Multiple sequence alignment - TraesCS2D01G162600

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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 TraesCS2D01G162600 chr2D 100.000 2564 0 0 1 2564 106972424 106969861 0.000000e+00 4735.0
1 TraesCS2D01G162600 chr2D 88.780 205 19 4 1 204 98716695 98716896 5.480000e-62 248.0
2 TraesCS2D01G162600 chr2B 88.686 1644 99 44 451 2043 157285354 157283747 0.000000e+00 1925.0
3 TraesCS2D01G162600 chr2B 87.156 327 23 6 2245 2564 157283085 157282771 1.130000e-93 353.0
4 TraesCS2D01G162600 chr2B 81.416 113 7 7 296 407 157286270 157286171 2.110000e-11 80.5
5 TraesCS2D01G162600 chr2A 88.531 1491 81 33 445 1888 103355936 103354489 0.000000e+00 1724.0
6 TraesCS2D01G162600 chr2A 94.373 391 16 3 1890 2279 103354456 103354071 1.700000e-166 595.0
7 TraesCS2D01G162600 chr2A 94.931 217 11 0 2348 2564 103354073 103353857 8.790000e-90 340.0
8 TraesCS2D01G162600 chr2A 87.281 228 22 4 1 224 424545858 424545634 1.180000e-63 254.0
9 TraesCS2D01G162600 chr6D 85.581 430 32 8 1717 2119 208836329 208836755 8.480000e-115 424.0
10 TraesCS2D01G162600 chr3D 92.105 228 12 3 1 224 343278976 343278751 1.480000e-82 316.0
11 TraesCS2D01G162600 chr1D 89.912 228 15 3 1 224 397392469 397392246 1.160000e-73 287.0
12 TraesCS2D01G162600 chr1B 89.623 212 16 3 1 207 580568363 580568573 5.440000e-67 265.0
13 TraesCS2D01G162600 chr5A 91.398 186 12 2 11 192 52881074 52881259 4.230000e-63 252.0
14 TraesCS2D01G162600 chr5A 77.515 169 26 5 251 407 584944700 584944868 9.770000e-15 91.6
15 TraesCS2D01G162600 chr7A 90.556 180 13 3 11 188 530518754 530518931 4.270000e-58 235.0
16 TraesCS2D01G162600 chr7D 88.679 53 4 2 343 395 123150489 123150539 2.130000e-06 63.9


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G162600 chr2D 106969861 106972424 2563 True 4735.000000 4735 100.000000 1 2564 1 chr2D.!!$R1 2563
1 TraesCS2D01G162600 chr2B 157282771 157286270 3499 True 786.166667 1925 85.752667 296 2564 3 chr2B.!!$R1 2268
2 TraesCS2D01G162600 chr2A 103353857 103355936 2079 True 886.333333 1724 92.611667 445 2564 3 chr2A.!!$R2 2119

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
169 170 0.038892 AAGAAAAGTAGGCGACGCGA 60.039 50.0 15.93 0.67 0.0 5.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1610 2419 0.311477 GAAAAAGTAAACCGCCGCCA 59.689 50.0 0.0 0.0 0.0 5.69 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
108 109 9.959749 TTTATGGAAAATTTACGAGCATATTCC 57.040 29.630 0.00 0.00 36.48 3.01
109 110 6.385649 TGGAAAATTTACGAGCATATTCCC 57.614 37.500 0.00 0.00 35.36 3.97
110 111 6.126409 TGGAAAATTTACGAGCATATTCCCT 58.874 36.000 0.00 0.00 35.36 4.20
111 112 6.262273 TGGAAAATTTACGAGCATATTCCCTC 59.738 38.462 0.00 0.00 35.36 4.30
112 113 6.294010 GGAAAATTTACGAGCATATTCCCTCC 60.294 42.308 0.00 0.00 31.13 4.30
113 114 4.974645 ATTTACGAGCATATTCCCTCCA 57.025 40.909 0.00 0.00 0.00 3.86
114 115 4.974645 TTTACGAGCATATTCCCTCCAT 57.025 40.909 0.00 0.00 0.00 3.41
115 116 4.974645 TTACGAGCATATTCCCTCCATT 57.025 40.909 0.00 0.00 0.00 3.16
116 117 3.864789 ACGAGCATATTCCCTCCATTT 57.135 42.857 0.00 0.00 0.00 2.32
117 118 4.170468 ACGAGCATATTCCCTCCATTTT 57.830 40.909 0.00 0.00 0.00 1.82
118 119 4.536765 ACGAGCATATTCCCTCCATTTTT 58.463 39.130 0.00 0.00 0.00 1.94
135 136 2.307934 TTTTGCCCTGAAACAACAGC 57.692 45.000 0.00 0.00 36.67 4.40
136 137 1.484038 TTTGCCCTGAAACAACAGCT 58.516 45.000 0.00 0.00 36.67 4.24
137 138 1.032014 TTGCCCTGAAACAACAGCTC 58.968 50.000 0.00 0.00 36.67 4.09
138 139 0.106769 TGCCCTGAAACAACAGCTCA 60.107 50.000 0.00 0.00 36.67 4.26
139 140 0.595095 GCCCTGAAACAACAGCTCAG 59.405 55.000 0.00 0.00 37.03 3.35
140 141 0.595095 CCCTGAAACAACAGCTCAGC 59.405 55.000 0.00 0.00 36.14 4.26
141 142 1.311859 CCTGAAACAACAGCTCAGCA 58.688 50.000 0.00 0.00 36.14 4.41
