Multiple sequence alignment - TraesCS1B01G409100

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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 TraesCS1B01G409100 chr1B 100.000 3174 0 0 1 3174 636727971 636724798 0.000000e+00 5862.0
1 TraesCS1B01G409100 chr1B 85.392 931 109 22 522 1434 636739569 636738648 0.000000e+00 941.0
2 TraesCS1B01G409100 chr1B 90.761 184 11 6 37 217 120345425 120345605 1.140000e-59 241.0
3 TraesCS1B01G409100 chr1D 91.606 2049 105 27 230 2256 462093826 462091823 0.000000e+00 2769.0
4 TraesCS1B01G409100 chr1D 88.949 1294 106 15 293 1564 462108566 462107288 0.000000e+00 1563.0
5 TraesCS1B01G409100 chr1D 85.275 910 112 19 522 1418 462115911 462115011 0.000000e+00 918.0
6 TraesCS1B01G409100 chr1D 90.419 501 46 1 2676 3174 11331831 11331331 0.000000e+00 658.0
7 TraesCS1B01G409100 chr1D 94.256 383 22 0 1602 1984 462081003 462081385 1.270000e-163 586.0
8 TraesCS1B01G409100 chr1D 93.639 393 24 1 1595 1987 462082222 462081831 1.270000e-163 586.0
9 TraesCS1B01G409100 chr1D 90.373 322 31 0 1563 1884 462106986 462106665 1.050000e-114 424.0
10 TraesCS1B01G409100 chr1D 89.150 341 25 3 1890 2219 462106623 462106284 6.330000e-112 414.0
11 TraesCS1B01G409100 chr1D 90.040 251 23 1 2429 2679 11333541 11333293 1.100000e-84 324.0
12 TraesCS1B01G409100 chr1D 95.480 177 8 0 2252 2428 462106154 462105978 1.860000e-72 283.0
13 TraesCS1B01G409100 chr1D 94.915 177 9 0 2252 2428 462091776 462091600 8.670000e-71 278.0
14 TraesCS1B01G409100 chr1D 94.643 56 3 0 1616 1671 416663957 416663902 1.570000e-13 87.9
15 TraesCS1B01G409100 chr1D 97.059 34 0 1 210 243 462094157 462094125 4.420000e-04 56.5
16 TraesCS1B01G409100 chr1A 91.273 1398 114 7 492 1884 553958557 553957163 0.000000e+00 1899.0
17 TraesCS1B01G409100 chr1A 82.073 926 118 32 522 1434 553971979 553971089 0.000000e+00 747.0
18 TraesCS1B01G409100 chr1A 90.323 341 21 5 1890 2219 553957121 553956782 1.350000e-118 436.0
19 TraesCS1B01G409100 chr1A 88.298 188 11 4 2252 2428 553956660 553956473 6.900000e-52 215.0
20 TraesCS1B01G409100 chr1A 100.000 32 0 0 2225 2256 553956730 553956699 3.420000e-05 60.2
21 TraesCS1B01G409100 chrUn 98.257 746 13 0 2429 3174 30451862 30452607 0.000000e+00 1306.0
22 TraesCS1B01G409100 chrUn 79.377 257 29 16 1434 1671 97477312 97477061 3.280000e-35 159.0
23 TraesCS1B01G409100 chrUn 86.822 129 15 2 1437 1565 333063084 333063210 3.300000e-30 143.0
24 TraesCS1B01G409100 chr4B 96.787 747 23 1 2429 3174 98469825 98469079 0.000000e+00 1245.0
25 TraesCS1B01G409100 chr4B 79.216 255 34 6 1433 1671 505499800 505499549 3.280000e-35 159.0
26 TraesCS1B01G409100 chr7A 95.576 746 31 1 2429 3174 715751289 715752032 0.000000e+00 1194.0
27 TraesCS1B01G409100 chr7A 91.642 335 27 1 2429 2763 679767306 679767639 2.230000e-126 462.0
28 TraesCS1B01G409100 chr7A 88.189 127 14 1 3049 3174 679781156 679781282 1.970000e-32 150.0
29 TraesCS1B01G409100 chr3D 92.895 746 53 0 2429 3174 6391866 6392611 0.000000e+00 1085.0
30 TraesCS1B01G409100 chr3D 91.304 184 11 5 37 217 26660672 26660853 2.450000e-61 246.0
31 TraesCS1B01G409100 chr3D 83.871 62 10 0 2158 2219 454980534 454980473 3.420000e-05 60.2
32 TraesCS1B01G409100 chr3D 100.000 31 0 0 2158 2188 454220141 454220171 1.230000e-04 58.4
33 TraesCS1B01G409100 chr7B 98.238 227 4 0 2948 3174 25641398 25641172 6.380000e-107 398.0
34 TraesCS1B01G409100 chr7B 90.761 184 12 5 37 217 131930896 131930715 1.140000e-59 241.0
35 TraesCS1B01G409100 chr7B 91.061 179 12 4 37 213 480639795 480639971 4.090000e-59 239.0
36 TraesCS1B01G409100 chr7B 100.000 37 0 0 1 37 85140755 85140719 5.680000e-08 69.4
37 TraesCS1B01G409100 chr7B 100.000 37 0 0 1 37 226439729 226439693 5.680000e-08 69.4
38 TraesCS1B01G409100 chr2B 79.869 457 77 10 966 1410 763473948 763474401 1.420000e-83 320.0
39 TraesCS1B01G409100 chr2A 76.990 578 100 21 858 1410 753419136 753419705 1.850000e-77 300.0
40 TraesCS1B01G409100 chr2A 77.821 514 81 22 914 1412 24397412 24396917 1.440000e-73 287.0
41 TraesCS1B01G409100 chr6B 91.848 184 10 5 37 217 124390683 124390864 5.260000e-63 252.0
