Multiple sequence alignment - TraesCS3D01G488800

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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 TraesCS3D01G488800 chr3D 100.000 2702 0 0 1 2702 583223713 583221012 0.000000e+00 4990.0
1 TraesCS3D01G488800 chr3D 92.052 2164 128 16 359 2512 583185877 583183748 0.000000e+00 3003.0
2 TraesCS3D01G488800 chr3D 92.063 2167 122 21 359 2512 583282757 583280628 0.000000e+00 3003.0
3 TraesCS3D01G488800 chr3D 86.620 1278 149 16 673 1943 583162284 583161022 0.000000e+00 1393.0
4 TraesCS3D01G488800 chr3D 97.368 190 5 0 2513 2702 269230736 269230925 9.330000e-85 324.0
5 TraesCS3D01G488800 chr3D 97.368 190 5 0 2513 2702 457443305 457443116 9.330000e-85 324.0
6 TraesCS3D01G488800 chr3D 84.375 288 36 5 2192 2479 583188629 583188351 9.530000e-70 274.0
7 TraesCS3D01G488800 chr3D 85.338 266 28 8 373 636 583179644 583179388 5.740000e-67 265.0
8 TraesCS3D01G488800 chr3D 85.772 246 25 3 359 604 583179886 583179651 4.470000e-63 252.0
9 TraesCS3D01G488800 chr3D 83.051 118 15 5 152 266 583027638 583027523 4.760000e-18 102.0
10 TraesCS3D01G488800 chr3D 81.667 120 17 5 152 268 583288544 583288427 7.960000e-16 95.3
11 TraesCS3D01G488800 chr3B 88.288 2553 182 61 1 2479 780339813 780337304 0.000000e+00 2950.0
12 TraesCS3D01G488800 chr3B 91.273 1971 115 27 531 2479 780324273 780322338 0.000000e+00 2634.0
13 TraesCS3D01G488800 chr3B 91.218 1970 117 26 531 2479 780314294 780312360 0.000000e+00 2628.0
14 TraesCS3D01G488800 chr3B 92.229 1467 88 10 451 1914 780300278 780298835 0.000000e+00 2054.0
15 TraesCS3D01G488800 chr3B 86.914 810 56 20 1690 2479 780317743 780316964 0.000000e+00 863.0
16 TraesCS3D01G488800 chr3B 86.914 810 56 20 1690 2479 780327722 780326943 0.000000e+00 863.0
17 TraesCS3D01G488800 chr3B 89.062 512 41 11 2011 2515 780298825 780298322 2.950000e-174 621.0
18 TraesCS3D01G488800 chr3B 92.421 409 26 3 2104 2512 780332516 780332113 1.800000e-161 579.0
19 TraesCS3D01G488800 chr3B 91.443 409 30 4 2104 2512 780308093 780307690 8.450000e-155 556.0
20 TraesCS3D01G488800 chr3B 94.982 279 9 5 531 808 780328007 780327733 1.490000e-117 433.0
21 TraesCS3D01G488800 chr3B 84.110 365 23 11 1 330 780314931 780314567 1.210000e-83 320.0
22 TraesCS3D01G488800 chr3B 84.110 365 23 11 1 330 780320305 780319941 1.210000e-83 320.0
23 TraesCS3D01G488800 chr3B 84.110 365 23 11 1 330 780324910 780324546 1.210000e-83 320.0
24 TraesCS3D01G488800 chr3B 84.066 364 23 11 2 330 780328643 780328280 4.340000e-83 318.0
25 TraesCS3D01G488800 chr3B 94.118 153 8 1 1885 2036 780304203 780304051 5.820000e-57 231.0
26 TraesCS3D01G488800 chr3B 92.254 142 11 0 359 500 780314437 780314296 4.560000e-48 202.0
27 TraesCS3D01G488800 chr3B 92.254 142 11 0 359 500 780328150 780328009 4.560000e-48 202.0
28 TraesCS3D01G488800 chr3B 91.549 142 12 0 359 500 780324416 780324275 2.120000e-46 196.0
29 TraesCS3D01G488800 chrUn 90.834 1691 104 21 810 2479 352585812 352587472 0.000000e+00 2217.0
30 TraesCS3D01G488800 chrUn 87.164 1301 128 23 721 2002 101984261 101982981 0.000000e+00 1441.0
31 TraesCS3D01G488800 chrUn 91.667 72 2 4 391 462 101990224 101990157 2.210000e-16 97.1
32 TraesCS3D01G488800 chr6B 82.934 1793 211 50 724 2479 62688932 62687198 0.000000e+00 1528.0
33 TraesCS3D01G488800 chr6B 82.597 1787 211 54 724 2478 62618670 62616952 0.000000e+00 1485.0
34 TraesCS3D01G488800 chr6B 95.238 42 2 0 1 42 62689781 62689740 1.740000e-07 67.6
35 TraesCS3D01G488800 chr1D 97.895 190 4 0 2513 2702 144592366 144592555 2.010000e-86 329.0
36 TraesCS3D01G488800 chr1D 96.859 191 6 0 2512 2702 449332283 449332093 1.210000e-83 320.0
37 TraesCS3D01G488800 chr1D 96.859 191 5 1 2512 2702 200059837 200060026 4.340000e-83 318.0
38 TraesCS3D01G488800 chr4D 96.907 194 5 1 2509 2702 386870047 386870239 9.330000e-85 324.0
39 TraesCS3D01G488800 chr4D 96.842 190 6 0 2513 2702 44522986 44523175 4.340000e-83 318.0
40 TraesCS3D01G488800 chr5D 96.875 192 6 0 2511 2702 527820014 527820205 3.360000e-84 322.0
41 TraesCS3D01G488800 chr3A 95.431 197 8 1 2506 2702 43146299 43146104 2.020000e-81 313.0
42 TraesCS3D01G488800 chr7D 92.857 42 2 1 1 41 264320950 264320991 2.910000e-05 60.2


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 TraesCS3D01G488800 chr3D 583221012 583223713 2701 True 4990.000000 4990 100.000000 1 2702 1 chr3D.!!$R4 2701
1 TraesCS3D01G488800 chr3D 583280628 583282757 2129 True 3003.000000 3003 92.063000 359 2512 1 chr3D.!!$R5 2153
2 TraesCS3D01G488800 chr3D 583161022 583162284 1262 True 1393.000000 1393 86.620000 673 1943 1 chr3D.!!$R3 1270
