Multiple sequence alignment - TraesCS7B01G012900

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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 TraesCS7B01G012900 chr7B 100.000 3288 0 0 1 3288 8934782 8931495 0.000000e+00 6072.0
1 TraesCS7B01G012900 chr7B 83.810 315 50 1 2614 2928 357965443 357965130 6.900000e-77 298.0
2 TraesCS7B01G012900 chr7D 94.085 1792 68 22 533 2302 66873448 66871673 0.000000e+00 2687.0
3 TraesCS7B01G012900 chr7D 90.923 672 43 8 2620 3288 66838534 66837878 0.000000e+00 887.0
4 TraesCS7B01G012900 chr7D 93.704 270 15 1 271 538 588376867 588376598 1.420000e-108 403.0
5 TraesCS7B01G012900 chr7D 89.375 320 29 4 2611 2928 151914139 151914455 6.610000e-107 398.0
6 TraesCS7B01G012900 chr7D 97.009 234 7 0 1 234 66874338 66874105 8.550000e-106 394.0
7 TraesCS7B01G012900 chr7D 90.444 293 18 4 2296 2588 66871635 66871353 8.610000e-101 377.0
8 TraesCS7B01G012900 chr7D 85.032 314 44 3 2611 2923 295044528 295044839 1.900000e-82 316.0
9 TraesCS7B01G012900 chr7D 86.667 150 8 7 786 931 596879965 596879824 4.390000e-34 156.0
10 TraesCS7B01G012900 chr7A 88.560 979 65 18 2296 3272 73770834 73771767 0.000000e+00 1144.0
11 TraesCS7B01G012900 chr7A 89.474 722 52 14 962 1671 73762329 73763038 0.000000e+00 891.0
12 TraesCS7B01G012900 chr7A 92.460 504 26 7 1803 2302 73770301 73770796 0.000000e+00 710.0
13 TraesCS7B01G012900 chr7A 81.323 514 69 17 1411 1903 6873445 6873952 3.080000e-105 392.0
14 TraesCS7B01G012900 chr7A 90.083 242 16 3 1 234 73759678 73759919 1.150000e-79 307.0
15 TraesCS7B01G012900 chr7A 91.304 46 4 0 530 575 73760995 73761040 2.740000e-06 63.9
16 TraesCS7B01G012900 chrUn 77.754 935 161 33 1000 1925 89320227 89319331 6.250000e-147 531.0
17 TraesCS7B01G012900 chrUn 89.899 297 27 1 1411 1707 335842605 335842312 2.390000e-101 379.0
18 TraesCS7B01G012900 chrUn 89.899 297 27 1 1411 1707 382530627 382530334 2.390000e-101 379.0
19 TraesCS7B01G012900 chrUn 80.000 520 87 15 1411 1925 89126244 89125737 5.180000e-98 368.0
20 TraesCS7B01G012900 chr6B 93.333 270 18 0 271 540 197317173 197317442 1.840000e-107 399.0
21 TraesCS7B01G012900 chr6D 93.633 267 16 1 271 536 334161435 334161169 6.610000e-107 398.0
22 TraesCS7B01G012900 chr6D 87.580 314 36 3 2611 2923 35213679 35213990 8.670000e-96 361.0
23 TraesCS7B01G012900 chr6D 86.301 146 13 5 788 930 414526070 414525929 5.680000e-33 152.0
24 TraesCS7B01G012900 chr4B 92.727 275 18 2 271 544 118740824 118741097 2.380000e-106 396.0
25 TraesCS7B01G012900 chr4B 90.972 288 23 3 271 555 445473839 445473552 5.150000e-103 385.0
26 TraesCS7B01G012900 chr3A 92.989 271 18 1 267 536 658985349 658985079 8.550000e-106 394.0
27 TraesCS7B01G012900 chr5D 92.937 269 19 0 270 538 366690089 366689821 3.080000e-105 392.0
28 TraesCS7B01G012900 chr5B 93.561 264 16 1 271 533 72383500 72383763 3.080000e-105 392.0
29 TraesCS7B01G012900 chr2B 92.674 273 19 1 267 538 36267677 36267949 3.080000e-105 392.0
30 TraesCS7B01G012900 chr2B 81.731 208 36 2 1026 1232 4477258 4477052 4.360000e-39 172.0
31 TraesCS7B01G012900 chr4A 89.899 297 27 1 1411 1707 736963431 736963138 2.390000e-101 379.0
32 TraesCS7B01G012900 chr4A 85.398 226 31 2 1482 1706 735095564 735095340 1.970000e-57 233.0
33 TraesCS7B01G012900 chr4A 85.398 226 31 2 1482 1706 735893934 735893710 1.970000e-57 233.0
34 TraesCS7B01G012900 chr4A 75.802 405 76 15 1838 2224 736961539 736961139 5.600000e-43 185.0
35 TraesCS7B01G012900 chr4A 86.000 100 14 0 1589 1688 735074714 735074615 1.250000e-19 108.0
36 TraesCS7B01G012900 chr6A 88.088 319 32 4 2611 2924 106936993 106936676 1.110000e-99 374.0
37 TraesCS7B01G012900 chr5A 85.577 312 42 2 2611 2922 635943265 635943573 1.140000e-84 324.0
38 TraesCS7B01G012900 chr5A 86.111 144 11 7 791 930 415163959 415163821 2.640000e-31 147.0
39 TraesCS7B01G012900 chr5A 86.429 140 9 6 790 927 69544581 69544712 9.510000e-31 145.0
40 TraesCS7B01G012900 chr4D 88.755 249 27 1 2611 2858 88510458 88510706 1.480000e-78 303.0
41 TraesCS7B01G012900 chr4D 86.713 143 9 6 790 927 507721672 507721809 2.040000e-32 150.0
42 TraesCS7B01G012900 chr3D 91.473 129 6 3 790 915 547779629 547779755 4.360000e-39 172.0
43 TraesCS7B01G012900 chr3D 86.577 149 8 8 787 930 454744143 454744284 1.580000e-33 154.0
44 TraesCS7B01G012900 chr3D 85.333 150 7 11 791 930 142497215 142497359 1.230000e-29 141.0


