Multiple sequence alignment - TraesCS6B01G333300

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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 TraesCS6B01G333300 chr6B 100.000 3356 0 0 1 3356 584912726 584909371 0.000000e+00 6198.0
1 TraesCS6B01G333300 chr6B 91.549 142 12 0 3047 3188 584684977 584684836 2.640000e-46 196.0
2 TraesCS6B01G333300 chr6B 92.381 105 8 0 3243 3347 584684822 584684718 2.090000e-32 150.0
3 TraesCS6B01G333300 chr6B 85.827 127 13 3 2911 3033 584685245 584685120 2.720000e-26 130.0
4 TraesCS6B01G333300 chr6B 97.674 43 1 0 690 732 159697858 159697900 1.290000e-09 75.0
5 TraesCS6B01G333300 chr6B 95.455 44 2 0 690 733 488916476 488916519 1.670000e-08 71.3
6 TraesCS6B01G333300 chr6D 94.412 2237 68 11 964 3198 391538240 391536059 0.000000e+00 3386.0
7 TraesCS6B01G333300 chr6D 94.083 169 8 1 733 901 391539126 391538960 4.300000e-64 255.0
8 TraesCS6B01G333300 chr6D 74.847 489 107 15 1324 1804 16775621 16775141 1.220000e-49 207.0
9 TraesCS6B01G333300 chr6D 94.643 112 4 1 3242 3353 391536058 391535949 4.450000e-39 172.0
10 TraesCS6B01G333300 chr6D 97.674 43 1 0 690 732 65107576 65107534 1.290000e-09 75.0
11 TraesCS6B01G333300 chr6A 93.781 1817 57 9 964 2772 537662178 537660410 0.000000e+00 2678.0
12 TraesCS6B01G333300 chr6A 93.264 386 17 5 2815 3198 537660409 537660031 8.130000e-156 560.0
13 TraesCS6B01G333300 chr6A 90.000 170 15 1 3033 3200 537606993 537606824 5.640000e-53 219.0
14 TraesCS6B01G333300 chr6A 88.235 170 18 1 3033 3200 537599733 537599564 5.680000e-48 202.0
15 TraesCS6B01G333300 chr6A 88.112 143 17 0 1326 1468 15700855 15700997 1.600000e-38 171.0
16 TraesCS6B01G333300 chr6A 88.112 143 17 0 1326 1468 15906812 15906670 1.600000e-38 171.0
17 TraesCS6B01G333300 chr6A 83.851 161 9 5 2876 3033 537607285 537607139 1.620000e-28 137.0
18 TraesCS6B01G333300 chr6A 86.667 120 11 3 2878 2993 537600160 537600042 9.770000e-26 128.0
19 TraesCS6B01G333300 chr6A 98.246 57 1 0 3242 3298 537660030 537659974 2.130000e-17 100.0
20 TraesCS6B01G333300 chr6A 97.674 43 1 0 2991 3033 537599919 537599877 1.290000e-09 75.0
21 TraesCS6B01G333300 chr6A 92.683 41 3 0 3313 3353 537659974 537659934 3.620000e-05 60.2
22 TraesCS6B01G333300 chr4B 89.914 694 58 9 1 688 481526278 481526965 0.000000e+00 883.0
23 TraesCS6B01G333300 chr4B 87.971 690 68 8 1 686 31288010 31287332 0.000000e+00 800.0
24 TraesCS6B01G333300 chr4B 97.674 43 1 0 690 732 595302199 595302157 1.290000e-09 75.0
25 TraesCS6B01G333300 chr3D 89.769 694 59 5 1 688 120105169 120104482 0.000000e+00 878.0
26 TraesCS6B01G333300 chr3D 88.109 698 72 7 1 688 520809788 520810484 0.000000e+00 819.0
27 TraesCS6B01G333300 chr3D 100.000 41 0 0 690 730 551004167 551004207 3.590000e-10 76.8
28 TraesCS6B01G333300 chr5A 87.936 688 75 7 1 686 675521661 675522342 0.000000e+00 804.0
29 TraesCS6B01G333300 chr5A 73.347 484 116 10 1326 1804 456099769 456099294 2.070000e-37 167.0
30 TraesCS6B01G333300 chr7B 87.124 699 76 10 1 686 126182747 126183444 0.000000e+00 780.0
31 TraesCS6B01G333300 chr7B 87.037 702 76 11 1 689 126209242 126209941 0.000000e+00 778.0
32 TraesCS6B01G333300 chr7B 87.037 702 76 10 1 689 126219689 126218990 0.000000e+00 778.0
33 TraesCS6B01G333300 chr7B 86.876 701 78 10 1 688 126171065 126170366 0.000000e+00 773.0
34 TraesCS6B01G333300 chr2B 74.333 487 108 12 1325 1804 54016540 54016064 1.230000e-44 191.0
35 TraesCS6B01G333300 chr2B 74.127 487 109 12 1325 1804 54043892 54043416 5.720000e-43 185.0
36 TraesCS6B01G333300 chr2B 100.000 48 0 0 3196 3243 110646260 110646213 4.610000e-14 89.8
37 TraesCS6B01G333300 chr2B 95.455 44 2 0 690 733 693443895 693443852 1.670000e-08 71.3
38 TraesCS6B01G333300 chr5D 72.621 515 123 12 1298 1804 356636904 356637408 1.610000e-33 154.0
39 TraesCS6B01G333300 chrUn 100.000 46 0 0 3198 3243 216509970 216510015 5.970000e-13 86.1
40 TraesCS6B01G333300 chrUn 100.000 46 0 0 3198 3243 390488944 390488899 5.970000e-13 86.1
41 TraesCS6B01G333300 chrUn 100.000 46 0 0 3198 3243 397078156 397078201 5.970000e-13 86.1
42 TraesCS6B01G333300 chrUn 100.000 46 0 0 3198 3243 424751007 424751052 5.970000e-13 86.1
43 TraesCS6B01G333300 chrUn 100.000 46 0 0 3198 3243 455552040 455551995 5.970000e-13 86.1
44 TraesCS6B01G333300 chr4D 100.000 46 0 0 3198 3243 18320772 18320727 5.970000e-13 86.1
