Multiple sequence alignment - TraesCS5A01G343900

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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 TraesCS5A01G343900 chr5A 100.000 2445 0 0 1 2445 548502933 548505377 0.000000e+00 4516.0
1 TraesCS5A01G343900 chr5A 82.655 934 116 26 726 1626 548658115 548657195 0.000000e+00 785.0
2 TraesCS5A01G343900 chr5A 89.091 55 4 2 394 446 115018675 115018621 1.570000e-07 67.6
3 TraesCS5A01G343900 chr5B 92.812 793 57 0 1653 2445 527255709 527256501 0.000000e+00 1149.0
4 TraesCS5A01G343900 chr5B 89.082 806 48 16 430 1199 527247604 527248405 0.000000e+00 965.0
5 TraesCS5A01G343900 chr5B 85.376 971 84 29 640 1596 527254788 527255714 0.000000e+00 953.0
6 TraesCS5A01G343900 chr5B 91.172 657 58 0 1789 2445 527491053 527490397 0.000000e+00 893.0
7 TraesCS5A01G343900 chr5B 81.161 982 118 37 639 1584 527769651 527768701 0.000000e+00 726.0
8 TraesCS5A01G343900 chr5B 80.275 1019 128 38 639 1609 527601657 527600664 0.000000e+00 701.0
9 TraesCS5A01G343900 chr5B 81.187 893 109 35 733 1583 527492249 527491374 0.000000e+00 664.0
10 TraesCS5A01G343900 chr5B 80.456 307 29 17 99 396 527247317 527247601 3.190000e-49 206.0
11 TraesCS5A01G343900 chr5B 94.118 51 3 0 495 545 527254578 527254628 7.250000e-11 78.7
12 TraesCS5A01G343900 chr5B 82.927 82 8 6 355 436 709271556 709271631 4.360000e-08 69.4
13 TraesCS5A01G343900 chr5D 92.494 786 59 0 1660 2445 434480961 434481746 0.000000e+00 1125.0
14 TraesCS5A01G343900 chr5D 86.029 680 72 11 726 1390 434480044 434480715 0.000000e+00 708.0
15 TraesCS5A01G343900 chr5D 82.416 836 105 26 639 1456 434600556 434599745 0.000000e+00 691.0
16 TraesCS5A01G343900 chr5D 80.263 988 125 41 639 1584 434567329 434566370 0.000000e+00 680.0
17 TraesCS5A01G343900 chr5D 81.149 870 106 25 748 1584 434688457 434689301 0.000000e+00 645.0
18 TraesCS5A01G343900 chr5D 79.064 769 98 43 726 1456 434548921 434548178 1.020000e-128 470.0
19 TraesCS5A01G343900 chr5D 86.136 339 38 5 1013 1343 434675699 434676036 8.310000e-95 357.0
20 TraesCS5A01G343900 chr5D 89.354 263 28 0 1789 2051 434599362 434599100 5.040000e-87 331.0
21 TraesCS5A01G343900 chr5D 82.432 148 19 5 461 601 434596448 434596301 3.300000e-24 122.0
22 TraesCS5A01G343900 chr5D 96.078 51 2 0 495 545 434479770 434479820 1.560000e-12 84.2
23 TraesCS5A01G343900 chr6B 87.121 132 11 2 430 555 123203496 123203627 7.050000e-31 145.0
24 TraesCS5A01G343900 chr6B 86.364 132 12 2 430 555 123414617 123414748 3.280000e-29 139.0
25 TraesCS5A01G343900 chr6A 92.063 63 5 0 493 555 66811465 66811527 3.350000e-14 89.8
26 TraesCS5A01G343900 chr2D 93.878 49 2 1 394 442 363523944 363523897 3.370000e-09 73.1
27 TraesCS5A01G343900 chr7D 89.286 56 4 2 387 442 240833826 240833773 4.360000e-08 69.4
28 TraesCS5A01G343900 chr2A 88.333 60 3 4 374 432 634615494 634615550 4.360000e-08 69.4
29 TraesCS5A01G343900 chr2A 89.286 56 4 2 387 441 645315941 645315995 4.360000e-08 69.4
30 TraesCS5A01G343900 chr1B 88.136 59 4 3 374 432 479468121 479468176 1.570000e-07 67.6
31 TraesCS5A01G343900 chr7A 85.075 67 7 3 374 440 27463269 27463332 5.640000e-07 65.8
32 TraesCS5A01G343900 chr3D 85.714 63 5 4 374 436 341502463 341502405 2.030000e-06 63.9


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 TraesCS5A01G343900 chr5A 548502933 548505377 2444 False 4516.000000 4516 100.000000 1 2445 1 chr5A.!!$F1 2444
1 TraesCS5A01G343900 chr5A 548657195 548658115 920 True 785.000000 785 82.655000 726 1626 1 chr5A.!!$R2 900
2 TraesCS5A01G343900 chr5B 527490397 527492249 1852 True 778.500000 893 86.179500 733 2445 2 chr5B.!!$R3 1712
3 TraesCS5A01G343900 chr5B 527254578 527256501 1923 False 726.900000 1149 90.768667 495 2445 3 chr5B.!!$F3 1950
4 TraesCS5A01G343900 chr5B 527768701 527769651 950 True 726.000000 726 81.161000 639 1584 1 chr5B.!!$R2 945
