Multiple sequence alignment - TraesCS3B01G504900

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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 TraesCS3B01G504900 chr3B 100.000 3965 0 0 1 3965 749149800 749145836 0.000000e+00 7323
1 TraesCS3B01G504900 chr3B 93.459 902 38 2 1272 2173 749313698 749312818 0.000000e+00 1319
2 TraesCS3B01G504900 chr3B 89.588 970 74 12 1393 2342 749092451 749091489 0.000000e+00 1206
3 TraesCS3B01G504900 chr3B 89.218 946 87 6 2350 3284 749312089 749311148 0.000000e+00 1168
4 TraesCS3B01G504900 chr3B 87.372 586 44 21 3394 3965 749078556 749077987 0.000000e+00 645
5 TraesCS3B01G504900 chr3B 88.246 570 28 11 631 1187 749314243 749313700 0.000000e+00 645
6 TraesCS3B01G504900 chr3B 83.792 691 64 16 3290 3965 749309962 749309305 2.620000e-171 612
7 TraesCS3B01G504900 chr3B 88.009 467 47 3 2385 2845 749091481 749091018 9.690000e-151 544
8 TraesCS3B01G504900 chr3B 84.283 579 38 19 2843 3404 749090893 749090351 2.110000e-142 516
9 TraesCS3B01G504900 chr3B 93.333 330 20 2 858 1186 749092922 749092594 1.660000e-133 486
10 TraesCS3B01G504900 chr3B 88.000 400 27 5 2505 2904 749098710 749098332 1.680000e-123 453
11 TraesCS3B01G504900 chr3B 85.504 407 36 8 630 1031 749099092 749098704 1.720000e-108 403
12 TraesCS3B01G504900 chr3B 93.000 200 10 1 420 615 749314428 749314229 5.010000e-74 289
13 TraesCS3B01G504900 chr3B 95.152 165 6 2 1 165 749314594 749314432 3.930000e-65 259
14 TraesCS3B01G504900 chr3B 85.000 260 29 4 172 422 160272294 160272552 5.080000e-64 255
15 TraesCS3B01G504900 chr3B 88.095 168 11 8 457 615 749099244 749099077 1.450000e-44 191
16 TraesCS3B01G504900 chr3B 81.657 169 15 3 2940 3092 749098061 749097893 4.160000e-25 126
17 TraesCS3B01G504900 chr3A 92.084 2097 137 14 1393 3471 697492873 697490788 0.000000e+00 2926
18 TraesCS3B01G504900 chr3A 89.691 970 82 13 1390 2342 697473868 697472900 0.000000e+00 1221
19 TraesCS3B01G504900 chr3A 87.405 659 41 16 2884 3512 697471775 697471129 0.000000e+00 719
20 TraesCS3B01G504900 chr3A 90.403 521 25 11 3464 3965 697480928 697480414 0.000000e+00 662
21 TraesCS3B01G504900 chr3A 85.487 565 53 19 630 1188 697474557 697474016 2.680000e-156 562
22 TraesCS3B01G504900 chr3A 89.556 450 36 6 2377 2819 697472219 697471774 9.620000e-156 560
23 TraesCS3B01G504900 chr3A 87.419 310 22 7 3673 3965 697471097 697470788 1.360000e-89 340
24 TraesCS3B01G504900 chr3A 90.204 245 18 4 895 1134 697493276 697493033 8.270000e-82 315
25 TraesCS3B01G504900 chr3A 93.401 197 12 1 420 615 697493661 697493465 1.390000e-74 291
26 TraesCS3B01G504900 chr3A 87.783 221 15 5 630 847 697493480 697493269 8.510000e-62 248
27 TraesCS3B01G504900 chr3A 82.143 140 12 3 2 140 697494498 697494371 1.510000e-19 108
28 TraesCS3B01G504900 chr3D 93.546 1441 81 6 1390 2819 561749614 561748175 0.000000e+00 2135
29 TraesCS3B01G504900 chr3D 89.617 1618 120 16 2385 3965 561762423 561760817 0.000000e+00 2013
30 TraesCS3B01G504900 chr3D 91.286 964 58 14 1393 2342 561763382 561762431 0.000000e+00 1291
31 TraesCS3B01G504900 chr3D 90.103 970 75 7 1393 2342 561892341 561891373 0.000000e+00 1240
32 TraesCS3B01G504900 chr3D 85.856 1110 71 34 2884 3965 561890311 561889260 0.000000e+00 1101
33 TraesCS3B01G504900 chr3D 85.659 1032 92 17 2884 3901 561748176 561747187 0.000000e+00 1035
34 TraesCS3B01G504900 chr3D 90.464 776 39 14 420 1193 561764263 561763521 0.000000e+00 990
35 TraesCS3B01G504900 chr3D 91.898 432 28 5 761 1186 561892913 561892483 7.330000e-167 597
36 TraesCS3B01G504900 chr3D 89.451 455 43 3 2365 2819 561890759 561890310 1.600000e-158 569
37 TraesCS3B01G504900 chr3D 94.880 332 15 2 858 1188 561750134 561749804 5.870000e-143 518
38 TraesCS3B01G504900 chr3D 87.795 254 29 2 173 425 609606837 609606585 3.000000e-76 296
39 TraesCS3B01G504900 chr3D 92.893 197 13 1 420 615 561898708 561898512 6.490000e-73 285
40 TraesCS3B01G504900 chr3D 85.115 262 29 6 170 422 17523005 17523265 3.930000e-65 259
41 TraesCS3B01G504900 chr3D 93.220 177 10 2 1 177 561898878 561898704 3.930000e-65 259
