Multiple sequence alignment - TraesCS6B01G044200

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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 TraesCS6B01G044200 chr6B 100.000 3524 0 0 1 3524 26619399 26615876 0.000000e+00 6508.0
1 TraesCS6B01G044200 chr6B 89.752 1532 157 0 992 2523 26597784 26596253 0.000000e+00 1960.0
2 TraesCS6B01G044200 chr6B 88.768 1558 171 3 1001 2557 26634792 26633238 0.000000e+00 1905.0
3 TraesCS6B01G044200 chr6B 92.381 105 4 1 591 691 26598235 26598131 2.830000e-31 147.0
4 TraesCS6B01G044200 chr6B 76.068 234 32 14 17 231 26598765 26598537 2.240000e-17 100.0
5 TraesCS6B01G044200 chr6B 90.476 63 2 3 697 759 26645909 26645851 2.920000e-11 80.5
6 TraesCS6B01G044200 chr6B 91.525 59 2 2 697 755 26635120 26635065 1.050000e-10 78.7
7 TraesCS6B01G044200 chr6B 97.368 38 1 0 718 755 26627190 26627153 8.170000e-07 65.8
8 TraesCS6B01G044200 chr6D 94.070 2698 109 21 478 3165 14633476 14630820 0.000000e+00 4048.0
9 TraesCS6B01G044200 chr6D 89.845 1546 155 2 1001 2546 14656589 14655046 0.000000e+00 1984.0
10 TraesCS6B01G044200 chr6D 89.099 1532 167 0 992 2523 14625992 14624461 0.000000e+00 1905.0
11 TraesCS6B01G044200 chr6D 94.562 331 13 4 3163 3488 14630756 14630426 1.130000e-139 507.0
12 TraesCS6B01G044200 chr6D 92.903 155 9 1 1 153 14634145 14633991 1.270000e-54 224.0
13 TraesCS6B01G044200 chr6D 93.333 105 3 1 591 691 14626441 14626337 6.090000e-33 152.0
14 TraesCS6B01G044200 chr6D 91.346 104 6 3 315 417 14633586 14633485 4.740000e-29 139.0
15 TraesCS6B01G044200 chr6D 78.205 234 30 9 17 231 14627025 14626794 2.850000e-26 130.0
16 TraesCS6B01G044200 chr6A 90.270 2703 190 39 478 3169 15756160 15758800 0.000000e+00 3467.0
17 TraesCS6B01G044200 chr6A 90.646 1518 140 2 1001 2517 15727844 15729360 0.000000e+00 2015.0
18 TraesCS6B01G044200 chr6A 85.291 1992 205 51 591 2514 15765525 15767496 0.000000e+00 1975.0
19 TraesCS6B01G044200 chr6A 87.735 1647 189 9 1001 2641 15747615 15749254 0.000000e+00 1910.0
20 TraesCS6B01G044200 chr6A 92.329 365 23 5 3163 3524 15758862 15759224 6.750000e-142 514.0
21 TraesCS6B01G044200 chr6A 85.408 233 24 8 1 233 15755851 15756073 2.120000e-57 233.0
22 TraesCS6B01G044200 chr6A 97.059 68 0 2 351 417 15756085 15756151 2.880000e-21 113.0
23 TraesCS6B01G044200 chr6A 91.803 61 2 2 695 755 15734189 15734246 8.110000e-12 82.4
24 TraesCS6B01G044200 chr6A 90.741 54 5 0 695 748 15727576 15727629 4.880000e-09 73.1
25 TraesCS6B01G044200 chr6A 97.368 38 1 0 718 755 15747369 15747406 8.170000e-07 65.8
26 TraesCS6B01G044200 chrUn 96.907 97 3 0 227 323 228573507 228573603 2.810000e-36 163.0
27 TraesCS6B01G044200 chrUn 96.907 97 3 0 227 323 330649338 330649242 2.810000e-36 163.0
28 TraesCS6B01G044200 chr7B 97.895 95 1 1 225 318 194555215 194555121 2.810000e-36 163.0
29 TraesCS6B01G044200 chr5B 96.907 97 3 0 227 323 88782442 88782538 2.810000e-36 163.0
30 TraesCS6B01G044200 chr5B 98.864 88 1 0 231 318 676928103 676928190 1.310000e-34 158.0
31 TraesCS6B01G044200 chr2D 96.875 96 1 2 230 325 592140686 592140593 3.640000e-35 159.0
32 TraesCS6B01G044200 chr3B 94.231 104 2 4 220 321 125856734 125856835 4.710000e-34 156.0
33 TraesCS6B01G044200 chr4B 94.118 102 4 2 221 321 643626608 643626708 1.690000e-33 154.0
34 TraesCS6B01G044200 chr1B 91.379 116 4 5 226 341 22112662 22112553 1.690000e-33 154.0


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 TraesCS6B01G044200 chr6B 26615876 26619399 3523 True 6508.000000 6508 100.000000 1 3524 1 chr6B.!!$R1 3523
1 TraesCS6B01G044200 chr6B 26633238 26635120 1882 True 991.850000 1905 90.146500 697 2557 2 chr6B.!!$R5 1860
2 TraesCS6B01G044200 chr6B 26596253 26598765 2512 True 735.666667 1960 86.067000 17 2523 3 chr6B.!!$R4 2506
3 TraesCS6B01G044200 chr6D 14655046 14656589 1543 True 1984.000000 1984 89.845000 1001 2546 1 chr6D.!!$R1 1545
