Multiple sequence alignment - TraesCS1D01G083900

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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 TraesCS1D01G083900 chr1D 100.000 2359 0 0 1 2359 66988844 66986486 0.000000e+00 4357
1 TraesCS1D01G083900 chr1B 87.037 1674 107 49 588 2201 108211083 108209460 0.000000e+00 1788
2 TraesCS1D01G083900 chr1B 78.425 584 70 32 34 585 108211711 108211152 1.750000e-86 329
3 TraesCS1D01G083900 chr1B 88.554 166 17 2 2196 2359 108209381 108209216 1.430000e-47 200
4 TraesCS1D01G083900 chr1B 85.350 157 22 1 2056 2211 649337121 649336965 6.750000e-36 161
5 TraesCS1D01G083900 chr1B 84.906 159 23 1 2054 2211 652464764 652464922 2.430000e-35 159
6 TraesCS1D01G083900 chr1A 86.249 909 38 39 707 1599 65759824 65758987 0.000000e+00 905
7 TraesCS1D01G083900 chr1A 90.201 398 14 10 1603 1989 65758705 65758322 1.630000e-136 496
8 TraesCS1D01G083900 chr1A 94.904 157 8 0 427 583 65761475 65761319 1.810000e-61 246
9 TraesCS1D01G083900 chr1A 92.623 122 8 1 588 709 65761244 65761124 8.670000e-40 174
10 TraesCS1D01G083900 chr1A 85.987 157 20 2 2057 2211 570252306 570252462 1.450000e-37 167
11 TraesCS1D01G083900 chr7B 87.500 152 17 2 2056 2206 413252498 413252348 8.670000e-40 174
12 TraesCS1D01G083900 chr5B 85.987 157 21 1 2056 2211 341533733 341533889 1.450000e-37 167
13 TraesCS1D01G083900 chr2A 85.350 157 22 1 2056 2211 57999153 57999309 6.750000e-36 161
14 TraesCS1D01G083900 chr2A 91.667 84 7 0 1006 1089 100129663 100129580 1.480000e-22 117
15 TraesCS1D01G083900 chr3D 85.256 156 21 2 2057 2211 442812912 442813066 2.430000e-35 159
16 TraesCS1D01G083900 chr3D 90.588 85 8 0 1006 1090 284206151 284206067 1.920000e-21 113
17 TraesCS1D01G083900 chr5D 84.049 163 25 1 2050 2211 314421983 314422145 3.140000e-34 156
18 TraesCS1D01G083900 chr2D 91.765 85 7 0 1006 1090 100318439 100318355 4.120000e-23 119
19 TraesCS1D01G083900 chr2D 90.123 81 8 0 1006 1086 54392651 54392731 3.210000e-19 106
20 TraesCS1D01G083900 chr3B 90.588 85 8 0 1006 1090 245922878 245922794 1.920000e-21 113
21 TraesCS1D01G083900 chr2B 90.476 84 8 0 1006 1089 152175954 152175871 6.890000e-21 111
22 TraesCS1D01G083900 chr7A 91.026 78 7 0 1012 1089 533367796 533367719 3.210000e-19 106


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 TraesCS1D01G083900 chr1D 66986486 66988844 2358 True 4357.000000 4357 100.00000 1 2359 1 chr1D.!!$R1 2358
1 TraesCS1D01G083900 chr1B 108209216 108211711 2495 True 772.333333 1788 84.67200 34 2359 3 chr1B.!!$R2 2325
2 TraesCS1D01G083900 chr1A 65758322 65761475 3153 True 455.250000 905 90.99425 427 1989 4 chr1A.!!$R1 1562

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
853 2266 0.037232 CCGTCCACCCTTGACTTCTC 60.037 60.0 0.0 0.0 0.0 2.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1943 3702 0.486879 AGCTTTGGGTCCCCATTTCA 59.513 50.0 5.75 0.0 46.64 2.69 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
17 18 2.357034 TGCTTCCTTGCGTCGGAC 60.357 61.111 0.00 0.00 35.36 4.79
18 19 2.357034 GCTTCCTTGCGTCGGACA 60.357 61.111 9.10 0.00 0.00 4.02
19 20 2.668280 GCTTCCTTGCGTCGGACAC 61.668 63.158 9.10 0.00 0.00 3.67
27 28 4.973055 CGTCGGACACGGGGCAAA 62.973 66.667 9.10 0.00 45.46 3.68
28 29 3.351416 GTCGGACACGGGGCAAAC 61.351 66.667 2.62 0.00 41.39 2.93
29 30 4.629523 TCGGACACGGGGCAAACC 62.630 66.667 0.00 0.00 41.39 3.27
39 40 3.455152 GGCAAACCCCACCTTGAC 58.545 61.111 0.00 0.00 0.00 3.18
40 41 1.456705 GGCAAACCCCACCTTGACA 60.457 57.895 0.00 0.00 30.43 3.58
41 42 1.463553 GGCAAACCCCACCTTGACAG 61.464 60.000 0.00 0.00 30.43 3.51
42 43 0.755327 GCAAACCCCACCTTGACAGT 60.755 55.000 0.00 0.00 0.00 3.55
48 49 0.401738 CCCACCTTGACAGTGACCAT 59.598 55.000 0.00 0.00 37.42 3.55
52 53 3.005554 CACCTTGACAGTGACCATGATC 58.994 50.000 0.00 0.00 37.42 2.92
62 63 1.274358 TGACCATGATCCCTCCTTCCA 60.274 52.381 0.00 0.00 0.00 3.53
64 65 0.107456 CCATGATCCCTCCTTCCACG 59.893 60.000 0.00 0.00 0.00 4.94
65 66 1.123077 CATGATCCCTCCTTCCACGA 58.877 55.000 0.00 0.00 0.00 4.35