3 TraesCS3D01G488800 chr3D 583179388 583188629 9241 True 948.500000 3003 86.884250 359 2512 4 chr3D.!!$R7 2153
4 TraesCS3D01G488800 chr3B 780337304 780339813 2509 True 2950.000000 2950 88.288000 1 2479 1 chr3B.!!$R1 2478
5 TraesCS3D01G488800 chr3B 780298322 780308093 9771 True 865.500000 2054 91.713000 451 2515 4 chr3B.!!$R2 2064
6 TraesCS3D01G488800 chr3B 780312360 780332516 20156 True 759.846154 2634 88.936538 1 2512 13 chr3B.!!$R3 2511
7 TraesCS3D01G488800 chrUn 352585812 352587472 1660 False 2217.000000 2217 90.834000 810 2479 1 chrUn.!!$F1 1669
8 TraesCS3D01G488800 chrUn 101982981 101984261 1280 True 1441.000000 1441 87.164000 721 2002 1 chrUn.!!$R1 1281
9 TraesCS3D01G488800 chr6B 62616952 62618670 1718 True 1485.000000 1485 82.597000 724 2478 1 chr6B.!!$R1 1754
10 TraesCS3D01G488800 chr6B 62687198 62689781 2583 True 797.800000 1528 89.086000 1 2479 2 chr6B.!!$R2 2478

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
339 4285 0.042731 TTCCCGGGGTCTCTGAGAAT 59.957 55.0 23.5 0.0 0.0 2.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2140 23327 0.036765 TAGGTGTGACGCAACCATCC 60.037 55.0 0.0 0.0 34.7 3.51 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
55 3969 6.127730 ACAAGGTCCCAATCGATCAATTTTAC 60.128 38.462 0.00 0.00 0.00 2.01
67 3981 8.833231 TCGATCAATTTTACTATCCAGATTCC 57.167 34.615 0.00 0.00 0.00 3.01
109 4023 2.288825 TGCACTACTCTGGCACTACAAC 60.289 50.000 0.00 0.00 31.58 3.32
176 4117 9.632638 ACTATATCATTTAAGCATTGAAGGTGT 57.367 29.630 0.00 0.00 0.00 4.16
266 4212 8.066612 TCTGAGAAAGAAACAATCCAAACTTT 57.933 30.769 0.00 0.00 29.54 2.66
269 4215 9.150348 TGAGAAAGAAACAATCCAAACTTTTTC 57.850 29.630 0.00 0.00 32.80 2.29
272 4218 7.520119 AAGAAACAATCCAAACTTTTTCGTC 57.480 32.000 0.00 0.00 0.00 4.20
274 4220 5.592104 AACAATCCAAACTTTTTCGTCCT 57.408 34.783 0.00 0.00 0.00 3.85
276 4222 5.972935 ACAATCCAAACTTTTTCGTCCTTT 58.027 33.333 0.00 0.00 0.00 3.11
277 4223 6.040247 ACAATCCAAACTTTTTCGTCCTTTC 58.960 36.000 0.00 0.00 0.00 2.62
278 4224 4.642445 TCCAAACTTTTTCGTCCTTTCC 57.358 40.909 0.00 0.00 0.00 3.13
279 4225 4.017808 TCCAAACTTTTTCGTCCTTTCCA 58.982 39.130 0.00 0.00 0.00 3.53
281 4227 5.828859 TCCAAACTTTTTCGTCCTTTCCATA 59.171 36.000 0.00 0.00 0.00 2.74
283 4229 7.666388 TCCAAACTTTTTCGTCCTTTCCATATA 59.334 33.333 0.00 0.00 0.00 0.86
284 4230 8.301002 CCAAACTTTTTCGTCCTTTCCATATAA 58.699 33.333 0.00 0.00 0.00 0.98
285 4231 9.855021 CAAACTTTTTCGTCCTTTCCATATAAT 57.145 29.630 0.00 0.00 0.00 1.28
288 4234 7.122055 ACTTTTTCGTCCTTTCCATATAATGCA 59.878 33.333 0.00 0.00 0.00 3.96
289 4235 7.581213 TTTTCGTCCTTTCCATATAATGCAT 57.419 32.000 0.00 0.00 0.00 3.96
290 4236 6.558771 TTCGTCCTTTCCATATAATGCATG 57.441 37.500 0.00 0.00 0.00 4.06
291 4237 4.455533 TCGTCCTTTCCATATAATGCATGC 59.544 41.667 11.82 11.82 0.00 4.06
293 4239 5.278414 CGTCCTTTCCATATAATGCATGCAA 60.278 40.000 26.68 9.94 0.00 4.08
296 4242 6.550481 TCCTTTCCATATAATGCATGCAAAGA 59.450 34.615 26.68 13.79 0.00 2.52
298 4244 7.170320 CCTTTCCATATAATGCATGCAAAGAAC 59.830 37.037 26.68 0.00 0.00 3.01
300 4246 6.741109 TCCATATAATGCATGCAAAGAACAG 58.259 36.000 26.68 12.00 0.00 3.16
303 4249 2.624316 ATGCATGCAAAGAACAGTCG 57.376 45.000 26.68 0.00 0.00 4.18
304 4250 1.592064 TGCATGCAAAGAACAGTCGA 58.408 45.000 20.30 0.00 0.00 4.20
306 4252 1.264020 GCATGCAAAGAACAGTCGACA 59.736 47.619 19.50 0.00 0.00 4.35
307 4253 2.908634 CATGCAAAGAACAGTCGACAC 58.091 47.619 19.50 6.17 0.00 3.67
308 4254 2.309528 TGCAAAGAACAGTCGACACT 57.690 45.000 19.50 8.42 0.00 3.55
309 4255 2.627945 TGCAAAGAACAGTCGACACTT 58.372 42.857 19.50 13.73 0.00 3.16
310 4256 3.006940 TGCAAAGAACAGTCGACACTTT 58.993 40.909 19.50 18.22 0.00 2.66
311 4257 4.185394 TGCAAAGAACAGTCGACACTTTA 58.815 39.130 19.50 7.02 31.11 1.85
312 4258 4.814234 TGCAAAGAACAGTCGACACTTTAT 59.186 37.500 19.50 1.67 31.11 1.40
313 4259 5.986741 TGCAAAGAACAGTCGACACTTTATA 59.013 36.000 19.50 11.64 31.11 0.98
314 4260 6.649141 TGCAAAGAACAGTCGACACTTTATAT 59.351 34.615 19.50 0.56 31.11 0.86
315 4261 6.955963 GCAAAGAACAGTCGACACTTTATATG 59.044 38.462 19.50 6.98 31.11 1.78
316 4262 6.648725 AAGAACAGTCGACACTTTATATGC 57.351 37.500 19.50 0.00 0.00 3.14
317 4263 5.967088 AGAACAGTCGACACTTTATATGCT 58.033 37.500 19.50 0.00 0.00 3.79
320 4266 5.907207 ACAGTCGACACTTTATATGCTCAT 58.093 37.500 19.50 0.00 0.00 2.90
321 4267 6.341316 ACAGTCGACACTTTATATGCTCATT 58.659 36.000 19.50 0.00 0.00 2.57
325 4271 4.150627 CGACACTTTATATGCTCATTCCCG 59.849 45.833 0.00 0.00 0.00 5.14