5 TraesCS5A01G343900 chr5B 527600664 527601657 993 True 701.000000 701 80.275000 639 1609 1 chr5B.!!$R1 970
6 TraesCS5A01G343900 chr5B 527247317 527248405 1088 False 585.500000 965 84.769000 99 1199 2 chr5B.!!$F2 1100
7 TraesCS5A01G343900 chr5D 434566370 434567329 959 True 680.000000 680 80.263000 639 1584 1 chr5D.!!$R2 945
8 TraesCS5A01G343900 chr5D 434688457 434689301 844 False 645.000000 645 81.149000 748 1584 1 chr5D.!!$F2 836
9 TraesCS5A01G343900 chr5D 434479770 434481746 1976 False 639.066667 1125 91.533667 495 2445 3 chr5D.!!$F3 1950
10 TraesCS5A01G343900 chr5D 434548178 434548921 743 True 470.000000 470 79.064000 726 1456 1 chr5D.!!$R1 730
11 TraesCS5A01G343900 chr5D 434596301 434600556 4255 True 381.333333 691 84.734000 461 2051 3 chr5D.!!$R3 1590

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
428 441 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.0 13.64 4.95 46.06 4.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1522 1792 0.413037 TTTCCATGCCCAATCCACCT 59.587 50.0 0.0 0.0 0.0 4.0 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
51 52 9.533253 AAAAGAATGTGTACCAAAGATTTGAAG 57.467 29.630 6.87 0.00 40.55 3.02
52 53 7.219484 AGAATGTGTACCAAAGATTTGAAGG 57.781 36.000 6.87 0.00 40.55 3.46
53 54 5.982890 ATGTGTACCAAAGATTTGAAGGG 57.017 39.130 6.87 0.00 40.55 3.95
54 55 3.572255 TGTGTACCAAAGATTTGAAGGGC 59.428 43.478 6.87 0.00 40.55 5.19
55 56 3.572255 GTGTACCAAAGATTTGAAGGGCA 59.428 43.478 6.87 0.00 40.55 5.36
56 57 3.572255 TGTACCAAAGATTTGAAGGGCAC 59.428 43.478 6.87 0.00 40.55 5.01
57 58 2.676748 ACCAAAGATTTGAAGGGCACA 58.323 42.857 6.87 0.00 40.55 4.57
58 59 3.242011 ACCAAAGATTTGAAGGGCACAT 58.758 40.909 6.87 0.00 40.55 3.21
59 60 3.007182 ACCAAAGATTTGAAGGGCACATG 59.993 43.478 6.87 0.00 40.55 3.21
60 61 3.592059 CAAAGATTTGAAGGGCACATGG 58.408 45.455 0.00 0.00 40.55 3.66
61 62 1.188863 AGATTTGAAGGGCACATGGC 58.811 50.000 0.00 0.00 43.74 4.40
62 63 6.602530 CAAAGATTTGAAGGGCACATGGCA 62.603 45.833 7.81 0.00 41.83 4.92
71 72 3.610637 GCACATGGCACCAAATTGT 57.389 47.368 0.00 0.00 43.97 2.71
72 73 1.431496 GCACATGGCACCAAATTGTC 58.569 50.000 0.00 0.00 43.97 3.18
73 74 1.940752 GCACATGGCACCAAATTGTCC 60.941 52.381 0.00 0.00 43.97 4.02
74 75 0.975887 ACATGGCACCAAATTGTCCC 59.024 50.000 0.00 0.00 0.00 4.46
75 76 1.269012 CATGGCACCAAATTGTCCCT 58.731 50.000 0.00 0.00 0.00 4.20
76 77 2.225242 ACATGGCACCAAATTGTCCCTA 60.225 45.455 0.00 0.00 0.00 3.53
77 78 2.214376 TGGCACCAAATTGTCCCTAG 57.786 50.000 0.00 0.00 0.00 3.02
78 79 1.707989 TGGCACCAAATTGTCCCTAGA 59.292 47.619 0.00 0.00 0.00 2.43
79 80 2.109128 TGGCACCAAATTGTCCCTAGAA 59.891 45.455 0.00 0.00 0.00 2.10
80 81 3.161866 GGCACCAAATTGTCCCTAGAAA 58.838 45.455 0.00 0.00 0.00 2.52
81 82 3.576550 GGCACCAAATTGTCCCTAGAAAA 59.423 43.478 0.00 0.00 0.00 2.29
82 83 4.321974 GGCACCAAATTGTCCCTAGAAAAG 60.322 45.833 0.00 0.00 0.00 2.27
83 84 4.522789 GCACCAAATTGTCCCTAGAAAAGA 59.477 41.667 0.00 0.00 0.00 2.52
84 85 5.010617 GCACCAAATTGTCCCTAGAAAAGAA 59.989 40.000 0.00 0.00 0.00 2.52
85 86 6.295292 GCACCAAATTGTCCCTAGAAAAGAAT 60.295 38.462 0.00 0.00 0.00 2.40
86 87 7.093945 GCACCAAATTGTCCCTAGAAAAGAATA 60.094 37.037 0.00 0.00 0.00 1.75
87 88 8.802267 CACCAAATTGTCCCTAGAAAAGAATAA 58.198 33.333 0.00 0.00 0.00 1.40
88 89 9.374711 ACCAAATTGTCCCTAGAAAAGAATAAA 57.625 29.630 0.00 0.00 0.00 1.40
115 116 9.930158 AAATAATGGAGTACTAATTAGCCCAAA 57.070 29.630 12.54 8.02 0.00 3.28
140 141 3.830755 GGCATGGAGGCAAGAATGATTAT 59.169 43.478 0.00 0.00 43.51 1.28
147 148 7.170965 TGGAGGCAAGAATGATTATAATCTCC 58.829 38.462 22.77 17.74 36.39 3.71
167 171 7.384524 TCTCCCACAGATTATGATCAATCTT 57.615 36.000 7.10 0.00 41.46 2.40
170 174 7.348815 TCCCACAGATTATGATCAATCTTGTT 58.651 34.615 7.10 0.00 41.46 2.83