45 TraesCS6B01G333300 chr4D 100.000 46 0 0 3198 3243 35179226 35179181 5.970000e-13 86.1
46 TraesCS6B01G333300 chr4D 100.000 46 0 0 3198 3243 348378863 348378908 5.970000e-13 86.1
47 TraesCS6B01G333300 chr7D 100.000 43 0 0 690 732 4240294 4240336 2.780000e-11 80.5
48 TraesCS6B01G333300 chr3B 97.674 43 1 0 690 732 236494635 236494677 1.290000e-09 75.0
49 TraesCS6B01G333300 chr1D 97.561 41 1 0 690 730 250708794 250708754 1.670000e-08 71.3


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 TraesCS6B01G333300 chr6B 584909371 584912726 3355 True 6198.00 6198 100.000000 1 3356 1 chr6B.!!$R1 3355
1 TraesCS6B01G333300 chr6D 391535949 391539126 3177 True 1271.00 3386 94.379333 733 3353 3 chr6D.!!$R3 2620
2 TraesCS6B01G333300 chr6A 537659934 537662178 2244 True 849.55 2678 94.493500 964 3353 4 chr6A.!!$R4 2389
3 TraesCS6B01G333300 chr4B 481526278 481526965 687 False 883.00 883 89.914000 1 688 1 chr4B.!!$F1 687
4 TraesCS6B01G333300 chr4B 31287332 31288010 678 True 800.00 800 87.971000 1 686 1 chr4B.!!$R1 685
5 TraesCS6B01G333300 chr3D 120104482 120105169 687 True 878.00 878 89.769000 1 688 1 chr3D.!!$R1 687
6 TraesCS6B01G333300 chr3D 520809788 520810484 696 False 819.00 819 88.109000 1 688 1 chr3D.!!$F1 687
7 TraesCS6B01G333300 chr5A 675521661 675522342 681 False 804.00 804 87.936000 1 686 1 chr5A.!!$F1 685
8 TraesCS6B01G333300 chr7B 126182747 126183444 697 False 780.00 780 87.124000 1 686 1 chr7B.!!$F1 685
9 TraesCS6B01G333300 chr7B 126209242 126209941 699 False 778.00 778 87.037000 1 689 1 chr7B.!!$F2 688
10 TraesCS6B01G333300 chr7B 126218990 126219689 699 True 778.00 778 87.037000 1 689 1 chr7B.!!$R2 688
11 TraesCS6B01G333300 chr7B 126170366 126171065 699 True 773.00 773 86.876000 1 688 1 chr7B.!!$R1 687

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
731 757 0.669318 CCGCGTTGGAGTTGCTCTTA 60.669 55.0 4.92 0.0 42.0 2.1 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2624 3345 0.254462 TTGCACGCATATGGAAGGGA 59.746 50.0 4.56 0.0 0.0 4.2 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
38 39 4.717629 CAGAACGACGGGCGCTGA 62.718 66.667 7.64 0.00 46.04 4.26
78 79 1.675641 AACACGGCAGCCAAGATCC 60.676 57.895 13.30 0.00 0.00 3.36
98 99 1.032794 CCTCCTCATCATCGGACGAA 58.967 55.000 0.00 0.00 0.00 3.85
125 126 2.997986 GTCGGAGTCGCAAAGGAAATTA 59.002 45.455 0.00 0.00 36.13 1.40
311 321 3.083997 GTGAGGATCTGGCCGGGT 61.084 66.667 12.87 3.42 34.92 5.28
438 454 0.767375 GAGGCATTGCAGAGGGGATA 59.233 55.000 11.39 0.00 0.00 2.59
474 494 1.407258 CTGGCAAAGTCACCGGAAAAA 59.593 47.619 9.46 0.00 33.88 1.94
652 677 2.990479 GAGAATGGGTCGGCAGGT 59.010 61.111 0.00 0.00 0.00 4.00
689 715 2.592287 GTCCGTTTGGGTCGGCAA 60.592 61.111 0.00 0.00 46.49 4.52
690 716 2.592287 TCCGTTTGGGTCGGCAAC 60.592 61.111 0.00 0.00 46.49 4.17
704 730 3.990806 CAACGCGCGTGGACGAAA 61.991 61.111 38.44 0.00 43.02 3.46
705 731 3.039588 AACGCGCGTGGACGAAAT 61.040 55.556 38.44 15.84 43.02 2.17
706 732 3.289816 AACGCGCGTGGACGAAATG 62.290 57.895 38.44 1.91 43.02 2.32
707 733 4.499023 CGCGCGTGGACGAAATGG 62.499 66.667 24.19 0.00 43.02 3.16
708 734 4.160635 GCGCGTGGACGAAATGGG 62.161 66.667 8.43 0.00 43.02 4.00
709 735 2.740826 CGCGTGGACGAAATGGGT 60.741 61.111 2.73 0.00 43.02 4.51
710 736 2.736682 CGCGTGGACGAAATGGGTC 61.737 63.158 2.73 0.00 43.02 4.46
711 737 2.736682 GCGTGGACGAAATGGGTCG 61.737 63.158 2.73 0.00 46.54 4.79
712 738 2.736682 CGTGGACGAAATGGGTCGC 61.737 63.158 0.00 0.00 45.00 5.19
713 739 2.046700 TGGACGAAATGGGTCGCC 60.047 61.111 0.00 0.00 45.00 5.54
714 740 3.192922 GGACGAAATGGGTCGCCG 61.193 66.667 0.00 0.00 45.00 6.46
715 741 3.861263 GACGAAATGGGTCGCCGC 61.861 66.667 0.00 0.00 45.00 6.53
718 744 3.428282 GAAATGGGTCGCCGCGTT 61.428 61.111 13.39 0.00 34.50 4.84
719 745 3.661025 GAAATGGGTCGCCGCGTTG 62.661 63.158 13.39 0.00 33.46 4.10
725 751 4.072088 GTCGCCGCGTTGGAGTTG 62.072 66.667 13.39 0.00 42.00 3.16
728 754 4.090057 GCCGCGTTGGAGTTGCTC 62.090 66.667 4.92 0.00 42.00 4.26
729 755 2.357517 CCGCGTTGGAGTTGCTCT 60.358 61.111 4.92 0.00 42.00 4.09
730 756 1.961277 CCGCGTTGGAGTTGCTCTT 60.961 57.895 4.92 0.00 42.00 2.85
731 757 0.669318 CCGCGTTGGAGTTGCTCTTA 60.669 55.000 4.92 0.00 42.00 2.10
739 765 1.336125 GGAGTTGCTCTTATGCATGGC 59.664 52.381 10.16 8.94 42.96 4.40
