 764 3.508793 TCTCCGTTCGGAATTACTTGTCT 59.491 43.478 14.79 0.00 33.41 3.41
680 766 2.597305 CCGTTCGGAATTACTTGTCTCG 59.403 50.000 5.19 0.00 0.00 4.04
681 767 2.597305 CGTTCGGAATTACTTGTCTCGG 59.403 50.000 0.00 0.00 0.00 4.63
686 772 4.868171 TCGGAATTACTTGTCTCGGAAATG 59.132 41.667 0.00 0.00 0.00 2.32
687 773 4.034048 CGGAATTACTTGTCTCGGAAATGG 59.966 45.833 0.00 0.00 0.00 3.16
688 774 5.183228 GGAATTACTTGTCTCGGAAATGGA 58.817 41.667 0.00 0.00 0.00 3.41
689 775 5.823045 GGAATTACTTGTCTCGGAAATGGAT 59.177 40.000 0.00 0.00 0.00 3.41
690 776 6.238484 GGAATTACTTGTCTCGGAAATGGATG 60.238 42.308 0.00 0.00 0.00 3.51
691 777 3.703001 ACTTGTCTCGGAAATGGATGT 57.297 42.857 0.00 0.00 0.00 3.06
692 778 4.819105 ACTTGTCTCGGAAATGGATGTA 57.181 40.909 0.00 0.00 0.00 2.29
693 779 5.359194 ACTTGTCTCGGAAATGGATGTAT 57.641 39.130 0.00 0.00 0.00 2.29
694 780 5.360591 ACTTGTCTCGGAAATGGATGTATC 58.639 41.667 0.00 0.00 0.00 2.24
695 781 5.129485 ACTTGTCTCGGAAATGGATGTATCT 59.871 40.000 0.00 0.00 0.00 1.98
696 782 6.323996 ACTTGTCTCGGAAATGGATGTATCTA 59.676 38.462 0.00 0.00 0.00 1.98
697 783 6.332735 TGTCTCGGAAATGGATGTATCTAG 57.667 41.667 0.00 0.00 0.00 2.43
698 784 6.068670 TGTCTCGGAAATGGATGTATCTAGA 58.931 40.000 0.00 0.00 0.00 2.43
699 785 6.549736 TGTCTCGGAAATGGATGTATCTAGAA 59.450 38.462 0.00 0.00 0.00 2.10
700 786 6.864165 GTCTCGGAAATGGATGTATCTAGAAC 59.136 42.308 0.00 0.00 0.00 3.01
701 787 6.778069 TCTCGGAAATGGATGTATCTAGAACT 59.222 38.462 0.00 0.00 0.00 3.01
702 788 7.942894 TCTCGGAAATGGATGTATCTAGAACTA 59.057 37.037 0.00 0.00 0.00 2.24
704 790 8.920174 TCGGAAATGGATGTATCTAGAACTAAA 58.080 33.333 0.00 0.00 0.00 1.85
705 791 9.542462 CGGAAATGGATGTATCTAGAACTAAAA 57.458 33.333 0.00 0.00 0.00 1.52
729 815 9.698309 AAATACGTCTAGATACATCCATTTCTG 57.302 33.333 0.00 0.00 0.00 3.02
730 816 5.533482 ACGTCTAGATACATCCATTTCTGC 58.467 41.667 0.00 0.00 0.00 4.26
731 817 4.618912 CGTCTAGATACATCCATTTCTGCG 59.381 45.833 0.00 0.00 0.00 5.18
732 818 5.562890 CGTCTAGATACATCCATTTCTGCGA 60.563 44.000 0.00 0.00 0.00 5.10
734 820 4.406648 AGATACATCCATTTCTGCGACA 57.593 40.909 0.00 0.00 0.00 4.35
736 822 4.813161 AGATACATCCATTTCTGCGACAAG 59.187 41.667 0.00 0.00 0.00 3.16
737 823 2.783135 ACATCCATTTCTGCGACAAGT 58.217 42.857 0.00 0.00 0.00 3.16
739 825 4.323417 ACATCCATTTCTGCGACAAGTAA 58.677 39.130 0.00 0.00 0.00 2.24
740 826 4.943705 ACATCCATTTCTGCGACAAGTAAT 59.056 37.500 0.00 0.00 0.00 1.89
741 827 5.415701 ACATCCATTTCTGCGACAAGTAATT 59.584 36.000 0.00 0.00 0.00 1.40
742 828 5.545658 TCCATTTCTGCGACAAGTAATTC 57.454 39.130 0.00 0.00 0.00 2.17
743 829 4.394920 TCCATTTCTGCGACAAGTAATTCC 59.605 41.667 0.00 0.00 0.00 3.01