142 143 1.266175 CCTGAAACAACAGCTCAGCAG 59.734 52.381 0.00 0.00 36.14 4.24
143 144 2.216046 CTGAAACAACAGCTCAGCAGA 58.784 47.619 0.00 0.00 30.91 4.26
144 145 2.615447 CTGAAACAACAGCTCAGCAGAA 59.385 45.455 0.00 0.00 30.91 3.02
145 146 3.016031 TGAAACAACAGCTCAGCAGAAA 58.984 40.909 0.00 0.00 0.00 2.52
146 147 3.443329 TGAAACAACAGCTCAGCAGAAAA 59.557 39.130 0.00 0.00 0.00 2.29
147 148 4.082300 TGAAACAACAGCTCAGCAGAAAAA 60.082 37.500 0.00 0.00 0.00 1.94
167 168 2.963498 AAAAGAAAAGTAGGCGACGC 57.037 45.000 12.43 12.43 0.00 5.19
168 169 0.788391 AAAGAAAAGTAGGCGACGCG 59.212 50.000 14.61 3.53 0.00 6.01
169 170 0.038892 AAGAAAAGTAGGCGACGCGA 60.039 50.000 15.93 0.67 0.00 5.87
170 171 0.731855 AGAAAAGTAGGCGACGCGAC 60.732 55.000 15.93 14.18 33.59 5.19
172 173 0.319297 AAAAGTAGGCGACGCGACTT 60.319 50.000 24.80 24.80 46.07 3.01
173 174 1.007336 AAAGTAGGCGACGCGACTTG 61.007 55.000 28.60 0.00 46.07 3.16
174 175 1.859427 AAGTAGGCGACGCGACTTGA 61.859 55.000 27.82 4.38 46.07 3.02
175 176 1.226603 GTAGGCGACGCGACTTGAT 60.227 57.895 15.93 0.00 46.07 2.57
176 177 1.063649 TAGGCGACGCGACTTGATC 59.936 57.895 15.93 0.00 46.07 2.92
177 178 2.642249 TAGGCGACGCGACTTGATCG 62.642 60.000 15.93 12.18 46.07 3.69
185 186 3.594762 GACTTGATCGAGCGAGCG 58.405 61.111 17.82 0.00 32.52 5.03
186 187 1.062685 GACTTGATCGAGCGAGCGA 59.937 57.895 17.82 0.72 45.22 4.93
187 188 0.927994 GACTTGATCGAGCGAGCGAG 60.928 60.000 17.82 20.23 44.94 5.03
188 189 1.063327 CTTGATCGAGCGAGCGAGT 59.937 57.895 15.23 0.00 44.26 4.18
189 190 1.199229 CTTGATCGAGCGAGCGAGTG 61.199 60.000 15.23 0.00 44.26 3.51
190 191 1.644786 TTGATCGAGCGAGCGAGTGA 61.645 55.000 3.63 0.00 44.26 3.41
191 192 1.281353 GATCGAGCGAGCGAGTGAT 59.719 57.895 6.24 0.00 44.26 3.06
192 193 0.996229 GATCGAGCGAGCGAGTGATG 60.996 60.000 6.24 0.00 44.26 3.07
193 194 2.997621 ATCGAGCGAGCGAGTGATGC 62.998 60.000 6.24 0.00 44.26 3.91
194 195 3.318555 GAGCGAGCGAGTGATGCG 61.319 66.667 0.00 0.00 37.44 4.73
213 214 4.214327 GGGAGCGAGGGAGCGAAG 62.214 72.222 0.00 0.00 43.00 3.79
214 215 4.214327 GGAGCGAGGGAGCGAAGG 62.214 72.222 0.00 0.00 43.00 3.46
215 216 3.453679 GAGCGAGGGAGCGAAGGT 61.454 66.667 0.00 0.00 46.54 3.50
216 217 2.044252 AGCGAGGGAGCGAAGGTA 60.044 61.111 0.00 0.00 39.88 3.08
217 218 2.065906 GAGCGAGGGAGCGAAGGTAG 62.066 65.000 0.00 0.00 39.88 3.18
218 219 2.119655 GCGAGGGAGCGAAGGTAGA 61.120 63.158 0.00 0.00 39.88 2.59
219 220 2.026522 CGAGGGAGCGAAGGTAGAG 58.973 63.158 0.00 0.00 39.88 2.43
220 221 0.748729 CGAGGGAGCGAAGGTAGAGT 60.749 60.000 0.00 0.00 39.88 3.24
221 222 0.741915 GAGGGAGCGAAGGTAGAGTG 59.258 60.000 0.00 0.00 39.88 3.51
222 223 0.684805 AGGGAGCGAAGGTAGAGTGG 60.685 60.000 0.00 0.00 39.88 4.00
223 224 1.677637 GGGAGCGAAGGTAGAGTGGG 61.678 65.000 0.00 0.00 39.88 4.61
224 225 0.971447 GGAGCGAAGGTAGAGTGGGT 60.971 60.000 0.00 0.00 39.88 4.51
225 226 0.896226 GAGCGAAGGTAGAGTGGGTT 59.104 55.000 0.00 0.00 39.88 4.11
226 227 0.896226 AGCGAAGGTAGAGTGGGTTC 59.104 55.000 0.00 0.00 35.08 3.62
227 228 0.606604 GCGAAGGTAGAGTGGGTTCA 59.393 55.000 0.00 0.00 0.00 3.18
228 229 1.207329 GCGAAGGTAGAGTGGGTTCAT 59.793 52.381 0.00 0.00 0.00 2.57
229 230 2.738964 GCGAAGGTAGAGTGGGTTCATC 60.739 54.545 0.00 0.00 0.00 2.92
230 231 2.496070 CGAAGGTAGAGTGGGTTCATCA 59.504 50.000 0.00 0.00 0.00 3.07
231 232 3.056107 CGAAGGTAGAGTGGGTTCATCAA 60.056 47.826 0.00 0.00 0.00 2.57
232 233 4.562757 CGAAGGTAGAGTGGGTTCATCAAA 60.563 45.833 0.00 0.00 0.00 2.69
233 234 5.501156 GAAGGTAGAGTGGGTTCATCAAAT 58.499 41.667 0.00 0.00 0.00 2.32
234 235 5.520748 AGGTAGAGTGGGTTCATCAAATT 57.479 39.130 0.00 0.00 0.00 1.82
235 236 5.892348 AGGTAGAGTGGGTTCATCAAATTT 58.108 37.500 0.00 0.00 0.00 1.82
236 237 6.314917 AGGTAGAGTGGGTTCATCAAATTTT 58.685 36.000 0.00 0.00 0.00 1.82
237 238 6.782494 AGGTAGAGTGGGTTCATCAAATTTTT 59.218 34.615 0.00 0.00 0.00 1.94