42 TraesCS1B01G409100 chr4D 91.257 183 12 4 37 217 328538505 328538325 2.450000e-61 246.0
43 TraesCS1B01G409100 chr4D 91.304 184 11 5 37 217 427260681 427260500 2.450000e-61 246.0
44 TraesCS1B01G409100 chr4D 100.000 37 0 0 1 37 3218953 3218989 5.680000e-08 69.4
45 TraesCS1B01G409100 chr3A 90.761 184 12 5 37 217 731838778 731838597 1.140000e-59 241.0
46 TraesCS1B01G409100 chr3A 100.000 37 0 0 1 37 731838859 731838823 5.680000e-08 69.4
47 TraesCS1B01G409100 chr3A 84.127 63 8 2 2158 2219 596358022 596358083 3.420000e-05 60.2
48 TraesCS1B01G409100 chr3A 84.127 63 8 2 2158 2219 597233907 597233846 3.420000e-05 60.2
49 TraesCS1B01G409100 chr6D 90.164 183 14 4 37 217 37522255 37522075 5.290000e-58 235.0
50 TraesCS1B01G409100 chr6D 86.822 129 15 2 1437 1565 468143016 468143142 3.300000e-30 143.0
51 TraesCS1B01G409100 chr6D 98.387 62 1 0 3113 3174 447744860 447744921 3.350000e-20 110.0
52 TraesCS1B01G409100 chr4A 84.177 158 21 4 62 216 681655322 681655166 1.970000e-32 150.0
53 TraesCS1B01G409100 chr2D 78.715 249 32 15 1441 1671 5197971 5197726 2.550000e-31 147.0
54 TraesCS1B01G409100 chr3B 85.606 132 18 1 1436 1567 788514337 788514207 1.540000e-28 137.0
55 TraesCS1B01G409100 chr3B 100.000 37 0 0 1 37 115386698 115386734 5.680000e-08 69.4
56 TraesCS1B01G409100 chr3B 85.484 62 9 0 2158 2219 596853583 596853644 7.350000e-07 65.8
57 TraesCS1B01G409100 chr3B 84.483 58 9 0 2158 2215 597840269 597840212 1.230000e-04 58.4
58 TraesCS1B01G409100 chr5D 100.000 37 0 0 1 37 2640404 2640440 5.680000e-08 69.4
59 TraesCS1B01G409100 chr5B 100.000 37 0 0 1 37 406880196 406880160 5.680000e-08 69.4
60 TraesCS1B01G409100 chr5A 100.000 36 0 0 2 37 370167883 370167848 2.040000e-07 67.6


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 TraesCS1B01G409100 chr1B 636724798 636727971 3173 True 5862.00 5862 100.000000 1 3174 1 chr1B.!!$R1 3173
1 TraesCS1B01G409100 chr1B 636738648 636739569 921 True 941.00 941 85.392000 522 1434 1 chr1B.!!$R2 912
2 TraesCS1B01G409100 chr1D 462091600 462094157 2557 True 1034.50 2769 94.526667 210 2428 3 chr1D.!!$R5 2218
3 TraesCS1B01G409100 chr1D 462115011 462115911 900 True 918.00 918 85.275000 522 1418 1 chr1D.!!$R3 896
4 TraesCS1B01G409100 chr1D 462105978 462108566 2588 True 671.00 1563 90.988000 293 2428 4 chr1D.!!$R6 2135
5 TraesCS1B01G409100 chr1D 11331331 11333541 2210 True 491.00 658 90.229500 2429 3174 2 chr1D.!!$R4 745
6 TraesCS1B01G409100 chr1A 553971089 553971979 890 True 747.00 747 82.073000 522 1434 1 chr1A.!!$R1 912
7 TraesCS1B01G409100 chr1A 553956473 553958557 2084 True 652.55 1899 92.473500 492 2428 4 chr1A.!!$R2 1936
8 TraesCS1B01G409100 chrUn 30451862 30452607 745 False 1306.00 1306 98.257000 2429 3174 1 chrUn.!!$F1 745
9 TraesCS1B01G409100 chr4B 98469079 98469825 746 True 1245.00 1245 96.787000 2429 3174 1 chr4B.!!$R1 745
10 TraesCS1B01G409100 chr7A 715751289 715752032 743 False 1194.00 1194 95.576000 2429 3174 1 chr7A.!!$F3 745
11 TraesCS1B01G409100 chr3D 6391866 6392611 745 False 1085.00 1085 92.895000 2429 3174 1 chr3D.!!$F1 745
12 TraesCS1B01G409100 chr2A 753419136 753419705 569 False 300.00 300 76.990000 858 1410 1 chr2A.!!$F1 552

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
112 113 0.034574 ACACCACACACCAAGCTTGA 60.035 50.0 28.05 0.00 0.0 3.02 F
150 151 0.244450 AAACCATTGCGCATCACCTG 59.756 50.0 12.75 4.16 0.0 4.00 F
1782 2488 0.179032 TGGGCGTTCATGACAGTTGT 60.179 50.0 0.00 0.00 0.0 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1298 1697 0.179081 GTTATCCTCACCGCCAGACC 60.179 60.000 0.00 0.00 0.00 3.85 R
2146 2898 0.670546 CAGTACTTGACCCCTGCGTG 60.671 60.000 0.00 0.00 0.00 5.34 R
2943 5268 2.030562 CAAAGCCTCACGGACCGT 59.969 61.111 15.37 15.37 42.36 4.83 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
25 26 6.596309 AAAATGGGAGAGATTTTCACTTCC 57.404 37.500 0.00 0.00 33.82 3.46
26 27 3.721087 TGGGAGAGATTTTCACTTCCC 57.279 47.619 0.40 0.40 32.41 3.97
27 28 2.027192 TGGGAGAGATTTTCACTTCCCG 60.027 50.000 3.17 0.00 32.41 5.14