744 830 4.334443 CATTTCTGCGACAAGTAATTCCG 58.666 43.478 0.00 0.00 0.00 4.30
745 831 3.306917 TTCTGCGACAAGTAATTCCGA 57.693 42.857 0.00 0.00 0.00 4.55
746 832 3.306917 TCTGCGACAAGTAATTCCGAA 57.693 42.857 0.00 0.00 0.00 4.30
747 833 2.991190 TCTGCGACAAGTAATTCCGAAC 59.009 45.455 0.00 0.00 0.00 3.95
748 834 1.722464 TGCGACAAGTAATTCCGAACG 59.278 47.619 0.00 0.00 0.00 3.95
749 835 1.060122 GCGACAAGTAATTCCGAACGG 59.940 52.381 6.94 6.94 0.00 4.44
750 836 2.598589 CGACAAGTAATTCCGAACGGA 58.401 47.619 12.04 12.04 43.52 4.69
751 837 2.597305 CGACAAGTAATTCCGAACGGAG 59.403 50.000 15.34 5.60 46.06 4.63
752 838 2.928116 GACAAGTAATTCCGAACGGAGG 59.072 50.000 15.34 4.52 46.06 4.30
755 841 1.755380 AGTAATTCCGAACGGAGGGAG 59.245 52.381 15.34 0.00 46.06 4.30
757 843 1.856629 AATTCCGAACGGAGGGAGTA 58.143 50.000 15.34 1.05 46.06 2.59
759 845 1.856629 TTCCGAACGGAGGGAGTATT 58.143 50.000 15.34 0.00 46.06 1.89
815 1072 9.836076 TGTTTAGATACGTATATATCTGCACAC 57.164 33.333 8.34 1.07 41.17 3.82
823 1080 7.198390 ACGTATATATCTGCACACTAAAACGT 58.802 34.615 0.00 0.00 33.06 3.99
834 1091 6.091437 GCACACTAAAACGTGTCTAGATACT 58.909 40.000 16.47 1.78 45.74 2.12
881 1159 7.663905 CGTCAATTAACAATGGAGGGGATATTA 59.336 37.037 0.00 0.00 0.00 0.98
882 1160 9.533831 GTCAATTAACAATGGAGGGGATATTAT 57.466 33.333 0.00 0.00 0.00 1.28
894 1172 8.945193 TGGAGGGGATATTATATAGTTAATGGC 58.055 37.037 0.00 0.00 0.00 4.40
895 1173 9.172060 GGAGGGGATATTATATAGTTAATGGCT 57.828 37.037 0.00 0.00 0.00 4.75
897 1175 9.744125 AGGGGATATTATATAGTTAATGGCTGA 57.256 33.333 0.00 0.00 0.00 4.26
1032 4129 5.994887 AGATAGCACTAGTAGTCTTGTCG 57.005 43.478 0.00 0.00 0.00 4.35
1033 4130 5.672503 AGATAGCACTAGTAGTCTTGTCGA 58.327 41.667 0.00 0.00 0.00 4.20
1087 4185 8.943594 TGGTAAGTAAATAATCCTGGTTTTGT 57.056 30.769 0.00 0.00 0.00 2.83
1089 4187 8.799367 GGTAAGTAAATAATCCTGGTTTTGTGT 58.201 33.333 0.00 0.00 0.00 3.72
1092 4190 7.666623 AGTAAATAATCCTGGTTTTGTGTTGG 58.333 34.615 0.00 0.00 0.00 3.77
1093 4191 2.908688 AATCCTGGTTTTGTGTTGGC 57.091 45.000 0.00 0.00 0.00 4.52
1094 4192 1.047801 ATCCTGGTTTTGTGTTGGCC 58.952 50.000 0.00 0.00 0.00 5.36
1097 4195 0.530431 CTGGTTTTGTGTTGGCCTGC 60.530 55.000 3.32 0.00 0.00 4.85
1100 4198 1.289276 GTTTTGTGTTGGCCTGCAAG 58.711 50.000 3.32 0.00 0.00 4.01
1101 4199 1.134848 GTTTTGTGTTGGCCTGCAAGA 60.135 47.619 3.32 0.00 34.07 3.02
1103 4201 2.284754 TTGTGTTGGCCTGCAAGATA 57.715 45.000 3.32 0.00 34.07 1.98
1105 4203 0.453390 GTGTTGGCCTGCAAGATAGC 59.547 55.000 3.32 0.00 34.07 2.97
1109 4207 1.203237 TGGCCTGCAAGATAGCACTA 58.797 50.000 3.32 0.00 40.11 2.74
1114 4212 5.426509 TGGCCTGCAAGATAGCACTATATAT 59.573 40.000 3.32 0.00 40.11 0.86