42 TraesCS3B01G504900 chr3D 89.091 165 16 2 1 165 561751964 561751802 1.870000e-48 204
43 TraesCS3B01G504900 chr3D 90.083 121 11 1 45 165 561764386 561764267 5.310000e-34 156
44 TraesCS3B01G504900 chr3D 95.652 69 3 0 1322 1390 561763485 561763417 1.160000e-20 111
45 TraesCS3B01G504900 chr3D 93.151 73 4 1 1318 1390 561749718 561749647 5.420000e-19 106
46 TraesCS3B01G504900 chr5B 86.381 257 31 4 174 426 87947527 87947271 1.090000e-70 278
47 TraesCS3B01G504900 chr6B 86.328 256 29 4 174 424 647172113 647171859 1.400000e-69 274
48 TraesCS3B01G504900 chr4A 86.381 257 27 6 173 423 552815741 552815995 1.400000e-69 274
49 TraesCS3B01G504900 chr7A 85.214 257 29 6 173 422 289157317 289157571 5.080000e-64 255
50 TraesCS3B01G504900 chr1B 83.333 258 36 4 173 424 683092795 683092539 8.570000e-57 231
51 TraesCS3B01G504900 chr5A 82.692 260 39 6 172 430 447641924 447642178 3.990000e-55 226
52 TraesCS3B01G504900 chr2D 94.898 98 3 2 1185 1282 50669479 50669574 6.860000e-33 152
53 TraesCS3B01G504900 chr2A 94.792 96 5 0 1184 1279 30217793 30217698 2.470000e-32 150
54 TraesCS3B01G504900 chr2A 93.000 100 7 0 1185 1284 337716792 337716693 3.190000e-31 147
55 TraesCS3B01G504900 chr2A 93.000 100 7 0 1185 1284 337719100 337719199 3.190000e-31 147
56 TraesCS3B01G504900 chr2A 93.000 100 7 0 1185 1284 337856571 337856472 3.190000e-31 147
57 TraesCS3B01G504900 chr2A 93.000 100 7 0 1185 1284 337858893 337858992 3.190000e-31 147
58 TraesCS3B01G504900 chr5D 93.069 101 6 1 1178 1278 540065156 540065057 3.190000e-31 147
59 TraesCS3B01G504900 chr5D 93.069 101 6 1 1178 1278 540072586 540072487 3.190000e-31 147
60 TraesCS3B01G504900 chr4B 93.069 101 6 1 1170 1270 342857174 342857075 3.190000e-31 147


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 TraesCS3B01G504900 chr3B 749145836 749149800 3964 True 7323.000000 7323 100.000000 1 3965 1 chr3B.!!$R2 3964
1 TraesCS3B01G504900 chr3B 749309305 749314594 5289 True 715.333333 1319 90.477833 1 3965 6 chr3B.!!$R5 3964
2 TraesCS3B01G504900 chr3B 749090351 749092922 2571 True 688.000000 1206 88.803250 858 3404 4 chr3B.!!$R3 2546
3 TraesCS3B01G504900 chr3B 749077987 749078556 569 True 645.000000 645 87.372000 3394 3965 1 chr3B.!!$R1 571
4 TraesCS3B01G504900 chr3B 749097893 749099244 1351 True 293.250000 453 85.814000 457 3092 4 chr3B.!!$R4 2635
5 TraesCS3B01G504900 chr3A 697490788 697494498 3710 True 777.600000 2926 89.123000 2 3471 5 chr3A.!!$R3 3469
6 TraesCS3B01G504900 chr3A 697470788 697474557 3769 True 680.400000 1221 87.911600 630 3965 5 chr3A.!!$R2 3335
7 TraesCS3B01G504900 chr3A 697480414 697480928 514 True 662.000000 662 90.403000 3464 3965 1 chr3A.!!$R1 501
8 TraesCS3B01G504900 chr3D 561760817 561764386 3569 True 912.200000 2013 91.420400 45 3965 5 chr3D.!!$R3 3920
9 TraesCS3B01G504900 chr3D 561889260 561892913 3653 True 876.750000 1240 89.327000 761 3965 4 chr3D.!!$R4 3204
10 TraesCS3B01G504900 chr3D 561747187 561751964 4777 True 799.600000 2135 91.265400 1 3901 5 chr3D.!!$R2 3900

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
746 2579 0.041982 GTTCTCCAGTCTCCCTCCCT 59.958 60.000 0.0 0.0 0.00 4.20 F
1057 3000 0.249398 ACATCGCTACTGGAACCACC 59.751 55.000 0.0 0.0 39.54 4.61 F
1200 3153 1.431633 TGTTCTACTCCCTCTGTCCCA 59.568 52.381 0.0 0.0 0.00 4.37 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2199 4318 0.605319 TAAACAGCCAGCTTGACCGG 60.605 55.000 0.00 0.00 0.00 5.28 R
2948 6275 1.820519 TGAATCATGTGGCCAGCTTTC 59.179 47.619 5.11 6.28 0.00 2.62 R
3194 6562 2.301870 TCTGTCCTGACATAACCCACAC 59.698 50.000 0.00 0.00 41.01 3.82 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
37 38 6.467723 AATATATTAGAACAAAGGCGCGAG 57.532 37.500 12.10 0.00 0.00 5.03
176 854 9.681692 TCGCGTGTTATAAATGTATATTGTACT 57.318 29.630 5.77 0.00 0.00 2.73
177 855 9.933175 CGCGTGTTATAAATGTATATTGTACTC 57.067 33.333 0.00 0.00 0.00 2.59
187 865 9.975218 AAATGTATATTGTACTCCCTCAGTTTT 57.025 29.630 0.00 0.00 36.43 2.43
188 866 9.975218 AATGTATATTGTACTCCCTCAGTTTTT 57.025 29.630 0.00 0.00 36.43 1.94
196 874 9.498176 TTGTACTCCCTCAGTTTTTATTTACTC 57.502 33.333 0.00 0.00 36.43 2.59