751 777 1.600916 GCATGGCCCGGTTATCCTC 60.601 63.158 0.00 0.00 0.00 3.71
752 778 1.836391 CATGGCCCGGTTATCCTCA 59.164 57.895 0.00 0.00 0.00 3.86
757 783 1.048601 GCCCGGTTATCCTCAGATCA 58.951 55.000 0.00 0.00 33.67 2.92
767 793 9.397280 CGGTTATCCTCAGATCAGAGTTATATA 57.603 37.037 13.47 4.23 33.67 0.86
786 812 0.914644 ATGGGTCACCTCATCACCTG 59.085 55.000 0.00 0.00 37.76 4.00
792 818 2.688446 GTCACCTCATCACCTGATCGTA 59.312 50.000 0.00 0.00 32.10 3.43
820 846 8.730680 ACTTTATTCTATTGTTGCTTTGTCGAT 58.269 29.630 0.00 0.00 0.00 3.59
857 883 3.889815 CCTGGTTCAGAAATATCCTGCA 58.110 45.455 0.00 0.00 32.44 4.41
893 919 7.390718 GGATACCACTCAAAGACATTTGTTACT 59.609 37.037 1.08 0.00 45.06 2.24
901 927 7.639039 TCAAAGACATTTGTTACTACTTGCAG 58.361 34.615 1.08 0.00 45.06 4.41
902 928 7.497579 TCAAAGACATTTGTTACTACTTGCAGA 59.502 33.333 1.08 0.00 45.06 4.26
903 929 7.801716 AAGACATTTGTTACTACTTGCAGAA 57.198 32.000 0.00 0.00 0.00 3.02
904 930 7.190920 AGACATTTGTTACTACTTGCAGAAC 57.809 36.000 0.00 0.00 0.00 3.01
905 931 6.992715 AGACATTTGTTACTACTTGCAGAACT 59.007 34.615 0.00 0.00 0.00 3.01
906 932 7.171678 AGACATTTGTTACTACTTGCAGAACTC 59.828 37.037 0.00 0.00 0.00 3.01
907 933 6.992715 ACATTTGTTACTACTTGCAGAACTCT 59.007 34.615 0.00 0.00 0.00 3.24
908 934 7.499232 ACATTTGTTACTACTTGCAGAACTCTT 59.501 33.333 0.00 0.00 0.00 2.85
909 935 8.988934 CATTTGTTACTACTTGCAGAACTCTTA 58.011 33.333 0.00 0.00 0.00 2.10
910 936 9.726438 ATTTGTTACTACTTGCAGAACTCTTAT 57.274 29.630 0.00 0.00 0.00 1.73
912 938 7.667557 TGTTACTACTTGCAGAACTCTTATGT 58.332 34.615 0.00 0.00 0.00 2.29
913 939 8.148351 TGTTACTACTTGCAGAACTCTTATGTT 58.852 33.333 0.00 0.00 0.00 2.71
916 942 7.865707 ACTACTTGCAGAACTCTTATGTTTTG 58.134 34.615 0.00 0.00 35.82 2.44
917 943 6.942532 ACTTGCAGAACTCTTATGTTTTGA 57.057 33.333 0.00 0.00 35.03 2.69
918 944 7.333528 ACTTGCAGAACTCTTATGTTTTGAA 57.666 32.000 0.00 0.00 35.03 2.69
919 945 7.196331 ACTTGCAGAACTCTTATGTTTTGAAC 58.804 34.615 0.00 0.00 35.03 3.18
920 946 6.942532 TGCAGAACTCTTATGTTTTGAACT 57.057 33.333 0.00 0.00 35.03 3.01
923 949 6.205658 GCAGAACTCTTATGTTTTGAACTCCT 59.794 38.462 0.00 0.00 35.03 3.69
924 950 7.387948 GCAGAACTCTTATGTTTTGAACTCCTA 59.612 37.037 0.00 0.00 35.03 2.94
925 951 9.442047 CAGAACTCTTATGTTTTGAACTCCTAT 57.558 33.333 0.00 0.00 35.03 2.57
928 1619 9.892130 AACTCTTATGTTTTGAACTCCTATAGG 57.108 33.333 13.07 13.07 0.00 2.57
932 1623 9.892130 CTTATGTTTTGAACTCCTATAGGAACT 57.108 33.333 21.93 11.94 44.91 3.01
934 1625 6.708285 TGTTTTGAACTCCTATAGGAACTCC 58.292 40.000 21.93 11.82 44.91 3.85
937 1628 6.546428 TTGAACTCCTATAGGAACTCCTTG 57.454 41.667 21.93 11.08 46.09 3.61
975 1666 2.976840 TTGGAATCCAGCGCGTTGC 61.977 57.895 18.28 4.07 46.98 4.17
993 1684 5.007823 GCGTTGCAGTACTTCTCTATCTCTA 59.992 44.000 0.00 0.00 0.00 2.43
1007 1698 5.649265 TCTATCTCTATCTTGCATGGTCCT 58.351 41.667 0.00 0.00 0.00 3.85
1027 1726 8.160765 TGGTCCTGATACAGAAAATTAGTCAAA 58.839 33.333 0.00 0.00 32.44 2.69
1066 1765 0.393944 TCCAGTATCCACTCGCTCGT 60.394 55.000 0.00 0.00 30.46 4.18
1172 1892 3.775654 GCCACGTCTCCTCCCCTG 61.776 72.222 0.00 0.00 0.00 4.45
1173 1893 3.775654 CCACGTCTCCTCCCCTGC 61.776 72.222 0.00 0.00 0.00 4.85
1174 1894 3.775654 CACGTCTCCTCCCCTGCC 61.776 72.222 0.00 0.00 0.00 4.85
1204 1924 1.372683 CACTCCCCCATGCCTATCG 59.627 63.158 0.00 0.00 0.00 2.92
1290 2010 3.524606 CGTATCCCCCACGTCGCT 61.525 66.667 0.00 0.00 34.74 4.93
1980 2700 2.363147 GCCGTCCTCAGGGAGACT 60.363 66.667 0.00 0.00 43.12 3.24
1992 2712 2.053277 GGAGACTCTCGGGTGGTCC 61.053 68.421 1.74 0.86 0.00 4.46
2286 3006 2.269241 GTTGCCCCCTTCGAGGAG 59.731 66.667 0.00 0.00 37.67 3.69
2326 3046 1.153901 GCTTACGACGCTGCCTGTA 60.154 57.895 0.00 0.00 0.00 2.74
2331 3051 4.814294 GACGCTGCCTGTACCGGG 62.814 72.222 6.32 1.62 0.00 5.73
2379 3099 5.125417 AGCACTGAGTGACTAGAAGAGAATC 59.875 44.000 18.18 0.00 35.23 2.52
2405 3125 2.165030 AGGTGTGCGTAGGTGTGTATAC 59.835 50.000 0.00 0.00 0.00 1.47
2410 3130 1.339291 GCGTAGGTGTGTATACCCTCC 59.661 57.143 0.00 0.00 41.83 4.30
2411 3131 1.959282 CGTAGGTGTGTATACCCTCCC 59.041 57.143 0.00 0.00 41.83 4.30
2412 3132 2.423947 CGTAGGTGTGTATACCCTCCCT 60.424 54.545 0.00 3.41 41.83 4.20
2413 3133 2.963654 AGGTGTGTATACCCTCCCTT 57.036 50.000 0.00 0.00 41.83 3.95