28 29 2.633488 GGAGAGATTTTCACTTCCCGG 58.367 52.381 0.00 0.00 0.00 5.73
29 30 2.010497 GAGAGATTTTCACTTCCCGGC 58.990 52.381 0.00 0.00 0.00 6.13
30 31 1.095600 GAGATTTTCACTTCCCGGCC 58.904 55.000 0.00 0.00 0.00 6.13
31 32 0.698818 AGATTTTCACTTCCCGGCCT 59.301 50.000 0.00 0.00 0.00 5.19
32 33 1.095600 GATTTTCACTTCCCGGCCTC 58.904 55.000 0.00 0.00 0.00 4.70
33 34 0.698818 ATTTTCACTTCCCGGCCTCT 59.301 50.000 0.00 0.00 0.00 3.69
34 35 0.250727 TTTTCACTTCCCGGCCTCTG 60.251 55.000 0.00 0.00 0.00 3.35
35 36 2.748058 TTTCACTTCCCGGCCTCTGC 62.748 60.000 0.00 0.00 0.00 4.26
36 37 4.020617 CACTTCCCGGCCTCTGCA 62.021 66.667 0.00 0.00 40.13 4.41
37 38 3.249189 ACTTCCCGGCCTCTGCAA 61.249 61.111 0.00 0.00 40.13 4.08
38 39 2.034066 CTTCCCGGCCTCTGCAAA 59.966 61.111 0.00 0.00 40.13 3.68
39 40 2.282180 TTCCCGGCCTCTGCAAAC 60.282 61.111 0.00 0.00 40.13 2.93
40 41 3.126703 TTCCCGGCCTCTGCAAACA 62.127 57.895 0.00 0.00 40.13 2.83
41 42 2.361610 CCCGGCCTCTGCAAACAT 60.362 61.111 0.00 0.00 40.13 2.71
42 43 2.703798 CCCGGCCTCTGCAAACATG 61.704 63.158 0.00 0.00 40.13 3.21
43 44 2.703798 CCGGCCTCTGCAAACATGG 61.704 63.158 0.00 0.00 40.13 3.66
44 45 1.973281 CGGCCTCTGCAAACATGGT 60.973 57.895 0.00 0.00 40.13 3.55
45 46 1.885871 GGCCTCTGCAAACATGGTC 59.114 57.895 0.00 0.00 40.13 4.02
46 47 1.598701 GGCCTCTGCAAACATGGTCC 61.599 60.000 0.00 0.00 40.13 4.46
47 48 0.610232 GCCTCTGCAAACATGGTCCT 60.610 55.000 0.00 0.00 37.47 3.85
48 49 1.457346 CCTCTGCAAACATGGTCCTC 58.543 55.000 0.00 0.00 0.00 3.71
49 50 1.457346 CTCTGCAAACATGGTCCTCC 58.543 55.000 0.00 0.00 0.00 4.30
50 51 0.321564 TCTGCAAACATGGTCCTCCG 60.322 55.000 0.00 0.00 36.30 4.63
51 52 0.321564 CTGCAAACATGGTCCTCCGA 60.322 55.000 0.00 0.00 36.30 4.55
52 53 0.109532 TGCAAACATGGTCCTCCGAA 59.890 50.000 0.00 0.00 36.30 4.30
53 54 1.271871 TGCAAACATGGTCCTCCGAAT 60.272 47.619 0.00 0.00 36.30 3.34
54 55 1.818674 GCAAACATGGTCCTCCGAATT 59.181 47.619 0.00 0.00 36.30 2.17
55 56 2.231235 GCAAACATGGTCCTCCGAATTT 59.769 45.455 0.00 0.00 36.30 1.82
56 57 3.306019 GCAAACATGGTCCTCCGAATTTT 60.306 43.478 0.00 0.00 36.30 1.82
57 58 4.799255 GCAAACATGGTCCTCCGAATTTTT 60.799 41.667 0.00 0.00 36.30 1.94
96 97 9.606631 AAGATATTTCTTGATGAGAGGTTACAC 57.393 33.333 0.00 0.00 40.74 2.90
97 98 8.207545 AGATATTTCTTGATGAGAGGTTACACC 58.792 37.037 0.00 0.00 38.99 4.16
98 99 5.560722 TTTCTTGATGAGAGGTTACACCA 57.439 39.130 0.00 0.00 41.95 4.17
99 100 4.537135 TCTTGATGAGAGGTTACACCAC 57.463 45.455 0.00 0.00 41.95 4.16
100 101 3.901222 TCTTGATGAGAGGTTACACCACA 59.099 43.478 0.00 0.00 41.95 4.17
101 102 3.678056 TGATGAGAGGTTACACCACAC 57.322 47.619 0.00 0.00 41.95 3.82
102 103 2.969262 TGATGAGAGGTTACACCACACA 59.031 45.455 0.00 0.00 41.95 3.72
103 104 2.902705 TGAGAGGTTACACCACACAC 57.097 50.000 0.00 0.00 41.95 3.82
104 105 1.414919 TGAGAGGTTACACCACACACC 59.585 52.381 0.00 0.00 41.95 4.16
105 106 1.414919 GAGAGGTTACACCACACACCA 59.585 52.381 0.00 0.00 41.95 4.17
106 107 1.841277 AGAGGTTACACCACACACCAA 59.159 47.619 0.00 0.00 41.95 3.67
107 108 2.158813 AGAGGTTACACCACACACCAAG 60.159 50.000 0.00 0.00 41.95 3.61
108 109 0.666374 GGTTACACCACACACCAAGC 59.334 55.000 0.00 0.00 38.42 4.01
109 110 1.675552 GTTACACCACACACCAAGCT 58.324 50.000 0.00 0.00 0.00 3.74
110 111 2.021457 GTTACACCACACACCAAGCTT 58.979 47.619 0.00 0.00 0.00 3.74
111 112 1.674359 TACACCACACACCAAGCTTG 58.326 50.000 19.93 19.93 0.00 4.01
112 113 0.034574 ACACCACACACCAAGCTTGA 60.035 50.000 28.05 0.00 0.00 3.02
113 114 1.321474 CACCACACACCAAGCTTGAT 58.679 50.000 28.05 8.09 0.00 2.57
114 115 1.267806 CACCACACACCAAGCTTGATC 59.732 52.381 28.05 0.00 0.00 2.92
115 116 0.883833 CCACACACCAAGCTTGATCC 59.116 55.000 28.05 0.00 0.00 3.36
116 117 1.546323 CCACACACCAAGCTTGATCCT 60.546 52.381 28.05 4.13 0.00 3.24
117 118 1.808945 CACACACCAAGCTTGATCCTC 59.191 52.381 28.05 0.00 0.00 3.71
118 119 1.421268 ACACACCAAGCTTGATCCTCA 59.579 47.619 28.05 0.00 0.00 3.86
119 120 2.158623 ACACACCAAGCTTGATCCTCAA 60.159 45.455 28.05 0.00 34.79 3.02
120 121 3.087031 CACACCAAGCTTGATCCTCAAT 58.913 45.455 28.05 1.40 35.59 2.57