1115 4213 6.611236 TGGCCTGCAAGATAGCACTATATATA 59.389 38.462 3.32 0.00 40.11 0.86
1116 4214 7.125659 TGGCCTGCAAGATAGCACTATATATAA 59.874 37.037 3.32 0.00 40.11 0.98
1117 4215 7.655328 GGCCTGCAAGATAGCACTATATATAAG 59.345 40.741 0.00 0.00 40.11 1.73
1118 4216 7.655328 GCCTGCAAGATAGCACTATATATAAGG 59.345 40.741 0.00 0.00 40.11 2.69
1119 4217 7.655328 CCTGCAAGATAGCACTATATATAAGGC 59.345 40.741 7.04 7.04 40.11 4.35
1120 4218 8.311395 TGCAAGATAGCACTATATATAAGGCT 57.689 34.615 17.26 17.26 40.11 4.58
1121 4219 8.200120 TGCAAGATAGCACTATATATAAGGCTG 58.800 37.037 20.24 10.38 40.11 4.85
1122 4220 8.200792 GCAAGATAGCACTATATATAAGGCTGT 58.799 37.037 20.24 16.15 33.10 4.40
1127 4225 7.648039 AGCACTATATATAAGGCTGTAGACC 57.352 40.000 14.02 0.00 0.00 3.85
1128 4226 7.415086 AGCACTATATATAAGGCTGTAGACCT 58.585 38.462 14.02 0.00 40.02 3.85
1130 4228 8.532819 GCACTATATATAAGGCTGTAGACCTTT 58.467 37.037 11.12 4.95 45.39 3.11
1132 4230 8.958506 ACTATATATAAGGCTGTAGACCTTTCG 58.041 37.037 11.12 0.00 45.39 3.46
1133 4231 2.667473 TAAGGCTGTAGACCTTTCGC 57.333 50.000 11.12 0.00 45.39 4.70
1459 13770 9.369904 GTTGTATCAGAATAAATTGGCAATGTT 57.630 29.630 14.47 12.16 0.00 2.71
1523 13834 3.318017 ACGAAGAGTTTCCAATCGACTG 58.682 45.455 0.07 0.00 37.27 3.51
1711 15686 2.914289 CTCTCTCATGCCCCCACC 59.086 66.667 0.00 0.00 0.00 4.61
1841 15816 2.609825 CCGAATCCAAGGCATCTCG 58.390 57.895 0.00 0.00 0.00 4.04
1878 15853 1.960417 TGTCAGATGCCAAACGAACA 58.040 45.000 0.00 0.00 0.00 3.18
1945 15920 3.488090 GCTAGGACAACCGCGCAC 61.488 66.667 8.75 0.00 41.83 5.34
1996 15971 3.338676 GAATGCCCGTCGGATCGC 61.339 66.667 14.39 8.56 0.00 4.58
2010 15985 1.683629 GGATCGCCACCCCACATAAAA 60.684 52.381 0.00 0.00 0.00 1.52
2043 16018 1.138247 GTCGTTGCCGTATCGAGGT 59.862 57.895 0.00 0.00 34.33 3.85
2071 16046 2.048597 CCGCTCACCGTTGCTACA 60.049 61.111 0.00 0.00 34.38 2.74
2075 16050 1.469251 CGCTCACCGTTGCTACAGTAT 60.469 52.381 0.00 0.00 0.00 2.12
2109 16335 4.287067 TGGAGTCATATTGAATAGGAGGCC 59.713 45.833 0.00 5.57 0.00 5.19
2110 16336 4.287067 GGAGTCATATTGAATAGGAGGCCA 59.713 45.833 5.01 0.00 0.00 5.36
2117 16343 5.859205 ATTGAATAGGAGGCCACAAAATC 57.141 39.130 5.01 0.00 0.00 2.17
2118 16344 4.591321 TGAATAGGAGGCCACAAAATCT 57.409 40.909 5.01 0.00 0.00 2.40
2150 16376 1.219393 GACCTCAGGAAGAAGCGGG 59.781 63.158 0.00 0.00 0.00 6.13
2182 16408 2.818432 GGACAGTACAACGAAGAGGAGA 59.182 50.000 0.00 0.00 0.00 3.71
2192 16418 1.066114 GAAGAGGAGACGAACGTGCG 61.066 60.000 16.06 16.06 37.29 5.34
2236 16462 3.543680 TGTTAGGATAGCAAGAGTGGC 57.456 47.619 0.00 0.00 0.00 5.01