238 239 7.947890 AGGTAGAGTGGGTTCATCAAATTTTTA 59.052 33.333 0.00 0.00 0.00 1.52
239 240 8.581578 GGTAGAGTGGGTTCATCAAATTTTTAA 58.418 33.333 0.00 0.00 0.00 1.52
240 241 9.974980 GTAGAGTGGGTTCATCAAATTTTTAAA 57.025 29.630 0.00 0.00 0.00 1.52
244 245 9.625747 AGTGGGTTCATCAAATTTTTAAAATGT 57.374 25.926 3.51 0.00 0.00 2.71
245 246 9.877137 GTGGGTTCATCAAATTTTTAAAATGTC 57.123 29.630 3.51 0.00 0.00 3.06
246 247 9.618890 TGGGTTCATCAAATTTTTAAAATGTCA 57.381 25.926 3.51 0.00 0.00 3.58
352 353 8.726650 ACAAATAACGTAAATAAAAACGGTCC 57.273 30.769 0.00 0.00 43.25 4.46
353 354 7.533561 ACAAATAACGTAAATAAAAACGGTCCG 59.466 33.333 10.48 10.48 43.25 4.79
355 356 3.658709 ACGTAAATAAAAACGGTCCGGA 58.341 40.909 17.28 0.00 43.25 5.14
356 357 4.061596 ACGTAAATAAAAACGGTCCGGAA 58.938 39.130 17.28 0.00 43.25 4.30
357 358 4.152223 ACGTAAATAAAAACGGTCCGGAAG 59.848 41.667 17.28 6.11 43.25 3.46
358 359 3.564235 AAATAAAAACGGTCCGGAAGC 57.436 42.857 17.28 0.00 0.00 3.86
359 360 2.484742 ATAAAAACGGTCCGGAAGCT 57.515 45.000 17.28 0.00 0.00 3.74
360 361 2.259266 TAAAAACGGTCCGGAAGCTT 57.741 45.000 17.28 0.00 0.00 3.74
361 362 1.395635 AAAAACGGTCCGGAAGCTTT 58.604 45.000 17.28 4.64 0.00 3.51
362 363 0.949397 AAAACGGTCCGGAAGCTTTC 59.051 50.000 17.28 0.00 0.00 2.62
363 364 0.179040 AAACGGTCCGGAAGCTTTCA 60.179 50.000 17.28 0.00 0.00 2.69
364 365 0.602905 AACGGTCCGGAAGCTTTCAG 60.603 55.000 17.28 0.00 0.00 3.02
365 366 1.292223 CGGTCCGGAAGCTTTCAGA 59.708 57.895 5.23 0.00 0.00 3.27
366 367 0.320421 CGGTCCGGAAGCTTTCAGAA 60.320 55.000 5.23 0.00 0.00 3.02
367 368 1.443802 GGTCCGGAAGCTTTCAGAAG 58.556 55.000 5.23 0.00 35.92 2.85
420 421 6.140968 GGAGCTTCCCCATAATAATAACCT 57.859 41.667 0.00 0.00 0.00 3.50
421 422 6.552932 GGAGCTTCCCCATAATAATAACCTT 58.447 40.000 0.00 0.00 0.00 3.50
423 424 7.509318 GGAGCTTCCCCATAATAATAACCTTTT 59.491 37.037 0.00 0.00 0.00 2.27
424 425 8.854237 AGCTTCCCCATAATAATAACCTTTTT 57.146 30.769 0.00 0.00 0.00 1.94
468 1242 2.695666 CCAGGAAGAAGAGATTCGCCTA 59.304 50.000 5.52 0.00 32.21 3.93
475 1249 3.129638 AGAAGAGATTCGCCTAGTGTGTC 59.870 47.826 0.00 0.00 0.00 3.67
476 1250 2.729194 AGAGATTCGCCTAGTGTGTCT 58.271 47.619 0.00 0.00 0.00 3.41
504 1282 1.027357 CGGCCCAATTTGATGAGAGG 58.973 55.000 0.00 0.00 0.00 3.69
510 1288 1.098050 AATTTGATGAGAGGGCACGC 58.902 50.000 0.00 0.00 0.00 5.34
540 1318 2.561478 AAAGGAAGAAACCAGCGCTA 57.439 45.000 10.99 0.00 0.00 4.26
644 1428 0.321671 GAACAGTGCAGCCCTCAGTA 59.678 55.000 0.00 0.00 0.00 2.74
652 1436 0.692419 CAGCCCTCAGTAGACCCCAT 60.692 60.000 0.00 0.00 0.00 4.00
665 1449 2.347114 CCCATCACTGACGGCACA 59.653 61.111 0.00 0.00 0.00 4.57
755 1551 1.672898 CCGTTAACGTCCTCCCCAA 59.327 57.895 25.15 0.00 37.74 4.12
756 1552 0.671472 CCGTTAACGTCCTCCCCAAC 60.671 60.000 25.15 0.00 37.74 3.77
758 1554 0.689055 GTTAACGTCCTCCCCAACCT 59.311 55.000 0.00 0.00 0.00 3.50
760 1556 1.252904 TAACGTCCTCCCCAACCTCG 61.253 60.000 0.00 0.00 0.00 4.63
761 1557 4.452733 CGTCCTCCCCAACCTCGC 62.453 72.222 0.00 0.00 0.00 5.03
763 1559 2.528127 TCCTCCCCAACCTCGCAA 60.528 61.111 0.00 0.00 0.00 4.85
764 1560 2.045926 CCTCCCCAACCTCGCAAG 60.046 66.667 0.00 0.00 0.00 4.01
765 1561 2.750350 CTCCCCAACCTCGCAAGT 59.250 61.111 0.00 0.00 39.48 3.16
776 1572 1.827315 CTCGCAAGTCGCAACGGAAA 61.827 55.000 0.00 0.00 42.60 3.13
790 1586 2.686816 GGAAACCACCGTGCCATCG 61.687 63.158 0.00 0.00 0.00 3.84
906 1702 1.369091 CCTCCTGTTCCAAATCCGCG 61.369 60.000 0.00 0.00 0.00 6.46
908 1704 1.674322 CCTGTTCCAAATCCGCGGT 60.674 57.895 27.15 10.00 0.00 5.68
928 1724 4.143389 CGGTACATCTCACGAGAAAAACAC 60.143 45.833 0.00 0.00 41.36 3.32
946 1742 1.098712 ACAGAACTCGCCGGCAAAAA 61.099 50.000 28.98 7.48 0.00 1.94
955 1751 1.581447 CCGGCAAAAAGACAGAGGC 59.419 57.895 0.00 0.00 0.00 4.70
962 1758 1.734655 AAAAGACAGAGGCTCCTCCA 58.265 50.000 11.71 0.00 43.70 3.86