4 TraesCS6B01G044200 chr6D 14624461 14634145 9684 True 1015.000000 4048 90.502571 1 3488 7 chr6D.!!$R2 3487
5 TraesCS6B01G044200 chr6A 15765525 15767496 1971 False 1975.000000 1975 85.291000 591 2514 1 chr6A.!!$F2 1923
6 TraesCS6B01G044200 chr6A 15755851 15759224 3373 False 1081.750000 3467 91.266500 1 3524 4 chr6A.!!$F5 3523
7 TraesCS6B01G044200 chr6A 15727576 15729360 1784 False 1044.050000 2015 90.693500 695 2517 2 chr6A.!!$F3 1822
8 TraesCS6B01G044200 chr6A 15747369 15749254 1885 False 987.900000 1910 92.551500 718 2641 2 chr6A.!!$F4 1923

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
247 590 0.038744 AAGTACTCCCTCCGTTCCGA 59.961 55.000 0.00 0.0 0.00 4.55 F
248 591 0.258194 AGTACTCCCTCCGTTCCGAT 59.742 55.000 0.00 0.0 0.00 4.18 F
329 704 0.865769 GGGTGTAGCAAACTGACACG 59.134 55.000 0.00 0.0 43.56 4.49 F
392 768 0.893447 GCTGGCTGGCTTTGAAGATT 59.107 50.000 2.00 0.0 0.00 2.40 F
1084 1782 1.228245 GAGCACAAGGCCAAGTCCA 60.228 57.895 5.01 0.0 46.50 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1084 1782 0.463620 GCGAAGGAGAAGAGCCTGAT 59.536 55.000 0.00 0.00 35.50 2.90 R
1663 2361 0.984961 TCAGGGAGATCTTGCCCCAG 60.985 60.000 17.93 11.34 45.89 4.45 R
1758 2456 2.234896 TCCATGTCCGGTAGTTGGTA 57.765 50.000 0.00 0.00 0.00 3.25 R
2268 2966 3.230976 AGTGCATGCCATGATCATGATT 58.769 40.909 32.71 16.10 42.84 2.57 R
2780 3484 0.392193 CCTGCTCGAACATTCTGGCT 60.392 55.000 0.00 0.00 0.00 4.75 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
75 86 1.707989 TCATTACCTGTCCCCTTGCAA 59.292 47.619 0.00 0.00 0.00 4.08
77 88 0.404040 TTACCTGTCCCCTTGCAAGG 59.596 55.000 34.60 34.60 46.06 3.61
138 154 0.102844 GCCAGTTTGCAAAGTCAGCA 59.897 50.000 24.06 0.00 40.85 4.41
154 170 3.058914 GTCAGCAAATGGACTGTGTGTAC 60.059 47.826 0.00 0.00 35.37 2.90
156 172 1.196808 GCAAATGGACTGTGTGTACGG 59.803 52.381 0.00 0.00 39.18 4.02
157 173 1.196808 CAAATGGACTGTGTGTACGGC 59.803 52.381 0.00 0.00 36.62 5.68
159 175 1.476845 ATGGACTGTGTGTACGGCCA 61.477 55.000 2.24 0.00 40.85 5.36
164 180 0.534203 CTGTGTGTACGGCCAGGTTT 60.534 55.000 2.24 0.00 0.00 3.27
165 181 0.816018 TGTGTGTACGGCCAGGTTTG 60.816 55.000 2.24 0.00 0.00 2.93
175 191 2.941210 CCAGGTTTGGCATACACGT 58.059 52.632 10.23 0.00 37.73 4.49
178 194 2.151202 CAGGTTTGGCATACACGTTCT 58.849 47.619 10.23 0.00 0.00 3.01
179 195 3.331150 CAGGTTTGGCATACACGTTCTA 58.669 45.455 10.23 0.00 0.00 2.10
180 196 3.749088 CAGGTTTGGCATACACGTTCTAA 59.251 43.478 10.23 0.00 0.00 2.10
181 197 3.749609 AGGTTTGGCATACACGTTCTAAC 59.250 43.478 10.23 0.00 0.00 2.34
182 198 3.499157 GGTTTGGCATACACGTTCTAACA 59.501 43.478 10.23 0.00 0.00 2.41
184 200 3.671008 TGGCATACACGTTCTAACAGT 57.329 42.857 0.00 0.00 0.00 3.55
187 203 2.027688 GCATACACGTTCTAACAGTCGC 59.972 50.000 0.00 0.00 0.00 5.19
223 566 0.171007 CCGTTGGATCGCTGCAAAAT 59.829 50.000 0.00 0.00 34.22 1.82
240 583 4.809673 CAAAATTTGCAAGTACTCCCTCC 58.190 43.478 0.00 0.00 0.00 4.30
241 584 2.403252 ATTTGCAAGTACTCCCTCCG 57.597 50.000 0.00 0.00 0.00 4.63
242 585 1.053424 TTTGCAAGTACTCCCTCCGT 58.947 50.000 0.00 0.00 0.00 4.69
243 586 1.053424 TTGCAAGTACTCCCTCCGTT 58.947 50.000 0.00 0.00 0.00 4.44
244 587 0.606604 TGCAAGTACTCCCTCCGTTC 59.393 55.000 0.00 0.00 0.00 3.95
245 588 0.108281 GCAAGTACTCCCTCCGTTCC 60.108 60.000 0.00 0.00 0.00 3.62
246 589 0.172803 CAAGTACTCCCTCCGTTCCG 59.827 60.000 0.00 0.00 0.00 4.30
247 590 0.038744 AAGTACTCCCTCCGTTCCGA 59.961 55.000 0.00 0.00 0.00 4.55
248 591 0.258194 AGTACTCCCTCCGTTCCGAT 59.742 55.000 0.00 0.00 0.00 4.18
249 592 1.109609 GTACTCCCTCCGTTCCGATT 58.890 55.000 0.00 0.00 0.00 3.34
250 593 1.479730 GTACTCCCTCCGTTCCGATTT 59.520 52.381 0.00 0.00 0.00 2.17
251 594 1.856629 ACTCCCTCCGTTCCGATTTA 58.143 50.000 0.00 0.00 0.00 1.40
252 595 1.479730 ACTCCCTCCGTTCCGATTTAC 59.520 52.381 0.00 0.00 0.00 2.01
253 596 1.755380 CTCCCTCCGTTCCGATTTACT 59.245 52.381 0.00 0.00 0.00 2.24
