Multiple sequence alignment - TraesCS1B01G322800

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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 TraesCS1B01G322800 chr1B 100.000 2426 0 0 1 2426 547698963 547701388 0.000000e+00 4481.0
1 TraesCS1B01G322800 chr1B 89.157 249 16 3 266 503 633976205 633975957 1.410000e-77 300.0
2 TraesCS1B01G322800 chr1B 77.301 163 33 3 1951 2112 470438644 470438803 2.570000e-15 93.5
3 TraesCS1B01G322800 chr1A 90.571 1400 62 26 504 1879 502841601 502842954 0.000000e+00 1790.0
4 TraesCS1B01G322800 chr1A 87.273 110 8 4 92 198 502841417 502841523 1.180000e-23 121.0
5 TraesCS1B01G322800 chr1D 94.073 1198 31 10 504 1668 407219982 407221172 0.000000e+00 1783.0
6 TraesCS1B01G322800 chr1D 88.665 644 41 8 1786 2426 407221231 407221845 0.000000e+00 756.0
7 TraesCS1B01G322800 chr1D 93.841 276 11 3 1168 1437 203955653 203955928 6.240000e-111 411.0
8 TraesCS1B01G322800 chr1D 96.186 236 4 2 866 1096 203955035 203955270 4.890000e-102 381.0
9 TraesCS1B01G322800 chr1D 92.941 255 11 6 1 254 407219694 407219942 4.930000e-97 364.0
10 TraesCS1B01G322800 chr1D 85.771 253 13 9 255 485 260313192 260312941 1.860000e-61 246.0
11 TraesCS1B01G322800 chr5D 93.916 263 13 1 1178 1437 446160810 446160548 6.290000e-106 394.0
12 TraesCS1B01G322800 chr5D 94.937 237 8 2 866 1099 446161576 446161341 3.810000e-98 368.0
13 TraesCS1B01G322800 chr2B 91.775 231 9 2 266 486 767791122 767790892 1.810000e-81 313.0
14 TraesCS1B01G322800 chr2B 86.561 253 12 4 255 485 58103587 58103335 2.390000e-65 259.0
15 TraesCS1B01G322800 chr2B 84.615 104 13 2 2020 2122 106125360 106125461 1.530000e-17 100.0
16 TraesCS1B01G322800 chr3D 89.960 249 14 3 266 503 590165846 590166094 6.510000e-81 311.0
17 TraesCS1B01G322800 chr4A 90.574 244 6 3 259 485 709791501 709791744 8.430000e-80 307.0
18 TraesCS1B01G322800 chr5B 89.328 253 5 4 255 485 411542152 411542404 5.070000e-77 298.0
19 TraesCS1B01G322800 chr5B 85.156 256 21 8 266 504 620017374 620017629 1.860000e-61 246.0
20 TraesCS1B01G322800 chr4B 88.492 252 8 3 255 485 44367275 44367024 3.950000e-73 285.0
21 TraesCS1B01G322800 chr4B 85.156 256 19 6 260 503 469503814 469503566 6.700000e-61 244.0
22 TraesCS1B01G322800 chr4B 91.124 169 5 2 345 503 660098367 660098535 1.130000e-53 220.0
23 TraesCS1B01G322800 chr6B 88.511 235 10 12 266 485 471171791 471171559 3.980000e-68 268.0
24 TraesCS1B01G322800 chr6B 89.418 189 8 3 255 431 712306354 712306542 6.750000e-56 228.0
25 TraesCS1B01G322800 chr6B 89.744 78 7 1 2037 2114 641468349 641468425 5.520000e-17 99.0
26 TraesCS1B01G322800 chr7D 86.166 253 13 5 255 485 429799486 429799234 1.110000e-63 254.0
27 TraesCS1B01G322800 chr7D 77.901 181 35 5 1935 2114 531993389 531993565 9.170000e-20 108.0
28 TraesCS1B01G322800 chr3B 83.607 244 36 4 266 506 455052760 455052518 2.430000e-55 226.0
29 TraesCS1B01G322800 chr3B 83.404 235 14 13 261 471 706249967 706250200 6.840000e-46 195.0
30 TraesCS1B01G322800 chr3B 79.343 213 16 13 267 457 160350775 160350981 9.110000e-25 124.0
31 TraesCS1B01G322800 chr6A 91.026 156 13 1 345 499 574528468 574528313 2.440000e-50 209.0
32 TraesCS1B01G322800 chrUn 89.759 166 11 2 347 506 50834149 50833984 8.790000e-50 207.0
33 TraesCS1B01G322800 chr7B 83.983 231 21 3 266 485 119211805 119211580 8.790000e-50 207.0
34 TraesCS1B01G322800 chr7B 85.714 105 12 2 2019 2122 532033065 532033167 9.170000e-20 108.0
35 TraesCS1B01G322800 chr2D 88.333 120 13 1 2029 2148 59154977 59155095 2.510000e-30 143.0
36 TraesCS1B01G322800 chr2D 98.387 62 1 0 866 927 620906877 620906816 2.550000e-20 110.0
37 TraesCS1B01G322800 chr2D 84.884 86 13 0 2029 2114 634563661 634563746 1.190000e-13 87.9
38 TraesCS1B01G322800 chr4D 80.226 177 31 4 1974 2148 372985414 372985240 1.960000e-26 130.0
39 TraesCS1B01G322800 chr4D 84.615 117 15 3 2000 2114 507392196 507392311 1.970000e-21 113.0
