Multiple sequence alignment - TraesCS5B01G446100

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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 TraesCS5B01G446100 chr5B 100.000 2743 0 0 1 2743 617713368 617710626 0.000000e+00 5066.0
1 TraesCS5B01G446100 chr5B 75.000 216 47 6 1354 1564 64419316 64419529 2.910000e-15 93.5
2 TraesCS5B01G446100 chr5B 79.464 112 23 0 1359 1470 559778623 559778512 2.260000e-11 80.5
3 TraesCS5B01G446100 chr5D 87.149 2529 155 76 334 2743 498405457 498402980 0.000000e+00 2713.0
4 TraesCS5B01G446100 chr5D 92.823 209 9 4 1 208 498405831 498405628 5.740000e-77 298.0
5 TraesCS5B01G446100 chr5D 75.926 216 45 6 1354 1564 66668844 66668631 1.340000e-18 104.0
6 TraesCS5B01G446100 chr5A 83.516 2366 160 100 552 2738 622558991 622556677 0.000000e+00 1997.0
7 TraesCS5B01G446100 chr5A 95.946 74 3 0 1 74 622559739 622559666 1.330000e-23 121.0
8 TraesCS5B01G446100 chr5A 76.037 217 43 8 1354 1564 57563474 57563687 1.340000e-18 104.0
9 TraesCS5B01G446100 chr5A 93.443 61 3 1 371 430 622559233 622559173 3.760000e-14 89.8
10 TraesCS5B01G446100 chr5A 85.333 75 10 1 1491 1564 575612792 575612718 2.930000e-10 76.8
11 TraesCS5B01G446100 chr5A 97.368 38 1 0 94 131 622559662 622559625 6.340000e-07 65.8
12 TraesCS5B01G446100 chr2D 93.243 74 4 1 1498 1571 633898374 633898446 1.040000e-19 108.0
13 TraesCS5B01G446100 chr2B 94.118 68 4 0 1498 1565 776914732 776914799 1.340000e-18 104.0
14 TraesCS5B01G446100 chr6D 94.737 38 0 2 230 267 452486304 452486339 1.060000e-04 58.4
15 TraesCS5B01G446100 chr3D 100.000 29 0 0 1288 1316 279195080 279195052 1.000000e-03 54.7
16 TraesCS5B01G446100 chr3B 100.000 29 0 0 1288 1316 370938526 370938554 1.000000e-03 54.7
17 TraesCS5B01G446100 chr3A 100.000 29 0 0 1288 1316 359667992 359668020 1.000000e-03 54.7


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 TraesCS5B01G446100 chr5B 617710626 617713368 2742 True 5066.0 5066 100.00000 1 2743 1 chr5B.!!$R2 2742
1 TraesCS5B01G446100 chr5D 498402980 498405831 2851 True 1505.5 2713 89.98600 1 2743 2 chr5D.!!$R2 2742
2 TraesCS5B01G446100 chr5A 622556677 622559739 3062 True 568.4 1997 92.56825 1 2738 4 chr5A.!!$R2 2737

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
570 927 0.038159 GACCGTGAAGACCAGAGTGG 60.038 60.0 0.0 0.0 45.02 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2018 2564 0.103937 CTACTGCTACTGCTCCAGGC 59.896 60.0 0.0 0.0 40.48 4.85 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
81 82 1.070108 CATGCATATGCGTCTCTGTGC 60.070 52.381 19.61 0.00 45.83 4.57
82 83 1.147557 TGCATATGCGTCTCTGTGCG 61.148 55.000 22.21 0.00 45.83 5.34
83 84 1.148157 GCATATGCGTCTCTGTGCGT 61.148 55.000 12.82 0.00 0.00 5.24
84 85 0.848942 CATATGCGTCTCTGTGCGTC 59.151 55.000 0.00 0.00 0.00 5.19
131 151 0.585357 CCTAGACCGTCACCGTATCG 59.415 60.000 0.40 0.00 0.00 2.92
141 161 4.361253 CCGTATCGGGCAGGATTG 57.639 61.111 0.00 0.00 44.15 2.67
142 162 1.301716 CCGTATCGGGCAGGATTGG 60.302 63.158 0.00 0.00 44.15 3.16
143 163 1.745890 CGTATCGGGCAGGATTGGA 59.254 57.895 0.00 0.00 0.00 3.53
144 164 0.600255 CGTATCGGGCAGGATTGGAC 60.600 60.000 0.00 0.00 0.00 4.02
145 165 0.250338 GTATCGGGCAGGATTGGACC 60.250 60.000 0.00 0.00 0.00 4.46
146 166 1.754380 TATCGGGCAGGATTGGACCG 61.754 60.000 0.00 0.00 45.52 4.79
147 167 4.096003 CGGGCAGGATTGGACCGT 62.096 66.667 0.00 0.00 39.70 4.83
148 168 2.438434 GGGCAGGATTGGACCGTG 60.438 66.667 0.00 0.00 34.73 4.94
149 169 3.134127 GGCAGGATTGGACCGTGC 61.134 66.667 0.00 0.00 35.21 5.34
150 170 2.045926 GCAGGATTGGACCGTGCT 60.046 61.111 0.00 0.00 34.11 4.40
163 183 2.729862 GTGCTCTCGCGTTGTCGT 60.730 61.111 5.77 0.00 39.65 4.34
208 229 2.919494 CGGCCAAGCAAGTGGGTTC 61.919 63.158 2.24 0.00 39.26 3.62
209 230 2.574018 GGCCAAGCAAGTGGGTTCC 61.574 63.158 0.00 0.00 39.26 3.62
212 233 1.228124 CAAGCAAGTGGGTTCCGGA 60.228 57.895 0.00 0.00 34.30 5.14
215 236 0.322546 AGCAAGTGGGTTCCGGAATC 60.323 55.000 22.04 20.85 0.00 2.52