326 4272 4.389374 ACACTTTATATGCTCATTCCCGG 58.611 43.478 0.00 0.00 0.00 5.73
327 4273 3.753272 CACTTTATATGCTCATTCCCGGG 59.247 47.826 16.85 16.85 0.00 5.73
328 4274 3.244911 ACTTTATATGCTCATTCCCGGGG 60.245 47.826 23.50 6.77 0.00 5.73
329 4275 2.038863 TATATGCTCATTCCCGGGGT 57.961 50.000 23.50 7.14 0.00 4.95
331 4277 0.399949 TATGCTCATTCCCGGGGTCT 60.400 55.000 23.50 1.97 0.00 3.85
332 4278 1.700042 ATGCTCATTCCCGGGGTCTC 61.700 60.000 23.50 6.04 0.00 3.36
333 4279 2.066999 GCTCATTCCCGGGGTCTCT 61.067 63.158 23.50 0.00 0.00 3.10
334 4280 1.826024 CTCATTCCCGGGGTCTCTG 59.174 63.158 23.50 11.24 0.00 3.35
336 4282 0.687757 TCATTCCCGGGGTCTCTGAG 60.688 60.000 23.50 0.00 0.00 3.35
339 4285 0.042731 TTCCCGGGGTCTCTGAGAAT 59.957 55.000 23.50 0.00 0.00 2.40
340 4286 0.397254 TCCCGGGGTCTCTGAGAATC 60.397 60.000 23.50 4.93 0.00 2.52
504 7870 1.387295 GCCTAAACATGCCAGCTCCC 61.387 60.000 0.00 0.00 0.00 4.30
507 7873 0.698238 TAAACATGCCAGCTCCCACT 59.302 50.000 0.00 0.00 0.00 4.00
536 7902 4.929211 GGCTTTAACCTGTAATTTGCAAGG 59.071 41.667 0.00 0.00 0.00 3.61
567 7933 7.602265 CCACCAAGGAAAACACCTTATTAAATG 59.398 37.037 0.00 0.00 46.94 2.32
568 7934 8.147704 CACCAAGGAAAACACCTTATTAAATGT 58.852 33.333 0.00 0.00 46.94 2.71
569 7935 8.710239 ACCAAGGAAAACACCTTATTAAATGTT 58.290 29.630 0.00 1.63 46.94 2.71
787 11910 2.967599 AGTGTTGCGATCTCTATGCA 57.032 45.000 0.00 0.00 36.72 3.96
805 11928 1.134159 GCATCTGCCAGATCTTGAGGT 60.134 52.381 3.68 0.00 31.32 3.85
812 11958 3.711190 TGCCAGATCTTGAGGTATAGCAA 59.289 43.478 4.48 0.00 0.00 3.91
876 12022 4.202461 ACCAATCAGATACCACAACACAGT 60.202 41.667 0.00 0.00 0.00 3.55
1033 12185 5.584649 CACCAAAGATCGATAAGTTTGCCTA 59.415 40.000 16.51 0.00 0.00 3.93
1096 12248 1.280133 ACTGCCTAGAAGCAAGCATCA 59.720 47.619 0.00 0.00 43.52 3.07
1158 12310 2.600867 GAGTCTTGCAAGCATCTACGAC 59.399 50.000 21.99 11.87 0.00 4.34
1323 12475 3.265221 TCATCATCCAAGAGCTCCAACTT 59.735 43.478 10.93 0.00 0.00 2.66
1605 12757 2.229784 GGAGGAACAATTGCAGGAGTTG 59.770 50.000 5.05 0.00 0.00 3.16
1629 12781 5.330455 AGTGCAGTATCGAAGATCTTCAA 57.670 39.130 29.93 16.84 45.12 2.69
1841 22989 4.697352 AGACCAAAGTTTTGATCCATCTCG 59.303 41.667 6.18 0.00 40.55 4.04
1899 23049 7.963465 GCTTTCTGATGAATATATGCATGACAG 59.037 37.037 11.17 12.33 31.56 3.51
1928 23078 6.549912 AATGTGTATGATGTGAATCCATCG 57.450 37.500 7.05 0.00 43.39 3.84
1949 23113 4.449743 TCGTGTATTTGCTAGGTTTGTGTC 59.550 41.667 0.00 0.00 0.00 3.67
1963 23127 4.803613 GGTTTGTGTCACTGGTTTCATTTC 59.196 41.667 4.27 0.00 0.00 2.17
2033 23212 9.961265 AGCTTTTTACAAGTTAACATTACCTTC 57.039 29.630 8.61 0.00 0.00 3.46
2136 23323 3.050275 GCCAGGTCGAAGCCACAC 61.050 66.667 0.00 0.00 0.00 3.82
2140 23327 3.041940 GGTCGAAGCCACACGGTG 61.042 66.667 6.58 6.58 33.28 4.94
2175 23372 2.239654 CACCTAGCCAGATTCCCTTCAA 59.760 50.000 0.00 0.00 0.00 2.69
2176 23373 3.117738 CACCTAGCCAGATTCCCTTCAAT 60.118 47.826 0.00 0.00 0.00 2.57
2272 23471 6.788243 TGATAAGTGTGCATTGCTGATAAAG 58.212 36.000 10.49 0.00 0.00 1.85
2283 23482 7.446319 TGCATTGCTGATAAAGTCATATAGCTT 59.554 33.333 10.49 0.00 35.97 3.74
2416 23622 7.095523 GCATGATGTTATTTGGTATTTCATGGC 60.096 37.037 0.00 1.73 39.54 4.40
2512 23720 4.741239 ATGACCCCCGGCCTCTGT 62.741 66.667 0.00 0.00 0.00 3.41
2520 23728 3.991051 CGGCCTCTGTGTCGTGGT 61.991 66.667 0.00 0.00 0.00 4.16
2521 23729 2.426023 GGCCTCTGTGTCGTGGTT 59.574 61.111 0.00 0.00 0.00 3.67
2522 23730 1.227853 GGCCTCTGTGTCGTGGTTT 60.228 57.895 0.00 0.00 0.00 3.27
2525 23733 1.663695 CCTCTGTGTCGTGGTTTTGT 58.336 50.000 0.00 0.00 0.00 2.83
2526 23734 1.597663 CCTCTGTGTCGTGGTTTTGTC 59.402 52.381 0.00 0.00 0.00 3.18
2527 23735 2.276201 CTCTGTGTCGTGGTTTTGTCA 58.724 47.619 0.00 0.00 0.00 3.58
2528 23736 2.004017 TCTGTGTCGTGGTTTTGTCAC 58.996 47.619 0.00 0.00 0.00 3.67
2536 23744 0.950836 TGGTTTTGTCACGGCAGATG 59.049 50.000 0.00 0.00 0.00 2.90
2538 23746 1.069227 GGTTTTGTCACGGCAGATGTC 60.069 52.381 0.00 0.00 0.00 3.06
2539 23747 1.069227 GTTTTGTCACGGCAGATGTCC 60.069 52.381 0.00 0.00 0.00 4.02
2541 23749 1.262417 TTGTCACGGCAGATGTCCTA 58.738 50.000 0.00 0.00 0.00 2.94
2542 23750 0.817654 TGTCACGGCAGATGTCCTAG 59.182 55.000 0.00 0.00 0.00 3.02
2543 23751 0.818296 GTCACGGCAGATGTCCTAGT 59.182 55.000 0.00 0.00 0.00 2.57
2544 23752 0.817654 TCACGGCAGATGTCCTAGTG 59.182 55.000 0.00 0.00 0.00 2.74
2545 23753 0.817654 CACGGCAGATGTCCTAGTGA 59.182 55.000 0.00 0.00 0.00 3.41
2547 23755 1.899814 ACGGCAGATGTCCTAGTGAAA 59.100 47.619 0.00 0.00 0.00 2.69
2548 23756 2.093973 ACGGCAGATGTCCTAGTGAAAG 60.094 50.000 0.00 0.00 0.00 2.62