40 TraesCS1B01G322800 chr4D 82.927 123 18 3 1999 2120 9239132 9239012 9.170000e-20 108.0
41 TraesCS1B01G322800 chr5A 87.209 86 11 0 2028 2113 8125187 8125272 5.520000e-17 99.0
42 TraesCS1B01G322800 chr3A 82.569 109 17 2 2006 2113 16468411 16468304 7.140000e-16 95.3
43 TraesCS1B01G322800 chr6D 84.884 86 13 0 2029 2114 429435999 429435914 1.190000e-13 87.9


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1B01G322800 chr1B 547698963 547701388 2425 False 4481.000000 4481 100.0000 1 2426 1 chr1B.!!$F2 2425
1 TraesCS1B01G322800 chr1A 502841417 502842954 1537 False 955.500000 1790 88.9220 92 1879 2 chr1A.!!$F1 1787
2 TraesCS1B01G322800 chr1D 407219694 407221845 2151 False 967.666667 1783 91.8930 1 2426 3 chr1D.!!$F2 2425
3 TraesCS1B01G322800 chr1D 203955035 203955928 893 False 396.000000 411 95.0135 866 1437 2 chr1D.!!$F1 571
4 TraesCS1B01G322800 chr5D 446160548 446161576 1028 True 381.000000 394 94.4265 866 1437 2 chr5D.!!$R1 571

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
702 710 0.032813 ACGGGGAGGAATTCTACGGA 60.033 55.0 5.23 0.0 32.09 4.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2124 2655 0.246635 CTAGGGACCAACACGTCAGG 59.753 60.0 0.0 0.0 34.24 3.86 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
179 183 0.254178 AAAGCCATGCGAGATGAGGT 59.746 50.000 0.00 0.00 0.00 3.85
180 185 0.179062 AAGCCATGCGAGATGAGGTC 60.179 55.000 0.00 0.00 0.00 3.85
193 198 1.616159 TGAGGTCGACACACAGATCA 58.384 50.000 18.91 6.42 0.00 2.92
195 200 0.241213 AGGTCGACACACAGATCACG 59.759 55.000 18.91 0.00 0.00 4.35
197 202 0.663269 GTCGACACACAGATCACGCA 60.663 55.000 11.55 0.00 0.00 5.24
198 203 0.387239 TCGACACACAGATCACGCAG 60.387 55.000 0.00 0.00 0.00 5.18
203 208 2.046892 ACAGATCACGCAGCCCAC 60.047 61.111 0.00 0.00 0.00 4.61
204 209 2.046988 CAGATCACGCAGCCCACA 60.047 61.111 0.00 0.00 0.00 4.17
205 210 2.046892 AGATCACGCAGCCCACAC 60.047 61.111 0.00 0.00 0.00 3.82
206 211 3.490759 GATCACGCAGCCCACACG 61.491 66.667 0.00 0.00 0.00 4.49
207 212 3.932580 GATCACGCAGCCCACACGA 62.933 63.158 0.00 0.00 0.00 4.35
255 260 3.900892 CGAGTCTGGCGCGGGTAT 61.901 66.667 8.83 0.00 36.75 2.73
256 261 2.549198 CGAGTCTGGCGCGGGTATA 61.549 63.158 8.83 0.00 36.75 1.47
257 262 1.007618 GAGTCTGGCGCGGGTATAC 60.008 63.158 8.83 0.00 0.00 1.47
258 263 2.028631 GTCTGGCGCGGGTATACC 59.971 66.667 13.99 13.99 0.00 2.73
259 264 2.123597 TCTGGCGCGGGTATACCT 60.124 61.111 21.25 0.00 36.97 3.08
260 265 2.198287 TCTGGCGCGGGTATACCTC 61.198 63.158 21.25 12.29 36.97 3.85
261 266 3.553437 CTGGCGCGGGTATACCTCG 62.553 68.421 21.25 22.57 36.97 4.63
262 267 4.353437 GGCGCGGGTATACCTCGG 62.353 72.222 26.43 19.27 36.97 4.63
263 268 4.353437 GCGCGGGTATACCTCGGG 62.353 72.222 29.08 29.08 41.68 5.14
264 269 4.353437 CGCGGGTATACCTCGGGC 62.353 72.222 25.41 19.86 36.49 6.13
265 270 3.999948 GCGGGTATACCTCGGGCC 62.000 72.222 24.81 0.00 36.97 5.80
266 271 3.677648 CGGGTATACCTCGGGCCG 61.678 72.222 22.51 22.51 36.97 6.13
267 272 3.308705 GGGTATACCTCGGGCCGG 61.309 72.222 27.98 16.63 35.85 6.13
268 273 3.308705 GGTATACCTCGGGCCGGG 61.309 72.222 27.98 24.95 0.00 5.73
269 274 3.999948 GTATACCTCGGGCCGGGC 62.000 72.222 27.98 22.00 0.00 6.13
290 295 2.592861 GCCTAGCCAAGCCCGATG 60.593 66.667 0.00 0.00 0.00 3.84
291 296 2.592861 CCTAGCCAAGCCCGATGC 60.593 66.667 0.00 0.00 41.71 3.91
292 297 2.190313 CTAGCCAAGCCCGATGCA 59.810 61.111 0.00 0.00 44.83 3.96
293 298 1.451927 CTAGCCAAGCCCGATGCAA 60.452 57.895 0.00 0.00 44.83 4.08
294 299 1.001517 TAGCCAAGCCCGATGCAAA 60.002 52.632 0.00 0.00 44.83 3.68
295 300 0.610509 TAGCCAAGCCCGATGCAAAA 60.611 50.000 0.00 0.00 44.83 2.44
296 301 1.005156 GCCAAGCCCGATGCAAAAA 60.005 52.632 0.00 0.00 44.83 1.94
355 362 3.539842 TTTTTGGGCCCGAACACC 58.460 55.556 25.23 0.00 0.00 4.16
356 363 1.075896 TTTTTGGGCCCGAACACCT 60.076 52.632 25.23 0.00 0.00 4.00
357 364 0.185416 TTTTTGGGCCCGAACACCTA 59.815 50.000 25.23 6.46 0.00 3.08