216 237 0.322546 GCAAGTGGGTTCCGGAATCT 60.323 55.000 26.15 15.82 0.00 2.40
217 238 1.886655 GCAAGTGGGTTCCGGAATCTT 60.887 52.381 26.15 19.97 0.00 2.40
218 239 2.084546 CAAGTGGGTTCCGGAATCTTC 58.915 52.381 26.15 18.31 0.00 2.87
219 240 1.657804 AGTGGGTTCCGGAATCTTCT 58.342 50.000 26.15 20.06 0.00 2.85
220 241 1.279271 AGTGGGTTCCGGAATCTTCTG 59.721 52.381 26.15 0.00 0.00 3.02
222 243 1.003118 TGGGTTCCGGAATCTTCTGTG 59.997 52.381 26.15 0.00 31.55 3.66
223 244 1.003233 GGGTTCCGGAATCTTCTGTGT 59.997 52.381 26.15 0.00 31.55 3.72
224 245 2.076863 GGTTCCGGAATCTTCTGTGTG 58.923 52.381 22.04 0.00 31.55 3.82
225 246 2.550208 GGTTCCGGAATCTTCTGTGTGT 60.550 50.000 22.04 0.00 31.55 3.72
226 247 3.306502 GGTTCCGGAATCTTCTGTGTGTA 60.307 47.826 22.04 0.00 31.55 2.90
227 248 3.587797 TCCGGAATCTTCTGTGTGTAC 57.412 47.619 0.00 0.00 31.55 2.90
230 251 3.119743 CCGGAATCTTCTGTGTGTACGTA 60.120 47.826 0.00 0.00 31.55 3.57
231 252 4.439700 CCGGAATCTTCTGTGTGTACGTAT 60.440 45.833 0.00 0.00 31.55 3.06
233 254 5.408356 GGAATCTTCTGTGTGTACGTATGT 58.592 41.667 0.00 0.00 0.00 2.29
234 255 6.558009 GGAATCTTCTGTGTGTACGTATGTA 58.442 40.000 0.00 0.00 0.00 2.29
235 256 7.201145 GGAATCTTCTGTGTGTACGTATGTAT 58.799 38.462 0.00 0.00 32.11 2.29
236 257 7.705325 GGAATCTTCTGTGTGTACGTATGTATT 59.295 37.037 0.00 0.00 32.11 1.89
239 260 9.678941 ATCTTCTGTGTGTACGTATGTATTATG 57.321 33.333 0.00 0.00 32.11 1.90
240 261 8.680001 TCTTCTGTGTGTACGTATGTATTATGT 58.320 33.333 0.00 0.00 34.39 2.29
241 262 8.845942 TTCTGTGTGTACGTATGTATTATGTC 57.154 34.615 0.00 0.00 32.26 3.06
243 264 7.911727 TCTGTGTGTACGTATGTATTATGTCAC 59.088 37.037 0.00 1.76 33.32 3.67
244 265 7.764331 TGTGTGTACGTATGTATTATGTCACT 58.236 34.615 0.00 0.00 33.57 3.41
245 266 8.245491 TGTGTGTACGTATGTATTATGTCACTT 58.755 33.333 0.00 0.00 33.57 3.16
246 267 8.529102 GTGTGTACGTATGTATTATGTCACTTG 58.471 37.037 0.00 0.00 33.57 3.16
247 268 8.460428 TGTGTACGTATGTATTATGTCACTTGA 58.540 33.333 0.00 0.00 33.57 3.02
248 269 8.740369 GTGTACGTATGTATTATGTCACTTGAC 58.260 37.037 0.00 2.19 37.97 3.18
249 270 8.680001 TGTACGTATGTATTATGTCACTTGACT 58.320 33.333 10.63 0.00 38.15 3.41
251 272 7.768240 ACGTATGTATTATGTCACTTGACTGA 58.232 34.615 10.63 0.00 44.99 3.41
252 273 7.915923 ACGTATGTATTATGTCACTTGACTGAG 59.084 37.037 10.63 0.00 44.99 3.35
253 274 8.129211 CGTATGTATTATGTCACTTGACTGAGA 58.871 37.037 10.63 0.00 44.99 3.27
254 275 9.973450 GTATGTATTATGTCACTTGACTGAGAT 57.027 33.333 10.63 0.00 44.99 2.75
256 277 9.896645 ATGTATTATGTCACTTGACTGAGATTT 57.103 29.630 10.63 0.00 44.99 2.17
257 278 9.725019 TGTATTATGTCACTTGACTGAGATTTT 57.275 29.630 10.63 0.00 44.99 1.82
258 279 9.979270 GTATTATGTCACTTGACTGAGATTTTG 57.021 33.333 10.63 0.00 44.99 2.44
259 280 8.627208 ATTATGTCACTTGACTGAGATTTTGT 57.373 30.769 10.63 0.00 44.99 2.83
260 281 6.949352 ATGTCACTTGACTGAGATTTTGTT 57.051 33.333 10.63 0.00 44.99 2.83
261 282 9.554395 TTATGTCACTTGACTGAGATTTTGTTA 57.446 29.630 10.63 0.00 44.99 2.41
262 283 7.857734 TGTCACTTGACTGAGATTTTGTTAA 57.142 32.000 10.63 0.00 44.99 2.01
264 285 7.552687 TGTCACTTGACTGAGATTTTGTTAAGT 59.447 33.333 10.63 0.00 44.99 2.24
265 286 8.064814 GTCACTTGACTGAGATTTTGTTAAGTC 58.935 37.037 1.92 0.00 38.07 3.01
266 287 7.987458 TCACTTGACTGAGATTTTGTTAAGTCT 59.013 33.333 0.00 0.00 38.07 3.24
267 288 8.279103 CACTTGACTGAGATTTTGTTAAGTCTC 58.721 37.037 0.00 0.00 43.62 3.36
270 291 5.209944 CTGAGATTTTGTTAAGTCTCGGC 57.790 43.478 6.38 0.00 45.26 5.54
271 292 4.894784 TGAGATTTTGTTAAGTCTCGGCT 58.105 39.130 0.00 0.00 45.26 5.52
272 293 4.690748 TGAGATTTTGTTAAGTCTCGGCTG 59.309 41.667 0.00 0.00 45.26 4.85
273 294 4.894784 AGATTTTGTTAAGTCTCGGCTGA 58.105 39.130 0.00 0.00 0.00 4.26
286 307 3.480342 GGCTGAGAGTCGAGACCTA 57.520 57.895 0.00 0.00 0.00 3.08
288 309 0.661020 GCTGAGAGTCGAGACCTAGC 59.339 60.000 0.00 1.99 0.00 3.42
292 313 2.438392 TGAGAGTCGAGACCTAGCCATA 59.562 50.000 0.00 0.00 0.00 2.74
