Multiple sequence alignment - TraesCS2B01G566300

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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 TraesCS2B01G566300 chr2B 100.000 5037 0 0 1 5037 757384647 757389683 0.000000e+00 9302.0
1 TraesCS2B01G566300 chr2B 85.189 1958 199 36 2935 4877 757214048 757215929 0.000000e+00 1925.0
2 TraesCS2B01G566300 chr2B 96.945 851 25 1 1 850 197489259 197488409 0.000000e+00 1426.0
3 TraesCS2B01G566300 chr2B 89.711 797 59 14 1608 2381 757212859 757213655 0.000000e+00 996.0
4 TraesCS2B01G566300 chr2B 75.976 1486 238 75 986 2395 18309402 18307960 0.000000e+00 656.0
5 TraesCS2B01G566300 chr2B 81.392 790 121 14 3278 4057 18307301 18306528 5.540000e-174 621.0
6 TraesCS2B01G566300 chr2B 91.852 405 32 1 851 1255 757212295 757212698 9.470000e-157 564.0
7 TraesCS2B01G566300 chr2B 80.051 782 121 20 3278 4057 18703505 18704253 9.530000e-152 547.0
8 TraesCS2B01G566300 chr2B 87.162 296 32 2 2390 2685 757213758 757214047 1.050000e-86 331.0
9 TraesCS2B01G566300 chr2B 83.000 300 33 5 1893 2183 474552054 474551764 6.470000e-64 255.0
10 TraesCS2B01G566300 chr2B 87.442 215 23 2 2941 3153 18672628 18672416 1.400000e-60 244.0
11 TraesCS2B01G566300 chr2B 89.831 177 18 0 2451 2627 18703010 18703186 1.410000e-55 228.0
12 TraesCS2B01G566300 chr2B 89.831 177 18 0 2451 2627 18766775 18766951 1.410000e-55 228.0
13 TraesCS2B01G566300 chr2B 89.266 177 19 0 2451 2627 18733897 18734073 6.560000e-54 222.0
14 TraesCS2B01G566300 chr2B 90.361 166 15 1 4873 5037 352287985 352288150 3.050000e-52 217.0
15 TraesCS2B01G566300 chr2B 88.889 171 18 1 2458 2627 474550765 474550595 5.110000e-50 209.0
16 TraesCS2B01G566300 chr2B 89.677 155 16 0 1625 1779 474552263 474552109 1.110000e-46 198.0
17 TraesCS2B01G566300 chr2B 84.896 192 24 4 2210 2397 474551059 474550869 6.660000e-44 189.0
18 TraesCS2B01G566300 chr2B 84.507 71 9 2 929 999 757531058 757531126 9.050000e-08 69.4
19 TraesCS2B01G566300 chr2B 88.679 53 6 0 2728 2780 502658349 502658401 1.170000e-06 65.8
20 TraesCS2B01G566300 chr2D 92.927 4199 229 29 851 5037 619275507 619279649 0.000000e+00 6047.0
21 TraesCS2B01G566300 chr2D 81.609 783 131 9 3278 4057 12401174 12401946 1.980000e-178 636.0
22 TraesCS2B01G566300 chr2D 81.290 775 118 15 3278 4047 12259378 12258626 2.010000e-168 603.0
23 TraesCS2B01G566300 chr2D 79.882 850 118 28 3294 4107 400299656 400298824 1.570000e-159 573.0
24 TraesCS2B01G566300 chr2D 79.589 828 105 33 1626 2403 11862987 11862174 7.420000e-148 534.0
25 TraesCS2B01G566300 chr2D 80.239 754 103 32 1640 2382 12260866 12260148 4.470000e-145 525.0
26 TraesCS2B01G566300 chr2D 83.367 493 66 11 1902 2383 12395133 12395620 4.630000e-120 442.0
27 TraesCS2B01G566300 chr2D 85.502 269 32 3 2939 3200 11861761 11861493 1.790000e-69 274.0
28 TraesCS2B01G566300 chr2D 84.507 284 26 7 1893 2167 400301675 400301401 1.080000e-66 265.0
29 TraesCS2B01G566300 chr2D 91.304 161 14 0 4877 5037 316123018 316123178 2.360000e-53 220.0
30 TraesCS2B01G566300 chr2D 89.759 166 16 1 4873 5037 295800423 295800258 1.420000e-50 211.0
31 TraesCS2B01G566300 chr2D 84.186 215 31 2 2458 2671 400300359 400300147 6.610000e-49 206.0
32 TraesCS2B01G566300 chr2D 89.677 155 16 0 1625 1779 400301884 400301730 1.110000e-46 198.0
33 TraesCS2B01G566300 chr2D 74.901 506 86 25 980 1466 11863614 11863131 5.150000e-45 193.0
34 TraesCS2B01G566300 chr2D 84.659 176 21 3 955 1124 12261178 12261003 2.410000e-38 171.0
35 TraesCS2B01G566300 chr2D 87.943 141 16 1 986 1125 12394658 12394798 1.120000e-36 165.0
36 TraesCS2B01G566300 chr2A 88.687 1538 141 19 2944 4470 750280196 750281711 0.000000e+00 1845.0
37 TraesCS2B01G566300 chr2A 85.482 861 97 18 1844 2692 750279343 750280187 0.000000e+00 872.0
38 TraesCS2B01G566300 chr2A 84.424 886 94 33 911 1783 750278336 750279190 0.000000e+00 832.0
39 TraesCS2B01G566300 chr2A 81.146 785 132 11 3278 4057 12978054 12978827 2.580000e-172 616.0
40 TraesCS2B01G566300 chr2A 81.290 775 118 15 3278 4047 12896669 12897421 2.010000e-168 603.0
41 TraesCS2B01G566300 chr2A 80.157 766 106 32 1625 2379 12895169 12895899 9.600000e-147 531.0
42 TraesCS2B01G566300 chr2A 79.623 795 112 25 1642 2403 12366146 12365369 4.470000e-145 525.0