254 597 1.753073 TCCCTCCGTTCCGATTTACTC 59.247 52.381 0.00 0.00 0.00 2.59
256 599 1.133790 CCTCCGTTCCGATTTACTCGT 59.866 52.381 0.00 0.00 46.18 4.18
257 600 2.448219 CTCCGTTCCGATTTACTCGTC 58.552 52.381 0.00 0.00 46.18 4.20
258 601 1.186030 CCGTTCCGATTTACTCGTCG 58.814 55.000 0.00 0.00 46.18 5.12
259 602 1.466360 CCGTTCCGATTTACTCGTCGT 60.466 52.381 0.00 0.00 46.18 4.34
260 603 1.576246 CGTTCCGATTTACTCGTCGTG 59.424 52.381 0.00 0.00 46.18 4.35
261 604 1.916000 GTTCCGATTTACTCGTCGTGG 59.084 52.381 0.00 0.00 46.18 4.94
262 605 1.167851 TCCGATTTACTCGTCGTGGT 58.832 50.000 0.00 0.00 46.18 4.16
263 606 1.541147 TCCGATTTACTCGTCGTGGTT 59.459 47.619 0.00 0.00 46.18 3.67
264 607 2.030007 TCCGATTTACTCGTCGTGGTTT 60.030 45.455 0.00 0.00 46.18 3.27
265 608 2.733026 CCGATTTACTCGTCGTGGTTTT 59.267 45.455 0.00 0.00 46.18 2.43
266 609 3.919804 CCGATTTACTCGTCGTGGTTTTA 59.080 43.478 0.00 0.00 46.18 1.52
267 610 4.030977 CCGATTTACTCGTCGTGGTTTTAG 59.969 45.833 0.00 0.00 46.18 1.85
268 611 4.618489 CGATTTACTCGTCGTGGTTTTAGT 59.382 41.667 0.00 0.00 42.56 2.24
269 612 5.117592 CGATTTACTCGTCGTGGTTTTAGTT 59.882 40.000 0.00 0.00 42.56 2.24
270 613 5.888412 TTTACTCGTCGTGGTTTTAGTTC 57.112 39.130 0.00 0.00 0.00 3.01
271 614 3.441496 ACTCGTCGTGGTTTTAGTTCA 57.559 42.857 0.00 0.00 0.00 3.18
272 615 3.784338 ACTCGTCGTGGTTTTAGTTCAA 58.216 40.909 0.00 0.00 0.00 2.69
273 616 4.183101 ACTCGTCGTGGTTTTAGTTCAAA 58.817 39.130 0.00 0.00 0.00 2.69
274 617 4.812626 ACTCGTCGTGGTTTTAGTTCAAAT 59.187 37.500 0.00 0.00 0.00 2.32
275 618 5.295045 ACTCGTCGTGGTTTTAGTTCAAATT 59.705 36.000 0.00 0.00 0.00 1.82
276 619 6.121613 TCGTCGTGGTTTTAGTTCAAATTT 57.878 33.333 0.00 0.00 0.00 1.82
277 620 5.966503 TCGTCGTGGTTTTAGTTCAAATTTG 59.033 36.000 12.15 12.15 0.00 2.32
278 621 5.966503 CGTCGTGGTTTTAGTTCAAATTTGA 59.033 36.000 16.91 16.91 34.92 2.69
279 622 6.469595 CGTCGTGGTTTTAGTTCAAATTTGAA 59.530 34.615 26.01 26.01 44.31 2.69
292 635 7.743520 TTCAAATTTGAACTAAAACCACGAC 57.256 32.000 26.01 0.00 41.88 4.34
293 636 5.966503 TCAAATTTGAACTAAAACCACGACG 59.033 36.000 18.45 0.00 33.55 5.12
294 637 5.738118 AATTTGAACTAAAACCACGACGA 57.262 34.783 0.00 0.00 0.00 4.20
295 638 4.782252 TTTGAACTAAAACCACGACGAG 57.218 40.909 0.00 0.00 0.00 4.18
296 639 3.441496 TGAACTAAAACCACGACGAGT 57.559 42.857 0.00 0.00 0.00 4.18
297 640 4.566545 TGAACTAAAACCACGACGAGTA 57.433 40.909 0.00 0.00 0.00 2.59
298 641 4.930963 TGAACTAAAACCACGACGAGTAA 58.069 39.130 0.00 0.00 0.00 2.24
299 642 5.347342 TGAACTAAAACCACGACGAGTAAA 58.653 37.500 0.00 0.00 0.00 2.01
300 643 5.984926 TGAACTAAAACCACGACGAGTAAAT 59.015 36.000 0.00 0.00 0.00 1.40
301 644 6.144402 TGAACTAAAACCACGACGAGTAAATC 59.856 38.462 0.00 0.00 0.00 2.17
326 669 1.809684 GGAGGGTGTAGCAAACTGAC 58.190 55.000 0.00 0.00 0.00 3.51
329 704 0.865769 GGGTGTAGCAAACTGACACG 59.134 55.000 0.00 0.00 43.56 4.49
392 768 0.893447 GCTGGCTGGCTTTGAAGATT 59.107 50.000 2.00 0.00 0.00 2.40
460 961 6.313905 GGATACTTGATGACACTGTTACAAGG 59.686 42.308 18.83 8.66 38.93 3.61
461 962 5.036117 ACTTGATGACACTGTTACAAGGT 57.964 39.130 18.83 0.00 38.93 3.50
462 963 6.169557 ACTTGATGACACTGTTACAAGGTA 57.830 37.500 18.83 0.00 38.93 3.08
464 965 7.224297 ACTTGATGACACTGTTACAAGGTATT 58.776 34.615 18.83 5.02 38.93 1.89
465 966 7.719633 ACTTGATGACACTGTTACAAGGTATTT 59.280 33.333 18.83 4.79 38.93 1.40
467 968 7.870826 TGATGACACTGTTACAAGGTATTTTG 58.129 34.615 0.00 0.00 0.00 2.44
468 969 7.500892 TGATGACACTGTTACAAGGTATTTTGT 59.499 33.333 0.00 0.00 43.34 2.83
470 971 7.699566 TGACACTGTTACAAGGTATTTTGTTC 58.300 34.615 0.00 0.00 41.31 3.18
471 972 7.337184 TGACACTGTTACAAGGTATTTTGTTCA 59.663 33.333 0.00 0.00 41.31 3.18
472 973 7.477494 ACACTGTTACAAGGTATTTTGTTCAC 58.523 34.615 0.00 0.00 41.31 3.18
492 993 6.233905 TCACTTTATGTATAGCCAGCAAGA 57.766 37.500 0.00 0.00 0.00 3.02
497 998 1.414181 TGTATAGCCAGCAAGAGAGCC 59.586 52.381 0.00 0.00 34.23 4.70