1068 1868 4.575973 ATGCTGATGGCGAGGGGC 62.576 66.667 0.00 0.00 45.43 5.80
1511 2320 3.325753 GGAGAGGCCACAGCAGGT 61.326 66.667 5.01 0.00 42.56 4.00
1610 2419 1.448985 CGATTGGTTCGGTTCATGGT 58.551 50.000 0.00 0.00 44.28 3.55
1622 2431 2.748251 CATGGTGGCGGCGGTTTA 60.748 61.111 9.78 0.00 0.00 2.01
1633 2442 2.287129 GCGGCGGTTTACTTTTTCTTCA 60.287 45.455 9.78 0.00 0.00 3.02
1637 2446 4.915667 GGCGGTTTACTTTTTCTTCATCAC 59.084 41.667 0.00 0.00 0.00 3.06
1639 2448 5.278315 GCGGTTTACTTTTTCTTCATCACCT 60.278 40.000 0.00 0.00 0.00 4.00
1658 2467 4.986034 CACCTTCTTCGTTGTACATACACA 59.014 41.667 0.00 0.00 35.64 3.72
1680 2499 2.175202 GTTGCTGAAGAGGAGAGGAGA 58.825 52.381 0.00 0.00 0.00 3.71
1681 2500 2.142356 TGCTGAAGAGGAGAGGAGAG 57.858 55.000 0.00 0.00 0.00 3.20
1694 2513 0.990818 AGGAGAGGAGGAATTGGGGC 60.991 60.000 0.00 0.00 0.00 5.80
1726 2551 2.033801 ACATAATTGCGGAAGATGCTGC 59.966 45.455 12.44 0.00 40.58 5.25
1743 2568 2.160219 GCTGCGATGTCAATGAAACTGA 59.840 45.455 0.00 0.00 0.00 3.41
1744 2569 3.365264 GCTGCGATGTCAATGAAACTGAA 60.365 43.478 0.00 0.00 0.00 3.02
1749 2574 6.363088 TGCGATGTCAATGAAACTGAATTTTC 59.637 34.615 0.00 0.00 36.23 2.29
1751 2576 7.115378 GCGATGTCAATGAAACTGAATTTTCTT 59.885 33.333 0.00 0.00 36.58 2.52
1761 2587 9.793252 TGAAACTGAATTTTCTTTTCTTCAGAG 57.207 29.630 15.76 0.00 44.66 3.35
1774 2600 5.712152 TTCTTCAGAGAAAGCCAAATTCC 57.288 39.130 0.00 0.00 38.91 3.01
1775 2601 4.728772 TCTTCAGAGAAAGCCAAATTCCA 58.271 39.130 0.00 0.00 0.00 3.53
1776 2602 5.139727 TCTTCAGAGAAAGCCAAATTCCAA 58.860 37.500 0.00 0.00 0.00 3.53
1777 2603 5.242393 TCTTCAGAGAAAGCCAAATTCCAAG 59.758 40.000 0.00 0.00 0.00 3.61
1778 2604 3.828451 TCAGAGAAAGCCAAATTCCAAGG 59.172 43.478 0.00 0.00 0.00 3.61
1779 2605 3.575687 CAGAGAAAGCCAAATTCCAAGGT 59.424 43.478 0.00 0.00 0.00 3.50
1780 2606 4.039609 CAGAGAAAGCCAAATTCCAAGGTT 59.960 41.667 0.00 0.00 0.00 3.50
1781 2607 4.655649 AGAGAAAGCCAAATTCCAAGGTTT 59.344 37.500 0.00 0.00 0.00 3.27
1782 2608 5.130975 AGAGAAAGCCAAATTCCAAGGTTTT 59.869 36.000 0.00 0.00 38.34 2.43
1783 2609 5.125356 AGAAAGCCAAATTCCAAGGTTTTG 58.875 37.500 0.00 9.03 36.22 2.44
1784 2610 4.502105 AAGCCAAATTCCAAGGTTTTGT 57.498 36.364 12.68 0.00 32.21 2.83
1785 2611 4.502105 AGCCAAATTCCAAGGTTTTGTT 57.498 36.364 12.68 3.21 32.21 2.83
1786 2612 4.450976 AGCCAAATTCCAAGGTTTTGTTC 58.549 39.130 12.68 7.19 32.21 3.18
1787 2613 4.080638 AGCCAAATTCCAAGGTTTTGTTCA 60.081 37.500 12.68 0.00 32.21 3.18
1818 2644 0.453390 CGCAGCCAAATTCCTTCCTC 59.547 55.000 0.00 0.00 0.00 3.71
1830 2656 3.169512 TCCTTCCTCCCAAATTCCAAC 57.830 47.619 0.00 0.00 0.00 3.77
1832 2658 2.827921 CCTTCCTCCCAAATTCCAACTG 59.172 50.000 0.00 0.00 0.00 3.16
1833 2659 3.500343 CTTCCTCCCAAATTCCAACTGT 58.500 45.455 0.00 0.00 0.00 3.55
1836 2662 1.273327 CTCCCAAATTCCAACTGTGCC 59.727 52.381 0.00 0.00 0.00 5.01
1839 2665 2.830923 CCCAAATTCCAACTGTGCCATA 59.169 45.455 0.00 0.00 0.00 2.74
1844 2670 5.841957 AATTCCAACTGTGCCATAATCTC 57.158 39.130 0.00 0.00 0.00 2.75
1847 2673 3.009723 CCAACTGTGCCATAATCTCGTT 58.990 45.455 0.00 0.00 0.00 3.85
1848 2674 3.181507 CCAACTGTGCCATAATCTCGTTG 60.182 47.826 0.00 0.00 0.00 4.10
1849 2675 3.334583 ACTGTGCCATAATCTCGTTGT 57.665 42.857 0.00 0.00 0.00 3.32
1850 2676 3.674997 ACTGTGCCATAATCTCGTTGTT 58.325 40.909 0.00 0.00 0.00 2.83
1851 2677 3.436704 ACTGTGCCATAATCTCGTTGTTG 59.563 43.478 0.00 0.00 0.00 3.33
1853 2679 3.818210 TGTGCCATAATCTCGTTGTTGTT 59.182 39.130 0.00 0.00 0.00 2.83
1854 2680 4.277174 TGTGCCATAATCTCGTTGTTGTTT 59.723 37.500 0.00 0.00 0.00 2.83
1855 2681 5.470437 TGTGCCATAATCTCGTTGTTGTTTA 59.530 36.000 0.00 0.00 0.00 2.01
1856 2682 5.793457 GTGCCATAATCTCGTTGTTGTTTAC 59.207 40.000 0.00 0.00 0.00 2.01
1868 2696 7.457868 TCGTTGTTGTTTACTTGTTTCTACTG 58.542 34.615 0.00 0.00 0.00 2.74
1888 2716 0.524862 GGTAGCTTCAGGACGAACGA 59.475 55.000 0.00 0.00 0.00 3.85