43 TraesCS2B01G566300 chr2A 82.143 420 52 10 4456 4871 750323031 750323431 6.250000e-89 339.0
44 TraesCS2B01G566300 chr2A 86.245 269 30 3 2939 3200 12364986 12364718 8.250000e-73 285.0
45 TraesCS2B01G566300 chr2A 85.609 271 30 7 2938 3200 12427834 12427565 4.970000e-70 276.0
46 TraesCS2B01G566300 chr2A 86.400 250 30 3 2947 3193 12896426 12896674 2.310000e-68 270.0
47 TraesCS2B01G566300 chr2A 84.507 284 26 7 1893 2167 537459943 537459669 1.080000e-66 265.0
48 TraesCS2B01G566300 chr2A 88.384 198 23 0 2455 2652 12977569 12977766 6.520000e-59 239.0
49 TraesCS2B01G566300 chr2A 86.697 218 25 2 2938 3153 12977798 12978013 6.520000e-59 239.0
50 TraesCS2B01G566300 chr2A 76.200 500 80 27 988 1466 12432259 12431778 1.410000e-55 228.0
51 TraesCS2B01G566300 chr2A 75.446 505 93 20 980 1466 12366801 12366310 3.050000e-52 217.0
52 TraesCS2B01G566300 chr2A 86.170 188 24 2 2217 2403 12428392 12428206 8.550000e-48 202.0
53 TraesCS2B01G566300 chr2A 89.677 155 16 0 1625 1779 537460152 537459998 1.110000e-46 198.0
54 TraesCS2B01G566300 chr2A 84.659 176 21 3 955 1124 12894872 12895047 2.410000e-38 171.0
55 TraesCS2B01G566300 chr2A 94.545 55 3 0 851 905 750278243 750278297 8.980000e-13 86.1
56 TraesCS2B01G566300 chr2A 90.196 51 5 0 2889 2939 161952897 161952847 3.250000e-07 67.6
57 TraesCS2B01G566300 chr7B 98.590 851 11 1 1 850 516212474 516213324 0.000000e+00 1504.0
58 TraesCS2B01G566300 chr7B 97.180 851 23 1 1 850 665667422 665668272 0.000000e+00 1437.0
59 TraesCS2B01G566300 chr7B 97.062 851 23 2 1 850 6042966 6042117 0.000000e+00 1432.0
60 TraesCS2B01G566300 chr5B 98.355 851 13 1 1 850 531893924 531894774 0.000000e+00 1493.0
61 TraesCS2B01G566300 chr5B 96.945 851 25 1 1 850 592140998 592140148 0.000000e+00 1426.0
62 TraesCS2B01G566300 chr5B 85.135 74 10 1 4779 4851 313347825 313347898 1.940000e-09 75.0
63 TraesCS2B01G566300 chr3B 97.190 854 22 2 1 853 829751068 829750216 0.000000e+00 1443.0
64 TraesCS2B01G566300 chr3B 96.945 851 25 1 1 850 804936825 804935975 0.000000e+00 1426.0
65 TraesCS2B01G566300 chr3B 98.246 57 1 0 4779 4835 17034164 17034220 3.210000e-17 100.0
66 TraesCS2B01G566300 chrUn 96.948 852 25 1 1 851 43153538 43152687 0.000000e+00 1428.0
67 TraesCS2B01G566300 chrUn 80.190 843 127 21 3292 4107 367803609 367804438 3.360000e-166 595.0
68 TraesCS2B01G566300 chrUn 81.856 485 76 8 1901 2379 464195219 464194741 1.020000e-106 398.0
69 TraesCS2B01G566300 chrUn 87.805 246 30 0 3812 4057 438496808 438496563 6.380000e-74 289.0
70 TraesCS2B01G566300 chrUn 90.476 105 8 2 4778 4881 276779083 276778980 2.450000e-28 137.0
71 TraesCS2B01G566300 chrUn 90.476 105 8 2 4778 4881 278892403 278892300 2.450000e-28 137.0
72 TraesCS2B01G566300 chr5A 91.411 163 14 0 4875 5037 141878871 141878709 1.820000e-54 224.0
73 TraesCS2B01G566300 chr1D 91.358 162 13 1 4877 5037 180855020 180854859 2.360000e-53 220.0
74 TraesCS2B01G566300 chr1D 95.122 41 2 0 2740 2780 67141994 67142034 1.170000e-06 65.8
75 TraesCS2B01G566300 chr1D 95.122 41 2 0 2740 2780 162892019 162891979 1.170000e-06 65.8
76 TraesCS2B01G566300 chr7A 90.625 160 15 0 4878 5037 345224345 345224186 3.950000e-51 213.0
77 TraesCS2B01G566300 chr7A 88.889 54 4 2 2728 2780 605677116 605677168 1.170000e-06 65.8
78 TraesCS2B01G566300 chr5D 90.244 164 14 2 4874 5037 236437136 236437297 3.950000e-51 213.0
79 TraesCS2B01G566300 chr5D 95.122 41 2 0 2740 2780 210248529 210248569 1.170000e-06 65.8
80 TraesCS2B01G566300 chr4D 90.625 160 15 0 4878 5037 117424994 117425153 3.950000e-51 213.0
81 TraesCS2B01G566300 chr1A 90.625 160 15 0 4878 5037 292773762 292773921 3.950000e-51 213.0
82 TraesCS2B01G566300 chr1A 88.571 105 10 2 4778 4881 9157575 9157678 5.290000e-25 126.0
83 TraesCS2B01G566300 chr1A 84.706 85 10 3 4781 4863 589107215 589107298 1.160000e-11 82.4
84 TraesCS2B01G566300 chr1A 91.837 49 3 1 2733 2780 453094459 453094411 3.250000e-07 67.6
85 TraesCS2B01G566300 chr3D 85.714 147 19 2 2795 2939 159794648 159794502 2.430000e-33 154.0
86 TraesCS2B01G566300 chr3D 95.122 41 2 0 2740 2780 344945295 344945255 1.170000e-06 65.8
87 TraesCS2B01G566300 chr7D 79.259 135 18 8 2795 2925 587114312 587114440 8.980000e-13 86.1
88 TraesCS2B01G566300 chr1B 93.182 44 2 1 2740 2782 84733370 84733327 4.210000e-06 63.9