121 122 4.263462 ACACACCAAGCTTGATCCTCAATA 60.263 41.667 28.05 0.00 35.59 1.90
122 123 4.701651 CACACCAAGCTTGATCCTCAATAA 59.298 41.667 28.05 0.00 35.59 1.40
123 124 5.183713 CACACCAAGCTTGATCCTCAATAAA 59.816 40.000 28.05 0.00 35.59 1.40
124 125 5.183904 ACACCAAGCTTGATCCTCAATAAAC 59.816 40.000 28.05 0.00 35.59 2.01
125 126 4.396166 ACCAAGCTTGATCCTCAATAAACG 59.604 41.667 28.05 7.94 35.59 3.60
126 127 4.201950 CCAAGCTTGATCCTCAATAAACGG 60.202 45.833 28.05 0.72 35.59 4.44
127 128 4.487714 AGCTTGATCCTCAATAAACGGA 57.512 40.909 0.00 0.00 35.59 4.69
128 129 4.843728 AGCTTGATCCTCAATAAACGGAA 58.156 39.130 0.00 0.00 35.59 4.30
129 130 5.253330 AGCTTGATCCTCAATAAACGGAAA 58.747 37.500 0.00 0.00 35.59 3.13
130 131 5.710099 AGCTTGATCCTCAATAAACGGAAAA 59.290 36.000 0.00 0.00 35.59 2.29
131 132 6.208599 AGCTTGATCCTCAATAAACGGAAAAA 59.791 34.615 0.00 0.00 35.59 1.94
148 149 1.794512 AAAAACCATTGCGCATCACC 58.205 45.000 12.75 0.00 0.00 4.02
149 150 0.968405 AAAACCATTGCGCATCACCT 59.032 45.000 12.75 0.00 0.00 4.00
150 151 0.244450 AAACCATTGCGCATCACCTG 59.756 50.000 12.75 4.16 0.00 4.00
151 152 0.895100 AACCATTGCGCATCACCTGT 60.895 50.000 12.75 0.00 0.00 4.00
152 153 1.308069 ACCATTGCGCATCACCTGTC 61.308 55.000 12.75 0.00 0.00 3.51
153 154 1.307355 CCATTGCGCATCACCTGTCA 61.307 55.000 12.75 0.00 0.00 3.58
154 155 0.522626 CATTGCGCATCACCTGTCAA 59.477 50.000 12.75 0.00 0.00 3.18
155 156 1.133598 CATTGCGCATCACCTGTCAAT 59.866 47.619 12.75 0.00 33.47 2.57
156 157 1.246649 TTGCGCATCACCTGTCAATT 58.753 45.000 12.75 0.00 0.00 2.32
157 158 0.804364 TGCGCATCACCTGTCAATTC 59.196 50.000 5.66 0.00 0.00 2.17
158 159 1.089920 GCGCATCACCTGTCAATTCT 58.910 50.000 0.30 0.00 0.00 2.40
159 160 1.202110 GCGCATCACCTGTCAATTCTG 60.202 52.381 0.30 0.00 0.00 3.02
160 161 1.399440 CGCATCACCTGTCAATTCTGG 59.601 52.381 0.00 0.00 0.00 3.86
161 162 2.715046 GCATCACCTGTCAATTCTGGA 58.285 47.619 0.00 0.00 0.00 3.86
162 163 3.084039 GCATCACCTGTCAATTCTGGAA 58.916 45.455 0.00 0.00 0.00 3.53
163 164 3.698040 GCATCACCTGTCAATTCTGGAAT 59.302 43.478 0.00 0.00 0.00 3.01
164 165 4.159135 GCATCACCTGTCAATTCTGGAATT 59.841 41.667 3.06 3.06 41.33 2.17
165 166 5.337009 GCATCACCTGTCAATTCTGGAATTT 60.337 40.000 5.90 0.00 38.84 1.82
166 167 5.710513 TCACCTGTCAATTCTGGAATTTG 57.289 39.130 5.90 2.42 38.84 2.32
167 168 5.384336 TCACCTGTCAATTCTGGAATTTGA 58.616 37.500 5.90 4.42 38.84 2.69
168 169 5.832595 TCACCTGTCAATTCTGGAATTTGAA 59.167 36.000 5.90 0.00 38.84 2.69
169 170 6.494491 TCACCTGTCAATTCTGGAATTTGAAT 59.506 34.615 5.90 0.00 38.84 2.57
170 171 7.015487 TCACCTGTCAATTCTGGAATTTGAATT 59.985 33.333 5.90 8.32 41.75 2.17
171 172 7.330208 CACCTGTCAATTCTGGAATTTGAATTC 59.670 37.037 7.73 7.73 39.85 2.17
172 173 6.529125 CCTGTCAATTCTGGAATTTGAATTCG 59.471 38.462 5.90 0.00 44.43 3.34
173 174 6.389091 TGTCAATTCTGGAATTTGAATTCGG 58.611 36.000 5.90 6.20 44.43 4.30
174 175 5.807011 GTCAATTCTGGAATTTGAATTCGGG 59.193 40.000 5.90 5.93 44.43 5.14
175 176 5.480073 TCAATTCTGGAATTTGAATTCGGGT 59.520 36.000 5.90 0.00 44.43 5.28
176 177 6.014669 TCAATTCTGGAATTTGAATTCGGGTT 60.015 34.615 5.90 0.00 44.43 4.11
177 178 4.782019 TCTGGAATTTGAATTCGGGTTG 57.218 40.909 9.61 0.75 44.43 3.77
178 179 3.056891 TCTGGAATTTGAATTCGGGTTGC 60.057 43.478 9.61 1.56 44.43 4.17
179 180 2.896685 TGGAATTTGAATTCGGGTTGCT 59.103 40.909 9.61 0.00 44.43 3.91
180 181 4.082845 TGGAATTTGAATTCGGGTTGCTA 58.917 39.130 9.61 0.00 44.43 3.49
181 182 4.157656 TGGAATTTGAATTCGGGTTGCTAG 59.842 41.667 9.61 0.00 44.43 3.42
182 183 4.440112 GGAATTTGAATTCGGGTTGCTAGG 60.440 45.833 9.61 0.00 44.43 3.02
183 184 1.459450 TTGAATTCGGGTTGCTAGGC 58.541 50.000 0.04 0.00 0.00 3.93
184 185 0.618458 TGAATTCGGGTTGCTAGGCT 59.382 50.000 0.04 0.00 0.00 4.58
185 186 1.017387 GAATTCGGGTTGCTAGGCTG 58.983 55.000 0.00 0.00 0.00 4.85
186 187 1.032114 AATTCGGGTTGCTAGGCTGC 61.032 55.000 0.00 0.00 0.00 5.25
187 188 2.196997 ATTCGGGTTGCTAGGCTGCA 62.197 55.000 0.50 1.92 41.65 4.41
188 189 3.127533 CGGGTTGCTAGGCTGCAC 61.128 66.667 10.46 6.92 43.20 4.57
189 190 2.034066 GGGTTGCTAGGCTGCACA 59.966 61.111 10.46 0.00 43.20 4.57