175 179 9.553064 ACAGATTATGATCAATCTTGTTAGTCC 57.447 33.333 7.10 0.00 41.46 3.85
181 185 8.641498 ATGATCAATCTTGTTAGTCCAAACTT 57.359 30.769 0.00 0.00 36.92 2.66
183 187 7.939039 TGATCAATCTTGTTAGTCCAAACTTCT 59.061 33.333 0.00 0.00 36.92 2.85
186 190 7.228706 TCAATCTTGTTAGTCCAAACTTCTTCC 59.771 37.037 0.00 0.00 36.92 3.46
189 193 7.116736 TCTTGTTAGTCCAAACTTCTTCCTTT 58.883 34.615 0.00 0.00 36.92 3.11
190 194 6.937436 TGTTAGTCCAAACTTCTTCCTTTC 57.063 37.500 0.00 0.00 36.92 2.62
191 195 6.659824 TGTTAGTCCAAACTTCTTCCTTTCT 58.340 36.000 0.00 0.00 36.92 2.52
192 196 6.766467 TGTTAGTCCAAACTTCTTCCTTTCTC 59.234 38.462 0.00 0.00 36.92 2.87
193 197 5.638530 AGTCCAAACTTCTTCCTTTCTCT 57.361 39.130 0.00 0.00 28.74 3.10
194 198 6.007485 AGTCCAAACTTCTTCCTTTCTCTT 57.993 37.500 0.00 0.00 28.74 2.85
195 199 5.825151 AGTCCAAACTTCTTCCTTTCTCTTG 59.175 40.000 0.00 0.00 28.74 3.02
196 200 5.590663 GTCCAAACTTCTTCCTTTCTCTTGT 59.409 40.000 0.00 0.00 0.00 3.16
197 201 5.590259 TCCAAACTTCTTCCTTTCTCTTGTG 59.410 40.000 0.00 0.00 0.00 3.33
198 202 5.358160 CCAAACTTCTTCCTTTCTCTTGTGT 59.642 40.000 0.00 0.00 0.00 3.72
199 203 6.127619 CCAAACTTCTTCCTTTCTCTTGTGTT 60.128 38.462 0.00 0.00 0.00 3.32
200 204 7.315890 CAAACTTCTTCCTTTCTCTTGTGTTT 58.684 34.615 0.00 0.00 0.00 2.83
201 205 7.468141 AACTTCTTCCTTTCTCTTGTGTTTT 57.532 32.000 0.00 0.00 0.00 2.43
202 206 7.468141 ACTTCTTCCTTTCTCTTGTGTTTTT 57.532 32.000 0.00 0.00 0.00 1.94
203 207 8.575649 ACTTCTTCCTTTCTCTTGTGTTTTTA 57.424 30.769 0.00 0.00 0.00 1.52
204 208 8.459635 ACTTCTTCCTTTCTCTTGTGTTTTTAC 58.540 33.333 0.00 0.00 0.00 2.01
205 209 8.575649 TTCTTCCTTTCTCTTGTGTTTTTACT 57.424 30.769 0.00 0.00 0.00 2.24
206 210 8.575649 TCTTCCTTTCTCTTGTGTTTTTACTT 57.424 30.769 0.00 0.00 0.00 2.24
207 211 9.020731 TCTTCCTTTCTCTTGTGTTTTTACTTT 57.979 29.630 0.00 0.00 0.00 2.66
208 212 9.290483 CTTCCTTTCTCTTGTGTTTTTACTTTC 57.710 33.333 0.00 0.00 0.00 2.62
209 213 8.575649 TCCTTTCTCTTGTGTTTTTACTTTCT 57.424 30.769 0.00 0.00 0.00 2.52
210 214 9.020731 TCCTTTCTCTTGTGTTTTTACTTTCTT 57.979 29.630 0.00 0.00 0.00 2.52
243 253 9.683069 AATCATAGAAGTTCACATGAAAAACAC 57.317 29.630 18.58 0.28 35.58 3.32
260 270 0.317854 CACGTCGACAGCAGTTCTGA 60.318 55.000 17.16 0.00 45.72 3.27
263 273 2.061773 CGTCGACAGCAGTTCTGAATT 58.938 47.619 17.16 0.00 45.72 2.17
264 274 2.159920 CGTCGACAGCAGTTCTGAATTG 60.160 50.000 17.16 8.38 45.72 2.32
265 275 1.800586 TCGACAGCAGTTCTGAATTGC 59.199 47.619 24.92 24.92 45.72 3.56
266 276 1.135859 CGACAGCAGTTCTGAATTGCC 60.136 52.381 27.44 15.35 44.27 4.52
267 277 1.200948 GACAGCAGTTCTGAATTGCCC 59.799 52.381 27.44 16.56 44.27 5.36
271 281 1.745653 GCAGTTCTGAATTGCCCCTAC 59.254 52.381 22.71 0.00 38.08 3.18
276 286 1.004277 TCTGAATTGCCCCTACGCTTT 59.996 47.619 0.00 0.00 0.00 3.51
277 287 2.237643 TCTGAATTGCCCCTACGCTTTA 59.762 45.455 0.00 0.00 0.00 1.85
288 298 5.623596 GCCCCTACGCTTTAACATCATTTTT 60.624 40.000 0.00 0.00 0.00 1.94
289 299 6.033966 CCCCTACGCTTTAACATCATTTTTC 58.966 40.000 0.00 0.00 0.00 2.29
293 304 9.274065 CCTACGCTTTAACATCATTTTTCTTAC 57.726 33.333 0.00 0.00 0.00 2.34
339 350 8.717717 AGGACAAAAATATAGATGGTCATCTCA 58.282 33.333 15.80 7.09 44.37 3.27
361 374 4.696479 AGTTTCAACTGAGATGTGGTCT 57.304 40.909 0.00 0.00 40.81 3.85
366 379 3.056536 TCAACTGAGATGTGGTCTAGCAC 60.057 47.826 5.37 5.37 37.29 4.40
401 414 9.125026 AGACATCAGTTATTTGTAATCCATTCC 57.875 33.333 0.00 0.00 0.00 3.01
402 415 8.821686 ACATCAGTTATTTGTAATCCATTCCA 57.178 30.769 0.00 0.00 0.00 3.53
403 416 9.253832 ACATCAGTTATTTGTAATCCATTCCAA 57.746 29.630 0.00 0.00 0.00 3.53
404 417 9.740239 CATCAGTTATTTGTAATCCATTCCAAG 57.260 33.333 0.00 0.00 0.00 3.61
405 418 8.292444 TCAGTTATTTGTAATCCATTCCAAGG 57.708 34.615 0.00 0.00 0.00 3.61
406 419 8.112822 TCAGTTATTTGTAATCCATTCCAAGGA 58.887 33.333 0.00 0.00 39.97 3.36