82 83 1.384989 CGACTACCTCGGTCATGGCT 61.385 60.000 0.00 0.00 38.87 4.75
87 88 1.144057 CCTCGGTCATGGCTACACC 59.856 63.158 0.00 0.00 39.84 4.16
95 96 3.056458 TGGCTACACCACTCCACG 58.944 61.111 0.00 0.00 46.36 4.94
110 111 1.649815 CACGCTCTAGGCTACCTCG 59.350 63.158 0.00 0.00 39.13 4.63
116 117 2.485124 GCTCTAGGCTACCTCGACACTA 60.485 54.545 0.00 0.00 38.06 2.74
118 119 3.036819 TCTAGGCTACCTCGACACTAGA 58.963 50.000 0.00 0.00 35.77 2.43
137 139 5.721960 ACTAGAAGAAAAGGCTACCATCTCA 59.278 40.000 0.00 0.00 0.00 3.27
138 140 4.837972 AGAAGAAAAGGCTACCATCTCAC 58.162 43.478 0.00 0.00 0.00 3.51
142 144 4.225942 AGAAAAGGCTACCATCTCACATGA 59.774 41.667 0.00 0.00 0.00 3.07
151 153 2.277969 CATCTCACATGAGCACCTCAC 58.722 52.381 0.00 0.00 43.63 3.51
154 156 1.742880 CACATGAGCACCTCACCGG 60.743 63.158 0.00 0.00 43.63 5.28
171 173 1.308998 CGGTGCCTTCAAAAGTCAGT 58.691 50.000 0.00 0.00 0.00 3.41
172 174 1.676006 CGGTGCCTTCAAAAGTCAGTT 59.324 47.619 0.00 0.00 0.00 3.16
174 176 3.706698 GGTGCCTTCAAAAGTCAGTTTC 58.293 45.455 0.00 0.00 0.00 2.78
176 178 4.498177 GGTGCCTTCAAAAGTCAGTTTCTC 60.498 45.833 0.00 0.00 0.00 2.87
178 180 4.576463 TGCCTTCAAAAGTCAGTTTCTCTC 59.424 41.667 0.00 0.00 0.00 3.20
180 182 5.992217 GCCTTCAAAAGTCAGTTTCTCTCTA 59.008 40.000 0.00 0.00 0.00 2.43
181 183 6.147000 GCCTTCAAAAGTCAGTTTCTCTCTAG 59.853 42.308 0.00 0.00 0.00 2.43
182 184 7.213678 CCTTCAAAAGTCAGTTTCTCTCTAGT 58.786 38.462 0.00 0.00 0.00 2.57
183 185 7.383843 CCTTCAAAAGTCAGTTTCTCTCTAGTC 59.616 40.741 0.00 0.00 0.00 2.59
184 186 7.348080 TCAAAAGTCAGTTTCTCTCTAGTCA 57.652 36.000 0.00 0.00 0.00 3.41
185 187 7.782049 TCAAAAGTCAGTTTCTCTCTAGTCAA 58.218 34.615 0.00 0.00 0.00 3.18
186 188 7.923344 TCAAAAGTCAGTTTCTCTCTAGTCAAG 59.077 37.037 0.00 0.00 0.00 3.02
187 189 6.969993 AAGTCAGTTTCTCTCTAGTCAAGT 57.030 37.500 0.00 0.00 0.00 3.16
188 190 6.569179 AGTCAGTTTCTCTCTAGTCAAGTC 57.431 41.667 0.00 0.00 0.00 3.01
191 193 7.027161 GTCAGTTTCTCTCTAGTCAAGTCATC 58.973 42.308 0.00 0.00 0.00 2.92
192 194 6.151985 TCAGTTTCTCTCTAGTCAAGTCATCC 59.848 42.308 0.00 0.00 0.00 3.51
193 195 5.124776 AGTTTCTCTCTAGTCAAGTCATCCG 59.875 44.000 0.00 0.00 0.00 4.18
194 196 4.223556 TCTCTCTAGTCAAGTCATCCGT 57.776 45.455 0.00 0.00 0.00 4.69
195 197 4.590918 TCTCTCTAGTCAAGTCATCCGTT 58.409 43.478 0.00 0.00 0.00 4.44
196 198 5.742063 TCTCTCTAGTCAAGTCATCCGTTA 58.258 41.667 0.00 0.00 0.00 3.18
198 200 5.498393 TCTCTAGTCAAGTCATCCGTTACT 58.502 41.667 0.00 0.00 0.00 2.24
199 201 5.585445 TCTCTAGTCAAGTCATCCGTTACTC 59.415 44.000 0.00 0.00 0.00 2.59
200 202 5.498393 TCTAGTCAAGTCATCCGTTACTCT 58.502 41.667 0.00 0.00 0.00 3.24
202 204 3.444388 AGTCAAGTCATCCGTTACTCTCC 59.556 47.826 0.00 0.00 0.00 3.71
204 206 3.444034 TCAAGTCATCCGTTACTCTCCTG 59.556 47.826 0.00 0.00 0.00 3.86
206 208 3.432378 AGTCATCCGTTACTCTCCTGTT 58.568 45.455 0.00 0.00 0.00 3.16
209 216 3.576982 TCATCCGTTACTCTCCTGTTGTT 59.423 43.478 0.00 0.00 0.00 2.83
212 219 1.719780 CGTTACTCTCCTGTTGTTCGC 59.280 52.381 0.00 0.00 0.00 4.70
226 233 1.731613 TTCGCGACGCTACCACAAG 60.732 57.895 19.02 0.00 0.00 3.16
247 254 3.892588 AGGATTTGTGGCGGAAAGTTTTA 59.107 39.130 0.00 0.00 0.00 1.52
248 255 4.022329 AGGATTTGTGGCGGAAAGTTTTAG 60.022 41.667 0.00 0.00 0.00 1.85
249 256 4.261867 GGATTTGTGGCGGAAAGTTTTAGT 60.262 41.667 0.00 0.00 0.00 2.24
250 257 3.701532 TTGTGGCGGAAAGTTTTAGTG 57.298 42.857 0.00 0.00 0.00 2.74
251 258 2.645802 TGTGGCGGAAAGTTTTAGTGT 58.354 42.857 0.00 0.00 0.00 3.55
252 259 3.806380 TGTGGCGGAAAGTTTTAGTGTA 58.194 40.909 0.00 0.00 0.00 2.90
253 260 4.391155 TGTGGCGGAAAGTTTTAGTGTAT 58.609 39.130 0.00 0.00 0.00 2.29
255 262 5.151389 GTGGCGGAAAGTTTTAGTGTATTG 58.849 41.667 0.00 0.00 0.00 1.90
256 263 5.049267 GTGGCGGAAAGTTTTAGTGTATTGA 60.049 40.000 0.00 0.00 0.00 2.57
257 264 5.708230 TGGCGGAAAGTTTTAGTGTATTGAT 59.292 36.000 0.00 0.00 0.00 2.57
262 269 7.744715 CGGAAAGTTTTAGTGTATTGATCACAC 59.255 37.037 6.80 6.80 45.36 3.82
285 292 3.078837 TCTTTGTATTTGTCCCTTCGGC 58.921 45.455 0.00 0.00 0.00 5.54