197 875 8.098912 TGTACTCCCTCAGTTTTTATTTACTCC 58.901 37.037 0.00 0.00 36.43 3.85
198 876 6.171213 ACTCCCTCAGTTTTTATTTACTCCG 58.829 40.000 0.00 0.00 26.56 4.63
199 877 4.939439 TCCCTCAGTTTTTATTTACTCCGC 59.061 41.667 0.00 0.00 0.00 5.54
200 878 4.698304 CCCTCAGTTTTTATTTACTCCGCA 59.302 41.667 0.00 0.00 0.00 5.69
201 879 5.357032 CCCTCAGTTTTTATTTACTCCGCAT 59.643 40.000 0.00 0.00 0.00 4.73
202 880 6.540914 CCCTCAGTTTTTATTTACTCCGCATA 59.459 38.462 0.00 0.00 0.00 3.14
203 881 7.228706 CCCTCAGTTTTTATTTACTCCGCATAT 59.771 37.037 0.00 0.00 0.00 1.78
204 882 8.621286 CCTCAGTTTTTATTTACTCCGCATATT 58.379 33.333 0.00 0.00 0.00 1.28
213 891 7.875327 ATTTACTCCGCATATTAACTTTGGT 57.125 32.000 0.00 0.00 0.00 3.67
214 892 6.913873 TTACTCCGCATATTAACTTTGGTC 57.086 37.500 0.00 0.00 0.00 4.02
215 893 4.839121 ACTCCGCATATTAACTTTGGTCA 58.161 39.130 0.00 0.00 0.00 4.02
216 894 5.250200 ACTCCGCATATTAACTTTGGTCAA 58.750 37.500 0.00 0.00 0.00 3.18
217 895 5.708230 ACTCCGCATATTAACTTTGGTCAAA 59.292 36.000 0.00 0.00 0.00 2.69
228 906 4.907879 CTTTGGTCAAAGTCAAGCTCTT 57.092 40.909 13.58 0.00 42.02 2.85
229 907 4.853268 CTTTGGTCAAAGTCAAGCTCTTC 58.147 43.478 13.58 0.00 42.02 2.87
230 908 3.558931 TGGTCAAAGTCAAGCTCTTCA 57.441 42.857 0.00 0.00 0.00 3.02
231 909 3.884895 TGGTCAAAGTCAAGCTCTTCAA 58.115 40.909 0.00 0.00 0.00 2.69
232 910 4.269183 TGGTCAAAGTCAAGCTCTTCAAA 58.731 39.130 0.00 0.00 0.00 2.69
233 911 4.096382 TGGTCAAAGTCAAGCTCTTCAAAC 59.904 41.667 0.00 0.00 0.00 2.93
234 912 4.336713 GGTCAAAGTCAAGCTCTTCAAACT 59.663 41.667 0.00 0.00 0.00 2.66
235 913 5.163612 GGTCAAAGTCAAGCTCTTCAAACTT 60.164 40.000 0.00 0.00 0.00 2.66
236 914 6.325596 GTCAAAGTCAAGCTCTTCAAACTTT 58.674 36.000 0.00 0.00 0.00 2.66
237 915 6.252228 GTCAAAGTCAAGCTCTTCAAACTTTG 59.748 38.462 21.27 21.27 42.12 2.77
238 916 6.150976 TCAAAGTCAAGCTCTTCAAACTTTGA 59.849 34.615 23.41 23.41 45.03 2.69
239 917 5.491635 AGTCAAGCTCTTCAAACTTTGAC 57.508 39.130 3.56 6.98 39.87 3.18
240 918 4.943705 AGTCAAGCTCTTCAAACTTTGACA 59.056 37.500 15.04 0.00 39.87 3.58
241 919 5.415701 AGTCAAGCTCTTCAAACTTTGACAA 59.584 36.000 15.04 0.00 39.87 3.18
242 920 6.071952 AGTCAAGCTCTTCAAACTTTGACAAA 60.072 34.615 15.04 0.00 39.87 2.83
243 921 6.586082 GTCAAGCTCTTCAAACTTTGACAAAA 59.414 34.615 3.56 0.00 39.87 2.44
244 922 7.276438 GTCAAGCTCTTCAAACTTTGACAAAAT 59.724 33.333 3.56 0.00 39.87 1.82
245 923 7.818930 TCAAGCTCTTCAAACTTTGACAAAATT 59.181 29.630 3.56 0.00 39.87 1.82
246 924 8.445493 CAAGCTCTTCAAACTTTGACAAAATTT 58.555 29.630 3.56 1.63 39.87 1.82
247 925 9.651913 AAGCTCTTCAAACTTTGACAAAATTTA 57.348 25.926 7.01 0.00 39.87 1.40
248 926 9.822185 AGCTCTTCAAACTTTGACAAAATTTAT 57.178 25.926 7.01 0.00 39.87 1.40
309 987 8.164058 TCATTGTTGAATGTACTTTCACATCA 57.836 30.769 20.40 16.55 38.19 3.07
310 988 8.795513 TCATTGTTGAATGTACTTTCACATCAT 58.204 29.630 20.40 11.72 38.19 2.45
387 1065 9.227777 ACTTTACAAAGTTTGACTTCAGTAACT 57.772 29.630 22.23 0.00 46.52 2.24
388 1066 9.704098 CTTTACAAAGTTTGACTTCAGTAACTC 57.296 33.333 22.23 0.00 37.47 3.01
389 1067 9.444600 TTTACAAAGTTTGACTTCAGTAACTCT 57.555 29.630 22.23 0.00 37.47 3.24
392 1070 9.614792 ACAAAGTTTGACTTCAGTAACTCTAAT 57.385 29.630 22.23 0.00 37.47 1.73
396 1074 9.372369 AGTTTGACTTCAGTAACTCTAATATGC 57.628 33.333 0.00 0.00 0.00 3.14
397 1075 9.151471 GTTTGACTTCAGTAACTCTAATATGCA 57.849 33.333 0.00 0.00 0.00 3.96
398 1076 8.932945 TTGACTTCAGTAACTCTAATATGCAG 57.067 34.615 0.00 0.00 0.00 4.41
399 1077 8.293699 TGACTTCAGTAACTCTAATATGCAGA 57.706 34.615 0.00 0.00 0.00 4.26
400 1078 8.409371 TGACTTCAGTAACTCTAATATGCAGAG 58.591 37.037 11.37 11.37 44.28 3.35
417 1095 6.817765 TGCAGAGTAAATAAAAACAGAGGG 57.182 37.500 0.00 0.00 0.00 4.30
418 1096 6.539173 TGCAGAGTAAATAAAAACAGAGGGA 58.461 36.000 0.00 0.00 0.00 4.20
453 2266 5.239351 TGAAATAACTTGCTACGCAACCTA 58.761 37.500 0.00 0.00 43.99 3.08
459 2272 3.628487 ACTTGCTACGCAACCTAAAAACA 59.372 39.130 0.00 0.00 43.99 2.83
663 2491 6.069556 ACCTACTAGTGGACATCTAGAAGTCA 60.070 42.308 25.00 11.74 38.45 3.41
679 2507 2.027314 CAGAGAGGCGCTGGATCG 59.973 66.667 7.64 0.00 0.00 3.69