2261 16487 6.268387 CCCATTTGTATTATTCTCAGCCCAAT 59.732 38.462 0.00 0.00 0.00 3.16
2266 16492 5.893255 TGTATTATTCTCAGCCCAATTTGCT 59.107 36.000 0.00 0.00 40.41 3.91
2273 16499 2.819608 TCAGCCCAATTTGCTACAAGAC 59.180 45.455 0.00 0.00 36.81 3.01
2296 16522 1.067821 CCAGCTCGACCTGAGGATTAC 59.932 57.143 4.99 0.00 45.38 1.89
2304 16530 1.294068 ACCTGAGGATTACCAGCCCTA 59.706 52.381 4.99 0.00 38.94 3.53
2312 16538 4.593634 AGGATTACCAGCCCTATAACAGTC 59.406 45.833 0.00 0.00 38.94 3.51
2322 16548 1.961394 CTATAACAGTCGGCCAGCCTA 59.039 52.381 2.24 0.00 0.00 3.93
2336 16562 3.488553 GCCAGCCTAATTAACGCGAATTT 60.489 43.478 15.93 0.00 31.51 1.82
2370 16596 3.227810 GGTACGAGAGATGTTTCGGTT 57.772 47.619 7.71 0.00 40.93 4.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 3.927481 GAAGCCCCTGTGGTGAGGC 62.927 68.421 0.00 0.00 46.13 4.70
29 30 2.352805 GAAGCCCCTGTGGTGAGG 59.647 66.667 0.00 0.00 36.04 3.86
30 31 2.046892 CGAAGCCCCTGTGGTGAG 60.047 66.667 0.00 0.00 36.04 3.51
43 44 2.358737 GGACACCACAGGGCGAAG 60.359 66.667 0.00 0.00 37.90 3.79
44 45 2.847234 AGGACACCACAGGGCGAA 60.847 61.111 0.00 0.00 37.90 4.70
45 46 3.311110 GAGGACACCACAGGGCGA 61.311 66.667 0.00 0.00 37.90 5.54
46 47 3.177194 TTGAGGACACCACAGGGCG 62.177 63.158 0.00 0.00 37.90 6.13
47 48 1.600916 GTTGAGGACACCACAGGGC 60.601 63.158 0.00 0.00 37.90 5.19
48 49 1.301716 CGTTGAGGACACCACAGGG 60.302 63.158 0.00 0.00 41.29 4.45
49 50 0.321671 ATCGTTGAGGACACCACAGG 59.678 55.000 0.00 0.00 0.00 4.00
51 52 0.034756 CCATCGTTGAGGACACCACA 59.965 55.000 0.00 0.00 0.00 4.17
52 53 1.298859 GCCATCGTTGAGGACACCAC 61.299 60.000 0.00 0.00 0.00 4.16
53 54 1.003839 GCCATCGTTGAGGACACCA 60.004 57.895 0.00 0.00 0.00 4.17
54 55 2.100631 CGCCATCGTTGAGGACACC 61.101 63.158 0.00 0.00 0.00 4.16
55 56 2.100631 CCGCCATCGTTGAGGACAC 61.101 63.158 0.00 0.00 0.00 3.67
56 57 2.264480 CCGCCATCGTTGAGGACA 59.736 61.111 0.00 0.00 0.00 4.02
57 58 3.195698 GCCGCCATCGTTGAGGAC 61.196 66.667 10.75 1.53 0.00 3.85
58 59 4.812476 CGCCGCCATCGTTGAGGA 62.812 66.667 10.75 0.00 0.00 3.71
60 61 3.709880 TACCGCCGCCATCGTTGAG 62.710 63.158 0.00 0.00 0.00 3.02
61 62 3.709880 CTACCGCCGCCATCGTTGA 62.710 63.158 0.00 0.00 0.00 3.18
62 63 3.261951 CTACCGCCGCCATCGTTG 61.262 66.667 0.00 0.00 0.00 4.10
63 64 3.766691 ACTACCGCCGCCATCGTT 61.767 61.111 0.00 0.00 0.00 3.85
74 75 2.728817 GATCGCCTCCCACTACCG 59.271 66.667 0.00 0.00 0.00 4.02
75 76 1.389609 TTCGATCGCCTCCCACTACC 61.390 60.000 11.09 0.00 0.00 3.18
76 77 0.248949 GTTCGATCGCCTCCCACTAC 60.249 60.000 11.09 0.00 0.00 2.73
77 78 0.681887 TGTTCGATCGCCTCCCACTA 60.682 55.000 11.09 0.00 0.00 2.74
78 79 1.982395 TGTTCGATCGCCTCCCACT 60.982 57.895 11.09 0.00 0.00 4.00