287 294 1.022451 TGTATTTGTCCCTTCGGCGC 61.022 55.000 0.00 0.00 0.00 6.53
311 318 6.441274 CCATCCAACATATCTTTGTACATGC 58.559 40.000 0.00 0.00 0.00 4.06
345 352 5.955961 TGTGATCCATCTCCTATTTCACA 57.044 39.130 0.00 0.00 39.53 3.58
352 359 8.733092 ATCCATCTCCTATTTCACATCTAGAA 57.267 34.615 0.00 0.00 0.00 2.10
353 360 8.187913 TCCATCTCCTATTTCACATCTAGAAG 57.812 38.462 0.00 0.00 0.00 2.85
356 363 9.474920 CATCTCCTATTTCACATCTAGAAGAAC 57.525 37.037 1.17 0.00 0.00 3.01
358 365 7.339721 TCTCCTATTTCACATCTAGAAGAACGT 59.660 37.037 1.17 0.00 0.00 3.99
359 366 7.481642 TCCTATTTCACATCTAGAAGAACGTC 58.518 38.462 1.17 0.00 0.00 4.34
373 380 3.203716 AGAACGTCCTTCAAACCTTGTC 58.796 45.455 0.00 0.00 0.00 3.18
374 381 2.702592 ACGTCCTTCAAACCTTGTCA 57.297 45.000 0.00 0.00 0.00 3.58
376 383 3.139077 ACGTCCTTCAAACCTTGTCATC 58.861 45.455 0.00 0.00 0.00 2.92
377 384 3.181454 ACGTCCTTCAAACCTTGTCATCT 60.181 43.478 0.00 0.00 0.00 2.90
379 386 5.178797 CGTCCTTCAAACCTTGTCATCTAT 58.821 41.667 0.00 0.00 0.00 1.98
380 387 6.070995 ACGTCCTTCAAACCTTGTCATCTATA 60.071 38.462 0.00 0.00 0.00 1.31
381 388 6.986817 CGTCCTTCAAACCTTGTCATCTATAT 59.013 38.462 0.00 0.00 0.00 0.86
382 389 8.141909 CGTCCTTCAAACCTTGTCATCTATATA 58.858 37.037 0.00 0.00 0.00 0.86
383 390 9.832445 GTCCTTCAAACCTTGTCATCTATATAA 57.168 33.333 0.00 0.00 0.00 0.98
388 395 9.109393 TCAAACCTTGTCATCTATATAAACAGC 57.891 33.333 0.00 0.00 0.00 4.40
389 396 9.113838 CAAACCTTGTCATCTATATAAACAGCT 57.886 33.333 0.00 0.00 0.00 4.24
390 397 8.894768 AACCTTGTCATCTATATAAACAGCTC 57.105 34.615 0.00 0.00 0.00 4.09
399 406 9.626045 CATCTATATAAACAGCTCGTCATACAA 57.374 33.333 0.00 0.00 0.00 2.41
403 410 6.795098 ATAAACAGCTCGTCATACAACAAA 57.205 33.333 0.00 0.00 0.00 2.83
407 414 2.806244 AGCTCGTCATACAACAAACACC 59.194 45.455 0.00 0.00 0.00 4.16
413 420 5.007823 TCGTCATACAACAAACACCGAATTT 59.992 36.000 0.00 0.00 0.00 1.82
415 422 6.202937 GTCATACAACAAACACCGAATTTCA 58.797 36.000 0.00 0.00 0.00 2.69
416 423 6.359617 GTCATACAACAAACACCGAATTTCAG 59.640 38.462 0.00 0.00 0.00 3.02
417 424 4.040445 ACAACAAACACCGAATTTCAGG 57.960 40.909 0.00 1.99 0.00 3.86
418 425 3.445805 ACAACAAACACCGAATTTCAGGT 59.554 39.130 6.99 6.99 42.34 4.00
421 428 2.536761 AACACCGAATTTCAGGTCGA 57.463 45.000 9.13 0.00 39.00 4.20
433 460 1.373497 AGGTCGACTGCAAAGCGAG 60.373 57.895 16.46 0.00 34.41 5.03
439 466 1.125748 CGACTGCAAAGCGAGAGAAAG 59.874 52.381 0.00 0.00 0.00 2.62
485 512 4.665645 CGAAACAACAAACGATGACGCTAT 60.666 41.667 0.00 0.00 43.96 2.97
490 517 6.037726 ACAACAAACGATGACGCTATATGTA 58.962 36.000 0.00 0.00 43.96 2.29
507 534 2.945456 TGTACAGCCAGTATCCTCGAT 58.055 47.619 0.00 0.00 34.67 3.59
585 614 4.804108 TGTTTGCAATCCTACAAAATCCG 58.196 39.130 0.00 0.00 37.50 4.18
586 615 4.279671 TGTTTGCAATCCTACAAAATCCGT 59.720 37.500 0.00 0.00 37.50 4.69
637 739 4.638421 CGGTCAAATTGCTATGGGAAACTA 59.362 41.667 0.00 0.00 0.00 2.24
709 811 2.415512 GGCAAGCTCGAACGAGTTTTAT 59.584 45.455 19.85 1.58 41.70 1.40
710 812 3.483738 GGCAAGCTCGAACGAGTTTTATC 60.484 47.826 19.85 13.15 41.70 1.75
711 813 3.483738 GCAAGCTCGAACGAGTTTTATCC 60.484 47.826 19.85 8.41 41.70 2.59
712 814 2.889852 AGCTCGAACGAGTTTTATCCC 58.110 47.619 22.03 6.20 43.70 3.85
713 815 2.496470 AGCTCGAACGAGTTTTATCCCT 59.504 45.455 22.03 8.10 43.70 4.20
807 2214 1.208165 TTTCCTCCCTCCCTGCCTTC 61.208 60.000 0.00 0.00 0.00 3.46
853 2266 0.037232 CCGTCCACCCTTGACTTCTC 60.037 60.000 0.00 0.00 0.00 2.87
917 2330 2.009302 GCCCCTTCCTTCCCATCCT 61.009 63.158 0.00 0.00 0.00 3.24
918 2331 1.925888 CCCCTTCCTTCCCATCCTG 59.074 63.158 0.00 0.00 0.00 3.86
927 2340 0.911045 TTCCCATCCTGCTCTGCTCA 60.911 55.000 0.00 0.00 0.00 4.26
930 2343 1.883544 CATCCTGCTCTGCTCAGCG 60.884 63.158 0.00 0.00 42.92 5.18
950 2365 1.395826 CCTCTACTGCTTCCCCTCCG 61.396 65.000 0.00 0.00 0.00 4.63
970 2385 2.409975 GTCCACCGATCGAGTGAAAAA 58.590 47.619 27.55 13.63 37.42 1.94
980 2395 2.135933 CGAGTGAAAAAGCTCTCCGTT 58.864 47.619 0.00 0.00 0.00 4.44
1077 2496 0.038526 GCGTCTTCCTCAAGTTCGGA 60.039 55.000 0.00 0.00 32.75 4.55