407 420 8.190784 CAGTTATTTGTAATCCATTCCAAGGAC 58.809 37.037 0.00 0.00 38.13 3.85
408 421 7.893302 AGTTATTTGTAATCCATTCCAAGGACA 59.107 33.333 0.00 0.00 38.13 4.02
409 422 8.527810 GTTATTTGTAATCCATTCCAAGGACAA 58.472 33.333 0.00 0.00 38.13 3.18
410 423 6.588719 TTTGTAATCCATTCCAAGGACAAG 57.411 37.500 0.00 0.00 38.13 3.16
411 424 5.255397 TGTAATCCATTCCAAGGACAAGT 57.745 39.130 0.00 0.00 38.13 3.16
412 425 6.381498 TGTAATCCATTCCAAGGACAAGTA 57.619 37.500 0.00 0.00 38.13 2.24
413 426 6.969043 TGTAATCCATTCCAAGGACAAGTAT 58.031 36.000 0.00 0.00 38.13 2.12
414 427 7.410174 TGTAATCCATTCCAAGGACAAGTATT 58.590 34.615 0.00 0.00 38.13 1.89
415 428 7.893302 TGTAATCCATTCCAAGGACAAGTATTT 59.107 33.333 0.00 0.00 38.13 1.40
416 429 7.410120 AATCCATTCCAAGGACAAGTATTTC 57.590 36.000 0.00 0.00 38.13 2.17
417 430 5.261216 TCCATTCCAAGGACAAGTATTTCC 58.739 41.667 0.00 0.00 0.00 3.13
418 431 4.096382 CCATTCCAAGGACAAGTATTTCCG 59.904 45.833 0.00 0.00 36.95 4.30
419 432 3.343941 TCCAAGGACAAGTATTTCCGG 57.656 47.619 0.00 0.00 36.95 5.14
420 433 2.907696 TCCAAGGACAAGTATTTCCGGA 59.092 45.455 0.00 0.00 36.95 5.14
421 434 3.007635 CCAAGGACAAGTATTTCCGGAC 58.992 50.000 1.83 0.00 36.95 4.79
422 435 2.667473 AGGACAAGTATTTCCGGACG 57.333 50.000 1.83 0.00 36.95 4.79
423 436 1.206371 AGGACAAGTATTTCCGGACGG 59.794 52.381 1.83 3.96 36.95 4.79
424 437 1.205417 GGACAAGTATTTCCGGACGGA 59.795 52.381 1.83 9.76 43.52 4.69
425 438 2.537401 GACAAGTATTTCCGGACGGAG 58.463 52.381 13.64 3.15 46.06 4.63
426 439 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
427 440 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
428 441 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
429 442 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
430 443 0.032813 TATTTCCGGACGGAGGGAGT 60.033 55.000 13.64 0.00 46.06 3.85
431 444 0.032813 ATTTCCGGACGGAGGGAGTA 60.033 55.000 13.64 0.00 46.06 2.59
451 464 0.037590 TGTAGTTTTGGGCCGCTGAT 59.962 50.000 0.00 0.00 0.00 2.90
452 465 0.451783 GTAGTTTTGGGCCGCTGATG 59.548 55.000 0.00 0.00 0.00 3.07
473 486 8.260099 TGATGAGATCTTATCTGGTTCTTCAT 57.740 34.615 23.54 6.94 40.38 2.57
477 490 8.712103 TGAGATCTTATCTGGTTCTTCATCAAT 58.288 33.333 0.00 0.00 40.38 2.57
489 502 8.048514 TGGTTCTTCATCAATAATCTGTCATGA 58.951 33.333 0.00 0.00 0.00 3.07
490 503 8.341173 GGTTCTTCATCAATAATCTGTCATGAC 58.659 37.037 19.27 19.27 0.00 3.06
491 504 8.341173 GTTCTTCATCAATAATCTGTCATGACC 58.659 37.037 22.85 5.91 0.00 4.02
492 505 6.703165 TCTTCATCAATAATCTGTCATGACCG 59.297 38.462 22.85 16.78 0.00 4.79
493 506 5.299949 TCATCAATAATCTGTCATGACCGG 58.700 41.667 22.85 15.17 0.00 5.28
494 507 3.466836 TCAATAATCTGTCATGACCGGC 58.533 45.455 22.85 0.00 0.00 6.13
495 508 3.118445 TCAATAATCTGTCATGACCGGCA 60.118 43.478 22.85 0.00 0.00 5.69
496 509 3.777106 ATAATCTGTCATGACCGGCAT 57.223 42.857 22.85 2.95 37.85 4.40
618 688 5.892348 ACCTCACAAATAGAATTGGACCTT 58.108 37.500 0.00 0.00 34.56 3.50
635 705 3.616219 ACCTTAATTCGTGCATGCCTAA 58.384 40.909 16.68 7.08 0.00 2.69
722 824 2.231721 GAGACCTGCTAATATCGTCCCC 59.768 54.545 0.00 0.00 0.00 4.81
723 825 0.966920 ACCTGCTAATATCGTCCCCG 59.033 55.000 0.00 0.00 0.00 5.73
724 826 0.246635 CCTGCTAATATCGTCCCCGG 59.753 60.000 0.00 0.00 33.95 5.73
744 846 3.641437 GCAACAAGTGGCAAACAGATA 57.359 42.857 0.00 0.00 0.00 1.98
869 985 0.517316 CACCTAAACTGCAGCGTTCC 59.483 55.000 15.27 0.00 0.00 3.62
947 1111 4.259356 CTCATCAGTTCATCCAGAAAGCA 58.741 43.478 0.00 0.00 38.13 3.91
977 1142 0.608130 CAGCACCACTACACCTAGCA 59.392 55.000 0.00 0.00 0.00 3.49
1106 1291 4.767255 AGCGGCGAAAGGAGCAGG 62.767 66.667 12.98 0.00 36.08 4.85
1238 1435 2.462889 GATCTTCAGCGAGCTTCTGAG 58.537 52.381 15.99 11.91 41.10 3.35
1412 1664 1.057275 TGAAGGTAGTGTGGTGGGCA 61.057 55.000 0.00 0.00 0.00 5.36
