Multiple sequence alignment - TraesCS6D01G021400

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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 TraesCS6D01G021400 chr6D 100.000 2507 0 0 1 2507 8480821 8478315 0.000000e+00 4630.0
1 TraesCS6D01G021400 chr6D 98.383 2164 11 3 358 2507 8858174 8860327 0.000000e+00 3781.0
2 TraesCS6D01G021400 chr6D 86.522 1061 108 13 833 1885 34001551 34002584 0.000000e+00 1134.0
3 TraesCS6D01G021400 chr6D 81.433 1061 171 17 472 1508 8899614 8900672 0.000000e+00 845.0
4 TraesCS6D01G021400 chr6D 91.639 598 19 6 1940 2507 34002925 34003521 0.000000e+00 798.0
5 TraesCS6D01G021400 chr6D 85.897 780 66 28 1636 2403 8572071 8571324 0.000000e+00 791.0
6 TraesCS6D01G021400 chr6D 80.019 1076 189 16 461 1512 8894144 8895217 0.000000e+00 773.0
7 TraesCS6D01G021400 chr6D 79.425 1079 189 15 461 1512 8967671 8968743 0.000000e+00 732.0
8 TraesCS6D01G021400 chr6D 97.814 366 6 1 1 364 8841141 8841506 4.550000e-177 630.0
9 TraesCS6D01G021400 chr6D 76.667 1080 215 28 461 1515 7423972 7422905 4.680000e-157 564.0
10 TraesCS6D01G021400 chr6D 76.221 1085 212 33 462 1512 9548120 9547048 1.320000e-147 532.0
11 TraesCS6D01G021400 chr6D 77.778 774 159 3 752 1512 8402268 8401495 4.880000e-127 464.0
12 TraesCS6D01G021400 chr6D 88.462 78 7 1 2420 2495 8661387 8661310 2.660000e-15 93.5
13 TraesCS6D01G021400 chr1A 79.544 1447 236 34 488 1896 573206239 573207663 0.000000e+00 977.0
14 TraesCS6D01G021400 chr1A 87.054 224 19 7 2056 2273 573207664 573207883 6.930000e-61 244.0
15 TraesCS6D01G021400 chr1B 79.391 1281 203 39 640 1892 664761899 664763146 0.000000e+00 846.0
16 TraesCS6D01G021400 chr1B 77.253 1376 265 31 461 1802 630644838 630646199 0.000000e+00 763.0
17 TraesCS6D01G021400 chr1B 86.937 222 24 5 2055 2273 664763150 664763369 6.930000e-61 244.0
18 TraesCS6D01G021400 chr1B 91.176 102 7 2 2407 2507 664763492 664763592 1.210000e-28 137.0
19 TraesCS6D01G021400 chr1D 78.860 1211 211 27 488 1670 477165800 477166993 0.000000e+00 776.0
20 TraesCS6D01G021400 chr1D 89.316 234 21 3 1665 1896 477167078 477167309 8.770000e-75 291.0
21 TraesCS6D01G021400 chr1D 91.176 102 7 2 2407 2507 477167652 477167752 1.210000e-28 137.0
22 TraesCS6D01G021400 chrUn 100.000 409 0 0 1304 1712 477783064 477782656 0.000000e+00 756.0
23 TraesCS6D01G021400 chr6A 78.699 1061 195 17 461 1493 30560478 30559421 0.000000e+00 678.0
24 TraesCS6D01G021400 chr6A 76.333 1069 222 20 463 1512 12420485 12421541 6.100000e-151 544.0
25 TraesCS6D01G021400 chr6A 75.884 311 52 19 2010 2308 7979524 7979823 1.210000e-28 137.0
26 TraesCS6D01G021400 chr6A 75.484 155 25 10 1657 1802 8448707 8448557 2.080000e-06 63.9
27 TraesCS6D01G021400 chr6A 75.325 154 25 7 1721 1862 8392257 8392105 7.490000e-06 62.1
28 TraesCS6D01G021400 chr7A 78.571 1078 190 26 462 1509 162577934 162579000 0.000000e+00 673.0
29 TraesCS6D01G021400 chr3B 78.125 1088 203 26 455 1515 778342813 778341734 0.000000e+00 658.0
30 TraesCS6D01G021400 chr6B 78.024 1083 198 27 461 1512 15750914 15749841 0.000000e+00 645.0
31 TraesCS6D01G021400 chr6B 77.416 1076 216 22 461 1516 15264205 15263137 1.270000e-172 616.0
32 TraesCS6D01G021400 chr6B 77.121 1049 199 25 491 1515 15216735 15215704 1.010000e-158 569.0
33 TraesCS6D01G021400 chr6B 74.978 1123 237 28 769 1863 52573778 52572672 6.270000e-131 477.0
34 TraesCS6D01G021400 chr6B 86.875 320 25 6 1558 1869 55723277 55722967 2.390000e-90 342.0
35 TraesCS6D01G021400 chr6B 86.076 79 8 1 2420 2495 15780801 15780723 5.750000e-12 82.4
36 TraesCS6D01G021400 chr3D 79.272 907 151 20 468 1346 582879947 582880844 1.280000e-167 599.0
37 TraesCS6D01G021400 chr5B 74.429 219 34 14 1921 2120 668638083 668638298 9.620000e-10 75.0


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 TraesCS6D01G021400 chr6D 8478315 8480821 2506 True 4630.000000 4630 100.000000 1 2507 1 chr6D.!!$R3 2506
1 TraesCS6D01G021400 chr6D 8858174 8860327 2153 False 3781.000000 3781 98.383000 358 2507 1 chr6D.!!$F2 2149