190 191 1.603455 GGGTTGCTAGGCTGCACAA 60.603 57.895 10.46 3.30 43.20 3.33
191 192 1.581447 GGTTGCTAGGCTGCACAAC 59.419 57.895 16.24 16.24 43.20 3.32
192 193 1.581447 GTTGCTAGGCTGCACAACC 59.419 57.895 14.53 0.00 43.20 3.77
193 194 1.965930 TTGCTAGGCTGCACAACCG 60.966 57.895 10.46 0.00 43.20 4.44
194 195 3.804193 GCTAGGCTGCACAACCGC 61.804 66.667 0.50 0.00 0.00 5.68
195 196 2.358615 CTAGGCTGCACAACCGCA 60.359 61.111 0.50 0.00 40.32 5.69
196 197 1.746615 CTAGGCTGCACAACCGCAT 60.747 57.895 0.50 0.00 42.06 4.73
197 198 1.985447 CTAGGCTGCACAACCGCATG 61.985 60.000 0.50 0.00 42.06 4.06
200 201 4.424566 CTGCACAACCGCATGCCC 62.425 66.667 13.15 0.00 42.06 5.36
202 203 3.988525 GCACAACCGCATGCCCAA 61.989 61.111 13.15 0.00 35.73 4.12
203 204 2.733301 CACAACCGCATGCCCAAA 59.267 55.556 13.15 0.00 0.00 3.28
204 205 1.664333 CACAACCGCATGCCCAAAC 60.664 57.895 13.15 0.00 0.00 2.93
205 206 2.048316 CAACCGCATGCCCAAACC 60.048 61.111 13.15 0.00 0.00 3.27
206 207 2.522923 AACCGCATGCCCAAACCA 60.523 55.556 13.15 0.00 0.00 3.67
207 208 2.866726 AACCGCATGCCCAAACCAC 61.867 57.895 13.15 0.00 0.00 4.16
208 209 2.990967 CCGCATGCCCAAACCACT 60.991 61.111 13.15 0.00 0.00 4.00
209 210 2.259204 CGCATGCCCAAACCACTG 59.741 61.111 13.15 0.00 0.00 3.66
210 211 2.267351 CGCATGCCCAAACCACTGA 61.267 57.895 13.15 0.00 0.00 3.41
211 212 1.588082 GCATGCCCAAACCACTGAG 59.412 57.895 6.36 0.00 0.00 3.35
212 213 1.588082 CATGCCCAAACCACTGAGC 59.412 57.895 0.00 0.00 0.00 4.26
213 214 1.153524 ATGCCCAAACCACTGAGCA 59.846 52.632 0.00 0.00 34.28 4.26
214 215 0.469705 ATGCCCAAACCACTGAGCAA 60.470 50.000 0.00 0.00 33.35 3.91
246 559 6.651755 TCGGTTTAATCCAACGATTTCTAC 57.348 37.500 3.52 0.00 39.49 2.59
248 561 6.819649 TCGGTTTAATCCAACGATTTCTACAT 59.180 34.615 3.52 0.00 39.49 2.29
261 574 3.838244 TTCTACATGGTAGATGTGGGC 57.162 47.619 6.91 0.00 32.35 5.36
270 583 1.689273 GTAGATGTGGGCTACCCTCTG 59.311 57.143 11.72 0.00 45.70 3.35
272 585 0.466124 GATGTGGGCTACCCTCTGAC 59.534 60.000 3.93 0.00 45.70 3.51
283 596 1.564818 ACCCTCTGACTGTCGATCCTA 59.435 52.381 2.98 0.00 0.00 2.94
323 636 1.003580 GAAGACCATCTCCACTGCCAA 59.996 52.381 0.00 0.00 0.00 4.52
387 700 0.310543 ACGACGTAACGCAAGGTGTA 59.689 50.000 0.00 0.00 46.39 2.90
413 726 1.946768 TGAGCTACACAAAGGTTGCAC 59.053 47.619 0.00 0.00 41.09 4.57
421 750 0.384725 CAAAGGTTGCACTTCGCTCG 60.385 55.000 0.00 0.00 43.06 5.03
582 917 2.834113 AGGTGCACTAAGGTGGTAGAT 58.166 47.619 17.98 0.00 43.18 1.98
590 925 4.403432 CACTAAGGTGGTAGATAAACCGGA 59.597 45.833 9.46 0.00 42.91 5.14
646 988 2.559330 GGCAACGCAACCTAACCG 59.441 61.111 0.00 0.00 0.00 4.44
793 1141 2.474561 CATTGCATGCACTCGTCCT 58.525 52.632 22.58 0.00 0.00 3.85
798 1146 1.819229 CATGCACTCGTCCTAGGCT 59.181 57.895 2.96 0.00 0.00 4.58
1071 1434 2.591715 GCCACGCACAACAGGTCT 60.592 61.111 0.00 0.00 0.00 3.85
1092 1455 0.337773 ACCTGAGCATGGAGGAGAGA 59.662 55.000 0.00 0.00 33.16 3.10
1101 1464 4.200283 GAGGAGAGACTGCGGCGG 62.200 72.222 9.78 7.39 0.00 6.13
1117 1480 2.046604 GGTTCCAGGTGTACCGCC 60.047 66.667 0.00 0.00 42.08 6.13
1167 1530 2.758327 TGCGGCGACCTCACCTAT 60.758 61.111 12.98 0.00 0.00 2.57
1253 1619 0.966179 TACGATGGCGCCAGTGATAT 59.034 50.000 35.36 17.47 42.48 1.63
1298 1697 3.027170 GCAACGCCGATCTGTGGTG 62.027 63.158 11.01 11.01 42.74 4.17
1308 1707 3.941188 CTGTGGTGGTCTGGCGGT 61.941 66.667 0.00 0.00 0.00 5.68
1424 1826 5.047235 GCTGTACGTAAAGATAGATCCCCAT 60.047 44.000 17.22 0.00 0.00 4.00
1476 1878 3.181483 GGGATTTCCATGACATTCACTGC 60.181 47.826 0.00 0.00 37.91 4.40
1555 1957 7.118245 TCAGCAATTTCAGTAGTACACATGAAG 59.882 37.037 0.00 0.00 33.53 3.02
1692 2398 1.340114 CCTCCCAGTTCAACCTTAGCC 60.340 57.143 0.00 0.00 0.00 3.93
1782 2488 0.179032 TGGGCGTTCATGACAGTTGT 60.179 50.000 0.00 0.00 0.00 3.32
1822 2528 1.008327 TGGATCAGGACAGGGAAGCTA 59.992 52.381 0.00 0.00 0.00 3.32
1849 2555 0.395724 TCTCGGAGCAGCAGATGGTA 60.396 55.000 0.00 0.00 40.53 3.25
1853 2559 0.249238 GGAGCAGCAGATGGTAGACG 60.249 60.000 0.00 0.00 40.53 4.18
1909 2651 2.183555 CTTACCACGGAGGCGGAC 59.816 66.667 0.00 0.00 43.14 4.79