293 314 2.809696 GAGAGTCGAGACCTAGCCATAC 59.190 54.545 0.00 0.00 0.00 2.39
294 315 1.881324 GAGTCGAGACCTAGCCATACC 59.119 57.143 0.00 0.00 0.00 2.73
296 317 0.851469 TCGAGACCTAGCCATACCCT 59.149 55.000 0.00 0.00 0.00 4.34
297 318 2.060275 TCGAGACCTAGCCATACCCTA 58.940 52.381 0.00 0.00 0.00 3.53
298 319 2.444388 TCGAGACCTAGCCATACCCTAA 59.556 50.000 0.00 0.00 0.00 2.69
299 320 3.075582 TCGAGACCTAGCCATACCCTAAT 59.924 47.826 0.00 0.00 0.00 1.73
303 324 4.094476 GACCTAGCCATACCCTAATGCTA 58.906 47.826 0.00 0.00 0.00 3.49
304 325 4.499472 ACCTAGCCATACCCTAATGCTAA 58.501 43.478 0.00 0.00 0.00 3.09
306 327 4.286032 CCTAGCCATACCCTAATGCTAACA 59.714 45.833 0.00 0.00 0.00 2.41
309 330 4.166144 AGCCATACCCTAATGCTAACAAGT 59.834 41.667 0.00 0.00 0.00 3.16
511 847 6.520792 AAAACTACTACGTGCAGTTAACTG 57.479 37.500 27.85 27.85 46.40 3.16
512 848 5.443185 AACTACTACGTGCAGTTAACTGA 57.557 39.130 34.43 18.81 46.59 3.41
514 850 2.658285 ACTACGTGCAGTTAACTGACG 58.342 47.619 33.91 33.91 46.59 4.35
520 856 0.447801 GCAGTTAACTGACGGGCATG 59.552 55.000 34.43 10.16 46.59 4.06
527 863 0.966875 ACTGACGGGCATGGTACGTA 60.967 55.000 0.00 0.00 41.40 3.57
569 926 0.673985 TGACCGTGAAGACCAGAGTG 59.326 55.000 0.00 0.00 0.00 3.51
570 927 0.038159 GACCGTGAAGACCAGAGTGG 60.038 60.000 0.00 0.00 45.02 4.00
571 928 1.374758 CCGTGAAGACCAGAGTGGC 60.375 63.158 0.00 0.00 42.67 5.01
572 929 1.374758 CGTGAAGACCAGAGTGGCC 60.375 63.158 0.00 0.00 42.67 5.36
573 930 1.374758 GTGAAGACCAGAGTGGCCG 60.375 63.158 0.00 0.00 42.67 6.13
654 1020 3.807538 CCGCATGTGCCAGACAGC 61.808 66.667 0.00 0.00 38.23 4.40
710 1076 1.143183 CCGACCCGGTCCATTACTG 59.857 63.158 12.16 0.00 42.73 2.74
786 1168 3.706373 CCACCCGTCCCTGTCCTG 61.706 72.222 0.00 0.00 0.00 3.86
940 1343 1.530013 AACCACACGCTACGCTACCT 61.530 55.000 0.00 0.00 0.00 3.08
941 1344 1.226603 CCACACGCTACGCTACCTC 60.227 63.158 0.00 0.00 0.00 3.85
942 1345 1.226603 CACACGCTACGCTACCTCC 60.227 63.158 0.00 0.00 0.00 4.30
943 1346 2.024305 CACGCTACGCTACCTCCG 59.976 66.667 0.00 0.00 0.00 4.63
944 1347 2.437359 ACGCTACGCTACCTCCGT 60.437 61.111 0.00 0.00 42.26 4.69
945 1348 2.327244 CGCTACGCTACCTCCGTC 59.673 66.667 0.00 0.00 39.88 4.79
946 1349 2.178890 CGCTACGCTACCTCCGTCT 61.179 63.158 0.00 0.00 39.88 4.18
947 1350 1.648174 GCTACGCTACCTCCGTCTC 59.352 63.158 0.00 0.00 39.88 3.36
948 1351 1.784036 GCTACGCTACCTCCGTCTCC 61.784 65.000 0.00 0.00 39.88 3.71
949 1352 0.463295 CTACGCTACCTCCGTCTCCA 60.463 60.000 0.00 0.00 39.88 3.86
950 1353 0.182061 TACGCTACCTCCGTCTCCAT 59.818 55.000 0.00 0.00 39.88 3.41
951 1354 1.102222 ACGCTACCTCCGTCTCCATC 61.102 60.000 0.00 0.00 32.83 3.51
952 1355 1.797211 CGCTACCTCCGTCTCCATCC 61.797 65.000 0.00 0.00 0.00 3.51
953 1356 0.755698 GCTACCTCCGTCTCCATCCA 60.756 60.000 0.00 0.00 0.00 3.41
954 1357 1.776662 CTACCTCCGTCTCCATCCAA 58.223 55.000 0.00 0.00 0.00 3.53
955 1358 1.409427 CTACCTCCGTCTCCATCCAAC 59.591 57.143 0.00 0.00 0.00 3.77
956 1359 1.265454 ACCTCCGTCTCCATCCAACC 61.265 60.000 0.00 0.00 0.00 3.77
957 1360 1.264749 CCTCCGTCTCCATCCAACCA 61.265 60.000 0.00 0.00 0.00 3.67
958 1361 0.833287 CTCCGTCTCCATCCAACCAT 59.167 55.000 0.00 0.00 0.00 3.55
959 1362 0.830648 TCCGTCTCCATCCAACCATC 59.169 55.000 0.00 0.00 0.00 3.51
979 1382 1.373497 AAGCCTCACGCACTTCTCG 60.373 57.895 0.00 0.00 41.38 4.04
985 1388 2.128035 CTCACGCACTTCTCGTTTTCT 58.872 47.619 0.00 0.00 38.19 2.52
986 1389 2.540101 CTCACGCACTTCTCGTTTTCTT 59.460 45.455 0.00 0.00 38.19 2.52
987 1390 2.538449 TCACGCACTTCTCGTTTTCTTC 59.462 45.455 0.00 0.00 38.19 2.87
988 1391 2.284150 CACGCACTTCTCGTTTTCTTCA 59.716 45.455 0.00 0.00 38.19 3.02
989 1392 3.059597 CACGCACTTCTCGTTTTCTTCAT 60.060 43.478 0.00 0.00 38.19 2.57
990 1393 3.184581 ACGCACTTCTCGTTTTCTTCATC 59.815 43.478 0.00 0.00 36.72 2.92
992 1395 3.498397 GCACTTCTCGTTTTCTTCATCCA 59.502 43.478 0.00 0.00 0.00 3.41
996 1436 4.551702 TCTCGTTTTCTTCATCCATCCA 57.448 40.909 0.00 0.00 0.00 3.41
1017 1457 0.316522 CCATGGAGATCATCGACGCT 59.683 55.000 5.56 0.00 32.92 5.07