512 1013 4.694339 AGAGAGCCAATAAACATCGTACC 58.306 43.478 0.00 0.00 0.00 3.34
513 1014 3.454375 AGAGCCAATAAACATCGTACCG 58.546 45.455 0.00 0.00 0.00 4.02
515 1016 3.454375 AGCCAATAAACATCGTACCGAG 58.546 45.455 0.00 0.00 39.91 4.63
526 1027 4.571580 ACATCGTACCGAGTCTTTCTCTAG 59.428 45.833 0.00 0.00 39.91 2.43
531 1032 2.229302 ACCGAGTCTTTCTCTAGCACAC 59.771 50.000 0.00 0.00 40.75 3.82
551 1052 5.020795 ACACTGGGACAAGGTAAAACTTTT 58.979 37.500 0.00 0.00 38.70 2.27
553 1054 4.647853 ACTGGGACAAGGTAAAACTTTTCC 59.352 41.667 4.63 4.63 43.41 3.13
556 1057 5.722441 TGGGACAAGGTAAAACTTTTCCTTT 59.278 36.000 11.67 3.79 42.86 3.11
557 1058 6.046593 GGGACAAGGTAAAACTTTTCCTTTG 58.953 40.000 11.67 4.37 42.86 2.77
558 1059 6.351541 GGGACAAGGTAAAACTTTTCCTTTGT 60.352 38.462 11.67 6.94 42.86 2.83
559 1060 6.533723 GGACAAGGTAAAACTTTTCCTTTGTG 59.466 38.462 10.73 4.21 42.86 3.33
560 1061 6.999950 ACAAGGTAAAACTTTTCCTTTGTGT 58.000 32.000 9.63 4.72 42.86 3.72
561 1062 8.124808 ACAAGGTAAAACTTTTCCTTTGTGTA 57.875 30.769 9.63 0.00 42.86 2.90
562 1063 8.586744 ACAAGGTAAAACTTTTCCTTTGTGTAA 58.413 29.630 9.63 0.00 42.86 2.41
564 1065 7.262772 AGGTAAAACTTTTCCTTTGTGTAAGC 58.737 34.615 0.00 0.00 34.75 3.09
565 1066 7.036829 GGTAAAACTTTTCCTTTGTGTAAGCA 58.963 34.615 0.00 0.00 32.19 3.91
566 1067 7.222031 GGTAAAACTTTTCCTTTGTGTAAGCAG 59.778 37.037 0.00 0.00 32.19 4.24
567 1068 5.914898 AACTTTTCCTTTGTGTAAGCAGT 57.085 34.783 0.00 0.00 32.19 4.40
568 1069 5.914898 ACTTTTCCTTTGTGTAAGCAGTT 57.085 34.783 0.00 0.00 32.19 3.16
569 1070 5.891451 ACTTTTCCTTTGTGTAAGCAGTTC 58.109 37.500 0.00 0.00 32.19 3.01
570 1071 5.417580 ACTTTTCCTTTGTGTAAGCAGTTCA 59.582 36.000 0.00 0.00 32.19 3.18
571 1072 5.499139 TTTCCTTTGTGTAAGCAGTTCAG 57.501 39.130 0.00 0.00 32.19 3.02
572 1073 4.150897 TCCTTTGTGTAAGCAGTTCAGT 57.849 40.909 0.00 0.00 32.19 3.41
573 1074 4.523083 TCCTTTGTGTAAGCAGTTCAGTT 58.477 39.130 0.00 0.00 32.19 3.16
574 1075 4.574828 TCCTTTGTGTAAGCAGTTCAGTTC 59.425 41.667 0.00 0.00 32.19 3.01
575 1076 4.576463 CCTTTGTGTAAGCAGTTCAGTTCT 59.424 41.667 0.00 0.00 32.19 3.01
576 1077 5.066505 CCTTTGTGTAAGCAGTTCAGTTCTT 59.933 40.000 0.00 0.00 32.19 2.52
577 1078 5.734855 TTGTGTAAGCAGTTCAGTTCTTC 57.265 39.130 0.00 0.00 0.00 2.87
578 1079 3.802139 TGTGTAAGCAGTTCAGTTCTTCG 59.198 43.478 0.00 0.00 0.00 3.79
579 1080 3.802685 GTGTAAGCAGTTCAGTTCTTCGT 59.197 43.478 0.00 0.00 0.00 3.85
580 1081 3.802139 TGTAAGCAGTTCAGTTCTTCGTG 59.198 43.478 0.00 0.00 0.00 4.35
581 1082 2.604046 AGCAGTTCAGTTCTTCGTGT 57.396 45.000 0.00 0.00 0.00 4.49
582 1083 2.205074 AGCAGTTCAGTTCTTCGTGTG 58.795 47.619 0.00 0.00 0.00 3.82
583 1084 1.333258 GCAGTTCAGTTCTTCGTGTGC 60.333 52.381 0.00 0.00 0.00 4.57
584 1085 1.933181 CAGTTCAGTTCTTCGTGTGCA 59.067 47.619 0.00 0.00 0.00 4.57
770 1328 4.261801 CATTCTTTCCGGGTAGACAATGT 58.738 43.478 0.00 0.00 0.00 2.71
883 1497 7.806487 CGTCTCGCTATAAATACCAAACTGATA 59.194 37.037 0.00 0.00 0.00 2.15
895 1509 8.964476 ATACCAAACTGATACGAGATTCAAAT 57.036 30.769 0.00 0.00 0.00 2.32
924 1538 4.997395 GCCATACTACCACATCACCATTAG 59.003 45.833 0.00 0.00 0.00 1.73
925 1539 5.454755 GCCATACTACCACATCACCATTAGT 60.455 44.000 0.00 0.00 0.00 2.24
926 1540 6.223852 CCATACTACCACATCACCATTAGTC 58.776 44.000 0.00 0.00 0.00 2.59
927 1541 4.755266 ACTACCACATCACCATTAGTCC 57.245 45.455 0.00 0.00 0.00 3.85
928 1542 4.101114 ACTACCACATCACCATTAGTCCA 58.899 43.478 0.00 0.00 0.00 4.02
929 1543 4.721776 ACTACCACATCACCATTAGTCCAT 59.278 41.667 0.00 0.00 0.00 3.41
930 1544 4.591321 ACCACATCACCATTAGTCCATT 57.409 40.909 0.00 0.00 0.00 3.16
931 1545 5.708736 ACCACATCACCATTAGTCCATTA 57.291 39.130 0.00 0.00 0.00 1.90
939 1554 8.777413 CATCACCATTAGTCCATTACTACATTG 58.223 37.037 0.00 0.00 40.48 2.82
945 1560 4.442706 AGTCCATTACTACATTGAAGCCG 58.557 43.478 0.00 0.00 36.36 5.52
978 1593 1.613437 GCAGCAACAACCACCATTAGT 59.387 47.619 0.00 0.00 0.00 2.24