358 365 0.185416 TTTTGGGCCCGAACACCTAA 59.815 50.000 25.23 5.63 0.00 2.69
359 366 0.185416 TTTGGGCCCGAACACCTAAA 59.815 50.000 21.60 8.00 34.43 1.85
360 367 0.185416 TTGGGCCCGAACACCTAAAA 59.815 50.000 19.37 0.00 0.00 1.52
361 368 0.250989 TGGGCCCGAACACCTAAAAG 60.251 55.000 19.37 0.00 0.00 2.27
362 369 1.592400 GGGCCCGAACACCTAAAAGC 61.592 60.000 5.69 0.00 0.00 3.51
363 370 1.592400 GGCCCGAACACCTAAAAGCC 61.592 60.000 0.00 0.00 0.00 4.35
364 371 1.592400 GCCCGAACACCTAAAAGCCC 61.592 60.000 0.00 0.00 0.00 5.19
365 372 1.303091 CCCGAACACCTAAAAGCCCG 61.303 60.000 0.00 0.00 0.00 6.13
366 373 0.604511 CCGAACACCTAAAAGCCCGT 60.605 55.000 0.00 0.00 0.00 5.28
367 374 0.794473 CGAACACCTAAAAGCCCGTC 59.206 55.000 0.00 0.00 0.00 4.79
368 375 0.794473 GAACACCTAAAAGCCCGTCG 59.206 55.000 0.00 0.00 0.00 5.12
369 376 0.604511 AACACCTAAAAGCCCGTCGG 60.605 55.000 3.60 3.60 0.00 4.79
401 408 3.702048 CGGCCCGACCTTCAGGAA 61.702 66.667 0.00 0.00 38.94 3.36
402 409 2.754375 GGCCCGACCTTCAGGAAA 59.246 61.111 0.00 0.00 38.94 3.13
403 410 1.377333 GGCCCGACCTTCAGGAAAG 60.377 63.158 0.00 0.00 38.94 2.62
404 411 2.041115 GCCCGACCTTCAGGAAAGC 61.041 63.158 0.00 0.00 38.94 3.51
405 412 1.741770 CCCGACCTTCAGGAAAGCG 60.742 63.158 0.00 0.00 38.94 4.68
406 413 1.004918 CCGACCTTCAGGAAAGCGT 60.005 57.895 0.00 0.00 38.94 5.07
407 414 0.245539 CCGACCTTCAGGAAAGCGTA 59.754 55.000 0.00 0.00 38.94 4.42
408 415 1.337447 CCGACCTTCAGGAAAGCGTAA 60.337 52.381 0.00 0.00 38.94 3.18
409 416 2.409975 CGACCTTCAGGAAAGCGTAAA 58.590 47.619 0.00 0.00 38.94 2.01
410 417 2.803956 CGACCTTCAGGAAAGCGTAAAA 59.196 45.455 0.00 0.00 38.94 1.52
411 418 3.249080 CGACCTTCAGGAAAGCGTAAAAA 59.751 43.478 0.00 0.00 38.94 1.94
412 419 4.534168 GACCTTCAGGAAAGCGTAAAAAC 58.466 43.478 0.00 0.00 38.94 2.43
413 420 3.002965 ACCTTCAGGAAAGCGTAAAAACG 59.997 43.478 0.00 0.00 38.94 3.60
414 421 3.249080 CCTTCAGGAAAGCGTAAAAACGA 59.751 43.478 1.51 0.00 37.39 3.85
415 422 3.865224 TCAGGAAAGCGTAAAAACGAC 57.135 42.857 1.51 0.00 34.64 4.34
416 423 2.219216 TCAGGAAAGCGTAAAAACGACG 59.781 45.455 1.51 0.00 43.19 5.12
417 424 1.528161 AGGAAAGCGTAAAAACGACGG 59.472 47.619 0.00 0.00 40.66 4.79
418 425 1.398832 GGAAAGCGTAAAAACGACGGG 60.399 52.381 0.00 0.00 40.66 5.28
419 426 0.041047 AAAGCGTAAAAACGACGGGC 60.041 50.000 0.00 0.00 40.66 6.13
420 427 1.844771 AAGCGTAAAAACGACGGGCC 61.845 55.000 0.00 0.00 40.66 5.80
421 428 2.862436 CGTAAAAACGACGGGCCC 59.138 61.111 13.57 13.57 36.66 5.80
422 429 2.862436 GTAAAAACGACGGGCCCG 59.138 61.111 42.17 42.17 46.03 6.13
423 430 2.358492 TAAAAACGACGGGCCCGG 60.358 61.111 44.99 31.45 44.69 5.73
449 456 2.565841 CCTTCGGGCTCAAAATCTAGG 58.434 52.381 0.00 0.00 0.00 3.02
450 457 1.943340 CTTCGGGCTCAAAATCTAGGC 59.057 52.381 0.00 0.00 37.55 3.93
453 460 2.707902 GGCTCAAAATCTAGGCCCG 58.292 57.895 0.00 0.00 37.12 6.13
454 461 0.180406 GGCTCAAAATCTAGGCCCGA 59.820 55.000 0.00 0.00 37.12 5.14
455 462 1.587547 GCTCAAAATCTAGGCCCGAG 58.412 55.000 0.00 0.00 0.00 4.63
456 463 1.587547 CTCAAAATCTAGGCCCGAGC 58.412 55.000 0.00 0.00 38.76 5.03
499 506 4.066139 GGCTTCCCATGGCCAGGT 62.066 66.667 17.55 0.00 46.84 4.00
500 507 2.689691 GGCTTCCCATGGCCAGGTA 61.690 63.158 17.55 3.27 46.84 3.08
501 508 1.538666 GCTTCCCATGGCCAGGTAT 59.461 57.895 17.55 0.00 0.00 2.73
502 509 0.771127 GCTTCCCATGGCCAGGTATA 59.229 55.000 17.55 0.00 0.00 1.47
505 512 3.690460 CTTCCCATGGCCAGGTATAATC 58.310 50.000 17.55 0.00 0.00 1.75
620 628 2.159226 CCTAAGTCACCTCCGTAAGCAG 60.159 54.545 0.00 0.00 0.00 4.24
632 640 1.082690 GTAAGCAGTTCTCAGCCAGC 58.917 55.000 0.00 0.00 0.00 4.85
636 644 1.374190 CAGTTCTCAGCCAGCCAGT 59.626 57.895 0.00 0.00 0.00 4.00
702 710 0.032813 ACGGGGAGGAATTCTACGGA 60.033 55.000 5.23 0.00 32.09 4.69
708 716 3.430513 GGGAGGAATTCTACGGAGACAAC 60.431 52.174 0.00 0.00 0.00 3.32
739 747 3.857038 GTCCTTATCGGCGGGGCA 61.857 66.667 7.21 0.00 0.00 5.36