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 TraesCS2B01G566300 chr2B 757384647 757389683 5036 False 9302.000000 9302 100.000000 1 5037 1 chr2B.!!$F5 5036
1 TraesCS2B01G566300 chr2B 197488409 197489259 850 True 1426.000000 1426 96.945000 1 850 1 chr2B.!!$R2 849
2 TraesCS2B01G566300 chr2B 757212295 757215929 3634 False 954.000000 1925 88.478500 851 4877 4 chr2B.!!$F8 4026
3 TraesCS2B01G566300 chr2B 18306528 18309402 2874 True 638.500000 656 78.684000 986 4057 2 chr2B.!!$R3 3071
4 TraesCS2B01G566300 chr2B 18703010 18704253 1243 False 387.500000 547 84.941000 2451 4057 2 chr2B.!!$F7 1606
5 TraesCS2B01G566300 chr2B 474550595 474552263 1668 True 212.750000 255 86.615500 1625 2627 4 chr2B.!!$R4 1002
6 TraesCS2B01G566300 chr2D 619275507 619279649 4142 False 6047.000000 6047 92.927000 851 5037 1 chr2D.!!$F3 4186
7 TraesCS2B01G566300 chr2D 12401174 12401946 772 False 636.000000 636 81.609000 3278 4057 1 chr2D.!!$F1 779
8 TraesCS2B01G566300 chr2D 12258626 12261178 2552 True 433.000000 603 82.062667 955 4047 3 chr2D.!!$R3 3092
9 TraesCS2B01G566300 chr2D 11861493 11863614 2121 True 333.666667 534 79.997333 980 3200 3 chr2D.!!$R2 2220
10 TraesCS2B01G566300 chr2D 400298824 400301884 3060 True 310.500000 573 84.563000 1625 4107 4 chr2D.!!$R4 2482
11 TraesCS2B01G566300 chr2D 12394658 12395620 962 False 303.500000 442 85.655000 986 2383 2 chr2D.!!$F4 1397
12 TraesCS2B01G566300 chr2A 750278243 750281711 3468 False 908.775000 1845 88.284500 851 4470 4 chr2A.!!$F4 3619
13 TraesCS2B01G566300 chr2A 12894872 12897421 2549 False 393.750000 603 83.126500 955 4047 4 chr2A.!!$F2 3092
14 TraesCS2B01G566300 chr2A 12977569 12978827 1258 False 364.666667 616 85.409000 2455 4057 3 chr2A.!!$F3 1602
15 TraesCS2B01G566300 chr2A 12364718 12366801 2083 True 342.333333 525 80.438000 980 3200 3 chr2A.!!$R2 2220
16 TraesCS2B01G566300 chr2A 12427565 12432259 4694 True 235.333333 276 82.659667 988 3200 3 chr2A.!!$R3 2212
17 TraesCS2B01G566300 chr7B 516212474 516213324 850 False 1504.000000 1504 98.590000 1 850 1 chr7B.!!$F1 849
18 TraesCS2B01G566300 chr7B 665667422 665668272 850 False 1437.000000 1437 97.180000 1 850 1 chr7B.!!$F2 849
19 TraesCS2B01G566300 chr7B 6042117 6042966 849 True 1432.000000 1432 97.062000 1 850 1 chr7B.!!$R1 849
20 TraesCS2B01G566300 chr5B 531893924 531894774 850 False 1493.000000 1493 98.355000 1 850 1 chr5B.!!$F2 849
21 TraesCS2B01G566300 chr5B 592140148 592140998 850 True 1426.000000 1426 96.945000 1 850 1 chr5B.!!$R1 849
22 TraesCS2B01G566300 chr3B 829750216 829751068 852 True 1443.000000 1443 97.190000 1 853 1 chr3B.!!$R2 852
23 TraesCS2B01G566300 chr3B 804935975 804936825 850 True 1426.000000 1426 96.945000 1 850 1 chr3B.!!$R1 849
24 TraesCS2B01G566300 chrUn 43152687 43153538 851 True 1428.000000 1428 96.948000 1 851 1 chrUn.!!$R1 850
25 TraesCS2B01G566300 chrUn 367803609 367804438 829 False 595.000000 595 80.190000 3292 4107 1 chrUn.!!$F1 815

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
648 650 0.831711 GGGACCAATTGTTGTGGGCT 60.832 55.0 4.43 0.0 44.42 5.19 F
2167 2456 1.165270 GCGAGGTAGTTTGTGCCAAT 58.835 50.0 0.00 0.0 31.94 3.16 F
3179 7069 0.191064 TTGACTCTCCTGGGTCTGGT 59.809 55.0 0.00 0.0 34.01 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2270 5679 1.888391 GCTTTCCAGGGGAAGTTCAGG 60.888 57.143 8.14 1.17 43.06 3.86 R
3266 7156 0.034186 TTTGATCATTCCGGCAGGCT 60.034 50.000 0.00 0.00 37.47 4.58 R
4953 9165 0.038166 GCATGAGAGGGGGTGTTGAA 59.962 55.000 0.00 0.00 0.00 2.69 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
383 384 6.131961 AGACAAATATGGAGGAAAATGGAGG 58.868 40.000 0.00 0.00 0.00 4.30
576 578 1.976474 CCATTGGTCCCGGTTGGTG 60.976 63.158 0.00 0.00 34.77 4.17
648 650 0.831711 GGGACCAATTGTTGTGGGCT 60.832 55.000 4.43 0.00 44.42 5.19
816 819 1.418908 CCGGGACTAATGGGCTGGAT 61.419 60.000 0.00 0.00 0.00 3.41
907 911 1.455032 GGCGGGGGAGGTAATTTGG 60.455 63.158 0.00 0.00 0.00 3.28
925 961 2.883026 TGGTTTTTGGGTAGGATGTGG 58.117 47.619 0.00 0.00 0.00 4.17
926 962 2.447429 TGGTTTTTGGGTAGGATGTGGA 59.553 45.455 0.00 0.00 0.00 4.02
1094 1136 4.818534 TCACAAGTGAAATTGAGCAGTC 57.181 40.909 0.00 0.00 36.53 3.51
1189 1241 3.883489 GCTTCAAACTTACCAACCACTCT 59.117 43.478 0.00 0.00 0.00 3.24