1912 2654 0.396139 TTACCACGGAGGCGGACTAT 60.396 55.000 0.00 0.00 43.14 2.12
2219 2971 2.590007 GGGCGGCTACATCTGCAG 60.590 66.667 7.63 7.63 40.04 4.41
2269 3118 0.031111 TACCTAGTGGGAGGCAGCAT 60.031 55.000 0.00 0.00 40.65 3.79
2285 3134 4.277672 GGCAGCATCATTGATGTACTTCAT 59.722 41.667 23.86 1.17 41.36 2.57
2343 3192 2.039085 CGTCGATTCCACCGTAATACG 58.961 52.381 5.74 5.74 42.11 3.06
2384 3244 6.539464 TCAATTCCACCGTAATACAACATACC 59.461 38.462 0.00 0.00 0.00 2.73
2539 3399 2.024655 ACCTTGAGGCAATGATGACCAT 60.025 45.455 0.00 0.00 39.32 3.55
2660 3520 1.028905 CAACCAAAGGACTTCGCCAA 58.971 50.000 0.00 0.00 0.00 4.52
2756 5081 0.806102 CGGCAGTCGATCGTGGAATT 60.806 55.000 15.94 0.00 42.43 2.17
2768 5093 1.864711 CGTGGAATTCGTGTGAGTGTT 59.135 47.619 0.00 0.00 0.00 3.32
2943 5268 3.394674 TCAGTCCGAATACAACTGCAA 57.605 42.857 0.00 0.00 40.15 4.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 6.663523 GGGAAGTGAAAATCTCTCCCATTTTA 59.336 38.462 0.00 0.00 34.30 1.52
2 3 5.481824 GGGAAGTGAAAATCTCTCCCATTTT 59.518 40.000 0.00 0.00 36.38 1.82
5 6 3.370953 CGGGAAGTGAAAATCTCTCCCAT 60.371 47.826 5.82 0.00 32.16 4.00
6 7 2.027192 CGGGAAGTGAAAATCTCTCCCA 60.027 50.000 5.82 0.00 32.16 4.37
7 8 2.633488 CGGGAAGTGAAAATCTCTCCC 58.367 52.381 0.00 0.00 30.74 4.30
8 9 2.633488 CCGGGAAGTGAAAATCTCTCC 58.367 52.381 0.00 0.00 0.00 3.71
9 10 2.010497 GCCGGGAAGTGAAAATCTCTC 58.990 52.381 2.18 0.00 0.00 3.20
10 11 1.340114 GGCCGGGAAGTGAAAATCTCT 60.340 52.381 2.18 0.00 0.00 3.10
11 12 1.095600 GGCCGGGAAGTGAAAATCTC 58.904 55.000 2.18 0.00 0.00 2.75
12 13 0.698818 AGGCCGGGAAGTGAAAATCT 59.301 50.000 2.18 0.00 0.00 2.40
13 14 1.095600 GAGGCCGGGAAGTGAAAATC 58.904 55.000 2.18 0.00 0.00 2.17
14 15 0.698818 AGAGGCCGGGAAGTGAAAAT 59.301 50.000 2.18 0.00 0.00 1.82
15 16 0.250727 CAGAGGCCGGGAAGTGAAAA 60.251 55.000 2.18 0.00 0.00 2.29
16 17 1.374947 CAGAGGCCGGGAAGTGAAA 59.625 57.895 2.18 0.00 0.00 2.69
17 18 3.068881 CAGAGGCCGGGAAGTGAA 58.931 61.111 2.18 0.00 0.00 3.18
18 19 3.706373 GCAGAGGCCGGGAAGTGA 61.706 66.667 2.18 0.00 0.00 3.41
19 20 3.551496 TTGCAGAGGCCGGGAAGTG 62.551 63.158 2.18 0.00 40.13 3.16
20 21 2.829384 TTTGCAGAGGCCGGGAAGT 61.829 57.895 2.18 0.00 40.13 3.01
21 22 2.034066 TTTGCAGAGGCCGGGAAG 59.966 61.111 2.18 0.00 40.13 3.46
22 23 2.282180 GTTTGCAGAGGCCGGGAA 60.282 61.111 2.18 0.00 40.13 3.97
23 24 2.905996 ATGTTTGCAGAGGCCGGGA 61.906 57.895 2.18 0.00 40.13 5.14
24 25 2.361610 ATGTTTGCAGAGGCCGGG 60.362 61.111 2.18 0.00 40.13 5.73
25 26 2.703798 CCATGTTTGCAGAGGCCGG 61.704 63.158 0.00 0.00 40.13 6.13
26 27 1.926511 GACCATGTTTGCAGAGGCCG 61.927 60.000 0.00 0.00 40.13 6.13
27 28 1.598701 GGACCATGTTTGCAGAGGCC 61.599 60.000 0.00 0.00 40.13 5.19
28 29 0.610232 AGGACCATGTTTGCAGAGGC 60.610 55.000 0.00 0.00 41.68 4.70
29 30 1.457346 GAGGACCATGTTTGCAGAGG 58.543 55.000 0.00 0.00 0.00 3.69
30 31 1.457346 GGAGGACCATGTTTGCAGAG 58.543 55.000 0.00 0.00 35.97 3.35
31 32 0.321564 CGGAGGACCATGTTTGCAGA 60.322 55.000 0.00 0.00 35.59 4.26
32 33 0.321564 TCGGAGGACCATGTTTGCAG 60.322 55.000 0.00 0.00 35.59 4.41
33 34 0.109532 TTCGGAGGACCATGTTTGCA 59.890 50.000 0.00 0.00 35.59 4.08
34 35 1.463674 ATTCGGAGGACCATGTTTGC 58.536 50.000 0.00 0.00 35.59 3.68
35 36 4.519540 AAAATTCGGAGGACCATGTTTG 57.480 40.909 0.00 0.00 35.59 2.93
70 71 9.606631 GTGTAACCTCTCATCAAGAAATATCTT 57.393 33.333 0.00 0.00 46.91 2.40
90 91 1.675552 AGCTTGGTGTGTGGTGTAAC 58.324 50.000 0.00 0.00 0.00 2.50
91 92 2.020720 CAAGCTTGGTGTGTGGTGTAA 58.979 47.619 19.14 0.00 0.00 2.41
92 93 1.210722 TCAAGCTTGGTGTGTGGTGTA 59.789 47.619 25.73 0.00 0.00 2.90
93 94 0.034574 TCAAGCTTGGTGTGTGGTGT 60.035 50.000 25.73 0.00 0.00 4.16
94 95 1.267806 GATCAAGCTTGGTGTGTGGTG 59.732 52.381 25.73 0.00 0.00 4.17
95 96 1.609208 GATCAAGCTTGGTGTGTGGT 58.391 50.000 25.73 0.00 0.00 4.16
96 97 0.883833 GGATCAAGCTTGGTGTGTGG 59.116 55.000 25.73 0.00 0.00 4.17
97 98 1.808945 GAGGATCAAGCTTGGTGTGTG 59.191 52.381 25.73 0.00 33.17 3.82
98 99 1.421268 TGAGGATCAAGCTTGGTGTGT 59.579 47.619 25.73 5.69 45.97 3.72