2549 23757 2.739932 CGGCAGATGTCCTAGTGAAAGG 60.740 54.545 0.00 0.00 38.06 3.11
2560 23768 4.458295 TCCTAGTGAAAGGACTTAGTCGTG 59.542 45.833 8.39 0.00 40.86 4.35
2561 23769 3.662247 AGTGAAAGGACTTAGTCGTGG 57.338 47.619 8.39 0.00 32.65 4.94
2562 23770 3.228453 AGTGAAAGGACTTAGTCGTGGA 58.772 45.455 8.39 0.00 32.65 4.02
2564 23772 2.029290 TGAAAGGACTTAGTCGTGGAGC 60.029 50.000 8.39 0.20 32.65 4.70
2565 23773 0.896226 AAGGACTTAGTCGTGGAGCC 59.104 55.000 8.39 0.00 32.65 4.70
2566 23774 0.251653 AGGACTTAGTCGTGGAGCCA 60.252 55.000 6.78 0.00 32.65 4.75
2568 23776 1.202428 GGACTTAGTCGTGGAGCCATC 60.202 57.143 6.27 0.00 32.65 3.51
2569 23777 0.456221 ACTTAGTCGTGGAGCCATCG 59.544 55.000 0.00 0.00 0.00 3.84
2570 23778 0.872021 CTTAGTCGTGGAGCCATCGC 60.872 60.000 0.00 0.00 0.00 4.58
2571 23779 2.607668 TTAGTCGTGGAGCCATCGCG 62.608 60.000 0.00 0.00 41.18 5.87
2572 23780 4.492160 GTCGTGGAGCCATCGCGA 62.492 66.667 13.09 13.09 41.18 5.87
2573 23781 4.492160 TCGTGGAGCCATCGCGAC 62.492 66.667 12.93 0.00 41.18 5.19
2580 23788 2.960129 GCCATCGCGACGGGTTAG 60.960 66.667 24.20 0.00 0.00 2.34
2581 23789 2.960129 CCATCGCGACGGGTTAGC 60.960 66.667 14.67 0.00 0.00 3.09
2582 23790 2.104331 CATCGCGACGGGTTAGCT 59.896 61.111 12.93 0.00 0.00 3.32
2583 23791 1.518572 CATCGCGACGGGTTAGCTT 60.519 57.895 12.93 0.00 0.00 3.74
2584 23792 0.248743 CATCGCGACGGGTTAGCTTA 60.249 55.000 12.93 0.00 0.00 3.09
2585 23793 0.457035 ATCGCGACGGGTTAGCTTAA 59.543 50.000 12.93 0.00 0.00 1.85
2587 23795 0.643820 CGCGACGGGTTAGCTTAAAG 59.356 55.000 0.00 0.00 0.00 1.85
2588 23796 1.004595 GCGACGGGTTAGCTTAAAGG 58.995 55.000 0.00 0.00 0.00 3.11
2589 23797 1.648504 CGACGGGTTAGCTTAAAGGG 58.351 55.000 0.00 0.00 0.00 3.95
2590 23798 1.741394 CGACGGGTTAGCTTAAAGGGG 60.741 57.143 0.00 0.00 0.00 4.79
2591 23799 1.280133 GACGGGTTAGCTTAAAGGGGT 59.720 52.381 0.00 0.00 0.00 4.95
2592 23800 1.706866 ACGGGTTAGCTTAAAGGGGTT 59.293 47.619 0.00 0.00 0.00 4.11
2593 23801 2.912295 ACGGGTTAGCTTAAAGGGGTTA 59.088 45.455 0.00 0.00 0.00 2.85
2595 23803 4.202556 ACGGGTTAGCTTAAAGGGGTTAAA 60.203 41.667 0.00 0.00 31.22 1.52
2596 23804 4.397103 CGGGTTAGCTTAAAGGGGTTAAAG 59.603 45.833 0.00 0.00 31.22 1.85
2598 23806 4.142534 GGTTAGCTTAAAGGGGTTAAAGCG 60.143 45.833 0.00 0.00 34.09 4.68
2600 23808 2.040679 AGCTTAAAGGGGTTAAAGCGGA 59.959 45.455 0.00 0.00 34.09 5.54
2602 23810 3.414269 CTTAAAGGGGTTAAAGCGGACA 58.586 45.455 0.00 0.00 31.22 4.02
2604 23812 2.368311 AAGGGGTTAAAGCGGACAAA 57.632 45.000 0.00 0.00 0.00 2.83
2605 23813 1.905637 AGGGGTTAAAGCGGACAAAG 58.094 50.000 0.00 0.00 0.00 2.77
2606 23814 0.885879 GGGGTTAAAGCGGACAAAGG 59.114 55.000 0.00 0.00 0.00 3.11
2607 23815 1.546099 GGGGTTAAAGCGGACAAAGGA 60.546 52.381 0.00 0.00 0.00 3.36
2608 23816 1.538512 GGGTTAAAGCGGACAAAGGAC 59.461 52.381 0.00 0.00 0.00 3.85
2614 23822 3.862124 CGGACAAAGGACGCAGAG 58.138 61.111 0.00 0.00 0.00 3.35
2616 23824 0.734253 CGGACAAAGGACGCAGAGAG 60.734 60.000 0.00 0.00 0.00 3.20
2618 23826 1.270358 GGACAAAGGACGCAGAGAGTT 60.270 52.381 0.00 0.00 0.00 3.01
2619 23827 2.484889 GACAAAGGACGCAGAGAGTTT 58.515 47.619 0.00 0.00 0.00 2.66
2623 23831 5.790593 ACAAAGGACGCAGAGAGTTTTATA 58.209 37.500 0.00 0.00 0.00 0.98
2625 23833 5.662674 AAGGACGCAGAGAGTTTTATACT 57.337 39.130 0.00 0.00 40.71 2.12
2626 23834 5.000012 AGGACGCAGAGAGTTTTATACTG 58.000 43.478 0.00 0.00 37.17 2.74
2627 23835 4.113354 GGACGCAGAGAGTTTTATACTGG 58.887 47.826 0.00 0.00 37.17 4.00
2629 23837 5.148651 ACGCAGAGAGTTTTATACTGGTT 57.851 39.130 0.00 0.00 37.17 3.67
2630 23838 5.169295 ACGCAGAGAGTTTTATACTGGTTC 58.831 41.667 0.00 0.00 37.17 3.62
2631 23839 4.265556 CGCAGAGAGTTTTATACTGGTTCG 59.734 45.833 0.00 0.00 37.17 3.95
2633 23841 4.567159 CAGAGAGTTTTATACTGGTTCGGC 59.433 45.833 0.00 0.00 37.17 5.54
2634 23842 3.869832 GAGAGTTTTATACTGGTTCGGCC 59.130 47.826 0.00 0.00 37.17 6.13
2635 23843 2.941064 GAGTTTTATACTGGTTCGGCCC 59.059 50.000 0.00 0.00 37.17 5.80
2636 23844 2.019249 GTTTTATACTGGTTCGGCCCC 58.981 52.381 0.00 0.00 36.04 5.80
2637 23845 1.587066 TTTATACTGGTTCGGCCCCT 58.413 50.000 0.00 0.00 36.04 4.79
2638 23846 1.587066 TTATACTGGTTCGGCCCCTT 58.413 50.000 0.00 0.00 36.04 3.95
2639 23847 2.475339 TATACTGGTTCGGCCCCTTA 57.525 50.000 0.00 0.00 36.04 2.69
2640 23848 1.815757 ATACTGGTTCGGCCCCTTAT 58.184 50.000 0.00 0.00 36.04 1.73
2641 23849 0.834612 TACTGGTTCGGCCCCTTATG 59.165 55.000 0.00 0.00 36.04 1.90
2642 23850 1.152963 CTGGTTCGGCCCCTTATGG 60.153 63.158 0.00 0.00 36.04 2.74
2643 23851 1.921869 CTGGTTCGGCCCCTTATGGT 61.922 60.000 0.00 0.00 36.04 3.55