1167 2586 3.493176 CGATCCACAGGTTGATAGATGCA 60.493 47.826 0.00 0.00 0.00 3.96
1171 2590 4.040829 TCCACAGGTTGATAGATGCATAGG 59.959 45.833 0.00 0.00 0.00 2.57
1178 2597 8.753133 CAGGTTGATAGATGCATAGGTAGATAA 58.247 37.037 0.00 0.00 0.00 1.75
1179 2598 9.499369 AGGTTGATAGATGCATAGGTAGATAAT 57.501 33.333 0.00 0.00 0.00 1.28
1214 2633 6.789457 AGGGACATGTATAGATGGAATTCTGA 59.211 38.462 13.91 0.00 0.00 3.27
1215 2634 7.460402 AGGGACATGTATAGATGGAATTCTGAT 59.540 37.037 13.91 0.00 0.00 2.90
1216 2635 7.551974 GGGACATGTATAGATGGAATTCTGATG 59.448 40.741 13.91 0.00 0.00 3.07
1217 2636 7.551974 GGACATGTATAGATGGAATTCTGATGG 59.448 40.741 13.91 0.00 0.00 3.51
1218 2637 7.400439 ACATGTATAGATGGAATTCTGATGGG 58.600 38.462 13.91 0.00 0.00 4.00
1219 2638 7.238305 ACATGTATAGATGGAATTCTGATGGGA 59.762 37.037 13.91 0.00 0.00 4.37
1220 2639 7.250032 TGTATAGATGGAATTCTGATGGGAG 57.750 40.000 5.23 0.00 0.00 4.30
1221 2640 7.018769 TGTATAGATGGAATTCTGATGGGAGA 58.981 38.462 5.23 0.00 0.00 3.71
1222 2641 4.978438 AGATGGAATTCTGATGGGAGAG 57.022 45.455 5.23 0.00 0.00 3.20
1223 2642 4.305524 AGATGGAATTCTGATGGGAGAGT 58.694 43.478 5.23 0.00 0.00 3.24
1224 2643 3.920231 TGGAATTCTGATGGGAGAGTG 57.080 47.619 5.23 0.00 0.00 3.51
1225 2644 2.092753 TGGAATTCTGATGGGAGAGTGC 60.093 50.000 5.23 0.00 0.00 4.40
1226 2645 2.092753 GGAATTCTGATGGGAGAGTGCA 60.093 50.000 5.23 0.00 0.00 4.57
1227 2646 3.434739 GGAATTCTGATGGGAGAGTGCAT 60.435 47.826 5.23 0.00 0.00 3.96
1228 2647 4.202398 GGAATTCTGATGGGAGAGTGCATA 60.202 45.833 5.23 0.00 0.00 3.14
1229 2648 4.620589 ATTCTGATGGGAGAGTGCATAG 57.379 45.455 0.00 0.00 0.00 2.23
1230 2649 3.319031 TCTGATGGGAGAGTGCATAGA 57.681 47.619 0.00 0.00 0.00 1.98
1231 2650 3.646534 TCTGATGGGAGAGTGCATAGAA 58.353 45.455 0.00 0.00 0.00 2.10
1232 2651 3.640498 TCTGATGGGAGAGTGCATAGAAG 59.360 47.826 0.00 0.00 0.00 2.85
1233 2652 2.702478 TGATGGGAGAGTGCATAGAAGG 59.298 50.000 0.00 0.00 0.00 3.46
1234 2653 2.254152 TGGGAGAGTGCATAGAAGGT 57.746 50.000 0.00 0.00 0.00 3.50
1235 2654 2.551270 TGGGAGAGTGCATAGAAGGTT 58.449 47.619 0.00 0.00 0.00 3.50
1236 2655 2.501723 TGGGAGAGTGCATAGAAGGTTC 59.498 50.000 0.00 0.00 0.00 3.62
1237 2656 2.769095 GGGAGAGTGCATAGAAGGTTCT 59.231 50.000 0.00 0.00 41.24 3.01
1238 2657 3.431486 GGGAGAGTGCATAGAAGGTTCTG 60.431 52.174 2.32 0.00 38.19 3.02
1296 2715 1.110442 CGAGTTCTGGATCTGCCTCT 58.890 55.000 0.00 0.00 37.63 3.69
1301 2720 0.540454 TCTGGATCTGCCTCTTGCTG 59.460 55.000 0.00 0.00 42.00 4.41
1432 2877 0.827368 CTGTCTAGTCCCTCCTTGCC 59.173 60.000 0.00 0.00 0.00 4.52
1502 2947 1.073763 CTCTGTGGTTTCCATGGACCA 59.926 52.381 19.04 19.04 43.37 4.02
1517 2962 2.286872 GGACCATGTGAAGAGCATCAG 58.713 52.381 0.00 0.00 37.82 2.90
1626 3359 1.002544 CCTCCCTGTTCAAGTCTGGAC 59.997 57.143 0.00 0.00 0.00 4.02
1645 3383 3.005897 GGACTCGGCAGTGATATGTATGT 59.994 47.826 0.00 0.00 30.63 2.29
1646 3384 4.217767 GGACTCGGCAGTGATATGTATGTA 59.782 45.833 0.00 0.00 30.63 2.29
1768 3523 4.373116 TCTCGGGACAGTTGCGCC 62.373 66.667 4.18 0.00 0.00 6.53
1804 3559 0.671472 TGCTCGTGTTGCATGAGGAG 60.671 55.000 16.96 9.67 44.83 3.69
1812 3567 1.878070 TGCATGAGGAGCAAAAGCG 59.122 52.632 0.00 0.00 39.39 4.68
1815 3570 1.737838 CATGAGGAGCAAAAGCGGTA 58.262 50.000 0.00 0.00 0.00 4.02
2018 3777 1.624487 TGCTATGCGTACGACACTTG 58.376 50.000 21.65 10.73 0.00 3.16
2025 3784 0.596600 CGTACGACACTTGTGCACCT 60.597 55.000 15.69 0.00 0.00 4.00
2037 3796 4.870426 ACTTGTGCACCTGATTTACTATCG 59.130 41.667 15.69 0.00 0.00 2.92
2060 3824 4.686554 GGCAATCGTTGGATCATACTACTC 59.313 45.833 0.00 0.00 30.81 2.59
2061 3825 5.509840 GGCAATCGTTGGATCATACTACTCT 60.510 44.000 0.00 0.00 30.81 3.24
2062 3826 5.986135 GCAATCGTTGGATCATACTACTCTT 59.014 40.000 0.00 0.00 30.81 2.85
2063 3827 6.480320 GCAATCGTTGGATCATACTACTCTTT 59.520 38.462 0.00 0.00 30.81 2.52
2065 3829 7.589958 ATCGTTGGATCATACTACTCTTTCT 57.410 36.000 0.00 0.00 0.00 2.52
2077 3841 9.751542 CATACTACTCTTTCTGTTCCGAAATAT 57.248 33.333 0.00 0.00 32.90 1.28
2238 4087 8.928844 AATATATGTTTTCGTATGCGCTTAAC 57.071 30.769 9.73 3.91 38.14 2.01