1467 1546 7.286215 ACTCGTACCTATATGTAGCACAATT 57.714 36.000 0.00 0.00 0.00 2.32
1534 1616 6.320164 AGCTGTACTATTTTCACCAAACAACA 59.680 34.615 0.00 0.00 0.00 3.33
1606 1729 7.106239 ACTAACAGTGGACTAATTTGAGATGG 58.894 38.462 0.00 0.00 0.00 3.51
1609 1732 3.266772 AGTGGACTAATTTGAGATGGGCA 59.733 43.478 0.00 0.00 0.00 5.36
1779 1906 5.258456 ACGACGTCACTCCATGTAAATAT 57.742 39.130 17.16 0.00 0.00 1.28
1880 2142 3.195396 TGCATGACTACTATGTGTGCTGA 59.805 43.478 0.00 0.00 32.69 4.26
1885 2147 4.045104 GACTACTATGTGTGCTGAATCGG 58.955 47.826 0.00 0.00 0.00 4.18
1890 2152 5.242434 ACTATGTGTGCTGAATCGGTTTTA 58.758 37.500 0.00 0.00 0.00 1.52
2167 2456 1.165270 GCGAGGTAGTTTGTGCCAAT 58.835 50.000 0.00 0.00 31.94 3.16
2173 2462 6.658831 CGAGGTAGTTTGTGCCAATATATTG 58.341 40.000 17.11 17.11 37.52 1.90
2235 5639 8.454106 ACAAGACAGTAGTGATGAATTTTATGC 58.546 33.333 4.09 0.00 0.00 3.14
2270 5679 1.505425 AAAAACAGGTCGAGTACGCC 58.495 50.000 0.00 0.00 39.58 5.68
2634 6368 7.201565 GCCTCAGAAAGTAAGTCACATACATTC 60.202 40.741 0.88 0.88 33.42 2.67
2644 6378 9.216117 GTAAGTCACATACATTCTTACAACCTT 57.784 33.333 0.00 0.00 39.72 3.50
2645 6379 7.907214 AGTCACATACATTCTTACAACCTTC 57.093 36.000 0.00 0.00 0.00 3.46
2692 6551 3.366476 CGCTCCTAGCATATGACACCTAC 60.366 52.174 6.97 0.00 42.58 3.18
2693 6552 3.829601 GCTCCTAGCATATGACACCTACT 59.170 47.826 6.97 0.00 41.89 2.57
2694 6553 4.321601 GCTCCTAGCATATGACACCTACTG 60.322 50.000 6.97 0.00 41.89 2.74
2719 6578 6.768381 GTCCTACTCCCTTCATTCCAAAATAG 59.232 42.308 0.00 0.00 0.00 1.73
2768 6627 8.966868 TCAATCTTTCTAAAGTTTGACCAAGTT 58.033 29.630 18.39 0.00 43.95 2.66
2791 6650 7.873505 AGTTTATAGGAAAATCTGCGACTATCC 59.126 37.037 0.00 0.00 0.00 2.59
2804 6663 6.821160 TCTGCGACTATCCACAATATGAAAAA 59.179 34.615 0.00 0.00 0.00 1.94
2844 6703 5.049474 TCGATTGAAGTGAATTTGGTCTGTG 60.049 40.000 0.00 0.00 0.00 3.66
2846 6705 3.221771 TGAAGTGAATTTGGTCTGTGGG 58.778 45.455 0.00 0.00 0.00 4.61
2847 6706 3.222603 GAAGTGAATTTGGTCTGTGGGT 58.777 45.455 0.00 0.00 0.00 4.51
2856 6715 3.348647 TGGTCTGTGGGTGTTCATATG 57.651 47.619 0.00 0.00 0.00 1.78
3004 6876 3.264193 TCTGCAGAAGTATGGTGGAACAT 59.736 43.478 15.67 0.00 44.52 2.71
3162 7052 6.694411 GGTATGAATGCAGCTTCATAGTTTTG 59.306 38.462 18.67 0.00 44.59 2.44
3163 7053 5.963176 TGAATGCAGCTTCATAGTTTTGA 57.037 34.783 0.00 0.00 30.34 2.69
3170 7060 5.486526 CAGCTTCATAGTTTTGACTCTCCT 58.513 41.667 0.00 0.00 0.00 3.69
3179 7069 0.191064 TTGACTCTCCTGGGTCTGGT 59.809 55.000 0.00 0.00 34.01 4.00
3194 7084 4.878397 GGGTCTGGTTTTAGTGATGATCAG 59.122 45.833 0.09 0.00 0.00 2.90
3210 7100 9.813080 GTGATGATCAGTGTAAAGTTTTCTTAC 57.187 33.333 0.09 0.00 39.48 2.34
3248 7138 5.825679 TCTGATTTCCTTCAAGAAACCGAAA 59.174 36.000 0.00 0.00 38.51 3.46
3249 7139 6.320164 TCTGATTTCCTTCAAGAAACCGAAAA 59.680 34.615 0.00 0.00 38.51 2.29
3250 7140 6.868622 TGATTTCCTTCAAGAAACCGAAAAA 58.131 32.000 0.00 0.00 38.51 1.94
3251 7141 6.978080 TGATTTCCTTCAAGAAACCGAAAAAG 59.022 34.615 0.00 0.00 38.51 2.27
3252 7142 5.907866 TTCCTTCAAGAAACCGAAAAAGT 57.092 34.783 0.00 0.00 0.00 2.66
3253 7143 7.393841 TTTCCTTCAAGAAACCGAAAAAGTA 57.606 32.000 0.00 0.00 30.87 2.24
3254 7144 6.613755 TCCTTCAAGAAACCGAAAAAGTAG 57.386 37.500 0.00 0.00 0.00 2.57
3255 7145 6.350906 TCCTTCAAGAAACCGAAAAAGTAGA 58.649 36.000 0.00 0.00 0.00 2.59
3256 7146 6.482308 TCCTTCAAGAAACCGAAAAAGTAGAG 59.518 38.462 0.00 0.00 0.00 2.43
3257 7147 6.482308 CCTTCAAGAAACCGAAAAAGTAGAGA 59.518 38.462 0.00 0.00 0.00 3.10
3258 7148 7.173390 CCTTCAAGAAACCGAAAAAGTAGAGAT 59.827 37.037 0.00 0.00 0.00 2.75
3259 7149 8.446599 TTCAAGAAACCGAAAAAGTAGAGATT 57.553 30.769 0.00 0.00 0.00 2.40
3260 7150 8.084590 TCAAGAAACCGAAAAAGTAGAGATTC 57.915 34.615 0.00 0.00 0.00 2.52
3261 7151 7.713507 TCAAGAAACCGAAAAAGTAGAGATTCA 59.286 33.333 0.00 0.00 0.00 2.57
3262 7152 8.507249 CAAGAAACCGAAAAAGTAGAGATTCAT 58.493 33.333 0.00 0.00 0.00 2.57
3263 7153 9.720769 AAGAAACCGAAAAAGTAGAGATTCATA 57.279 29.630 0.00 0.00 0.00 2.15
3264 7154 9.152595 AGAAACCGAAAAAGTAGAGATTCATAC 57.847 33.333 0.00 0.00 0.00 2.39
3265 7155 7.845066 AACCGAAAAAGTAGAGATTCATACC 57.155 36.000 0.00 0.00 0.00 2.73
3266 7156 6.942976 ACCGAAAAAGTAGAGATTCATACCA 58.057 36.000 0.00 0.00 0.00 3.25