982 1597 2.660490 CAACAACCACCATTAGTTGCG 58.340 47.619 2.94 0.00 45.79 4.85
1084 1782 1.228245 GAGCACAAGGCCAAGTCCA 60.228 57.895 5.01 0.00 46.50 4.02
1161 1859 2.551459 CTCCTTCTTCACCTGCTTTGTG 59.449 50.000 0.00 0.00 35.01 3.33
1866 2564 1.713297 ACTACGACCACTTCCACCTT 58.287 50.000 0.00 0.00 0.00 3.50
2172 2870 1.417890 CTTGGTATCATCTCCGGGCTT 59.582 52.381 0.00 0.00 0.00 4.35
2217 2915 1.230635 CGGGGCTCACACAACTTCTG 61.231 60.000 0.00 0.00 0.00 3.02
2220 2918 2.024414 GGGCTCACACAACTTCTGTTT 58.976 47.619 0.00 0.00 35.47 2.83
2268 2966 1.080498 AGGGGTCTTGAGTACATGGGA 59.920 52.381 0.00 0.00 0.00 4.37
2451 3149 4.516195 GCCGAGAACTCCCGCTCC 62.516 72.222 0.00 0.00 0.00 4.70
2527 3225 1.382240 CCCCAACATGTGTAGGGCA 59.618 57.895 20.52 0.00 40.07 5.36
2577 3275 8.258007 AGCATACATTTACGTATATACATGCCT 58.742 33.333 24.33 16.18 30.83 4.75
2600 3300 4.103013 ACATATGTATGGCTGCAATCCA 57.897 40.909 6.56 9.50 38.00 3.41
2605 3305 1.093972 TATGGCTGCAATCCAACGTG 58.906 50.000 10.93 0.00 37.13 4.49
2649 3349 7.065923 GGATTTACCTTTCTGCTAAACACTAGG 59.934 40.741 0.00 0.00 35.41 3.02
2691 3391 5.122869 TGCGAACGAGGGTATATGTACTATC 59.877 44.000 0.00 0.00 0.00 2.08
2840 3544 5.925509 AGTCTAAACTAAACCAAGTGAGCA 58.074 37.500 0.00 0.00 32.59 4.26
2894 3603 9.239551 GTAAATTTTACTGTCCCAACTATTCCT 57.760 33.333 11.27 0.00 0.00 3.36
2915 3624 2.846206 TCATGGATGTTTGGCTCTACCT 59.154 45.455 0.00 0.00 40.22 3.08
2980 3689 4.835284 TGTGACTGAAATATGGTAGCCA 57.165 40.909 0.00 0.00 38.19 4.75
3041 3750 9.744468 AATTTTGTTAGTAAAATTCTCGCACTT 57.256 25.926 0.00 0.00 43.19 3.16
3165 3880 3.867723 CGAGGGCGTAATGAGGTAG 57.132 57.895 0.00 0.00 0.00 3.18
3176 3961 4.214971 CGTAATGAGGTAGTAGTACGCCAT 59.785 45.833 15.91 5.00 34.77 4.40
3184 3969 3.284793 AGTAGTACGCCATGAGAGACT 57.715 47.619 0.00 0.70 0.00 3.24
3256 4042 7.234577 AGAGATGGGACCTCTAAAATATGAGAC 59.765 40.741 0.00 0.00 39.07 3.36
3519 4704 2.614829 AGTAGCAACTGGTTGACGTT 57.385 45.000 16.41 2.59 42.93 3.99
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 4.970711 TCTTGCCTACGTAGACTAGCTAT 58.029 43.478 24.15 0.00 0.00 2.97
22 23 9.310716 GTATCTTTAGTTAATTCTTGCCTACGT 57.689 33.333 0.00 0.00 0.00 3.57
27 28 8.193250 TCGTGTATCTTTAGTTAATTCTTGCC 57.807 34.615 0.00 0.00 0.00 4.52
75 86 1.837439 TCAAACCTGACACTGACACCT 59.163 47.619 0.00 0.00 0.00 4.00
138 154 1.519408 GCCGTACACACAGTCCATTT 58.481 50.000 0.00 0.00 0.00 2.32
157 173 1.199097 GAACGTGTATGCCAAACCTGG 59.801 52.381 0.00 0.00 46.65 4.45
159 175 2.561478 AGAACGTGTATGCCAAACCT 57.439 45.000 0.00 0.00 0.00 3.50
164 180 3.581755 GACTGTTAGAACGTGTATGCCA 58.418 45.455 0.00 0.00 0.00 4.92
165 181 2.597305 CGACTGTTAGAACGTGTATGCC 59.403 50.000 0.00 0.00 0.00 4.40
168 184 2.730090 CGGCGACTGTTAGAACGTGTAT 60.730 50.000 0.00 0.00 0.00 2.29
169 185 1.400113 CGGCGACTGTTAGAACGTGTA 60.400 52.381 0.00 0.00 0.00 2.90
170 186 0.662374 CGGCGACTGTTAGAACGTGT 60.662 55.000 0.00 0.00 0.00 4.49
172 188 0.386478 GACGGCGACTGTTAGAACGT 60.386 55.000 16.62 0.00 35.64 3.99
173 189 1.393597 CGACGGCGACTGTTAGAACG 61.394 60.000 16.62 0.00 40.82 3.95
174 190 0.386478 ACGACGGCGACTGTTAGAAC 60.386 55.000 22.49 0.00 41.64 3.01
175 191 0.386352 CACGACGGCGACTGTTAGAA 60.386 55.000 22.49 0.00 41.64 2.10
178 194 2.256158 CCACGACGGCGACTGTTA 59.744 61.111 22.49 0.00 41.64 2.41
187 203 2.202623 GACAGCTAGCCACGACGG 60.203 66.667 12.13 0.00 38.11 4.79
223 566 1.053424 ACGGAGGGAGTACTTGCAAA 58.947 50.000 0.00 0.00 0.00 3.68
246 589 6.144402 TGAACTAAAACCACGACGAGTAAATC 59.856 38.462 0.00 0.00 0.00 2.17
247 590 5.984926 TGAACTAAAACCACGACGAGTAAAT 59.015 36.000 0.00 0.00 0.00 1.40
248 591 5.347342 TGAACTAAAACCACGACGAGTAAA 58.653 37.500 0.00 0.00 0.00 2.01
249 592 4.930963 TGAACTAAAACCACGACGAGTAA 58.069 39.130 0.00 0.00 0.00 2.24
250 593 4.566545 TGAACTAAAACCACGACGAGTA 57.433 40.909 0.00 0.00 0.00 2.59
251 594 3.441496 TGAACTAAAACCACGACGAGT 57.559 42.857 0.00 0.00 0.00 4.18