1461 1720 3.181455 TGTTAGCTTCTGAAGAACAGCCA 60.181 43.478 21.06 6.27 45.38 4.75
1522 1792 7.467675 GCATGATGTGAATATACAGTTGCAAGA 60.468 37.037 0.00 0.00 35.49 3.02
1600 1881 8.082242 ACTTTGTAACAATAGAAAACCATGAGC 58.918 33.333 0.00 0.00 0.00 4.26
1645 1927 3.942748 ACAAAACTTGTCGCCAGAAGTAA 59.057 39.130 0.00 0.00 40.56 2.24
1646 1928 4.396790 ACAAAACTTGTCGCCAGAAGTAAA 59.603 37.500 0.00 0.00 40.56 2.01
1648 1930 4.547406 AACTTGTCGCCAGAAGTAAAAC 57.453 40.909 0.00 0.00 32.03 2.43
1649 1931 3.805207 ACTTGTCGCCAGAAGTAAAACT 58.195 40.909 0.00 0.00 30.47 2.66
1650 1932 4.952460 ACTTGTCGCCAGAAGTAAAACTA 58.048 39.130 0.00 0.00 30.47 2.24
1652 1934 4.325028 TGTCGCCAGAAGTAAAACTACA 57.675 40.909 0.00 0.00 0.00 2.74
1653 1935 4.053295 TGTCGCCAGAAGTAAAACTACAC 58.947 43.478 0.00 0.00 0.00 2.90
1654 1936 4.053295 GTCGCCAGAAGTAAAACTACACA 58.947 43.478 0.00 0.00 0.00 3.72
1655 1937 4.053295 TCGCCAGAAGTAAAACTACACAC 58.947 43.478 0.00 0.00 0.00 3.82
1656 1938 3.185797 CGCCAGAAGTAAAACTACACACC 59.814 47.826 0.00 0.00 0.00 4.16
1657 1939 3.185797 GCCAGAAGTAAAACTACACACCG 59.814 47.826 0.00 0.00 0.00 4.94
1658 1940 4.374399 CCAGAAGTAAAACTACACACCGT 58.626 43.478 0.00 0.00 0.00 4.83
1677 1959 2.028045 CGTACAATACAACAGCAGCTCG 59.972 50.000 0.00 0.00 0.00 5.03
1686 1968 3.372206 ACAACAGCAGCTCGTCATTTATC 59.628 43.478 0.00 0.00 0.00 1.75
1687 1969 3.251479 ACAGCAGCTCGTCATTTATCA 57.749 42.857 0.00 0.00 0.00 2.15
1696 1978 4.447054 GCTCGTCATTTATCATGTCTCTGG 59.553 45.833 0.00 0.00 0.00 3.86
1725 2013 0.379669 CCAAGCTGAATCATCACCGC 59.620 55.000 0.00 0.00 0.00 5.68
1731 2019 1.354506 GAATCATCACCGCAGCAGC 59.645 57.895 0.00 0.00 37.42 5.25
1748 2036 1.747709 AGCTTGCTTCGCTGAATCAT 58.252 45.000 0.00 0.00 36.15 2.45
1751 2039 2.033049 GCTTGCTTCGCTGAATCATCAT 59.967 45.455 0.00 0.00 34.37 2.45
1784 2226 3.242867 TCAGTGACCAGATGAGGAAGTT 58.757 45.455 0.00 0.00 0.00 2.66
1787 2229 3.843027 AGTGACCAGATGAGGAAGTTGAT 59.157 43.478 0.00 0.00 0.00 2.57
1859 2301 4.935578 TCTTGAGACTAGAATCCAGTCCA 58.064 43.478 5.24 1.40 42.85 4.02
1898 2340 4.634004 TGGACTACACATATTTTCCGCTTG 59.366 41.667 0.00 0.00 0.00 4.01
1914 2356 1.815408 GCTTGTCCCTCACAGCTGAAA 60.815 52.381 23.35 6.67 35.97 2.69
1931 2373 2.373836 TGAAACTTCTTCATTCCCCGGA 59.626 45.455 0.73 0.00 0.00 5.14
1988 2430 0.106868 TGAGTCTCGGCCTATTCGGA 60.107 55.000 0.00 0.00 33.16 4.55
2107 2549 1.275573 GCCGGAAAGACCAACTAGACT 59.724 52.381 5.05 0.00 38.90 3.24
2129 4713 1.004080 GCAGAGCAGCTGGAGTGAA 60.004 57.895 17.12 0.00 45.03 3.18
2241 5127 5.088680 TGCCCCTGATTTCATTTCAAATC 57.911 39.130 0.00 0.00 41.41 2.17
2372 5258 1.338020 CCTGACAGCAAGGGAACAAAC 59.662 52.381 0.00 0.00 0.00 2.93
2432 5318 7.721399 AGTGACCTTACATCATATTTGGAATCC 59.279 37.037 0.00 0.00 0.00 3.01
2435 5321 7.234355 ACCTTACATCATATTTGGAATCCTCC 58.766 38.462 0.00 0.00 42.81 4.30
2437 5323 5.567037 ACATCATATTTGGAATCCTCCGA 57.433 39.130 0.00 0.00 45.85 4.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 9.533253 CTTCAAATCTTTGGTACACATTCTTTT 57.467 29.630 3.02 0.00 39.29 2.27
26 27 8.143835 CCTTCAAATCTTTGGTACACATTCTTT 58.856 33.333 3.02 0.00 39.29 2.52
27 28 7.255942 CCCTTCAAATCTTTGGTACACATTCTT 60.256 37.037 3.02 0.00 39.29 2.52
28 29 6.209391 CCCTTCAAATCTTTGGTACACATTCT 59.791 38.462 3.02 0.00 39.29 2.40
29 30 6.389906 CCCTTCAAATCTTTGGTACACATTC 58.610 40.000 3.02 0.00 39.29 2.67
30 31 5.279456 GCCCTTCAAATCTTTGGTACACATT 60.279 40.000 3.02 0.00 39.29 2.71
31 32 4.220602 GCCCTTCAAATCTTTGGTACACAT 59.779 41.667 3.02 0.00 39.29 3.21
32 33 3.572255 GCCCTTCAAATCTTTGGTACACA 59.428 43.478 3.02 0.00 39.29 3.72
33 34 3.572255 TGCCCTTCAAATCTTTGGTACAC 59.428 43.478 3.02 0.00 39.29 2.90
34 35 3.572255 GTGCCCTTCAAATCTTTGGTACA 59.428 43.478 3.02 0.00 38.66 2.90
35 36 3.572255 TGTGCCCTTCAAATCTTTGGTAC 59.428 43.478 3.02 0.00 38.66 3.34