2 TraesCS6D01G021400 chr6D 34001551 34003521 1970 False 966.000000 1134 89.080500 833 2507 2 chr6D.!!$F6 1674
3 TraesCS6D01G021400 chr6D 8899614 8900672 1058 False 845.000000 845 81.433000 472 1508 1 chr6D.!!$F4 1036
4 TraesCS6D01G021400 chr6D 8571324 8572071 747 True 791.000000 791 85.897000 1636 2403 1 chr6D.!!$R4 767
5 TraesCS6D01G021400 chr6D 8894144 8895217 1073 False 773.000000 773 80.019000 461 1512 1 chr6D.!!$F3 1051
6 TraesCS6D01G021400 chr6D 8967671 8968743 1072 False 732.000000 732 79.425000 461 1512 1 chr6D.!!$F5 1051
7 TraesCS6D01G021400 chr6D 7422905 7423972 1067 True 564.000000 564 76.667000 461 1515 1 chr6D.!!$R1 1054
8 TraesCS6D01G021400 chr6D 9547048 9548120 1072 True 532.000000 532 76.221000 462 1512 1 chr6D.!!$R6 1050
9 TraesCS6D01G021400 chr6D 8401495 8402268 773 True 464.000000 464 77.778000 752 1512 1 chr6D.!!$R2 760
10 TraesCS6D01G021400 chr1A 573206239 573207883 1644 False 610.500000 977 83.299000 488 2273 2 chr1A.!!$F1 1785
11 TraesCS6D01G021400 chr1B 630644838 630646199 1361 False 763.000000 763 77.253000 461 1802 1 chr1B.!!$F1 1341
12 TraesCS6D01G021400 chr1B 664761899 664763592 1693 False 409.000000 846 85.834667 640 2507 3 chr1B.!!$F2 1867
13 TraesCS6D01G021400 chr1D 477165800 477167752 1952 False 401.333333 776 86.450667 488 2507 3 chr1D.!!$F1 2019
14 TraesCS6D01G021400 chr6A 30559421 30560478 1057 True 678.000000 678 78.699000 461 1493 1 chr6A.!!$R3 1032
15 TraesCS6D01G021400 chr6A 12420485 12421541 1056 False 544.000000 544 76.333000 463 1512 1 chr6A.!!$F2 1049
16 TraesCS6D01G021400 chr7A 162577934 162579000 1066 False 673.000000 673 78.571000 462 1509 1 chr7A.!!$F1 1047
17 TraesCS6D01G021400 chr3B 778341734 778342813 1079 True 658.000000 658 78.125000 455 1515 1 chr3B.!!$R1 1060
18 TraesCS6D01G021400 chr6B 15749841 15750914 1073 True 645.000000 645 78.024000 461 1512 1 chr6B.!!$R3 1051
19 TraesCS6D01G021400 chr6B 15263137 15264205 1068 True 616.000000 616 77.416000 461 1516 1 chr6B.!!$R2 1055
20 TraesCS6D01G021400 chr6B 15215704 15216735 1031 True 569.000000 569 77.121000 491 1515 1 chr6B.!!$R1 1024
21 TraesCS6D01G021400 chr6B 52572672 52573778 1106 True 477.000000 477 74.978000 769 1863 1 chr6B.!!$R5 1094
22 TraesCS6D01G021400 chr3D 582879947 582880844 897 False 599.000000 599 79.272000 468 1346 1 chr3D.!!$F1 878

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
356 357 0.103208 ACGAGAAGGATGATCGGTGC 59.897 55.0 0.0 0.0 40.67 5.01 F
577 581 0.970937 CCCCGAAGCTCTCACACCTA 60.971 60.0 0.0 0.0 0.00 3.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1302 1344 1.343277 ACAACATAGTACCGGGGCCTA 60.343 52.381 6.32 2.62 0.00 3.93 R
1712 1853 6.990908 TCTCTACTGAATGATGACATGGAT 57.009 37.500 0.00 0.00 36.79 3.41 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
48 49 4.991153 TTTGTGTTCTACATGTTTGGCA 57.009 36.364 2.30 0.00 39.48 4.92
49 50 4.991153 TTGTGTTCTACATGTTTGGCAA 57.009 36.364 2.30 0.00 39.48 4.52
50 51 5.528043 TTGTGTTCTACATGTTTGGCAAT 57.472 34.783 2.30 0.00 39.48 3.56
51 52 5.528043 TGTGTTCTACATGTTTGGCAATT 57.472 34.783 2.30 0.00 33.42 2.32
52 53 6.641169 TGTGTTCTACATGTTTGGCAATTA 57.359 33.333 2.30 0.00 33.42 1.40
53 54 7.225784 TGTGTTCTACATGTTTGGCAATTAT 57.774 32.000 2.30 0.00 33.42 1.28
54 55 7.665690 TGTGTTCTACATGTTTGGCAATTATT 58.334 30.769 2.30 0.00 33.42 1.40
55 56 8.797438 TGTGTTCTACATGTTTGGCAATTATTA 58.203 29.630 2.30 0.00 33.42 0.98
56 57 9.632807 GTGTTCTACATGTTTGGCAATTATTAA 57.367 29.630 2.30 0.00 0.00 1.40
59 60 9.729023 TTCTACATGTTTGGCAATTATTAATCG 57.271 29.630 2.30 0.00 0.00 3.34
60 61 9.114952 TCTACATGTTTGGCAATTATTAATCGA 57.885 29.630 2.30 0.00 0.00 3.59
61 62 9.385902 CTACATGTTTGGCAATTATTAATCGAG 57.614 33.333 2.30 0.00 0.00 4.04
62 63 7.995289 ACATGTTTGGCAATTATTAATCGAGA 58.005 30.769 0.00 0.00 0.00 4.04
63 64 8.632679 ACATGTTTGGCAATTATTAATCGAGAT 58.367 29.630 0.00 0.00 0.00 2.75
64 65 9.467258 CATGTTTGGCAATTATTAATCGAGATT 57.533 29.630 0.00 3.67 34.93 2.40