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 TraesCS7B01G012900 chr7B 8931495 8934782 3287 True 6072.000000 6072 100.0000 1 3288 1 chr7B.!!$R1 3287
1 TraesCS7B01G012900 chr7D 66871353 66874338 2985 True 1152.666667 2687 93.8460 1 2588 3 chr7D.!!$R4 2587
2 TraesCS7B01G012900 chr7D 66837878 66838534 656 True 887.000000 887 90.9230 2620 3288 1 chr7D.!!$R1 668
3 TraesCS7B01G012900 chr7A 73770301 73771767 1466 False 927.000000 1144 90.5100 1803 3272 2 chr7A.!!$F3 1469
4 TraesCS7B01G012900 chr7A 73759678 73763038 3360 False 420.633333 891 90.2870 1 1671 3 chr7A.!!$F2 1670
5 TraesCS7B01G012900 chr7A 6873445 6873952 507 False 392.000000 392 81.3230 1411 1903 1 chr7A.!!$F1 492
6 TraesCS7B01G012900 chrUn 89319331 89320227 896 True 531.000000 531 77.7540 1000 1925 1 chrUn.!!$R2 925
7 TraesCS7B01G012900 chrUn 89125737 89126244 507 True 368.000000 368 80.0000 1411 1925 1 chrUn.!!$R1 514
8 TraesCS7B01G012900 chr4A 736961139 736963431 2292 True 282.000000 379 82.8505 1411 2224 2 chr4A.!!$R4 813

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
977 2871 1.226746 GGTAGCACCAACACACACTC 58.773 55.0 1.01 0.0 38.42 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2896 6411 0.400213 TGACGGGAAAGCCTTCATGT 59.6 50.0 0.0 0.0 32.75 3.21 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
64 68 5.863935 GGTTGTGAAAATTGAGAACTATGCC 59.136 40.000 0.00 0.00 0.00 4.40
203 212 9.889128 TGTCACAATCAATAAGTAAGATGATGA 57.111 29.630 0.00 0.00 33.06 2.92
215 224 5.669447 AGTAAGATGATGAGGGTGAGGAATT 59.331 40.000 0.00 0.00 0.00 2.17
239 248 9.874205 ATTTTCCATCACAATTCATTATTTCGT 57.126 25.926 0.00 0.00 0.00 3.85
268 305 5.521010 GTCATACATTCGGGTTCGTATTTGA 59.479 40.000 0.00 0.00 37.69 2.69
270 307 6.422701 TCATACATTCGGGTTCGTATTTGATC 59.577 38.462 0.00 0.00 37.69 2.92
271 308 4.509616 ACATTCGGGTTCGTATTTGATCA 58.490 39.130 0.00 0.00 37.69 2.92
272 309 5.123227 ACATTCGGGTTCGTATTTGATCAT 58.877 37.500 0.00 0.00 37.69 2.45
274 311 6.423905 ACATTCGGGTTCGTATTTGATCATAG 59.576 38.462 0.00 0.00 37.69 2.23
275 312 5.524971 TCGGGTTCGTATTTGATCATAGT 57.475 39.130 0.00 0.00 37.69 2.12
276 313 5.286438 TCGGGTTCGTATTTGATCATAGTG 58.714 41.667 0.00 0.00 37.69 2.74
277 314 4.447724 CGGGTTCGTATTTGATCATAGTGG 59.552 45.833 0.00 0.00 0.00 4.00
278 315 4.755123 GGGTTCGTATTTGATCATAGTGGG 59.245 45.833 0.00 0.00 0.00 4.61
280 317 5.365619 GTTCGTATTTGATCATAGTGGGGT 58.634 41.667 0.00 0.00 0.00 4.95
281 318 6.463331 GGTTCGTATTTGATCATAGTGGGGTA 60.463 42.308 0.00 0.00 0.00 3.69
286 1035 8.092068 CGTATTTGATCATAGTGGGGTAACATA 58.908 37.037 0.00 0.00 39.74 2.29
290 1039 4.675976 TCATAGTGGGGTAACATAACCG 57.324 45.455 0.00 0.00 40.73 4.44
291 1040 3.388676 TCATAGTGGGGTAACATAACCGG 59.611 47.826 0.00 0.00 40.73 5.28
293 1042 2.831565 AGTGGGGTAACATAACCGGTA 58.168 47.619 8.00 0.00 40.73 4.02
295 1044 3.055167 AGTGGGGTAACATAACCGGTAAC 60.055 47.826 8.00 0.00 40.73 2.50
298 1047 4.718774 TGGGGTAACATAACCGGTAACATA 59.281 41.667 8.00 0.00 40.73 2.29
303 1052 8.150296 GGGTAACATAACCGGTAACATATACTT 58.850 37.037 8.00 0.00 40.73 2.24
306 1055 6.527423 ACATAACCGGTAACATATACTTGGG 58.473 40.000 8.00 0.00 0.00 4.12
307 1056 6.327104 ACATAACCGGTAACATATACTTGGGA 59.673 38.462 8.00 0.00 0.00 4.37
312 1061 5.467705 CGGTAACATATACTTGGGACTAGC 58.532 45.833 0.00 0.00 0.00 3.42
314 1063 6.461927 CGGTAACATATACTTGGGACTAGCAA 60.462 42.308 0.00 0.00 0.00 3.91
315 1064 7.277396 GGTAACATATACTTGGGACTAGCAAA 58.723 38.462 0.00 0.00 0.00 3.68
316 1065 7.226128 GGTAACATATACTTGGGACTAGCAAAC 59.774 40.741 0.00 0.00 0.00 2.93
317 1066 6.308015 ACATATACTTGGGACTAGCAAACA 57.692 37.500 0.00 0.00 0.00 2.83
318 1067 6.900194 ACATATACTTGGGACTAGCAAACAT 58.100 36.000 0.00 0.00 0.00 2.71
320 1069 2.162681 ACTTGGGACTAGCAAACATGC 58.837 47.619 0.00 0.00 0.00 4.06
322 1071 2.584835 TGGGACTAGCAAACATGCTT 57.415 45.000 8.79 0.00 43.52 3.91
323 1072 3.712016 TGGGACTAGCAAACATGCTTA 57.288 42.857 8.79 0.00 43.52 3.09
324 1073 4.235079 TGGGACTAGCAAACATGCTTAT 57.765 40.909 8.79 0.00 43.52 1.73
325 1074 3.947196 TGGGACTAGCAAACATGCTTATG 59.053 43.478 8.79 3.17 43.52 1.90
326 1075 3.947834 GGGACTAGCAAACATGCTTATGT 59.052 43.478 8.79 6.15 43.52 2.29
327 1076 4.201950 GGGACTAGCAAACATGCTTATGTG 60.202 45.833 8.79 0.00 43.52 3.21