1420 1897 1.531739 GGGCAAGGACGGCAATTCAA 61.532 55.000 0.00 0.00 0.00 2.69
1426 1903 3.418684 AGGACGGCAATTCAAACTAGT 57.581 42.857 0.00 0.00 0.00 2.57
1521 2013 1.656095 CAGAGCACTTCGTCGATTTCC 59.344 52.381 0.00 0.00 0.00 3.13
1575 2071 1.985159 TCCACTGCTCCCTTGTACATT 59.015 47.619 0.00 0.00 0.00 2.71
1603 2099 7.764443 GTGAATCTTGTAGCCTTGTACTGATAA 59.236 37.037 0.00 0.00 0.00 1.75
1668 2168 3.221771 CCCATGTCTGAGACCTCTAGAG 58.778 54.545 13.18 13.18 0.00 2.43
1670 2170 3.882888 CCATGTCTGAGACCTCTAGAGTC 59.117 52.174 18.42 14.73 0.00 3.36
1671 2171 4.385199 CCATGTCTGAGACCTCTAGAGTCT 60.385 50.000 18.42 18.66 0.00 3.24
1674 2174 5.274015 TGTCTGAGACCTCTAGAGTCTAGA 58.726 45.833 25.04 25.04 0.00 2.43
1675 2175 5.903010 TGTCTGAGACCTCTAGAGTCTAGAT 59.097 44.000 26.44 15.28 0.00 1.98
1676 2176 6.385759 TGTCTGAGACCTCTAGAGTCTAGATT 59.614 42.308 26.44 17.82 0.00 2.40
1677 2177 6.706270 GTCTGAGACCTCTAGAGTCTAGATTG 59.294 46.154 26.44 21.95 0.00 2.67
1678 2178 5.373222 TGAGACCTCTAGAGTCTAGATTGC 58.627 45.833 26.44 18.34 0.00 3.56
1679 2179 5.104318 TGAGACCTCTAGAGTCTAGATTGCA 60.104 44.000 26.44 17.67 0.00 4.08
1680 2180 5.376625 AGACCTCTAGAGTCTAGATTGCAG 58.623 45.833 26.44 15.86 0.00 4.41
1681 2181 3.888930 ACCTCTAGAGTCTAGATTGCAGC 59.111 47.826 26.44 0.00 0.00 5.25
1682 2182 4.144297 CCTCTAGAGTCTAGATTGCAGCT 58.856 47.826 26.44 0.00 0.00 4.24
1683 2183 5.163141 ACCTCTAGAGTCTAGATTGCAGCTA 60.163 44.000 26.44 5.04 0.00 3.32
1684 2184 5.945784 CCTCTAGAGTCTAGATTGCAGCTAT 59.054 44.000 26.44 0.00 0.00 2.97
1685 2185 6.434028 CCTCTAGAGTCTAGATTGCAGCTATT 59.566 42.308 26.44 0.00 0.00 1.73
1686 2186 7.362056 CCTCTAGAGTCTAGATTGCAGCTATTC 60.362 44.444 26.44 0.00 0.00 1.75
1692 2214 5.236047 GTCTAGATTGCAGCTATTCCTGTTG 59.764 44.000 0.00 0.00 35.28 3.33
1705 2227 0.254178 CCTGTTGCTATGGCTCCTGT 59.746 55.000 1.68 0.00 39.59 4.00
1718 2240 2.019156 GCTCCTGTTAATCCACCTGCC 61.019 57.143 0.00 0.00 0.00 4.85
1719 2241 0.623723 TCCTGTTAATCCACCTGCCC 59.376 55.000 0.00 0.00 0.00 5.36
1752 2274 0.759346 AAGGAAACGAGGCACACTCT 59.241 50.000 0.00 0.00 44.33 3.24
1753 2275 0.318762 AGGAAACGAGGCACACTCTC 59.681 55.000 0.00 0.00 44.33 3.20
1754 2276 0.670854 GGAAACGAGGCACACTCTCC 60.671 60.000 0.00 0.00 44.33 3.71
1755 2277 0.033504 GAAACGAGGCACACTCTCCA 59.966 55.000 0.00 0.00 44.33 3.86
1756 2278 0.687354 AAACGAGGCACACTCTCCAT 59.313 50.000 0.00 0.00 44.33 3.41
1757 2279 0.247736 AACGAGGCACACTCTCCATC 59.752 55.000 0.00 0.00 44.33 3.51
1758 2280 1.142748 CGAGGCACACTCTCCATCC 59.857 63.158 0.00 0.00 44.33 3.51
1759 2281 1.326213 CGAGGCACACTCTCCATCCT 61.326 60.000 0.00 0.00 44.33 3.24
1760 2282 0.463620 GAGGCACACTCTCCATCCTC 59.536 60.000 0.00 0.00 43.14 3.71
1761 2283 0.980231 AGGCACACTCTCCATCCTCC 60.980 60.000 0.00 0.00 0.00 4.30
1762 2284 1.267574 GGCACACTCTCCATCCTCCA 61.268 60.000 0.00 0.00 0.00 3.86
1763 2285 0.107945 GCACACTCTCCATCCTCCAC 60.108 60.000 0.00 0.00 0.00 4.02
1764 2286 0.539051 CACACTCTCCATCCTCCACC 59.461 60.000 0.00 0.00 0.00 4.61
1765 2287 0.415429 ACACTCTCCATCCTCCACCT 59.585 55.000 0.00 0.00 0.00 4.00
1766 2288 1.118838 CACTCTCCATCCTCCACCTC 58.881 60.000 0.00 0.00 0.00 3.85
1767 2289 0.031616 ACTCTCCATCCTCCACCTCC 60.032 60.000 0.00 0.00 0.00 4.30
1768 2290 1.075970 TCTCCATCCTCCACCTCCG 60.076 63.158 0.00 0.00 0.00 4.63
1769 2291 2.041922 TCCATCCTCCACCTCCGG 60.042 66.667 0.00 0.00 0.00 5.14
1819 2350 1.834263 GAGCCCAGTACTCCACTCAAT 59.166 52.381 9.60 0.00 34.26 2.57
1820 2351 1.834263 AGCCCAGTACTCCACTCAATC 59.166 52.381 0.00 0.00 34.26 2.67
1821 2352 1.555075 GCCCAGTACTCCACTCAATCA 59.445 52.381 0.00 0.00 34.26 2.57
1822 2353 2.027192 GCCCAGTACTCCACTCAATCAA 60.027 50.000 0.00 0.00 34.26 2.57
1873 2404 3.442273 TCCAATCCGGTTACAAAGATTGC 59.558 43.478 0.00 0.00 42.66 3.56
1879 2410 3.945285 CCGGTTACAAAGATTGCTATGGT 59.055 43.478 0.00 0.00 0.00 3.55