741 2574 1.513622 GAGCGTTCTCCAGTCTCCC 59.486 63.158 0.00 0.00 33.19 4.30
742 2575 0.968393 GAGCGTTCTCCAGTCTCCCT 60.968 60.000 0.00 0.00 33.19 4.20
743 2576 0.968393 AGCGTTCTCCAGTCTCCCTC 60.968 60.000 0.00 0.00 0.00 4.30
744 2577 1.950973 GCGTTCTCCAGTCTCCCTCC 61.951 65.000 0.00 0.00 0.00 4.30
745 2578 1.324005 CGTTCTCCAGTCTCCCTCCC 61.324 65.000 0.00 0.00 0.00 4.30
746 2579 0.041982 GTTCTCCAGTCTCCCTCCCT 59.958 60.000 0.00 0.00 0.00 4.20
747 2580 0.336737 TTCTCCAGTCTCCCTCCCTC 59.663 60.000 0.00 0.00 0.00 4.30
900 2838 4.568592 CCCTGTTAGCTCCAATTTCCTCTT 60.569 45.833 0.00 0.00 0.00 2.85
1057 3000 0.249398 ACATCGCTACTGGAACCACC 59.751 55.000 0.00 0.00 39.54 4.61
1112 3055 2.027285 TGATTGGCGACTTCCATGAGAA 60.027 45.455 0.00 0.00 35.77 2.87
1188 3141 9.905713 TTATTTTCAGCTGGATTATGTTCTACT 57.094 29.630 15.13 0.00 0.00 2.57
1189 3142 7.849804 TTTTCAGCTGGATTATGTTCTACTC 57.150 36.000 15.13 0.00 0.00 2.59
1190 3143 5.537300 TCAGCTGGATTATGTTCTACTCC 57.463 43.478 15.13 0.00 0.00 3.85
1191 3144 4.345257 TCAGCTGGATTATGTTCTACTCCC 59.655 45.833 15.13 0.00 0.00 4.30
1192 3145 4.346418 CAGCTGGATTATGTTCTACTCCCT 59.654 45.833 5.57 0.00 0.00 4.20
1193 3146 4.591072 AGCTGGATTATGTTCTACTCCCTC 59.409 45.833 0.00 0.00 0.00 4.30
1194 3147 4.591072 GCTGGATTATGTTCTACTCCCTCT 59.409 45.833 0.00 0.00 0.00 3.69
1195 3148 5.510520 GCTGGATTATGTTCTACTCCCTCTG 60.511 48.000 0.00 0.00 0.00 3.35
1196 3149 5.529289 TGGATTATGTTCTACTCCCTCTGT 58.471 41.667 0.00 0.00 0.00 3.41
1197 3150 5.598830 TGGATTATGTTCTACTCCCTCTGTC 59.401 44.000 0.00 0.00 0.00 3.51
1198 3151 5.011227 GGATTATGTTCTACTCCCTCTGTCC 59.989 48.000 0.00 0.00 0.00 4.02
1199 3152 2.233305 TGTTCTACTCCCTCTGTCCC 57.767 55.000 0.00 0.00 0.00 4.46
1200 3153 1.431633 TGTTCTACTCCCTCTGTCCCA 59.568 52.381 0.00 0.00 0.00 4.37
1201 3154 2.044492 TGTTCTACTCCCTCTGTCCCAT 59.956 50.000 0.00 0.00 0.00 4.00
1202 3155 3.271225 TGTTCTACTCCCTCTGTCCCATA 59.729 47.826 0.00 0.00 0.00 2.74
1203 3156 4.264668 TGTTCTACTCCCTCTGTCCCATAA 60.265 45.833 0.00 0.00 0.00 1.90
1204 3157 4.834406 TCTACTCCCTCTGTCCCATAAT 57.166 45.455 0.00 0.00 0.00 1.28
1205 3158 5.942977 TCTACTCCCTCTGTCCCATAATA 57.057 43.478 0.00 0.00 0.00 0.98
1206 3159 6.485388 TCTACTCCCTCTGTCCCATAATAT 57.515 41.667 0.00 0.00 0.00 1.28
1207 3160 7.599353 TCTACTCCCTCTGTCCCATAATATA 57.401 40.000 0.00 0.00 0.00 0.86
1208 3161 8.008104 TCTACTCCCTCTGTCCCATAATATAA 57.992 38.462 0.00 0.00 0.00 0.98
1209 3162 8.116669 TCTACTCCCTCTGTCCCATAATATAAG 58.883 40.741 0.00 0.00 0.00 1.73
1210 3163 6.875469 ACTCCCTCTGTCCCATAATATAAGA 58.125 40.000 0.00 0.00 0.00 2.10
1211 3164 7.313731 ACTCCCTCTGTCCCATAATATAAGAA 58.686 38.462 0.00 0.00 0.00 2.52
1212 3165 7.235812 ACTCCCTCTGTCCCATAATATAAGAAC 59.764 40.741 0.00 0.00 0.00 3.01
1213 3166 6.210784 TCCCTCTGTCCCATAATATAAGAACG 59.789 42.308 0.00 0.00 0.00 3.95
1214 3167 6.014499 CCCTCTGTCCCATAATATAAGAACGT 60.014 42.308 0.00 0.00 0.00 3.99
1215 3168 7.442656 CCTCTGTCCCATAATATAAGAACGTT 58.557 38.462 0.00 0.00 0.00 3.99
1216 3169 7.931948 CCTCTGTCCCATAATATAAGAACGTTT 59.068 37.037 0.46 0.00 0.00 3.60
1217 3170 9.326413 CTCTGTCCCATAATATAAGAACGTTTT 57.674 33.333 0.46 0.00 0.00 2.43
1218 3171 9.675464 TCTGTCCCATAATATAAGAACGTTTTT 57.325 29.630 9.22 9.22 0.00 1.94
1219 3172 9.716507 CTGTCCCATAATATAAGAACGTTTTTG 57.283 33.333 13.87 0.00 0.00 2.44
1220 3173 9.451002 TGTCCCATAATATAAGAACGTTTTTGA 57.549 29.630 13.87 2.81 0.00 2.69
1221 3174 9.712359 GTCCCATAATATAAGAACGTTTTTGAC 57.288 33.333 13.87 5.89 0.00 3.18
1222 3175 9.451002 TCCCATAATATAAGAACGTTTTTGACA 57.549 29.630 13.87 0.01 0.00 3.58
1223 3176 9.498307 CCCATAATATAAGAACGTTTTTGACAC 57.502 33.333 13.87 0.00 0.00 3.67
1229 3182 7.781548 ATAAGAACGTTTTTGACACTACACT 57.218 32.000 13.87 0.00 0.00 3.55
1230 3183 8.876275 ATAAGAACGTTTTTGACACTACACTA 57.124 30.769 13.87 0.00 0.00 2.74
1231 3184 6.823678 AGAACGTTTTTGACACTACACTAG 57.176 37.500 0.46 0.00 0.00 2.57
1232 3185 6.335777 AGAACGTTTTTGACACTACACTAGT 58.664 36.000 0.46 0.00 40.28 2.57
1247 3200 8.732746 ACTACACTAGTGTCAAAAATGTTCTT 57.267 30.769 31.11 4.99 43.74 2.52