2414 3134 2.478292 AGGTGTGTATACCCTCCCTTG 58.522 52.381 0.00 0.00 41.83 3.61
2415 3135 2.193993 GGTGTGTATACCCTCCCTTGT 58.806 52.381 0.00 0.00 34.56 3.16
2416 3136 3.013188 AGGTGTGTATACCCTCCCTTGTA 59.987 47.826 0.00 0.00 41.83 2.41
2417 3137 3.971971 GGTGTGTATACCCTCCCTTGTAT 59.028 47.826 0.00 0.00 34.56 2.29
2418 3138 5.102956 AGGTGTGTATACCCTCCCTTGTATA 60.103 44.000 0.00 0.00 41.83 1.47
2419 3139 5.603813 GGTGTGTATACCCTCCCTTGTATAA 59.396 44.000 0.00 0.00 33.12 0.98
2420 3140 6.463472 GGTGTGTATACCCTCCCTTGTATAAC 60.463 46.154 0.00 0.00 33.12 1.89
2421 3141 5.603813 TGTGTATACCCTCCCTTGTATAACC 59.396 44.000 0.00 0.00 33.12 2.85
2422 3142 5.842874 GTGTATACCCTCCCTTGTATAACCT 59.157 44.000 0.00 0.00 33.12 3.50
2423 3143 5.842328 TGTATACCCTCCCTTGTATAACCTG 59.158 44.000 0.00 0.00 33.12 4.00
2454 3174 7.341030 ACTGATGAACAATACCAGATTCATGA 58.659 34.615 3.19 0.00 40.88 3.07
2485 3205 5.010314 AGTGTAGGTTGATTACAGTCGACAA 59.990 40.000 19.50 3.53 34.75 3.18
2495 3215 1.129326 CAGTCGACAACAACGAGGTC 58.871 55.000 19.50 0.00 40.37 3.85
2523 3244 8.825667 TGTTTATAATTTTGGAACTTGGAAGC 57.174 30.769 0.00 0.00 0.00 3.86
2536 3257 3.746492 ACTTGGAAGCGTTCATTACTGAC 59.254 43.478 0.00 0.00 0.00 3.51
2541 3262 4.143094 GGAAGCGTTCATTACTGACTGAAC 60.143 45.833 5.55 5.55 44.92 3.18
2548 3269 7.426929 GTTCATTACTGACTGAACAATGAGT 57.573 36.000 9.81 0.00 46.67 3.41
2558 3279 6.038161 TGACTGAACAATGAGTTTTGGTGTAG 59.962 38.462 0.00 0.00 41.51 2.74
2571 3292 3.667497 TGGTGTAGAACTCTGAGCAAG 57.333 47.619 4.19 0.00 0.00 4.01
2575 3296 4.382040 GGTGTAGAACTCTGAGCAAGCATA 60.382 45.833 4.19 0.00 0.00 3.14
2576 3297 5.355596 GTGTAGAACTCTGAGCAAGCATAT 58.644 41.667 4.19 0.00 0.00 1.78
2591 3312 6.261826 AGCAAGCATATGTCTATTTGGTTCTC 59.738 38.462 4.29 0.00 34.98 2.87
2626 3347 3.209410 AGATGAACATCGCCATCTTTCC 58.791 45.455 8.79 0.00 45.01 3.13
2627 3348 1.750193 TGAACATCGCCATCTTTCCC 58.250 50.000 0.00 0.00 0.00 3.97
2628 3349 1.281867 TGAACATCGCCATCTTTCCCT 59.718 47.619 0.00 0.00 0.00 4.20
2630 3351 2.044123 ACATCGCCATCTTTCCCTTC 57.956 50.000 0.00 0.00 0.00 3.46
2632 3353 0.918983 ATCGCCATCTTTCCCTTCCA 59.081 50.000 0.00 0.00 0.00 3.53
2633 3354 0.918983 TCGCCATCTTTCCCTTCCAT 59.081 50.000 0.00 0.00 0.00 3.41
2634 3355 2.123589 TCGCCATCTTTCCCTTCCATA 58.876 47.619 0.00 0.00 0.00 2.74
2635 3356 2.711009 TCGCCATCTTTCCCTTCCATAT 59.289 45.455 0.00 0.00 0.00 1.78
2636 3357 2.816087 CGCCATCTTTCCCTTCCATATG 59.184 50.000 0.00 0.00 0.00 1.78
2637 3358 2.560105 GCCATCTTTCCCTTCCATATGC 59.440 50.000 0.00 0.00 0.00 3.14
2638 3359 2.816087 CCATCTTTCCCTTCCATATGCG 59.184 50.000 0.00 0.00 0.00 4.73
2639 3360 3.480470 CATCTTTCCCTTCCATATGCGT 58.520 45.455 0.00 0.00 0.00 5.24
2640 3361 2.917933 TCTTTCCCTTCCATATGCGTG 58.082 47.619 0.00 0.00 0.00 5.34
2641 3362 1.334869 CTTTCCCTTCCATATGCGTGC 59.665 52.381 0.00 0.00 0.00 5.34
2642 3363 0.254462 TTCCCTTCCATATGCGTGCA 59.746 50.000 0.00 0.00 0.00 4.57
2643 3364 0.254462 TCCCTTCCATATGCGTGCAA 59.746 50.000 0.00 0.00 0.00 4.08
2668 3389 5.871524 TGCAATGCTTCAAAAGTGTTTAACA 59.128 32.000 6.82 0.00 0.00 2.41
2722 3443 5.880887 AGTTGCTGTTAGCCCTAAAGTAATC 59.119 40.000 0.00 0.00 41.51 1.75
2729 3450 1.145119 GCCCTAAAGTAATCCCCCTGG 59.855 57.143 0.00 0.00 0.00 4.45
3177 3900 3.027412 GAGAGAAGTCCATAGCACTCCA 58.973 50.000 0.00 0.00 0.00 3.86
3191 3914 2.874457 GCACTCCATAAACTTGTCCGGT 60.874 50.000 0.00 0.00 0.00 5.28
3198 3921 4.758165 CCATAAACTTGTCCGGTTGTACTT 59.242 41.667 0.00 0.00 0.00 2.24
3199 3922 5.239963 CCATAAACTTGTCCGGTTGTACTTT 59.760 40.000 0.00 0.00 0.00 2.66
3200 3923 4.625972 AAACTTGTCCGGTTGTACTTTG 57.374 40.909 0.00 0.00 0.00 2.77
3201 3924 2.567985 ACTTGTCCGGTTGTACTTTGG 58.432 47.619 0.00 0.00 0.00 3.28
3202 3925 2.171027 ACTTGTCCGGTTGTACTTTGGA 59.829 45.455 0.00 0.00 0.00 3.53
3203 3926 3.181448 ACTTGTCCGGTTGTACTTTGGAT 60.181 43.478 0.00 0.00 0.00 3.41
3204 3927 3.048337 TGTCCGGTTGTACTTTGGATC 57.952 47.619 0.00 0.00 0.00 3.36
3205 3928 2.289819 TGTCCGGTTGTACTTTGGATCC 60.290 50.000 4.20 4.20 0.00 3.36
3206 3929 1.979308 TCCGGTTGTACTTTGGATCCA 59.021 47.619 11.44 11.44 0.00 3.41
3207 3930 2.372504 TCCGGTTGTACTTTGGATCCAA 59.627 45.455 23.63 23.63 0.00 3.53
3208 3931 3.009695 TCCGGTTGTACTTTGGATCCAAT 59.990 43.478 27.53 16.30 35.70 3.16
3209 3932 3.761752 CCGGTTGTACTTTGGATCCAATT 59.238 43.478 27.53 19.11 35.70 2.32