1900 2759 3.430862 GAACGATGCTGCGCCCAA 61.431 61.111 4.18 0.00 33.86 4.12
1953 2820 4.626081 ACTGGAGCGGTGTGGCAC 62.626 66.667 11.55 11.55 34.64 5.01
1985 2853 4.944048 CATCGTCTATGTGGTTGGTGATA 58.056 43.478 0.00 0.00 0.00 2.15
2059 2927 0.102844 AAACGACGGACCGTGAAAGA 59.897 50.000 27.26 0.00 41.37 2.52
2066 2934 2.946990 ACGGACCGTGAAAGAAAAATGT 59.053 40.909 21.02 0.00 39.18 2.71
2120 3456 3.222603 GGGACTGGGGTTTATGCTTATG 58.777 50.000 0.00 0.00 0.00 1.90
2293 3663 6.070309 TGCATTCCTTTTGCAAATATAACCCT 60.070 34.615 13.65 0.00 46.48 4.34
2344 3714 6.257849 TCAAACTTAGATGCTTATAACGCAGG 59.742 38.462 12.84 5.89 41.22 4.85
2351 3721 5.707298 AGATGCTTATAACGCAGGCATTTAT 59.293 36.000 9.68 0.00 42.57 1.40
2413 3783 4.766891 AGACACAACATAGGGTTCAAATGG 59.233 41.667 0.00 0.00 37.72 3.16
2414 3784 4.479158 ACACAACATAGGGTTCAAATGGT 58.521 39.130 0.00 0.00 37.72 3.55
2415 3785 4.898861 ACACAACATAGGGTTCAAATGGTT 59.101 37.500 0.00 0.00 37.72 3.67
2452 3822 5.918426 TGAACATGGTGCAAATATGATGT 57.082 34.783 11.65 1.65 0.00 3.06
2544 3920 3.599704 GCCCATGAGATTGCCGGC 61.600 66.667 22.73 22.73 0.00 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
82 83 9.959749 GGAATATGCTCGTAAATTTTCCATAAA 57.040 29.630 0.00 0.00 35.30 1.40
83 84 8.573035 GGGAATATGCTCGTAAATTTTCCATAA 58.427 33.333 0.00 0.00 36.29 1.90
84 85 7.942341 AGGGAATATGCTCGTAAATTTTCCATA 59.058 33.333 0.00 0.00 36.29 2.74
85 86 6.777580 AGGGAATATGCTCGTAAATTTTCCAT 59.222 34.615 0.00 7.49 36.29 3.41
86 87 6.126409 AGGGAATATGCTCGTAAATTTTCCA 58.874 36.000 0.00 0.00 36.29 3.53
87 88 6.294010 GGAGGGAATATGCTCGTAAATTTTCC 60.294 42.308 0.00 0.00 34.78 3.13
88 89 6.262273 TGGAGGGAATATGCTCGTAAATTTTC 59.738 38.462 0.00 0.00 0.00 2.29
89 90 6.126409 TGGAGGGAATATGCTCGTAAATTTT 58.874 36.000 0.00 0.00 0.00 1.82
90 91 5.690865 TGGAGGGAATATGCTCGTAAATTT 58.309 37.500 0.00 0.00 0.00 1.82
91 92 5.304686 TGGAGGGAATATGCTCGTAAATT 57.695 39.130 0.00 0.00 0.00 1.82
92 93 4.974645 TGGAGGGAATATGCTCGTAAAT 57.025 40.909 0.00 0.00 0.00 1.40
93 94 4.974645 ATGGAGGGAATATGCTCGTAAA 57.025 40.909 0.00 0.00 0.00 2.01
94 95 4.974645 AATGGAGGGAATATGCTCGTAA 57.025 40.909 0.00 0.00 0.00 3.18
95 96 4.974645 AAATGGAGGGAATATGCTCGTA 57.025 40.909 0.00 0.00 0.00 3.43
96 97 3.864789 AAATGGAGGGAATATGCTCGT 57.135 42.857 0.00 0.00 0.00 4.18
115 116 2.235898 AGCTGTTGTTTCAGGGCAAAAA 59.764 40.909 0.00 0.00 36.12 1.94
116 117 1.830477 AGCTGTTGTTTCAGGGCAAAA 59.170 42.857 0.00 0.00 36.12 2.44
117 118 1.408702 GAGCTGTTGTTTCAGGGCAAA 59.591 47.619 0.00 0.00 36.12 3.68
118 119 1.032014 GAGCTGTTGTTTCAGGGCAA 58.968 50.000 0.00 0.00 36.12 4.52
119 120 0.106769 TGAGCTGTTGTTTCAGGGCA 60.107 50.000 0.00 0.00 36.12 5.36
120 121 0.595095 CTGAGCTGTTGTTTCAGGGC 59.405 55.000 0.00 0.00 35.75 5.19
121 122 0.595095 GCTGAGCTGTTGTTTCAGGG 59.405 55.000 0.00 0.00 38.94 4.45
122 123 1.266175 CTGCTGAGCTGTTGTTTCAGG 59.734 52.381 5.83 0.00 38.94 3.86
123 124 2.216046 TCTGCTGAGCTGTTGTTTCAG 58.784 47.619 5.83 0.00 40.93 3.02
124 125 2.330440 TCTGCTGAGCTGTTGTTTCA 57.670 45.000 5.83 0.00 0.00 2.69
125 126 3.698029 TTTCTGCTGAGCTGTTGTTTC 57.302 42.857 5.83 0.00 0.00 2.78
126 127 4.454728 TTTTTCTGCTGAGCTGTTGTTT 57.545 36.364 5.83 0.00 0.00 2.83
147 148 2.349155 CGCGTCGCCTACTTTTCTTTTT 60.349 45.455 12.44 0.00 0.00 1.94
148 149 1.193874 CGCGTCGCCTACTTTTCTTTT 59.806 47.619 12.44 0.00 0.00 2.27
149 150 0.788391 CGCGTCGCCTACTTTTCTTT 59.212 50.000 12.44 0.00 0.00 2.52
150 151 0.038892 TCGCGTCGCCTACTTTTCTT 60.039 50.000 12.44 0.00 0.00 2.52
151 152 0.731855 GTCGCGTCGCCTACTTTTCT 60.732 55.000 12.44 0.00 0.00 2.52
152 153 0.731855 AGTCGCGTCGCCTACTTTTC 60.732 55.000 12.44 0.00 0.00 2.29
153 154 0.319297 AAGTCGCGTCGCCTACTTTT 60.319 50.000 20.91 6.35 30.53 2.27
154 155 1.007336 CAAGTCGCGTCGCCTACTTT 61.007 55.000 22.97 10.99 31.76 2.66