3267 7157 7.042335 ACCGAAAAAGTAGAGATTCATACCAG 58.958 38.462 0.00 0.00 0.00 4.00
3268 7158 6.018669 CCGAAAAAGTAGAGATTCATACCAGC 60.019 42.308 0.00 0.00 0.00 4.85
3269 7159 6.018669 CGAAAAAGTAGAGATTCATACCAGCC 60.019 42.308 0.00 0.00 0.00 4.85
3270 7160 6.567602 AAAAGTAGAGATTCATACCAGCCT 57.432 37.500 0.00 0.00 0.00 4.58
3271 7161 5.543507 AAGTAGAGATTCATACCAGCCTG 57.456 43.478 0.00 0.00 0.00 4.85
3272 7162 2.926778 AGAGATTCATACCAGCCTGC 57.073 50.000 0.00 0.00 0.00 4.85
3273 7163 1.419387 AGAGATTCATACCAGCCTGCC 59.581 52.381 0.00 0.00 0.00 4.85
3274 7164 0.107456 AGATTCATACCAGCCTGCCG 59.893 55.000 0.00 0.00 0.00 5.69
3275 7165 0.886490 GATTCATACCAGCCTGCCGG 60.886 60.000 0.00 0.00 0.00 6.13
3276 7166 1.344953 ATTCATACCAGCCTGCCGGA 61.345 55.000 5.05 0.00 0.00 5.14
3285 7175 0.034186 AGCCTGCCGGAATGATCAAA 60.034 50.000 5.05 0.00 0.00 2.69
3349 7442 8.915871 TTCAACAAAGAATCTTGAAGAACTTG 57.084 30.769 15.02 11.00 31.72 3.16
3367 7460 5.108385 ACTTGTCGACATTGTTTCATTCC 57.892 39.130 20.80 0.00 0.00 3.01
3393 7489 1.807573 CTCTTCCGGCAGTCTTCGC 60.808 63.158 0.00 0.00 0.00 4.70
3413 7509 3.345714 GCGACGCTGTAAAATTCATCAG 58.654 45.455 13.73 0.00 0.00 2.90
3437 7546 6.493802 AGACAACTCCACTTAGATACAACTGA 59.506 38.462 0.00 0.00 0.00 3.41
3491 7610 5.356882 TGAAACAGCGAACCTCTATTTTG 57.643 39.130 0.00 0.00 0.00 2.44
3552 7671 1.006281 TGCAAAGGAGAGCCATGGATT 59.994 47.619 18.40 1.53 36.29 3.01
3593 7712 0.028902 GTTGTTGGTTCGCACAGTCC 59.971 55.000 0.00 0.00 0.00 3.85
3664 7783 2.093658 GGAGTATTCCCAGCTCGAACAA 60.094 50.000 0.00 0.00 37.53 2.83
3705 7824 3.084070 CAAACTTGCCACAAGAGTTCC 57.916 47.619 13.94 0.00 32.79 3.62
3706 7825 1.692411 AACTTGCCACAAGAGTTCCC 58.308 50.000 13.94 0.00 0.00 3.97
3753 7929 7.657354 GCATTCTATGTCCTGAATACATGTACA 59.343 37.037 7.96 2.50 38.05 2.90
3754 7930 8.982685 CATTCTATGTCCTGAATACATGTACAC 58.017 37.037 7.96 5.98 38.05 2.90
3790 7970 6.714356 TGAATGTGATCTGTCAAACCATAACA 59.286 34.615 0.00 0.00 35.80 2.41
3845 8026 7.647827 TGGGGAAAATATGGAGAATACAGAAA 58.352 34.615 0.00 0.00 0.00 2.52
3880 8061 2.012673 GTGGACATGGAGATGCAAGAC 58.987 52.381 0.00 0.00 32.14 3.01
3984 8167 1.135915 CTACTCGGCTCATTGCTCACT 59.864 52.381 0.00 0.00 42.39 3.41
4003 8186 6.148480 GCTCACTTGAAACAGTTGATAGTCAT 59.852 38.462 0.00 0.00 0.00 3.06
4065 8259 4.562767 TCCCCTGCTGTCCTATTTATGTA 58.437 43.478 0.00 0.00 0.00 2.29
4107 8306 3.883830 TTGTGCATGTGGAAACAAACT 57.116 38.095 0.00 0.00 46.06 2.66
4108 8307 3.162202 TGTGCATGTGGAAACAAACTG 57.838 42.857 0.00 0.00 46.06 3.16
4117 8316 2.160205 GGAAACAAACTGGGCCTACTC 58.840 52.381 4.53 0.00 0.00 2.59
4125 8324 1.633945 ACTGGGCCTACTCGGAATTTT 59.366 47.619 4.53 0.00 33.16 1.82
4130 8329 2.879026 GGCCTACTCGGAATTTTGATCC 59.121 50.000 0.00 0.00 33.16 3.36
4156 8355 2.848694 AGGGCATTTCCAGATTCTCTCA 59.151 45.455 0.00 0.00 36.21 3.27
4158 8357 3.118112 GGGCATTTCCAGATTCTCTCAGA 60.118 47.826 0.00 0.00 36.21 3.27
4163 8362 6.318144 GCATTTCCAGATTCTCTCAGATGAAA 59.682 38.462 0.00 0.00 0.00 2.69
4169 8368 6.459848 CCAGATTCTCTCAGATGAAATTTGCC 60.460 42.308 0.00 0.00 0.00 4.52
4222 8421 7.668052 TCTCTAGCAAATGCCCTAAAAGTTAAA 59.332 33.333 0.94 0.00 43.38 1.52
4226 8425 8.690203 AGCAAATGCCCTAAAAGTTAAATTTT 57.310 26.923 16.81 16.81 43.38 1.82
4264 8463 3.258123 GCCTAGCTAGAAGATCCCTCAAG 59.742 52.174 22.70 1.54 0.00 3.02
4304 8504 8.399284 AAAATAATAATGGATTTTCACCCCCA 57.601 30.769 0.00 0.00 31.17 4.96
4305 8505 6.994421 ATAATAATGGATTTTCACCCCCAC 57.006 37.500 0.00 0.00 0.00 4.61
4306 8506 1.951209 AATGGATTTTCACCCCCACC 58.049 50.000 0.00 0.00 0.00 4.61
4307 8507 0.042581 ATGGATTTTCACCCCCACCC 59.957 55.000 0.00 0.00 0.00 4.61
4308 8508 1.305802 GGATTTTCACCCCCACCCC 60.306 63.158 0.00 0.00 0.00 4.95
4309 8509 1.305802 GATTTTCACCCCCACCCCC 60.306 63.158 0.00 0.00 0.00 5.40
4369 8569 2.011947 CATGCATTCTTCTTCTCGGCA 58.988 47.619 0.00 0.00 0.00 5.69
4391 8600 2.116772 CCTGCCATAGCCCCCATG 59.883 66.667 0.00 0.00 38.69 3.66
4423 8632 2.990479 GGAACTGCTCCACCCGAT 59.010 61.111 0.00 0.00 44.67 4.18
4429 8638 1.383109 TGCTCCACCCGATCATCCT 60.383 57.895 0.00 0.00 0.00 3.24
4461 8670 2.689034 CTCTCCCGCCTTCCCCTT 60.689 66.667 0.00 0.00 0.00 3.95
4473 8682 1.198094 TTCCCCTTGCTCACCGATGA 61.198 55.000 0.00 0.00 0.00 2.92
4496 8705 4.142271 ACAAAATCGTCTTTTTCACAGCCA 60.142 37.500 0.00 0.00 0.00 4.75