2644 23852 1.453197 GGTTCGGCCCCTTATGGTG 60.453 63.158 0.00 0.00 0.00 4.17
2648 23856 1.152963 CGGCCCCTTATGGTGAAGG 60.153 63.158 0.00 0.00 44.96 3.46
2649 23857 1.921869 CGGCCCCTTATGGTGAAGGT 61.922 60.000 0.00 0.00 44.02 3.50
2650 23858 1.218844 GGCCCCTTATGGTGAAGGTA 58.781 55.000 0.00 0.00 44.02 3.08
2651 23859 1.567175 GGCCCCTTATGGTGAAGGTAA 59.433 52.381 0.00 0.00 44.02 2.85
2654 23862 3.898482 CCCCTTATGGTGAAGGTAAAGG 58.102 50.000 1.74 0.00 44.02 3.11
2656 23864 3.288092 CCTTATGGTGAAGGTAAAGGCC 58.712 50.000 0.00 0.00 41.09 5.19
2659 23867 2.757894 TGGTGAAGGTAAAGGCCAAA 57.242 45.000 5.01 0.00 0.00 3.28
2660 23868 3.252554 TGGTGAAGGTAAAGGCCAAAT 57.747 42.857 5.01 0.00 0.00 2.32
2663 23871 3.161866 GTGAAGGTAAAGGCCAAATCCA 58.838 45.455 5.01 0.00 0.00 3.41
2664 23872 3.193479 GTGAAGGTAAAGGCCAAATCCAG 59.807 47.826 5.01 0.00 0.00 3.86
2665 23873 3.181423 TGAAGGTAAAGGCCAAATCCAGT 60.181 43.478 5.01 0.00 0.00 4.00
2666 23874 3.542969 AGGTAAAGGCCAAATCCAGTT 57.457 42.857 5.01 0.00 0.00 3.16
2667 23875 3.165071 AGGTAAAGGCCAAATCCAGTTG 58.835 45.455 5.01 0.00 0.00 3.16
2668 23876 2.897326 GGTAAAGGCCAAATCCAGTTGT 59.103 45.455 5.01 0.00 0.00 3.32
2670 23878 3.473923 AAAGGCCAAATCCAGTTGTTG 57.526 42.857 5.01 0.00 0.00 3.33
2672 23880 1.688197 AGGCCAAATCCAGTTGTTGTG 59.312 47.619 5.01 0.00 0.00 3.33
2673 23881 1.270252 GGCCAAATCCAGTTGTTGTGG 60.270 52.381 0.00 0.00 36.28 4.17
2679 23887 6.760220 CCAAATCCAGTTGTTGTGGAATTGC 61.760 44.000 12.54 0.00 46.92 3.56
2680 23888 2.665165 TCCAGTTGTTGTGGAATTGCT 58.335 42.857 0.00 0.00 41.32 3.91
2681 23889 3.826524 TCCAGTTGTTGTGGAATTGCTA 58.173 40.909 0.00 0.00 41.32 3.49
2682 23890 3.820467 TCCAGTTGTTGTGGAATTGCTAG 59.180 43.478 0.00 0.00 41.32 3.42
2683 23891 3.057315 CCAGTTGTTGTGGAATTGCTAGG 60.057 47.826 0.00 0.00 37.23 3.02
2684 23892 3.057315 CAGTTGTTGTGGAATTGCTAGGG 60.057 47.826 0.00 0.00 0.00 3.53
2685 23893 2.890945 GTTGTTGTGGAATTGCTAGGGT 59.109 45.455 0.00 0.00 0.00 4.34
2686 23894 3.237268 TGTTGTGGAATTGCTAGGGTT 57.763 42.857 0.00 0.00 0.00 4.11
2691 23899 5.450818 TGTGGAATTGCTAGGGTTTCTAT 57.549 39.130 0.00 0.00 0.00 1.98
2692 23900 5.192927 TGTGGAATTGCTAGGGTTTCTATG 58.807 41.667 0.00 0.00 0.00 2.23
2696 23904 5.437060 GAATTGCTAGGGTTTCTATGACCA 58.563 41.667 0.00 0.00 38.98 4.02
2697 23905 4.487714 TTGCTAGGGTTTCTATGACCAG 57.512 45.455 0.00 0.00 38.98 4.00
2698 23906 2.771943 TGCTAGGGTTTCTATGACCAGG 59.228 50.000 0.00 0.00 38.98 4.45
2700 23908 2.661176 AGGGTTTCTATGACCAGGGA 57.339 50.000 0.00 0.00 38.98 4.20
2701 23909 2.482494 AGGGTTTCTATGACCAGGGAG 58.518 52.381 0.00 0.00 38.98 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 3969 1.421646 GGTGGTGGGGAATCTGGATAG 59.578 57.143 0.00 0.00 0.00 2.08
67 3981 2.283101 CCATGTGGTGGTGGTGGG 60.283 66.667 0.00 0.00 43.44 4.61
202 4148 7.367285 TGTAGAATATGCAAAAAGTTGTGGTC 58.633 34.615 0.00 0.00 37.06 4.02
247 4193 7.064134 GGACGAAAAAGTTTGGATTGTTTCTTT 59.936 33.333 0.00 0.00 0.00 2.52
252 4198 5.592104 AGGACGAAAAAGTTTGGATTGTT 57.408 34.783 0.00 0.00 0.00 2.83
253 4199 5.592104 AAGGACGAAAAAGTTTGGATTGT 57.408 34.783 0.00 0.00 0.00 2.71
254 4200 5.462068 GGAAAGGACGAAAAAGTTTGGATTG 59.538 40.000 0.00 0.00 0.00 2.67
266 4212 6.514870 GCATGCATTATATGGAAAGGACGAAA 60.515 38.462 14.21 0.00 33.18 3.46
269 4215 4.216042 TGCATGCATTATATGGAAAGGACG 59.784 41.667 18.46 0.00 33.18 4.79
274 4220 7.554211 TGTTCTTTGCATGCATTATATGGAAA 58.446 30.769 23.37 8.36 41.49 3.13
276 4222 6.321945 ACTGTTCTTTGCATGCATTATATGGA 59.678 34.615 23.37 9.08 34.26 3.41
277 4223 6.509656 ACTGTTCTTTGCATGCATTATATGG 58.490 36.000 23.37 12.41 0.00 2.74
278 4224 6.358822 CGACTGTTCTTTGCATGCATTATATG 59.641 38.462 23.37 8.88 0.00 1.78
279 4225 6.260714 TCGACTGTTCTTTGCATGCATTATAT 59.739 34.615 23.37 2.47 0.00 0.86
281 4227 4.395854 TCGACTGTTCTTTGCATGCATTAT 59.604 37.500 23.37 1.24 0.00 1.28
283 4229 2.553602 TCGACTGTTCTTTGCATGCATT 59.446 40.909 23.37 0.00 0.00 3.56
284 4230 2.095567 GTCGACTGTTCTTTGCATGCAT 60.096 45.455 23.37 2.99 0.00 3.96
285 4231 1.264020 GTCGACTGTTCTTTGCATGCA 59.736 47.619 18.46 18.46 0.00 3.96
288 4234 2.838736 AGTGTCGACTGTTCTTTGCAT 58.161 42.857 17.92 0.00 0.00 3.96
289 4235 2.309528 AGTGTCGACTGTTCTTTGCA 57.690 45.000 17.92 0.00 0.00 4.08
290 4236 3.675467 AAAGTGTCGACTGTTCTTTGC 57.325 42.857 17.92 0.00 30.61 3.68
291 4237 6.955963 GCATATAAAGTGTCGACTGTTCTTTG 59.044 38.462 23.96 15.87 30.61 2.77
293 4239 6.398918 AGCATATAAAGTGTCGACTGTTCTT 58.601 36.000 17.92 12.43 30.61 2.52
296 4242 5.720202 TGAGCATATAAAGTGTCGACTGTT 58.280 37.500 17.92 10.24 30.61 3.16