328 1077 4.201950 GGACTAGCAAACATGCTTATGTGG 60.202 45.833 8.79 0.00 43.52 4.17
331 1080 1.994779 GCAAACATGCTTATGTGGCAC 59.005 47.619 11.55 11.55 42.69 5.01
348 1097 5.947228 TGGCACACAATTAAAGAAGAGAG 57.053 39.130 0.00 0.00 0.00 3.20
349 1098 5.620206 TGGCACACAATTAAAGAAGAGAGA 58.380 37.500 0.00 0.00 0.00 3.10
350 1099 5.702670 TGGCACACAATTAAAGAAGAGAGAG 59.297 40.000 0.00 0.00 0.00 3.20
351 1100 5.934625 GGCACACAATTAAAGAAGAGAGAGA 59.065 40.000 0.00 0.00 0.00 3.10
352 1101 6.091986 GGCACACAATTAAAGAAGAGAGAGAG 59.908 42.308 0.00 0.00 0.00 3.20
354 1103 6.593382 CACACAATTAAAGAAGAGAGAGAGGG 59.407 42.308 0.00 0.00 0.00 4.30
356 1105 5.487131 ACAATTAAAGAAGAGAGAGAGGGCT 59.513 40.000 0.00 0.00 0.00 5.19
357 1106 6.670027 ACAATTAAAGAAGAGAGAGAGGGCTA 59.330 38.462 0.00 0.00 0.00 3.93
358 1107 6.976934 ATTAAAGAAGAGAGAGAGGGCTAG 57.023 41.667 0.00 0.00 0.00 3.42
369 1199 4.993028 AGAGAGGGCTAGAGTAACATAGG 58.007 47.826 0.00 0.00 0.00 2.57
373 1203 5.611835 AGAGGGCTAGAGTAACATAGGTAGA 59.388 44.000 0.00 0.00 0.00 2.59
374 1204 6.276092 AGAGGGCTAGAGTAACATAGGTAGAT 59.724 42.308 0.00 0.00 0.00 1.98
375 1205 7.461684 AGAGGGCTAGAGTAACATAGGTAGATA 59.538 40.741 0.00 0.00 0.00 1.98
376 1206 7.404481 AGGGCTAGAGTAACATAGGTAGATAC 58.596 42.308 0.00 0.00 0.00 2.24
407 1237 9.838975 TCATGTTAAATGTTATGCTACTTTGTG 57.161 29.630 0.00 0.00 0.00 3.33
408 1238 9.624697 CATGTTAAATGTTATGCTACTTTGTGT 57.375 29.630 0.00 0.00 0.00 3.72
409 1239 9.840427 ATGTTAAATGTTATGCTACTTTGTGTC 57.160 29.630 0.00 0.00 0.00 3.67
413 1243 5.295431 TGTTATGCTACTTTGTGTCATGC 57.705 39.130 0.00 0.00 0.00 4.06
414 1244 4.759183 TGTTATGCTACTTTGTGTCATGCA 59.241 37.500 0.00 0.00 35.34 3.96
416 1246 3.835378 TGCTACTTTGTGTCATGCATG 57.165 42.857 21.07 21.07 0.00 4.06
417 1247 2.488937 TGCTACTTTGTGTCATGCATGG 59.511 45.455 25.97 10.76 0.00 3.66
419 1249 1.330234 ACTTTGTGTCATGCATGGCA 58.670 45.000 29.45 29.45 44.86 4.92
420 1250 1.687660 ACTTTGTGTCATGCATGGCAA 59.312 42.857 34.01 25.74 44.94 4.52
421 1251 2.300723 ACTTTGTGTCATGCATGGCAAT 59.699 40.909 34.01 15.19 44.94 3.56
423 1253 4.021280 ACTTTGTGTCATGCATGGCAATAA 60.021 37.500 34.01 26.82 44.94 1.40
424 1254 4.532314 TTGTGTCATGCATGGCAATAAA 57.468 36.364 34.01 24.20 44.94 1.40
426 1256 5.848833 TGTGTCATGCATGGCAATAAATA 57.151 34.783 34.01 14.13 44.94 1.40
430 1260 7.094631 GTGTCATGCATGGCAATAAATATGAT 58.905 34.615 34.01 0.00 44.94 2.45
431 1261 7.274904 GTGTCATGCATGGCAATAAATATGATC 59.725 37.037 34.01 14.19 44.94 2.92
432 1262 7.039644 TGTCATGCATGGCAATAAATATGATCA 60.040 33.333 30.82 2.65 43.62 2.92
433 1263 7.979537 GTCATGCATGGCAATAAATATGATCAT 59.020 33.333 26.04 13.81 43.62 2.45
434 1264 8.194769 TCATGCATGGCAATAAATATGATCATC 58.805 33.333 25.97 0.00 43.62 2.92
437 1267 9.416284 TGCATGGCAATAAATATGATCATCTAT 57.584 29.630 12.53 5.37 34.76 1.98
438 1268 9.678941 GCATGGCAATAAATATGATCATCTATG 57.321 33.333 12.53 9.66 0.00 2.23
489 1319 9.920133 CATGAAAGTAGTATCATGCACTAGTAT 57.080 33.333 12.42 0.00 44.40 2.12
613 1443 9.627123 CCAATTGTCCTAGAATTCCAATTAGTA 57.373 33.333 15.04 0.00 34.82 1.82
704 1534 7.582719 TCAAACCTAATAAATGGCTGAGGTAT 58.417 34.615 0.00 0.00 36.27 2.73
803 2691 2.890311 TGCTGTGGGGAAATACACTTTG 59.110 45.455 0.00 0.00 38.39 2.77
804 2692 2.231235 GCTGTGGGGAAATACACTTTGG 59.769 50.000 0.00 0.00 38.39 3.28
818 2706 5.514274 ACACTTTGGTTTCTGGTTGTATG 57.486 39.130 0.00 0.00 0.00 2.39
823 2711 8.788806 CACTTTGGTTTCTGGTTGTATGTATAA 58.211 33.333 0.00 0.00 0.00 0.98
824 2712 9.528489 ACTTTGGTTTCTGGTTGTATGTATAAT 57.472 29.630 0.00 0.00 0.00 1.28
915 2809 7.948278 ACTTGACTTACTTTTGCACTAGTAG 57.052 36.000 0.00 0.00 0.00 2.57
916 2810 7.498443 ACTTGACTTACTTTTGCACTAGTAGT 58.502 34.615 0.00 0.00 0.00 2.73
957 2851 1.882989 GAGGAGTTGAGGCACGAGCT 61.883 60.000 4.48 0.00 41.70 4.09
977 2871 1.226746 GGTAGCACCAACACACACTC 58.773 55.000 1.01 0.00 38.42 3.51
1246 3140 1.992277 AAGCTGCGGGACATCTCCT 60.992 57.895 0.00 0.00 36.68 3.69
1464 3383 3.755628 GTGGAGGCGCTGGACGTA 61.756 66.667 7.64 0.00 46.11 3.57
1720 3639 3.419759 GGTACGGCGTGCCAACTG 61.420 66.667 36.74 0.00 38.20 3.16
1721 3640 4.084888 GTACGGCGTGCCAACTGC 62.085 66.667 24.86 0.00 41.77 4.40
1725 3644 4.347453 GGCGTGCCAACTGCCAAG 62.347 66.667 5.89 0.00 42.16 3.61
1726 3645 3.595758 GCGTGCCAACTGCCAAGT 61.596 61.111 0.00 0.00 40.16 3.16