155 156 1.443872 CAAGTCGCGTCGCCTACTT 60.444 57.895 20.91 20.91 33.50 2.24
156 157 1.654954 ATCAAGTCGCGTCGCCTACT 61.655 55.000 12.44 12.61 0.00 2.57
157 158 1.201098 GATCAAGTCGCGTCGCCTAC 61.201 60.000 12.44 10.37 0.00 3.18
158 159 1.063649 GATCAAGTCGCGTCGCCTA 59.936 57.895 12.44 0.00 0.00 3.93
159 160 2.202623 GATCAAGTCGCGTCGCCT 60.203 61.111 12.44 0.18 0.00 5.52
160 161 3.607987 CGATCAAGTCGCGTCGCC 61.608 66.667 12.44 0.00 44.33 5.54
168 169 0.927994 CTCGCTCGCTCGATCAAGTC 60.928 60.000 0.00 0.00 37.87 3.01
169 170 1.063327 CTCGCTCGCTCGATCAAGT 59.937 57.895 0.00 0.00 37.87 3.16
170 171 1.063327 ACTCGCTCGCTCGATCAAG 59.937 57.895 0.00 0.00 37.87 3.02
171 172 1.226407 CACTCGCTCGCTCGATCAA 60.226 57.895 0.00 0.00 37.87 2.57
172 173 1.440145 ATCACTCGCTCGCTCGATCA 61.440 55.000 0.00 0.00 37.87 2.92
173 174 0.996229 CATCACTCGCTCGCTCGATC 60.996 60.000 0.00 0.00 37.87 3.69
174 175 1.009108 CATCACTCGCTCGCTCGAT 60.009 57.895 0.00 0.00 37.87 3.59
175 176 2.405191 CATCACTCGCTCGCTCGA 59.595 61.111 0.00 0.00 36.94 4.04
176 177 3.318555 GCATCACTCGCTCGCTCG 61.319 66.667 0.00 0.00 0.00 5.03
177 178 3.318555 CGCATCACTCGCTCGCTC 61.319 66.667 0.00 0.00 0.00 5.03
196 197 4.214327 CTTCGCTCCCTCGCTCCC 62.214 72.222 0.00 0.00 0.00 4.30
197 198 4.214327 CCTTCGCTCCCTCGCTCC 62.214 72.222 0.00 0.00 0.00 4.70
198 199 2.065906 CTACCTTCGCTCCCTCGCTC 62.066 65.000 0.00 0.00 0.00 5.03
199 200 2.044252 TACCTTCGCTCCCTCGCT 60.044 61.111 0.00 0.00 0.00 4.93
200 201 2.065906 CTCTACCTTCGCTCCCTCGC 62.066 65.000 0.00 0.00 0.00 5.03
201 202 0.748729 ACTCTACCTTCGCTCCCTCG 60.749 60.000 0.00 0.00 0.00 4.63
202 203 0.741915 CACTCTACCTTCGCTCCCTC 59.258 60.000 0.00 0.00 0.00 4.30
203 204 0.684805 CCACTCTACCTTCGCTCCCT 60.685 60.000 0.00 0.00 0.00 4.20
204 205 1.677637 CCCACTCTACCTTCGCTCCC 61.678 65.000 0.00 0.00 0.00 4.30
205 206 0.971447 ACCCACTCTACCTTCGCTCC 60.971 60.000 0.00 0.00 0.00 4.70
206 207 0.896226 AACCCACTCTACCTTCGCTC 59.104 55.000 0.00 0.00 0.00 5.03
207 208 0.896226 GAACCCACTCTACCTTCGCT 59.104 55.000 0.00 0.00 0.00 4.93
208 209 0.606604 TGAACCCACTCTACCTTCGC 59.393 55.000 0.00 0.00 0.00 4.70
209 210 2.496070 TGATGAACCCACTCTACCTTCG 59.504 50.000 0.00 0.00 0.00 3.79
210 211 4.553330 TTGATGAACCCACTCTACCTTC 57.447 45.455 0.00 0.00 0.00 3.46
211 212 4.993705 TTTGATGAACCCACTCTACCTT 57.006 40.909 0.00 0.00 0.00 3.50
212 213 5.520748 AATTTGATGAACCCACTCTACCT 57.479 39.130 0.00 0.00 0.00 3.08
213 214 6.590234 AAAATTTGATGAACCCACTCTACC 57.410 37.500 0.00 0.00 0.00 3.18
214 215 9.974980 TTTAAAAATTTGATGAACCCACTCTAC 57.025 29.630 0.00 0.00 0.00 2.59
218 219 9.625747 ACATTTTAAAAATTTGATGAACCCACT 57.374 25.926 4.44 0.00 0.00 4.00
219 220 9.877137 GACATTTTAAAAATTTGATGAACCCAC 57.123 29.630 4.44 0.00 0.00 4.61
220 221 9.618890 TGACATTTTAAAAATTTGATGAACCCA 57.381 25.926 4.44 0.00 0.00 4.51
277 278 9.878667 TTCTATTTTTCCCGTTTCTTTCTTTTT 57.121 25.926 0.00 0.00 0.00 1.94
278 279 9.878667 TTTCTATTTTTCCCGTTTCTTTCTTTT 57.121 25.926 0.00 0.00 0.00 2.27
279 280 9.878667 TTTTCTATTTTTCCCGTTTCTTTCTTT 57.121 25.926 0.00 0.00 0.00 2.52
337 338 4.325972 AGCTTCCGGACCGTTTTTATTTA 58.674 39.130 13.94 0.00 0.00 1.40
341 342 2.259266 AAGCTTCCGGACCGTTTTTA 57.741 45.000 13.94 0.00 0.00 1.52
345 346 0.602905 CTGAAAGCTTCCGGACCGTT 60.603 55.000 13.94 2.45 0.00 4.44
346 347 1.004918 CTGAAAGCTTCCGGACCGT 60.005 57.895 13.94 0.00 0.00 4.83
347 348 0.320421 TTCTGAAAGCTTCCGGACCG 60.320 55.000 1.83 6.99 0.00 4.79
348 349 1.443802 CTTCTGAAAGCTTCCGGACC 58.556 55.000 1.83 0.00 0.00 4.46
358 359 3.550842 CGGTTTTGGGAAGCTTCTGAAAG 60.551 47.826 25.05 9.37 35.47 2.62
359 360 2.360801 CGGTTTTGGGAAGCTTCTGAAA 59.639 45.455 25.05 19.40 0.00 2.69
360 361 1.953686 CGGTTTTGGGAAGCTTCTGAA 59.046 47.619 25.05 15.03 0.00 3.02
361 362 1.604604 CGGTTTTGGGAAGCTTCTGA 58.395 50.000 25.05 9.88 0.00 3.27