3210 3933 4.142469 CCGGTTGTACTTTGGATCCAATTC 60.142 45.833 27.53 17.05 35.70 2.17
3211 3934 4.436852 CGGTTGTACTTTGGATCCAATTCG 60.437 45.833 27.53 19.70 35.70 3.34
3212 3935 4.142469 GGTTGTACTTTGGATCCAATTCGG 60.142 45.833 27.53 18.59 35.70 4.30
3213 3936 3.616219 TGTACTTTGGATCCAATTCGGG 58.384 45.455 27.53 16.42 35.70 5.14
3214 3937 3.264706 TGTACTTTGGATCCAATTCGGGA 59.735 43.478 27.53 10.88 42.21 5.14
3224 3947 4.799564 TCCAATTCGGGATTTTTCTTGG 57.200 40.909 0.00 0.00 34.37 3.61
3225 3948 3.513515 TCCAATTCGGGATTTTTCTTGGG 59.486 43.478 0.00 0.00 33.97 4.12
3226 3949 3.513515 CCAATTCGGGATTTTTCTTGGGA 59.486 43.478 0.00 0.00 0.00 4.37
3227 3950 4.020662 CCAATTCGGGATTTTTCTTGGGAA 60.021 41.667 0.00 0.00 0.00 3.97
3228 3951 5.170748 CAATTCGGGATTTTTCTTGGGAAG 58.829 41.667 0.00 0.00 32.61 3.46
3229 3952 3.518992 TCGGGATTTTTCTTGGGAAGT 57.481 42.857 0.00 0.00 32.61 3.01
3230 3953 3.839778 TCGGGATTTTTCTTGGGAAGTT 58.160 40.909 0.00 0.00 32.61 2.66
3231 3954 4.219919 TCGGGATTTTTCTTGGGAAGTTT 58.780 39.130 0.00 0.00 32.61 2.66
3232 3955 4.279922 TCGGGATTTTTCTTGGGAAGTTTC 59.720 41.667 0.00 0.00 32.61 2.78
3233 3956 4.556233 GGGATTTTTCTTGGGAAGTTTCG 58.444 43.478 0.00 0.00 32.61 3.46
3234 3957 4.556233 GGATTTTTCTTGGGAAGTTTCGG 58.444 43.478 0.00 0.00 32.61 4.30
3235 3958 4.556233 GATTTTTCTTGGGAAGTTTCGGG 58.444 43.478 0.00 0.00 32.61 5.14
3236 3959 3.300239 TTTTCTTGGGAAGTTTCGGGA 57.700 42.857 0.00 0.00 32.61 5.14
3237 3960 3.300239 TTTCTTGGGAAGTTTCGGGAA 57.700 42.857 0.00 0.00 32.61 3.97
3238 3961 2.561478 TCTTGGGAAGTTTCGGGAAG 57.439 50.000 0.00 0.00 0.00 3.46
3239 3962 2.051692 TCTTGGGAAGTTTCGGGAAGA 58.948 47.619 0.00 0.00 0.00 2.87
3240 3963 2.440253 TCTTGGGAAGTTTCGGGAAGAA 59.560 45.455 0.00 0.00 37.01 2.52
3298 4034 6.717084 CCTCTGAACTATGAAAACCCTTCTTT 59.283 38.462 0.00 0.00 0.00 2.52
3299 4035 7.231519 CCTCTGAACTATGAAAACCCTTCTTTT 59.768 37.037 0.00 0.00 0.00 2.27
3300 4036 8.533569 TCTGAACTATGAAAACCCTTCTTTTT 57.466 30.769 0.00 0.00 0.00 1.94
3301 4037 9.635404 TCTGAACTATGAAAACCCTTCTTTTTA 57.365 29.630 0.00 0.00 0.00 1.52
3308 4044 8.736097 ATGAAAACCCTTCTTTTTATAACCCT 57.264 30.769 0.00 0.00 0.00 4.34
3309 4045 8.555896 TGAAAACCCTTCTTTTTATAACCCTT 57.444 30.769 0.00 0.00 0.00 3.95
3310 4046 8.644216 TGAAAACCCTTCTTTTTATAACCCTTC 58.356 33.333 0.00 0.00 0.00 3.46
3311 4047 6.829229 AACCCTTCTTTTTATAACCCTTCG 57.171 37.500 0.00 0.00 0.00 3.79
3312 4048 5.884322 ACCCTTCTTTTTATAACCCTTCGT 58.116 37.500 0.00 0.00 0.00 3.85
3353 4089 4.952957 TGACCTGTTTGACTCCAATTTTGA 59.047 37.500 0.00 0.00 31.46 2.69
3354 4090 5.420421 TGACCTGTTTGACTCCAATTTTGAA 59.580 36.000 0.00 0.00 31.46 2.69
3355 4091 5.660460 ACCTGTTTGACTCCAATTTTGAAC 58.340 37.500 0.00 0.00 31.46 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 2.651361 CCGTCGTTCTGTGGCTCT 59.349 61.111 0.00 0.00 0.00 4.09
38 39 2.505819 GGTCCATCACCACCTCAATAGT 59.494 50.000 0.00 0.00 45.98 2.12
78 79 0.823769 TCGTCCGATGATGAGGAGGG 60.824 60.000 4.66 0.00 41.33 4.30
98 99 0.242825 TTTGCGACTCCGACGATTCT 59.757 50.000 0.00 0.00 38.22 2.40
420 436 1.453633 ATATCCCCTCTGCAATGCCT 58.546 50.000 1.53 0.00 0.00 4.75
652 677 2.659244 GCGTCCGTTGTTCGTCCA 60.659 61.111 0.00 0.00 37.94 4.02
689 715 3.773630 CATTTCGTCCACGCGCGT 61.774 61.111 32.73 32.73 39.60 6.01
690 716 4.499023 CCATTTCGTCCACGCGCG 62.499 66.667 30.96 30.96 39.60 6.86
691 717 4.160635 CCCATTTCGTCCACGCGC 62.161 66.667 5.73 0.00 39.60 6.86
692 718 2.736682 GACCCATTTCGTCCACGCG 61.737 63.158 3.53 3.53 39.60 6.01
693 719 2.736682 CGACCCATTTCGTCCACGC 61.737 63.158 0.00 0.00 39.60 5.34
694 720 2.736682 GCGACCCATTTCGTCCACG 61.737 63.158 0.00 0.00 41.26 4.94
695 721 2.396157 GGCGACCCATTTCGTCCAC 61.396 63.158 0.00 0.00 41.26 4.02
696 722 2.046700 GGCGACCCATTTCGTCCA 60.047 61.111 0.00 0.00 41.26 4.02
697 723 3.192922 CGGCGACCCATTTCGTCC 61.193 66.667 0.00 0.00 40.60 4.79
698 724 3.861263 GCGGCGACCCATTTCGTC 61.861 66.667 12.98 0.00 41.26 4.20
701 727 3.428282 AACGCGGCGACCCATTTC 61.428 61.111 30.94 0.00 0.00 2.17
702 728 3.732892 CAACGCGGCGACCCATTT 61.733 61.111 30.94 8.75 0.00 2.32
708 734 4.072088 CAACTCCAACGCGGCGAC 62.072 66.667 30.94 0.11 33.14 5.19
711 737 4.090057 GAGCAACTCCAACGCGGC 62.090 66.667 12.47 0.36 33.14 6.53