79 80 1.810030 GTGTTCGATCGCCTCCCAC 60.810 63.158 11.09 8.27 0.00 4.61
80 81 0.681887 TAGTGTTCGATCGCCTCCCA 60.682 55.000 11.09 0.00 0.00 4.37
81 82 0.674534 ATAGTGTTCGATCGCCTCCC 59.325 55.000 11.09 0.00 0.00 4.30
82 83 1.609555 AGATAGTGTTCGATCGCCTCC 59.390 52.381 11.09 0.00 32.34 4.30
83 84 3.046390 CAAGATAGTGTTCGATCGCCTC 58.954 50.000 11.09 4.49 32.34 4.70
86 87 2.789893 GGTCAAGATAGTGTTCGATCGC 59.210 50.000 11.09 0.00 32.34 4.58
114 115 3.610911 CTTTTTCAGCCCGATCTACCTT 58.389 45.455 0.00 0.00 0.00 3.50
126 127 4.122046 AGCAATTTGACACCTTTTTCAGC 58.878 39.130 0.00 0.00 0.00 4.26
128 129 7.014134 TCTCATAGCAATTTGACACCTTTTTCA 59.986 33.333 0.00 0.00 0.00 2.69
130 131 7.288810 TCTCATAGCAATTTGACACCTTTTT 57.711 32.000 0.00 0.00 0.00 1.94
204 205 3.254166 GTGTTCCTTGACATTGTGATGCT 59.746 43.478 0.00 0.00 36.72 3.79
206 207 3.365264 CCGTGTTCCTTGACATTGTGATG 60.365 47.826 0.00 0.00 39.25 3.07
210 211 2.631160 TCCGTGTTCCTTGACATTGT 57.369 45.000 0.00 0.00 0.00 2.71
313 335 9.529325 GGTTTAGACAAAATATTGCCTAAATCC 57.471 33.333 11.43 10.71 46.30 3.01
345 367 8.728596 TTGTTCCTCCCTTTCCAAATTAATTA 57.271 30.769 0.01 0.00 0.00 1.40
450 491 7.016914 AGAGCAATAATGGTGGTAGATAGGTA 58.983 38.462 0.00 0.00 37.41 3.08
453 494 6.997655 TGAGAGCAATAATGGTGGTAGATAG 58.002 40.000 0.00 0.00 37.41 2.08
469 510 5.647225 TGTATGCATACACAATTGAGAGCAA 59.353 36.000 31.03 7.45 38.28 3.91
477 563 7.443879 TCGTAATCCATGTATGCATACACAATT 59.556 33.333 35.53 31.01 45.11 2.32
510 596 5.955488 AGTCGTCCATAAGATTGATATCCG 58.045 41.667 0.00 0.00 0.00 4.18
552 638 1.606668 GATCGCCCATTAATTCGGCAA 59.393 47.619 18.90 5.50 43.17 4.52
556 642 3.563808 TGAAAGGATCGCCCATTAATTCG 59.436 43.478 0.00 0.00 37.41 3.34
578 664 3.885297 CCTGACGCCAAATTCCTTCATAT 59.115 43.478 0.00 0.00 0.00 1.78
650 736 3.779271 AATTCCGAACGGAGAGAGTAC 57.221 47.619 15.34 0.00 46.06 2.73
655 741 3.846360 ACAAGTAATTCCGAACGGAGAG 58.154 45.455 15.34 5.41 46.06 3.20
656 742 3.508793 AGACAAGTAATTCCGAACGGAGA 59.491 43.478 15.34 8.02 46.06 3.71
657 743 3.846360 AGACAAGTAATTCCGAACGGAG 58.154 45.455 15.34 5.60 46.06 4.63
659 745 2.597305 CGAGACAAGTAATTCCGAACGG 59.403 50.000 6.94 6.94 0.00 4.44
660 746 2.597305 CCGAGACAAGTAATTCCGAACG 59.403 50.000 0.00 0.00 0.00 3.95
661 747 3.841643 TCCGAGACAAGTAATTCCGAAC 58.158 45.455 0.00 0.00 0.00 3.95
664 750 4.034048 CCATTTCCGAGACAAGTAATTCCG 59.966 45.833 0.00 0.00 0.00 4.30
665 751 5.183228 TCCATTTCCGAGACAAGTAATTCC 58.817 41.667 0.00 0.00 0.00 3.01
666 752 6.316390 ACATCCATTTCCGAGACAAGTAATTC 59.684 38.462 0.00 0.00 0.00 2.17
668 754 5.745227 ACATCCATTTCCGAGACAAGTAAT 58.255 37.500 0.00 0.00 0.00 1.89