1727 3646 2.258013 GCGTGCCAACTGCCAAGTA 61.258 57.895 0.00 0.00 40.16 2.24
1728 3647 1.574428 CGTGCCAACTGCCAAGTAC 59.426 57.895 0.00 0.00 40.16 2.73
1729 3648 1.163420 CGTGCCAACTGCCAAGTACA 61.163 55.000 0.00 0.00 40.16 2.90
1730 3649 0.593128 GTGCCAACTGCCAAGTACAG 59.407 55.000 0.00 0.00 40.16 2.74
1731 3650 1.172180 TGCCAACTGCCAAGTACAGC 61.172 55.000 0.00 0.00 38.79 4.40
1732 3651 1.172180 GCCAACTGCCAAGTACAGCA 61.172 55.000 0.00 0.00 38.79 4.41
1736 3655 4.063529 TGCCAAGTACAGCAGCAC 57.936 55.556 0.00 0.00 33.08 4.40
1737 3656 1.451504 TGCCAAGTACAGCAGCACT 59.548 52.632 0.00 0.00 33.08 4.40
1738 3657 0.684535 TGCCAAGTACAGCAGCACTA 59.315 50.000 0.00 0.00 33.08 2.74
1739 3658 1.338105 TGCCAAGTACAGCAGCACTAG 60.338 52.381 0.00 0.00 33.08 2.57
1740 3659 1.363744 CCAAGTACAGCAGCACTAGC 58.636 55.000 0.00 0.00 42.56 3.42
1758 3677 2.394708 AGCTAAGCATATGCACGTACG 58.605 47.619 28.62 15.01 45.16 3.67
1767 3686 2.203800 ATGCACGTACGTACTCCATG 57.796 50.000 22.34 15.51 0.00 3.66
1768 3687 0.171679 TGCACGTACGTACTCCATGG 59.828 55.000 22.34 4.97 0.00 3.66
1769 3688 1.143969 GCACGTACGTACTCCATGGC 61.144 60.000 22.34 13.78 0.00 4.40
1770 3689 0.171679 CACGTACGTACTCCATGGCA 59.828 55.000 22.34 0.00 0.00 4.92
1777 3747 1.398390 CGTACTCCATGGCAAAAGAGC 59.602 52.381 6.96 0.00 0.00 4.09
1789 3759 2.030540 GCAAAAGAGCACTCATGAAGCA 60.031 45.455 18.70 0.00 0.00 3.91
1796 3784 2.954318 AGCACTCATGAAGCAACTTTGT 59.046 40.909 18.70 0.00 0.00 2.83
1908 5351 5.009010 CAGTAAATTCACCTCCCATGCATAC 59.991 44.000 0.00 0.00 0.00 2.39
1933 5380 1.068588 TCTATATGCACTGCCACGGTC 59.931 52.381 0.00 0.00 0.00 4.79
1938 5385 4.248842 CACTGCCACGGTCCCACA 62.249 66.667 0.00 0.00 0.00 4.17
1939 5386 4.250305 ACTGCCACGGTCCCACAC 62.250 66.667 0.00 0.00 0.00 3.82
1940 5387 3.941188 CTGCCACGGTCCCACACT 61.941 66.667 0.00 0.00 0.00 3.55
1944 5391 4.248842 CACGGTCCCACACTGCCA 62.249 66.667 0.00 0.00 34.19 4.92
1947 5394 2.579657 CGGTCCCACACTGCCACTA 61.580 63.158 0.00 0.00 0.00 2.74
1956 5425 4.142403 CCCACACTGCCACTAATAACAATG 60.142 45.833 0.00 0.00 0.00 2.82
2206 5675 1.227118 GCAGAGGAAGGAGCTACGC 60.227 63.158 0.00 0.00 0.00 4.42
2339 5852 6.401047 TCTCAATAATCTACGTAGTTGGGG 57.599 41.667 21.53 13.83 37.78 4.96
2348 5861 1.278127 ACGTAGTTGGGGGAAGTCATG 59.722 52.381 0.00 0.00 37.78 3.07
2352 5865 1.026718 GTTGGGGGAAGTCATGAGCG 61.027 60.000 0.00 0.00 0.00 5.03
2386 5899 8.500837 TGCAAGTTCAGTTAATTAATTTGTCG 57.499 30.769 5.91 0.00 0.00 4.35
2410 5923 6.454795 GTTCTCATGGTTGGCAAAAGATTTA 58.545 36.000 0.00 0.00 0.00 1.40
2417 5930 5.163561 TGGTTGGCAAAAGATTTATCGGATC 60.164 40.000 0.00 0.00 0.00 3.36
2418 5931 5.163561 GGTTGGCAAAAGATTTATCGGATCA 60.164 40.000 0.00 0.00 0.00 2.92
2419 5932 6.329496 GTTGGCAAAAGATTTATCGGATCAA 58.671 36.000 0.00 0.00 0.00 2.57
2420 5933 6.135290 TGGCAAAAGATTTATCGGATCAAG 57.865 37.500 0.00 0.00 0.00 3.02
2421 5934 5.885352 TGGCAAAAGATTTATCGGATCAAGA 59.115 36.000 0.00 0.00 0.00 3.02
2422 5935 6.547141 TGGCAAAAGATTTATCGGATCAAGAT 59.453 34.615 0.00 7.84 0.00 2.40
2423 5936 7.719193 TGGCAAAAGATTTATCGGATCAAGATA 59.281 33.333 0.00 6.16 0.00 1.98
2424 5937 8.734386 GGCAAAAGATTTATCGGATCAAGATAT 58.266 33.333 9.89 0.07 31.49 1.63
2432 5945 2.965147 TCGGATCAAGATATGCACCTCA 59.035 45.455 0.00 0.00 0.00 3.86
2436 5949 3.920231 TCAAGATATGCACCTCAGCTT 57.080 42.857 0.00 0.00 34.99 3.74
2459 5972 8.760569 GCTTAGTAGATCTCTTAGCAAAATGAC 58.239 37.037 19.39 2.97 0.00 3.06
2546 6059 0.250513 AGCTACTAACTGGCTGCCAC 59.749 55.000 19.30 5.33 34.82 5.01
2556 6069 2.743928 GCTGCCACGACCCTTCTG 60.744 66.667 0.00 0.00 0.00 3.02
2592 6105 5.464389 GCATTTCATCTTCCATAATTGGCAC 59.536 40.000 0.00 0.00 43.29 5.01
2671 6184 4.096081 GGATGCTCTGAAGTTGAATGAAGG 59.904 45.833 0.00 0.00 0.00 3.46
2768 6281 9.736023 ATTGAACATTGTTTTAGAGAGACAAAC 57.264 29.630 3.08 0.00 36.91 2.93
2779 6292 0.240945 GAGACAAACATGGTTGCCCG 59.759 55.000 23.39 0.00 31.29 6.13
2812 6327 2.701551 CTATGGGAGGGGTAATCCACA 58.298 52.381 0.00 0.00 40.18 4.17
2836 6351 2.094762 GTGTGGTCATGTACACCTCC 57.905 55.000 16.10 1.21 40.90 4.30
2858 6373 8.401709 CCTCCTAGTTTTATTCTCAATGCTTTC 58.598 37.037 0.00 0.00 0.00 2.62
2859 6374 8.862325 TCCTAGTTTTATTCTCAATGCTTTCA 57.138 30.769 0.00 0.00 0.00 2.69
2864 6379 9.768662 AGTTTTATTCTCAATGCTTTCACAAAT 57.231 25.926 0.00 0.00 0.00 2.32
2914 6429 1.087501 GACATGAAGGCTTTCCCGTC 58.912 55.000 6.06 8.64 41.84 4.79