66 67 9.868277 TGTTTGGCAATTATTAATCGAGATTTT 57.132 25.926 0.00 0.00 32.50 1.82
142 143 7.389803 TTTTTCACCATGTATGTACAGATGG 57.610 36.000 21.54 21.54 40.49 3.51
143 144 5.948742 TTCACCATGTATGTACAGATGGA 57.051 39.130 26.62 11.26 38.17 3.41
144 145 5.948742 TCACCATGTATGTACAGATGGAA 57.051 39.130 26.62 16.41 38.17 3.53
145 146 6.306643 TCACCATGTATGTACAGATGGAAA 57.693 37.500 26.62 16.17 38.17 3.13
146 147 6.899089 TCACCATGTATGTACAGATGGAAAT 58.101 36.000 26.62 10.74 38.17 2.17
147 148 7.345691 TCACCATGTATGTACAGATGGAAATT 58.654 34.615 26.62 10.48 38.17 1.82
148 149 7.282901 TCACCATGTATGTACAGATGGAAATTG 59.717 37.037 26.62 18.20 38.17 2.32
149 150 6.547141 ACCATGTATGTACAGATGGAAATTGG 59.453 38.462 26.62 15.04 38.17 3.16
150 151 6.441274 CATGTATGTACAGATGGAAATTGGC 58.559 40.000 0.33 0.00 39.92 4.52
151 152 5.754782 TGTATGTACAGATGGAAATTGGCT 58.245 37.500 0.33 0.00 0.00 4.75
152 153 6.186957 TGTATGTACAGATGGAAATTGGCTT 58.813 36.000 0.33 0.00 0.00 4.35
153 154 5.587388 ATGTACAGATGGAAATTGGCTTG 57.413 39.130 0.33 0.00 0.00 4.01
154 155 4.661222 TGTACAGATGGAAATTGGCTTGA 58.339 39.130 0.00 0.00 0.00 3.02
155 156 4.458989 TGTACAGATGGAAATTGGCTTGAC 59.541 41.667 0.00 0.00 0.00 3.18
156 157 3.771216 ACAGATGGAAATTGGCTTGACT 58.229 40.909 0.00 0.00 0.00 3.41
157 158 4.154942 ACAGATGGAAATTGGCTTGACTT 58.845 39.130 0.00 0.00 0.00 3.01
158 159 4.590222 ACAGATGGAAATTGGCTTGACTTT 59.410 37.500 0.00 0.00 0.00 2.66
159 160 5.070847 ACAGATGGAAATTGGCTTGACTTTT 59.929 36.000 0.00 0.00 0.00 2.27
160 161 5.993441 CAGATGGAAATTGGCTTGACTTTTT 59.007 36.000 0.00 0.00 0.00 1.94
180 181 6.824305 TTTTTCTTTTGGGTCATTGCAAAA 57.176 29.167 1.71 0.00 0.00 2.44
181 182 6.824305 TTTTCTTTTGGGTCATTGCAAAAA 57.176 29.167 1.71 0.00 0.00 1.94
209 210 9.964303 AAAAATCTTTTACCCATTGCAAATTTC 57.036 25.926 1.71 0.00 0.00 2.17
210 211 8.922931 AAATCTTTTACCCATTGCAAATTTCT 57.077 26.923 1.71 0.00 0.00 2.52
211 212 7.910441 ATCTTTTACCCATTGCAAATTTCTG 57.090 32.000 1.71 0.00 0.00 3.02
212 213 5.700373 TCTTTTACCCATTGCAAATTTCTGC 59.300 36.000 1.71 0.00 42.95 4.26
213 214 4.888326 TTACCCATTGCAAATTTCTGCT 57.112 36.364 1.71 0.00 43.07 4.24
214 215 3.775261 ACCCATTGCAAATTTCTGCTT 57.225 38.095 1.71 0.00 43.07 3.91
215 216 4.089408 ACCCATTGCAAATTTCTGCTTT 57.911 36.364 1.71 0.00 43.07 3.51
216 217 4.463070 ACCCATTGCAAATTTCTGCTTTT 58.537 34.783 1.71 0.00 43.07 2.27
217 218 5.619220 ACCCATTGCAAATTTCTGCTTTTA 58.381 33.333 1.71 0.00 43.07 1.52
218 219 6.060788 ACCCATTGCAAATTTCTGCTTTTAA 58.939 32.000 1.71 0.00 43.07 1.52
219 220 6.545298 ACCCATTGCAAATTTCTGCTTTTAAA 59.455 30.769 1.71 0.00 43.07 1.52
220 221 7.079475 CCCATTGCAAATTTCTGCTTTTAAAG 58.921 34.615 1.71 0.00 43.07 1.85
221 222 7.255208 CCCATTGCAAATTTCTGCTTTTAAAGT 60.255 33.333 1.71 0.00 43.07 2.66
222 223 8.130469 CCATTGCAAATTTCTGCTTTTAAAGTT 58.870 29.630 1.71 0.00 43.07 2.66
223 224 8.949953 CATTGCAAATTTCTGCTTTTAAAGTTG 58.050 29.630 1.71 0.00 43.07 3.16
224 225 7.840342 TGCAAATTTCTGCTTTTAAAGTTGA 57.160 28.000 10.93 2.67 40.98 3.18
225 226 8.436046 TGCAAATTTCTGCTTTTAAAGTTGAT 57.564 26.923 10.93 0.00 40.98 2.57
226 227 8.336806 TGCAAATTTCTGCTTTTAAAGTTGATG 58.663 29.630 10.93 2.57 40.98 3.07
227 228 7.799914 GCAAATTTCTGCTTTTAAAGTTGATGG 59.200 33.333 10.93 0.00 40.98 3.51
228 229 7.425577 AATTTCTGCTTTTAAAGTTGATGGC 57.574 32.000 6.57 0.00 0.00 4.40
229 230 5.528043 TTCTGCTTTTAAAGTTGATGGCA 57.472 34.783 6.57 0.00 0.00 4.92
230 231 5.726980 TCTGCTTTTAAAGTTGATGGCAT 57.273 34.783 0.00 0.00 0.00 4.40
231 232 6.100404 TCTGCTTTTAAAGTTGATGGCATT 57.900 33.333 0.00 0.00 0.00 3.56
232 233 6.523840 TCTGCTTTTAAAGTTGATGGCATTT 58.476 32.000 0.00 0.00 0.00 2.32
233 234 6.991531 TCTGCTTTTAAAGTTGATGGCATTTT 59.008 30.769 0.00 0.40 0.00 1.82
234 235 7.498570 TCTGCTTTTAAAGTTGATGGCATTTTT 59.501 29.630 0.00 3.73 0.00 1.94
263 264 4.758688 CACAGAAAAACTGGGCTTTTCTT 58.241 39.130 8.88 1.20 46.16 2.52
264 265 5.178061 CACAGAAAAACTGGGCTTTTCTTT 58.822 37.500 8.88 2.13 46.16 2.52
265 266 5.643348 CACAGAAAAACTGGGCTTTTCTTTT 59.357 36.000 8.88 0.00 46.16 2.27