252 595 4.782252 TTTGAACTAAAACCACGACGAG 57.218 40.909 0.00 0.00 0.00 4.18
253 596 5.738118 AATTTGAACTAAAACCACGACGA 57.262 34.783 0.00 0.00 0.00 4.20
254 597 5.966503 TCAAATTTGAACTAAAACCACGACG 59.033 36.000 18.45 0.00 33.55 5.12
255 598 7.743520 TTCAAATTTGAACTAAAACCACGAC 57.256 32.000 26.01 0.00 41.88 4.34
268 611 6.469595 CGTCGTGGTTTTAGTTCAAATTTGAA 59.530 34.615 26.01 26.01 44.31 2.69
269 612 5.966503 CGTCGTGGTTTTAGTTCAAATTTGA 59.033 36.000 16.91 16.91 34.92 2.69
270 613 5.966503 TCGTCGTGGTTTTAGTTCAAATTTG 59.033 36.000 12.15 12.15 0.00 2.32
271 614 6.121613 TCGTCGTGGTTTTAGTTCAAATTT 57.878 33.333 0.00 0.00 0.00 1.82
272 615 5.295045 ACTCGTCGTGGTTTTAGTTCAAATT 59.705 36.000 0.00 0.00 0.00 1.82
273 616 4.812626 ACTCGTCGTGGTTTTAGTTCAAAT 59.187 37.500 0.00 0.00 0.00 2.32
274 617 4.183101 ACTCGTCGTGGTTTTAGTTCAAA 58.817 39.130 0.00 0.00 0.00 2.69
275 618 3.784338 ACTCGTCGTGGTTTTAGTTCAA 58.216 40.909 0.00 0.00 0.00 2.69
276 619 3.441496 ACTCGTCGTGGTTTTAGTTCA 57.559 42.857 0.00 0.00 0.00 3.18
277 620 5.888412 TTTACTCGTCGTGGTTTTAGTTC 57.112 39.130 0.00 0.00 0.00 3.01
278 621 5.117592 CGATTTACTCGTCGTGGTTTTAGTT 59.882 40.000 0.00 0.00 42.56 2.24
279 622 4.618489 CGATTTACTCGTCGTGGTTTTAGT 59.382 41.667 0.00 0.00 42.56 2.24
280 623 4.030977 CCGATTTACTCGTCGTGGTTTTAG 59.969 45.833 0.00 0.00 46.18 1.85
281 624 3.919804 CCGATTTACTCGTCGTGGTTTTA 59.080 43.478 0.00 0.00 46.18 1.52
282 625 2.733026 CCGATTTACTCGTCGTGGTTTT 59.267 45.455 0.00 0.00 46.18 2.43
283 626 2.030007 TCCGATTTACTCGTCGTGGTTT 60.030 45.455 0.00 0.00 46.18 3.27
284 627 1.541147 TCCGATTTACTCGTCGTGGTT 59.459 47.619 0.00 0.00 46.18 3.67
285 628 1.167851 TCCGATTTACTCGTCGTGGT 58.832 50.000 0.00 0.00 46.18 4.16
286 629 1.916000 GTTCCGATTTACTCGTCGTGG 59.084 52.381 0.00 0.00 46.18 4.94
287 630 1.576246 CGTTCCGATTTACTCGTCGTG 59.424 52.381 0.00 0.00 46.18 4.35
288 631 1.466360 CCGTTCCGATTTACTCGTCGT 60.466 52.381 0.00 0.00 46.18 4.34
289 632 1.186030 CCGTTCCGATTTACTCGTCG 58.814 55.000 0.00 0.00 46.18 5.12
290 633 2.448219 CTCCGTTCCGATTTACTCGTC 58.552 52.381 0.00 0.00 46.18 4.20
291 634 1.133790 CCTCCGTTCCGATTTACTCGT 59.866 52.381 0.00 0.00 46.18 4.18
293 636 1.479730 ACCCTCCGTTCCGATTTACTC 59.520 52.381 0.00 0.00 0.00 2.59
294 637 1.206371 CACCCTCCGTTCCGATTTACT 59.794 52.381 0.00 0.00 0.00 2.24
295 638 1.066645 ACACCCTCCGTTCCGATTTAC 60.067 52.381 0.00 0.00 0.00 2.01
296 639 1.269012 ACACCCTCCGTTCCGATTTA 58.731 50.000 0.00 0.00 0.00 1.40
297 640 1.206371 CTACACCCTCCGTTCCGATTT 59.794 52.381 0.00 0.00 0.00 2.17
298 641 0.822164 CTACACCCTCCGTTCCGATT 59.178 55.000 0.00 0.00 0.00 3.34
299 642 1.673808 GCTACACCCTCCGTTCCGAT 61.674 60.000 0.00 0.00 0.00 4.18
300 643 2.345760 GCTACACCCTCCGTTCCGA 61.346 63.158 0.00 0.00 0.00 4.55
301 644 2.162338 TTGCTACACCCTCCGTTCCG 62.162 60.000 0.00 0.00 0.00 4.30
302 645 0.035739 TTTGCTACACCCTCCGTTCC 59.964 55.000 0.00 0.00 0.00 3.62
303 646 1.154197 GTTTGCTACACCCTCCGTTC 58.846 55.000 0.00 0.00 0.00 3.95
304 647 0.763035 AGTTTGCTACACCCTCCGTT 59.237 50.000 0.00 0.00 0.00 4.44
305 648 0.034896 CAGTTTGCTACACCCTCCGT 59.965 55.000 0.00 0.00 0.00 4.69
306 649 0.320374 TCAGTTTGCTACACCCTCCG 59.680 55.000 0.00 0.00 0.00 4.63
307 650 1.071699 TGTCAGTTTGCTACACCCTCC 59.928 52.381 0.00 0.00 0.00 4.30
308 651 2.143925 GTGTCAGTTTGCTACACCCTC 58.856 52.381 0.00 0.00 38.02 4.30
309 652 1.540363 CGTGTCAGTTTGCTACACCCT 60.540 52.381 0.00 0.00 40.28 4.34
310 653 0.865769 CGTGTCAGTTTGCTACACCC 59.134 55.000 0.00 0.00 40.28 4.61
311 654 0.865769 CCGTGTCAGTTTGCTACACC 59.134 55.000 0.00 0.00 40.28 4.16
312 655 1.578583 ACCGTGTCAGTTTGCTACAC 58.421 50.000 0.00 0.00 40.05 2.90
313 656 1.937223 CAACCGTGTCAGTTTGCTACA 59.063 47.619 0.00 0.00 0.00 2.74
314 657 1.333791 GCAACCGTGTCAGTTTGCTAC 60.334 52.381 5.95 0.00 0.00 3.58
315 658 0.941542 GCAACCGTGTCAGTTTGCTA 59.058 50.000 5.95 0.00 0.00 3.49