36 37 3.838565 TGTGCCCTTCAAATCTTTGGTA 58.161 40.909 3.02 0.00 38.66 3.25
37 38 2.676748 TGTGCCCTTCAAATCTTTGGT 58.323 42.857 3.02 0.00 38.66 3.67
38 39 3.592059 CATGTGCCCTTCAAATCTTTGG 58.408 45.455 3.02 0.00 38.66 3.28
39 40 3.592059 CCATGTGCCCTTCAAATCTTTG 58.408 45.455 0.00 0.00 39.48 2.77
40 41 2.027837 GCCATGTGCCCTTCAAATCTTT 60.028 45.455 0.00 0.00 0.00 2.52
41 42 1.551883 GCCATGTGCCCTTCAAATCTT 59.448 47.619 0.00 0.00 0.00 2.40
42 43 1.188863 GCCATGTGCCCTTCAAATCT 58.811 50.000 0.00 0.00 0.00 2.40
43 44 0.896923 TGCCATGTGCCCTTCAAATC 59.103 50.000 4.07 0.00 40.16 2.17
44 45 0.609662 GTGCCATGTGCCCTTCAAAT 59.390 50.000 4.07 0.00 40.16 2.32
45 46 1.470996 GGTGCCATGTGCCCTTCAAA 61.471 55.000 4.07 0.00 40.16 2.69
46 47 1.907807 GGTGCCATGTGCCCTTCAA 60.908 57.895 4.07 0.00 40.16 2.69
47 48 2.283101 GGTGCCATGTGCCCTTCA 60.283 61.111 4.07 0.00 40.16 3.02
48 49 1.470996 TTTGGTGCCATGTGCCCTTC 61.471 55.000 4.07 0.00 40.16 3.46
49 50 0.837260 ATTTGGTGCCATGTGCCCTT 60.837 50.000 4.07 0.00 40.16 3.95
50 51 0.837260 AATTTGGTGCCATGTGCCCT 60.837 50.000 4.07 0.00 40.16 5.19
51 52 0.674269 CAATTTGGTGCCATGTGCCC 60.674 55.000 4.07 5.58 40.16 5.36
52 53 0.035176 ACAATTTGGTGCCATGTGCC 59.965 50.000 0.78 0.00 40.16 5.01
53 54 1.431496 GACAATTTGGTGCCATGTGC 58.569 50.000 0.78 0.00 41.77 4.57
54 55 2.083167 GGACAATTTGGTGCCATGTG 57.917 50.000 0.78 0.00 0.00 3.21
60 61 4.522789 TCTTTTCTAGGGACAATTTGGTGC 59.477 41.667 0.78 0.00 0.00 5.01
61 62 6.648879 TTCTTTTCTAGGGACAATTTGGTG 57.351 37.500 0.78 0.00 0.00 4.17
62 63 8.950007 TTATTCTTTTCTAGGGACAATTTGGT 57.050 30.769 0.78 0.00 0.00 3.67
87 88 9.930158 TGGGCTAATTAGTACTCCATTATTTTT 57.070 29.630 13.91 0.00 0.00 1.94
88 89 9.930158 TTGGGCTAATTAGTACTCCATTATTTT 57.070 29.630 13.91 0.00 0.00 1.82
89 90 9.930158 TTTGGGCTAATTAGTACTCCATTATTT 57.070 29.630 13.91 0.00 0.00 1.40
90 91 9.930158 TTTTGGGCTAATTAGTACTCCATTATT 57.070 29.630 13.91 0.00 0.00 1.40
92 93 9.349713 CATTTTGGGCTAATTAGTACTCCATTA 57.650 33.333 13.91 3.06 0.00 1.90
93 94 7.287696 CCATTTTGGGCTAATTAGTACTCCATT 59.712 37.037 13.91 1.89 32.67 3.16
94 95 6.777580 CCATTTTGGGCTAATTAGTACTCCAT 59.222 38.462 13.91 0.00 32.67 3.41
95 96 6.126409 CCATTTTGGGCTAATTAGTACTCCA 58.874 40.000 13.91 12.74 32.67 3.86
96 97 6.635030 CCATTTTGGGCTAATTAGTACTCC 57.365 41.667 13.91 10.65 32.67 3.85
115 116 1.760613 CATTCTTGCCTCCATGCCATT 59.239 47.619 0.00 0.00 0.00 3.16
126 127 6.716628 TGTGGGAGATTATAATCATTCTTGCC 59.283 38.462 24.00 17.82 37.89 4.52
147 148 9.334947 ACTAACAAGATTGATCATAATCTGTGG 57.665 33.333 10.07 6.57 44.43 4.17
155 156 9.739276 AAGTTTGGACTAACAAGATTGATCATA 57.261 29.630 0.00 0.00 34.21 2.15
158 159 8.329203 AGAAGTTTGGACTAACAAGATTGATC 57.671 34.615 0.00 0.00 34.21 2.92
160 161 7.228706 GGAAGAAGTTTGGACTAACAAGATTGA 59.771 37.037 0.00 0.00 34.21 2.57
161 162 7.229506 AGGAAGAAGTTTGGACTAACAAGATTG 59.770 37.037 0.01 0.00 34.21 2.67
162 163 7.290813 AGGAAGAAGTTTGGACTAACAAGATT 58.709 34.615 0.01 0.00 34.21 2.40
163 164 6.842676 AGGAAGAAGTTTGGACTAACAAGAT 58.157 36.000 0.01 0.00 34.21 2.40
167 171 6.659824 AGAAAGGAAGAAGTTTGGACTAACA 58.340 36.000 0.01 0.00 34.21 2.41
170 174 6.749036 AGAGAAAGGAAGAAGTTTGGACTA 57.251 37.500 0.00 0.00 34.21 2.59
175 179 6.442513 ACACAAGAGAAAGGAAGAAGTTTG 57.557 37.500 0.00 0.00 0.00 2.93
181 185 8.575649 AAGTAAAAACACAAGAGAAAGGAAGA 57.424 30.769 0.00 0.00 0.00 2.87
183 187 9.020731 AGAAAGTAAAAACACAAGAGAAAGGAA 57.979 29.630 0.00 0.00 0.00 3.36
230 240 3.279950 CTGTCGACGTGTTTTTCATGTG 58.720 45.455 11.62 0.00 45.10 3.21
234 244 1.326245 CTGCTGTCGACGTGTTTTTCA 59.674 47.619 11.62 0.00 0.00 2.69
240 250 0.595053 CAGAACTGCTGTCGACGTGT 60.595 55.000 11.62 4.00 39.85 4.49
243 253 1.702886 ATTCAGAACTGCTGTCGACG 58.297 50.000 11.62 7.05 45.14 5.12