362 363 0.598065 CCGGTTTTGGGAAGCTTCTG 59.402 55.000 25.05 3.75 0.00 3.02
363 364 1.179174 GCCGGTTTTGGGAAGCTTCT 61.179 55.000 25.05 0.00 0.00 2.85
364 365 1.289066 GCCGGTTTTGGGAAGCTTC 59.711 57.895 18.54 18.54 0.00 3.86
365 366 2.207229 GGCCGGTTTTGGGAAGCTT 61.207 57.895 1.90 0.00 0.00 3.74
366 367 1.785353 TAGGCCGGTTTTGGGAAGCT 61.785 55.000 1.90 0.00 0.00 3.74
367 368 1.303806 TAGGCCGGTTTTGGGAAGC 60.304 57.895 1.90 0.00 0.00 3.86
368 369 0.679960 CCTAGGCCGGTTTTGGGAAG 60.680 60.000 1.90 0.00 0.00 3.46
369 370 1.135068 TCCTAGGCCGGTTTTGGGAA 61.135 55.000 2.96 0.00 0.00 3.97
373 374 0.322546 AGCTTCCTAGGCCGGTTTTG 60.323 55.000 2.96 0.00 0.00 2.44
431 432 7.086685 TCTTCCTGGTTATTATTATGGGGAC 57.913 40.000 0.00 0.00 0.00 4.46
432 433 7.574750 TCTTCTTCCTGGTTATTATTATGGGGA 59.425 37.037 0.00 0.00 0.00 4.81
434 435 8.660435 TCTCTTCTTCCTGGTTATTATTATGGG 58.340 37.037 0.00 0.00 0.00 4.00
438 439 9.982651 CGAATCTCTTCTTCCTGGTTATTATTA 57.017 33.333 0.00 0.00 0.00 0.98
439 440 7.442666 GCGAATCTCTTCTTCCTGGTTATTATT 59.557 37.037 0.00 0.00 0.00 1.40
440 441 6.931840 GCGAATCTCTTCTTCCTGGTTATTAT 59.068 38.462 0.00 0.00 0.00 1.28
441 442 6.281405 GCGAATCTCTTCTTCCTGGTTATTA 58.719 40.000 0.00 0.00 0.00 0.98
442 443 5.119694 GCGAATCTCTTCTTCCTGGTTATT 58.880 41.667 0.00 0.00 0.00 1.40
443 444 4.443598 GGCGAATCTCTTCTTCCTGGTTAT 60.444 45.833 0.00 0.00 0.00 1.89
444 445 3.118738 GGCGAATCTCTTCTTCCTGGTTA 60.119 47.826 0.00 0.00 0.00 2.85
446 447 1.208293 GGCGAATCTCTTCTTCCTGGT 59.792 52.381 0.00 0.00 0.00 4.00
449 450 3.383185 CACTAGGCGAATCTCTTCTTCCT 59.617 47.826 0.00 0.00 36.55 3.36
468 1242 1.048601 CCGGCCCATATAGACACACT 58.951 55.000 0.00 0.00 0.00 3.55
540 1318 4.614946 GTGTAATCCTAAACGACGCCTAT 58.385 43.478 0.00 0.00 0.00 2.57
644 1428 2.660064 GCCGTCAGTGATGGGGTCT 61.660 63.158 28.75 0.00 39.01 3.85
652 1436 1.730451 TTCGTCTGTGCCGTCAGTGA 61.730 55.000 0.00 0.00 36.85 3.41
665 1449 4.430908 GGAACGTTCCAGATATTTCGTCT 58.569 43.478 36.67 0.00 46.76 4.18
760 1556 1.370051 GGTTTCCGTTGCGACTTGC 60.370 57.895 1.84 0.00 46.70 4.01
761 1557 0.316689 GTGGTTTCCGTTGCGACTTG 60.317 55.000 1.84 0.00 0.00 3.16
763 1559 1.890510 GGTGGTTTCCGTTGCGACT 60.891 57.895 1.84 0.00 0.00 4.18
764 1560 2.635338 GGTGGTTTCCGTTGCGAC 59.365 61.111 0.00 0.00 0.00 5.19
765 1561 2.968156 CGGTGGTTTCCGTTGCGA 60.968 61.111 0.00 0.00 44.77 5.10
782 1578 2.227194 CCCTATTTTACCCGATGGCAC 58.773 52.381 0.00 0.00 33.59 5.01
783 1579 1.477923 GCCCTATTTTACCCGATGGCA 60.478 52.381 0.00 0.00 37.58 4.92
790 1586 2.027427 GCTGTGGGCCCTATTTTACCC 61.027 57.143 25.70 1.52 43.14 3.69
906 1702 4.748102 TGTGTTTTTCTCGTGAGATGTACC 59.252 41.667 0.00 0.00 40.84 3.34
908 1704 5.838529 TCTGTGTTTTTCTCGTGAGATGTA 58.161 37.500 0.00 0.00 40.84 2.29
928 1724 0.385974 CTTTTTGCCGGCGAGTTCTG 60.386 55.000 23.90 5.93 0.00 3.02
946 1742 1.305718 GGTGGAGGAGCCTCTGTCT 60.306 63.158 15.64 0.00 42.38 3.41
955 1751 1.075600 GGGAGAGGAGGTGGAGGAG 60.076 68.421 0.00 0.00 0.00 3.69
962 1758 3.011885 CGAGAGGGGAGAGGAGGT 58.988 66.667 0.00 0.00 0.00 3.85
967 1763 1.891919 CGAGAGCGAGAGGGGAGAG 60.892 68.421 0.00 0.00 40.82 3.20
1503 2312 2.527624 TGCTCCTCCACCTGCTGT 60.528 61.111 0.00 0.00 0.00 4.40
1511 2320 2.235602 CTCCTCCCTCTGCTCCTCCA 62.236 65.000 0.00 0.00 0.00 3.86
1610 2419 0.311477 GAAAAAGTAAACCGCCGCCA 59.689 50.000 0.00 0.00 0.00 5.69
1622 2431 5.823045 ACGAAGAAGGTGATGAAGAAAAAGT 59.177 36.000 0.00 0.00 0.00 2.66
1633 2442 5.867716 GTGTATGTACAACGAAGAAGGTGAT 59.132 40.000 0.00 0.00 38.04 3.06
1637 2446 5.694910 ACTTGTGTATGTACAACGAAGAAGG 59.305 40.000 0.00 0.00 38.04 3.46
1639 2448 6.510478 GCAACTTGTGTATGTACAACGAAGAA 60.510 38.462 0.00 0.00 38.04 2.52
1658 2467 2.566724 CTCCTCTCCTCTTCAGCAACTT 59.433 50.000 0.00 0.00 0.00 2.66
1680 2499 2.573009 CAATTTTGCCCCAATTCCTCCT 59.427 45.455 0.00 0.00 0.00 3.69