1092 1541 3.281395 TCGTCGTCGACAGTGGCA 61.281 61.111 24.13 0.00 41.35 4.92
1093 1542 3.097728 CGTCGTCGACAGTGGCAC 61.098 66.667 24.13 10.29 39.71 5.01
1094 1543 2.335369 GTCGTCGACAGTGGCACT 59.665 61.111 20.28 15.88 32.09 4.40
1095 1544 1.729838 GTCGTCGACAGTGGCACTC 60.730 63.158 19.13 7.02 32.09 3.51
1195 1654 2.224606 GCATATAGCATGTGCACTGGT 58.775 47.619 19.41 19.59 45.37 4.00
1197 1656 3.549423 GCATATAGCATGTGCACTGGTTG 60.549 47.826 19.41 14.10 45.37 3.77
1198 1657 2.495155 ATAGCATGTGCACTGGTTGA 57.505 45.000 19.41 6.00 45.16 3.18
1199 1658 1.812235 TAGCATGTGCACTGGTTGAG 58.188 50.000 19.41 1.22 45.16 3.02
1200 1659 1.080974 GCATGTGCACTGGTTGAGC 60.081 57.895 19.41 7.56 41.59 4.26
1201 1660 1.798234 GCATGTGCACTGGTTGAGCA 61.798 55.000 19.41 0.00 39.83 4.26
1223 1697 5.654497 CAGGAGCTAATGGAATTTTTGGTC 58.346 41.667 0.00 0.00 37.87 4.02
1326 1805 0.462225 GGCGAAGGAGAGTAAAGGCC 60.462 60.000 0.00 0.00 0.00 5.19
1328 1807 1.196012 CGAAGGAGAGTAAAGGCCCT 58.804 55.000 0.00 0.00 0.00 5.19
1350 1829 3.680920 GAGGCCGGGAAGAGAGGGA 62.681 68.421 2.18 0.00 0.00 4.20
1478 1957 1.616091 GCTGCTTCTCCTCCTGCTCT 61.616 60.000 0.00 0.00 0.00 4.09
1573 2058 0.840617 TGGGAGTAAGCACACCAACA 59.159 50.000 0.00 0.00 37.16 3.33
1574 2059 1.235724 GGGAGTAAGCACACCAACAC 58.764 55.000 0.00 0.00 37.16 3.32
1578 2067 0.666374 GTAAGCACACCAACACCCAC 59.334 55.000 0.00 0.00 0.00 4.61
1606 2095 0.952010 GCATACCAACCGACCAACGT 60.952 55.000 0.00 0.00 40.78 3.99
1628 2117 3.767131 TCGATCTTTGGTGTGGATCTACA 59.233 43.478 7.97 7.97 35.18 2.74
1633 2122 4.469586 TCTTTGGTGTGGATCTACATGCTA 59.530 41.667 15.51 0.00 32.43 3.49
1639 2140 5.011125 GGTGTGGATCTACATGCTACACTAT 59.989 44.000 15.51 0.00 35.10 2.12
1661 2162 6.696441 ATAACCTGAGTCTAACTAACGAGG 57.304 41.667 0.00 0.00 0.00 4.63
1662 2163 4.031636 ACCTGAGTCTAACTAACGAGGT 57.968 45.455 0.00 0.00 32.60 3.85
1663 2164 4.405548 ACCTGAGTCTAACTAACGAGGTT 58.594 43.478 0.00 0.00 33.23 3.50
1670 2171 6.343703 AGTCTAACTAACGAGGTTGTTGTTT 58.656 36.000 0.00 0.00 34.33 2.83
1746 2247 2.145958 CTCCGAAGCACGATGATGAT 57.854 50.000 4.96 0.00 45.77 2.45
1749 2250 1.524355 CCGAAGCACGATGATGATGAC 59.476 52.381 4.96 0.00 45.77 3.06
1774 2283 0.732880 AAAGGACACGATCGAGCACG 60.733 55.000 24.34 6.89 41.26 5.34
1809 2318 2.299582 AGCGATCTGGAGATGATGGAAG 59.700 50.000 0.00 0.00 34.37 3.46
1810 2319 2.298446 GCGATCTGGAGATGATGGAAGA 59.702 50.000 0.00 0.00 34.37 2.87
1811 2320 3.614630 GCGATCTGGAGATGATGGAAGAG 60.615 52.174 0.00 0.00 34.37 2.85
1844 2353 1.478105 CATGATGAGGAGACGGACACA 59.522 52.381 0.00 0.00 0.00 3.72
1845 2354 0.888619 TGATGAGGAGACGGACACAC 59.111 55.000 0.00 0.00 0.00 3.82
1846 2355 0.888619 GATGAGGAGACGGACACACA 59.111 55.000 0.00 0.00 0.00 3.72
1847 2356 0.891373 ATGAGGAGACGGACACACAG 59.109 55.000 0.00 0.00 0.00 3.66
1885 2398 0.256752 TGATCAGGCCATGGGTGAAG 59.743 55.000 15.13 0.00 0.00 3.02
1938 2483 0.391130 TGGCATGCCAAGTACTCGAC 60.391 55.000 36.95 6.06 44.12 4.20
2028 2574 4.598894 CGGATCGGCCTGGAGCAG 62.599 72.222 0.00 0.00 46.50 4.24
2029 2575 3.474570 GGATCGGCCTGGAGCAGT 61.475 66.667 0.00 0.00 46.50 4.40
2030 2576 2.134287 GGATCGGCCTGGAGCAGTA 61.134 63.158 0.00 0.00 46.50 2.74
2035 2609 2.664081 GGCCTGGAGCAGTAGCAGT 61.664 63.158 0.00 0.00 46.50 4.40
2157 2752 9.199982 TGTGTAGATGCTTAGTTTGTAGTTAAC 57.800 33.333 0.00 0.00 0.00 2.01
2181 2776 0.245539 TCTTTTGTACCGCCGAGGAG 59.754 55.000 3.89 0.00 45.00 3.69
2206 2801 2.864343 GGACACGGATCGTAAAATGAGG 59.136 50.000 0.00 0.00 38.32 3.86
2207 2802 2.277084 ACACGGATCGTAAAATGAGGC 58.723 47.619 0.00 0.00 38.32 4.70
2213 2808 3.804873 GGATCGTAAAATGAGGCTGAGAC 59.195 47.826 0.00 0.00 0.00 3.36
2246 2841 6.590656 AATTTGGTGGTCTATTCATCCCTA 57.409 37.500 0.00 0.00 0.00 3.53
2247 2842 5.367945 TTTGGTGGTCTATTCATCCCTAC 57.632 43.478 0.00 0.00 0.00 3.18
2264 2863 6.867519 TCCCTACAAGATGAGTACATTTGA 57.132 37.500 0.00 0.00 36.82 2.69