3018 6533 3.074412 CGATGTGGTATCATTAAGGCCC 58.926 50.000 0.00 0.00 0.00 5.80
3038 6553 2.413239 CCACATCACGCACAATGTTCTC 60.413 50.000 0.00 0.00 33.92 2.87
3183 6699 1.332686 CATTGGTGCCATCATCACTCG 59.667 52.381 0.00 0.00 32.04 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 68 5.007724 GGCTTTAGTTATCAATCTGAACCGG 59.992 44.000 0.00 0.00 0.00 5.28
234 243 5.875910 ACCCGAATGTATGACAAATACGAAA 59.124 36.000 0.00 0.00 0.00 3.46
235 244 5.421277 ACCCGAATGTATGACAAATACGAA 58.579 37.500 0.00 0.00 0.00 3.85
236 245 5.013568 ACCCGAATGTATGACAAATACGA 57.986 39.130 0.00 0.00 0.00 3.43
237 246 5.555631 CGAACCCGAATGTATGACAAATACG 60.556 44.000 0.00 0.00 38.22 3.06
238 247 5.292589 ACGAACCCGAATGTATGACAAATAC 59.707 40.000 0.00 0.00 39.50 1.89
239 248 5.421277 ACGAACCCGAATGTATGACAAATA 58.579 37.500 0.00 0.00 39.50 1.40
241 250 3.666274 ACGAACCCGAATGTATGACAAA 58.334 40.909 0.00 0.00 39.50 2.83
242 251 3.322211 ACGAACCCGAATGTATGACAA 57.678 42.857 0.00 0.00 39.50 3.18
243 252 4.659111 ATACGAACCCGAATGTATGACA 57.341 40.909 0.00 0.00 39.50 3.58
244 253 5.521010 TCAAATACGAACCCGAATGTATGAC 59.479 40.000 0.00 0.00 39.50 3.06
255 292 4.755123 CCCACTATGATCAAATACGAACCC 59.245 45.833 0.00 0.00 0.00 4.11
268 305 4.041198 CCGGTTATGTTACCCCACTATGAT 59.959 45.833 0.00 0.00 34.56 2.45
270 307 3.135167 ACCGGTTATGTTACCCCACTATG 59.865 47.826 0.00 0.00 34.56 2.23
271 308 3.387012 ACCGGTTATGTTACCCCACTAT 58.613 45.455 0.00 0.00 34.56 2.12
272 309 2.831565 ACCGGTTATGTTACCCCACTA 58.168 47.619 0.00 0.00 34.56 2.74
274 311 3.270027 GTTACCGGTTATGTTACCCCAC 58.730 50.000 15.04 0.00 34.56 4.61
275 312 2.909006 TGTTACCGGTTATGTTACCCCA 59.091 45.455 15.04 0.00 34.56 4.96
276 313 3.625649 TGTTACCGGTTATGTTACCCC 57.374 47.619 15.04 0.00 34.56 4.95
277 314 7.670364 AGTATATGTTACCGGTTATGTTACCC 58.330 38.462 15.04 0.00 34.56 3.69
278 315 8.981647 CAAGTATATGTTACCGGTTATGTTACC 58.018 37.037 15.04 0.00 34.72 2.85
280 317 8.149647 CCCAAGTATATGTTACCGGTTATGTTA 58.850 37.037 15.04 0.00 0.00 2.41
281 318 6.993902 CCCAAGTATATGTTACCGGTTATGTT 59.006 38.462 15.04 0.14 0.00 2.71
286 1035 4.718276 AGTCCCAAGTATATGTTACCGGTT 59.282 41.667 15.04 0.00 0.00 4.44
290 1039 6.415206 TGCTAGTCCCAAGTATATGTTACC 57.585 41.667 0.00 0.00 0.00 2.85
291 1040 7.767198 TGTTTGCTAGTCCCAAGTATATGTTAC 59.233 37.037 0.00 0.00 0.00 2.50
293 1042 6.717289 TGTTTGCTAGTCCCAAGTATATGTT 58.283 36.000 0.00 0.00 0.00 2.71
295 1044 6.293626 GCATGTTTGCTAGTCCCAAGTATATG 60.294 42.308 0.00 0.00 45.77 1.78
298 1047 3.947834 GCATGTTTGCTAGTCCCAAGTAT 59.052 43.478 0.00 0.00 45.77 2.12
312 1061 2.988493 GTGTGCCACATAAGCATGTTTG 59.012 45.455 0.00 0.00 42.98 2.93
314 1063 2.237643 TGTGTGCCACATAAGCATGTT 58.762 42.857 0.00 0.00 42.98 2.71
315 1064 1.908344 TGTGTGCCACATAAGCATGT 58.092 45.000 0.00 0.00 46.58 3.21
316 1065 3.513680 ATTGTGTGCCACATAAGCATG 57.486 42.857 12.58 0.00 44.16 4.06
317 1066 5.657826 TTAATTGTGTGCCACATAAGCAT 57.342 34.783 12.58 4.64 44.16 3.79
318 1067 5.242615 TCTTTAATTGTGTGCCACATAAGCA 59.757 36.000 12.58 0.00 44.16 3.91
320 1069 7.592938 TCTTCTTTAATTGTGTGCCACATAAG 58.407 34.615 12.58 0.00 44.16 1.73
322 1071 6.939730 TCTCTTCTTTAATTGTGTGCCACATA 59.060 34.615 0.00 0.00 44.16 2.29
323 1072 5.769662 TCTCTTCTTTAATTGTGTGCCACAT 59.230 36.000 0.00 0.00 44.16 3.21
324 1073 5.129634 TCTCTTCTTTAATTGTGTGCCACA 58.870 37.500 0.00 0.00 43.02 4.17
325 1074 5.470098 TCTCTCTTCTTTAATTGTGTGCCAC 59.530 40.000 0.00 0.00 34.56 5.01
326 1075 5.620206 TCTCTCTTCTTTAATTGTGTGCCA 58.380 37.500 0.00 0.00 0.00 4.92
327 1076 5.934625 TCTCTCTCTTCTTTAATTGTGTGCC 59.065 40.000 0.00 0.00 0.00 5.01
328 1077 6.091986 CCTCTCTCTCTTCTTTAATTGTGTGC 59.908 42.308 0.00 0.00 0.00 4.57
331 1080 5.584251 GCCCTCTCTCTCTTCTTTAATTGTG 59.416 44.000 0.00 0.00 0.00 3.33
335 1084 6.678547 TCTAGCCCTCTCTCTCTTCTTTAAT 58.321 40.000 0.00 0.00 0.00 1.40
337 1086 5.192923 ACTCTAGCCCTCTCTCTCTTCTTTA 59.807 44.000 0.00 0.00 0.00 1.85
339 1088 3.527665 ACTCTAGCCCTCTCTCTCTTCTT 59.472 47.826 0.00 0.00 0.00 2.52
341 1090 3.577805 ACTCTAGCCCTCTCTCTCTTC 57.422 52.381 0.00 0.00 0.00 2.87
342 1091 4.228666 TGTTACTCTAGCCCTCTCTCTCTT 59.771 45.833 0.00 0.00 0.00 2.85
343 1092 3.783642 TGTTACTCTAGCCCTCTCTCTCT 59.216 47.826 0.00 0.00 0.00 3.10
344 1093 4.159244 TGTTACTCTAGCCCTCTCTCTC 57.841 50.000 0.00 0.00 0.00 3.20
