Multiple sequence alignment - TraesCS7D01G494500

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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 TraesCS7D01G494500 chr7D 100.000 3241 0 0 523 3763 602098185 602094945 0.000000e+00 5986
1 TraesCS7D01G494500 chr7D 100.000 285 0 0 1 285 602098707 602098423 9.260000e-146 527
2 TraesCS7D01G494500 chr7D 92.857 70 5 0 586 655 602098080 602098011 6.650000e-18 102
3 TraesCS7D01G494500 chr7D 92.857 70 5 0 628 697 602098122 602098053 6.650000e-18 102
4 TraesCS7D01G494500 chr7B 91.119 3074 145 53 582 3583 681857695 681854678 0.000000e+00 4047
5 TraesCS7D01G494500 chr7B 96.316 190 5 2 3576 3763 681854632 681854443 1.010000e-80 311
6 TraesCS7D01G494500 chr7B 86.957 184 8 4 1 184 681857862 681857695 3.840000e-45 193
7 TraesCS7D01G494500 chr7A 90.494 2872 121 55 799 3578 693861200 693858389 0.000000e+00 3651
8 TraesCS7D01G494500 chr7A 96.825 189 5 1 3576 3763 693858339 693858151 7.850000e-82 315
9 TraesCS7D01G494500 chr1B 79.475 838 113 39 1962 2766 452798592 452799403 1.190000e-149 540
10 TraesCS7D01G494500 chr6D 79.355 775 125 29 1903 2670 105558398 105557652 2.590000e-141 512
11 TraesCS7D01G494500 chr6B 78.811 774 131 25 1903 2670 192095985 192096731 1.210000e-134 490
12 TraesCS7D01G494500 chr3A 78.161 174 35 3 3590 3763 674133531 674133701 1.430000e-19 108


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 TraesCS7D01G494500 chr7D 602094945 602098707 3762 True 1679.25 5986 96.4285 1 3763 4 chr7D.!!$R1 3762
1 TraesCS7D01G494500 chr7B 681854443 681857862 3419 True 1517.00 4047 91.4640 1 3763 3 chr7B.!!$R1 3762
2 TraesCS7D01G494500 chr7A 693858151 693861200 3049 True 1983.00 3651 93.6595 799 3763 2 chr7A.!!$R1 2964
3 TraesCS7D01G494500 chr1B 452798592 452799403 811 False 540.00 540 79.4750 1962 2766 1 chr1B.!!$F1 804
4 TraesCS7D01G494500 chr6D 105557652 105558398 746 True 512.00 512 79.3550 1903 2670 1 chr6D.!!$R1 767
5 TraesCS7D01G494500 chr6B 192095985 192096731 746 False 490.00 490 78.8110 1903 2670 1 chr6B.!!$F1 767

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
99 100 0.111639 GCCCTGAAGGTGGGTAACAA 59.888 55.0 0.00 0.00 46.22 2.83 F
1315 1364 0.179181 CGTCATGCTGGTACGTACGT 60.179 55.0 25.98 25.98 32.16 3.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1721 1782 0.110486 ATGGCCGTGTGAAAAGAGGT 59.89 50.0 0.0 0.00 0.0 3.85 R
2975 3123 0.609957 TGTTCATCCTGGCTGCTTGG 60.61 55.0 0.0 2.24 0.0 3.61 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
34 35 9.513906 TCATGTAGAGAAAATGTTTGTAATGGA 57.486 29.630 0.00 0.00 0.00 3.41
37 38 9.513906 TGTAGAGAAAATGTTTGTAATGGATCA 57.486 29.630 0.00 0.00 0.00 2.92
54 55 7.369434 AATGGATCATTAAAACCCAATAGGGA 58.631 34.615 7.71 0.00 44.36 4.20
71 72 1.207329 GGGAGTCAAGCGGTTAGACAT 59.793 52.381 22.62 13.03 34.80 3.06
83 84 2.158798 GGTTAGACATAGGTTGAGGCCC 60.159 54.545 0.00 0.00 0.00 5.80
91 92 1.303643 GGTTGAGGCCCTGAAGGTG 60.304 63.158 0.00 0.00 38.26 4.00
92 93 1.303643 GTTGAGGCCCTGAAGGTGG 60.304 63.158 0.00 0.00 38.26 4.61
94 95 2.936032 GAGGCCCTGAAGGTGGGT 60.936 66.667 0.00 0.00 46.22 4.51
95 96 1.615424 GAGGCCCTGAAGGTGGGTA 60.615 63.158 0.00 0.00 46.22 3.69
96 97 1.151677 AGGCCCTGAAGGTGGGTAA 60.152 57.895 0.00 0.00 46.22 2.85
97 98 1.001269 GGCCCTGAAGGTGGGTAAC 60.001 63.158 0.00 0.00 46.22 2.50
98 99 1.765074 GCCCTGAAGGTGGGTAACA 59.235 57.895 0.00 0.00 46.22 2.41
99 100 0.111639 GCCCTGAAGGTGGGTAACAA 59.888 55.000 0.00 0.00 46.22 2.83
100 101 1.905637 CCCTGAAGGTGGGTAACAAC 58.094 55.000 0.00 0.00 39.82 3.32
101 102 1.546998 CCCTGAAGGTGGGTAACAACC 60.547 57.143 0.00 0.00 37.57 3.77
102 103 1.423921 CCTGAAGGTGGGTAACAACCT 59.576 52.381 0.00 0.00 37.57 3.50
103 104 2.158519 CCTGAAGGTGGGTAACAACCTT 60.159 50.000 20.20 20.20 40.75 3.50
104 105 3.562182 CTGAAGGTGGGTAACAACCTTT 58.438 45.455 21.00 4.92 39.27 3.11
105 106 4.446600 CCTGAAGGTGGGTAACAACCTTTA 60.447 45.833 21.00 15.76 39.27 1.85
106 107 4.463070 TGAAGGTGGGTAACAACCTTTAC 58.537 43.478 21.00 9.74 39.27 2.01
107 108 4.166531 TGAAGGTGGGTAACAACCTTTACT 59.833 41.667 21.00 0.00 39.27 2.24