2266 2865 7.500992 TCCCTACAAGATGAGTACATTTGATC 58.499 38.462 0.00 0.00 36.82 2.92
2288 2894 0.616891 TGTCTGCTGATGATGGCACT 59.383 50.000 0.00 0.00 34.57 4.40
2302 2908 1.893137 TGGCACTAGTCATGTCGAACT 59.107 47.619 0.00 0.00 0.00 3.01
2303 2909 2.263077 GGCACTAGTCATGTCGAACTG 58.737 52.381 0.00 0.00 0.00 3.16
2304 2910 2.263077 GCACTAGTCATGTCGAACTGG 58.737 52.381 0.00 0.00 0.00 4.00
2363 2974 0.456312 ACGTCCGATCAAGAAGCGAC 60.456 55.000 0.00 0.00 0.00 5.19
2381 2992 5.597806 AGCGACGTTTCATCATATTCCTTA 58.402 37.500 0.00 0.00 0.00 2.69
2409 3030 2.788640 CGCCATTGCCATTCCCCTG 61.789 63.158 0.00 0.00 0.00 4.45
2429 3058 1.075536 GGCTTTTCCCTTCTCCTTCCA 59.924 52.381 0.00 0.00 0.00 3.53
2436 3065 2.045885 TCCCTTCTCCTTCCATACCACT 59.954 50.000 0.00 0.00 0.00 4.00
2437 3066 2.171448 CCCTTCTCCTTCCATACCACTG 59.829 54.545 0.00 0.00 0.00 3.66
2438 3067 2.840651 CCTTCTCCTTCCATACCACTGT 59.159 50.000 0.00 0.00 0.00 3.55
2439 3068 4.030913 CCTTCTCCTTCCATACCACTGTA 58.969 47.826 0.00 0.00 0.00 2.74
2440 3069 4.141914 CCTTCTCCTTCCATACCACTGTAC 60.142 50.000 0.00 0.00 0.00 2.90
2441 3070 3.371965 TCTCCTTCCATACCACTGTACC 58.628 50.000 0.00 0.00 0.00 3.34
2442 3071 2.434702 CTCCTTCCATACCACTGTACCC 59.565 54.545 0.00 0.00 0.00 3.69
2443 3072 1.138266 CCTTCCATACCACTGTACCCG 59.862 57.143 0.00 0.00 0.00 5.28
2516 3145 6.481313 ACATAAACCACATCGATCTGAATGAG 59.519 38.462 1.81 0.00 0.00 2.90
2532 3161 8.868522 TCTGAATGAGATCAAACCTAAACATT 57.131 30.769 0.00 0.00 0.00 2.71
2549 3178 3.623703 ACATTCATATCAGCACCAGCAA 58.376 40.909 0.00 0.00 45.49 3.91
2570 3200 1.710013 GACGACGATTTCTGCCAAGA 58.290 50.000 0.00 0.00 0.00 3.02
2593 3231 7.520686 AGACGACTCGTTTTTCTTTTGTTTTA 58.479 30.769 5.37 0.00 41.37 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
75 76 1.202348 CCATACACAGAGACGCACAGA 59.798 52.381 0.00 0.00 0.00 3.41
79 80 0.108662 CAGCCATACACAGAGACGCA 60.109 55.000 0.00 0.00 0.00 5.24
81 82 0.174389 AGCAGCCATACACAGAGACG 59.826 55.000 0.00 0.00 0.00 4.18
82 83 1.205655 TGAGCAGCCATACACAGAGAC 59.794 52.381 0.00 0.00 0.00 3.36
83 84 1.205655 GTGAGCAGCCATACACAGAGA 59.794 52.381 0.00 0.00 34.05 3.10
84 85 1.066645 TGTGAGCAGCCATACACAGAG 60.067 52.381 7.81 0.00 38.14 3.35
131 151 2.438434 CACGGTCCAATCCTGCCC 60.438 66.667 0.00 0.00 0.00 5.36
132 152 3.134127 GCACGGTCCAATCCTGCC 61.134 66.667 0.00 0.00 0.00 4.85
133 153 2.045926 AGCACGGTCCAATCCTGC 60.046 61.111 0.00 0.00 34.38 4.85
134 154 0.460987 GAGAGCACGGTCCAATCCTG 60.461 60.000 0.00 0.00 0.00 3.86
135 155 1.901085 GAGAGCACGGTCCAATCCT 59.099 57.895 0.00 0.00 0.00 3.24
136 156 1.519455 CGAGAGCACGGTCCAATCC 60.519 63.158 0.00 0.00 0.00 3.01
137 157 4.094684 CGAGAGCACGGTCCAATC 57.905 61.111 0.00 0.00 0.00 2.67
149 169 1.154836 GCAAACGACAACGCGAGAG 60.155 57.895 15.93 4.09 43.96 3.20
150 170 1.149361 AAGCAAACGACAACGCGAGA 61.149 50.000 15.93 0.00 43.96 4.04
163 183 1.879380 CTTGTGACCCGATGAAGCAAA 59.121 47.619 0.00 0.00 0.00 3.68
208 229 2.259618 CGTACACACAGAAGATTCCGG 58.740 52.381 0.00 0.00 0.00 5.14
209 230 2.942710 ACGTACACACAGAAGATTCCG 58.057 47.619 0.00 0.00 0.00 4.30
215 236 8.851960 ACATAATACATACGTACACACAGAAG 57.148 34.615 0.00 0.00 0.00 2.85
216 237 8.460428 TGACATAATACATACGTACACACAGAA 58.540 33.333 0.00 0.00 0.00 3.02
217 238 7.911727 GTGACATAATACATACGTACACACAGA 59.088 37.037 0.00 0.00 0.00 3.41
218 239 7.913821 AGTGACATAATACATACGTACACACAG 59.086 37.037 0.00 0.00 0.00 3.66
219 240 7.764331 AGTGACATAATACATACGTACACACA 58.236 34.615 0.00 0.00 0.00 3.72
220 241 8.529102 CAAGTGACATAATACATACGTACACAC 58.471 37.037 0.00 0.00 0.00 3.82
222 243 8.740369 GTCAAGTGACATAATACATACGTACAC 58.260 37.037 6.57 0.00 44.18 2.90
223 244 8.845942 GTCAAGTGACATAATACATACGTACA 57.154 34.615 6.57 0.00 44.18 2.90
239 260 7.920738 ACTTAACAAAATCTCAGTCAAGTGAC 58.079 34.615 3.12 3.12 45.08 3.67
240 261 7.987458 AGACTTAACAAAATCTCAGTCAAGTGA 59.013 33.333 0.00 0.00 34.33 3.41
241 262 8.147642 AGACTTAACAAAATCTCAGTCAAGTG 57.852 34.615 0.00 0.00 34.33 3.16