316 659 1.029408 TGCAACCGTGTCAGTTTGCT 61.029 50.000 12.07 0.00 0.00 3.91
326 669 1.081906 GTGTGAGCATGCAACCGTG 60.082 57.895 21.98 0.00 0.00 4.94
329 704 2.288334 TGAAATGTGTGAGCATGCAACC 60.288 45.455 21.98 9.11 0.00 3.77
426 927 9.823647 CAGTGTCATCAAGTATCCTAATTAACT 57.176 33.333 0.00 0.00 0.00 2.24
427 928 9.601217 ACAGTGTCATCAAGTATCCTAATTAAC 57.399 33.333 0.00 0.00 0.00 2.01
431 932 8.758829 TGTAACAGTGTCATCAAGTATCCTAAT 58.241 33.333 0.00 0.00 0.00 1.73
432 933 8.129496 TGTAACAGTGTCATCAAGTATCCTAA 57.871 34.615 0.00 0.00 0.00 2.69
434 935 6.605471 TGTAACAGTGTCATCAAGTATCCT 57.395 37.500 0.00 0.00 0.00 3.24
436 937 6.874134 ACCTTGTAACAGTGTCATCAAGTATC 59.126 38.462 21.91 0.92 33.00 2.24
437 938 6.769512 ACCTTGTAACAGTGTCATCAAGTAT 58.230 36.000 21.91 13.47 33.00 2.12
438 939 6.169557 ACCTTGTAACAGTGTCATCAAGTA 57.830 37.500 21.91 1.01 33.00 2.24
439 940 5.036117 ACCTTGTAACAGTGTCATCAAGT 57.964 39.130 21.91 13.57 33.00 3.16
441 942 8.349245 CAAAATACCTTGTAACAGTGTCATCAA 58.651 33.333 0.00 2.15 0.00 2.57
442 943 7.500892 ACAAAATACCTTGTAACAGTGTCATCA 59.499 33.333 0.00 0.00 37.76 3.07
443 944 7.871853 ACAAAATACCTTGTAACAGTGTCATC 58.128 34.615 0.00 0.00 37.76 2.92
444 945 7.817418 ACAAAATACCTTGTAACAGTGTCAT 57.183 32.000 0.00 0.00 37.76 3.06
445 946 7.337184 TGAACAAAATACCTTGTAACAGTGTCA 59.663 33.333 0.00 0.00 38.59 3.58
446 947 7.642586 GTGAACAAAATACCTTGTAACAGTGTC 59.357 37.037 0.00 0.00 38.59 3.67
447 948 7.338449 AGTGAACAAAATACCTTGTAACAGTGT 59.662 33.333 0.00 0.00 38.59 3.55
448 949 7.703328 AGTGAACAAAATACCTTGTAACAGTG 58.297 34.615 0.00 0.00 38.59 3.66
449 950 7.875327 AGTGAACAAAATACCTTGTAACAGT 57.125 32.000 0.00 0.00 38.59 3.55
462 963 8.190784 GCTGGCTATACATAAAGTGAACAAAAT 58.809 33.333 0.00 0.00 0.00 1.82
464 965 6.657117 TGCTGGCTATACATAAAGTGAACAAA 59.343 34.615 0.00 0.00 0.00 2.83
465 966 6.176896 TGCTGGCTATACATAAAGTGAACAA 58.823 36.000 0.00 0.00 0.00 2.83
467 968 6.538742 TCTTGCTGGCTATACATAAAGTGAAC 59.461 38.462 0.00 0.00 0.00 3.18
468 969 6.649155 TCTTGCTGGCTATACATAAAGTGAA 58.351 36.000 0.00 0.00 0.00 3.18
470 971 6.283694 TCTCTTGCTGGCTATACATAAAGTG 58.716 40.000 0.00 0.00 0.00 3.16
471 972 6.485830 TCTCTTGCTGGCTATACATAAAGT 57.514 37.500 0.00 0.00 0.00 2.66
472 973 5.407995 GCTCTCTTGCTGGCTATACATAAAG 59.592 44.000 0.00 0.00 0.00 1.85
476 977 2.038295 GGCTCTCTTGCTGGCTATACAT 59.962 50.000 0.00 0.00 0.00 2.29
487 988 3.375299 ACGATGTTTATTGGCTCTCTTGC 59.625 43.478 0.00 0.00 0.00 4.01
513 1014 3.367910 CCCAGTGTGCTAGAGAAAGACTC 60.368 52.174 0.00 0.00 45.22 3.36
515 1016 2.563179 TCCCAGTGTGCTAGAGAAAGAC 59.437 50.000 0.00 0.00 0.00 3.01
526 1027 1.975660 TTTACCTTGTCCCAGTGTGC 58.024 50.000 0.00 0.00 0.00 4.57
531 1032 4.893524 AGGAAAAGTTTTACCTTGTCCCAG 59.106 41.667 6.96 0.00 46.22 4.45
551 1052 4.150897 ACTGAACTGCTTACACAAAGGA 57.849 40.909 0.00 0.00 35.58 3.36
553 1054 5.741388 AGAACTGAACTGCTTACACAAAG 57.259 39.130 0.00 0.00 38.32 2.77
556 1057 3.802139 CGAAGAACTGAACTGCTTACACA 59.198 43.478 0.00 0.00 0.00 3.72
557 1058 3.802685 ACGAAGAACTGAACTGCTTACAC 59.197 43.478 0.00 0.00 0.00 2.90
558 1059 3.802139 CACGAAGAACTGAACTGCTTACA 59.198 43.478 0.00 0.00 0.00 2.41
559 1060 3.802685 ACACGAAGAACTGAACTGCTTAC 59.197 43.478 0.00 0.00 0.00 2.34
560 1061 3.802139 CACACGAAGAACTGAACTGCTTA 59.198 43.478 0.00 0.00 0.00 3.09
561 1062 2.609459 CACACGAAGAACTGAACTGCTT 59.391 45.455 0.00 0.00 0.00 3.91
562 1063 2.205074 CACACGAAGAACTGAACTGCT 58.795 47.619 0.00 0.00 0.00 4.24
564 1065 1.933181 TGCACACGAAGAACTGAACTG 59.067 47.619 0.00 0.00 0.00 3.16
565 1066 2.205074 CTGCACACGAAGAACTGAACT 58.795 47.619 0.00 0.00 0.00 3.01
566 1067 1.333258 GCTGCACACGAAGAACTGAAC 60.333 52.381 0.00 0.00 0.00 3.18
567 1068 0.937304 GCTGCACACGAAGAACTGAA 59.063 50.000 0.00 0.00 0.00 3.02
568 1069 0.179086 TGCTGCACACGAAGAACTGA 60.179 50.000 0.00 0.00 0.00 3.41