1248 3201 9.826574 ACTACACTAGTGTCAAAAATGTTCTTA 57.173 29.630 31.11 8.36 43.74 2.10
1261 3214 9.677567 CAAAAATGTTCTTATATTATGGGACCG 57.322 33.333 0.00 0.00 0.00 4.79
1262 3215 9.635404 AAAAATGTTCTTATATTATGGGACCGA 57.365 29.630 0.00 0.00 0.00 4.69
1263 3216 8.848474 AAATGTTCTTATATTATGGGACCGAG 57.152 34.615 0.00 0.00 0.00 4.63
1264 3217 6.354794 TGTTCTTATATTATGGGACCGAGG 57.645 41.667 0.00 0.00 0.00 4.63
1265 3218 5.247564 TGTTCTTATATTATGGGACCGAGGG 59.752 44.000 0.00 0.00 0.00 4.30
1266 3219 5.279562 TCTTATATTATGGGACCGAGGGA 57.720 43.478 0.00 0.00 0.00 4.20
1296 3249 5.653330 TTTCTACGGAAACAAAAAGGGAACT 59.347 36.000 0.00 0.00 38.31 3.01
1471 3499 3.642141 AGGTTTGTCCAACATTTCAGGT 58.358 40.909 0.00 0.00 37.07 4.00
1594 3622 2.176546 CGTTTGCTCGTGCCCATG 59.823 61.111 7.05 0.00 38.71 3.66
1750 3778 2.116125 GGGGAAACACTGCTGGCT 59.884 61.111 0.00 0.00 0.00 4.75
2042 4077 4.272489 TGGCACCCTCTTGAATCTAAATG 58.728 43.478 0.00 0.00 0.00 2.32
2072 4107 7.275560 TGCAGAAGAAGCAACTTAAAGAAAAAC 59.724 33.333 0.00 0.00 39.39 2.43
2327 4464 8.213679 TGAGTCATTGGGATAGAAAATTCTAGG 58.786 37.037 8.68 0.00 42.55 3.02
2345 4947 2.787994 AGGTGGAGCAGATTGAAACTG 58.212 47.619 0.00 0.00 38.27 3.16
2370 5079 8.585881 TGAAAGAACTTTGCTACTAGACTACAT 58.414 33.333 4.48 0.00 32.11 2.29
2420 5288 2.158682 TCCACTACACCATGCTGTTTGT 60.159 45.455 0.00 0.00 0.00 2.83
2659 5534 1.482593 GCCTGCCTCTTTGAGCTACTA 59.517 52.381 0.00 0.00 0.00 1.82
2819 5893 6.293571 CCCAAGAATTGTTTGCCAAAAGATTC 60.294 38.462 14.31 14.31 46.99 2.52
2840 5914 4.162040 CTGGCTATCAGAAATTCCCTGT 57.838 45.455 7.43 0.52 46.18 4.00
2882 5956 7.999679 TGAGCTCAAATCTAATTATGTTTGGG 58.000 34.615 15.67 15.24 35.64 4.12
2883 5957 7.615365 TGAGCTCAAATCTAATTATGTTTGGGT 59.385 33.333 15.67 14.04 35.13 4.51
2948 6275 1.065102 CAGGAAATGCGCATCTGAAGG 59.935 52.381 25.49 11.40 0.00 3.46
2969 6296 1.471119 AAGCTGGCCACATGATTCAG 58.529 50.000 0.00 2.86 0.00 3.02
2970 6297 0.330604 AGCTGGCCACATGATTCAGT 59.669 50.000 0.00 0.00 0.00 3.41
2983 6310 7.604164 CCACATGATTCAGTAAACAGAAGTAGT 59.396 37.037 0.00 0.00 0.00 2.73
3049 6402 7.176285 GCAAAGAGCTCAGAGTTCATAATAG 57.824 40.000 17.77 2.00 41.15 1.73
3063 6416 7.213678 AGTTCATAATAGAGCTTAAGTCCAGC 58.786 38.462 4.02 0.00 37.56 4.85
3098 6451 5.104374 GCCTTTTGTGTTATCATGGATGTG 58.896 41.667 0.00 0.00 0.00 3.21
3113 6468 6.611236 TCATGGATGTGATACTCTTAAGACCA 59.389 38.462 0.00 4.66 0.00 4.02
3186 6554 8.504005 ACAATATTATGTTAGAGGTTATTGCGC 58.496 33.333 0.00 0.00 31.80 6.09
3194 6562 1.792949 GAGGTTATTGCGCGGATGTAG 59.207 52.381 8.83 0.00 0.00 2.74
3282 7842 4.635473 CCTGGGATATACCTGGGTATCAT 58.365 47.826 20.13 8.03 43.69 2.45
3408 7972 6.705863 AACAAGATTGAGGAAATAGGATGC 57.294 37.500 0.00 0.00 0.00 3.91
3409 7973 5.759059 ACAAGATTGAGGAAATAGGATGCA 58.241 37.500 0.00 0.00 0.00 3.96
3466 8045 9.635520 ATTTCTTTGATCACAGATGCTTAAAAG 57.364 29.630 12.23 1.17 0.00 2.27
3536 8116 0.755686 ACTCGGGAGGATTGCTCATC 59.244 55.000 7.53 0.00 0.00 2.92
3642 8228 7.581213 TGGTGATTCATGGATATTAACCAAC 57.419 36.000 7.52 0.00 40.93 3.77
3819 8420 1.230324 GTGAAGCCACCAGTCACTTC 58.770 55.000 0.00 0.00 38.87 3.01
3820 8421 0.836606 TGAAGCCACCAGTCACTTCA 59.163 50.000 7.57 7.57 44.56 3.02
3821 8422 1.202687 TGAAGCCACCAGTCACTTCAG 60.203 52.381 7.57 0.00 42.56 3.02
3823 8424 0.107456 AGCCACCAGTCACTTCAGTG 59.893 55.000 0.02 0.02 46.91 3.66
3902 8516 3.210358 TCGCGTTTGGAATGGATTTTC 57.790 42.857 5.77 0.00 0.00 2.29
3923 8537 3.054361 TCCCATAGAAGCTTTGACCCTTC 60.054 47.826 0.00 0.00 38.14 3.46
3924 8538 2.939103 CCATAGAAGCTTTGACCCTTCG 59.061 50.000 0.00 0.00 41.69 3.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 3.057736 ACAGACTGCATGTTCATTTCAGC 60.058 43.478 1.25 0.00 0.00 4.26
171 849 8.098912 GGAGTAAATAAAAACTGAGGGAGTACA 58.901 37.037 0.00 0.00 33.09 2.90
172 850 7.277319 CGGAGTAAATAAAAACTGAGGGAGTAC 59.723 40.741 0.00 0.00 33.09 2.73
174 852 6.171213 CGGAGTAAATAAAAACTGAGGGAGT 58.829 40.000 0.00 0.00 35.94 3.85
175 853 5.064834 GCGGAGTAAATAAAAACTGAGGGAG 59.935 44.000 0.00 0.00 0.00 4.30
176 854 4.939439 GCGGAGTAAATAAAAACTGAGGGA 59.061 41.667 0.00 0.00 0.00 4.20