243 264 7.359598 CCGAGACTTAACAAAATCTCAGTCAAG 60.360 40.741 0.00 0.00 37.97 3.02
244 265 6.423905 CCGAGACTTAACAAAATCTCAGTCAA 59.576 38.462 0.00 0.00 37.97 3.18
245 266 5.926542 CCGAGACTTAACAAAATCTCAGTCA 59.073 40.000 0.00 0.00 37.97 3.41
246 267 5.163943 GCCGAGACTTAACAAAATCTCAGTC 60.164 44.000 0.00 0.00 37.97 3.51
247 268 4.691216 GCCGAGACTTAACAAAATCTCAGT 59.309 41.667 0.00 0.00 37.97 3.41
248 269 4.932200 AGCCGAGACTTAACAAAATCTCAG 59.068 41.667 0.00 0.00 37.97 3.35
249 270 4.690748 CAGCCGAGACTTAACAAAATCTCA 59.309 41.667 0.00 0.00 37.97 3.27
251 272 4.894784 TCAGCCGAGACTTAACAAAATCT 58.105 39.130 0.00 0.00 0.00 2.40
252 273 4.929808 TCTCAGCCGAGACTTAACAAAATC 59.070 41.667 0.00 0.00 43.55 2.17
253 274 4.894784 TCTCAGCCGAGACTTAACAAAAT 58.105 39.130 0.00 0.00 43.55 1.82
254 275 4.202223 ACTCTCAGCCGAGACTTAACAAAA 60.202 41.667 0.00 0.00 43.55 2.44
255 276 3.321111 ACTCTCAGCCGAGACTTAACAAA 59.679 43.478 0.00 0.00 43.55 2.83
256 277 2.891580 ACTCTCAGCCGAGACTTAACAA 59.108 45.455 0.00 0.00 43.55 2.83
257 278 2.488545 GACTCTCAGCCGAGACTTAACA 59.511 50.000 0.00 0.00 43.55 2.41
258 279 2.476519 CGACTCTCAGCCGAGACTTAAC 60.477 54.545 0.00 0.00 43.55 2.01
259 280 1.738350 CGACTCTCAGCCGAGACTTAA 59.262 52.381 0.00 0.00 43.55 1.85
260 281 1.066358 TCGACTCTCAGCCGAGACTTA 60.066 52.381 0.00 0.00 43.55 2.24
261 282 0.321741 TCGACTCTCAGCCGAGACTT 60.322 55.000 0.00 0.00 43.55 3.01
262 283 1.297039 TCGACTCTCAGCCGAGACT 59.703 57.895 0.00 0.00 43.55 3.24
266 287 1.745864 GGTCTCGACTCTCAGCCGA 60.746 63.158 0.00 0.00 0.00 5.54
267 288 0.462225 TAGGTCTCGACTCTCAGCCG 60.462 60.000 0.00 0.00 0.00 5.52
270 291 1.305201 GGCTAGGTCTCGACTCTCAG 58.695 60.000 0.00 0.00 0.00 3.35
271 292 0.618981 TGGCTAGGTCTCGACTCTCA 59.381 55.000 0.00 0.00 0.00 3.27
272 293 1.975660 ATGGCTAGGTCTCGACTCTC 58.024 55.000 0.00 0.00 0.00 3.20
273 294 2.487625 GGTATGGCTAGGTCTCGACTCT 60.488 54.545 0.00 0.00 0.00 3.24
275 296 1.479021 GGGTATGGCTAGGTCTCGACT 60.479 57.143 0.00 0.00 0.00 4.18
276 297 0.960286 GGGTATGGCTAGGTCTCGAC 59.040 60.000 0.00 0.00 0.00 4.20
278 299 2.581216 TAGGGTATGGCTAGGTCTCG 57.419 55.000 0.00 0.00 0.00 4.04
279 300 3.055747 GCATTAGGGTATGGCTAGGTCTC 60.056 52.174 0.00 0.00 0.00 3.36
280 301 2.907042 GCATTAGGGTATGGCTAGGTCT 59.093 50.000 0.00 0.00 0.00 3.85
281 302 2.907042 AGCATTAGGGTATGGCTAGGTC 59.093 50.000 0.00 0.00 0.00 3.85
282 303 2.991580 AGCATTAGGGTATGGCTAGGT 58.008 47.619 0.00 0.00 0.00 3.08
284 305 5.483685 TGTTAGCATTAGGGTATGGCTAG 57.516 43.478 0.00 0.00 0.00 3.42
286 307 4.166144 ACTTGTTAGCATTAGGGTATGGCT 59.834 41.667 0.00 0.00 0.00 4.75
288 309 8.567948 CATTAACTTGTTAGCATTAGGGTATGG 58.432 37.037 0.00 0.00 0.00 2.74
292 313 6.946009 ACACATTAACTTGTTAGCATTAGGGT 59.054 34.615 0.00 0.00 0.00 4.34
293 314 7.336931 AGACACATTAACTTGTTAGCATTAGGG 59.663 37.037 0.00 0.00 0.00 3.53
294 315 8.268850 AGACACATTAACTTGTTAGCATTAGG 57.731 34.615 0.00 0.00 0.00 2.69
296 317 9.938280 AGTAGACACATTAACTTGTTAGCATTA 57.062 29.630 0.00 0.00 0.00 1.90
297 318 8.848474 AGTAGACACATTAACTTGTTAGCATT 57.152 30.769 0.00 0.00 0.00 3.56
324 402 3.498082 CGCACGCTGCATGTATACTATA 58.502 45.455 4.17 0.00 45.36 1.31
325 403 2.328473 CGCACGCTGCATGTATACTAT 58.672 47.619 4.17 0.00 45.36 2.12
326 404 1.766069 CGCACGCTGCATGTATACTA 58.234 50.000 4.17 0.00 45.36 1.82
328 406 1.083401 GCGCACGCTGCATGTATAC 60.083 57.895 7.96 0.00 45.36 1.47
329 407 2.584967 CGCGCACGCTGCATGTATA 61.585 57.895 13.70 0.00 45.36 1.47
330 408 3.928769 CGCGCACGCTGCATGTAT 61.929 61.111 13.70 0.00 45.36 2.29
433 692 6.429151 GGTTACCCAGGTAAAATAAGGTGAT 58.571 40.000 10.82 0.00 41.51 3.06
498 833 1.897398 GCCCGTCAGTTAACTGCACG 61.897 60.000 31.58 31.58 43.46 5.34
501 837 0.447801 CATGCCCGTCAGTTAACTGC 59.552 55.000 27.49 20.92 43.46 4.40
511 847 1.587088 CGTACGTACCATGCCCGTC 60.587 63.158 19.67 0.00 36.12 4.79
512 848 1.029408 TACGTACGTACCATGCCCGT 61.029 55.000 23.60 14.12 38.53 5.28
514 850 0.592247 CGTACGTACGTACCATGCCC 60.592 60.000 38.76 21.43 45.80 5.36