345 1094 4.806952 ATGTTACTCTAGCCCTCTCTCT 57.193 45.455 0.00 0.00 0.00 3.10
346 1095 5.007682 CCTATGTTACTCTAGCCCTCTCTC 58.992 50.000 0.00 0.00 0.00 3.20
348 1097 4.732065 ACCTATGTTACTCTAGCCCTCTC 58.268 47.826 0.00 0.00 0.00 3.20
349 1098 4.817874 ACCTATGTTACTCTAGCCCTCT 57.182 45.455 0.00 0.00 0.00 3.69
350 1099 5.878627 TCTACCTATGTTACTCTAGCCCTC 58.121 45.833 0.00 0.00 0.00 4.30
351 1100 5.926580 TCTACCTATGTTACTCTAGCCCT 57.073 43.478 0.00 0.00 0.00 5.19
352 1101 6.602803 GGTATCTACCTATGTTACTCTAGCCC 59.397 46.154 0.00 0.00 43.10 5.19
354 1103 8.810990 ATGGTATCTACCTATGTTACTCTAGC 57.189 38.462 7.84 0.00 46.58 3.42
381 1211 9.838975 CACAAAGTAGCATAACATTTAACATGA 57.161 29.630 0.00 0.00 0.00 3.07
383 1213 9.840427 GACACAAAGTAGCATAACATTTAACAT 57.160 29.630 0.00 0.00 0.00 2.71
384 1214 8.841300 TGACACAAAGTAGCATAACATTTAACA 58.159 29.630 0.00 0.00 0.00 2.41
385 1215 9.840427 ATGACACAAAGTAGCATAACATTTAAC 57.160 29.630 0.00 0.00 0.00 2.01
386 1216 9.838975 CATGACACAAAGTAGCATAACATTTAA 57.161 29.630 0.00 0.00 0.00 1.52
388 1218 6.808212 GCATGACACAAAGTAGCATAACATTT 59.192 34.615 0.00 0.00 0.00 2.32
389 1219 6.072008 TGCATGACACAAAGTAGCATAACATT 60.072 34.615 0.00 0.00 30.65 2.71
390 1220 5.415389 TGCATGACACAAAGTAGCATAACAT 59.585 36.000 0.00 0.00 30.65 2.71
391 1221 4.759183 TGCATGACACAAAGTAGCATAACA 59.241 37.500 0.00 0.00 30.65 2.41
392 1222 5.295431 TGCATGACACAAAGTAGCATAAC 57.705 39.130 0.00 0.00 30.65 1.89
394 1224 4.336153 CCATGCATGACACAAAGTAGCATA 59.664 41.667 28.31 0.00 39.67 3.14
396 1226 2.488937 CCATGCATGACACAAAGTAGCA 59.511 45.455 28.31 0.00 37.13 3.49
397 1227 2.733227 GCCATGCATGACACAAAGTAGC 60.733 50.000 28.31 14.15 0.00 3.58
398 1228 2.488937 TGCCATGCATGACACAAAGTAG 59.511 45.455 28.31 8.01 31.71 2.57
399 1229 2.512705 TGCCATGCATGACACAAAGTA 58.487 42.857 28.31 5.91 31.71 2.24
400 1230 1.330234 TGCCATGCATGACACAAAGT 58.670 45.000 28.31 0.00 31.71 2.66
401 1231 2.442212 TTGCCATGCATGACACAAAG 57.558 45.000 28.31 10.23 38.76 2.77
403 1233 4.532314 TTTATTGCCATGCATGACACAA 57.468 36.364 28.31 25.14 38.76 3.33
405 1235 6.448852 TCATATTTATTGCCATGCATGACAC 58.551 36.000 28.31 16.49 38.76 3.67
407 1237 7.317390 TGATCATATTTATTGCCATGCATGAC 58.683 34.615 28.31 17.77 38.76 3.06
408 1238 7.469537 TGATCATATTTATTGCCATGCATGA 57.530 32.000 28.31 8.76 38.76 3.07
409 1239 8.197439 AGATGATCATATTTATTGCCATGCATG 58.803 33.333 20.19 20.19 38.76 4.06
441 1271 8.870116 TCATGGTGCATAGTATCATAAAGTACT 58.130 33.333 0.00 0.00 35.47 2.73
444 1274 8.978874 TTTCATGGTGCATAGTATCATAAAGT 57.021 30.769 0.00 0.00 0.00 2.66
447 1277 9.710900 CTACTTTCATGGTGCATAGTATCATAA 57.289 33.333 0.00 0.00 0.00 1.90
456 1286 6.427853 GCATGATACTACTTTCATGGTGCATA 59.572 38.462 13.12 0.00 45.99 3.14
458 1288 4.576053 GCATGATACTACTTTCATGGTGCA 59.424 41.667 13.12 0.00 45.99 4.57
460 1290 5.819379 AGTGCATGATACTACTTTCATGGTG 59.181 40.000 13.12 0.00 45.99 4.17
462 1292 7.212976 ACTAGTGCATGATACTACTTTCATGG 58.787 38.462 13.12 1.40 45.99 3.66
508 1338 7.777910 GGCTAGTCATAGTGGAGAGTATCATAT 59.222 40.741 0.00 0.00 37.82 1.78
509 1339 7.037225 AGGCTAGTCATAGTGGAGAGTATCATA 60.037 40.741 0.00 0.00 37.82 2.15
510 1340 5.949354 GGCTAGTCATAGTGGAGAGTATCAT 59.051 44.000 0.00 0.00 37.82 2.45
511 1341 5.073827 AGGCTAGTCATAGTGGAGAGTATCA 59.926 44.000 0.00 0.00 37.82 2.15
512 1342 5.566469 AGGCTAGTCATAGTGGAGAGTATC 58.434 45.833 0.00 0.00 0.00 2.24
513 1343 5.592587 AGGCTAGTCATAGTGGAGAGTAT 57.407 43.478 0.00 0.00 0.00 2.12
514 1344 6.511017 TTAGGCTAGTCATAGTGGAGAGTA 57.489 41.667 0.00 0.00 0.00 2.59
515 1345 3.963476 AGGCTAGTCATAGTGGAGAGT 57.037 47.619 0.00 0.00 0.00 3.24
516 1346 4.217550 GCTTAGGCTAGTCATAGTGGAGAG 59.782 50.000 0.00 0.00 35.22 3.20
517 1347 4.145807 GCTTAGGCTAGTCATAGTGGAGA 58.854 47.826 0.00 0.00 35.22 3.71
518 1348 3.057876 CGCTTAGGCTAGTCATAGTGGAG 60.058 52.174 0.00 0.00 36.09 3.86
519 1349 2.885266 CGCTTAGGCTAGTCATAGTGGA 59.115 50.000 0.00 0.00 36.09 4.02
520 1350 2.623889 ACGCTTAGGCTAGTCATAGTGG 59.376 50.000 12.14 2.42 36.09 4.00
521 1351 3.304794 GGACGCTTAGGCTAGTCATAGTG 60.305 52.174 12.69 8.07 32.84 2.74
522 1352 2.885894 GGACGCTTAGGCTAGTCATAGT 59.114 50.000 12.69 2.03 32.84 2.12
523 1353 2.095668 CGGACGCTTAGGCTAGTCATAG 60.096 54.545 12.69 1.10 32.84 2.23
524 1354 1.878088 CGGACGCTTAGGCTAGTCATA 59.122 52.381 12.69 0.00 32.84 2.15