712 738 0.669318 TAAGAGCAACTCCAACGCGG 60.669 55.000 12.47 0.00 0.00 6.46
713 739 1.061131 CATAAGAGCAACTCCAACGCG 59.939 52.381 3.53 3.53 0.00 6.01
714 740 1.202076 GCATAAGAGCAACTCCAACGC 60.202 52.381 0.00 0.00 0.00 4.84
715 741 2.076100 TGCATAAGAGCAACTCCAACG 58.924 47.619 0.00 0.00 42.46 4.10
725 751 2.263741 CCGGGCCATGCATAAGAGC 61.264 63.158 4.39 0.00 0.00 4.09
726 752 0.466189 AACCGGGCCATGCATAAGAG 60.466 55.000 6.32 0.00 0.00 2.85
727 753 0.840617 TAACCGGGCCATGCATAAGA 59.159 50.000 6.32 0.00 0.00 2.10
728 754 1.812571 GATAACCGGGCCATGCATAAG 59.187 52.381 6.32 0.00 0.00 1.73
729 755 1.546773 GGATAACCGGGCCATGCATAA 60.547 52.381 6.32 0.00 0.00 1.90
730 756 0.037590 GGATAACCGGGCCATGCATA 59.962 55.000 6.32 0.00 0.00 3.14
731 757 1.228552 GGATAACCGGGCCATGCAT 60.229 57.895 6.32 0.00 0.00 3.96
739 765 2.560542 CTCTGATCTGAGGATAACCGGG 59.439 54.545 19.14 0.00 41.83 5.73
751 777 7.398618 AGGTGACCCATATATAACTCTGATCTG 59.601 40.741 0.00 0.00 0.00 2.90
752 778 7.483018 AGGTGACCCATATATAACTCTGATCT 58.517 38.462 0.00 0.00 0.00 2.75
757 783 7.179338 GTGATGAGGTGACCCATATATAACTCT 59.821 40.741 0.00 0.00 0.00 3.24
767 793 0.914644 CAGGTGATGAGGTGACCCAT 59.085 55.000 0.00 1.10 34.12 4.00
792 818 9.988350 CGACAAAGCAACAATAGAATAAAGTAT 57.012 29.630 0.00 0.00 0.00 2.12
893 919 8.342634 GTTCAAAACATAAGAGTTCTGCAAGTA 58.657 33.333 0.00 0.00 33.76 2.24
902 928 9.892130 CCTATAGGAGTTCAAAACATAAGAGTT 57.108 33.333 14.11 0.00 37.39 3.01
903 929 9.268282 TCCTATAGGAGTTCAAAACATAAGAGT 57.732 33.333 18.00 0.00 39.78 3.24
905 931 9.886132 GTTCCTATAGGAGTTCAAAACATAAGA 57.114 33.333 20.72 0.00 46.36 2.10
906 932 9.892130 AGTTCCTATAGGAGTTCAAAACATAAG 57.108 33.333 20.72 0.00 46.36 1.73
907 933 9.886132 GAGTTCCTATAGGAGTTCAAAACATAA 57.114 33.333 20.72 0.00 46.36 1.90
908 934 8.483758 GGAGTTCCTATAGGAGTTCAAAACATA 58.516 37.037 24.65 6.99 46.36 2.29
909 935 7.182930 AGGAGTTCCTATAGGAGTTCAAAACAT 59.817 37.037 24.65 10.75 46.48 2.71
910 936 6.500751 AGGAGTTCCTATAGGAGTTCAAAACA 59.499 38.462 24.65 8.00 46.48 2.83
941 1632 6.699642 TGGATTCCAACAAATCGAAAAGTTTC 59.300 34.615 1.94 0.00 36.66 2.78
955 1646 1.599518 AACGCGCTGGATTCCAACA 60.600 52.632 5.73 0.00 30.80 3.33
956 1647 1.154225 CAACGCGCTGGATTCCAAC 60.154 57.895 5.73 0.98 30.80 3.77
957 1648 2.976840 GCAACGCGCTGGATTCCAA 61.977 57.895 12.02 0.00 37.77 3.53
958 1649 3.430862 GCAACGCGCTGGATTCCA 61.431 61.111 12.02 5.05 37.77 3.53
959 1650 3.386867 CTGCAACGCGCTGGATTCC 62.387 63.158 12.02 0.00 43.06 3.01
960 1651 1.358725 TACTGCAACGCGCTGGATTC 61.359 55.000 12.02 0.00 43.49 2.52
961 1652 1.375396 TACTGCAACGCGCTGGATT 60.375 52.632 12.02 5.32 43.49 3.01
962 1653 2.100631 GTACTGCAACGCGCTGGAT 61.101 57.895 12.02 1.78 43.49 3.41
975 1666 8.389779 TGCAAGATAGAGATAGAGAAGTACTG 57.610 38.462 0.00 0.00 0.00 2.74
977 1668 8.243426 CCATGCAAGATAGAGATAGAGAAGTAC 58.757 40.741 0.00 0.00 0.00 2.73
993 1684 3.713248 TCTGTATCAGGACCATGCAAGAT 59.287 43.478 0.00 0.00 31.51 2.40
1007 1698 9.483916 TCGTTCTTTGACTAATTTTCTGTATCA 57.516 29.630 0.00 0.00 0.00 2.15
1027 1726 6.773685 ACTGGATAGATAGCTTTACTCGTTCT 59.226 38.462 0.00 0.00 0.00 3.01
1173 1893 4.864334 GAGTGGAGCATGGCGGGG 62.864 72.222 0.00 0.00 0.00 5.73
1174 1894 4.864334 GGAGTGGAGCATGGCGGG 62.864 72.222 0.00 0.00 0.00 6.13
1175 1895 4.864334 GGGAGTGGAGCATGGCGG 62.864 72.222 0.00 0.00 0.00 6.13
1176 1896 4.864334 GGGGAGTGGAGCATGGCG 62.864 72.222 0.00 0.00 0.00 5.69
1177 1897 4.512914 GGGGGAGTGGAGCATGGC 62.513 72.222 0.00 0.00 0.00 4.40
1178 1898 2.389449 ATGGGGGAGTGGAGCATGG 61.389 63.158 0.00 0.00 0.00 3.66
1179 1899 1.152819 CATGGGGGAGTGGAGCATG 60.153 63.158 0.00 0.00 0.00 4.06
1180 1900 3.065787 GCATGGGGGAGTGGAGCAT 62.066 63.158 0.00 0.00 0.00 3.79
1181 1901 3.731728 GCATGGGGGAGTGGAGCA 61.732 66.667 0.00 0.00 0.00 4.26
1182 1902 4.512914 GGCATGGGGGAGTGGAGC 62.513 72.222 0.00 0.00 0.00 4.70
1183 1903 0.769776 ATAGGCATGGGGGAGTGGAG 60.770 60.000 0.00 0.00 0.00 3.86
1184 1904 0.768221 GATAGGCATGGGGGAGTGGA 60.768 60.000 0.00 0.00 0.00 4.02
1185 1905 1.763770 GATAGGCATGGGGGAGTGG 59.236 63.158 0.00 0.00 0.00 4.00
1186 1906 1.372683 CGATAGGCATGGGGGAGTG 59.627 63.158 0.00 0.00 0.00 3.51
1929 2649 1.817099 CTTCTCCTGGCCGATGCAC 60.817 63.158 0.00 0.00 40.13 4.57
1992 2712 1.601171 CAGGCTCACCTCCTCCTTG 59.399 63.158 0.00 0.00 46.34 3.61