527 863 1.310933 ATGTCGCCCTCTTCGTACGT 61.311 55.000 16.05 0.00 0.00 3.57
534 870 0.745845 GTCATGCATGTCGCCCTCTT 60.746 55.000 25.43 0.00 41.33 2.85
539 875 2.819595 ACGGTCATGCATGTCGCC 60.820 61.111 29.87 25.07 41.33 5.54
541 877 0.371301 CTTCACGGTCATGCATGTCG 59.629 55.000 29.00 29.00 0.00 4.35
775 1157 4.459089 GCTCGCCAGGACAGGGAC 62.459 72.222 0.00 0.00 0.00 4.46
786 1168 4.724602 TGCTCTCACACGCTCGCC 62.725 66.667 0.00 0.00 0.00 5.54
940 1343 0.830648 GATGGTTGGATGGAGACGGA 59.169 55.000 0.00 0.00 0.00 4.69
941 1344 0.179045 GGATGGTTGGATGGAGACGG 60.179 60.000 0.00 0.00 0.00 4.79
942 1345 0.541392 TGGATGGTTGGATGGAGACG 59.459 55.000 0.00 0.00 0.00 4.18
943 1346 2.648059 CTTGGATGGTTGGATGGAGAC 58.352 52.381 0.00 0.00 0.00 3.36
944 1347 1.064463 GCTTGGATGGTTGGATGGAGA 60.064 52.381 0.00 0.00 0.00 3.71
945 1348 1.396653 GCTTGGATGGTTGGATGGAG 58.603 55.000 0.00 0.00 0.00 3.86
946 1349 0.033208 GGCTTGGATGGTTGGATGGA 60.033 55.000 0.00 0.00 0.00 3.41
947 1350 0.032813 AGGCTTGGATGGTTGGATGG 60.033 55.000 0.00 0.00 0.00 3.51
948 1351 1.341285 TGAGGCTTGGATGGTTGGATG 60.341 52.381 0.00 0.00 0.00 3.51
949 1352 1.002069 TGAGGCTTGGATGGTTGGAT 58.998 50.000 0.00 0.00 0.00 3.41
950 1353 0.038166 GTGAGGCTTGGATGGTTGGA 59.962 55.000 0.00 0.00 0.00 3.53
951 1354 1.308069 CGTGAGGCTTGGATGGTTGG 61.308 60.000 0.00 0.00 0.00 3.77
952 1355 1.926511 GCGTGAGGCTTGGATGGTTG 61.927 60.000 0.00 0.00 39.11 3.77
953 1356 1.675641 GCGTGAGGCTTGGATGGTT 60.676 57.895 0.00 0.00 39.11 3.67
954 1357 2.045926 GCGTGAGGCTTGGATGGT 60.046 61.111 0.00 0.00 39.11 3.55
955 1358 2.046023 TGCGTGAGGCTTGGATGG 60.046 61.111 0.00 0.00 44.05 3.51
956 1359 0.957395 AAGTGCGTGAGGCTTGGATG 60.957 55.000 0.00 0.00 44.05 3.51
957 1360 0.674895 GAAGTGCGTGAGGCTTGGAT 60.675 55.000 0.00 0.00 44.05 3.41
958 1361 1.301716 GAAGTGCGTGAGGCTTGGA 60.302 57.895 0.00 0.00 44.05 3.53
959 1362 1.294659 GAGAAGTGCGTGAGGCTTGG 61.295 60.000 0.00 0.00 44.05 3.61
979 1382 5.839621 CATGGATGGATGGATGAAGAAAAC 58.160 41.667 0.00 0.00 0.00 2.43
996 1436 1.067283 GCGTCGATGATCTCCATGGAT 60.067 52.381 16.63 0.00 41.10 3.41
1058 1504 2.279918 ACCGTTTCTTCTGCGCGT 60.280 55.556 8.43 0.00 0.00 6.01
1146 1595 3.195698 GCCGGCGCTTACTTGGAG 61.196 66.667 12.58 0.00 0.00 3.86
1186 1645 1.227943 TCCTGCTCAACCAGTGCAC 60.228 57.895 9.40 9.40 41.43 4.57
1199 1658 4.081476 ACCAAAAATTCCATTAGCTCCTGC 60.081 41.667 0.00 0.00 40.05 4.85
1200 1659 5.420104 AGACCAAAAATTCCATTAGCTCCTG 59.580 40.000 0.00 0.00 0.00 3.86
1201 1660 5.420104 CAGACCAAAAATTCCATTAGCTCCT 59.580 40.000 0.00 0.00 0.00 3.69
1326 1805 3.474570 CTTCCCGGCCTCTCCAGG 61.475 72.222 0.00 0.00 43.82 4.45
1328 1807 2.364317 CTCTTCCCGGCCTCTCCA 60.364 66.667 0.00 0.00 34.01 3.86
1350 1829 0.603569 CTCACCTTCACGTACAGCCT 59.396 55.000 0.00 0.00 0.00 4.58
1573 2058 4.054359 TGGTATGCAAATTAAGGTGGGT 57.946 40.909 0.00 0.00 0.00 4.51
1574 2059 4.382577 GGTTGGTATGCAAATTAAGGTGGG 60.383 45.833 0.00 0.00 0.00 4.61
1578 2067 4.439563 GGTCGGTTGGTATGCAAATTAAGG 60.440 45.833 0.00 0.00 0.00 2.69
1606 2095 3.767131 TGTAGATCCACACCAAAGATCGA 59.233 43.478 0.00 0.00 41.06 3.59
1628 2117 7.780745 AGTTAGACTCAGGTTATAGTGTAGCAT 59.219 37.037 0.00 0.00 28.95 3.79
1633 2122 7.826252 TCGTTAGTTAGACTCAGGTTATAGTGT 59.174 37.037 0.00 0.00 0.00 3.55
1639 2140 5.564550 ACCTCGTTAGTTAGACTCAGGTTA 58.435 41.667 0.00 0.00 28.05 2.85
1661 2162 3.179048 GCAGAACCAGACAAACAACAAC 58.821 45.455 0.00 0.00 0.00 3.32
1662 2163 2.822561 TGCAGAACCAGACAAACAACAA 59.177 40.909 0.00 0.00 0.00 2.83
1663 2164 2.423185 CTGCAGAACCAGACAAACAACA 59.577 45.455 8.42 0.00 34.77 3.33
1670 2171 0.109153 ACATGCTGCAGAACCAGACA 59.891 50.000 20.43 3.86 34.77 3.41
1746 2247 0.381445 TCGTGTCCTTTTCGTCGTCA 59.619 50.000 0.00 0.00 0.00 4.35
1749 2250 0.633733 CGATCGTGTCCTTTTCGTCG 59.366 55.000 7.03 0.00 0.00 5.12
1774 2283 4.092529 CCAGATCGCTTCATGTATGTATGC 59.907 45.833 0.00 0.00 0.00 3.14