1883 2414 6.706270 CGGTTACAAAGATTGCTATGGTATCT 59.294 38.462 0.00 0.00 0.00 1.98
1942 2473 3.118592 AGGATTTGGAAGATCTGACCGTC 60.119 47.826 12.56 10.51 0.00 4.79
1945 2476 0.611062 TGGAAGATCTGACCGTCCGT 60.611 55.000 12.56 0.00 35.39 4.69
1967 2498 5.566774 CGTTTTGTTTGCTTGATGAGATCTC 59.433 40.000 16.21 16.21 0.00 2.75
1968 2499 4.934075 TTGTTTGCTTGATGAGATCTCG 57.066 40.909 17.76 4.33 0.00 4.04
1969 2500 4.192429 TGTTTGCTTGATGAGATCTCGA 57.808 40.909 17.76 7.68 0.00 4.04
1970 2501 3.928992 TGTTTGCTTGATGAGATCTCGAC 59.071 43.478 17.76 13.80 0.00 4.20
1971 2502 2.879002 TGCTTGATGAGATCTCGACC 57.121 50.000 17.76 9.59 0.00 4.79
1972 2503 2.102578 TGCTTGATGAGATCTCGACCA 58.897 47.619 17.76 11.93 0.00 4.02
2051 2582 2.551270 TGAATAGTTGCACCCTCCTCT 58.449 47.619 0.00 0.00 0.00 3.69
2062 2593 3.137360 GCACCCTCCTCTGGAAATATCTT 59.863 47.826 0.00 0.00 0.00 2.40
2063 2594 4.712476 CACCCTCCTCTGGAAATATCTTG 58.288 47.826 0.00 0.00 0.00 3.02
2071 2602 2.355756 CTGGAAATATCTTGTGCCACCG 59.644 50.000 0.00 0.00 0.00 4.94
2072 2603 1.065551 GGAAATATCTTGTGCCACCGC 59.934 52.381 0.00 0.00 0.00 5.68
2105 2636 4.946038 CCGCCGAGGGTATTTTCA 57.054 55.556 0.00 0.00 35.97 2.69
2114 2645 5.010012 GCCGAGGGTATTTTCATCATTTCAT 59.990 40.000 0.00 0.00 0.00 2.57
2115 2646 6.206634 GCCGAGGGTATTTTCATCATTTCATA 59.793 38.462 0.00 0.00 0.00 2.15
2124 2655 5.534207 TTCATCATTTCATATGTTGGCCC 57.466 39.130 0.00 0.00 0.00 5.80
2129 2660 2.435372 TTCATATGTTGGCCCCTGAC 57.565 50.000 0.00 0.00 0.00 3.51
2130 2661 0.180171 TCATATGTTGGCCCCTGACG 59.820 55.000 0.00 0.00 0.00 4.35
2131 2662 0.107214 CATATGTTGGCCCCTGACGT 60.107 55.000 0.00 0.00 0.00 4.34
2132 2663 0.107214 ATATGTTGGCCCCTGACGTG 60.107 55.000 0.00 0.00 0.00 4.49
2133 2664 1.485294 TATGTTGGCCCCTGACGTGT 61.485 55.000 0.00 0.00 0.00 4.49
2134 2665 2.203294 GTTGGCCCCTGACGTGTT 60.203 61.111 0.00 0.00 0.00 3.32
2135 2666 2.203280 TTGGCCCCTGACGTGTTG 60.203 61.111 0.00 0.00 0.00 3.33
2136 2667 3.783362 TTGGCCCCTGACGTGTTGG 62.783 63.158 0.00 0.00 0.00 3.77
2137 2668 4.265056 GGCCCCTGACGTGTTGGT 62.265 66.667 0.00 0.00 0.00 3.67
2138 2669 2.668550 GCCCCTGACGTGTTGGTC 60.669 66.667 0.00 0.00 37.45 4.02
2139 2670 2.032071 CCCCTGACGTGTTGGTCC 59.968 66.667 0.00 0.00 36.07 4.46
2140 2671 2.032071 CCCTGACGTGTTGGTCCC 59.968 66.667 0.00 0.00 36.07 4.46
2141 2672 2.516888 CCCTGACGTGTTGGTCCCT 61.517 63.158 0.00 0.00 36.07 4.20
2142 2673 1.189524 CCCTGACGTGTTGGTCCCTA 61.190 60.000 0.00 0.00 36.07 3.53
2143 2674 0.246635 CCTGACGTGTTGGTCCCTAG 59.753 60.000 0.00 0.00 36.07 3.02
2144 2675 0.966920 CTGACGTGTTGGTCCCTAGT 59.033 55.000 0.00 0.00 36.07 2.57
2145 2676 1.343465 CTGACGTGTTGGTCCCTAGTT 59.657 52.381 0.00 0.00 36.07 2.24
2146 2677 1.069513 TGACGTGTTGGTCCCTAGTTG 59.930 52.381 0.00 0.00 36.07 3.16
2147 2678 0.395312 ACGTGTTGGTCCCTAGTTGG 59.605 55.000 0.00 0.00 0.00 3.77
2148 2679 0.953960 CGTGTTGGTCCCTAGTTGGC 60.954 60.000 0.00 0.00 0.00 4.52
2149 2680 0.608308 GTGTTGGTCCCTAGTTGGCC 60.608 60.000 0.00 0.00 0.00 5.36
2163 2694 3.324108 GGCCCGTGTTGGTCCCTA 61.324 66.667 0.00 0.00 35.15 3.53
2190 2721 1.482182 CCGTGGTTGGATGAGATGAGA 59.518 52.381 0.00 0.00 0.00 3.27
2198 2729 0.038343 GATGAGATGAGAGAGGGCGC 60.038 60.000 0.00 0.00 0.00 6.53
2226 2757 0.103208 CCTCTTCGTCCTCCCATTCG 59.897 60.000 0.00 0.00 0.00 3.34
2304 2835 2.122189 CTCCCCTCCCCTCCCATC 60.122 72.222 0.00 0.00 0.00 3.51
2317 2848 2.044450 CCATCCCCTTCCCTCCCA 59.956 66.667 0.00 0.00 0.00 4.37
2332 2863 2.189257 CCATCGCCCGAATCACCA 59.811 61.111 0.00 0.00 0.00 4.17
2341 2872 0.103026 CCGAATCACCAGCTCATCGA 59.897 55.000 0.00 0.00 32.38 3.59
2355 2889 0.936764 CATCGATCGGCTGAGGAACG 60.937 60.000 16.41 4.75 0.00 3.95
2358 2892 1.810532 GATCGGCTGAGGAACGAGT 59.189 57.895 0.00 0.00 40.21 4.18
2384 2918 1.689273 AGAATAGAGATGGCGGTGGAC 59.311 52.381 0.00 0.00 0.00 4.02
2401 2935 1.401931 GGACGAATCCGAAGACAACGA 60.402 52.381 0.00 0.00 39.50 3.85