2331 3051 4.103103 GCTTTCACCGGCGCCTTC 62.103 66.667 26.68 0.00 0.00 3.46
2359 3079 5.067674 CCAGGATTCTCTTCTAGTCACTCAG 59.932 48.000 0.00 0.00 0.00 3.35
2379 3099 2.283529 ACCTACGCACACCTCCAGG 61.284 63.158 0.00 0.00 42.17 4.45
2405 3125 4.660771 AGAATCAGGTTATACAAGGGAGGG 59.339 45.833 0.00 0.00 0.00 4.30
2410 3130 8.642432 TCATCAGTAGAATCAGGTTATACAAGG 58.358 37.037 1.10 0.00 37.05 3.61
2412 3132 9.817809 GTTCATCAGTAGAATCAGGTTATACAA 57.182 33.333 1.10 0.00 37.05 2.41
2413 3133 8.977412 TGTTCATCAGTAGAATCAGGTTATACA 58.023 33.333 1.10 0.00 37.05 2.29
2414 3134 9.817809 TTGTTCATCAGTAGAATCAGGTTATAC 57.182 33.333 0.00 0.00 35.28 1.47
2417 3137 9.817809 GTATTGTTCATCAGTAGAATCAGGTTA 57.182 33.333 0.00 0.00 0.00 2.85
2418 3138 7.770897 GGTATTGTTCATCAGTAGAATCAGGTT 59.229 37.037 0.00 0.00 0.00 3.50
2419 3139 7.092891 TGGTATTGTTCATCAGTAGAATCAGGT 60.093 37.037 0.00 0.00 0.00 4.00
2420 3140 7.275183 TGGTATTGTTCATCAGTAGAATCAGG 58.725 38.462 0.00 0.00 0.00 3.86
2421 3141 8.200120 TCTGGTATTGTTCATCAGTAGAATCAG 58.800 37.037 0.00 0.00 0.00 2.90
2422 3142 8.078060 TCTGGTATTGTTCATCAGTAGAATCA 57.922 34.615 0.00 0.00 0.00 2.57
2423 3143 9.553064 AATCTGGTATTGTTCATCAGTAGAATC 57.447 33.333 0.00 0.00 0.00 2.52
2454 3174 7.686434 ACTGTAATCAACCTACACTAAATGGT 58.314 34.615 0.00 0.00 0.00 3.55
2495 3215 9.632807 TTCCAAGTTCCAAAATTATAAACATCG 57.367 29.630 0.00 0.00 0.00 3.84
2502 3222 6.827586 ACGCTTCCAAGTTCCAAAATTATA 57.172 33.333 0.00 0.00 0.00 0.98
2536 3257 6.618287 TCTACACCAAAACTCATTGTTCAG 57.382 37.500 0.00 0.00 38.03 3.02
2546 3267 4.141711 TGCTCAGAGTTCTACACCAAAACT 60.142 41.667 0.00 0.00 36.00 2.66
2547 3268 4.127171 TGCTCAGAGTTCTACACCAAAAC 58.873 43.478 0.00 0.00 0.00 2.43
2548 3269 4.415881 TGCTCAGAGTTCTACACCAAAA 57.584 40.909 0.00 0.00 0.00 2.44
2558 3279 4.440880 AGACATATGCTTGCTCAGAGTTC 58.559 43.478 1.58 0.00 0.00 3.01
2571 3292 7.497249 ACAAGAGAGAACCAAATAGACATATGC 59.503 37.037 1.58 0.00 0.00 3.14
2575 3296 9.220767 GTAAACAAGAGAGAACCAAATAGACAT 57.779 33.333 0.00 0.00 0.00 3.06
2576 3297 8.208224 TGTAAACAAGAGAGAACCAAATAGACA 58.792 33.333 0.00 0.00 0.00 3.41
2591 3312 7.451429 CGATGTTCATCTTCTGTAAACAAGAG 58.549 38.462 10.44 0.00 33.92 2.85
2624 3345 0.254462 TTGCACGCATATGGAAGGGA 59.746 50.000 4.56 0.00 0.00 4.20
2626 3347 1.601162 GCATTGCACGCATATGGAAGG 60.601 52.381 3.15 0.00 35.16 3.46
2627 3348 1.065851 TGCATTGCACGCATATGGAAG 59.934 47.619 7.38 0.00 33.05 3.46
2628 3349 1.101331 TGCATTGCACGCATATGGAA 58.899 45.000 7.38 0.00 33.55 3.53
2630 3351 1.790043 CATTGCATTGCACGCATATGG 59.210 47.619 11.66 0.00 38.71 2.74
2632 3353 1.067974 AGCATTGCATTGCACGCATAT 59.932 42.857 29.40 10.15 45.23 1.78
2633 3354 0.456628 AGCATTGCATTGCACGCATA 59.543 45.000 29.40 8.40 45.23 3.14
2634 3355 0.390603 AAGCATTGCATTGCACGCAT 60.391 45.000 29.40 16.18 45.23 4.73
2635 3356 1.005984 AAGCATTGCATTGCACGCA 60.006 47.368 29.40 5.89 45.23 5.24
2636 3357 1.009903 TGAAGCATTGCATTGCACGC 61.010 50.000 29.40 19.65 45.23 5.34
2637 3358 1.420378 TTGAAGCATTGCATTGCACG 58.580 45.000 29.40 6.86 45.23 5.34
2638 3359 3.249080 ACTTTTGAAGCATTGCATTGCAC 59.751 39.130 29.40 22.89 45.23 4.57
2639 3360 3.248841 CACTTTTGAAGCATTGCATTGCA 59.751 39.130 29.40 7.38 45.23 4.08
2640 3361 3.249080 ACACTTTTGAAGCATTGCATTGC 59.751 39.130 22.79 22.79 43.09 3.56
2641 3362 5.412526 AACACTTTTGAAGCATTGCATTG 57.587 34.783 11.91 4.20 0.00 2.82
2642 3363 7.065563 TGTTAAACACTTTTGAAGCATTGCATT 59.934 29.630 11.91 2.30 0.00 3.56
2643 3364 6.538021 TGTTAAACACTTTTGAAGCATTGCAT 59.462 30.769 11.91 0.00 0.00 3.96
2668 3389 4.826733 TGCACAATAAGAAATGACCACTGT 59.173 37.500 0.00 0.00 0.00 3.55
2678 3399 7.337689 AGCAACTCAGATATGCACAATAAGAAA 59.662 33.333 9.55 0.00 42.45 2.52
2722 3443 3.958147 GGTTTAATGTATTGTCCAGGGGG 59.042 47.826 0.00 0.00 0.00 5.40
3045 3768 1.492176 CATACAGACCCAGGGATGCTT 59.508 52.381 14.54 0.00 0.00 3.91
3077 3800 4.241590 TCACTAAACAAAATGCAGCCTG 57.758 40.909 0.00 0.00 0.00 4.85
3177 3900 5.239963 CCAAAGTACAACCGGACAAGTTTAT 59.760 40.000 9.46 0.00 0.00 1.40
3191 3914 4.013728 CCCGAATTGGATCCAAAGTACAA 58.986 43.478 30.28 6.90 42.00 2.41
3198 3921 5.022787 AGAAAAATCCCGAATTGGATCCAA 58.977 37.500 28.92 28.92 44.49 3.53
3199 3922 4.609301 AGAAAAATCCCGAATTGGATCCA 58.391 39.130 11.44 11.44 44.49 3.41