266 267 5.643348 ACAGAAAAACTGGGCTTTTCTTTTG 59.357 36.000 8.88 3.75 46.16 2.44
267 268 5.643348 CAGAAAAACTGGGCTTTTCTTTTGT 59.357 36.000 8.88 0.00 46.16 2.83
268 269 6.149308 CAGAAAAACTGGGCTTTTCTTTTGTT 59.851 34.615 8.88 0.00 46.16 2.83
269 270 6.714810 AGAAAAACTGGGCTTTTCTTTTGTTT 59.285 30.769 6.42 0.00 46.16 2.83
270 271 6.494893 AAAACTGGGCTTTTCTTTTGTTTC 57.505 33.333 0.00 0.00 0.00 2.78
271 272 3.780902 ACTGGGCTTTTCTTTTGTTTCG 58.219 40.909 0.00 0.00 0.00 3.46
272 273 2.539688 CTGGGCTTTTCTTTTGTTTCGC 59.460 45.455 0.00 0.00 0.00 4.70
273 274 2.167487 TGGGCTTTTCTTTTGTTTCGCT 59.833 40.909 0.00 0.00 0.00 4.93
274 275 3.381908 TGGGCTTTTCTTTTGTTTCGCTA 59.618 39.130 0.00 0.00 0.00 4.26
275 276 3.734231 GGGCTTTTCTTTTGTTTCGCTAC 59.266 43.478 0.00 0.00 0.00 3.58
276 277 4.499188 GGGCTTTTCTTTTGTTTCGCTACT 60.499 41.667 0.00 0.00 0.00 2.57
277 278 5.278120 GGGCTTTTCTTTTGTTTCGCTACTA 60.278 40.000 0.00 0.00 0.00 1.82
278 279 5.851703 GGCTTTTCTTTTGTTTCGCTACTAG 59.148 40.000 0.00 0.00 0.00 2.57
279 280 5.851703 GCTTTTCTTTTGTTTCGCTACTAGG 59.148 40.000 0.00 0.00 0.00 3.02
280 281 5.352643 TTTCTTTTGTTTCGCTACTAGGC 57.647 39.130 0.00 0.00 0.00 3.93
281 282 4.267349 TCTTTTGTTTCGCTACTAGGCT 57.733 40.909 0.00 0.00 0.00 4.58
282 283 4.638304 TCTTTTGTTTCGCTACTAGGCTT 58.362 39.130 0.00 0.00 0.00 4.35
283 284 5.061179 TCTTTTGTTTCGCTACTAGGCTTT 58.939 37.500 0.00 0.00 0.00 3.51
284 285 5.529800 TCTTTTGTTTCGCTACTAGGCTTTT 59.470 36.000 0.00 0.00 0.00 2.27
285 286 5.761165 TTTGTTTCGCTACTAGGCTTTTT 57.239 34.783 0.00 0.00 0.00 1.94
286 287 6.864360 TTTGTTTCGCTACTAGGCTTTTTA 57.136 33.333 0.00 0.00 0.00 1.52
287 288 6.864360 TTGTTTCGCTACTAGGCTTTTTAA 57.136 33.333 0.00 0.00 0.00 1.52
288 289 7.443259 TTGTTTCGCTACTAGGCTTTTTAAT 57.557 32.000 0.00 0.00 0.00 1.40
289 290 7.068692 TGTTTCGCTACTAGGCTTTTTAATC 57.931 36.000 0.00 0.00 0.00 1.75
290 291 6.877322 TGTTTCGCTACTAGGCTTTTTAATCT 59.123 34.615 0.00 0.00 0.00 2.40
291 292 8.036575 TGTTTCGCTACTAGGCTTTTTAATCTA 58.963 33.333 0.00 0.00 0.00 1.98
292 293 9.043079 GTTTCGCTACTAGGCTTTTTAATCTAT 57.957 33.333 0.00 0.00 0.00 1.98
293 294 8.813643 TTCGCTACTAGGCTTTTTAATCTATC 57.186 34.615 0.00 0.00 0.00 2.08
294 295 7.376615 TCGCTACTAGGCTTTTTAATCTATCC 58.623 38.462 0.00 0.00 0.00 2.59
295 296 7.232941 TCGCTACTAGGCTTTTTAATCTATCCT 59.767 37.037 0.00 0.00 0.00 3.24
296 297 7.329717 CGCTACTAGGCTTTTTAATCTATCCTG 59.670 40.741 0.00 0.00 0.00 3.86
297 298 8.151596 GCTACTAGGCTTTTTAATCTATCCTGT 58.848 37.037 0.00 0.00 0.00 4.00
300 301 9.178758 ACTAGGCTTTTTAATCTATCCTGTTTG 57.821 33.333 0.00 0.00 0.00 2.93
301 302 7.410120 AGGCTTTTTAATCTATCCTGTTTGG 57.590 36.000 0.00 0.00 37.10 3.28
302 303 6.042777 GGCTTTTTAATCTATCCTGTTTGGC 58.957 40.000 0.00 0.00 35.26 4.52
303 304 6.127338 GGCTTTTTAATCTATCCTGTTTGGCT 60.127 38.462 0.00 0.00 35.26 4.75
304 305 7.323420 GCTTTTTAATCTATCCTGTTTGGCTT 58.677 34.615 0.00 0.00 35.26 4.35
305 306 8.466798 GCTTTTTAATCTATCCTGTTTGGCTTA 58.533 33.333 0.00 0.00 35.26 3.09
310 311 7.961326 AATCTATCCTGTTTGGCTTATTTGT 57.039 32.000 0.00 0.00 35.26 2.83
311 312 7.961326 ATCTATCCTGTTTGGCTTATTTGTT 57.039 32.000 0.00 0.00 35.26 2.83
312 313 7.775053 TCTATCCTGTTTGGCTTATTTGTTT 57.225 32.000 0.00 0.00 35.26 2.83
313 314 8.189119 TCTATCCTGTTTGGCTTATTTGTTTT 57.811 30.769 0.00 0.00 35.26 2.43
314 315 8.646900 TCTATCCTGTTTGGCTTATTTGTTTTT 58.353 29.630 0.00 0.00 35.26 1.94
315 316 6.917217 TCCTGTTTGGCTTATTTGTTTTTG 57.083 33.333 0.00 0.00 35.26 2.44
316 317 5.295540 TCCTGTTTGGCTTATTTGTTTTTGC 59.704 36.000 0.00 0.00 35.26 3.68
317 318 5.296531 CCTGTTTGGCTTATTTGTTTTTGCT 59.703 36.000 0.00 0.00 0.00 3.91
318 319 6.481644 CCTGTTTGGCTTATTTGTTTTTGCTA 59.518 34.615 0.00 0.00 0.00 3.49
319 320 7.240414 TGTTTGGCTTATTTGTTTTTGCTAC 57.760 32.000 0.00 0.00 0.00 3.58
320 321 6.258947 TGTTTGGCTTATTTGTTTTTGCTACC 59.741 34.615 0.00 0.00 0.00 3.18
321 322 4.551388 TGGCTTATTTGTTTTTGCTACCG 58.449 39.130 0.00 0.00 0.00 4.02