2422 2956 1.372004 CGGCGACCACTTTCGTGTA 60.372 57.895 0.00 0.00 41.26 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 0.525668 CGGTCGTGAGATGTAGCACC 60.526 60.000 0.00 0.00 45.19 5.01
179 183 0.387239 CTGCGTGATCTGTGTGTCGA 60.387 55.000 0.00 0.00 0.00 4.20
180 185 1.949015 GCTGCGTGATCTGTGTGTCG 61.949 60.000 0.00 0.00 0.00 4.35
249 254 3.677648 CGGCCCGAGGTATACCCG 61.678 72.222 18.65 19.38 38.74 5.28
250 255 3.308705 CCGGCCCGAGGTATACCC 61.309 72.222 18.65 9.09 36.42 3.69
251 256 3.308705 CCCGGCCCGAGGTATACC 61.309 72.222 14.54 14.54 0.00 2.73
252 257 3.999948 GCCCGGCCCGAGGTATAC 62.000 72.222 3.71 0.00 0.00 1.47
274 279 2.592861 GCATCGGGCTTGGCTAGG 60.593 66.667 0.00 0.00 40.25 3.02
275 280 1.031571 TTTGCATCGGGCTTGGCTAG 61.032 55.000 0.00 0.00 45.15 3.42
276 281 0.610509 TTTTGCATCGGGCTTGGCTA 60.611 50.000 0.00 0.00 45.15 3.93
277 282 1.470996 TTTTTGCATCGGGCTTGGCT 61.471 50.000 0.00 0.00 45.15 4.75
278 283 1.005156 TTTTTGCATCGGGCTTGGC 60.005 52.632 0.00 0.00 45.15 4.52
323 328 2.120765 AAAAACAGGCCCGTTGGTC 58.879 52.632 4.78 0.00 36.05 4.02
342 349 0.250989 CTTTTAGGTGTTCGGGCCCA 60.251 55.000 24.92 6.15 0.00 5.36
343 350 1.592400 GCTTTTAGGTGTTCGGGCCC 61.592 60.000 13.57 13.57 0.00 5.80
347 354 0.604511 ACGGGCTTTTAGGTGTTCGG 60.605 55.000 0.00 0.00 0.00 4.30
348 355 0.794473 GACGGGCTTTTAGGTGTTCG 59.206 55.000 0.00 0.00 0.00 3.95
349 356 0.794473 CGACGGGCTTTTAGGTGTTC 59.206 55.000 0.00 0.00 0.00 3.18
350 357 0.604511 CCGACGGGCTTTTAGGTGTT 60.605 55.000 5.81 0.00 0.00 3.32
351 358 1.004200 CCGACGGGCTTTTAGGTGT 60.004 57.895 5.81 0.00 0.00 4.16
352 359 1.743995 CCCGACGGGCTTTTAGGTG 60.744 63.158 22.37 0.00 35.35 4.00
353 360 2.666812 CCCGACGGGCTTTTAGGT 59.333 61.111 22.37 0.00 35.35 3.08
384 391 3.248446 TTTCCTGAAGGTCGGGCCG 62.248 63.158 22.51 22.51 42.73 6.13
385 392 1.377333 CTTTCCTGAAGGTCGGGCC 60.377 63.158 0.00 0.00 42.73 5.80
386 393 2.041115 GCTTTCCTGAAGGTCGGGC 61.041 63.158 0.00 0.00 42.73 6.13
387 394 1.741770 CGCTTTCCTGAAGGTCGGG 60.742 63.158 0.00 0.00 44.41 5.14
388 395 0.245539 TACGCTTTCCTGAAGGTCGG 59.754 55.000 0.00 0.00 35.82 4.79
389 396 2.074547 TTACGCTTTCCTGAAGGTCG 57.925 50.000 0.00 0.00 35.82 4.79
390 397 4.534168 GTTTTTACGCTTTCCTGAAGGTC 58.466 43.478 0.00 0.00 35.82 3.85
391 398 3.002965 CGTTTTTACGCTTTCCTGAAGGT 59.997 43.478 0.00 0.00 35.82 3.50
392 399 3.249080 TCGTTTTTACGCTTTCCTGAAGG 59.751 43.478 0.00 0.00 35.82 3.46
393 400 4.209112 GTCGTTTTTACGCTTTCCTGAAG 58.791 43.478 0.00 0.00 38.45 3.02
394 401 3.302610 CGTCGTTTTTACGCTTTCCTGAA 60.303 43.478 0.00 0.00 33.04 3.02
395 402 2.219216 CGTCGTTTTTACGCTTTCCTGA 59.781 45.455 0.00 0.00 33.04 3.86
396 403 2.556806 CGTCGTTTTTACGCTTTCCTG 58.443 47.619 0.00 0.00 33.04 3.86
397 404 1.528161 CCGTCGTTTTTACGCTTTCCT 59.472 47.619 0.00 0.00 39.00 3.36
398 405 1.398832 CCCGTCGTTTTTACGCTTTCC 60.399 52.381 0.00 0.00 39.00 3.13
399 406 1.941276 CCCGTCGTTTTTACGCTTTC 58.059 50.000 0.00 0.00 39.00 2.62
400 407 0.041047 GCCCGTCGTTTTTACGCTTT 60.041 50.000 0.00 0.00 39.00 3.51
401 408 1.570967 GCCCGTCGTTTTTACGCTT 59.429 52.632 0.00 0.00 39.00 4.68
402 409 2.319841 GGCCCGTCGTTTTTACGCT 61.320 57.895 0.00 0.00 39.00 5.07
403 410 2.174107 GGCCCGTCGTTTTTACGC 59.826 61.111 0.00 0.00 39.00 4.42
404 411 2.862436 GGGCCCGTCGTTTTTACG 59.138 61.111 5.69 0.00 40.01 3.18
405 412 2.679934 CCGGGCCCGTCGTTTTTAC 61.680 63.158 40.52 0.00 37.81 2.01
406 413 2.358492 CCGGGCCCGTCGTTTTTA 60.358 61.111 40.52 0.00 37.81 1.52
430 437 1.943340 GCCTAGATTTTGAGCCCGAAG 59.057 52.381 0.00 0.00 0.00 3.79
431 438 1.408266 GGCCTAGATTTTGAGCCCGAA 60.408 52.381 0.00 0.00 37.66 4.30
432 439 0.180406 GGCCTAGATTTTGAGCCCGA 59.820 55.000 0.00 0.00 37.66 5.14
433 440 2.707902 GGCCTAGATTTTGAGCCCG 58.292 57.895 0.00 0.00 37.66 6.13
435 442 0.180406 TCGGGCCTAGATTTTGAGCC 59.820 55.000 0.84 0.00 43.09 4.70