3200 3923 5.351458 CAAGAAAAATCCCGAATTGGATCC 58.649 41.667 4.20 4.20 44.49 3.36
3201 3924 5.351458 CCAAGAAAAATCCCGAATTGGATC 58.649 41.667 0.00 0.00 44.49 3.36
3203 3926 3.513515 CCCAAGAAAAATCCCGAATTGGA 59.486 43.478 2.72 0.00 42.00 3.53
3204 3927 3.513515 TCCCAAGAAAAATCCCGAATTGG 59.486 43.478 0.00 0.00 36.35 3.16
3205 3928 4.799564 TCCCAAGAAAAATCCCGAATTG 57.200 40.909 0.00 0.00 0.00 2.32
3206 3929 4.838423 ACTTCCCAAGAAAAATCCCGAATT 59.162 37.500 0.00 0.00 0.00 2.17
3207 3930 4.416516 ACTTCCCAAGAAAAATCCCGAAT 58.583 39.130 0.00 0.00 0.00 3.34
3208 3931 3.839778 ACTTCCCAAGAAAAATCCCGAA 58.160 40.909 0.00 0.00 0.00 4.30
3209 3932 3.518992 ACTTCCCAAGAAAAATCCCGA 57.481 42.857 0.00 0.00 0.00 5.14
3210 3933 4.556233 GAAACTTCCCAAGAAAAATCCCG 58.444 43.478 0.00 0.00 0.00 5.14
3211 3934 4.556233 CGAAACTTCCCAAGAAAAATCCC 58.444 43.478 0.00 0.00 0.00 3.85
3212 3935 4.556233 CCGAAACTTCCCAAGAAAAATCC 58.444 43.478 0.00 0.00 0.00 3.01
3213 3936 4.279922 TCCCGAAACTTCCCAAGAAAAATC 59.720 41.667 0.00 0.00 0.00 2.17
3214 3937 4.219919 TCCCGAAACTTCCCAAGAAAAAT 58.780 39.130 0.00 0.00 0.00 1.82
3215 3938 3.633418 TCCCGAAACTTCCCAAGAAAAA 58.367 40.909 0.00 0.00 0.00 1.94
3216 3939 3.300239 TCCCGAAACTTCCCAAGAAAA 57.700 42.857 0.00 0.00 0.00 2.29
3217 3940 3.117813 TCTTCCCGAAACTTCCCAAGAAA 60.118 43.478 0.00 0.00 0.00 2.52
3218 3941 2.440253 TCTTCCCGAAACTTCCCAAGAA 59.560 45.455 0.00 0.00 0.00 2.52
3219 3942 2.051692 TCTTCCCGAAACTTCCCAAGA 58.948 47.619 0.00 0.00 0.00 3.02
3220 3943 2.561478 TCTTCCCGAAACTTCCCAAG 57.439 50.000 0.00 0.00 0.00 3.61
3221 3944 3.300239 TTTCTTCCCGAAACTTCCCAA 57.700 42.857 0.00 0.00 36.72 4.12
3222 3945 3.518992 ATTTCTTCCCGAAACTTCCCA 57.481 42.857 0.00 0.00 43.90 4.37
3223 3946 4.329392 TGTATTTCTTCCCGAAACTTCCC 58.671 43.478 0.00 0.00 43.90 3.97
3224 3947 5.952526 TTGTATTTCTTCCCGAAACTTCC 57.047 39.130 0.00 0.00 43.90 3.46
3225 3948 7.336176 AGGTATTGTATTTCTTCCCGAAACTTC 59.664 37.037 0.00 0.00 43.90 3.01
3226 3949 7.173032 AGGTATTGTATTTCTTCCCGAAACTT 58.827 34.615 0.00 0.00 43.90 2.66
3227 3950 6.718294 AGGTATTGTATTTCTTCCCGAAACT 58.282 36.000 0.00 0.00 43.90 2.66
3228 3951 6.997239 AGGTATTGTATTTCTTCCCGAAAC 57.003 37.500 0.00 0.00 43.90 2.78
3229 3952 8.323567 AGTTAGGTATTGTATTTCTTCCCGAAA 58.676 33.333 0.00 0.00 45.08 3.46
3230 3953 7.854337 AGTTAGGTATTGTATTTCTTCCCGAA 58.146 34.615 0.00 0.00 0.00 4.30
3231 3954 7.427989 AGTTAGGTATTGTATTTCTTCCCGA 57.572 36.000 0.00 0.00 0.00 5.14
3232 3955 8.395633 CAAAGTTAGGTATTGTATTTCTTCCCG 58.604 37.037 0.00 0.00 0.00 5.14
3233 3956 8.188799 GCAAAGTTAGGTATTGTATTTCTTCCC 58.811 37.037 0.00 0.00 0.00 3.97
3234 3957 8.957466 AGCAAAGTTAGGTATTGTATTTCTTCC 58.043 33.333 0.00 0.00 0.00 3.46
3238 3961 8.860128 GCAAAGCAAAGTTAGGTATTGTATTTC 58.140 33.333 0.00 0.00 0.00 2.17
3239 3962 8.364142 TGCAAAGCAAAGTTAGGTATTGTATTT 58.636 29.630 0.00 0.00 34.76 1.40
3240 3963 7.891561 TGCAAAGCAAAGTTAGGTATTGTATT 58.108 30.769 0.00 0.00 34.76 1.89
3251 3974 4.202172 GGGGTAAACTGCAAAGCAAAGTTA 60.202 41.667 0.00 0.00 38.41 2.24
3298 4034 7.716560 GGCTAAATAAGGACGAAGGGTTATAAA 59.283 37.037 0.00 0.00 0.00 1.40
3299 4035 7.219322 GGCTAAATAAGGACGAAGGGTTATAA 58.781 38.462 0.00 0.00 0.00 0.98
3300 4036 6.517194 CGGCTAAATAAGGACGAAGGGTTATA 60.517 42.308 0.00 0.00 35.81 0.98
3301 4037 5.618236 GGCTAAATAAGGACGAAGGGTTAT 58.382 41.667 0.00 0.00 0.00 1.89
3302 4038 4.441913 CGGCTAAATAAGGACGAAGGGTTA 60.442 45.833 0.00 0.00 35.81 2.85
3303 4039 3.680754 CGGCTAAATAAGGACGAAGGGTT 60.681 47.826 0.00 0.00 35.81 4.11
3304 4040 2.159000 CGGCTAAATAAGGACGAAGGGT 60.159 50.000 0.00 0.00 35.81 4.34
3305 4041 2.480845 CGGCTAAATAAGGACGAAGGG 58.519 52.381 0.00 0.00 35.81 3.95
3306 4042 2.159000 ACCGGCTAAATAAGGACGAAGG 60.159 50.000 0.00 0.00 35.81 3.46
3307 4043 3.175109 ACCGGCTAAATAAGGACGAAG 57.825 47.619 0.00 0.00 35.81 3.79
3308 4044 3.615224 AACCGGCTAAATAAGGACGAA 57.385 42.857 0.00 0.00 35.81 3.85
3309 4045 3.615224 AAACCGGCTAAATAAGGACGA 57.385 42.857 0.00 0.00 35.81 4.20
3310 4046 3.685756 TCAAAACCGGCTAAATAAGGACG 59.314 43.478 0.00 0.00 0.00 4.79
3311 4047 4.142534 GGTCAAAACCGGCTAAATAAGGAC 60.143 45.833 0.00 0.00 35.36 3.85
3312 4048 4.011698 GGTCAAAACCGGCTAAATAAGGA 58.988 43.478 0.00 0.00 35.36 3.36


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

AutoCloner maintained by Alex Coulton.