184 185 8.928448 ACTAATATCAGTGAGTATGGTGATGTT 58.072 33.333 0.00 0.00 35.62 2.71
185 186 9.201127 CTAATATCAGTGAGTATGGTGATGTTG 57.799 37.037 0.00 0.00 34.05 3.33
186 187 4.890158 TCAGTGAGTATGGTGATGTTGT 57.110 40.909 0.00 0.00 0.00 3.32
187 188 4.568956 TCAGTGAGTATGGTGATGTTGTG 58.431 43.478 0.00 0.00 0.00 3.33
188 189 3.125829 CAGTGAGTATGGTGATGTTGTGC 59.874 47.826 0.00 0.00 0.00 4.57
189 190 3.008375 AGTGAGTATGGTGATGTTGTGCT 59.992 43.478 0.00 0.00 0.00 4.40
190 191 3.753272 GTGAGTATGGTGATGTTGTGCTT 59.247 43.478 0.00 0.00 0.00 3.91
191 192 4.216257 GTGAGTATGGTGATGTTGTGCTTT 59.784 41.667 0.00 0.00 0.00 3.51
192 193 4.826733 TGAGTATGGTGATGTTGTGCTTTT 59.173 37.500 0.00 0.00 0.00 2.27
193 194 5.301551 TGAGTATGGTGATGTTGTGCTTTTT 59.698 36.000 0.00 0.00 0.00 1.94
222 223 3.636153 AGTTGTTCTTCTATGGCCTCC 57.364 47.619 3.32 0.00 0.00 4.30
223 224 2.912956 AGTTGTTCTTCTATGGCCTCCA 59.087 45.455 3.32 0.00 38.19 3.86
224 225 3.330701 AGTTGTTCTTCTATGGCCTCCAA 59.669 43.478 3.32 0.00 36.95 3.53
225 226 4.018050 AGTTGTTCTTCTATGGCCTCCAAT 60.018 41.667 3.32 0.00 36.95 3.16
226 227 4.591321 TGTTCTTCTATGGCCTCCAATT 57.409 40.909 3.32 0.00 36.95 2.32
227 228 4.934356 TGTTCTTCTATGGCCTCCAATTT 58.066 39.130 3.32 0.00 36.95 1.82
228 229 4.949856 TGTTCTTCTATGGCCTCCAATTTC 59.050 41.667 3.32 0.00 36.95 2.17
229 230 5.196695 GTTCTTCTATGGCCTCCAATTTCT 58.803 41.667 3.32 0.00 36.95 2.52
230 231 5.456921 TCTTCTATGGCCTCCAATTTCTT 57.543 39.130 3.32 0.00 36.95 2.52
231 232 5.831103 TCTTCTATGGCCTCCAATTTCTTT 58.169 37.500 3.32 0.00 36.95 2.52
232 233 6.256053 TCTTCTATGGCCTCCAATTTCTTTT 58.744 36.000 3.32 0.00 36.95 2.27
233 234 7.410174 TCTTCTATGGCCTCCAATTTCTTTTA 58.590 34.615 3.32 0.00 36.95 1.52
234 235 8.061304 TCTTCTATGGCCTCCAATTTCTTTTAT 58.939 33.333 3.32 0.00 36.95 1.40
235 236 9.354673 CTTCTATGGCCTCCAATTTCTTTTATA 57.645 33.333 3.32 0.00 36.95 0.98
236 237 8.924511 TCTATGGCCTCCAATTTCTTTTATAG 57.075 34.615 3.32 0.00 36.95 1.31
237 238 6.983906 ATGGCCTCCAATTTCTTTTATAGG 57.016 37.500 3.32 0.00 36.95 2.57
238 239 5.208121 TGGCCTCCAATTTCTTTTATAGGG 58.792 41.667 3.32 0.00 0.00 3.53
239 240 4.039245 GGCCTCCAATTTCTTTTATAGGGC 59.961 45.833 0.00 0.00 40.61 5.19
240 241 4.039245 GCCTCCAATTTCTTTTATAGGGCC 59.961 45.833 0.00 0.00 0.00 5.80
241 242 4.588951 CCTCCAATTTCTTTTATAGGGCCC 59.411 45.833 16.46 16.46 0.00 5.80
242 243 5.458595 CTCCAATTTCTTTTATAGGGCCCT 58.541 41.667 31.35 31.35 0.00 5.19
243 244 5.849140 TCCAATTTCTTTTATAGGGCCCTT 58.151 37.500 34.04 20.20 0.00 3.95
244 245 5.660864 TCCAATTTCTTTTATAGGGCCCTTG 59.339 40.000 34.04 17.33 0.00 3.61
245 246 5.425217 CCAATTTCTTTTATAGGGCCCTTGT 59.575 40.000 34.04 21.95 0.00 3.16
246 247 6.406961 CCAATTTCTTTTATAGGGCCCTTGTC 60.407 42.308 34.04 0.00 0.00 3.18
247 248 5.530176 TTTCTTTTATAGGGCCCTTGTCT 57.470 39.130 34.04 15.21 0.00 3.41
248 249 5.530176 TTCTTTTATAGGGCCCTTGTCTT 57.470 39.130 34.04 12.70 0.00 3.01
249 250 5.112129 TCTTTTATAGGGCCCTTGTCTTC 57.888 43.478 34.04 0.00 0.00 2.87
250 251 3.945640 TTTATAGGGCCCTTGTCTTCC 57.054 47.619 34.04 0.00 0.00 3.46
251 252 2.579624 TATAGGGCCCTTGTCTTCCA 57.420 50.000 34.04 9.92 0.00 3.53
252 253 1.681229 ATAGGGCCCTTGTCTTCCAA 58.319 50.000 34.04 9.00 0.00 3.53
253 254 0.696501 TAGGGCCCTTGTCTTCCAAC 59.303 55.000 34.04 0.00 0.00 3.77
254 255 1.068352 AGGGCCCTTGTCTTCCAACT 61.068 55.000 22.28 0.00 0.00 3.16
255 256 0.696501 GGGCCCTTGTCTTCCAACTA 59.303 55.000 17.04 0.00 0.00 2.24
256 257 1.285078 GGGCCCTTGTCTTCCAACTAT 59.715 52.381 17.04 0.00 0.00 2.12
257 258 2.508300 GGGCCCTTGTCTTCCAACTATA 59.492 50.000 17.04 0.00 0.00 1.31
258 259 3.433740 GGGCCCTTGTCTTCCAACTATAG 60.434 52.174 17.04 0.00 0.00 1.31
259 260 3.433740 GGCCCTTGTCTTCCAACTATAGG 60.434 52.174 4.43 0.00 0.00 2.57
260 261 3.200165 GCCCTTGTCTTCCAACTATAGGT 59.800 47.826 4.43 0.00 0.00 3.08
261 262 4.683671 GCCCTTGTCTTCCAACTATAGGTC 60.684 50.000 4.43 0.00 0.00 3.85
262 263 4.717280 CCCTTGTCTTCCAACTATAGGTCT 59.283 45.833 4.43 0.00 0.00 3.85
263 264 5.163395 CCCTTGTCTTCCAACTATAGGTCTC 60.163 48.000 4.43 0.00 0.00 3.36