298 4244 6.074088 GGAATGAGCATATAAAGTGTCGACTG 60.074 42.308 17.92 4.95 30.61 3.51
300 4246 5.177696 GGGAATGAGCATATAAAGTGTCGAC 59.822 44.000 9.11 9.11 0.00 4.20
303 4249 4.452455 CCGGGAATGAGCATATAAAGTGTC 59.548 45.833 0.00 0.00 0.00 3.67
304 4250 4.389374 CCGGGAATGAGCATATAAAGTGT 58.611 43.478 0.00 0.00 0.00 3.55
306 4252 3.244911 CCCCGGGAATGAGCATATAAAGT 60.245 47.826 26.32 0.00 0.00 2.66
307 4253 3.244911 ACCCCGGGAATGAGCATATAAAG 60.245 47.826 26.32 0.49 0.00 1.85
308 4254 2.714250 ACCCCGGGAATGAGCATATAAA 59.286 45.455 26.32 0.00 0.00 1.40
309 4255 2.304761 GACCCCGGGAATGAGCATATAA 59.695 50.000 26.32 0.00 0.00 0.98
310 4256 1.906574 GACCCCGGGAATGAGCATATA 59.093 52.381 26.32 0.00 0.00 0.86
311 4257 0.693049 GACCCCGGGAATGAGCATAT 59.307 55.000 26.32 0.00 0.00 1.78
312 4258 0.399949 AGACCCCGGGAATGAGCATA 60.400 55.000 26.32 0.00 0.00 3.14
313 4259 1.694169 AGACCCCGGGAATGAGCAT 60.694 57.895 26.32 0.00 0.00 3.79
314 4260 2.285368 AGACCCCGGGAATGAGCA 60.285 61.111 26.32 0.00 0.00 4.26
315 4261 2.066999 AGAGACCCCGGGAATGAGC 61.067 63.158 26.32 5.95 0.00 4.26
316 4262 0.687757 TCAGAGACCCCGGGAATGAG 60.688 60.000 26.32 7.20 0.00 2.90
317 4263 0.687757 CTCAGAGACCCCGGGAATGA 60.688 60.000 26.32 16.52 0.00 2.57
320 4266 0.042731 ATTCTCAGAGACCCCGGGAA 59.957 55.000 26.32 4.70 0.00 3.97
321 4267 0.397254 GATTCTCAGAGACCCCGGGA 60.397 60.000 26.32 0.00 0.00 5.14
329 4275 8.039538 TTAGTCGTACTAACTGATTCTCAGAGA 58.960 37.037 10.94 0.00 46.84 3.10
331 4277 8.039538 TCTTAGTCGTACTAACTGATTCTCAGA 58.960 37.037 10.94 0.00 46.84 3.27
333 4279 7.280428 CCTCTTAGTCGTACTAACTGATTCTCA 59.720 40.741 7.76 0.00 35.89 3.27
334 4280 7.280652 ACCTCTTAGTCGTACTAACTGATTCTC 59.719 40.741 7.76 0.00 35.89 2.87
336 4282 7.319142 ACCTCTTAGTCGTACTAACTGATTC 57.681 40.000 7.76 0.00 35.89 2.52
339 4285 7.615403 TCTAACCTCTTAGTCGTACTAACTGA 58.385 38.462 7.76 0.23 35.89 3.41
340 4286 7.840342 TCTAACCTCTTAGTCGTACTAACTG 57.160 40.000 7.76 1.78 35.89 3.16
355 4301 7.885399 GGCATGACCATTTAATATCTAACCTCT 59.115 37.037 0.00 0.00 38.86 3.69
356 4302 7.148407 CGGCATGACCATTTAATATCTAACCTC 60.148 40.741 0.00 0.00 39.03 3.85
357 4303 6.655003 CGGCATGACCATTTAATATCTAACCT 59.345 38.462 0.00 0.00 39.03 3.50
420 4548 5.563592 TCAGCATGTTATCCCCATATTCTG 58.436 41.667 0.00 0.00 37.40 3.02
504 7870 3.214328 ACAGGTTAAAGCCTCAACAGTG 58.786 45.455 0.00 0.00 36.58 3.66
507 7873 6.737346 GCAAATTACAGGTTAAAGCCTCAACA 60.737 38.462 0.00 0.00 36.58 3.33
567 7933 7.611213 AACATTTAGCTGTGACATACCTAAC 57.389 36.000 0.00 0.00 0.00 2.34
568 7934 7.985184 CCTAACATTTAGCTGTGACATACCTAA 59.015 37.037 0.00 0.00 0.00 2.69
569 7935 7.125204 ACCTAACATTTAGCTGTGACATACCTA 59.875 37.037 0.00 0.00 0.00 3.08
787 11910 4.222588 GCTATACCTCAAGATCTGGCAGAT 59.777 45.833 29.19 29.19 37.73 2.90
805 11928 3.199727 TCTCCCACATGCTGTTTGCTATA 59.800 43.478 0.00 0.00 43.37 1.31
812 11958 2.573462 AGTACATCTCCCACATGCTGTT 59.427 45.455 0.00 0.00 0.00 3.16
1033 12185 0.251209 TCACTGACGTGAGGCCTAGT 60.251 55.000 4.42 6.45 44.85 2.57
1065 12217 0.901124 CTAGGCAGTGGAGCTCTTGT 59.099 55.000 14.64 0.00 34.17 3.16
1096 12248 2.309755 TGCTGATGGAATTGGAGGAAGT 59.690 45.455 0.00 0.00 0.00 3.01
1125 12277 2.027745 TGCAAGACTCCTGAGACCATTC 60.028 50.000 0.22 0.00 0.00 2.67
1158 12310 4.878397 AGGCAAATAATCTCTTCAAGACCG 59.122 41.667 0.00 0.00 36.65 4.79
1284 12436 0.752658 TGACCATCATCTCGGCGAAT 59.247 50.000 12.13 4.88 0.00 3.34
1323 12475 5.121811 GCATCATCTCCTTTTCTTAGAGCA 58.878 41.667 0.00 0.00 0.00 4.26
1506 12658 6.416415 TGGCATTTCCATTTGCTTCAATAAT 58.584 32.000 0.00 0.00 40.72 1.28
1509 12661 4.289238 TGGCATTTCCATTTGCTTCAAT 57.711 36.364 0.00 0.00 40.72 2.57
1605 12757 4.202060 TGAAGATCTTCGATACTGCACTCC 60.202 45.833 26.32 3.00 42.28 3.85
1629 12781 3.265221 TGAACAGATCTCCTGCTCCATTT 59.735 43.478 0.00 0.00 46.81 2.32
1899 23049 6.016777 GGATTCACATCATACACATTTCCTCC 60.017 42.308 0.00 0.00 0.00 4.30
1928 23078 5.238650 AGTGACACAAACCTAGCAAATACAC 59.761 40.000 8.59 0.00 0.00 2.90
1949 23113 5.766150 TTACCACAGAAATGAAACCAGTG 57.234 39.130 0.00 0.00 0.00 3.66
1963 23127 9.276590 TCATCTTGCTATTATCATTTACCACAG 57.723 33.333 0.00 0.00 0.00 3.66
1979 23143 7.442364 GCATGTAGGTCTAAAATCATCTTGCTA 59.558 37.037 0.00 0.00 0.00 3.49
2109 23292 0.968901 TCGACCTGGCGTGTCCTATT 60.969 55.000 9.66 0.00 35.26 1.73
2136 23323 2.358125 TGACGCAACCATCCACCG 60.358 61.111 0.00 0.00 0.00 4.94
2140 23327 0.036765 TAGGTGTGACGCAACCATCC 60.037 55.000 0.00 0.00 34.70 3.51
2175 23372 2.563620 TGATGGACAGCATTTGCAACAT 59.436 40.909 0.00 0.00 45.16 2.71