1681 2500 2.305635 ACAATTTTGCCCCAATTCCTCC 59.694 45.455 0.00 0.00 0.00 4.30
1694 2513 7.540400 TCTTCCGCAATTATGTACACAATTTTG 59.460 33.333 9.38 2.88 0.00 2.44
1726 2551 8.511465 AAGAAAATTCAGTTTCATTGACATCG 57.489 30.769 2.84 0.00 39.52 3.84
1751 2576 5.598005 TGGAATTTGGCTTTCTCTGAAGAAA 59.402 36.000 1.10 1.10 46.72 2.52
1761 2587 4.881273 ACAAAACCTTGGAATTTGGCTTTC 59.119 37.500 18.76 0.00 38.14 2.62
1769 2595 9.492973 CAGAATTATGAACAAAACCTTGGAATT 57.507 29.630 0.00 0.00 36.82 2.17
1770 2596 7.603784 GCAGAATTATGAACAAAACCTTGGAAT 59.396 33.333 3.77 0.00 36.82 3.01
1772 2598 6.267471 AGCAGAATTATGAACAAAACCTTGGA 59.733 34.615 3.77 0.00 36.82 3.53
1773 2599 6.366877 CAGCAGAATTATGAACAAAACCTTGG 59.633 38.462 3.77 0.00 36.82 3.61
1774 2600 6.128742 GCAGCAGAATTATGAACAAAACCTTG 60.129 38.462 3.77 0.00 38.61 3.61
1775 2601 5.928264 GCAGCAGAATTATGAACAAAACCTT 59.072 36.000 3.77 0.00 0.00 3.50
1776 2602 5.473039 GCAGCAGAATTATGAACAAAACCT 58.527 37.500 3.77 0.00 0.00 3.50
1777 2603 4.324402 CGCAGCAGAATTATGAACAAAACC 59.676 41.667 3.77 0.00 0.00 3.27
1778 2604 5.425941 CGCAGCAGAATTATGAACAAAAC 57.574 39.130 3.77 0.00 0.00 2.43
1811 2637 2.827921 CAGTTGGAATTTGGGAGGAAGG 59.172 50.000 0.00 0.00 0.00 3.46
1813 2639 3.230134 CACAGTTGGAATTTGGGAGGAA 58.770 45.455 0.00 0.00 0.00 3.36
1815 2641 1.273327 GCACAGTTGGAATTTGGGAGG 59.727 52.381 0.00 0.00 0.00 4.30
1818 2644 1.047002 TGGCACAGTTGGAATTTGGG 58.953 50.000 0.00 0.00 0.00 4.12
1832 2658 4.419522 AACAACAACGAGATTATGGCAC 57.580 40.909 0.00 0.00 0.00 5.01
1833 2659 5.703592 AGTAAACAACAACGAGATTATGGCA 59.296 36.000 0.00 0.00 0.00 4.92
1836 2662 9.445786 AAACAAGTAAACAACAACGAGATTATG 57.554 29.630 0.00 0.00 0.00 1.90
1839 2665 7.758495 AGAAACAAGTAAACAACAACGAGATT 58.242 30.769 0.00 0.00 0.00 2.40
1844 2670 6.685403 CCAGTAGAAACAAGTAAACAACAACG 59.315 38.462 0.00 0.00 0.00 4.10
1847 2673 6.181908 ACCCAGTAGAAACAAGTAAACAACA 58.818 36.000 0.00 0.00 0.00 3.33
1848 2674 6.688637 ACCCAGTAGAAACAAGTAAACAAC 57.311 37.500 0.00 0.00 0.00 3.32
1849 2675 6.484308 GCTACCCAGTAGAAACAAGTAAACAA 59.516 38.462 5.96 0.00 38.29 2.83
1850 2676 5.993441 GCTACCCAGTAGAAACAAGTAAACA 59.007 40.000 5.96 0.00 38.29 2.83
1851 2677 6.228995 AGCTACCCAGTAGAAACAAGTAAAC 58.771 40.000 5.96 0.00 38.29 2.01
1853 2679 6.042322 TGAAGCTACCCAGTAGAAACAAGTAA 59.958 38.462 5.96 0.00 38.29 2.24
1854 2680 5.541101 TGAAGCTACCCAGTAGAAACAAGTA 59.459 40.000 5.96 0.00 38.29 2.24
1855 2681 4.347000 TGAAGCTACCCAGTAGAAACAAGT 59.653 41.667 5.96 0.00 38.29 3.16
1856 2682 4.894784 TGAAGCTACCCAGTAGAAACAAG 58.105 43.478 5.96 0.00 38.29 3.16
1868 2696 0.458025 CGTTCGTCCTGAAGCTACCC 60.458 60.000 0.00 0.00 37.23 3.69
1900 2759 2.191513 CACAGCACCAGCAAGCAGT 61.192 57.895 0.00 0.00 45.49 4.40
1953 2820 1.701944 CATAGACGATGTTACGCGACG 59.298 52.381 15.93 10.76 36.70 5.12
2059 2927 7.148407 GGAGTATTCAGATGTGTCGACATTTTT 60.148 37.037 23.12 6.86 43.22 1.94
2120 3456 1.401905 CTTATCTGCACCCGGAAAAGC 59.598 52.381 0.73 1.06 0.00 3.51
2330 3700 6.869315 TTATAAATGCCTGCGTTATAAGCA 57.131 33.333 11.05 8.62 42.99 3.91
2332 3702 9.677567 AATGTTTATAAATGCCTGCGTTATAAG 57.322 29.630 0.31 0.00 0.00 1.73
2338 3708 5.960113 TGAAATGTTTATAAATGCCTGCGT 58.040 33.333 0.31 0.00 0.00 5.24
2340 3710 7.148440 TGCTTTGAAATGTTTATAAATGCCTGC 60.148 33.333 0.31 0.00 0.00 4.85
2341 3711 8.254178 TGCTTTGAAATGTTTATAAATGCCTG 57.746 30.769 0.31 0.00 0.00 4.85
2413 3783 9.369904 ACCATGTTCATTTAGAATATTTGCAAC 57.630 29.630 0.00 0.00 36.10 4.17
2414 3784 9.368674 CACCATGTTCATTTAGAATATTTGCAA 57.631 29.630 0.00 0.00 36.10 4.08
2415 3785 7.492020 GCACCATGTTCATTTAGAATATTTGCA 59.508 33.333 10.47 0.00 40.44 4.08
2452 3822 5.925506 TGGACCGTAGATCTTTCACATAA 57.074 39.130 0.00 0.00 0.00 1.90


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

AutoCloner maintained by Alex Coulton.