322 323 4.278669 TGGCTTATTTGTTTTTGCTACCGA 59.721 37.500 0.00 0.00 0.00 4.69
323 324 4.857037 GGCTTATTTGTTTTTGCTACCGAG 59.143 41.667 0.00 0.00 0.00 4.63
324 325 5.335348 GGCTTATTTGTTTTTGCTACCGAGA 60.335 40.000 0.00 0.00 0.00 4.04
325 326 6.322491 GCTTATTTGTTTTTGCTACCGAGAT 58.678 36.000 0.00 0.00 0.00 2.75
326 327 6.806739 GCTTATTTGTTTTTGCTACCGAGATT 59.193 34.615 0.00 0.00 0.00 2.40
327 328 7.328493 GCTTATTTGTTTTTGCTACCGAGATTT 59.672 33.333 0.00 0.00 0.00 2.17
328 329 8.514136 TTATTTGTTTTTGCTACCGAGATTTG 57.486 30.769 0.00 0.00 0.00 2.32
329 330 5.508200 TTGTTTTTGCTACCGAGATTTGT 57.492 34.783 0.00 0.00 0.00 2.83
330 331 5.508200 TGTTTTTGCTACCGAGATTTGTT 57.492 34.783 0.00 0.00 0.00 2.83
331 332 5.277825 TGTTTTTGCTACCGAGATTTGTTG 58.722 37.500 0.00 0.00 0.00 3.33
332 333 3.552604 TTTGCTACCGAGATTTGTTGC 57.447 42.857 0.00 0.00 34.49 4.17
333 334 1.075542 TGCTACCGAGATTTGTTGCG 58.924 50.000 0.00 0.00 36.27 4.85
335 336 2.004583 CTACCGAGATTTGTTGCGGA 57.995 50.000 7.16 0.00 46.29 5.54
336 337 2.550978 CTACCGAGATTTGTTGCGGAT 58.449 47.619 7.16 0.00 46.29 4.18
337 338 2.684001 ACCGAGATTTGTTGCGGATA 57.316 45.000 7.16 0.00 46.29 2.59
338 339 2.277084 ACCGAGATTTGTTGCGGATAC 58.723 47.619 7.16 0.00 46.29 2.24
353 354 3.495670 GGATACGAGAAGGATGATCGG 57.504 52.381 0.00 0.00 40.67 4.18
354 355 2.820787 GGATACGAGAAGGATGATCGGT 59.179 50.000 0.00 0.00 40.67 4.69
355 356 3.366476 GGATACGAGAAGGATGATCGGTG 60.366 52.174 0.00 0.00 40.67 4.94
356 357 0.103208 ACGAGAAGGATGATCGGTGC 59.897 55.000 0.00 0.00 40.67 5.01
387 388 1.626321 TGGTGCTTCCCTATCGAACAA 59.374 47.619 0.00 0.00 34.77 2.83
394 395 4.487948 CTTCCCTATCGAACAACAACGTA 58.512 43.478 0.00 0.00 0.00 3.57
577 581 0.970937 CCCCGAAGCTCTCACACCTA 60.971 60.000 0.00 0.00 0.00 3.08
1712 1853 9.391006 GTAATTTGTTTCATGAGACCTGGTATA 57.609 33.333 13.40 0.00 0.00 1.47
2387 2832 8.565896 TGAGAATTTTGTAGCTGTATGTTGAT 57.434 30.769 0.00 0.00 0.00 2.57
2388 2833 9.013229 TGAGAATTTTGTAGCTGTATGTTGATT 57.987 29.630 0.00 0.00 0.00 2.57
2396 2841 9.845740 TTGTAGCTGTATGTTGATTATTATGGT 57.154 29.630 0.00 0.00 0.00 3.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 5.724328 TGCCAAACATGTAGAACACAAAAA 58.276 33.333 0.00 0.00 41.55 1.94
26 27 5.330455 TGCCAAACATGTAGAACACAAAA 57.670 34.783 0.00 0.00 41.55 2.44
27 28 4.991153 TGCCAAACATGTAGAACACAAA 57.009 36.364 0.00 0.00 41.55 2.83
28 29 4.991153 TTGCCAAACATGTAGAACACAA 57.009 36.364 0.00 0.00 41.55 3.33
29 30 5.528043 AATTGCCAAACATGTAGAACACA 57.472 34.783 0.00 0.00 42.69 3.72
30 31 9.632807 TTAATAATTGCCAAACATGTAGAACAC 57.367 29.630 0.00 0.00 0.00 3.32
33 34 9.729023 CGATTAATAATTGCCAAACATGTAGAA 57.271 29.630 0.00 0.00 0.00 2.10
34 35 9.114952 TCGATTAATAATTGCCAAACATGTAGA 57.885 29.630 0.00 0.00 0.00 2.59
35 36 9.385902 CTCGATTAATAATTGCCAAACATGTAG 57.614 33.333 0.00 0.00 0.00 2.74
36 37 9.114952 TCTCGATTAATAATTGCCAAACATGTA 57.885 29.630 0.00 0.00 0.00 2.29
37 38 7.995289 TCTCGATTAATAATTGCCAAACATGT 58.005 30.769 0.00 0.00 0.00 3.21
38 39 9.467258 AATCTCGATTAATAATTGCCAAACATG 57.533 29.630 0.00 0.00 0.00 3.21
40 41 9.868277 AAAATCTCGATTAATAATTGCCAAACA 57.132 25.926 0.00 0.00 0.00 2.83
118 119 7.171653 TCCATCTGTACATACATGGTGAAAAA 58.828 34.615 20.28 5.49 37.52 1.94
119 120 6.716284 TCCATCTGTACATACATGGTGAAAA 58.284 36.000 20.28 5.99 37.52 2.29
120 121 6.306643 TCCATCTGTACATACATGGTGAAA 57.693 37.500 20.28 6.26 37.52 2.69
121 122 5.948742 TCCATCTGTACATACATGGTGAA 57.051 39.130 20.28 6.51 37.52 3.18
122 123 5.948742 TTCCATCTGTACATACATGGTGA 57.051 39.130 20.28 12.25 37.52 4.02
123 124 7.420002 CAATTTCCATCTGTACATACATGGTG 58.580 38.462 20.28 12.13 37.52 4.17
124 125 6.547141 CCAATTTCCATCTGTACATACATGGT 59.453 38.462 20.28 6.51 37.52 3.55
125 126 6.515531 GCCAATTTCCATCTGTACATACATGG 60.516 42.308 17.12 17.12 37.58 3.66
126 127 6.263842 AGCCAATTTCCATCTGTACATACATG 59.736 38.462 0.00 0.00 35.36 3.21
127 128 6.367983 AGCCAATTTCCATCTGTACATACAT 58.632 36.000 0.00 0.00 35.36 2.29
128 129 5.754782 AGCCAATTTCCATCTGTACATACA 58.245 37.500 0.00 0.00 34.56 2.29