99 100 2.189594 TGAGGATCAAGCTTGGTGTG 57.810 50.000 25.73 0.66 45.97 3.82
129 130 1.344114 AGGTGATGCGCAATGGTTTTT 59.656 42.857 17.11 0.00 0.00 1.94
130 131 0.968405 AGGTGATGCGCAATGGTTTT 59.032 45.000 17.11 0.00 0.00 2.43
131 132 0.244450 CAGGTGATGCGCAATGGTTT 59.756 50.000 17.11 0.00 0.00 3.27
132 133 0.895100 ACAGGTGATGCGCAATGGTT 60.895 50.000 17.11 0.00 0.00 3.67
133 134 1.303561 ACAGGTGATGCGCAATGGT 60.304 52.632 17.11 0.00 0.00 3.55
134 135 1.307355 TGACAGGTGATGCGCAATGG 61.307 55.000 17.11 3.57 0.00 3.16
135 136 0.522626 TTGACAGGTGATGCGCAATG 59.477 50.000 17.11 11.18 0.00 2.82
136 137 1.466856 ATTGACAGGTGATGCGCAAT 58.533 45.000 17.11 2.42 34.29 3.56
137 138 1.199789 GAATTGACAGGTGATGCGCAA 59.800 47.619 17.11 0.00 32.92 4.85
138 139 0.804364 GAATTGACAGGTGATGCGCA 59.196 50.000 14.96 14.96 0.00 6.09
139 140 1.089920 AGAATTGACAGGTGATGCGC 58.910 50.000 0.00 0.00 0.00 6.09
140 141 1.399440 CCAGAATTGACAGGTGATGCG 59.601 52.381 0.00 0.00 0.00 4.73
141 142 2.715046 TCCAGAATTGACAGGTGATGC 58.285 47.619 0.00 0.00 0.00 3.91
142 143 5.909621 AATTCCAGAATTGACAGGTGATG 57.090 39.130 4.85 0.00 39.36 3.07
143 144 6.012113 TCAAATTCCAGAATTGACAGGTGAT 58.988 36.000 6.39 0.00 40.57 3.06
144 145 5.384336 TCAAATTCCAGAATTGACAGGTGA 58.616 37.500 6.39 3.26 40.57 4.02
145 146 5.710513 TCAAATTCCAGAATTGACAGGTG 57.289 39.130 6.39 1.09 40.57 4.00
146 147 6.923199 ATTCAAATTCCAGAATTGACAGGT 57.077 33.333 6.39 0.00 40.57 4.00
147 148 6.529125 CGAATTCAAATTCCAGAATTGACAGG 59.471 38.462 14.46 0.00 42.67 4.00
148 149 6.529125 CCGAATTCAAATTCCAGAATTGACAG 59.471 38.462 14.46 0.00 42.67 3.51
149 150 6.389091 CCGAATTCAAATTCCAGAATTGACA 58.611 36.000 14.46 0.00 42.67 3.58
150 151 5.807011 CCCGAATTCAAATTCCAGAATTGAC 59.193 40.000 14.46 4.86 42.67 3.18
151 152 5.480073 ACCCGAATTCAAATTCCAGAATTGA 59.520 36.000 14.46 4.35 42.67 2.57
152 153 5.723295 ACCCGAATTCAAATTCCAGAATTG 58.277 37.500 14.46 2.31 42.67 2.32
153 154 6.165577 CAACCCGAATTCAAATTCCAGAATT 58.834 36.000 6.22 11.15 44.61 2.17
154 155 5.723295 CAACCCGAATTCAAATTCCAGAAT 58.277 37.500 6.22 0.00 41.30 2.40
155 156 4.560513 GCAACCCGAATTCAAATTCCAGAA 60.561 41.667 6.22 0.00 41.30 3.02
156 157 3.056891 GCAACCCGAATTCAAATTCCAGA 60.057 43.478 6.22 0.00 41.30 3.86
157 158 3.056607 AGCAACCCGAATTCAAATTCCAG 60.057 43.478 6.22 4.50 41.30 3.86
158 159 2.896685 AGCAACCCGAATTCAAATTCCA 59.103 40.909 6.22 0.00 41.30 3.53
159 160 3.592898 AGCAACCCGAATTCAAATTCC 57.407 42.857 6.22 0.00 41.30 3.01
160 161 4.672409 CCTAGCAACCCGAATTCAAATTC 58.328 43.478 6.22 5.56 41.02 2.17
161 162 3.119137 GCCTAGCAACCCGAATTCAAATT 60.119 43.478 6.22 0.00 0.00 1.82
162 163 2.427095 GCCTAGCAACCCGAATTCAAAT 59.573 45.455 6.22 0.00 0.00 2.32
163 164 1.816224 GCCTAGCAACCCGAATTCAAA 59.184 47.619 6.22 0.00 0.00 2.69
164 165 1.004277 AGCCTAGCAACCCGAATTCAA 59.996 47.619 6.22 0.00 0.00 2.69
165 166 0.618458 AGCCTAGCAACCCGAATTCA 59.382 50.000 6.22 0.00 0.00 2.57
166 167 1.017387 CAGCCTAGCAACCCGAATTC 58.983 55.000 0.00 0.00 0.00 2.17
167 168 1.032114 GCAGCCTAGCAACCCGAATT 61.032 55.000 0.00 0.00 0.00 2.17
168 169 1.452108 GCAGCCTAGCAACCCGAAT 60.452 57.895 0.00 0.00 0.00 3.34
169 170 2.046314 GCAGCCTAGCAACCCGAA 60.046 61.111 0.00 0.00 0.00 4.30
170 171 3.318384 TGCAGCCTAGCAACCCGA 61.318 61.111 0.00 0.00 42.46 5.14
176 177 2.358615 CGGTTGTGCAGCCTAGCA 60.359 61.111 3.70 0.00 43.35 3.49
177 178 3.804193 GCGGTTGTGCAGCCTAGC 61.804 66.667 3.70 0.00 32.01 3.42
178 179 2.358615 TGCGGTTGTGCAGCCTAG 60.359 61.111 3.70 0.00 40.62 3.02
185 186 3.512223 TTTGGGCATGCGGTTGTGC 62.512 57.895 12.44 0.00 40.55 4.57
186 187 1.664333 GTTTGGGCATGCGGTTGTG 60.664 57.895 12.44 0.00 0.00 3.33
187 188 2.733945 GTTTGGGCATGCGGTTGT 59.266 55.556 12.44 0.00 0.00 3.32
188 189 2.048316 GGTTTGGGCATGCGGTTG 60.048 61.111 12.44 0.00 0.00 3.77
189 190 2.522923 TGGTTTGGGCATGCGGTT 60.523 55.556 12.44 0.00 0.00 4.44
190 191 3.302344 GTGGTTTGGGCATGCGGT 61.302 61.111 12.44 0.00 0.00 5.68
191 192 2.990967 AGTGGTTTGGGCATGCGG 60.991 61.111 12.44 0.00 0.00 5.69
192 193 2.203972 CTCAGTGGTTTGGGCATGCG 62.204 60.000 12.44 0.00 0.00 4.73