177 855 4.698304 TGCGGAGTAAATAAAAACTGAGGG 59.302 41.667 0.00 0.00 0.00 4.30
178 856 5.873179 TGCGGAGTAAATAAAAACTGAGG 57.127 39.130 0.00 0.00 0.00 3.86
187 865 9.398538 ACCAAAGTTAATATGCGGAGTAAATAA 57.601 29.630 0.00 0.00 0.00 1.40
188 866 8.967664 ACCAAAGTTAATATGCGGAGTAAATA 57.032 30.769 0.00 0.00 0.00 1.40
189 867 7.554835 TGACCAAAGTTAATATGCGGAGTAAAT 59.445 33.333 0.00 0.00 0.00 1.40
190 868 6.879993 TGACCAAAGTTAATATGCGGAGTAAA 59.120 34.615 0.00 0.00 0.00 2.01
191 869 6.408035 TGACCAAAGTTAATATGCGGAGTAA 58.592 36.000 0.00 0.00 0.00 2.24
192 870 5.979993 TGACCAAAGTTAATATGCGGAGTA 58.020 37.500 0.00 0.00 0.00 2.59
193 871 4.839121 TGACCAAAGTTAATATGCGGAGT 58.161 39.130 0.00 0.00 0.00 3.85
194 872 5.811399 TTGACCAAAGTTAATATGCGGAG 57.189 39.130 0.00 0.00 0.00 4.63
195 873 6.189677 CTTTGACCAAAGTTAATATGCGGA 57.810 37.500 12.91 0.00 42.02 5.54
208 886 4.269183 TGAAGAGCTTGACTTTGACCAAA 58.731 39.130 0.00 0.00 0.00 3.28
209 887 3.884895 TGAAGAGCTTGACTTTGACCAA 58.115 40.909 0.00 0.00 0.00 3.67
210 888 3.558931 TGAAGAGCTTGACTTTGACCA 57.441 42.857 0.00 0.00 0.00 4.02
211 889 4.336713 AGTTTGAAGAGCTTGACTTTGACC 59.663 41.667 0.00 0.00 0.00 4.02
212 890 5.491635 AGTTTGAAGAGCTTGACTTTGAC 57.508 39.130 0.00 0.00 0.00 3.18
213 891 6.150976 TCAAAGTTTGAAGAGCTTGACTTTGA 59.849 34.615 24.10 24.10 45.03 2.69
214 892 6.252228 GTCAAAGTTTGAAGAGCTTGACTTTG 59.748 38.462 19.63 21.99 42.15 2.77
215 893 6.071952 TGTCAAAGTTTGAAGAGCTTGACTTT 60.072 34.615 19.63 6.76 42.15 2.66
216 894 5.415701 TGTCAAAGTTTGAAGAGCTTGACTT 59.584 36.000 19.63 0.00 42.15 3.01
217 895 4.943705 TGTCAAAGTTTGAAGAGCTTGACT 59.056 37.500 19.63 0.00 42.15 3.41
218 896 5.235305 TGTCAAAGTTTGAAGAGCTTGAC 57.765 39.130 19.63 5.81 42.15 3.18
219 897 5.895636 TTGTCAAAGTTTGAAGAGCTTGA 57.104 34.783 19.63 0.00 42.15 3.02
220 898 6.949578 TTTTGTCAAAGTTTGAAGAGCTTG 57.050 33.333 19.63 0.00 42.15 4.01
221 899 8.552083 AAATTTTGTCAAAGTTTGAAGAGCTT 57.448 26.923 19.63 8.59 42.15 3.74
222 900 9.822185 ATAAATTTTGTCAAAGTTTGAAGAGCT 57.178 25.926 22.26 3.06 42.15 4.09
284 962 8.164058 TGATGTGAAAGTACATTCAACAATGA 57.836 30.769 14.64 2.19 41.97 2.57
285 963 8.975410 ATGATGTGAAAGTACATTCAACAATG 57.025 30.769 14.64 0.00 44.57 2.82
362 1040 9.704098 GAGTTACTGAAGTCAAACTTTGTAAAG 57.296 33.333 14.79 2.94 38.80 1.85
363 1041 9.444600 AGAGTTACTGAAGTCAAACTTTGTAAA 57.555 29.630 14.79 0.00 38.80 2.01
366 1044 9.614792 ATTAGAGTTACTGAAGTCAAACTTTGT 57.385 29.630 0.00 0.46 38.80 2.83
370 1048 9.372369 GCATATTAGAGTTACTGAAGTCAAACT 57.628 33.333 0.00 0.00 37.46 2.66
371 1049 9.151471 TGCATATTAGAGTTACTGAAGTCAAAC 57.849 33.333 0.00 0.00 37.46 2.93
372 1050 9.371136 CTGCATATTAGAGTTACTGAAGTCAAA 57.629 33.333 0.00 0.00 37.46 2.69
373 1051 8.749354 TCTGCATATTAGAGTTACTGAAGTCAA 58.251 33.333 0.00 0.00 37.46 3.18
374 1052 8.293699 TCTGCATATTAGAGTTACTGAAGTCA 57.706 34.615 0.00 0.00 37.46 3.41
375 1053 8.795786 CTCTGCATATTAGAGTTACTGAAGTC 57.204 38.462 0.00 0.00 37.48 3.01
391 1069 9.125026 CCCTCTGTTTTTATTTACTCTGCATAT 57.875 33.333 0.00 0.00 0.00 1.78
392 1070 8.325787 TCCCTCTGTTTTTATTTACTCTGCATA 58.674 33.333 0.00 0.00 0.00 3.14
393 1071 7.175104 TCCCTCTGTTTTTATTTACTCTGCAT 58.825 34.615 0.00 0.00 0.00 3.96
394 1072 6.539173 TCCCTCTGTTTTTATTTACTCTGCA 58.461 36.000 0.00 0.00 0.00 4.41
395 1073 6.655425 ACTCCCTCTGTTTTTATTTACTCTGC 59.345 38.462 0.00 0.00 0.00 4.26
396 1074 9.152595 GTACTCCCTCTGTTTTTATTTACTCTG 57.847 37.037 0.00 0.00 0.00 3.35
397 1075 9.102453 AGTACTCCCTCTGTTTTTATTTACTCT 57.898 33.333 0.00 0.00 0.00 3.24
398 1076 9.722184 AAGTACTCCCTCTGTTTTTATTTACTC 57.278 33.333 0.00 0.00 0.00 2.59
402 1080 9.856162 TTGTAAGTACTCCCTCTGTTTTTATTT 57.144 29.630 0.00 0.00 0.00 1.40
403 1081 9.856162 TTTGTAAGTACTCCCTCTGTTTTTATT 57.144 29.630 0.00 0.00 0.00 1.40
405 1083 9.280174 CATTTGTAAGTACTCCCTCTGTTTTTA 57.720 33.333 0.00 0.00 0.00 1.52
406 1084 7.996644 TCATTTGTAAGTACTCCCTCTGTTTTT 59.003 33.333 0.00 0.00 0.00 1.94
407 1085 7.514721 TCATTTGTAAGTACTCCCTCTGTTTT 58.485 34.615 0.00 0.00 0.00 2.43
408 1086 7.074653 TCATTTGTAAGTACTCCCTCTGTTT 57.925 36.000 0.00 0.00 0.00 2.83