4540 8749 4.473520 CTGATGGCCGCGGAGGTT 62.474 66.667 33.48 10.05 43.70 3.50
4559 8768 2.147436 TCGTTTTTGCCTGGAATTGC 57.853 45.000 0.00 0.00 0.00 3.56
4560 8769 1.410517 TCGTTTTTGCCTGGAATTGCA 59.589 42.857 0.00 0.00 35.27 4.08
4585 8794 1.377202 GACCTTGGAGATGGCGCAA 60.377 57.895 10.83 0.00 0.00 4.85
4590 8799 0.677731 TTGGAGATGGCGCAAGAAGG 60.678 55.000 10.83 0.00 43.02 3.46
4616 8825 1.819288 CTCAACTCCTAGACAGCCGAA 59.181 52.381 0.00 0.00 0.00 4.30
4680 8889 3.148084 CCCCGATATCCTTGCCGT 58.852 61.111 0.00 0.00 0.00 5.68
4687 8896 2.418628 CGATATCCTTGCCGTGTTTGTT 59.581 45.455 0.00 0.00 0.00 2.83
4712 8922 4.918201 CGCCTGGGAATCGCCTCC 62.918 72.222 0.00 0.00 36.66 4.30
4735 8945 4.175599 CTGCTAGCCAGTGTCGTG 57.824 61.111 13.29 0.00 36.79 4.35
4744 8954 2.203728 AGTGTCGTGGGTGCCCTA 60.204 61.111 8.91 0.00 36.94 3.53
4761 8971 2.352371 CCTATGGGATCTGAATGGGGT 58.648 52.381 0.00 0.00 33.58 4.95
4765 8976 0.106519 GGGATCTGAATGGGGTGTGG 60.107 60.000 0.00 0.00 0.00 4.17
4766 8977 0.753111 GGATCTGAATGGGGTGTGGC 60.753 60.000 0.00 0.00 0.00 5.01
4904 9116 1.129251 CTTCATGCACTAGCCAACACG 59.871 52.381 0.00 0.00 41.13 4.49
4914 9126 2.335316 AGCCAACACGACCAAAAGTA 57.665 45.000 0.00 0.00 0.00 2.24
4929 9141 7.272037 ACCAAAAGTACGAACTGATGAAAAT 57.728 32.000 0.00 0.00 35.62 1.82
4936 9148 4.832248 ACGAACTGATGAAAATGGCTAGA 58.168 39.130 0.00 0.00 0.00 2.43
4937 9149 4.631813 ACGAACTGATGAAAATGGCTAGAC 59.368 41.667 0.00 0.00 0.00 2.59
4948 9160 7.062322 TGAAAATGGCTAGACAATCCACATAT 58.938 34.615 0.13 0.00 31.94 1.78
4949 9161 8.217111 TGAAAATGGCTAGACAATCCACATATA 58.783 33.333 0.13 0.00 31.94 0.86
4950 9162 7.986085 AAATGGCTAGACAATCCACATATAC 57.014 36.000 0.13 0.00 31.94 1.47
4951 9163 6.686484 ATGGCTAGACAATCCACATATACA 57.314 37.500 0.13 0.00 31.94 2.29
4952 9164 5.853936 TGGCTAGACAATCCACATATACAC 58.146 41.667 0.00 0.00 0.00 2.90
4953 9165 5.602561 TGGCTAGACAATCCACATATACACT 59.397 40.000 0.00 0.00 0.00 3.55
4954 9166 6.099701 TGGCTAGACAATCCACATATACACTT 59.900 38.462 0.00 0.00 0.00 3.16
4955 9167 6.647067 GGCTAGACAATCCACATATACACTTC 59.353 42.308 0.00 0.00 0.00 3.01
4956 9168 7.210174 GCTAGACAATCCACATATACACTTCA 58.790 38.462 0.00 0.00 0.00 3.02
4968 9180 0.765510 ACACTTCAACACCCCCTCTC 59.234 55.000 0.00 0.00 0.00 3.20
4970 9182 1.352352 CACTTCAACACCCCCTCTCAT 59.648 52.381 0.00 0.00 0.00 2.90
4972 9184 0.038166 TTCAACACCCCCTCTCATGC 59.962 55.000 0.00 0.00 0.00 4.06
4976 9188 2.284625 ACCCCCTCTCATGCGTGA 60.285 61.111 8.64 8.64 0.00 4.35
5000 9212 2.610976 CGGGAAGTCAACACGTGGATAA 60.611 50.000 21.57 0.00 0.00 1.75
5002 9214 4.007659 GGGAAGTCAACACGTGGATAAAT 58.992 43.478 21.57 1.36 0.00 1.40
5014 9226 6.127168 ACACGTGGATAAATTCAGAGGTATGA 60.127 38.462 21.57 0.00 0.00 2.15
5015 9227 6.931281 CACGTGGATAAATTCAGAGGTATGAT 59.069 38.462 7.95 0.00 0.00 2.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
383 384 3.423154 CCAAGCTCGACCGCCAAC 61.423 66.667 0.00 0.00 0.00 3.77
576 578 0.958876 CTTTAGTCCCGGTTGGTGCC 60.959 60.000 0.00 0.00 34.77 5.01
648 650 2.589540 CAATGGGCCGCACTCCTA 59.410 61.111 0.00 0.00 0.00 2.94
816 819 4.424711 GGCAATGGTCCAGGCCGA 62.425 66.667 18.66 0.00 36.58 5.54
907 911 4.149598 ACTTCCACATCCTACCCAAAAAC 58.850 43.478 0.00 0.00 0.00 2.43
1156 1208 5.050023 GGTAAGTTTGAAGCTCTTGAGTGAC 60.050 44.000 0.00 0.00 0.00 3.67
1511 1593 8.918961 TTTGTTGTTTGGTGAAAATAGTACAG 57.081 30.769 0.00 0.00 0.00 2.74
1606 1729 5.112686 TCAAACAGGTGTTAAACAAATGCC 58.887 37.500 0.00 0.00 37.25 4.40
1609 1732 6.605594 TCCTCTCAAACAGGTGTTAAACAAAT 59.394 34.615 0.00 0.00 37.25 2.32
1779 1906 8.156820 ACATTAGGATGCACAGCAATAGTTATA 58.843 33.333 0.00 0.00 43.62 0.98
1880 2142 3.401182 TGCACGTTAGGTAAAACCGATT 58.599 40.909 0.00 0.00 44.90 3.34
1885 2147 6.470557 TTGTAGATGCACGTTAGGTAAAAC 57.529 37.500 0.00 0.00 0.00 2.43
1890 2152 2.936498 GCATTGTAGATGCACGTTAGGT 59.064 45.455 6.15 0.00 44.00 3.08
2270 5679 1.888391 GCTTTCCAGGGGAAGTTCAGG 60.888 57.143 8.14 1.17 43.06 3.86
2634 6368 6.301169 ACCTGAGAATAGGAAGGTTGTAAG 57.699 41.667 0.00 0.00 40.14 2.34
2644 6378 8.686334 GCAAATTAATCAAACCTGAGAATAGGA 58.314 33.333 0.00 0.00 40.42 2.94
2645 6379 7.645340 CGCAAATTAATCAAACCTGAGAATAGG 59.355 37.037 0.00 0.00 43.71 2.57