525 1355 0.669077 CGGACGCTTAGGCTAGTCAT 59.331 55.000 12.69 0.00 32.84 3.06
526 1356 2.001361 GCGGACGCTTAGGCTAGTCA 62.001 60.000 9.76 0.00 38.26 3.41
527 1357 1.299240 GCGGACGCTTAGGCTAGTC 60.299 63.158 9.76 4.31 38.26 2.59
528 1358 1.392710 ATGCGGACGCTTAGGCTAGT 61.393 55.000 18.04 0.00 42.51 2.57
529 1359 0.249489 AATGCGGACGCTTAGGCTAG 60.249 55.000 18.04 0.00 42.51 3.42
530 1360 0.529773 CAATGCGGACGCTTAGGCTA 60.530 55.000 18.04 0.00 42.51 3.93
531 1361 1.815421 CAATGCGGACGCTTAGGCT 60.815 57.895 18.04 0.00 42.51 4.58
601 1431 5.808366 TCTCAGCCGATACTAATTGGAAT 57.192 39.130 0.00 0.00 38.82 3.01
704 1534 5.508200 AAAAAGAAAACAGCATGGTACGA 57.492 34.783 0.00 0.00 27.21 3.43
742 2629 3.282021 CCCCCAACAAGTCATGATACTG 58.718 50.000 0.00 0.00 0.00 2.74
915 2809 8.122952 CCTCGTCTCAATTGGAAATTTATACAC 58.877 37.037 5.42 0.00 0.00 2.90
916 2810 8.044309 TCCTCGTCTCAATTGGAAATTTATACA 58.956 33.333 5.42 0.00 0.00 2.29
917 2811 8.433421 TCCTCGTCTCAATTGGAAATTTATAC 57.567 34.615 5.42 0.00 0.00 1.47
977 2871 1.697772 CCTCTCGACTCTCGACCACG 61.698 65.000 0.00 0.00 44.82 4.94
1093 2987 3.319198 TCGGAGGTCCTTGTGCCC 61.319 66.667 0.00 0.00 0.00 5.36
1233 3127 4.593864 GCCGAGGAGATGTCCCGC 62.594 72.222 5.02 1.25 45.26 6.13
1246 3140 2.741092 GGCCTTGGATATCGCCGA 59.259 61.111 0.00 0.00 0.00 5.54
1464 3383 2.186826 GTTGTTCACCAGCACGCCT 61.187 57.895 0.00 0.00 0.00 5.52
1713 3632 1.172180 TGCTGTACTTGGCAGTTGGC 61.172 55.000 0.00 0.00 43.74 4.52
1714 3633 3.019964 TGCTGTACTTGGCAGTTGG 57.980 52.632 0.00 0.00 36.42 3.77
1719 3638 0.684535 TAGTGCTGCTGTACTTGGCA 59.315 50.000 18.65 0.00 39.73 4.92
1720 3639 1.363744 CTAGTGCTGCTGTACTTGGC 58.636 55.000 18.65 0.00 39.73 4.52
1721 3640 1.363744 GCTAGTGCTGCTGTACTTGG 58.636 55.000 18.65 12.99 39.73 3.61
1728 3647 6.138811 GCATATGCTTAGCTAGTGCTGCTG 62.139 50.000 20.64 13.33 43.31 4.41
1729 3648 4.111541 GCATATGCTTAGCTAGTGCTGCT 61.112 47.826 20.64 0.00 43.31 4.24
1730 3649 2.159234 GCATATGCTTAGCTAGTGCTGC 59.841 50.000 20.64 15.42 43.31 5.25
1731 3650 3.186001 GTGCATATGCTTAGCTAGTGCTG 59.814 47.826 27.13 11.11 45.32 4.41
1732 3651 3.397482 GTGCATATGCTTAGCTAGTGCT 58.603 45.455 27.13 0.00 46.51 4.40
1733 3652 2.156504 CGTGCATATGCTTAGCTAGTGC 59.843 50.000 27.13 16.66 42.66 4.40
1734 3653 3.384668 ACGTGCATATGCTTAGCTAGTG 58.615 45.455 27.13 9.43 42.66 2.74
1735 3654 3.735237 ACGTGCATATGCTTAGCTAGT 57.265 42.857 27.13 13.44 42.66 2.57
1736 3655 3.604198 CGTACGTGCATATGCTTAGCTAG 59.396 47.826 27.13 12.88 42.66 3.42
1737 3656 3.004002 ACGTACGTGCATATGCTTAGCTA 59.996 43.478 27.13 4.09 42.66 3.32
1738 3657 2.223735 ACGTACGTGCATATGCTTAGCT 60.224 45.455 27.13 8.80 42.66 3.32
1739 3658 2.124903 ACGTACGTGCATATGCTTAGC 58.875 47.619 27.13 13.90 42.66 3.09
1740 3659 4.534168 AGTACGTACGTGCATATGCTTAG 58.466 43.478 32.81 19.43 42.66 2.18
1741 3660 4.530388 GAGTACGTACGTGCATATGCTTA 58.470 43.478 32.81 13.45 42.66 3.09
1742 3661 3.369385 GAGTACGTACGTGCATATGCTT 58.631 45.455 32.81 14.50 42.66 3.91
1743 3662 2.287427 GGAGTACGTACGTGCATATGCT 60.287 50.000 32.81 15.18 42.66 3.79
1744 3663 2.049228 GGAGTACGTACGTGCATATGC 58.951 52.381 32.81 21.09 42.50 3.14
1745 3664 3.343380 TGGAGTACGTACGTGCATATG 57.657 47.619 32.81 0.00 33.14 1.78
1746 3665 3.305131 CCATGGAGTACGTACGTGCATAT 60.305 47.826 32.81 21.61 33.14 1.78
1749 3668 0.171679 CCATGGAGTACGTACGTGCA 59.828 55.000 32.81 18.41 33.14 4.57
1758 3677 2.162408 GTGCTCTTTTGCCATGGAGTAC 59.838 50.000 18.40 8.66 35.21 2.73
1767 3686 2.670509 GCTTCATGAGTGCTCTTTTGCC 60.671 50.000 13.39 0.00 0.00 4.52
1768 3687 2.030540 TGCTTCATGAGTGCTCTTTTGC 60.031 45.455 18.98 4.68 0.00 3.68
1769 3688 3.909776 TGCTTCATGAGTGCTCTTTTG 57.090 42.857 18.98 0.00 0.00 2.44
1770 3689 3.887716 AGTTGCTTCATGAGTGCTCTTTT 59.112 39.130 18.98 3.59 0.00 2.27
1777 3747 5.230726 GTGAAACAAAGTTGCTTCATGAGTG 59.769 40.000 11.78 0.00 42.88 3.51
1789 3759 3.491447 GCTGCATGGAGTGAAACAAAGTT 60.491 43.478 16.22 0.00 41.43 2.66
1796 3784 1.001974 ACGTAGCTGCATGGAGTGAAA 59.998 47.619 16.22 0.00 0.00 2.69
1908 5351 4.389992 CCGTGGCAGTGCATATAGATTTAG 59.610 45.833 18.61 0.00 0.00 1.85
1933 5380 3.066291 TGTTATTAGTGGCAGTGTGGG 57.934 47.619 4.76 0.00 0.00 4.61
1938 5385 7.939039 ACATATAGCATTGTTATTAGTGGCAGT 59.061 33.333 0.00 0.00 0.00 4.40