1845 2354 4.552365 ATCCGGCCCATGCGTCTG 62.552 66.667 0.00 0.00 38.85 3.51
1846 2355 4.552365 CATCCGGCCCATGCGTCT 62.552 66.667 0.00 0.00 38.85 4.18
1859 2372 0.888619 CATGGCCTGATCATGCATCC 59.111 55.000 22.20 7.81 36.09 3.51
1926 2471 2.758979 AGTACATGGGTCGAGTACTTGG 59.241 50.000 10.33 0.00 44.27 3.61
1927 2472 3.487042 CGAGTACATGGGTCGAGTACTTG 60.487 52.174 13.68 12.95 46.01 3.16
2013 2559 1.365633 CTACTGCTCCAGGCCGATC 59.634 63.158 0.00 0.00 40.92 3.69
2014 2560 2.801631 GCTACTGCTCCAGGCCGAT 61.802 63.158 0.00 0.00 40.92 4.18
2015 2561 3.461773 GCTACTGCTCCAGGCCGA 61.462 66.667 0.00 0.00 40.92 5.54
2016 2562 3.729965 CTGCTACTGCTCCAGGCCG 62.730 68.421 0.00 0.00 40.92 6.13
2017 2563 1.330655 TACTGCTACTGCTCCAGGCC 61.331 60.000 0.00 0.00 40.92 5.19
2018 2564 0.103937 CTACTGCTACTGCTCCAGGC 59.896 60.000 0.00 0.00 40.48 4.85
2019 2565 0.103937 GCTACTGCTACTGCTCCAGG 59.896 60.000 0.00 0.00 40.48 4.45
2020 2566 0.248825 CGCTACTGCTACTGCTCCAG 60.249 60.000 0.00 0.00 40.48 3.86
2021 2567 1.667154 CCGCTACTGCTACTGCTCCA 61.667 60.000 0.00 0.00 40.48 3.86
2022 2568 1.066587 CCGCTACTGCTACTGCTCC 59.933 63.158 0.00 0.00 40.48 4.70
2023 2569 1.022735 TACCGCTACTGCTACTGCTC 58.977 55.000 0.00 0.00 40.48 4.26
2024 2570 0.739561 GTACCGCTACTGCTACTGCT 59.260 55.000 0.00 0.00 40.48 4.24
2025 2571 0.739561 AGTACCGCTACTGCTACTGC 59.260 55.000 0.00 0.00 31.63 4.40
2026 2572 2.476873 CAGTACCGCTACTGCTACTG 57.523 55.000 5.00 0.00 42.71 2.74
2035 2609 4.947645 AGTACAACAAAACAGTACCGCTA 58.052 39.130 0.00 0.00 39.04 4.26
2157 2752 2.864343 CTCGGCGGTACAAAAGATTAGG 59.136 50.000 7.21 0.00 0.00 2.69
2181 2776 0.108520 TTTACGATCCGTGTCCCAGC 60.109 55.000 1.93 0.00 41.39 4.85
2206 2801 4.979388 CAAATTTGGAGCTTAGTCTCAGC 58.021 43.478 10.49 0.00 37.56 4.26
2246 2841 7.164122 ACACAGATCAAATGTACTCATCTTGT 58.836 34.615 0.00 0.38 32.56 3.16
2247 2842 7.548427 AGACACAGATCAAATGTACTCATCTTG 59.452 37.037 0.00 0.00 32.56 3.02
2264 2863 2.745482 GCCATCATCAGCAGACACAGAT 60.745 50.000 0.00 0.00 0.00 2.90
2266 2865 1.015109 GCCATCATCAGCAGACACAG 58.985 55.000 0.00 0.00 0.00 3.66
2288 2894 2.244695 ACCACCAGTTCGACATGACTA 58.755 47.619 0.00 0.00 0.00 2.59
2302 2908 2.824880 GCCACCACCACTACCACCA 61.825 63.158 0.00 0.00 0.00 4.17
2303 2909 2.033602 GCCACCACCACTACCACC 59.966 66.667 0.00 0.00 0.00 4.61
2304 2910 2.358247 CGCCACCACCACTACCAC 60.358 66.667 0.00 0.00 0.00 4.16
2363 2974 5.470098 CAGGGGTAAGGAATATGATGAAACG 59.530 44.000 0.00 0.00 0.00 3.60
2409 3030 1.075536 TGGAAGGAGAAGGGAAAAGCC 59.924 52.381 0.00 0.00 0.00 4.35
2429 3058 2.105766 GGAGAACGGGTACAGTGGTAT 58.894 52.381 0.00 0.00 36.50 2.73
2436 3065 1.076677 AGAGAAGGGAGAACGGGTACA 59.923 52.381 0.00 0.00 0.00 2.90
2437 3066 1.849977 AGAGAAGGGAGAACGGGTAC 58.150 55.000 0.00 0.00 0.00 3.34
2438 3067 2.617840 AAGAGAAGGGAGAACGGGTA 57.382 50.000 0.00 0.00 0.00 3.69
2439 3068 1.730851 AAAGAGAAGGGAGAACGGGT 58.269 50.000 0.00 0.00 0.00 5.28
2440 3069 2.615747 GGAAAAGAGAAGGGAGAACGGG 60.616 54.545 0.00 0.00 0.00 5.28
2441 3070 2.303311 AGGAAAAGAGAAGGGAGAACGG 59.697 50.000 0.00 0.00 0.00 4.44
2442 3071 3.244249 ACAGGAAAAGAGAAGGGAGAACG 60.244 47.826 0.00 0.00 0.00 3.95
2443 3072 4.068599 CACAGGAAAAGAGAAGGGAGAAC 58.931 47.826 0.00 0.00 0.00 3.01
2516 3145 8.623903 TGCTGATATGAATGTTTAGGTTTGATC 58.376 33.333 0.00 0.00 0.00 2.92
2532 3161 1.206849 TCGTTGCTGGTGCTGATATGA 59.793 47.619 0.00 0.00 40.48 2.15
2537 3166 2.661537 CGTCGTTGCTGGTGCTGA 60.662 61.111 0.00 0.00 40.48 4.26
2549 3178 0.319211 TTGGCAGAAATCGTCGTCGT 60.319 50.000 1.33 0.00 38.33 4.34
2570 3200 7.076983 TGTAAAACAAAAGAAAAACGAGTCGT 58.923 30.769 13.56 13.56 43.97 4.34
2593 3231 1.584175 TGTGCGTGTTATCCGTTTGT 58.416 45.000 0.00 0.00 0.00 2.83
2648 3286 1.676529 GTATGCAGCGACTCCTCTACA 59.323 52.381 0.00 0.00 0.00 2.74
2698 3336 0.666274 ATGCTGTGTGTGACGTACGG 60.666 55.000 21.06 1.43 0.00 4.02


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

AutoCloner maintained by Alex Coulton.