2692 6551 3.107601 TGGAATGAAGGGAGTAGGACAG 58.892 50.000 0.00 0.00 0.00 3.51
2693 6552 3.199442 TGGAATGAAGGGAGTAGGACA 57.801 47.619 0.00 0.00 0.00 4.02
2694 6553 4.569719 TTTGGAATGAAGGGAGTAGGAC 57.430 45.455 0.00 0.00 0.00 3.85
2697 6556 9.853177 ATTACTATTTTGGAATGAAGGGAGTAG 57.147 33.333 0.00 0.00 0.00 2.57
2768 6627 7.152645 GTGGATAGTCGCAGATTTTCCTATAA 58.847 38.462 10.02 0.00 42.84 0.98
2822 6681 5.464168 CCACAGACCAAATTCACTTCAATC 58.536 41.667 0.00 0.00 0.00 2.67
2831 6690 2.955660 TGAACACCCACAGACCAAATTC 59.044 45.455 0.00 0.00 0.00 2.17
3106 6978 3.060866 GTGAGAGGTCACCGCCTT 58.939 61.111 0.00 0.00 46.58 4.35
3162 7052 1.353091 AAACCAGACCCAGGAGAGTC 58.647 55.000 0.00 0.00 0.00 3.36
3163 7053 1.821088 AAAACCAGACCCAGGAGAGT 58.179 50.000 0.00 0.00 0.00 3.24
3170 7060 4.288366 TGATCATCACTAAAACCAGACCCA 59.712 41.667 0.00 0.00 0.00 4.51
3194 7084 5.829391 TCCCCTTGGTAAGAAAACTTTACAC 59.171 40.000 0.00 0.00 33.66 2.90
3210 7100 5.014966 AGGAAATCAGATGATATCCCCTTGG 59.985 44.000 0.00 0.00 33.73 3.61
3248 7138 5.686124 GCAGGCTGGTATGAATCTCTACTTT 60.686 44.000 17.64 0.00 0.00 2.66
3249 7139 4.202305 GCAGGCTGGTATGAATCTCTACTT 60.202 45.833 17.64 0.00 0.00 2.24
3250 7140 3.323403 GCAGGCTGGTATGAATCTCTACT 59.677 47.826 17.64 0.00 0.00 2.57
3251 7141 3.556004 GGCAGGCTGGTATGAATCTCTAC 60.556 52.174 17.64 0.00 0.00 2.59
3252 7142 2.634940 GGCAGGCTGGTATGAATCTCTA 59.365 50.000 17.64 0.00 0.00 2.43
3253 7143 1.419387 GGCAGGCTGGTATGAATCTCT 59.581 52.381 17.64 0.00 0.00 3.10
3254 7144 1.875576 CGGCAGGCTGGTATGAATCTC 60.876 57.143 17.64 0.00 0.00 2.75
3255 7145 0.107456 CGGCAGGCTGGTATGAATCT 59.893 55.000 17.64 0.00 0.00 2.40
3256 7146 0.886490 CCGGCAGGCTGGTATGAATC 60.886 60.000 17.64 0.00 37.68 2.52
3257 7147 1.149174 CCGGCAGGCTGGTATGAAT 59.851 57.895 17.64 0.00 37.68 2.57
3258 7148 1.558167 TTCCGGCAGGCTGGTATGAA 61.558 55.000 17.64 3.15 42.88 2.57
3259 7149 1.344953 ATTCCGGCAGGCTGGTATGA 61.345 55.000 17.64 4.71 42.88 2.15
3260 7150 1.149174 ATTCCGGCAGGCTGGTATG 59.851 57.895 17.64 0.00 42.88 2.39
3261 7151 1.149174 CATTCCGGCAGGCTGGTAT 59.851 57.895 17.64 11.83 42.88 2.73
3262 7152 1.344953 ATCATTCCGGCAGGCTGGTA 61.345 55.000 17.64 9.91 42.88 3.25
3263 7153 2.615227 GATCATTCCGGCAGGCTGGT 62.615 60.000 17.64 0.00 42.88 4.00
3264 7154 1.895707 GATCATTCCGGCAGGCTGG 60.896 63.158 17.64 13.04 43.69 4.85
3265 7155 0.749091 TTGATCATTCCGGCAGGCTG 60.749 55.000 10.94 10.94 37.47 4.85
3266 7156 0.034186 TTTGATCATTCCGGCAGGCT 60.034 50.000 0.00 0.00 37.47 4.58
3267 7157 0.383231 CTTTGATCATTCCGGCAGGC 59.617 55.000 0.00 0.00 37.47 4.85
3268 7158 1.755179 ACTTTGATCATTCCGGCAGG 58.245 50.000 0.00 0.00 39.46 4.85
3269 7159 3.689161 TGTTACTTTGATCATTCCGGCAG 59.311 43.478 0.00 0.00 0.00 4.85
3270 7160 3.680490 TGTTACTTTGATCATTCCGGCA 58.320 40.909 0.00 0.00 0.00 5.69
3271 7161 4.900635 ATGTTACTTTGATCATTCCGGC 57.099 40.909 0.00 0.00 0.00 6.13
3272 7162 6.527722 CACAAATGTTACTTTGATCATTCCGG 59.472 38.462 0.00 0.00 38.17 5.14
3273 7163 7.060979 CACACAAATGTTACTTTGATCATTCCG 59.939 37.037 0.00 0.00 38.17 4.30
3274 7164 7.148755 GCACACAAATGTTACTTTGATCATTCC 60.149 37.037 0.00 0.00 38.17 3.01
3275 7165 7.381948 TGCACACAAATGTTACTTTGATCATTC 59.618 33.333 0.00 0.00 38.17 2.67
3276 7166 7.169645 GTGCACACAAATGTTACTTTGATCATT 59.830 33.333 13.17 0.00 38.17 2.57
3285 7175 1.673400 TGCGTGCACACAAATGTTACT 59.327 42.857 18.64 0.00 36.72 2.24
3349 7442 3.185594 TCGTGGAATGAAACAATGTCGAC 59.814 43.478 9.11 9.11 0.00 4.20
3367 7460 2.504244 GCCGGAAGAGTCGTCGTG 60.504 66.667 5.05 0.00 0.00 4.35
3393 7489 4.091365 TGTCTGATGAATTTTACAGCGTCG 59.909 41.667 0.00 0.00 0.00 5.12
3413 7509 6.586844 GTCAGTTGTATCTAAGTGGAGTTGTC 59.413 42.308 0.00 0.00 32.97 3.18
3491 7610 0.459489 TTCCACTGCAGTTGCCAAAC 59.541 50.000 18.94 0.00 41.18 2.93
3552 7671 6.299805 ACACAGCTGTATCTCCTTCAATTA 57.700 37.500 21.20 0.00 0.00 1.40
3593 7712 0.540454 TGCCTTCCTGAGCAGATCTG 59.460 55.000 18.84 18.84 33.08 2.90
3664 7783 0.908198 GGCAGATGGAAGAGGTGAGT 59.092 55.000 0.00 0.00 0.00 3.41
3753 7929 2.925724 TCACATTCAACTCAAACGGGT 58.074 42.857 0.00 0.00 0.00 5.28
3754 7930 3.753272 AGATCACATTCAACTCAAACGGG 59.247 43.478 0.00 0.00 0.00 5.28
3798 7978 9.918630 CCCCATTCTGCTTTATTATAATTGAAG 57.081 33.333 2.68 9.48 0.00 3.02