436 443 1.587547 CTCGGGCCTAGATTTTGAGC 58.412 55.000 0.84 0.00 0.00 4.26
437 444 1.587547 GCTCGGGCCTAGATTTTGAG 58.412 55.000 9.63 2.79 0.00 3.02
438 445 3.780624 GCTCGGGCCTAGATTTTGA 57.219 52.632 9.63 0.00 0.00 2.69
483 490 0.771127 TATACCTGGCCATGGGAAGC 59.229 55.000 17.65 0.00 0.00 3.86
484 491 3.562176 GGATTATACCTGGCCATGGGAAG 60.562 52.174 17.65 0.00 0.00 3.46
485 492 2.378547 GGATTATACCTGGCCATGGGAA 59.621 50.000 17.65 11.49 0.00 3.97
486 493 1.992557 GGATTATACCTGGCCATGGGA 59.007 52.381 17.65 12.89 0.00 4.37
487 494 1.995542 AGGATTATACCTGGCCATGGG 59.004 52.381 20.97 16.10 39.01 4.00
496 503 4.279145 ACACGTGACTCAGGATTATACCT 58.721 43.478 25.01 0.00 41.43 3.08
497 504 4.650754 ACACGTGACTCAGGATTATACC 57.349 45.455 25.01 0.00 0.00 2.73
498 505 5.647589 TGAACACGTGACTCAGGATTATAC 58.352 41.667 25.01 0.00 0.00 1.47
499 506 5.907866 TGAACACGTGACTCAGGATTATA 57.092 39.130 25.01 0.00 0.00 0.98
500 507 4.801330 TGAACACGTGACTCAGGATTAT 57.199 40.909 25.01 0.00 0.00 1.28
501 508 4.219725 TCATGAACACGTGACTCAGGATTA 59.780 41.667 25.01 7.56 0.00 1.75
502 509 3.006859 TCATGAACACGTGACTCAGGATT 59.993 43.478 25.01 2.52 0.00 3.01
505 512 2.438868 TCATGAACACGTGACTCAGG 57.561 50.000 25.01 23.23 0.00 3.86
509 516 3.074412 GGGAAATCATGAACACGTGACT 58.926 45.455 25.01 8.76 33.27 3.41
511 518 3.133141 TGGGAAATCATGAACACGTGA 57.867 42.857 25.01 0.00 34.66 4.35
620 628 0.673022 CTGACTGGCTGGCTGAGAAC 60.673 60.000 14.79 4.36 0.00 3.01
632 640 5.614668 CGTTTTATACTGTTGTGCTGACTGG 60.615 44.000 0.00 0.00 0.00 4.00
636 644 3.187637 GCCGTTTTATACTGTTGTGCTGA 59.812 43.478 0.00 0.00 0.00 4.26
702 710 2.338984 GCCGTGGACTCGTTGTCT 59.661 61.111 10.13 0.00 44.74 3.41
708 716 4.436998 GGACCTGCCGTGGACTCG 62.437 72.222 0.00 0.00 0.00 4.18
1391 1868 0.912006 GTCCTTGCCCTTCTCCTCCT 60.912 60.000 0.00 0.00 0.00 3.69
1575 2071 6.436218 TCAGTACAAGGCTACAAGATTCACTA 59.564 38.462 0.00 0.00 0.00 2.74
1631 2127 2.647683 TGGGTAGCACATCAACAACA 57.352 45.000 0.00 0.00 0.00 3.33
1632 2128 2.819608 ACATGGGTAGCACATCAACAAC 59.180 45.455 0.00 0.00 0.00 3.32
1633 2129 3.081061 GACATGGGTAGCACATCAACAA 58.919 45.455 0.00 0.00 0.00 2.83
1634 2130 2.305635 AGACATGGGTAGCACATCAACA 59.694 45.455 0.00 0.00 0.00 3.33
1668 2168 4.954875 ACAGGAATAGCTGCAATCTAGAC 58.045 43.478 1.02 0.00 0.00 2.59
1670 2170 4.024218 GCAACAGGAATAGCTGCAATCTAG 60.024 45.833 1.02 0.00 33.19 2.43
1671 2171 3.879295 GCAACAGGAATAGCTGCAATCTA 59.121 43.478 1.02 0.00 33.19 1.98
1674 2174 2.731572 AGCAACAGGAATAGCTGCAAT 58.268 42.857 1.02 0.00 35.72 3.56
1675 2175 2.205022 AGCAACAGGAATAGCTGCAA 57.795 45.000 1.02 0.00 35.72 4.08
1676 2176 3.208594 CATAGCAACAGGAATAGCTGCA 58.791 45.455 1.02 0.00 37.94 4.41
1677 2177 2.551459 CCATAGCAACAGGAATAGCTGC 59.449 50.000 0.00 0.00 37.94 5.25
1678 2178 2.551459 GCCATAGCAACAGGAATAGCTG 59.449 50.000 0.00 0.00 37.94 4.24
1679 2179 2.441001 AGCCATAGCAACAGGAATAGCT 59.559 45.455 0.00 0.00 43.56 3.32
1680 2180 2.810852 GAGCCATAGCAACAGGAATAGC 59.189 50.000 0.00 0.00 43.56 2.97
1681 2181 3.072184 AGGAGCCATAGCAACAGGAATAG 59.928 47.826 0.00 0.00 43.56 1.73
1682 2182 3.048600 AGGAGCCATAGCAACAGGAATA 58.951 45.455 0.00 0.00 43.56 1.75
1683 2183 1.849039 AGGAGCCATAGCAACAGGAAT 59.151 47.619 0.00 0.00 43.56 3.01
1684 2184 1.065199 CAGGAGCCATAGCAACAGGAA 60.065 52.381 0.00 0.00 43.56 3.36
1685 2185 0.543277 CAGGAGCCATAGCAACAGGA 59.457 55.000 0.00 0.00 43.56 3.86
1686 2186 0.254178 ACAGGAGCCATAGCAACAGG 59.746 55.000 0.00 0.00 43.56 4.00
1692 2214 3.142174 GTGGATTAACAGGAGCCATAGC 58.858 50.000 0.00 0.00 40.32 2.97
1705 2227 1.072266 ACAGTGGGCAGGTGGATTAA 58.928 50.000 0.00 0.00 0.00 1.40
1718 2240 1.679139 TCCTTTGAGTGCAACAGTGG 58.321 50.000 0.00 0.00 41.43 4.00
1719 2241 3.438360 GTTTCCTTTGAGTGCAACAGTG 58.562 45.455 0.00 0.00 41.43 3.66
1764 2286 4.394712 AAGCACTTCGCCCCGGAG 62.395 66.667 0.73 0.00 44.04 4.63
1765 2287 4.697756 CAAGCACTTCGCCCCGGA 62.698 66.667 0.73 0.00 44.04 5.14