409 1087 6.681729 TCATTTGTAAGTACTCCCTCTGTT 57.318 37.500 0.00 0.00 0.00 3.16
410 1088 6.681729 TTCATTTGTAAGTACTCCCTCTGT 57.318 37.500 0.00 0.00 0.00 3.41
411 1089 9.667107 TTATTTCATTTGTAAGTACTCCCTCTG 57.333 33.333 0.00 0.00 0.00 3.35
412 1090 9.668497 GTTATTTCATTTGTAAGTACTCCCTCT 57.332 33.333 0.00 0.00 0.00 3.69
413 1091 9.668497 AGTTATTTCATTTGTAAGTACTCCCTC 57.332 33.333 0.00 0.00 0.00 4.30
416 1094 9.556030 GCAAGTTATTTCATTTGTAAGTACTCC 57.444 33.333 0.00 0.00 0.00 3.85
513 2328 4.142966 GGTTGCGTGTGAGTATCCTTTTAC 60.143 45.833 0.00 0.00 0.00 2.01
648 2476 3.317993 GCCTCTCTGACTTCTAGATGTCC 59.682 52.174 27.13 14.89 35.39 4.02
650 2478 2.948979 CGCCTCTCTGACTTCTAGATGT 59.051 50.000 10.86 10.86 0.00 3.06
663 2491 2.441164 ACGATCCAGCGCCTCTCT 60.441 61.111 2.29 0.00 33.86 3.10
679 2507 3.064271 CGTCAGAGACTAGGCAAGTAGAC 59.936 52.174 0.00 0.00 39.07 2.59
740 2573 0.478507 GAGAGAGAGAGGGAGGGAGG 59.521 65.000 0.00 0.00 0.00 4.30
741 2574 1.421646 GAGAGAGAGAGAGGGAGGGAG 59.578 61.905 0.00 0.00 0.00 4.30
742 2575 1.010793 AGAGAGAGAGAGAGGGAGGGA 59.989 57.143 0.00 0.00 0.00 4.20
743 2576 1.421646 GAGAGAGAGAGAGAGGGAGGG 59.578 61.905 0.00 0.00 0.00 4.30
744 2577 2.370189 GAGAGAGAGAGAGAGAGGGAGG 59.630 59.091 0.00 0.00 0.00 4.30
745 2578 3.312890 AGAGAGAGAGAGAGAGAGGGAG 58.687 54.545 0.00 0.00 0.00 4.30
746 2579 3.051803 AGAGAGAGAGAGAGAGAGAGGGA 60.052 52.174 0.00 0.00 0.00 4.20
747 2580 3.312890 AGAGAGAGAGAGAGAGAGAGGG 58.687 54.545 0.00 0.00 0.00 4.30
900 2838 6.626302 AGTTGAAGAAAACATGTCGGAAAAA 58.374 32.000 0.00 0.00 32.21 1.94
944 2887 6.656003 ACGAATCGTGCCTAAATATTTTAGC 58.344 36.000 7.77 10.15 39.18 3.09
1057 3000 2.299993 TGCTTATCTTGCTCGTCTGG 57.700 50.000 0.00 0.00 0.00 3.86
1112 3055 7.177392 AGCTGAACTGAAAATAGCTTACCATTT 59.823 33.333 0.00 0.00 41.60 2.32
1135 3087 2.424234 CCTAGGAGGCTAGAACAGAGCT 60.424 54.545 1.05 0.00 39.98 4.09
1195 3148 9.712359 GTCAAAAACGTTCTTATATTATGGGAC 57.288 33.333 0.00 0.00 0.00 4.46
1196 3149 9.451002 TGTCAAAAACGTTCTTATATTATGGGA 57.549 29.630 0.00 0.00 0.00 4.37
1197 3150 9.498307 GTGTCAAAAACGTTCTTATATTATGGG 57.502 33.333 0.00 0.00 0.00 4.00
1203 3156 9.485206 AGTGTAGTGTCAAAAACGTTCTTATAT 57.515 29.630 0.00 0.00 0.00 0.86
1204 3157 8.876275 AGTGTAGTGTCAAAAACGTTCTTATA 57.124 30.769 0.00 0.00 0.00 0.98
1205 3158 7.781548 AGTGTAGTGTCAAAAACGTTCTTAT 57.218 32.000 0.00 0.00 0.00 1.73
1206 3159 7.975616 ACTAGTGTAGTGTCAAAAACGTTCTTA 59.024 33.333 0.00 0.00 37.69 2.10
1207 3160 6.815142 ACTAGTGTAGTGTCAAAAACGTTCTT 59.185 34.615 0.00 0.00 37.69 2.52
1208 3161 6.335777 ACTAGTGTAGTGTCAAAAACGTTCT 58.664 36.000 0.00 0.00 37.69 3.01
1209 3162 6.579491 ACTAGTGTAGTGTCAAAAACGTTC 57.421 37.500 0.00 0.00 37.69 3.95
1222 3175 8.732746 AAGAACATTTTTGACACTAGTGTAGT 57.267 30.769 27.98 14.29 45.05 2.73
1235 3188 9.677567 CGGTCCCATAATATAAGAACATTTTTG 57.322 33.333 0.00 0.00 0.00 2.44
1236 3189 9.635404 TCGGTCCCATAATATAAGAACATTTTT 57.365 29.630 0.00 0.00 0.00 1.94
1237 3190 9.284968 CTCGGTCCCATAATATAAGAACATTTT 57.715 33.333 0.00 0.00 0.00 1.82
1238 3191 7.883311 CCTCGGTCCCATAATATAAGAACATTT 59.117 37.037 0.00 0.00 0.00 2.32
1239 3192 7.394816 CCTCGGTCCCATAATATAAGAACATT 58.605 38.462 0.00 0.00 0.00 2.71
1240 3193 6.070194 CCCTCGGTCCCATAATATAAGAACAT 60.070 42.308 0.00 0.00 0.00 2.71
1241 3194 5.247564 CCCTCGGTCCCATAATATAAGAACA 59.752 44.000 0.00 0.00 0.00 3.18
1242 3195 5.482878 TCCCTCGGTCCCATAATATAAGAAC 59.517 44.000 0.00 0.00 0.00 3.01
1243 3196 5.657446 TCCCTCGGTCCCATAATATAAGAA 58.343 41.667 0.00 0.00 0.00 2.52
1244 3197 5.222484 ACTCCCTCGGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
1245 3198 5.024118 ACTCCCTCGGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
1246 3199 5.019657 ACTCCCTCGGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
1247 3200 4.687262 ACTCCCTCGGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
1248 3201 3.562108 ACTCCCTCGGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
1249 3202 3.501019 GGTACTCCCTCGGTCCCATAATA 60.501 52.174 0.00 0.00 0.00 0.98
1250 3203 2.606378 GTACTCCCTCGGTCCCATAAT 58.394 52.381 0.00 0.00 0.00 1.28