193 194 1.588082 CTCAGTGGTTTGGGCATGC 59.412 57.895 9.90 9.90 0.00 4.06
194 195 1.588082 GCTCAGTGGTTTGGGCATG 59.412 57.895 0.00 0.00 44.12 4.06
195 196 4.102113 GCTCAGTGGTTTGGGCAT 57.898 55.556 0.00 0.00 44.12 4.40
197 198 1.662044 CTTGCTCAGTGGTTTGGGC 59.338 57.895 0.00 0.00 44.95 5.36
198 199 0.178992 TCCTTGCTCAGTGGTTTGGG 60.179 55.000 0.00 0.00 0.00 4.12
199 200 0.954452 GTCCTTGCTCAGTGGTTTGG 59.046 55.000 0.00 0.00 0.00 3.28
200 201 0.954452 GGTCCTTGCTCAGTGGTTTG 59.046 55.000 0.00 0.00 0.00 2.93
201 202 0.178990 GGGTCCTTGCTCAGTGGTTT 60.179 55.000 0.00 0.00 0.00 3.27
202 203 1.456287 GGGTCCTTGCTCAGTGGTT 59.544 57.895 0.00 0.00 0.00 3.67
203 204 2.529744 GGGGTCCTTGCTCAGTGGT 61.530 63.158 0.00 0.00 0.00 4.16
204 205 1.856539 ATGGGGTCCTTGCTCAGTGG 61.857 60.000 0.00 0.00 0.00 4.00
205 206 0.393537 GATGGGGTCCTTGCTCAGTG 60.394 60.000 0.00 0.00 0.00 3.66
206 207 1.903877 CGATGGGGTCCTTGCTCAGT 61.904 60.000 0.00 0.00 0.00 3.41
207 208 1.153289 CGATGGGGTCCTTGCTCAG 60.153 63.158 0.00 0.00 0.00 3.35
208 209 2.669133 CCGATGGGGTCCTTGCTCA 61.669 63.158 0.00 0.00 0.00 4.26
209 210 2.190578 CCGATGGGGTCCTTGCTC 59.809 66.667 0.00 0.00 0.00 4.26
261 574 1.950909 GGATCGACAGTCAGAGGGTAG 59.049 57.143 0.41 0.00 0.00 3.18
270 583 3.448686 CACCACATTAGGATCGACAGTC 58.551 50.000 0.00 0.00 0.00 3.51
272 585 2.159043 AGCACCACATTAGGATCGACAG 60.159 50.000 0.00 0.00 0.00 3.51
283 596 0.035630 GCCTCTCTCAGCACCACATT 60.036 55.000 0.00 0.00 0.00 2.71
387 700 3.832527 ACCTTTGTGTAGCTCATGGTTT 58.167 40.909 0.00 0.00 0.00 3.27
413 726 1.600957 TCTTACGGGTATCGAGCGAAG 59.399 52.381 0.00 0.00 42.43 3.79
421 750 7.926555 TGAGATTTGAGATTTCTTACGGGTATC 59.073 37.037 0.00 0.00 0.00 2.24
582 917 1.801771 CGACTGCAATGTTCCGGTTTA 59.198 47.619 0.00 0.00 0.00 2.01
590 925 0.534877 TGAGTGGCGACTGCAATGTT 60.535 50.000 5.94 0.00 45.35 2.71
645 987 3.746108 CACGAAATGGTGTTGGTCG 57.254 52.632 0.00 0.00 37.71 4.79
1071 1434 2.023984 TCTCTCCTCCATGCTCAGGTAA 60.024 50.000 4.10 0.00 0.00 2.85
1101 1464 1.670083 GTGGCGGTACACCTGGAAC 60.670 63.158 0.00 0.00 35.34 3.62
1117 1480 1.983605 GTCGATGTACTCCACGTTGTG 59.016 52.381 0.00 0.00 0.00 3.33
1167 1530 1.237954 ACTCGTTCTCGCTGAGCTCA 61.238 55.000 17.19 17.19 36.96 4.26
1282 1681 2.047274 CCACCACAGATCGGCGTT 60.047 61.111 6.85 0.00 0.00 4.84
1298 1697 0.179081 GTTATCCTCACCGCCAGACC 60.179 60.000 0.00 0.00 0.00 3.85
1343 1745 2.095270 TTGGCCCTCCAATCCATGT 58.905 52.632 0.00 0.00 46.89 3.21
1388 1790 2.544685 ACGTACAGCATGATGAGCTTC 58.455 47.619 19.60 2.19 41.14 3.86
1424 1826 4.320421 CGTGAAAAACATGCTGGATCAAGA 60.320 41.667 0.00 0.00 0.00 3.02
1573 2278 9.838975 CCAAAAGGCCAAAATATTAATTTGAAC 57.161 29.630 5.01 0.00 39.56 3.18
1602 2307 3.061271 CAGTGAATTTCGGTTTGCGTTTG 60.061 43.478 0.00 0.00 0.00 2.93
1692 2398 2.984471 GTGCATGCTTCACAAATCACAG 59.016 45.455 20.33 0.00 34.73 3.66
1772 2478 3.990469 GTCTCAATCGTCACAACTGTCAT 59.010 43.478 0.00 0.00 0.00 3.06
1782 2488 2.029020 CAGTTCAGGGTCTCAATCGTCA 60.029 50.000 0.00 0.00 0.00 4.35
1849 2555 2.359107 TCGTACTGGTCGCCGTCT 60.359 61.111 0.00 0.00 0.00 4.18
1909 2651 0.671796 TCACCGCCGTGTATGGATAG 59.328 55.000 5.09 0.00 41.09 2.08
1912 2654 2.717044 CCTCACCGCCGTGTATGGA 61.717 63.158 5.09 0.00 41.09 3.41
2097 2849 2.482374 GCGAATGCTGTCCTGCAC 59.518 61.111 0.72 0.00 46.33 4.57
2146 2898 0.670546 CAGTACTTGACCCCTGCGTG 60.671 60.000 0.00 0.00 0.00 5.34
2219 2971 1.947456 GCCATTTTCGGGTAGGTGATC 59.053 52.381 0.00 0.00 0.00 2.92
2285 3134 8.081025 TGTACGTTACAATACACTTACACATGA 58.919 33.333 0.00 0.00 35.38 3.07
2287 3136 8.084073 ACTGTACGTTACAATACACTTACACAT 58.916 33.333 0.00 0.00 38.38 3.21
2539 3399 0.742990 CGAATCGCCAAAGCCCAGTA 60.743 55.000 0.00 0.00 34.57 2.74
2843 5168 4.595116 GAAGAATGTCATTCAATCTGCGG 58.405 43.478 24.13 0.00 41.71 5.69
2943 5268 2.030562 CAAAGCCTCACGGACCGT 59.969 61.111 15.37 15.37 42.36 4.83
2979 5304 2.814336 GTTCCGTGAAGGCTTCAAGATT 59.186 45.455 34.65 0.00 42.15 2.40


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

AutoCloner maintained by Alex Coulton.