1939 5386 8.327941 ACATATAGCATTGTTATTAGTGGCAG 57.672 34.615 0.00 0.00 0.00 4.85
1940 5387 9.435688 CTACATATAGCATTGTTATTAGTGGCA 57.564 33.333 0.00 0.00 0.00 4.92
1944 5391 9.436957 GTGCCTACATATAGCATTGTTATTAGT 57.563 33.333 0.00 1.71 0.00 2.24
1947 5394 6.371548 CGGTGCCTACATATAGCATTGTTATT 59.628 38.462 0.00 0.00 0.00 1.40
1956 5425 3.662247 AGAACGGTGCCTACATATAGC 57.338 47.619 0.00 0.00 0.00 2.97
2092 5561 4.263209 CGCAAGTTGGGCACGCAA 62.263 61.111 7.02 0.00 0.00 4.85
2245 5714 4.023980 TGCATGTGTAGCTTACTAGGTCT 58.976 43.478 0.00 0.00 33.36 3.85
2339 5852 3.786635 AGAATGTACGCTCATGACTTCC 58.213 45.455 0.00 0.00 0.00 3.46
2348 5861 3.186409 TGAACTTGCAAGAATGTACGCTC 59.814 43.478 32.50 13.27 0.00 5.03
2378 5891 3.305335 GCCAACCATGAGAACGACAAATT 60.305 43.478 0.00 0.00 0.00 1.82
2379 5892 2.228822 GCCAACCATGAGAACGACAAAT 59.771 45.455 0.00 0.00 0.00 2.32
2380 5893 1.606668 GCCAACCATGAGAACGACAAA 59.393 47.619 0.00 0.00 0.00 2.83
2381 5894 1.234821 GCCAACCATGAGAACGACAA 58.765 50.000 0.00 0.00 0.00 3.18
2386 5899 4.525912 ATCTTTTGCCAACCATGAGAAC 57.474 40.909 0.00 0.00 0.00 3.01
2389 5902 5.745294 CGATAAATCTTTTGCCAACCATGAG 59.255 40.000 0.00 0.00 0.00 2.90
2394 5907 4.712122 TCCGATAAATCTTTTGCCAACC 57.288 40.909 0.00 0.00 0.00 3.77
2410 5923 3.580022 TGAGGTGCATATCTTGATCCGAT 59.420 43.478 0.00 0.00 0.00 4.18
2417 5930 4.701765 ACTAAGCTGAGGTGCATATCTTG 58.298 43.478 2.29 0.00 34.99 3.02
2418 5931 5.835819 TCTACTAAGCTGAGGTGCATATCTT 59.164 40.000 2.29 0.00 34.99 2.40
2419 5932 5.389520 TCTACTAAGCTGAGGTGCATATCT 58.610 41.667 2.29 0.00 34.99 1.98
2420 5933 5.713792 TCTACTAAGCTGAGGTGCATATC 57.286 43.478 2.29 0.00 34.99 1.63
2421 5934 6.015918 AGATCTACTAAGCTGAGGTGCATAT 58.984 40.000 2.29 0.00 34.99 1.78
2422 5935 5.389520 AGATCTACTAAGCTGAGGTGCATA 58.610 41.667 2.29 0.00 34.99 3.14
2423 5936 4.222336 AGATCTACTAAGCTGAGGTGCAT 58.778 43.478 2.29 0.00 34.99 3.96
2424 5937 3.634448 GAGATCTACTAAGCTGAGGTGCA 59.366 47.826 2.29 0.00 34.99 4.57
2432 5945 8.700051 TCATTTTGCTAAGAGATCTACTAAGCT 58.300 33.333 15.69 0.00 33.18 3.74
2546 6059 4.559704 GCCAGTTATAGATCAGAAGGGTCG 60.560 50.000 0.00 0.00 0.00 4.79
2552 6065 8.435187 AGATGAAATGCCAGTTATAGATCAGAA 58.565 33.333 0.00 0.00 0.00 3.02
2556 6069 7.663081 TGGAAGATGAAATGCCAGTTATAGATC 59.337 37.037 0.00 0.00 0.00 2.75
2606 6119 9.676861 TCAGACTGAATCATGATTTTATCTTGT 57.323 29.630 21.57 11.69 36.26 3.16
2633 6146 2.165641 AGCATCCGTGACGATCAAACTA 59.834 45.455 6.54 0.00 0.00 2.24
2671 6184 0.464735 TGCAACCACCAGTGTGTACC 60.465 55.000 0.00 0.00 41.09 3.34
2686 6199 4.323417 ACAATCGTCTAGAATTGGTGCAA 58.677 39.130 17.48 0.00 0.00 4.08
2779 6292 4.323104 CCCTCCCATAGCTAGCTAAATCAC 60.323 50.000 27.47 0.00 31.73 3.06
2812 6327 1.000506 GTGTACATGACCACACCGTCT 59.999 52.381 14.82 0.00 39.30 4.18
2825 6340 8.375493 TGAGAATAAAACTAGGAGGTGTACAT 57.625 34.615 0.00 0.00 0.00 2.29
2826 6341 7.786046 TGAGAATAAAACTAGGAGGTGTACA 57.214 36.000 0.00 0.00 0.00 2.90
2827 6342 9.099454 CATTGAGAATAAAACTAGGAGGTGTAC 57.901 37.037 0.00 0.00 0.00 2.90
2836 6351 9.897744 TTGTGAAAGCATTGAGAATAAAACTAG 57.102 29.630 0.00 0.00 0.00 2.57
2858 6373 9.681692 TCTCAAATCAAACTTACATCATTTGTG 57.318 29.630 0.00 0.00 39.48 3.33
2896 6411 0.400213 TGACGGGAAAGCCTTCATGT 59.600 50.000 0.00 0.00 32.75 3.21
2921 6436 4.460731 GCATAGGGCTTTTGTCTTCTTCTT 59.539 41.667 0.00 0.00 40.25 2.52
2922 6437 4.013050 GCATAGGGCTTTTGTCTTCTTCT 58.987 43.478 0.00 0.00 40.25 2.85
2923 6438 3.129462 GGCATAGGGCTTTTGTCTTCTTC 59.871 47.826 0.00 0.00 44.01 2.87
2924 6439 3.092301 GGCATAGGGCTTTTGTCTTCTT 58.908 45.455 0.00 0.00 44.01 2.52
2925 6440 2.728007 GGCATAGGGCTTTTGTCTTCT 58.272 47.619 0.00 0.00 44.01 2.85
2941 6456 4.566488 GGGATGATATTTTCGAGGAGGCAT 60.566 45.833 0.00 0.00 0.00 4.40
2988 6503 9.438291 CTTAATGATACCACATCGAAAACAATC 57.562 33.333 0.00 0.00 0.00 2.67
3018 6533 2.223845 TGAGAACATTGTGCGTGATGTG 59.776 45.455 0.00 0.00 36.65 3.21
3038 6553 7.015226 TCGTAATGCTTACAATGAAAGGATG 57.985 36.000 0.00 0.00 35.48 3.51
3090 6606 8.542497 TTTGTATTCGTCTTTTAGTGCATACT 57.458 30.769 0.00 0.00 40.99 2.12
3125 6641 6.257630 CCACAAATTCGAGTTTGTTGGAAAAT 59.742 34.615 29.63 9.14 46.96 1.82
3171 6687 3.801698 ACTCAAATCCGAGTGATGATGG 58.198 45.455 0.00 0.00 44.59 3.51


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

AutoCloner maintained by Alex Coulton.