3810 7991 6.439487 TCCATATTTTCCCCATTCTGCTTTA 58.561 36.000 0.00 0.00 0.00 1.85
3845 8026 1.053424 TCCACTTGCCGGTCTAAGTT 58.947 50.000 15.23 2.81 35.08 2.66
3880 8061 5.072872 ACCCTGATGAATTCTCCAAGATAGG 59.927 44.000 7.05 4.07 0.00 2.57
3923 8106 1.808945 GAGAAATGTCTGCCTGGTGTG 59.191 52.381 0.00 0.00 32.80 3.82
3984 8167 9.665719 TTGCTATATGACTATCAACTGTTTCAA 57.334 29.630 0.00 0.00 0.00 2.69
4003 8186 3.132289 CCTGGAAGACGACCTTTGCTATA 59.868 47.826 0.00 0.00 34.68 1.31
4065 8259 9.206870 CACAAATTTATTTCTGCAATAACAGGT 57.793 29.630 0.00 0.00 37.11 4.00
4107 8306 1.631388 TCAAAATTCCGAGTAGGCCCA 59.369 47.619 0.00 0.00 40.77 5.36
4108 8307 2.413310 TCAAAATTCCGAGTAGGCCC 57.587 50.000 0.00 0.00 40.77 5.80
4125 8324 2.441375 TGGAAATGCCCTATTCGGATCA 59.559 45.455 0.00 0.00 34.97 2.92
4130 8329 4.392940 AGAATCTGGAAATGCCCTATTCG 58.607 43.478 0.00 0.00 39.75 3.34
4156 8355 7.874528 CCAAACTCTAAAAGGCAAATTTCATCT 59.125 33.333 0.00 0.00 0.00 2.90
4158 8357 6.427853 GCCAAACTCTAAAAGGCAAATTTCAT 59.572 34.615 0.00 0.00 44.59 2.57
4169 8368 8.268850 TGCTCTTATAAGCCAAACTCTAAAAG 57.731 34.615 7.67 0.00 41.77 2.27
4226 8425 5.580022 AGCTAGGCTTTAATCCCTCAAAAA 58.420 37.500 0.00 0.00 33.89 1.94
4285 8485 3.632385 GGGTGGGGGTGAAAATCCATTAT 60.632 47.826 0.00 0.00 0.00 1.28
4292 8492 2.866378 GGGGGTGGGGGTGAAAAT 59.134 61.111 0.00 0.00 0.00 1.82
4413 8622 1.070445 GCAGGATGATCGGGTGGAG 59.930 63.158 0.00 0.00 39.69 3.86
4419 8628 2.281345 GGGCTGCAGGATGATCGG 60.281 66.667 17.12 0.00 39.69 4.18
4457 8666 0.321564 TTGTCATCGGTGAGCAAGGG 60.322 55.000 0.00 0.00 34.36 3.95
4461 8670 1.731709 CGATTTTGTCATCGGTGAGCA 59.268 47.619 0.00 0.00 42.03 4.26
4473 8682 4.142271 TGGCTGTGAAAAAGACGATTTTGT 60.142 37.500 0.00 0.00 22.62 2.83
4496 8705 4.379243 CAGGACAGCGGGCTCGTT 62.379 66.667 8.30 0.00 38.89 3.85
4540 8749 1.410517 TGCAATTCCAGGCAAAAACGA 59.589 42.857 0.00 0.00 37.03 3.85
4542 8751 3.401182 TGATGCAATTCCAGGCAAAAAC 58.599 40.909 0.00 0.00 44.20 2.43
4559 8768 2.562635 CATCTCCAAGGTCAGCTGATG 58.437 52.381 21.47 14.19 0.00 3.07
4560 8769 1.489649 CCATCTCCAAGGTCAGCTGAT 59.510 52.381 21.47 0.83 0.00 2.90
4590 8799 2.494073 CTGTCTAGGAGTTGAGGTGGAC 59.506 54.545 0.00 0.00 0.00 4.02
4669 8878 1.268352 GCAACAAACACGGCAAGGATA 59.732 47.619 0.00 0.00 0.00 2.59
4744 8954 1.216175 CACACCCCATTCAGATCCCAT 59.784 52.381 0.00 0.00 0.00 4.00
4756 8966 3.545124 GACACATCGCCACACCCCA 62.545 63.158 0.00 0.00 0.00 4.96
4761 8971 1.668793 CAGCAGACACATCGCCACA 60.669 57.895 0.00 0.00 0.00 4.17
4765 8976 1.996292 TCTAACAGCAGACACATCGC 58.004 50.000 0.00 0.00 0.00 4.58
4766 8977 3.579709 ACTTCTAACAGCAGACACATCG 58.420 45.455 0.00 0.00 0.00 3.84
4904 9116 5.917541 TTCATCAGTTCGTACTTTTGGTC 57.082 39.130 0.00 0.00 30.26 4.02
4914 9126 4.631813 GTCTAGCCATTTTCATCAGTTCGT 59.368 41.667 0.00 0.00 0.00 3.85
4929 9141 5.602561 AGTGTATATGTGGATTGTCTAGCCA 59.397 40.000 0.00 0.00 0.00 4.75
4936 9148 6.374333 GGTGTTGAAGTGTATATGTGGATTGT 59.626 38.462 0.00 0.00 0.00 2.71
4937 9149 6.183360 GGGTGTTGAAGTGTATATGTGGATTG 60.183 42.308 0.00 0.00 0.00 2.67
4948 9160 1.975680 GAGAGGGGGTGTTGAAGTGTA 59.024 52.381 0.00 0.00 0.00 2.90
4949 9161 0.765510 GAGAGGGGGTGTTGAAGTGT 59.234 55.000 0.00 0.00 0.00 3.55
4950 9162 0.764890 TGAGAGGGGGTGTTGAAGTG 59.235 55.000 0.00 0.00 0.00 3.16
4951 9163 1.352352 CATGAGAGGGGGTGTTGAAGT 59.648 52.381 0.00 0.00 0.00 3.01
4952 9164 1.952367 GCATGAGAGGGGGTGTTGAAG 60.952 57.143 0.00 0.00 0.00 3.02
4953 9165 0.038166 GCATGAGAGGGGGTGTTGAA 59.962 55.000 0.00 0.00 0.00 2.69
4954 9166 1.685224 GCATGAGAGGGGGTGTTGA 59.315 57.895 0.00 0.00 0.00 3.18
4955 9167 1.746615 CGCATGAGAGGGGGTGTTG 60.747 63.158 0.00 0.00 0.00 3.33
4956 9168 2.224159 ACGCATGAGAGGGGGTGTT 61.224 57.895 2.50 0.00 0.00 3.32
4972 9184 2.355363 TTGACTTCCCGCGTCACG 60.355 61.111 4.92 0.00 40.78 4.35
4976 9188 2.660552 CGTGTTGACTTCCCGCGT 60.661 61.111 4.92 0.00 0.00 6.01
5000 9212 6.060788 GCCTCTTGAATCATACCTCTGAATT 58.939 40.000 0.00 0.00 0.00 2.17
5002 9214 4.141620 GGCCTCTTGAATCATACCTCTGAA 60.142 45.833 0.00 0.00 0.00 3.02
5014 9226 3.069729 GTCCACGTATAGGCCTCTTGAAT 59.930 47.826 9.68 0.00 0.00 2.57
5015 9227 2.429610 GTCCACGTATAGGCCTCTTGAA 59.570 50.000 9.68 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.