2243 4092 5.177142 TGTTTTCGTATGCGCTTAACACTAA 59.823 36.000 9.73 0.00 38.14 2.24
2247 4096 5.030295 TCGTATGCGCTTAACACTAAGTAC 58.970 41.667 9.73 0.00 37.44 2.73
2249 4098 5.275602 CGTATGCGCTTAACACTAAGTACAC 60.276 44.000 9.73 0.00 37.44 2.90
2261 4111 3.855950 ACTAAGTACACTTTCGTATGCGC 59.144 43.478 0.00 0.00 37.40 6.09
2271 4121 6.753279 ACACTTTCGTATGCGCTTAATACTAA 59.247 34.615 9.73 4.14 38.14 2.24
2283 4134 6.740681 GCGCTTAATACTAAGTACTTCCCCAT 60.741 42.308 12.39 0.02 37.44 4.00
2298 4149 9.457436 GTACTTCCCCATAAAGAAATGTAAGAA 57.543 33.333 0.00 0.00 0.00 2.52
2315 4166 3.085443 AGAATCTCACCTTCGTATGCG 57.915 47.619 0.00 0.00 39.92 4.73
2318 4169 2.736144 TCTCACCTTCGTATGCGTTT 57.264 45.000 2.37 0.00 39.49 3.60
2332 4183 7.475015 TCGTATGCGTTTAATACTGAGTACTT 58.525 34.615 2.37 0.00 39.49 2.24
2335 4186 5.097529 TGCGTTTAATACTGAGTACTTCCG 58.902 41.667 0.00 0.00 0.00 4.30
2337 4188 5.097529 CGTTTAATACTGAGTACTTCCGCA 58.902 41.667 0.00 0.00 0.00 5.69
2343 4194 7.772332 AATACTGAGTACTTCCGCAATAAAG 57.228 36.000 0.00 0.00 0.00 1.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.357034 GTCCGACGCAAGGAAGCA 60.357 61.111 0.00 0.00 46.39 3.91
1 2 2.357034 TGTCCGACGCAAGGAAGC 60.357 61.111 0.00 0.00 46.39 3.86
2 3 2.372690 CGTGTCCGACGCAAGGAAG 61.373 63.158 12.43 0.00 42.21 3.46
11 12 3.351416 GTTTGCCCCGTGTCCGAC 61.351 66.667 0.00 0.00 35.63 4.79
12 13 4.629523 GGTTTGCCCCGTGTCCGA 62.630 66.667 0.00 0.00 35.63 4.55
22 23 1.456705 TGTCAAGGTGGGGTTTGCC 60.457 57.895 0.00 0.00 0.00 4.52
23 24 0.755327 ACTGTCAAGGTGGGGTTTGC 60.755 55.000 0.00 0.00 0.00 3.68
24 25 1.032014 CACTGTCAAGGTGGGGTTTG 58.968 55.000 0.00 0.00 0.00 2.93
25 26 0.923358 TCACTGTCAAGGTGGGGTTT 59.077 50.000 0.00 0.00 35.61 3.27
26 27 0.182775 GTCACTGTCAAGGTGGGGTT 59.817 55.000 0.00 0.00 35.61 4.11
27 28 1.705997 GGTCACTGTCAAGGTGGGGT 61.706 60.000 0.00 0.00 35.61 4.95
28 29 1.073199 GGTCACTGTCAAGGTGGGG 59.927 63.158 0.00 0.00 35.61 4.96
29 30 0.401738 ATGGTCACTGTCAAGGTGGG 59.598 55.000 0.00 0.00 35.61 4.61
30 31 1.072173 TCATGGTCACTGTCAAGGTGG 59.928 52.381 0.00 0.00 35.61 4.61
31 32 2.549064 TCATGGTCACTGTCAAGGTG 57.451 50.000 0.00 0.00 36.17 4.00
32 33 2.026822 GGATCATGGTCACTGTCAAGGT 60.027 50.000 8.54 0.00 0.00 3.50
33 34 2.636830 GGATCATGGTCACTGTCAAGG 58.363 52.381 8.54 0.00 0.00 3.61
34 35 2.238144 AGGGATCATGGTCACTGTCAAG 59.762 50.000 10.77 0.00 28.65 3.02
35 36 2.237143 GAGGGATCATGGTCACTGTCAA 59.763 50.000 17.50 0.00 30.34 3.18
36 37 1.833630 GAGGGATCATGGTCACTGTCA 59.166 52.381 17.50 0.00 30.34 3.58
37 38 1.139853 GGAGGGATCATGGTCACTGTC 59.860 57.143 17.50 1.62 30.34 3.51
38 39 1.207791 GGAGGGATCATGGTCACTGT 58.792 55.000 17.50 0.00 30.34 3.55
39 40 1.504912 AGGAGGGATCATGGTCACTG 58.495 55.000 17.50 0.00 30.34 3.66
40 41 2.122768 GAAGGAGGGATCATGGTCACT 58.877 52.381 11.51 11.51 33.67 3.41
41 42 1.141858 GGAAGGAGGGATCATGGTCAC 59.858 57.143 8.54 3.62 0.00 3.67
42 43 1.274358 TGGAAGGAGGGATCATGGTCA 60.274 52.381 8.54 0.00 0.00 4.02
48 49 0.041238 AGTCGTGGAAGGAGGGATCA 59.959 55.000 0.00 0.00 0.00 2.92
52 53 0.324460 AGGTAGTCGTGGAAGGAGGG 60.324 60.000 0.00 0.00 0.00 4.30
64 65 1.337387 GTAGCCATGACCGAGGTAGTC 59.663 57.143 0.00 0.00 34.72 2.59
65 66 1.341679 TGTAGCCATGACCGAGGTAGT 60.342 52.381 0.00 0.00 0.00 2.73
82 83 1.460504 CTAGAGCGTGGAGTGGTGTA 58.539 55.000 0.00 0.00 0.00 2.90
95 96 0.664224 GTGTCGAGGTAGCCTAGAGC 59.336 60.000 0.00 0.00 36.02 4.09
110 111 5.148651 TGGTAGCCTTTTCTTCTAGTGTC 57.851 43.478 0.00 0.00 0.00 3.67
116 117 4.287067 TGTGAGATGGTAGCCTTTTCTTCT 59.713 41.667 0.00 0.00 0.00 2.85
118 119 4.640771 TGTGAGATGGTAGCCTTTTCTT 57.359 40.909 0.00 0.00 0.00 2.52
137 139 2.665000 CCGGTGAGGTGCTCATGT 59.335 61.111 0.00 0.00 42.73 3.21
151 153 0.593128 CTGACTTTTGAAGGCACCGG 59.407 55.000 0.00 0.00 42.97 5.28
154 156 4.336713 AGAGAAACTGACTTTTGAAGGCAC 59.663 41.667 0.00 0.00 42.97 5.01
156 158 4.819088 AGAGAGAAACTGACTTTTGAAGGC 59.181 41.667 0.00 0.00 36.92 4.35