264 265 5.659079 CCTTGTCTTCCAACTATAGGTCTCT 59.341 44.000 4.43 0.00 0.00 3.10
265 266 6.155393 CCTTGTCTTCCAACTATAGGTCTCTT 59.845 42.308 4.43 0.00 0.00 2.85
266 267 7.310734 CCTTGTCTTCCAACTATAGGTCTCTTT 60.311 40.741 4.43 0.00 0.00 2.52
267 268 7.554959 TGTCTTCCAACTATAGGTCTCTTTT 57.445 36.000 4.43 0.00 0.00 2.27
268 269 7.386851 TGTCTTCCAACTATAGGTCTCTTTTG 58.613 38.462 4.43 0.00 0.00 2.44
269 270 7.234782 TGTCTTCCAACTATAGGTCTCTTTTGA 59.765 37.037 4.43 0.00 0.00 2.69
270 271 8.261522 GTCTTCCAACTATAGGTCTCTTTTGAT 58.738 37.037 4.43 0.00 0.00 2.57
271 272 8.478877 TCTTCCAACTATAGGTCTCTTTTGATC 58.521 37.037 4.43 0.00 0.00 2.92
272 273 7.979786 TCCAACTATAGGTCTCTTTTGATCT 57.020 36.000 4.43 0.00 0.00 2.75
273 274 7.786030 TCCAACTATAGGTCTCTTTTGATCTG 58.214 38.462 4.43 0.00 0.00 2.90
274 275 6.989169 CCAACTATAGGTCTCTTTTGATCTGG 59.011 42.308 4.43 0.00 0.00 3.86
275 276 7.365117 CCAACTATAGGTCTCTTTTGATCTGGT 60.365 40.741 4.43 0.00 0.00 4.00
276 277 7.741554 ACTATAGGTCTCTTTTGATCTGGTT 57.258 36.000 4.43 0.00 0.00 3.67
277 278 8.152023 ACTATAGGTCTCTTTTGATCTGGTTT 57.848 34.615 4.43 0.00 0.00 3.27
278 279 8.261522 ACTATAGGTCTCTTTTGATCTGGTTTC 58.738 37.037 4.43 0.00 0.00 2.78
279 280 4.319177 AGGTCTCTTTTGATCTGGTTTCG 58.681 43.478 0.00 0.00 0.00 3.46
280 281 4.065789 GGTCTCTTTTGATCTGGTTTCGT 58.934 43.478 0.00 0.00 0.00 3.85
281 282 5.011738 AGGTCTCTTTTGATCTGGTTTCGTA 59.988 40.000 0.00 0.00 0.00 3.43
282 283 5.348997 GGTCTCTTTTGATCTGGTTTCGTAG 59.651 44.000 0.00 0.00 0.00 3.51
283 284 5.927115 GTCTCTTTTGATCTGGTTTCGTAGT 59.073 40.000 0.00 0.00 0.00 2.73
284 285 6.424207 GTCTCTTTTGATCTGGTTTCGTAGTT 59.576 38.462 0.00 0.00 0.00 2.24
546 547 6.882458 ATACATTCGTCTCGTTTAAACTCC 57.118 37.500 16.01 0.99 0.00 3.85
547 548 4.624015 ACATTCGTCTCGTTTAAACTCCA 58.376 39.130 16.01 0.00 0.00 3.86
548 549 4.446719 ACATTCGTCTCGTTTAAACTCCAC 59.553 41.667 16.01 8.20 0.00 4.02
549 550 3.713858 TCGTCTCGTTTAAACTCCACA 57.286 42.857 16.01 0.00 0.00 4.17
550 551 4.247267 TCGTCTCGTTTAAACTCCACAT 57.753 40.909 16.01 0.00 0.00 3.21
551 552 4.624015 TCGTCTCGTTTAAACTCCACATT 58.376 39.130 16.01 0.00 0.00 2.71
552 553 4.682860 TCGTCTCGTTTAAACTCCACATTC 59.317 41.667 16.01 0.00 0.00 2.67
553 554 4.143179 CGTCTCGTTTAAACTCCACATTCC 60.143 45.833 16.01 0.00 0.00 3.01
554 555 4.995487 GTCTCGTTTAAACTCCACATTCCT 59.005 41.667 16.01 0.00 0.00 3.36
555 556 5.469084 GTCTCGTTTAAACTCCACATTCCTT 59.531 40.000 16.01 0.00 0.00 3.36
556 557 5.468746 TCTCGTTTAAACTCCACATTCCTTG 59.531 40.000 16.01 0.00 0.00 3.61
557 558 5.127491 TCGTTTAAACTCCACATTCCTTGT 58.873 37.500 16.01 0.00 39.91 3.16
570 571 6.515272 ACATTCCTTGTGATGTAAATCCAC 57.485 37.500 0.00 0.00 37.11 4.02
571 572 6.248433 ACATTCCTTGTGATGTAAATCCACT 58.752 36.000 0.00 0.00 37.11 4.00
572 573 6.375455 ACATTCCTTGTGATGTAAATCCACTC 59.625 38.462 0.00 0.00 37.11 3.51
573 574 5.762179 TCCTTGTGATGTAAATCCACTCT 57.238 39.130 0.00 0.00 0.00 3.24
574 575 6.867519 TCCTTGTGATGTAAATCCACTCTA 57.132 37.500 0.00 0.00 0.00 2.43
575 576 6.878317 TCCTTGTGATGTAAATCCACTCTAG 58.122 40.000 0.00 0.00 0.00 2.43
576 577 6.667848 TCCTTGTGATGTAAATCCACTCTAGA 59.332 38.462 0.00 0.00 0.00 2.43
577 578 7.345653 TCCTTGTGATGTAAATCCACTCTAGAT 59.654 37.037 0.00 0.00 0.00 1.98
578 579 7.655328 CCTTGTGATGTAAATCCACTCTAGATC 59.345 40.741 0.00 0.00 0.00 2.75
579 580 6.739112 TGTGATGTAAATCCACTCTAGATCG 58.261 40.000 0.00 0.00 0.00 3.69
580 581 6.546034 TGTGATGTAAATCCACTCTAGATCGA 59.454 38.462 0.00 0.00 0.00 3.59
581 582 7.231519 TGTGATGTAAATCCACTCTAGATCGAT 59.768 37.037 0.00 0.00 0.00 3.59
640 642 7.921786 TCACACTGGTTATCTTAGGAAAATG 57.078 36.000 0.00 0.00 0.00 2.32
745 747 1.327460 CGAACACATTACCGGAGCATG 59.673 52.381 9.46 9.65 0.00 4.06
917 928 1.474879 TGCACCGATCGATCACACTTA 59.525 47.619 24.40 3.95 0.00 2.24
918 929 2.120232 GCACCGATCGATCACACTTAG 58.880 52.381 24.40 6.72 0.00 2.18
1003 1037 4.082408 CGTCTCCCCGCAGTATAAATATGA 60.082 45.833 0.00 0.00 0.00 2.15
1033 1079 2.186125 CATCGGAGCAGCAGCAGA 59.814 61.111 3.17 0.00 45.49 4.26