669 755 5.160607 ACATCCATTTCCGAGACAAGTAA 57.839 39.130 0.00 0.00 0.00 2.24
671 757 3.703001 ACATCCATTTCCGAGACAAGT 57.297 42.857 0.00 0.00 0.00 3.16
673 759 5.614324 AGATACATCCATTTCCGAGACAA 57.386 39.130 0.00 0.00 0.00 3.18
674 760 6.068670 TCTAGATACATCCATTTCCGAGACA 58.931 40.000 0.00 0.00 0.00 3.41
675 761 6.576662 TCTAGATACATCCATTTCCGAGAC 57.423 41.667 0.00 0.00 0.00 3.36
676 762 6.778069 AGTTCTAGATACATCCATTTCCGAGA 59.222 38.462 0.00 0.00 0.00 4.04
677 763 6.987386 AGTTCTAGATACATCCATTTCCGAG 58.013 40.000 0.00 0.00 0.00 4.63
678 764 6.978674 AGTTCTAGATACATCCATTTCCGA 57.021 37.500 0.00 0.00 0.00 4.55
704 790 7.815068 GCAGAAATGGATGTATCTAGACGTATT 59.185 37.037 0.00 0.00 0.00 1.89
705 791 7.316640 GCAGAAATGGATGTATCTAGACGTAT 58.683 38.462 0.00 0.00 0.00 3.06
708 794 4.618912 CGCAGAAATGGATGTATCTAGACG 59.381 45.833 0.00 0.00 0.00 4.18
709 795 5.631512 GTCGCAGAAATGGATGTATCTAGAC 59.368 44.000 0.00 0.00 39.69 2.59
710 796 5.301805 TGTCGCAGAAATGGATGTATCTAGA 59.698 40.000 0.00 0.00 39.69 2.43
711 797 5.532557 TGTCGCAGAAATGGATGTATCTAG 58.467 41.667 0.00 0.00 39.69 2.43
713 799 4.406648 TGTCGCAGAAATGGATGTATCT 57.593 40.909 0.00 0.00 39.69 1.98
714 800 4.572389 ACTTGTCGCAGAAATGGATGTATC 59.428 41.667 0.00 0.00 39.69 2.24
715 801 4.517285 ACTTGTCGCAGAAATGGATGTAT 58.483 39.130 0.00 0.00 39.69 2.29
718 804 4.944962 TTACTTGTCGCAGAAATGGATG 57.055 40.909 0.00 0.00 39.69 3.51
721 807 4.662145 GGAATTACTTGTCGCAGAAATGG 58.338 43.478 0.00 0.00 39.69 3.16
722 808 4.092821 TCGGAATTACTTGTCGCAGAAATG 59.907 41.667 0.00 0.00 39.69 2.32
723 809 4.250464 TCGGAATTACTTGTCGCAGAAAT 58.750 39.130 0.00 0.00 39.69 2.17
724 810 3.655486 TCGGAATTACTTGTCGCAGAAA 58.345 40.909 0.00 0.00 39.69 2.52
725 811 3.306917 TCGGAATTACTTGTCGCAGAA 57.693 42.857 0.00 0.00 39.69 3.02
726 812 2.991190 GTTCGGAATTACTTGTCGCAGA 59.009 45.455 0.00 0.00 0.00 4.26
727 813 2.222508 CGTTCGGAATTACTTGTCGCAG 60.223 50.000 0.00 0.00 0.00 5.18
728 814 1.722464 CGTTCGGAATTACTTGTCGCA 59.278 47.619 0.00 0.00 0.00 5.10
729 815 1.060122 CCGTTCGGAATTACTTGTCGC 59.940 52.381 5.19 0.00 0.00 5.19
730 816 2.597305 CTCCGTTCGGAATTACTTGTCG 59.403 50.000 14.79 0.00 33.41 4.35
731 817 2.928116 CCTCCGTTCGGAATTACTTGTC 59.072 50.000 14.79 0.00 33.41 3.18
732 818 2.354403 CCCTCCGTTCGGAATTACTTGT 60.354 50.000 14.79 0.00 33.41 3.16
734 820 2.167900 CTCCCTCCGTTCGGAATTACTT 59.832 50.000 14.79 0.00 33.41 2.24
736 822 1.479730 ACTCCCTCCGTTCGGAATTAC 59.520 52.381 14.79 0.00 33.41 1.89
737 823 1.856629 ACTCCCTCCGTTCGGAATTA 58.143 50.000 14.79 2.82 33.41 1.40
739 825 2.083628 ATACTCCCTCCGTTCGGAAT 57.916 50.000 14.79 2.14 33.41 3.01