129 130 6.318648 TCAAGCCAATTTCCATCTGTACATAC 59.681 38.462 0.00 0.00 0.00 2.39
130 131 6.318648 GTCAAGCCAATTTCCATCTGTACATA 59.681 38.462 0.00 0.00 0.00 2.29
131 132 5.126061 GTCAAGCCAATTTCCATCTGTACAT 59.874 40.000 0.00 0.00 0.00 2.29
132 133 4.458989 GTCAAGCCAATTTCCATCTGTACA 59.541 41.667 0.00 0.00 0.00 2.90
133 134 4.702131 AGTCAAGCCAATTTCCATCTGTAC 59.298 41.667 0.00 0.00 0.00 2.90
134 135 4.922206 AGTCAAGCCAATTTCCATCTGTA 58.078 39.130 0.00 0.00 0.00 2.74
135 136 3.771216 AGTCAAGCCAATTTCCATCTGT 58.229 40.909 0.00 0.00 0.00 3.41
136 137 4.796038 AAGTCAAGCCAATTTCCATCTG 57.204 40.909 0.00 0.00 0.00 2.90
137 138 5.813513 AAAAGTCAAGCCAATTTCCATCT 57.186 34.783 0.00 0.00 0.00 2.90
157 158 6.824305 TTTTGCAATGACCCAAAAGAAAAA 57.176 29.167 0.00 0.00 36.38 1.94
158 159 6.824305 TTTTTGCAATGACCCAAAAGAAAA 57.176 29.167 0.00 0.00 40.66 2.29
183 184 9.964303 GAAATTTGCAATGGGTAAAAGATTTTT 57.036 25.926 0.00 0.00 34.69 1.94
184 185 9.353431 AGAAATTTGCAATGGGTAAAAGATTTT 57.647 25.926 0.00 0.00 34.69 1.82
185 186 8.785946 CAGAAATTTGCAATGGGTAAAAGATTT 58.214 29.630 0.00 0.00 34.69 2.17
186 187 7.094677 GCAGAAATTTGCAATGGGTAAAAGATT 60.095 33.333 0.00 0.00 43.53 2.40
187 188 6.372381 GCAGAAATTTGCAATGGGTAAAAGAT 59.628 34.615 0.00 0.00 43.53 2.40
188 189 5.700373 GCAGAAATTTGCAATGGGTAAAAGA 59.300 36.000 0.00 0.00 43.53 2.52
189 190 5.702209 AGCAGAAATTTGCAATGGGTAAAAG 59.298 36.000 0.00 0.00 46.47 2.27
190 191 5.619220 AGCAGAAATTTGCAATGGGTAAAA 58.381 33.333 0.00 0.00 46.47 1.52
191 192 5.226194 AGCAGAAATTTGCAATGGGTAAA 57.774 34.783 0.00 0.00 46.47 2.01
192 193 4.888326 AGCAGAAATTTGCAATGGGTAA 57.112 36.364 0.00 0.00 46.47 2.85
193 194 4.888326 AAGCAGAAATTTGCAATGGGTA 57.112 36.364 0.00 0.00 46.47 3.69
194 195 3.775261 AAGCAGAAATTTGCAATGGGT 57.225 38.095 0.00 0.00 46.47 4.51
195 196 6.557291 TTAAAAGCAGAAATTTGCAATGGG 57.443 33.333 0.00 0.00 46.47 4.00
196 197 7.641760 ACTTTAAAAGCAGAAATTTGCAATGG 58.358 30.769 0.00 0.00 46.47 3.16
197 198 8.949953 CAACTTTAAAAGCAGAAATTTGCAATG 58.050 29.630 0.00 0.00 46.47 2.82
198 199 8.891720 TCAACTTTAAAAGCAGAAATTTGCAAT 58.108 25.926 0.00 0.00 46.47 3.56
199 200 8.261492 TCAACTTTAAAAGCAGAAATTTGCAA 57.739 26.923 0.00 0.00 46.47 4.08
200 201 7.840342 TCAACTTTAAAAGCAGAAATTTGCA 57.160 28.000 4.99 0.00 46.47 4.08
201 202 7.799914 CCATCAACTTTAAAAGCAGAAATTTGC 59.200 33.333 0.00 0.00 44.41 3.68
202 203 7.799914 GCCATCAACTTTAAAAGCAGAAATTTG 59.200 33.333 0.00 0.00 30.56 2.32
203 204 7.498570 TGCCATCAACTTTAAAAGCAGAAATTT 59.501 29.630 0.00 0.00 0.00 1.82
204 205 6.991531 TGCCATCAACTTTAAAAGCAGAAATT 59.008 30.769 0.00 0.00 0.00 1.82
205 206 6.523840 TGCCATCAACTTTAAAAGCAGAAAT 58.476 32.000 0.00 0.00 0.00 2.17
206 207 5.911752 TGCCATCAACTTTAAAAGCAGAAA 58.088 33.333 0.00 0.00 0.00 2.52
207 208 5.528043 TGCCATCAACTTTAAAAGCAGAA 57.472 34.783 0.00 0.00 0.00 3.02
208 209 5.726980 ATGCCATCAACTTTAAAAGCAGA 57.273 34.783 0.00 0.00 31.70 4.26
209 210 6.790285 AAATGCCATCAACTTTAAAAGCAG 57.210 33.333 0.00 0.00 31.70 4.24
210 211 7.565323 AAAAATGCCATCAACTTTAAAAGCA 57.435 28.000 0.00 0.00 0.00 3.91
231 232 5.336744 CCAGTTTTTCTGTGCTACGAAAAA 58.663 37.500 16.93 16.93 43.11 1.94
232 233 4.201970 CCCAGTTTTTCTGTGCTACGAAAA 60.202 41.667 0.00 0.00 42.19 2.29
233 234 3.314080 CCCAGTTTTTCTGTGCTACGAAA 59.686 43.478 0.00 0.00 42.19 3.46
234 235 2.875933 CCCAGTTTTTCTGTGCTACGAA 59.124 45.455 0.00 0.00 42.19 3.85
235 236 2.489971 CCCAGTTTTTCTGTGCTACGA 58.510 47.619 0.00 0.00 42.19 3.43
236 237 1.069227 GCCCAGTTTTTCTGTGCTACG 60.069 52.381 0.00 0.00 42.68 3.51
237 238 2.706555 GCCCAGTTTTTCTGTGCTAC 57.293 50.000 0.00 0.00 42.68 3.58
240 241 2.602257 AAAGCCCAGTTTTTCTGTGC 57.398 45.000 0.00 0.00 45.49 4.57
241 242 4.391405 AGAAAAGCCCAGTTTTTCTGTG 57.609 40.909 15.49 0.00 45.98 3.66
242 243 5.420725 AAAGAAAAGCCCAGTTTTTCTGT 57.579 34.783 16.54 10.55 46.63 3.41
243 244 5.643348 ACAAAAGAAAAGCCCAGTTTTTCTG 59.357 36.000 16.54 9.92 46.63 3.02
245 246 6.494893 AACAAAAGAAAAGCCCAGTTTTTC 57.505 33.333 8.16 8.16 41.00 2.29