1819 2350 4.361253 GTGCAACTCGAGGCTTGA 57.639 55.556 18.41 3.99 0.00 3.02
1873 2404 7.810282 CACGGATCTTGTTTCTAGATACCATAG 59.190 40.741 10.37 6.05 32.64 2.23
1879 2410 5.205821 TCCCACGGATCTTGTTTCTAGATA 58.794 41.667 0.00 0.00 32.64 1.98
1883 2414 2.093658 GCTCCCACGGATCTTGTTTCTA 60.094 50.000 0.00 0.00 0.00 2.10
1905 2436 0.260230 ATCCTTGAGAGAGCTCGGGA 59.740 55.000 8.37 10.43 44.33 5.14
1916 2447 4.880696 GGTCAGATCTTCCAAATCCTTGAG 59.119 45.833 0.00 0.00 34.14 3.02
1920 2451 2.840651 ACGGTCAGATCTTCCAAATCCT 59.159 45.455 12.47 0.00 0.00 3.24
1921 2452 3.198872 GACGGTCAGATCTTCCAAATCC 58.801 50.000 2.62 0.08 0.00 3.01
1942 2473 3.963665 TCTCATCAAGCAAACAAAACGG 58.036 40.909 0.00 0.00 0.00 4.44
1945 2476 5.469760 TCGAGATCTCATCAAGCAAACAAAA 59.530 36.000 22.31 0.00 0.00 2.44
1967 2498 2.049985 GGCTCGATCCGATGGTCG 60.050 66.667 0.00 0.00 40.07 4.79
2040 2571 2.708325 AGATATTTCCAGAGGAGGGTGC 59.292 50.000 0.00 0.00 31.21 5.01
2044 2575 4.133078 GCACAAGATATTTCCAGAGGAGG 58.867 47.826 0.00 0.00 31.21 4.30
2051 2582 2.364632 CGGTGGCACAAGATATTTCCA 58.635 47.619 20.82 0.00 44.16 3.53
2062 2593 2.032834 AATAACGGCGGTGGCACA 59.967 55.556 20.82 0.00 42.47 4.57
2063 2594 2.757056 GGAATAACGGCGGTGGCAC 61.757 63.158 8.19 9.70 42.47 5.01
2071 2602 3.206957 GGGCACGGGAATAACGGC 61.207 66.667 0.00 0.00 35.23 5.68
2072 2603 2.515290 GGGGCACGGGAATAACGG 60.515 66.667 0.00 0.00 35.23 4.44
2105 2636 3.899360 CAGGGGCCAACATATGAAATGAT 59.101 43.478 10.38 0.00 0.00 2.45
2114 2645 1.298340 CACGTCAGGGGCCAACATA 59.702 57.895 4.39 0.00 0.00 2.29
2115 2646 2.034066 CACGTCAGGGGCCAACAT 59.966 61.111 4.39 0.00 0.00 2.71
2124 2655 0.246635 CTAGGGACCAACACGTCAGG 59.753 60.000 0.00 0.00 34.24 3.86
2129 2660 0.953960 GCCAACTAGGGACCAACACG 60.954 60.000 0.00 0.00 38.09 4.49
2130 2661 0.608308 GGCCAACTAGGGACCAACAC 60.608 60.000 0.00 0.00 38.09 3.32
2131 2662 1.765074 GGCCAACTAGGGACCAACA 59.235 57.895 0.00 0.00 38.09 3.33
2132 2663 4.736739 GGCCAACTAGGGACCAAC 57.263 61.111 0.00 0.00 38.09 3.77
2136 2667 2.120737 AACACGGGCCAACTAGGGAC 62.121 60.000 4.39 0.00 38.09 4.46
2137 2668 1.844289 AACACGGGCCAACTAGGGA 60.844 57.895 4.39 0.00 38.09 4.20
2138 2669 1.674322 CAACACGGGCCAACTAGGG 60.674 63.158 4.39 0.00 38.09 3.53
2139 2670 1.674322 CCAACACGGGCCAACTAGG 60.674 63.158 4.39 0.00 41.84 3.02
2140 2671 0.953960 GACCAACACGGGCCAACTAG 60.954 60.000 4.39 0.00 36.36 2.57
2141 2672 1.071814 GACCAACACGGGCCAACTA 59.928 57.895 4.39 0.00 36.36 2.24
2142 2673 2.203294 GACCAACACGGGCCAACT 60.203 61.111 4.39 0.00 36.36 3.16
2147 2678 2.120737 AACTAGGGACCAACACGGGC 62.121 60.000 0.00 0.00 45.59 6.13
2148 2679 0.321298 CAACTAGGGACCAACACGGG 60.321 60.000 0.00 0.00 40.22 5.28
2149 2680 0.321298 CCAACTAGGGACCAACACGG 60.321 60.000 0.00 0.00 42.50 4.94
2163 2694 2.840753 ATCCAACCACGGGCCAACT 61.841 57.895 4.39 0.00 0.00 3.16
2198 2729 1.743252 GACGAAGAGGCAAGGCAGG 60.743 63.158 0.00 0.00 0.00 4.85
2205 2736 0.909610 AATGGGAGGACGAAGAGGCA 60.910 55.000 0.00 0.00 0.00 4.75
2226 2757 2.190578 CGGGGAAGATGAGGTGGC 59.809 66.667 0.00 0.00 0.00 5.01
2253 2784 1.153449 GGACGAATGATGGTGGCGA 60.153 57.895 0.00 0.00 0.00 5.54
2302 2833 1.462238 CGATGGGAGGGAAGGGGAT 60.462 63.158 0.00 0.00 0.00 3.85
2304 2835 3.878667 GCGATGGGAGGGAAGGGG 61.879 72.222 0.00 0.00 0.00 4.79
2317 2848 2.203070 GCTGGTGATTCGGGCGAT 60.203 61.111 0.00 0.00 0.00 4.58
2332 2863 1.659233 CTCAGCCGATCGATGAGCT 59.341 57.895 26.57 19.70 34.55 4.09
2341 2872 1.513158 CACTCGTTCCTCAGCCGAT 59.487 57.895 0.00 0.00 0.00 4.18
2355 2889 3.737850 CCATCTCTATTCTTGCCCACTC 58.262 50.000 0.00 0.00 0.00 3.51
2358 2892 1.202687 CGCCATCTCTATTCTTGCCCA 60.203 52.381 0.00 0.00 0.00 5.36
2384 2918 1.269166 CCTCGTTGTCTTCGGATTCG 58.731 55.000 0.00 0.00 37.82 3.34
2386 2920 0.736325 CGCCTCGTTGTCTTCGGATT 60.736 55.000 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.