1065 1111 2.202810 GAGAAGGCGGAAGAGGCG 60.203 66.667 0.00 0.00 41.99 5.52
1097 1143 4.512914 GGTGGGCATGGAGAGGGC 62.513 72.222 0.00 0.00 0.00 5.19
1223 1269 1.523758 GGCGGCAAGAAGAAGAAGAA 58.476 50.000 3.07 0.00 0.00 2.52
1224 1270 1.466558 GGCGGCAAGAAGAAGAAGAAG 59.533 52.381 3.07 0.00 0.00 2.85
1225 1271 2.417719 GCGGCAAGAAGAAGAAGAAGA 58.582 47.619 0.00 0.00 0.00 2.87
1226 1272 2.808543 GCGGCAAGAAGAAGAAGAAGAA 59.191 45.455 0.00 0.00 0.00 2.52
1227 1273 3.120373 GCGGCAAGAAGAAGAAGAAGAAG 60.120 47.826 0.00 0.00 0.00 2.85
1228 1274 4.310769 CGGCAAGAAGAAGAAGAAGAAGA 58.689 43.478 0.00 0.00 0.00 2.87
1229 1275 4.752101 CGGCAAGAAGAAGAAGAAGAAGAA 59.248 41.667 0.00 0.00 0.00 2.52
1314 1363 2.562489 CGTCATGCTGGTACGTACG 58.438 57.895 18.98 15.01 32.16 3.67
1315 1364 0.179181 CGTCATGCTGGTACGTACGT 60.179 55.000 25.98 25.98 32.16 3.57
1316 1365 1.062440 CGTCATGCTGGTACGTACGTA 59.938 52.381 23.60 23.60 32.16 3.57
1361 1410 2.224475 CGCCTTCCTTGATCATGATCCT 60.224 50.000 28.61 0.00 37.02 3.24
1375 1424 7.827729 TGATCATGATCCTTAGATTAATGCAGG 59.172 37.037 28.61 0.00 37.02 4.85
1407 1456 3.426615 CCCTGCTATAGCTAGTAGCACT 58.573 50.000 24.61 12.52 46.92 4.40
1409 1458 5.197451 CCCTGCTATAGCTAGTAGCACTAT 58.803 45.833 24.61 15.26 46.92 2.12
1410 1459 6.358178 CCCTGCTATAGCTAGTAGCACTATA 58.642 44.000 24.61 15.54 46.92 1.31
1411 1460 6.485313 CCCTGCTATAGCTAGTAGCACTATAG 59.515 46.154 24.61 23.02 46.92 1.31
1418 1467 5.479716 GCTAGTAGCACTATAGCTAGCTC 57.520 47.826 23.26 5.53 46.90 4.09
1419 1468 4.033587 GCTAGTAGCACTATAGCTAGCTCG 59.966 50.000 23.26 13.46 46.90 5.03
1489 1538 6.540189 AGATCGGTAACTACTCGCTAAGTAAA 59.460 38.462 0.00 0.00 39.98 2.01
1533 1582 1.665679 CCATGGATGTCTTGTGCGTAC 59.334 52.381 5.56 0.00 0.00 3.67
1565 1614 2.041819 GGGGAGGAGATGGTCGGT 60.042 66.667 0.00 0.00 0.00 4.69
1697 1758 2.043450 CTCGGCCTCAGGGTCTCT 60.043 66.667 0.00 0.00 34.49 3.10
1715 1776 1.151413 TCTCCCTCCCACAGGTACTTT 59.849 52.381 0.00 0.00 41.51 2.66
1716 1777 1.985895 CTCCCTCCCACAGGTACTTTT 59.014 52.381 0.00 0.00 41.51 2.27
1717 1778 1.702957 TCCCTCCCACAGGTACTTTTG 59.297 52.381 0.00 0.00 41.51 2.44
1718 1779 1.534729 CCTCCCACAGGTACTTTTGC 58.465 55.000 0.00 0.00 34.60 3.68
1721 1782 3.244770 CCTCCCACAGGTACTTTTGCTTA 60.245 47.826 0.00 0.00 34.60 3.09
1723 1784 2.817844 CCCACAGGTACTTTTGCTTACC 59.182 50.000 0.00 0.00 34.60 2.85
1744 1813 1.804396 CTTTTCACACGGCCATGGCA 61.804 55.000 36.56 13.87 44.11 4.92
1813 1912 1.593196 TGCTTACAAGTGCGCTTTCT 58.407 45.000 10.47 0.74 31.49 2.52
1846 1945 2.762745 TCGCAACTGGTAGAAGTTTCC 58.237 47.619 0.00 0.00 38.34 3.13
2044 2143 2.344500 CCGGTTCGGGTACAAGCA 59.656 61.111 0.00 0.00 44.15 3.91
2051 2150 1.005394 CGGGTACAAGCAGTTCCGT 60.005 57.895 12.27 0.00 38.48 4.69
2251 2350 2.047274 CACCTTCGTGGCCATCGT 60.047 61.111 21.61 7.30 40.22 3.73
2261 2360 2.184322 GCCATCGTGAGCTCCGAA 59.816 61.111 24.44 12.64 37.93 4.30
2688 2821 2.360350 CCGACAGCAATGCCACCT 60.360 61.111 0.00 0.00 0.00 4.00
2849 2996 5.702865 CCCAATTTTGACAGACATGTACAG 58.297 41.667 0.00 0.00 40.68 2.74
2870 3017 2.049767 CACCCGGTGGCAATTACCC 61.050 63.158 9.99 0.00 34.66 3.69
2871 3018 2.235761 ACCCGGTGGCAATTACCCT 61.236 57.895 0.00 0.00 34.66 4.34
2872 3019 1.752694 CCCGGTGGCAATTACCCTG 60.753 63.158 0.00 0.00 34.66 4.45
3160 3308 0.999406 CGAAGCAACGGTGATCGAAT 59.001 50.000 20.29 0.00 42.43 3.34
3198 3348 9.159254 TGAGCCAATAAGAAAGATATCTTCCTA 57.841 33.333 18.19 10.20 40.13 2.94
3216 3370 5.416271 TCCTACAATCACCTCCAAACTAC 57.584 43.478 0.00 0.00 0.00 2.73
3288 3442 6.117488 CCCTAAATTACCGTATCCACAAACT 58.883 40.000 0.00 0.00 0.00 2.66
3310 3464 7.365840 ACTCTTATTTCCTCGACAATTTCAC 57.634 36.000 0.00 0.00 0.00 3.18
3317 3471 3.119280 TCCTCGACAATTTCACTATCGCA 60.119 43.478 0.00 0.00 32.89 5.10
3346 3500 6.127366 ACAGCTTCTGGAATTCAAAACTTTGA 60.127 34.615 7.93 0.69 39.37 2.69
3365 3519 4.877270 TGAAACAATTTTATTGTCGCGC 57.123 36.364 0.00 0.00 0.00 6.86
3373 3527 1.012841 TTATTGTCGCGCATGCATGA 58.987 45.000 30.64 11.73 42.97 3.07
3407 3561 5.438833 TGAATTGGTATGATGATCAGTGCA 58.561 37.500 0.09 0.00 0.00 4.57