157 159 7.213678 ACTAGAGAGAAACTGACTTTTGAAGG 58.786 38.462 0.00 0.00 0.00 3.46
171 173 5.010933 ACGGATGACTTGACTAGAGAGAAA 58.989 41.667 0.00 0.00 0.00 2.52
172 174 4.590918 ACGGATGACTTGACTAGAGAGAA 58.409 43.478 0.00 0.00 0.00 2.87
174 176 4.974368 AACGGATGACTTGACTAGAGAG 57.026 45.455 0.00 0.00 0.00 3.20
176 178 5.587043 AGAGTAACGGATGACTTGACTAGAG 59.413 44.000 0.00 0.00 0.00 2.43
178 180 5.220892 GGAGAGTAACGGATGACTTGACTAG 60.221 48.000 0.00 0.00 0.00 2.57
180 182 3.444388 GGAGAGTAACGGATGACTTGACT 59.556 47.826 0.00 0.00 0.00 3.41
181 183 3.444388 AGGAGAGTAACGGATGACTTGAC 59.556 47.826 0.00 0.00 0.00 3.18
182 184 3.444034 CAGGAGAGTAACGGATGACTTGA 59.556 47.826 0.00 0.00 0.00 3.02
183 185 3.193691 ACAGGAGAGTAACGGATGACTTG 59.806 47.826 0.00 0.00 0.00 3.16
184 186 3.432378 ACAGGAGAGTAACGGATGACTT 58.568 45.455 0.00 0.00 0.00 3.01
185 187 3.088789 ACAGGAGAGTAACGGATGACT 57.911 47.619 0.00 0.00 0.00 3.41
186 188 3.056749 ACAACAGGAGAGTAACGGATGAC 60.057 47.826 0.00 0.00 0.00 3.06
187 189 3.162666 ACAACAGGAGAGTAACGGATGA 58.837 45.455 0.00 0.00 0.00 2.92
188 190 3.594603 ACAACAGGAGAGTAACGGATG 57.405 47.619 0.00 0.00 0.00 3.51
191 193 2.325761 CGAACAACAGGAGAGTAACGG 58.674 52.381 0.00 0.00 0.00 4.44
192 194 1.719780 GCGAACAACAGGAGAGTAACG 59.280 52.381 0.00 0.00 0.00 3.18
193 195 1.719780 CGCGAACAACAGGAGAGTAAC 59.280 52.381 0.00 0.00 0.00 2.50
194 196 1.610038 TCGCGAACAACAGGAGAGTAA 59.390 47.619 6.20 0.00 0.00 2.24
195 197 1.068748 GTCGCGAACAACAGGAGAGTA 60.069 52.381 12.06 0.00 0.00 2.59
196 198 0.318784 GTCGCGAACAACAGGAGAGT 60.319 55.000 12.06 0.00 0.00 3.24
198 200 1.371267 CGTCGCGAACAACAGGAGA 60.371 57.895 12.06 0.00 0.00 3.71
199 201 3.000080 GCGTCGCGAACAACAGGAG 62.000 63.158 12.06 0.00 0.00 3.69
200 202 2.132517 TAGCGTCGCGAACAACAGGA 62.133 55.000 12.06 0.00 0.00 3.86
202 204 1.411089 GTAGCGTCGCGAACAACAG 59.589 57.895 12.06 0.00 0.00 3.16
204 206 2.017783 TGGTAGCGTCGCGAACAAC 61.018 57.895 15.99 7.00 26.06 3.32
206 208 2.429571 GTGGTAGCGTCGCGAACA 60.430 61.111 14.37 14.37 0.00 3.18
209 216 2.126618 CTTGTGGTAGCGTCGCGA 60.127 61.111 12.30 3.71 0.00 5.87
212 219 1.393539 CAAATCCTTGTGGTAGCGTCG 59.606 52.381 0.00 0.00 34.23 5.12
226 233 2.812358 AAACTTTCCGCCACAAATCC 57.188 45.000 0.00 0.00 0.00 3.01
233 240 5.064558 TCAATACACTAAAACTTTCCGCCA 58.935 37.500 0.00 0.00 0.00 5.69
236 243 7.744715 GTGTGATCAATACACTAAAACTTTCCG 59.255 37.037 0.00 0.00 43.79 4.30
247 254 9.453572 AATACAAAGATGTGTGATCAATACACT 57.546 29.630 14.27 11.21 46.49 3.55
252 259 8.246180 GGACAAATACAAAGATGTGTGATCAAT 58.754 33.333 0.00 0.00 40.84 2.57
253 260 7.309133 GGGACAAATACAAAGATGTGTGATCAA 60.309 37.037 0.00 0.00 40.84 2.57
255 262 6.375455 AGGGACAAATACAAAGATGTGTGATC 59.625 38.462 0.00 0.00 40.84 2.92
256 263 6.248433 AGGGACAAATACAAAGATGTGTGAT 58.752 36.000 0.00 0.00 40.84 3.06
257 264 5.630121 AGGGACAAATACAAAGATGTGTGA 58.370 37.500 0.00 0.00 40.84 3.58
285 292 4.574421 TGTACAAAGATATGTTGGATGGCG 59.426 41.667 0.00 0.00 34.75 5.69
287 294 6.039605 TGCATGTACAAAGATATGTTGGATGG 59.960 38.462 0.00 0.00 34.75 3.51
311 318 9.347240 AGGAGATGGATCACAAATTTTATACTG 57.653 33.333 0.00 0.00 0.00 2.74
318 325 8.689972 GTGAAATAGGAGATGGATCACAAATTT 58.310 33.333 0.00 0.00 36.58 1.82
326 333 8.359875 TCTAGATGTGAAATAGGAGATGGATC 57.640 38.462 0.00 0.00 0.00 3.36
342 349 5.060662 TGAAGGACGTTCTTCTAGATGTG 57.939 43.478 31.48 0.98 42.54 3.21
345 352 5.246429 AGGTTTGAAGGACGTTCTTCTAGAT 59.754 40.000 31.48 14.77 42.54 1.98
352 359 3.203716 GACAAGGTTTGAAGGACGTTCT 58.796 45.455 9.16 0.00 35.99 3.01
353 360 2.940410 TGACAAGGTTTGAAGGACGTTC 59.060 45.455 0.84 0.84 35.48 3.95
356 363 3.403038 AGATGACAAGGTTTGAAGGACG 58.597 45.455 0.00 0.00 0.00 4.79
373 380 9.626045 TTGTATGACGAGCTGTTTATATAGATG 57.374 33.333 0.00 0.00 0.00 2.90
374 381 9.627395 GTTGTATGACGAGCTGTTTATATAGAT 57.373 33.333 0.00 0.00 0.00 1.98
376 383 8.797266 TGTTGTATGACGAGCTGTTTATATAG 57.203 34.615 0.00 0.00 0.00 1.31
377 384 9.589111 TTTGTTGTATGACGAGCTGTTTATATA 57.411 29.630 0.00 0.00 0.00 0.86