2176 23373 1.962100 TGATGGACAGCATTTGCAACA 59.038 42.857 0.00 0.00 45.16 3.33
2256 23455 7.020010 GCTATATGACTTTATCAGCAATGCAC 58.980 38.462 8.35 0.00 41.91 4.57
2368 23569 5.098211 GCAGAAGAAACCAGCATACAATTC 58.902 41.667 0.00 0.00 0.00 2.17
2416 23622 7.448748 TGATGCTCAATCCAATAATCATCTG 57.551 36.000 0.00 0.00 34.00 2.90
2489 23697 4.191015 GCCGGGGGTCATCCTTCC 62.191 72.222 2.18 0.00 35.33 3.46
2491 23699 4.760220 AGGCCGGGGGTCATCCTT 62.760 66.667 2.18 0.00 35.33 3.36
2516 23724 0.951558 ATCTGCCGTGACAAAACCAC 59.048 50.000 0.00 0.00 0.00 4.16
2517 23725 0.950836 CATCTGCCGTGACAAAACCA 59.049 50.000 0.00 0.00 0.00 3.67
2520 23728 1.202758 AGGACATCTGCCGTGACAAAA 60.203 47.619 0.00 0.00 0.00 2.44
2521 23729 0.396435 AGGACATCTGCCGTGACAAA 59.604 50.000 0.00 0.00 0.00 2.83
2522 23730 1.204704 CTAGGACATCTGCCGTGACAA 59.795 52.381 0.00 0.00 0.00 3.18
2525 23733 0.817654 CACTAGGACATCTGCCGTGA 59.182 55.000 0.00 0.00 0.00 4.35
2526 23734 0.817654 TCACTAGGACATCTGCCGTG 59.182 55.000 0.00 0.00 0.00 4.94
2527 23735 1.557099 TTCACTAGGACATCTGCCGT 58.443 50.000 0.00 0.00 0.00 5.68
2528 23736 2.544685 CTTTCACTAGGACATCTGCCG 58.455 52.381 0.00 0.00 0.00 5.69
2529 23737 2.501723 TCCTTTCACTAGGACATCTGCC 59.498 50.000 0.00 0.00 39.40 4.85
2530 23738 3.895232 TCCTTTCACTAGGACATCTGC 57.105 47.619 0.00 0.00 39.40 4.26
2538 23746 4.380655 CCACGACTAAGTCCTTTCACTAGG 60.381 50.000 0.00 0.00 36.59 3.02
2539 23747 4.458295 TCCACGACTAAGTCCTTTCACTAG 59.542 45.833 0.00 0.00 0.00 2.57
2541 23749 3.228453 TCCACGACTAAGTCCTTTCACT 58.772 45.455 0.00 0.00 0.00 3.41
2542 23750 3.576648 CTCCACGACTAAGTCCTTTCAC 58.423 50.000 0.00 0.00 0.00 3.18
2543 23751 2.029290 GCTCCACGACTAAGTCCTTTCA 60.029 50.000 0.00 0.00 0.00 2.69
2544 23752 2.608268 GCTCCACGACTAAGTCCTTTC 58.392 52.381 0.00 0.00 0.00 2.62
2545 23753 1.275573 GGCTCCACGACTAAGTCCTTT 59.724 52.381 0.00 0.00 0.00 3.11
2547 23755 0.251653 TGGCTCCACGACTAAGTCCT 60.252 55.000 0.00 0.00 0.00 3.85
2548 23756 0.824759 ATGGCTCCACGACTAAGTCC 59.175 55.000 0.00 0.00 0.00 3.85
2549 23757 1.534175 CGATGGCTCCACGACTAAGTC 60.534 57.143 0.00 0.00 0.00 3.01
2552 23760 1.141019 GCGATGGCTCCACGACTAA 59.859 57.895 12.62 0.00 35.83 2.24
2553 23761 2.805546 GCGATGGCTCCACGACTA 59.194 61.111 12.62 0.00 35.83 2.59
2554 23762 4.498520 CGCGATGGCTCCACGACT 62.499 66.667 0.00 0.00 36.88 4.18
2556 23764 4.492160 GTCGCGATGGCTCCACGA 62.492 66.667 14.06 5.77 36.88 4.35
2561 23769 3.420214 TAACCCGTCGCGATGGCTC 62.420 63.158 36.71 12.65 36.15 4.70
2562 23770 3.426117 CTAACCCGTCGCGATGGCT 62.426 63.158 36.71 27.65 36.15 4.75
2564 23772 2.901051 AAGCTAACCCGTCGCGATGG 62.901 60.000 35.49 35.49 37.23 3.51
2565 23773 0.248743 TAAGCTAACCCGTCGCGATG 60.249 55.000 21.42 21.42 0.00 3.84
2566 23774 0.457035 TTAAGCTAACCCGTCGCGAT 59.543 50.000 14.06 0.00 0.00 4.58
2568 23776 0.643820 CTTTAAGCTAACCCGTCGCG 59.356 55.000 0.00 0.00 0.00 5.87
2569 23777 1.004595 CCTTTAAGCTAACCCGTCGC 58.995 55.000 0.00 0.00 0.00 5.19
2570 23778 1.648504 CCCTTTAAGCTAACCCGTCG 58.351 55.000 0.00 0.00 0.00 5.12
2571 23779 1.280133 ACCCCTTTAAGCTAACCCGTC 59.720 52.381 0.00 0.00 0.00 4.79
2572 23780 1.365293 ACCCCTTTAAGCTAACCCGT 58.635 50.000 0.00 0.00 0.00 5.28
2573 23781 2.502142 AACCCCTTTAAGCTAACCCG 57.498 50.000 0.00 0.00 0.00 5.28
2574 23782 4.159135 GCTTTAACCCCTTTAAGCTAACCC 59.841 45.833 0.00 0.00 31.11 4.11
2575 23783 4.142534 CGCTTTAACCCCTTTAAGCTAACC 60.143 45.833 0.00 0.00 31.11 2.85
2576 23784 4.142534 CCGCTTTAACCCCTTTAAGCTAAC 60.143 45.833 0.00 0.00 31.11 2.34
2577 23785 4.011698 CCGCTTTAACCCCTTTAAGCTAA 58.988 43.478 0.00 0.00 31.11 3.09
2580 23788 2.163010 GTCCGCTTTAACCCCTTTAAGC 59.837 50.000 0.00 0.00 31.11 3.09
2581 23789 3.414269 TGTCCGCTTTAACCCCTTTAAG 58.586 45.455 0.00 0.00 31.11 1.85
2582 23790 3.505480 TGTCCGCTTTAACCCCTTTAA 57.495 42.857 0.00 0.00 0.00 1.52
2583 23791 3.505480 TTGTCCGCTTTAACCCCTTTA 57.495 42.857 0.00 0.00 0.00 1.85
2584 23792 2.368311 TTGTCCGCTTTAACCCCTTT 57.632 45.000 0.00 0.00 0.00 3.11
2585 23793 2.235891 CTTTGTCCGCTTTAACCCCTT 58.764 47.619 0.00 0.00 0.00 3.95
2587 23795 0.885879 CCTTTGTCCGCTTTAACCCC 59.114 55.000 0.00 0.00 0.00 4.95
2588 23796 1.538512 GTCCTTTGTCCGCTTTAACCC 59.461 52.381 0.00 0.00 0.00 4.11
2589 23797 1.196127 CGTCCTTTGTCCGCTTTAACC 59.804 52.381 0.00 0.00 0.00 2.85
2590 23798 1.399343 GCGTCCTTTGTCCGCTTTAAC 60.399 52.381 0.00 0.00 43.81 2.01
2591 23799 0.869730 GCGTCCTTTGTCCGCTTTAA 59.130 50.000 0.00 0.00 43.81 1.52
2592 23800 2.535588 GCGTCCTTTGTCCGCTTTA 58.464 52.632 0.00 0.00 43.81 1.85