246 247 6.348132 CGAAACAAAAGAAAAGCCCAGTTTTT 60.348 34.615 0.00 0.00 29.58 1.94
247 248 5.121611 CGAAACAAAAGAAAAGCCCAGTTTT 59.878 36.000 0.00 0.00 32.18 2.43
248 249 4.629634 CGAAACAAAAGAAAAGCCCAGTTT 59.370 37.500 0.00 0.00 0.00 2.66
249 250 4.180817 CGAAACAAAAGAAAAGCCCAGTT 58.819 39.130 0.00 0.00 0.00 3.16
250 251 3.780902 CGAAACAAAAGAAAAGCCCAGT 58.219 40.909 0.00 0.00 0.00 4.00
251 252 2.539688 GCGAAACAAAAGAAAAGCCCAG 59.460 45.455 0.00 0.00 0.00 4.45
252 253 2.167487 AGCGAAACAAAAGAAAAGCCCA 59.833 40.909 0.00 0.00 0.00 5.36
253 254 2.821546 AGCGAAACAAAAGAAAAGCCC 58.178 42.857 0.00 0.00 0.00 5.19
254 255 4.607955 AGTAGCGAAACAAAAGAAAAGCC 58.392 39.130 0.00 0.00 0.00 4.35
255 256 5.851703 CCTAGTAGCGAAACAAAAGAAAAGC 59.148 40.000 0.00 0.00 0.00 3.51
256 257 5.851703 GCCTAGTAGCGAAACAAAAGAAAAG 59.148 40.000 0.00 0.00 0.00 2.27
257 258 5.529800 AGCCTAGTAGCGAAACAAAAGAAAA 59.470 36.000 0.00 0.00 38.01 2.29
258 259 5.061179 AGCCTAGTAGCGAAACAAAAGAAA 58.939 37.500 0.00 0.00 38.01 2.52
259 260 4.638304 AGCCTAGTAGCGAAACAAAAGAA 58.362 39.130 0.00 0.00 38.01 2.52
260 261 4.267349 AGCCTAGTAGCGAAACAAAAGA 57.733 40.909 0.00 0.00 38.01 2.52
261 262 5.358298 AAAGCCTAGTAGCGAAACAAAAG 57.642 39.130 0.00 0.00 38.01 2.27
262 263 5.761165 AAAAGCCTAGTAGCGAAACAAAA 57.239 34.783 0.00 0.00 38.01 2.44
263 264 5.761165 AAAAAGCCTAGTAGCGAAACAAA 57.239 34.783 0.00 0.00 38.01 2.83
264 265 6.864360 TTAAAAAGCCTAGTAGCGAAACAA 57.136 33.333 0.00 0.00 38.01 2.83
265 266 6.877322 AGATTAAAAAGCCTAGTAGCGAAACA 59.123 34.615 0.00 0.00 38.01 2.83
266 267 7.304919 AGATTAAAAAGCCTAGTAGCGAAAC 57.695 36.000 0.00 0.00 38.01 2.78
267 268 9.257651 GATAGATTAAAAAGCCTAGTAGCGAAA 57.742 33.333 0.00 0.00 38.01 3.46
268 269 7.871463 GGATAGATTAAAAAGCCTAGTAGCGAA 59.129 37.037 0.00 0.00 38.01 4.70
269 270 7.232941 AGGATAGATTAAAAAGCCTAGTAGCGA 59.767 37.037 0.00 0.00 38.01 4.93
270 271 7.329717 CAGGATAGATTAAAAAGCCTAGTAGCG 59.670 40.741 0.00 0.00 38.01 4.26
271 272 8.151596 ACAGGATAGATTAAAAAGCCTAGTAGC 58.848 37.037 0.00 0.00 0.00 3.58
274 275 9.178758 CAAACAGGATAGATTAAAAAGCCTAGT 57.821 33.333 0.00 0.00 0.00 2.57
275 276 8.624776 CCAAACAGGATAGATTAAAAAGCCTAG 58.375 37.037 0.00 0.00 41.22 3.02
276 277 7.068226 GCCAAACAGGATAGATTAAAAAGCCTA 59.932 37.037 0.00 0.00 41.22 3.93
277 278 6.127338 GCCAAACAGGATAGATTAAAAAGCCT 60.127 38.462 0.00 0.00 41.22 4.58
278 279 6.042777 GCCAAACAGGATAGATTAAAAAGCC 58.957 40.000 0.00 0.00 41.22 4.35
279 280 6.867550 AGCCAAACAGGATAGATTAAAAAGC 58.132 36.000 0.00 0.00 41.22 3.51
284 285 9.474313 ACAAATAAGCCAAACAGGATAGATTAA 57.526 29.630 0.00 0.00 41.22 1.40
285 286 9.474313 AACAAATAAGCCAAACAGGATAGATTA 57.526 29.630 0.00 0.00 41.22 1.75
286 287 7.961326 ACAAATAAGCCAAACAGGATAGATT 57.039 32.000 0.00 0.00 41.22 2.40
287 288 7.961326 AACAAATAAGCCAAACAGGATAGAT 57.039 32.000 0.00 0.00 41.22 1.98
288 289 7.775053 AAACAAATAAGCCAAACAGGATAGA 57.225 32.000 0.00 0.00 41.22 1.98
289 290 8.711457 CAAAAACAAATAAGCCAAACAGGATAG 58.289 33.333 0.00 0.00 41.22 2.08
290 291 7.172361 GCAAAAACAAATAAGCCAAACAGGATA 59.828 33.333 0.00 0.00 41.22 2.59
291 292 6.017192 GCAAAAACAAATAAGCCAAACAGGAT 60.017 34.615 0.00 0.00 41.22 3.24
292 293 5.295540 GCAAAAACAAATAAGCCAAACAGGA 59.704 36.000 0.00 0.00 41.22 3.86
293 294 5.296531 AGCAAAAACAAATAAGCCAAACAGG 59.703 36.000 0.00 0.00 41.84 4.00
294 295 6.362210 AGCAAAAACAAATAAGCCAAACAG 57.638 33.333 0.00 0.00 0.00 3.16
295 296 6.258947 GGTAGCAAAAACAAATAAGCCAAACA 59.741 34.615 0.00 0.00 0.00 2.83
296 297 6.563196 CGGTAGCAAAAACAAATAAGCCAAAC 60.563 38.462 0.00 0.00 0.00 2.93
297 298 5.463724 CGGTAGCAAAAACAAATAAGCCAAA 59.536 36.000 0.00 0.00 0.00 3.28
298 299 4.985409 CGGTAGCAAAAACAAATAAGCCAA 59.015 37.500 0.00 0.00 0.00 4.52
299 300 4.278669 TCGGTAGCAAAAACAAATAAGCCA 59.721 37.500 0.00 0.00 0.00 4.75
300 301 4.800784 TCGGTAGCAAAAACAAATAAGCC 58.199 39.130 0.00 0.00 0.00 4.35
301 302 5.695818 TCTCGGTAGCAAAAACAAATAAGC 58.304 37.500 0.00 0.00 0.00 3.09