1251 3204 1.412074 GGTACTCCCTCGGTCCCATAA 60.412 57.143 0.00 0.00 0.00 1.90
1252 3205 0.186873 GGTACTCCCTCGGTCCCATA 59.813 60.000 0.00 0.00 0.00 2.74
1253 3206 1.075450 GGTACTCCCTCGGTCCCAT 60.075 63.158 0.00 0.00 0.00 4.00
1254 3207 1.807771 AAGGTACTCCCTCGGTCCCA 61.808 60.000 0.00 0.00 45.47 4.37
1255 3208 0.616964 AAAGGTACTCCCTCGGTCCC 60.617 60.000 0.00 0.00 45.47 4.46
1256 3209 0.822811 GAAAGGTACTCCCTCGGTCC 59.177 60.000 0.00 0.00 45.47 4.46
1257 3210 1.849977 AGAAAGGTACTCCCTCGGTC 58.150 55.000 0.00 0.00 45.47 4.79
1258 3211 2.732763 GTAGAAAGGTACTCCCTCGGT 58.267 52.381 0.00 0.00 45.47 4.69
1259 3212 1.674962 CGTAGAAAGGTACTCCCTCGG 59.325 57.143 0.00 0.00 45.47 4.63
1260 3213 1.674962 CCGTAGAAAGGTACTCCCTCG 59.325 57.143 0.00 0.00 45.47 4.63
1261 3214 3.010200 TCCGTAGAAAGGTACTCCCTC 57.990 52.381 0.00 0.00 45.47 4.30
1263 3216 3.259123 TGTTTCCGTAGAAAGGTACTCCC 59.741 47.826 0.00 0.00 42.60 4.30
1264 3217 4.525912 TGTTTCCGTAGAAAGGTACTCC 57.474 45.455 0.00 0.00 42.60 3.85
1265 3218 6.849588 TTTTGTTTCCGTAGAAAGGTACTC 57.150 37.500 0.00 0.00 42.60 2.59
1266 3219 6.261603 CCTTTTTGTTTCCGTAGAAAGGTACT 59.738 38.462 0.00 0.00 42.60 2.73
1278 3231 4.649088 AGAAGTTCCCTTTTTGTTTCCG 57.351 40.909 0.00 0.00 0.00 4.30
1296 3249 3.334583 AATGCAGTTTCGCTCCTAGAA 57.665 42.857 0.00 0.00 0.00 2.10
1411 3436 5.576447 AGGAAACAAGGTAAAACACACTG 57.424 39.130 0.00 0.00 0.00 3.66
1418 3443 6.003859 TGACCTGTAGGAAACAAGGTAAAA 57.996 37.500 4.64 0.00 38.76 1.52
1471 3499 2.851263 ATAGTTCGTCCTGTTTGCCA 57.149 45.000 0.00 0.00 0.00 4.92
1594 3622 0.685660 AAGTCCCCCGTTCTCAAGTC 59.314 55.000 0.00 0.00 0.00 3.01
1750 3778 7.255451 GGGAAGATCATGACAAGTGTTTACAAA 60.255 37.037 0.00 0.00 0.00 2.83
2042 4077 1.889545 AGTTGCTTCTTCTGCACCTC 58.110 50.000 0.00 0.00 40.40 3.85
2072 4107 6.370166 GGGATTTCGGAATTAATAGCTCTGAG 59.630 42.308 0.00 0.00 0.00 3.35
2199 4318 0.605319 TAAACAGCCAGCTTGACCGG 60.605 55.000 0.00 0.00 0.00 5.28
2248 4374 3.888930 CCAACAACACTTGGGTAAGACAT 59.111 43.478 0.00 0.00 37.62 3.06
2298 4427 9.312904 AGAATTTTCTATCCCAATGACTCAAAA 57.687 29.630 0.00 0.00 35.34 2.44
2327 4464 4.516698 TCTTTCAGTTTCAATCTGCTCCAC 59.483 41.667 0.00 0.00 33.48 4.02
2345 4947 8.989653 ATGTAGTCTAGTAGCAAAGTTCTTTC 57.010 34.615 0.00 0.00 0.00 2.62
2370 5079 4.038642 TGCACGTCCATGCTACTATCATTA 59.961 41.667 0.00 0.00 46.28 1.90
2446 5321 2.808906 CCTGGTAAAGGGAGAAAGGG 57.191 55.000 0.00 0.00 43.15 3.95
2659 5534 8.908786 TCATCACATACTTCTTCTTGTTTCTT 57.091 30.769 0.00 0.00 0.00 2.52
2761 5636 4.418392 GCTTGATGCAGTAATTCACCAAG 58.582 43.478 0.00 0.00 42.31 3.61
2762 5637 4.439305 GCTTGATGCAGTAATTCACCAA 57.561 40.909 0.00 0.00 42.31 3.67
2790 5671 5.359194 TTGGCAAACAATTCTTGGGTTAA 57.641 34.783 0.00 0.00 33.18 2.01
2819 5893 4.162040 ACAGGGAATTTCTGATAGCCAG 57.838 45.455 14.18 0.00 44.27 4.85
2867 5941 5.417580 GGACTGCAACCCAAACATAATTAGA 59.582 40.000 0.00 0.00 0.00 2.10
2904 5978 8.499288 TGGAGAGAGAGTATAGTGAGATAGAA 57.501 38.462 0.00 0.00 0.00 2.10
2948 6275 1.820519 TGAATCATGTGGCCAGCTTTC 59.179 47.619 5.11 6.28 0.00 2.62
2983 6310 4.154176 GGCCTTACCCAAAACTCCTTTTA 58.846 43.478 0.00 0.00 0.00 1.52
3063 6416 3.316308 ACACAAAAGGCAGCTGAAACTAG 59.684 43.478 20.43 4.94 0.00 2.57
3186 6554 3.118920 TGACATAACCCACACTACATCCG 60.119 47.826 0.00 0.00 0.00 4.18
3194 6562 2.301870 TCTGTCCTGACATAACCCACAC 59.698 50.000 0.00 0.00 41.01 3.82
3378 7938 6.899393 ATTTCCTCAATCTTGTTAGTGCAA 57.101 33.333 0.00 0.00 0.00 4.08
3408 7972 7.496529 TGTTTCTTGAAGATAAAGGACAGTG 57.503 36.000 0.00 0.00 0.00 3.66
3409 7973 8.519799 TTTGTTTCTTGAAGATAAAGGACAGT 57.480 30.769 0.00 0.00 0.00 3.55
3453 8031 7.432350 AGACAGAAGTTCTTTTAAGCATCTG 57.568 36.000 1.56 0.00 0.00 2.90
3587 8170 7.174946 GGATTGAAGTAAATGAAACAGACAGGA 59.825 37.037 0.00 0.00 0.00 3.86
3642 8228 4.391830 TCTTGCTGACAAAGGCTATAAACG 59.608 41.667 0.00 0.00 34.74 3.60
3850 8460 8.961294 AGAAATATCTTGCATATAGCTCCATC 57.039 34.615 0.00 0.00 45.94 3.51
3902 8516 3.282885 GAAGGGTCAAAGCTTCTATGGG 58.717 50.000 0.00 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.