379 386 7.385478 TGTTTGTTGTATGACGAGCTGTTTATA 59.615 33.333 0.00 0.00 0.00 0.98
380 387 6.203915 TGTTTGTTGTATGACGAGCTGTTTAT 59.796 34.615 0.00 0.00 0.00 1.40
381 388 5.524281 TGTTTGTTGTATGACGAGCTGTTTA 59.476 36.000 0.00 0.00 0.00 2.01
382 389 4.334203 TGTTTGTTGTATGACGAGCTGTTT 59.666 37.500 0.00 0.00 0.00 2.83
383 390 3.874543 TGTTTGTTGTATGACGAGCTGTT 59.125 39.130 0.00 0.00 0.00 3.16
384 391 3.247648 GTGTTTGTTGTATGACGAGCTGT 59.752 43.478 0.00 0.00 0.00 4.40
385 392 3.363970 GGTGTTTGTTGTATGACGAGCTG 60.364 47.826 0.00 0.00 0.00 4.24
386 393 2.806244 GGTGTTTGTTGTATGACGAGCT 59.194 45.455 0.00 0.00 0.00 4.09
387 394 2.411031 CGGTGTTTGTTGTATGACGAGC 60.411 50.000 0.00 0.00 0.00 5.03
388 395 3.054166 TCGGTGTTTGTTGTATGACGAG 58.946 45.455 0.00 0.00 0.00 4.18
389 396 3.095102 TCGGTGTTTGTTGTATGACGA 57.905 42.857 0.00 0.00 0.00 4.20
390 397 3.863396 TTCGGTGTTTGTTGTATGACG 57.137 42.857 0.00 0.00 0.00 4.35
399 406 2.289547 CGACCTGAAATTCGGTGTTTGT 59.710 45.455 12.70 0.00 32.62 2.83
403 410 1.343465 AGTCGACCTGAAATTCGGTGT 59.657 47.619 13.01 5.23 35.89 4.16
407 414 1.428448 TGCAGTCGACCTGAAATTCG 58.572 50.000 13.01 0.00 44.49 3.34
413 420 1.664649 CGCTTTGCAGTCGACCTGA 60.665 57.895 13.01 0.00 44.49 3.86
415 422 1.373497 CTCGCTTTGCAGTCGACCT 60.373 57.895 13.01 0.00 0.00 3.85
416 423 1.347817 CTCTCGCTTTGCAGTCGACC 61.348 60.000 13.01 0.00 0.00 4.79
417 424 0.387367 TCTCTCGCTTTGCAGTCGAC 60.387 55.000 7.70 7.70 0.00 4.20
418 425 0.313987 TTCTCTCGCTTTGCAGTCGA 59.686 50.000 6.80 6.80 0.00 4.20
421 428 1.517242 CCTTTCTCTCGCTTTGCAGT 58.483 50.000 0.00 0.00 0.00 4.40
424 431 1.237285 TGGCCTTTCTCTCGCTTTGC 61.237 55.000 3.32 0.00 0.00 3.68
425 432 0.519077 GTGGCCTTTCTCTCGCTTTG 59.481 55.000 3.32 0.00 0.00 2.77
433 460 1.228657 GGTCGTGTGTGGCCTTTCTC 61.229 60.000 3.32 0.00 0.00 2.87
439 466 2.972505 CTGTGGTCGTGTGTGGCC 60.973 66.667 0.00 0.00 0.00 5.36
507 534 1.476845 TAGTGGCGTGCTCCTTGGAA 61.477 55.000 0.00 0.00 0.00 3.53
609 708 5.010933 TCCCATAGCAATTTGACCGTTTTA 58.989 37.500 0.00 0.00 0.00 1.52
615 714 5.450550 GCTAGTTTCCCATAGCAATTTGACC 60.451 44.000 0.00 0.00 43.17 4.02
628 727 2.968574 TGCCAAATTTGCTAGTTTCCCA 59.031 40.909 12.92 0.00 0.00 4.37
629 728 3.588955 CTGCCAAATTTGCTAGTTTCCC 58.411 45.455 12.92 0.00 0.00 3.97
637 739 0.763986 ACCACCCTGCCAAATTTGCT 60.764 50.000 12.92 0.00 0.00 3.91
709 811 2.667481 CGACGCGTTGTTATAAAAGGGA 59.333 45.455 15.53 0.00 0.00 4.20
710 812 2.785342 GCGACGCGTTGTTATAAAAGGG 60.785 50.000 26.48 0.00 0.00 3.95
711 813 2.424341 GCGACGCGTTGTTATAAAAGG 58.576 47.619 26.48 0.62 0.00 3.11
712 814 2.159814 TGGCGACGCGTTGTTATAAAAG 60.160 45.455 26.48 4.06 0.00 2.27
713 815 1.797046 TGGCGACGCGTTGTTATAAAA 59.203 42.857 26.48 3.47 0.00 1.52
807 2214 1.142748 GTGAGGTGAGATGGAGGCG 59.857 63.158 0.00 0.00 0.00 5.52
853 2266 5.619533 GCTCTCGTTATATAGACGGGGAAAG 60.620 48.000 13.67 7.98 41.20 2.62
899 2312 2.009302 AGGATGGGAAGGAAGGGGC 61.009 63.158 0.00 0.00 0.00 5.80
927 2340 2.726351 GGGAAGCAGTAGAGGCGCT 61.726 63.158 7.64 0.00 37.68 5.92
930 2343 1.691195 GGAGGGGAAGCAGTAGAGGC 61.691 65.000 0.00 0.00 0.00 4.70
950 2365 2.074547 TTTTCACTCGATCGGTGGAC 57.925 50.000 26.01 0.00 35.61 4.02
980 2395 2.752640 TCGTGGATCTTCCGGCGA 60.753 61.111 9.30 8.33 41.64 5.54
1179 2598 9.467796 CATCTATACATGTCCCTGTCTATCTTA 57.532 37.037 0.00 0.00 0.00 2.10
1180 2599 7.398618 CCATCTATACATGTCCCTGTCTATCTT 59.601 40.741 0.00 0.00 0.00 2.40
1181 2600 6.894654 CCATCTATACATGTCCCTGTCTATCT 59.105 42.308 0.00 0.00 0.00 1.98
1188 2607 6.877855 CAGAATTCCATCTATACATGTCCCTG 59.122 42.308 0.00 0.00 0.00 4.45
1191 2610 7.551974 CCATCAGAATTCCATCTATACATGTCC 59.448 40.741 0.00 0.00 0.00 4.02
1197 2616 7.180051 ACTCTCCCATCAGAATTCCATCTATAC 59.820 40.741 0.65 0.00 0.00 1.47
1201 2620 4.102838 CACTCTCCCATCAGAATTCCATCT 59.897 45.833 0.65 0.00 0.00 2.90
1214 2633 2.769209 ACCTTCTATGCACTCTCCCAT 58.231 47.619 0.00 0.00 0.00 4.00
1215 2634 2.254152 ACCTTCTATGCACTCTCCCA 57.746 50.000 0.00 0.00 0.00 4.37
1216 2635 2.769095 AGAACCTTCTATGCACTCTCCC 59.231 50.000 0.00 0.00 35.34 4.30