3462 3616 9.338622 ACCAGTGCATAAAGATAACCTATTTAC 57.661 33.333 0.00 0.00 0.00 2.01
3463 3617 8.784043 CCAGTGCATAAAGATAACCTATTTACC 58.216 37.037 0.00 0.00 0.00 2.85
3464 3618 8.495949 CAGTGCATAAAGATAACCTATTTACCG 58.504 37.037 0.00 0.00 0.00 4.02
3465 3619 7.172703 AGTGCATAAAGATAACCTATTTACCGC 59.827 37.037 0.00 0.00 0.00 5.68
3466 3620 6.993308 TGCATAAAGATAACCTATTTACCGCA 59.007 34.615 0.00 0.00 32.28 5.69
3467 3621 7.041644 TGCATAAAGATAACCTATTTACCGCAC 60.042 37.037 0.00 0.00 30.94 5.34
3468 3622 7.572539 GCATAAAGATAACCTATTTACCGCACC 60.573 40.741 0.00 0.00 0.00 5.01
3469 3623 5.362105 AAGATAACCTATTTACCGCACCA 57.638 39.130 0.00 0.00 0.00 4.17
3470 3624 4.957296 AGATAACCTATTTACCGCACCAG 58.043 43.478 0.00 0.00 0.00 4.00
3471 3625 4.407945 AGATAACCTATTTACCGCACCAGT 59.592 41.667 0.00 0.00 0.00 4.00
3472 3626 2.396590 ACCTATTTACCGCACCAGTG 57.603 50.000 0.00 0.00 0.00 3.66
3513 3667 8.655092 ACCAAAATGTAAAATGCATGTAATTCG 58.345 29.630 0.00 0.00 0.00 3.34
3565 3721 9.856162 AAACTTTATTGTGGTACTTCCTAGAAA 57.144 29.630 0.00 0.00 37.07 2.52
3566 3722 9.856162 AACTTTATTGTGGTACTTCCTAGAAAA 57.144 29.630 0.00 0.00 37.07 2.29
3567 3723 9.281371 ACTTTATTGTGGTACTTCCTAGAAAAC 57.719 33.333 0.00 0.00 37.07 2.43
3568 3724 9.503399 CTTTATTGTGGTACTTCCTAGAAAACT 57.497 33.333 0.00 0.00 37.07 2.66
3571 3727 7.607615 TTGTGGTACTTCCTAGAAAACTAGT 57.392 36.000 0.00 0.00 37.07 2.57
3572 3728 7.224522 TGTGGTACTTCCTAGAAAACTAGTC 57.775 40.000 0.00 0.00 37.07 2.59
3573 3729 6.210185 TGTGGTACTTCCTAGAAAACTAGTCC 59.790 42.308 0.00 0.00 37.07 3.85
3574 3730 5.416952 TGGTACTTCCTAGAAAACTAGTCCG 59.583 44.000 0.00 0.00 37.07 4.79
3695 3904 5.751028 GTGGACACTTCACTAGAGATAATGC 59.249 44.000 0.00 0.00 32.78 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
54 55 3.097614 ACCTATGTCTAACCGCTTGACT 58.902 45.455 0.00 0.00 0.00 3.41
62 63 2.158798 GGGCCTCAACCTATGTCTAACC 60.159 54.545 0.84 0.00 0.00 2.85
71 72 0.178873 ACCTTCAGGGCCTCAACCTA 60.179 55.000 0.95 0.00 40.27 3.08
83 84 2.951229 AGGTTGTTACCCACCTTCAG 57.049 50.000 0.00 0.00 46.28 3.02
91 92 5.591472 ACACAAGAAGTAAAGGTTGTTACCC 59.409 40.000 0.00 0.00 46.28 3.69
92 93 6.688637 ACACAAGAAGTAAAGGTTGTTACC 57.311 37.500 0.00 0.00 45.39 2.85
93 94 7.908601 CAGAACACAAGAAGTAAAGGTTGTTAC 59.091 37.037 0.00 0.00 34.72 2.50
94 95 7.066525 CCAGAACACAAGAAGTAAAGGTTGTTA 59.933 37.037 0.00 0.00 30.69 2.41
95 96 6.127730 CCAGAACACAAGAAGTAAAGGTTGTT 60.128 38.462 0.00 0.00 30.69 2.83
96 97 5.357032 CCAGAACACAAGAAGTAAAGGTTGT 59.643 40.000 0.00 0.00 33.37 3.32
97 98 5.733373 GCCAGAACACAAGAAGTAAAGGTTG 60.733 44.000 0.00 0.00 0.00 3.77
98 99 4.338400 GCCAGAACACAAGAAGTAAAGGTT 59.662 41.667 0.00 0.00 0.00 3.50
99 100 3.883489 GCCAGAACACAAGAAGTAAAGGT 59.117 43.478 0.00 0.00 0.00 3.50
100 101 3.253432 GGCCAGAACACAAGAAGTAAAGG 59.747 47.826 0.00 0.00 0.00 3.11
101 102 4.137543 AGGCCAGAACACAAGAAGTAAAG 58.862 43.478 5.01 0.00 0.00 1.85
102 103 4.164843 AGGCCAGAACACAAGAAGTAAA 57.835 40.909 5.01 0.00 0.00 2.01
103 104 3.857157 AGGCCAGAACACAAGAAGTAA 57.143 42.857 5.01 0.00 0.00 2.24
104 105 3.391296 AGAAGGCCAGAACACAAGAAGTA 59.609 43.478 5.01 0.00 0.00 2.24
105 106 2.173569 AGAAGGCCAGAACACAAGAAGT 59.826 45.455 5.01 0.00 0.00 3.01
106 107 2.856222 AGAAGGCCAGAACACAAGAAG 58.144 47.619 5.01 0.00 0.00 2.85
107 108 3.297134 AAGAAGGCCAGAACACAAGAA 57.703 42.857 5.01 0.00 0.00 2.52
147 148 8.486210 ACTCACTGATATTAGTTTAGCCATTCA 58.514 33.333 0.00 0.00 0.00 2.57
200 201 6.035487 TTGGAGGCCATAGAAGAACAACTTC 61.035 44.000 5.01 0.00 43.15 3.01
201 202 3.330701 TGGAGGCCATAGAAGAACAACTT 59.669 43.478 5.01 0.00 42.03 2.66
202 203 2.912956 TGGAGGCCATAGAAGAACAACT 59.087 45.455 5.01 0.00 0.00 3.16
203 204 3.350219 TGGAGGCCATAGAAGAACAAC 57.650 47.619 5.01 0.00 0.00 3.32
204 205 4.591321 ATTGGAGGCCATAGAAGAACAA 57.409 40.909 5.01 0.00 31.53 2.83
205 206 4.591321 AATTGGAGGCCATAGAAGAACA 57.409 40.909 5.01 0.00 31.53 3.18
206 207 5.196695 AGAAATTGGAGGCCATAGAAGAAC 58.803 41.667 5.01 0.00 31.53 3.01
207 208 5.456921 AGAAATTGGAGGCCATAGAAGAA 57.543 39.130 5.01 0.00 31.53 2.52