740 826 1.856629 AATACTCCCTCCGTTCGGAA 58.143 50.000 14.79 0.00 33.41 4.30
741 827 1.753073 GAAATACTCCCTCCGTTCGGA 59.247 52.381 13.34 13.34 0.00 4.55
742 828 1.755380 AGAAATACTCCCTCCGTTCGG 59.245 52.381 4.74 4.74 0.00 4.30
743 829 2.688958 AGAGAAATACTCCCTCCGTTCG 59.311 50.000 0.00 0.00 45.96 3.95
744 830 6.408107 AATAGAGAAATACTCCCTCCGTTC 57.592 41.667 0.00 0.00 45.96 3.95
745 831 5.304871 GGAATAGAGAAATACTCCCTCCGTT 59.695 44.000 0.00 0.00 45.96 4.44
746 832 4.833938 GGAATAGAGAAATACTCCCTCCGT 59.166 45.833 0.00 0.00 45.96 4.69
747 833 4.833380 TGGAATAGAGAAATACTCCCTCCG 59.167 45.833 0.00 0.00 45.96 4.63
748 834 6.749036 TTGGAATAGAGAAATACTCCCTCC 57.251 41.667 0.00 0.00 45.96 4.30
749 835 7.797062 AGTTTGGAATAGAGAAATACTCCCTC 58.203 38.462 0.00 0.00 45.96 4.30
750 836 7.757242 AGTTTGGAATAGAGAAATACTCCCT 57.243 36.000 0.00 0.00 45.96 4.20
757 843 8.398665 GCGTCAATTAGTTTGGAATAGAGAAAT 58.601 33.333 0.00 0.00 35.92 2.17
759 845 6.876789 TGCGTCAATTAGTTTGGAATAGAGAA 59.123 34.615 0.00 0.00 35.92 2.87
815 1072 9.784680 ATACACAAGTATCTAGACACGTTTTAG 57.215 33.333 0.00 0.00 36.16 1.85
834 1091 7.262048 TGACGCACATTAATCTAGATACACAA 58.738 34.615 5.46 0.00 0.00 3.33
848 1105 6.404184 CCTCCATTGTTAATTGACGCACATTA 60.404 38.462 0.00 0.00 0.00 1.90
891 1169 8.853126 CCTTCTATCATTAAATTTCATCAGCCA 58.147 33.333 0.00 0.00 0.00 4.75
892 1170 8.854117 ACCTTCTATCATTAAATTTCATCAGCC 58.146 33.333 0.00 0.00 0.00 4.85
900 1178 9.713684 TGGGATGAACCTTCTATCATTAAATTT 57.286 29.630 0.00 0.00 36.45 1.82
901 1179 9.713684 TTGGGATGAACCTTCTATCATTAAATT 57.286 29.630 0.00 0.00 36.45 1.82
902 1180 9.359653 CTTGGGATGAACCTTCTATCATTAAAT 57.640 33.333 0.00 0.00 36.45 1.40
903 1181 7.285401 GCTTGGGATGAACCTTCTATCATTAAA 59.715 37.037 0.00 0.00 36.45 1.52
904 1182 6.772716 GCTTGGGATGAACCTTCTATCATTAA 59.227 38.462 0.00 0.00 36.45 1.40
905 1183 6.126507 TGCTTGGGATGAACCTTCTATCATTA 60.127 38.462 0.00 0.00 36.45 1.90
908 1186 3.523157 TGCTTGGGATGAACCTTCTATCA 59.477 43.478 0.00 0.00 38.98 2.15
1032 4129 7.384660 CAGAGGAAGAATGCTAACACAGATATC 59.615 40.741 0.00 0.00 0.00 1.63
1033 4130 7.215789 CAGAGGAAGAATGCTAACACAGATAT 58.784 38.462 0.00 0.00 0.00 1.63
1087 4185 0.038021 TGCTATCTTGCAGGCCAACA 59.962 50.000 5.01 0.00 38.12 3.33
1089 4187 0.329261 AGTGCTATCTTGCAGGCCAA 59.671 50.000 5.01 0.00 44.20 4.52
1091 4189 2.557920 ATAGTGCTATCTTGCAGGCC 57.442 50.000 0.00 0.00 44.20 5.19
1092 4190 7.655328 CCTTATATATAGTGCTATCTTGCAGGC 59.345 40.741 0.00 0.00 44.20 4.85
1093 4191 7.655328 GCCTTATATATAGTGCTATCTTGCAGG 59.345 40.741 7.83 0.00 44.20 4.85
1094 4192 8.420222 AGCCTTATATATAGTGCTATCTTGCAG 58.580 37.037 13.50 0.00 44.20 4.41