1217 2636 3.449018 TCAGAACCTTCTATGCACTCTCC 59.551 47.826 0.00 0.00 35.34 3.71
1218 2637 4.727507 TCAGAACCTTCTATGCACTCTC 57.272 45.455 0.00 0.00 35.34 3.20
1219 2638 5.690464 AATCAGAACCTTCTATGCACTCT 57.310 39.130 0.00 0.00 35.34 3.24
1220 2639 6.478344 CAGTAATCAGAACCTTCTATGCACTC 59.522 42.308 0.00 0.00 35.34 3.51
1221 2640 6.155221 TCAGTAATCAGAACCTTCTATGCACT 59.845 38.462 0.00 0.00 35.34 4.40
1222 2641 6.341316 TCAGTAATCAGAACCTTCTATGCAC 58.659 40.000 0.00 0.00 35.34 4.57
1223 2642 6.544928 TCAGTAATCAGAACCTTCTATGCA 57.455 37.500 0.00 0.00 35.34 3.96
1224 2643 9.717942 ATTATCAGTAATCAGAACCTTCTATGC 57.282 33.333 0.00 0.00 35.34 3.14
1227 2646 9.132923 ACGATTATCAGTAATCAGAACCTTCTA 57.867 33.333 8.41 0.00 44.17 2.10
1228 2647 8.012957 ACGATTATCAGTAATCAGAACCTTCT 57.987 34.615 8.41 0.00 44.17 2.85
1229 2648 8.649973 AACGATTATCAGTAATCAGAACCTTC 57.350 34.615 8.41 0.00 44.17 3.46
1230 2649 9.099454 GAAACGATTATCAGTAATCAGAACCTT 57.901 33.333 8.41 0.00 44.17 3.50
1231 2650 8.478877 AGAAACGATTATCAGTAATCAGAACCT 58.521 33.333 8.41 0.00 44.17 3.50
1232 2651 8.649973 AGAAACGATTATCAGTAATCAGAACC 57.350 34.615 8.41 0.00 44.17 3.62
1233 2652 9.907576 CAAGAAACGATTATCAGTAATCAGAAC 57.092 33.333 8.41 0.00 44.17 3.01
1234 2653 9.098355 CCAAGAAACGATTATCAGTAATCAGAA 57.902 33.333 8.41 0.00 44.17 3.02
1235 2654 8.258007 ACCAAGAAACGATTATCAGTAATCAGA 58.742 33.333 8.41 0.00 44.17 3.27
1236 2655 8.425577 ACCAAGAAACGATTATCAGTAATCAG 57.574 34.615 8.41 4.61 44.17 2.90
1237 2656 8.786826 AACCAAGAAACGATTATCAGTAATCA 57.213 30.769 8.41 0.00 44.17 2.57
1238 2657 9.704098 GAAACCAAGAAACGATTATCAGTAATC 57.296 33.333 0.00 0.00 41.74 1.75
1296 2715 0.543410 TACCCGAGGAAGGTCAGCAA 60.543 55.000 0.00 0.00 38.89 3.91
1301 2720 0.751452 GGATGTACCCGAGGAAGGTC 59.249 60.000 0.00 0.00 38.89 3.85
1325 2744 2.422479 GGCGTAGATGGCGTAGATGATA 59.578 50.000 0.00 0.00 0.00 2.15
1432 2877 7.438160 GGAAAAGAATTAAAAGAACCCACACAG 59.562 37.037 0.00 0.00 0.00 3.66
1626 3359 7.089770 ACTATACATACATATCACTGCCGAG 57.910 40.000 0.00 0.00 0.00 4.63
1645 3383 8.265055 AGAAATCAAATGAGAAACCCGACTATA 58.735 33.333 0.00 0.00 0.00 1.31
1646 3384 7.112779 AGAAATCAAATGAGAAACCCGACTAT 58.887 34.615 0.00 0.00 0.00 2.12
1694 3442 2.544685 CCAGTAGAACCTGATGCTTCG 58.455 52.381 0.00 0.00 34.23 3.79
1777 3532 4.927782 AACACGAGCAAGGCCGCA 62.928 61.111 5.37 0.00 0.00 5.69
1804 3559 2.388121 GCATGATGATACCGCTTTTGC 58.612 47.619 0.00 0.00 43.23 3.68
1812 3567 3.758755 TCTGACAGGCATGATGATACC 57.241 47.619 4.84 0.00 0.00 2.73
1815 3570 3.118000 ACACATCTGACAGGCATGATGAT 60.118 43.478 17.77 2.53 36.50 2.45
1943 3702 0.486879 AGCTTTGGGTCCCCATTTCA 59.513 50.000 5.75 0.00 46.64 2.69
1955 3714 4.337763 CTCGATCATTTTCGAAGCTTTGG 58.662 43.478 13.87 3.02 46.54 3.28
2018 3777 2.544267 GCCGATAGTAAATCAGGTGCAC 59.456 50.000 8.80 8.80 0.00 4.57
2025 3784 4.509970 CCAACGATTGCCGATAGTAAATCA 59.490 41.667 0.00 0.00 41.76 2.57
2037 3796 4.632153 AGTAGTATGATCCAACGATTGCC 58.368 43.478 0.00 0.00 0.00 4.52
2111 3875 9.924650 AGTGTAGATTCACTTATTTTACTTCGT 57.075 29.630 0.00 0.00 44.92 3.85
2247 4096 7.043590 ACTTAGTATTAAGCGCATACGAAAGTG 60.044 37.037 23.57 12.74 41.70 3.16
2249 4098 7.390918 ACTTAGTATTAAGCGCATACGAAAG 57.609 36.000 11.47 17.94 39.96 2.62
2271 4121 8.832735 TCTTACATTTCTTTATGGGGAAGTACT 58.167 33.333 0.00 0.00 0.00 2.73
2283 4134 9.151471 CGAAGGTGAGATTCTTACATTTCTTTA 57.849 33.333 9.45 0.00 25.09 1.85
2298 4149 2.961526 AACGCATACGAAGGTGAGAT 57.038 45.000 0.00 0.00 43.93 2.75
2299 4150 2.736144 AAACGCATACGAAGGTGAGA 57.264 45.000 0.00 0.00 43.93 3.27
2307 4158 7.019774 AGTACTCAGTATTAAACGCATACGA 57.980 36.000 0.00 0.00 43.93 3.43
2315 4166 6.956299 TTGCGGAAGTACTCAGTATTAAAC 57.044 37.500 0.00 0.00 0.00 2.01
2318 4169 8.689061 TCTTTATTGCGGAAGTACTCAGTATTA 58.311 33.333 0.00 0.00 0.00 0.98
2332 4183 8.958119 ACACTCTTATATTTCTTTATTGCGGA 57.042 30.769 0.00 0.00 0.00 5.54


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

AutoCloner maintained by Alex Coulton.