208 209 5.456921 AAGAAATTGGAGGCCATAGAAGA 57.543 39.130 5.01 0.00 31.53 2.87
209 210 6.535963 AAAAGAAATTGGAGGCCATAGAAG 57.464 37.500 5.01 0.00 31.53 2.85
210 211 9.354673 CTATAAAAGAAATTGGAGGCCATAGAA 57.645 33.333 5.01 0.00 31.53 2.10
211 212 7.944554 CCTATAAAAGAAATTGGAGGCCATAGA 59.055 37.037 5.01 0.00 31.53 1.98
212 213 7.177392 CCCTATAAAAGAAATTGGAGGCCATAG 59.823 40.741 5.01 0.00 31.53 2.23
213 214 7.010160 CCCTATAAAAGAAATTGGAGGCCATA 58.990 38.462 5.01 0.00 31.53 2.74
214 215 5.840693 CCCTATAAAAGAAATTGGAGGCCAT 59.159 40.000 5.01 0.00 31.53 4.40
215 216 5.208121 CCCTATAAAAGAAATTGGAGGCCA 58.792 41.667 5.01 0.00 0.00 5.36
216 217 4.039245 GCCCTATAAAAGAAATTGGAGGCC 59.961 45.833 0.00 0.00 0.00 5.19
217 218 4.039245 GGCCCTATAAAAGAAATTGGAGGC 59.961 45.833 0.00 0.00 0.00 4.70
218 219 4.588951 GGGCCCTATAAAAGAAATTGGAGG 59.411 45.833 17.04 0.00 0.00 4.30
219 220 5.458595 AGGGCCCTATAAAAGAAATTGGAG 58.541 41.667 27.42 0.00 0.00 3.86
220 221 5.481615 AGGGCCCTATAAAAGAAATTGGA 57.518 39.130 27.42 0.00 0.00 3.53
221 222 5.425217 ACAAGGGCCCTATAAAAGAAATTGG 59.575 40.000 28.96 0.00 0.00 3.16
222 223 6.381133 AGACAAGGGCCCTATAAAAGAAATTG 59.619 38.462 28.96 17.55 0.00 2.32
223 224 6.503041 AGACAAGGGCCCTATAAAAGAAATT 58.497 36.000 28.96 0.20 0.00 1.82
224 225 6.092346 AGACAAGGGCCCTATAAAAGAAAT 57.908 37.500 28.96 0.88 0.00 2.17
225 226 5.530176 AGACAAGGGCCCTATAAAAGAAA 57.470 39.130 28.96 0.00 0.00 2.52
226 227 5.506708 GAAGACAAGGGCCCTATAAAAGAA 58.493 41.667 28.96 0.00 0.00 2.52
227 228 4.079958 GGAAGACAAGGGCCCTATAAAAGA 60.080 45.833 28.96 0.00 0.00 2.52
228 229 4.207955 GGAAGACAAGGGCCCTATAAAAG 58.792 47.826 28.96 13.43 0.00 2.27
229 230 3.594232 TGGAAGACAAGGGCCCTATAAAA 59.406 43.478 28.96 3.20 0.00 1.52
230 231 3.194620 TGGAAGACAAGGGCCCTATAAA 58.805 45.455 28.96 2.47 0.00 1.40
231 232 2.853430 TGGAAGACAAGGGCCCTATAA 58.147 47.619 28.96 1.88 0.00 0.98
232 233 2.508300 GTTGGAAGACAAGGGCCCTATA 59.492 50.000 28.96 2.20 40.38 1.31
233 234 1.285078 GTTGGAAGACAAGGGCCCTAT 59.715 52.381 28.96 17.75 40.38 2.57
234 235 0.696501 GTTGGAAGACAAGGGCCCTA 59.303 55.000 28.96 2.79 40.38 3.53
235 236 1.068352 AGTTGGAAGACAAGGGCCCT 61.068 55.000 22.28 22.28 40.38 5.19
236 237 0.696501 TAGTTGGAAGACAAGGGCCC 59.303 55.000 16.46 16.46 40.38 5.80
237 238 2.808906 ATAGTTGGAAGACAAGGGCC 57.191 50.000 0.00 0.00 40.38 5.80
238 239 3.200165 ACCTATAGTTGGAAGACAAGGGC 59.800 47.826 0.00 0.00 40.38 5.19
239 240 4.717280 AGACCTATAGTTGGAAGACAAGGG 59.283 45.833 0.00 0.00 40.38 3.95
240 241 5.659079 AGAGACCTATAGTTGGAAGACAAGG 59.341 44.000 0.00 0.00 40.38 3.61
241 242 6.783708 AGAGACCTATAGTTGGAAGACAAG 57.216 41.667 0.00 0.00 40.38 3.16
242 243 7.554959 AAAGAGACCTATAGTTGGAAGACAA 57.445 36.000 0.00 0.00 36.54 3.18
243 244 7.234782 TCAAAAGAGACCTATAGTTGGAAGACA 59.765 37.037 0.00 0.00 0.00 3.41
244 245 7.612677 TCAAAAGAGACCTATAGTTGGAAGAC 58.387 38.462 0.00 0.00 0.00 3.01
245 246 7.792364 TCAAAAGAGACCTATAGTTGGAAGA 57.208 36.000 0.00 0.00 0.00 2.87
246 247 8.482128 AGATCAAAAGAGACCTATAGTTGGAAG 58.518 37.037 0.00 0.00 0.00 3.46
247 248 8.260818 CAGATCAAAAGAGACCTATAGTTGGAA 58.739 37.037 0.00 0.00 0.00 3.53
248 249 7.147655 CCAGATCAAAAGAGACCTATAGTTGGA 60.148 40.741 0.00 0.00 0.00 3.53
249 250 6.989169 CCAGATCAAAAGAGACCTATAGTTGG 59.011 42.308 0.00 0.00 0.00 3.77
250 251 7.560368 ACCAGATCAAAAGAGACCTATAGTTG 58.440 38.462 0.00 0.00 0.00 3.16
251 252 7.741554 ACCAGATCAAAAGAGACCTATAGTT 57.258 36.000 0.00 0.00 0.00 2.24
252 253 7.741554 AACCAGATCAAAAGAGACCTATAGT 57.258 36.000 0.00 0.00 0.00 2.12
253 254 7.436673 CGAAACCAGATCAAAAGAGACCTATAG 59.563 40.741 0.00 0.00 0.00 1.31
254 255 7.093465 ACGAAACCAGATCAAAAGAGACCTATA 60.093 37.037 0.00 0.00 0.00 1.31
255 256 6.109359 CGAAACCAGATCAAAAGAGACCTAT 58.891 40.000 0.00 0.00 0.00 2.57
256 257 5.011738 ACGAAACCAGATCAAAAGAGACCTA 59.988 40.000 0.00 0.00 0.00 3.08
257 258 4.202367 ACGAAACCAGATCAAAAGAGACCT 60.202 41.667 0.00 0.00 0.00 3.85
258 259 4.065789 ACGAAACCAGATCAAAAGAGACC 58.934 43.478 0.00 0.00 0.00 3.85
259 260 5.927115 ACTACGAAACCAGATCAAAAGAGAC 59.073 40.000 0.00 0.00 0.00 3.36