2593 23801 3.340789 GCGTCCTTTGTCCGCTTT 58.659 55.556 0.00 0.00 43.81 3.51
2598 23806 0.318762 ACTCTCTGCGTCCTTTGTCC 59.681 55.000 0.00 0.00 0.00 4.02
2600 23808 2.622064 AAACTCTCTGCGTCCTTTGT 57.378 45.000 0.00 0.00 0.00 2.83
2602 23810 5.869888 CAGTATAAAACTCTCTGCGTCCTTT 59.130 40.000 0.00 0.00 35.76 3.11
2604 23812 4.142138 CCAGTATAAAACTCTCTGCGTCCT 60.142 45.833 0.00 0.00 35.76 3.85
2605 23813 4.113354 CCAGTATAAAACTCTCTGCGTCC 58.887 47.826 0.00 0.00 35.76 4.79
2606 23814 4.745649 ACCAGTATAAAACTCTCTGCGTC 58.254 43.478 0.00 0.00 35.76 5.19
2607 23815 4.803098 ACCAGTATAAAACTCTCTGCGT 57.197 40.909 0.00 0.00 35.76 5.24
2608 23816 4.265556 CGAACCAGTATAAAACTCTCTGCG 59.734 45.833 0.00 0.00 35.76 5.18
2610 23818 4.567159 GCCGAACCAGTATAAAACTCTCTG 59.433 45.833 0.00 0.00 35.76 3.35
2611 23819 4.382793 GGCCGAACCAGTATAAAACTCTCT 60.383 45.833 0.00 0.00 35.76 3.10
2613 23821 3.370209 GGGCCGAACCAGTATAAAACTCT 60.370 47.826 0.00 0.00 42.05 3.24
2614 23822 2.941064 GGGCCGAACCAGTATAAAACTC 59.059 50.000 0.00 0.00 42.05 3.01
2616 23824 2.019249 GGGGCCGAACCAGTATAAAAC 58.981 52.381 0.00 0.00 42.05 2.43
2618 23826 1.587066 AGGGGCCGAACCAGTATAAA 58.413 50.000 0.00 0.00 42.05 1.40
2619 23827 1.587066 AAGGGGCCGAACCAGTATAA 58.413 50.000 0.00 0.00 42.05 0.98
2623 23831 1.607612 CATAAGGGGCCGAACCAGT 59.392 57.895 0.00 0.00 42.05 4.00
2625 23833 1.926489 ACCATAAGGGGCCGAACCA 60.926 57.895 0.00 0.00 42.91 3.67
2626 23834 1.453197 CACCATAAGGGGCCGAACC 60.453 63.158 0.00 0.00 42.91 3.62
2627 23835 0.034863 TTCACCATAAGGGGCCGAAC 60.035 55.000 0.00 0.00 42.91 3.95
2629 23837 1.632018 CCTTCACCATAAGGGGCCGA 61.632 60.000 0.00 0.00 42.08 5.54
2630 23838 1.152963 CCTTCACCATAAGGGGCCG 60.153 63.158 0.00 0.00 42.08 6.13
2636 23844 3.963129 TGGCCTTTACCTTCACCATAAG 58.037 45.455 3.32 0.00 0.00 1.73
2637 23845 4.390129 TTGGCCTTTACCTTCACCATAA 57.610 40.909 3.32 0.00 0.00 1.90
2638 23846 4.390129 TTTGGCCTTTACCTTCACCATA 57.610 40.909 3.32 0.00 0.00 2.74
2639 23847 2.990740 TTGGCCTTTACCTTCACCAT 57.009 45.000 3.32 0.00 0.00 3.55
2640 23848 2.757894 TTTGGCCTTTACCTTCACCA 57.242 45.000 3.32 0.00 0.00 4.17
2641 23849 2.496070 GGATTTGGCCTTTACCTTCACC 59.504 50.000 3.32 0.00 0.00 4.02
2642 23850 3.161866 TGGATTTGGCCTTTACCTTCAC 58.838 45.455 3.32 0.00 0.00 3.18
2643 23851 3.181423 ACTGGATTTGGCCTTTACCTTCA 60.181 43.478 3.32 0.00 0.00 3.02
2644 23852 3.431415 ACTGGATTTGGCCTTTACCTTC 58.569 45.455 3.32 0.00 0.00 3.46
2648 23856 4.202212 ACAACAACTGGATTTGGCCTTTAC 60.202 41.667 3.32 0.00 0.00 2.01
2649 23857 3.964031 ACAACAACTGGATTTGGCCTTTA 59.036 39.130 3.32 0.00 0.00 1.85
2650 23858 2.771372 ACAACAACTGGATTTGGCCTTT 59.229 40.909 3.32 0.00 0.00 3.11
2651 23859 2.102925 CACAACAACTGGATTTGGCCTT 59.897 45.455 3.32 0.00 0.00 4.35
2654 23862 1.686052 TCCACAACAACTGGATTTGGC 59.314 47.619 0.00 0.00 32.52 4.52
2656 23864 4.211794 GCAATTCCACAACAACTGGATTTG 59.788 41.667 13.89 13.89 44.67 2.32
2659 23867 3.233507 AGCAATTCCACAACAACTGGAT 58.766 40.909 0.00 0.00 37.65 3.41
2660 23868 2.665165 AGCAATTCCACAACAACTGGA 58.335 42.857 0.00 0.00 35.91 3.86
2663 23871 3.157087 CCCTAGCAATTCCACAACAACT 58.843 45.455 0.00 0.00 0.00 3.16
2664 23872 2.890945 ACCCTAGCAATTCCACAACAAC 59.109 45.455 0.00 0.00 0.00 3.32
2665 23873 3.237268 ACCCTAGCAATTCCACAACAA 57.763 42.857 0.00 0.00 0.00 2.83
2666 23874 2.969821 ACCCTAGCAATTCCACAACA 57.030 45.000 0.00 0.00 0.00 3.33
2667 23875 3.826729 AGAAACCCTAGCAATTCCACAAC 59.173 43.478 0.00 0.00 0.00 3.32
2668 23876 4.112634 AGAAACCCTAGCAATTCCACAA 57.887 40.909 0.00 0.00 0.00 3.33
2670 23878 5.297029 GTCATAGAAACCCTAGCAATTCCAC 59.703 44.000 0.00 0.00 0.00 4.02
2672 23880 4.822350 GGTCATAGAAACCCTAGCAATTCC 59.178 45.833 0.00 0.00 0.00 3.01
2673 23881 5.437060 TGGTCATAGAAACCCTAGCAATTC 58.563 41.667 0.00 0.00 35.84 2.17
2674 23882 5.440610 CTGGTCATAGAAACCCTAGCAATT 58.559 41.667 0.00 0.00 35.84 2.32
2675 23883 4.141390 CCTGGTCATAGAAACCCTAGCAAT 60.141 45.833 0.00 0.00 35.84 3.56
2676 23884 3.199946 CCTGGTCATAGAAACCCTAGCAA 59.800 47.826 0.00 0.00 35.84 3.91
2677 23885 2.771943 CCTGGTCATAGAAACCCTAGCA 59.228 50.000 0.00 0.00 35.84 3.49
2678 23886 2.104963 CCCTGGTCATAGAAACCCTAGC 59.895 54.545 0.00 0.00 35.84 3.42
2679 23887 3.643792 CTCCCTGGTCATAGAAACCCTAG 59.356 52.174 0.00 0.00 35.84 3.02
2680 23888 3.654273 CTCCCTGGTCATAGAAACCCTA 58.346 50.000 0.00 0.00 35.84 3.53
2681 23889 2.482494 CTCCCTGGTCATAGAAACCCT 58.518 52.381 0.00 0.00 35.84 4.34


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

AutoCloner maintained by Alex Coulton.