259 269 2.750712 TGTTAAAGCGTAGGGGCAATTC 59.249 45.455 0.00 0.00 34.64 2.17
260 270 2.797786 TGTTAAAGCGTAGGGGCAATT 58.202 42.857 0.00 0.00 34.64 2.32
263 273 1.279558 TGATGTTAAAGCGTAGGGGCA 59.720 47.619 0.00 0.00 34.64 5.36
264 274 2.032680 TGATGTTAAAGCGTAGGGGC 57.967 50.000 0.00 0.00 0.00 5.80
265 275 5.576447 AAAATGATGTTAAAGCGTAGGGG 57.424 39.130 0.00 0.00 0.00 4.79
266 276 6.852664 AGAAAAATGATGTTAAAGCGTAGGG 58.147 36.000 0.00 0.00 0.00 3.53
267 277 9.274065 GTAAGAAAAATGATGTTAAAGCGTAGG 57.726 33.333 0.00 0.00 0.00 3.18
288 298 9.817809 CTATGTAGAAGCATAGGTTTTGTAAGA 57.182 33.333 5.46 0.00 42.63 2.10
335 346 5.059161 CCACATCTCAGTTGAAACTTGAGA 58.941 41.667 18.82 18.82 42.10 3.27
339 350 5.041191 AGACCACATCTCAGTTGAAACTT 57.959 39.130 0.00 0.00 37.08 2.66
384 397 8.657387 TTGTCCTTGGAATGGATTACAAATAA 57.343 30.769 0.00 0.00 42.67 1.40
396 409 4.096382 CCGGAAATACTTGTCCTTGGAATG 59.904 45.833 0.00 0.00 0.00 2.67
397 410 4.018779 TCCGGAAATACTTGTCCTTGGAAT 60.019 41.667 0.00 0.00 0.00 3.01
398 411 3.328343 TCCGGAAATACTTGTCCTTGGAA 59.672 43.478 0.00 0.00 0.00 3.53
400 413 3.007635 GTCCGGAAATACTTGTCCTTGG 58.992 50.000 5.23 0.00 0.00 3.61
401 414 2.671396 CGTCCGGAAATACTTGTCCTTG 59.329 50.000 5.23 0.00 0.00 3.61
402 415 2.354403 CCGTCCGGAAATACTTGTCCTT 60.354 50.000 5.23 0.00 37.50 3.36
403 416 1.206371 CCGTCCGGAAATACTTGTCCT 59.794 52.381 5.23 0.00 37.50 3.85
404 417 1.205417 TCCGTCCGGAAATACTTGTCC 59.795 52.381 5.23 0.00 42.05 4.02
405 418 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
406 419 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
407 420 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
408 421 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
409 422 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
410 423 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
411 424 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
412 425 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
413 426 0.032813 ATACTCCCTCCGTCCGGAAA 60.033 55.000 5.23 0.00 44.66 3.13
414 427 0.754217 CATACTCCCTCCGTCCGGAA 60.754 60.000 5.23 0.00 44.66 4.30
415 428 1.152819 CATACTCCCTCCGTCCGGA 60.153 63.158 0.00 0.00 42.90 5.14
416 429 0.179009 TACATACTCCCTCCGTCCGG 60.179 60.000 0.00 0.00 0.00 5.14
417 430 1.236628 CTACATACTCCCTCCGTCCG 58.763 60.000 0.00 0.00 0.00 4.79
418 431 2.361643 ACTACATACTCCCTCCGTCC 57.638 55.000 0.00 0.00 0.00 4.79
419 432 4.430908 CAAAACTACATACTCCCTCCGTC 58.569 47.826 0.00 0.00 0.00 4.79
420 433 3.197116 CCAAAACTACATACTCCCTCCGT 59.803 47.826 0.00 0.00 0.00 4.69
421 434 3.431766 CCCAAAACTACATACTCCCTCCG 60.432 52.174 0.00 0.00 0.00 4.63
422 435 3.684697 GCCCAAAACTACATACTCCCTCC 60.685 52.174 0.00 0.00 0.00 4.30
423 436 3.542648 GCCCAAAACTACATACTCCCTC 58.457 50.000 0.00 0.00 0.00 4.30
424 437 2.241430 GGCCCAAAACTACATACTCCCT 59.759 50.000 0.00 0.00 0.00 4.20
425 438 2.651455 GGCCCAAAACTACATACTCCC 58.349 52.381 0.00 0.00 0.00 4.30
426 439 2.285977 CGGCCCAAAACTACATACTCC 58.714 52.381 0.00 0.00 0.00 3.85
427 440 1.669265 GCGGCCCAAAACTACATACTC 59.331 52.381 0.00 0.00 0.00 2.59
428 441 1.280998 AGCGGCCCAAAACTACATACT 59.719 47.619 0.00 0.00 0.00 2.12
429 442 1.400494 CAGCGGCCCAAAACTACATAC 59.600 52.381 0.00 0.00 0.00 2.39
430 443 1.279558 TCAGCGGCCCAAAACTACATA 59.720 47.619 0.00 0.00 0.00 2.29
431 444 0.037590 TCAGCGGCCCAAAACTACAT 59.962 50.000 0.00 0.00 0.00 2.29
451 464 7.666063 TGATGAAGAACCAGATAAGATCTCA 57.334 36.000 0.00 0.00 37.58 3.27
473 486 3.118445 TGCCGGTCATGACAGATTATTGA 60.118 43.478 26.47 0.78 0.00 2.57
489 502 1.302511 GACAGTTGGTCATGCCGGT 60.303 57.895 1.90 0.00 46.19 5.28
490 503 3.578456 GACAGTTGGTCATGCCGG 58.422 61.111 0.00 0.00 46.19 6.13
498 511 5.830991 GGAGATATCTAGTCTGACAGTTGGT 59.169 44.000 4.89 0.00 0.00 3.67
499 512 5.830457 TGGAGATATCTAGTCTGACAGTTGG 59.170 44.000 4.89 0.00 0.00 3.77