302 303 8.638565 CAAATCTCGGTAGCAAAAACAAATAAG 58.361 33.333 0.00 0.00 0.00 1.73
303 304 8.138712 ACAAATCTCGGTAGCAAAAACAAATAA 58.861 29.630 0.00 0.00 0.00 1.40
304 305 7.653647 ACAAATCTCGGTAGCAAAAACAAATA 58.346 30.769 0.00 0.00 0.00 1.40
305 306 6.512297 ACAAATCTCGGTAGCAAAAACAAAT 58.488 32.000 0.00 0.00 0.00 2.32
306 307 5.897050 ACAAATCTCGGTAGCAAAAACAAA 58.103 33.333 0.00 0.00 0.00 2.83
307 308 5.508200 ACAAATCTCGGTAGCAAAAACAA 57.492 34.783 0.00 0.00 0.00 2.83
308 309 5.277825 CAACAAATCTCGGTAGCAAAAACA 58.722 37.500 0.00 0.00 0.00 2.83
309 310 4.148174 GCAACAAATCTCGGTAGCAAAAAC 59.852 41.667 0.00 0.00 0.00 2.43
310 311 4.295051 GCAACAAATCTCGGTAGCAAAAA 58.705 39.130 0.00 0.00 0.00 1.94
311 312 3.608241 CGCAACAAATCTCGGTAGCAAAA 60.608 43.478 0.00 0.00 0.00 2.44
312 313 2.095969 CGCAACAAATCTCGGTAGCAAA 60.096 45.455 0.00 0.00 0.00 3.68
313 314 1.463056 CGCAACAAATCTCGGTAGCAA 59.537 47.619 0.00 0.00 0.00 3.91
314 315 1.075542 CGCAACAAATCTCGGTAGCA 58.924 50.000 0.00 0.00 0.00 3.49
315 316 0.373716 CCGCAACAAATCTCGGTAGC 59.626 55.000 0.00 0.00 37.33 3.58
316 317 2.004583 TCCGCAACAAATCTCGGTAG 57.995 50.000 0.00 0.00 42.28 3.18
317 318 2.684001 ATCCGCAACAAATCTCGGTA 57.316 45.000 0.00 0.00 42.28 4.02
318 319 2.277084 GTATCCGCAACAAATCTCGGT 58.723 47.619 0.00 0.00 42.28 4.69
319 320 1.257936 CGTATCCGCAACAAATCTCGG 59.742 52.381 0.00 0.00 42.96 4.63
320 321 2.190161 TCGTATCCGCAACAAATCTCG 58.810 47.619 0.00 0.00 0.00 4.04
321 322 3.444916 TCTCGTATCCGCAACAAATCTC 58.555 45.455 0.00 0.00 0.00 2.75
322 323 3.520290 TCTCGTATCCGCAACAAATCT 57.480 42.857 0.00 0.00 0.00 2.40
323 324 3.001330 CCTTCTCGTATCCGCAACAAATC 59.999 47.826 0.00 0.00 0.00 2.17
324 325 2.936498 CCTTCTCGTATCCGCAACAAAT 59.064 45.455 0.00 0.00 0.00 2.32
325 326 2.028839 TCCTTCTCGTATCCGCAACAAA 60.029 45.455 0.00 0.00 0.00 2.83
326 327 1.546923 TCCTTCTCGTATCCGCAACAA 59.453 47.619 0.00 0.00 0.00 2.83
327 328 1.179152 TCCTTCTCGTATCCGCAACA 58.821 50.000 0.00 0.00 0.00 3.33
328 329 2.128035 CATCCTTCTCGTATCCGCAAC 58.872 52.381 0.00 0.00 0.00 4.17
329 330 2.028876 TCATCCTTCTCGTATCCGCAA 58.971 47.619 0.00 0.00 0.00 4.85
330 331 1.687563 TCATCCTTCTCGTATCCGCA 58.312 50.000 0.00 0.00 0.00 5.69
331 332 2.729467 CGATCATCCTTCTCGTATCCGC 60.729 54.545 0.00 0.00 0.00 5.54
332 333 2.159503 CCGATCATCCTTCTCGTATCCG 60.160 54.545 0.00 0.00 0.00 4.18
333 334 2.820787 ACCGATCATCCTTCTCGTATCC 59.179 50.000 0.00 0.00 0.00 2.59
334 335 3.827625 CACCGATCATCCTTCTCGTATC 58.172 50.000 0.00 0.00 0.00 2.24
335 336 2.029828 GCACCGATCATCCTTCTCGTAT 60.030 50.000 0.00 0.00 0.00 3.06
336 337 1.337071 GCACCGATCATCCTTCTCGTA 59.663 52.381 0.00 0.00 0.00 3.43
337 338 0.103208 GCACCGATCATCCTTCTCGT 59.897 55.000 0.00 0.00 0.00 4.18
338 339 0.936764 CGCACCGATCATCCTTCTCG 60.937 60.000 0.00 0.00 0.00 4.04
339 340 0.103208 ACGCACCGATCATCCTTCTC 59.897 55.000 0.00 0.00 0.00 2.87
340 341 0.537188 AACGCACCGATCATCCTTCT 59.463 50.000 0.00 0.00 0.00 2.85
341 342 0.931005 GAACGCACCGATCATCCTTC 59.069 55.000 0.00 0.00 0.00 3.46
342 343 0.806102 CGAACGCACCGATCATCCTT 60.806 55.000 0.00 0.00 0.00 3.36
343 344 1.226974 CGAACGCACCGATCATCCT 60.227 57.895 0.00 0.00 0.00 3.24
344 345 2.237751 CCGAACGCACCGATCATCC 61.238 63.158 0.00 0.00 0.00 3.51
345 346 2.237751 CCCGAACGCACCGATCATC 61.238 63.158 0.00 0.00 0.00 2.92
346 347 2.202878 CCCGAACGCACCGATCAT 60.203 61.111 0.00 0.00 0.00 2.45
348 349 4.814294 AGCCCGAACGCACCGATC 62.814 66.667 0.00 0.00 0.00 3.69
356 357 4.988598 AGCACCACAGCCCGAACG 62.989 66.667 0.00 0.00 34.23 3.95
387 388 6.069331 AGATAGATGATACCCTGTACGTTGT 58.931 40.000 0.00 0.00 0.00 3.32
476 477 0.252558 AAGCTAGGGTTCGGGGAGAA 60.253 55.000 0.00 0.00 36.31 2.87
577 581 3.617284 GTCGGGATTGGTGTAGGATTTT 58.383 45.455 0.00 0.00 0.00 1.82
1302 1344 1.343277 ACAACATAGTACCGGGGCCTA 60.343 52.381 6.32 2.62 0.00 3.93
1712 1853 6.990908 TCTCTACTGAATGATGACATGGAT 57.009 37.500 0.00 0.00 36.79 3.41


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

AutoCloner maintained by Alex Coulton.