260 261 6.097915 ACTACGAAACCAGATCAAAAGAGA 57.902 37.500 0.00 0.00 0.00 3.10
261 262 6.787085 AACTACGAAACCAGATCAAAAGAG 57.213 37.500 0.00 0.00 0.00 2.85
522 523 6.529125 TGGAGTTTAAACGAGACGAATGTATC 59.471 38.462 12.54 0.49 32.95 2.24
523 524 6.309737 GTGGAGTTTAAACGAGACGAATGTAT 59.690 38.462 12.54 0.00 0.00 2.29
524 525 5.630680 GTGGAGTTTAAACGAGACGAATGTA 59.369 40.000 12.54 0.00 0.00 2.29
525 526 4.446719 GTGGAGTTTAAACGAGACGAATGT 59.553 41.667 12.54 0.00 0.00 2.71
526 527 4.446385 TGTGGAGTTTAAACGAGACGAATG 59.554 41.667 12.54 0.00 0.00 2.67
527 528 4.624015 TGTGGAGTTTAAACGAGACGAAT 58.376 39.130 12.54 0.00 0.00 3.34
528 529 4.044336 TGTGGAGTTTAAACGAGACGAA 57.956 40.909 12.54 0.00 0.00 3.85
529 530 3.713858 TGTGGAGTTTAAACGAGACGA 57.286 42.857 12.54 1.57 0.00 4.20
530 531 4.143179 GGAATGTGGAGTTTAAACGAGACG 60.143 45.833 12.54 0.00 0.00 4.18
531 532 4.995487 AGGAATGTGGAGTTTAAACGAGAC 59.005 41.667 12.54 10.33 0.00 3.36
532 533 5.223449 AGGAATGTGGAGTTTAAACGAGA 57.777 39.130 12.54 0.67 0.00 4.04
533 534 5.238650 ACAAGGAATGTGGAGTTTAAACGAG 59.761 40.000 12.54 0.00 41.93 4.18
534 535 5.127491 ACAAGGAATGTGGAGTTTAAACGA 58.873 37.500 12.54 0.00 41.93 3.85
535 536 5.432885 ACAAGGAATGTGGAGTTTAAACG 57.567 39.130 12.54 0.00 41.93 3.60
547 548 6.248433 AGTGGATTTACATCACAAGGAATGT 58.752 36.000 0.00 0.00 45.34 2.71
548 549 6.600822 AGAGTGGATTTACATCACAAGGAATG 59.399 38.462 0.00 0.00 0.00 2.67
549 550 6.725364 AGAGTGGATTTACATCACAAGGAAT 58.275 36.000 0.00 0.00 0.00 3.01
550 551 6.126863 AGAGTGGATTTACATCACAAGGAA 57.873 37.500 0.00 0.00 0.00 3.36
551 552 5.762179 AGAGTGGATTTACATCACAAGGA 57.238 39.130 0.00 0.00 0.00 3.36
552 553 6.878317 TCTAGAGTGGATTTACATCACAAGG 58.122 40.000 0.00 0.00 0.00 3.61
553 554 7.380870 CGATCTAGAGTGGATTTACATCACAAG 59.619 40.741 0.00 0.00 0.00 3.16
554 555 7.068226 TCGATCTAGAGTGGATTTACATCACAA 59.932 37.037 0.00 0.00 0.00 3.33
555 556 6.546034 TCGATCTAGAGTGGATTTACATCACA 59.454 38.462 0.00 0.00 0.00 3.58
556 557 6.971602 TCGATCTAGAGTGGATTTACATCAC 58.028 40.000 0.00 0.00 0.00 3.06
557 558 7.767250 ATCGATCTAGAGTGGATTTACATCA 57.233 36.000 0.00 0.00 0.00 3.07
566 567 9.015367 CCTAAGATTTTATCGATCTAGAGTGGA 57.985 37.037 0.00 0.00 33.63 4.02
567 568 9.015367 TCCTAAGATTTTATCGATCTAGAGTGG 57.985 37.037 0.00 0.00 33.63 4.00
598 599 9.774742 CCAGTGTGAATTTAGCTAAATTTAGAC 57.225 33.333 33.78 33.78 43.67 2.59
615 617 7.942341 ACATTTTCCTAAGATAACCAGTGTGAA 59.058 33.333 0.00 0.00 0.00 3.18
706 708 2.452006 GGAAAATCCGTGTGCGTATG 57.548 50.000 0.00 0.00 36.15 2.39
726 728 2.351726 GTCATGCTCCGGTAATGTGTTC 59.648 50.000 0.00 0.00 0.00 3.18
740 742 2.202236 AATCCACTGGCGGTCATGCT 62.202 55.000 0.00 0.00 34.52 3.79
745 747 1.644786 CGGAAAATCCACTGGCGGTC 61.645 60.000 0.00 0.00 35.91 4.79
784 787 1.471684 CAATTTCACAGAGCTGCCCTC 59.528 52.381 0.00 0.00 41.07 4.30
917 928 1.528309 CTTTTGACGTGGGGCCACT 60.528 57.895 6.53 0.00 44.16 4.00
918 929 0.535553 TACTTTTGACGTGGGGCCAC 60.536 55.000 4.39 0.00 43.01 5.01
1033 1079 3.818180 CCTTCTCAATGGCTATCTGCTT 58.182 45.455 0.00 0.00 42.39 3.91
1056 1102 2.899339 GCCATGCTCGCCTCTTCC 60.899 66.667 0.00 0.00 0.00 3.46
1065 1111 4.115199 ACCTTCCCGGCCATGCTC 62.115 66.667 2.24 0.00 35.61 4.26
1375 1424 0.466922 ATAGCAGGGGTCAAGCATGC 60.467 55.000 10.51 10.51 37.15 4.06
1407 1456 8.771766 CCAATTATATACGACGAGCTAGCTATA 58.228 37.037 19.38 11.08 0.00 1.31
1409 1458 6.457934 GCCAATTATATACGACGAGCTAGCTA 60.458 42.308 19.38 0.08 0.00 3.32
1410 1459 5.676584 GCCAATTATATACGACGAGCTAGCT 60.677 44.000 19.45 19.45 0.00 3.32
1411 1460 4.499758 GCCAATTATATACGACGAGCTAGC 59.500 45.833 6.62 6.62 0.00 3.42
1413 1462 5.446875 CGAGCCAATTATATACGACGAGCTA 60.447 44.000 0.00 0.00 0.00 3.32
1414 1463 4.672024 CGAGCCAATTATATACGACGAGCT 60.672 45.833 0.00 0.00 0.00 4.09
1416 1465 4.553815 CACGAGCCAATTATATACGACGAG 59.446 45.833 0.00 0.00 0.00 4.18
1417 1466 4.213906 TCACGAGCCAATTATATACGACGA 59.786 41.667 0.00 0.00 0.00 4.20
1418 1467 4.469552 TCACGAGCCAATTATATACGACG 58.530 43.478 0.00 0.00 0.00 5.12