618 688 5.733091 GCAAAGATTAGGCATGCACGAATTA 60.733 40.000 21.36 0.00 37.00 1.40
635 705 4.469657 TCACCTGTTTTAGTGGCAAAGAT 58.530 39.130 0.00 0.00 34.67 2.40
722 824 0.871163 CTGTTTGCCACTTGTTGCCG 60.871 55.000 0.00 0.00 0.00 5.69
723 825 0.459489 TCTGTTTGCCACTTGTTGCC 59.541 50.000 0.00 0.00 0.00 4.52
724 826 2.514205 ATCTGTTTGCCACTTGTTGC 57.486 45.000 0.00 0.00 0.00 4.17
744 846 4.723789 TCTTGATTAGATTTCTCTGGGGCT 59.276 41.667 0.00 0.00 32.66 5.19
863 979 0.108089 GGAGGAAGAGAAGGGAACGC 60.108 60.000 0.00 0.00 0.00 4.84
864 980 0.537653 GGGAGGAAGAGAAGGGAACG 59.462 60.000 0.00 0.00 0.00 3.95
977 1142 7.201911 CCATGTTTGGTTTACTCCTCTTTCTTT 60.202 37.037 0.00 0.00 38.30 2.52
1046 1231 1.669115 CTCCCGATGGCCGCTATTG 60.669 63.158 0.00 0.00 36.84 1.90
1238 1435 0.833949 GAACTCCTCCTGGGACATCC 59.166 60.000 0.00 0.00 39.58 3.51
1385 1590 1.195448 CACACTACCTTCAAAGCTGCG 59.805 52.381 0.00 0.00 0.00 5.18
1399 1645 1.632018 GCCCTATGCCCACCACACTA 61.632 60.000 0.00 0.00 0.00 2.74
1430 1684 3.141398 TCAGAAGCTAACAAACAGCCAG 58.859 45.455 0.00 0.00 39.99 4.85
1432 1686 3.815401 TCTTCAGAAGCTAACAAACAGCC 59.185 43.478 5.15 0.00 39.99 4.85
1522 1792 0.413037 TTTCCATGCCCAATCCACCT 59.587 50.000 0.00 0.00 0.00 4.00
1598 1879 9.771534 GTCTCCTTATTTTCTTGTCTATATGCT 57.228 33.333 0.00 0.00 0.00 3.79
1626 1907 4.638865 AGTTTTACTTCTGGCGACAAGTTT 59.361 37.500 0.00 0.00 42.06 2.66
1628 1909 3.805207 AGTTTTACTTCTGGCGACAAGT 58.195 40.909 0.46 0.46 42.06 3.16
1634 1915 3.185797 GGTGTGTAGTTTTACTTCTGGCG 59.814 47.826 0.00 0.00 0.00 5.69
1636 1917 4.374399 ACGGTGTGTAGTTTTACTTCTGG 58.626 43.478 0.00 0.00 0.00 3.86
1641 1923 7.432869 TGTATTGTACGGTGTGTAGTTTTACT 58.567 34.615 0.00 0.00 32.51 2.24
1645 1927 6.047870 TGTTGTATTGTACGGTGTGTAGTTT 58.952 36.000 0.00 0.00 32.51 2.66
1646 1928 5.599732 TGTTGTATTGTACGGTGTGTAGTT 58.400 37.500 0.00 0.00 32.51 2.24
1648 1930 4.090930 GCTGTTGTATTGTACGGTGTGTAG 59.909 45.833 0.00 0.00 32.51 2.74
1649 1931 3.989167 GCTGTTGTATTGTACGGTGTGTA 59.011 43.478 0.00 0.00 0.00 2.90
1650 1932 2.803956 GCTGTTGTATTGTACGGTGTGT 59.196 45.455 0.00 0.00 0.00 3.72
1652 1934 3.064207 CTGCTGTTGTATTGTACGGTGT 58.936 45.455 0.00 0.00 0.00 4.16
1653 1935 2.159707 GCTGCTGTTGTATTGTACGGTG 60.160 50.000 0.00 0.00 0.00 4.94
1654 1936 2.073816 GCTGCTGTTGTATTGTACGGT 58.926 47.619 0.00 0.00 0.00 4.83
1655 1937 2.346803 AGCTGCTGTTGTATTGTACGG 58.653 47.619 0.00 0.00 0.00 4.02
1656 1938 2.028045 CGAGCTGCTGTTGTATTGTACG 59.972 50.000 7.01 0.00 0.00 3.67
1657 1939 2.993899 ACGAGCTGCTGTTGTATTGTAC 59.006 45.455 7.01 0.00 0.00 2.90
1658 1940 3.250744 GACGAGCTGCTGTTGTATTGTA 58.749 45.455 7.01 0.00 0.00 2.41
1677 1959 6.183360 CCCAAACCAGAGACATGATAAATGAC 60.183 42.308 0.00 0.00 0.00 3.06
1686 1968 3.054434 TGGATACCCAAACCAGAGACATG 60.054 47.826 0.00 0.00 40.09 3.21
1687 1969 3.189606 TGGATACCCAAACCAGAGACAT 58.810 45.455 0.00 0.00 40.09 3.06
1696 1978 9.491442 GTGATGATTCAGCTTGGATACCCAAAC 62.491 44.444 3.27 0.00 41.25 2.93
1787 2229 1.879380 CGGCTTCAAGTGATTGTCCAA 59.121 47.619 0.00 0.00 0.00 3.53
1898 2340 2.147150 GAAGTTTCAGCTGTGAGGGAC 58.853 52.381 14.67 4.90 32.98 4.46
1914 2356 0.618981 GGTCCGGGGAATGAAGAAGT 59.381 55.000 0.00 0.00 0.00 3.01
1931 2373 1.469335 TTCGAGTGGAAAGCGAGGGT 61.469 55.000 0.00 0.00 35.31 4.34
1988 2430 2.036346 GGAGCAAGCAACAAAGAACCAT 59.964 45.455 0.00 0.00 0.00 3.55
2054 2496 3.242867 ACACCTCAGACATCTCAAGGAA 58.757 45.455 11.99 0.00 32.77 3.36
2129 4713 0.603975 GAGCTCTGCCGAACCTTGTT 60.604 55.000 6.43 0.00 0.00 2.83
2241 5127 2.934553 TGATTGCGAATGAGCTTGAGAG 59.065 45.455 0.00 0.00 38.13 3.20
2372 5258 0.686769 AGCTACTCCAGTTACCCCCG 60.687 60.000 0.00 0.00 0.00 5.73


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

AutoCloner maintained by Alex Coulton.