1101 4199 9.357161 GGTCTACAGCCTTATATATAGTGCTAT 57.643 37.037 14.30 8.78 0.00 2.97
1103 4201 7.415086 AGGTCTACAGCCTTATATATAGTGCT 58.585 38.462 10.65 10.65 31.04 4.40
1109 4207 6.437793 AGCGAAAGGTCTACAGCCTTATATAT 59.562 38.462 0.00 0.00 44.84 0.86
1114 4212 2.176889 AGCGAAAGGTCTACAGCCTTA 58.823 47.619 0.00 0.00 44.84 2.69
1116 4214 1.848652 TAGCGAAAGGTCTACAGCCT 58.151 50.000 0.00 0.00 44.26 4.58
1117 4215 2.892784 ATAGCGAAAGGTCTACAGCC 57.107 50.000 0.00 0.00 44.26 4.85
1118 4216 8.030106 AGAATTATATAGCGAAAGGTCTACAGC 58.970 37.037 0.00 0.00 44.26 4.40
1128 4226 9.146984 CCGTCCAATTAGAATTATATAGCGAAA 57.853 33.333 0.00 0.00 0.00 3.46
1129 4227 8.308931 ACCGTCCAATTAGAATTATATAGCGAA 58.691 33.333 0.00 0.00 0.00 4.70
1130 4228 7.833786 ACCGTCCAATTAGAATTATATAGCGA 58.166 34.615 0.00 0.00 0.00 4.93
1131 4229 8.475331 AACCGTCCAATTAGAATTATATAGCG 57.525 34.615 0.00 0.00 0.00 4.26
1148 4252 3.225177 TGTAAATCCCAAAACCGTCCA 57.775 42.857 0.00 0.00 0.00 4.02
1666 15641 1.246056 GGGTTCGGTTTTACTGCCCC 61.246 60.000 0.00 0.00 31.33 5.80
1711 15686 2.336667 GTGATCCAACGGCCAAAAATG 58.663 47.619 2.24 0.00 0.00 2.32
1772 15747 0.904649 TCAGTATCAGCCCACACCAG 59.095 55.000 0.00 0.00 0.00 4.00
1878 15853 5.065731 GGACGCAAATGAGAGAATCAAGAAT 59.934 40.000 0.00 0.00 42.53 2.40
1908 15883 2.096248 CCTAGGTCGGGAGAGATATGC 58.904 57.143 0.00 0.00 41.26 3.14
2071 16046 2.492484 GACTCCACAACTCCGTGATACT 59.508 50.000 0.00 0.00 39.34 2.12
2075 16050 1.338107 ATGACTCCACAACTCCGTGA 58.662 50.000 0.00 0.00 39.34 4.35
2110 16336 0.179004 TGACCGCCCACAGATTTTGT 60.179 50.000 0.00 0.00 41.94 2.83
2150 16376 2.280552 TACTGTCCCGTGTGGAGGC 61.281 63.158 0.00 0.00 46.38 4.70
2192 16418 2.202479 GCCAGATTTTCGCCACGC 60.202 61.111 0.00 0.00 0.00 5.34
2236 16462 5.139727 TGGGCTGAGAATAATACAAATGGG 58.860 41.667 0.00 0.00 0.00 4.00
2261 16487 1.234615 GCTGGGCGTCTTGTAGCAAA 61.235 55.000 0.00 0.00 34.64 3.68
2266 16492 1.974875 TCGAGCTGGGCGTCTTGTA 60.975 57.895 0.00 0.00 0.00 2.41
2273 16499 4.504916 CTCAGGTCGAGCTGGGCG 62.505 72.222 36.48 23.80 34.18 6.13
2296 16522 0.249911 GCCGACTGTTATAGGGCTGG 60.250 60.000 0.00 0.00 40.59 4.85
2304 16530 1.200519 TTAGGCTGGCCGACTGTTAT 58.799 50.000 12.53 0.00 41.95 1.89
2312 16538 1.647084 GCGTTAATTAGGCTGGCCG 59.353 57.895 5.93 0.00 41.95 6.13
2322 16548 3.310501 CCCGTCCTAAATTCGCGTTAATT 59.689 43.478 5.77 2.52 0.00 1.40
2336 16562 1.024271 CGTACCGATTTCCCGTCCTA 58.976 55.000 0.00 0.00 0.00 2.94
2356 16582 3.868757 TCGATCAACCGAAACATCTCT 57.131 42.857 0.00 0.00 35.42 3.10


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

AutoCloner maintained by Alex Coulton.