1419 1468 5.227391 CGATCACGAGCCAATTATATACGAC 59.773 44.000 0.00 0.00 42.66 4.34
1533 1582 3.052082 CCCGCACTCAGCAACCTG 61.052 66.667 0.00 0.00 46.13 4.00
1565 1614 0.328926 TGATGCAGGCCTTGATGACA 59.671 50.000 0.00 0.00 0.00 3.58
1715 1776 2.875933 CCGTGTGAAAAGAGGTAAGCAA 59.124 45.455 0.00 0.00 0.00 3.91
1716 1777 2.489971 CCGTGTGAAAAGAGGTAAGCA 58.510 47.619 0.00 0.00 0.00 3.91
1717 1778 1.197036 GCCGTGTGAAAAGAGGTAAGC 59.803 52.381 0.00 0.00 0.00 3.09
1718 1779 1.804748 GGCCGTGTGAAAAGAGGTAAG 59.195 52.381 0.00 0.00 0.00 2.34
1721 1782 0.110486 ATGGCCGTGTGAAAAGAGGT 59.890 50.000 0.00 0.00 0.00 3.85
1723 1784 0.523072 CCATGGCCGTGTGAAAAGAG 59.477 55.000 23.39 1.68 0.00 2.85
1846 1945 1.973138 CACGCCATTGCTCAAAAGAG 58.027 50.000 0.00 0.00 34.43 2.85
1879 1978 6.199342 CCTATAACACAACCCAAAACAAAACG 59.801 38.462 0.00 0.00 0.00 3.60
1885 1984 3.366577 CCGCCTATAACACAACCCAAAAC 60.367 47.826 0.00 0.00 0.00 2.43
2688 2821 1.619975 AGTCGGAGGAGGAGGAGGA 60.620 63.158 0.00 0.00 0.00 3.71
2849 2996 1.974343 TAATTGCCACCGGGTGCAC 60.974 57.895 21.88 15.53 36.17 4.57
2870 3017 3.673484 CACCGGTGGCAAAGGCAG 61.673 66.667 27.57 0.00 43.71 4.85
2975 3123 0.609957 TGTTCATCCTGGCTGCTTGG 60.610 55.000 0.00 2.24 0.00 3.61
3033 3181 2.025898 CATTCTGCCATGTATGCACCA 58.974 47.619 0.00 0.00 34.46 4.17
3114 3262 0.673644 GACAGGAGCGCTGCCTTTTA 60.674 55.000 26.33 0.00 32.12 1.52
3160 3308 6.941857 TCTTATTGGCTCACTACACATTGTA 58.058 36.000 0.00 0.00 0.00 2.41
3198 3348 3.244911 CCCAGTAGTTTGGAGGTGATTGT 60.245 47.826 0.00 0.00 40.87 2.71
3216 3370 1.259609 TGAAAAATGAGCCAGCCCAG 58.740 50.000 0.00 0.00 0.00 4.45
3271 3425 7.550196 GGAAATAAGAGTTTGTGGATACGGTAA 59.450 37.037 0.00 0.00 42.51 2.85
3288 3442 9.314321 GATAGTGAAATTGTCGAGGAAATAAGA 57.686 33.333 0.00 0.00 0.00 2.10
3310 3464 4.371786 TCCAGAAGCTGTTTATGCGATAG 58.628 43.478 0.00 0.00 35.28 2.08
3317 3471 7.955918 AGTTTTGAATTCCAGAAGCTGTTTAT 58.044 30.769 2.27 0.00 0.00 1.40
3346 3500 4.434067 GCATGCGCGACAATAAAATTGTTT 60.434 37.500 12.10 0.00 31.96 2.83
3355 3509 1.228533 ATCATGCATGCGCGACAATA 58.771 45.000 22.25 1.33 42.97 1.90
3365 3519 9.877137 CCAATTCATATTTTTGAATCATGCATG 57.123 29.630 21.07 21.07 43.73 4.06
3394 3548 8.523915 AGGTTATTTTTATGCACTGATCATCA 57.476 30.769 0.00 0.00 0.00 3.07
3450 3604 4.448210 CACTGGTGCGGTAAATAGGTTAT 58.552 43.478 0.00 0.00 0.00 1.89
3465 3619 1.879380 TCAAGGAAAATCGCACTGGTG 59.121 47.619 0.00 0.00 0.00 4.17
3466 3620 2.270352 TCAAGGAAAATCGCACTGGT 57.730 45.000 0.00 0.00 0.00 4.00
3467 3621 3.308530 GTTTCAAGGAAAATCGCACTGG 58.691 45.455 0.00 0.00 33.14 4.00
3468 3622 3.243367 TGGTTTCAAGGAAAATCGCACTG 60.243 43.478 0.00 0.00 33.14 3.66
3469 3623 2.955660 TGGTTTCAAGGAAAATCGCACT 59.044 40.909 0.00 0.00 33.14 4.40
3470 3624 3.363341 TGGTTTCAAGGAAAATCGCAC 57.637 42.857 0.00 0.00 33.14 5.34
3471 3625 4.392921 TTTGGTTTCAAGGAAAATCGCA 57.607 36.364 0.00 0.00 33.14 5.10
3472 3626 5.236263 ACATTTTGGTTTCAAGGAAAATCGC 59.764 36.000 0.00 0.00 33.14 4.58
3473 3627 6.843069 ACATTTTGGTTTCAAGGAAAATCG 57.157 33.333 0.00 0.00 33.14 3.34
3479 3633 7.050377 TGCATTTTACATTTTGGTTTCAAGGA 58.950 30.769 0.00 0.00 33.98 3.36
3565 3721 0.886563 CGTTGGACTCCGGACTAGTT 59.113 55.000 0.00 0.00 0.00 2.24
3566 3722 0.037303 TCGTTGGACTCCGGACTAGT 59.963 55.000 0.00 0.00 0.00 2.57
3567 3723 1.171308 TTCGTTGGACTCCGGACTAG 58.829 55.000 0.00 0.00 0.00 2.57
3568 3724 1.843368 ATTCGTTGGACTCCGGACTA 58.157 50.000 0.00 0.00 0.00 2.59
3569 3725 0.974383 AATTCGTTGGACTCCGGACT 59.026 50.000 0.00 0.00 0.00 3.85
3570 3726 1.463444 CAAATTCGTTGGACTCCGGAC 59.537 52.381 0.00 0.00 33.18 4.79
3571 3727 1.345089 TCAAATTCGTTGGACTCCGGA 59.655 47.619 2.93 2.93 37.85 5.14
3572 3728 1.803334 TCAAATTCGTTGGACTCCGG 58.197 50.000 0.00 0.00 37.85 5.14
3573 3729 3.889196 TTTCAAATTCGTTGGACTCCG 57.111 42.857 0.00 0.00 37.85 4.63
3574 3730 4.927422 TGTTTTCAAATTCGTTGGACTCC 58.073 39.130 0.00 0.00 37.85 3.85
3695 3904 7.897864 TGGTTAATTGGTTAGTTAATTGGGTG 58.102 34.615 0.00 0.00 0.00 4.61


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

AutoCloner maintained by Alex Coulton.