569 1070 0.041839 GTGCTGCACACGAAGAACTG 60.042 55.000 26.70 0.00 40.07 3.16
570 1071 2.311294 GTGCTGCACACGAAGAACT 58.689 52.632 26.70 0.00 40.07 3.01
571 1072 4.901627 GTGCTGCACACGAAGAAC 57.098 55.556 26.70 0.00 40.07 3.01
578 1079 2.046313 CGAATTTCTTGTGCTGCACAC 58.954 47.619 33.02 18.99 44.47 3.82
579 1080 1.946081 TCGAATTTCTTGTGCTGCACA 59.054 42.857 29.99 29.99 43.02 4.57
580 1081 2.686558 TCGAATTTCTTGTGCTGCAC 57.313 45.000 25.15 25.15 34.56 4.57
581 1082 3.503363 AGAATCGAATTTCTTGTGCTGCA 59.497 39.130 0.00 0.00 31.94 4.41
582 1083 3.850273 CAGAATCGAATTTCTTGTGCTGC 59.150 43.478 0.00 0.00 33.69 5.25
583 1084 4.154737 TCCAGAATCGAATTTCTTGTGCTG 59.845 41.667 0.00 0.00 33.69 4.41
584 1085 4.154918 GTCCAGAATCGAATTTCTTGTGCT 59.845 41.667 0.00 0.00 33.69 4.40
770 1328 8.098286 TCTTAGCTGTAGGTTAAGTGCAATTAA 58.902 33.333 14.91 14.91 39.00 1.40
883 1497 3.411446 TGGCTTGTGATTTGAATCTCGT 58.589 40.909 5.42 0.00 36.39 4.18
895 1509 3.517500 TGATGTGGTAGTATGGCTTGTGA 59.482 43.478 0.00 0.00 0.00 3.58
924 1538 4.439057 TCGGCTTCAATGTAGTAATGGAC 58.561 43.478 0.00 0.00 0.00 4.02
925 1539 4.693283 CTCGGCTTCAATGTAGTAATGGA 58.307 43.478 0.00 0.00 0.00 3.41
926 1540 3.248602 GCTCGGCTTCAATGTAGTAATGG 59.751 47.826 0.00 0.00 0.00 3.16
927 1541 4.122776 AGCTCGGCTTCAATGTAGTAATG 58.877 43.478 0.00 0.00 33.89 1.90
928 1542 4.141937 TGAGCTCGGCTTCAATGTAGTAAT 60.142 41.667 9.64 0.00 39.88 1.89
929 1543 3.194755 TGAGCTCGGCTTCAATGTAGTAA 59.805 43.478 9.64 0.00 39.88 2.24
930 1544 2.758423 TGAGCTCGGCTTCAATGTAGTA 59.242 45.455 9.64 0.00 39.88 1.82
931 1545 1.550524 TGAGCTCGGCTTCAATGTAGT 59.449 47.619 9.64 0.00 39.88 2.73
939 1554 1.079543 TGCTCTTGAGCTCGGCTTC 60.080 57.895 21.17 0.00 39.88 3.86
945 1560 0.954449 TTGCTGCTGCTCTTGAGCTC 60.954 55.000 21.17 6.82 40.48 4.09
978 1593 4.193090 TCTTTCCTGACAACTAAACGCAA 58.807 39.130 0.00 0.00 0.00 4.85
982 1597 5.412904 CCTCCATCTTTCCTGACAACTAAAC 59.587 44.000 0.00 0.00 0.00 2.01
1036 1734 2.598632 GCAGCGTGAACTTGCTCGT 61.599 57.895 0.00 0.00 40.03 4.18
1084 1782 0.463620 GCGAAGGAGAAGAGCCTGAT 59.536 55.000 0.00 0.00 35.50 2.90
1185 1883 3.469970 TCGCGGATGATGGGCACT 61.470 61.111 6.13 0.00 0.00 4.40
1663 2361 0.984961 TCAGGGAGATCTTGCCCCAG 60.985 60.000 17.93 11.34 45.89 4.45
1758 2456 2.234896 TCCATGTCCGGTAGTTGGTA 57.765 50.000 0.00 0.00 0.00 3.25
1983 2681 3.303938 GAGGATCCAGATGTTCCAGAGA 58.696 50.000 15.82 0.00 31.65 3.10
2181 2879 4.265056 GCACCCACGTTCCCACCT 62.265 66.667 0.00 0.00 0.00 4.00
2217 2915 8.017946 GTGGAGTATTGAGATGAAGTGAAAAAC 58.982 37.037 0.00 0.00 0.00 2.43
2220 2918 6.875726 CAGTGGAGTATTGAGATGAAGTGAAA 59.124 38.462 0.00 0.00 0.00 2.69
2268 2966 3.230976 AGTGCATGCCATGATCATGATT 58.769 40.909 32.71 16.10 42.84 2.57
2577 3275 5.629125 TGGATTGCAGCCATACATATGTAA 58.371 37.500 19.11 2.92 33.76 2.41
2597 3297 7.281324 CCCATACAACTTATTAATCACGTTGGA 59.719 37.037 19.73 15.32 39.27 3.53
2600 3300 7.340256 TCCCCATACAACTTATTAATCACGTT 58.660 34.615 0.00 0.00 0.00 3.99
2691 3391 4.334203 TCATGTAATTCCGGACCGAATTTG 59.666 41.667 17.49 13.43 41.54 2.32
2730 3430 3.064931 GGTGGAAGAACCGAAAGTACAG 58.935 50.000 0.00 0.00 42.61 2.74
2778 3482 1.929836 CTGCTCGAACATTCTGGCTAC 59.070 52.381 0.00 0.00 0.00 3.58
2780 3484 0.392193 CCTGCTCGAACATTCTGGCT 60.392 55.000 0.00 0.00 0.00 4.75
2894 3603 2.846206 AGGTAGAGCCAAACATCCATGA 59.154 45.455 0.00 0.00 40.61 3.07
2980 3689 4.881273 TCATTACAATCAATTAGCTGGCGT 59.119 37.500 0.00 0.00 0.00 5.68
3033 3742 7.536281 GGTAGTTATTTAAAAACCAAGTGCGAG 59.464 37.037 0.00 0.00 0.00 5.03
3041 3750 9.871175 AGGAAGAAGGTAGTTATTTAAAAACCA 57.129 29.630 0.00 0.00 0.00 3.67
3158 3873 3.118149 TCTCATGGCGTACTACTACCTCA 60.118 47.826 0.00 0.00 0.00 3.86
3159 3874 3.474600 TCTCATGGCGTACTACTACCTC 58.525 50.000 0.00 0.00 0.00 3.85
3160 3875 3.136077 TCTCTCATGGCGTACTACTACCT 59.864 47.826 0.00 0.00 0.00 3.08
3161 3876 3.250521 GTCTCTCATGGCGTACTACTACC 59.749 52.174 0.00 0.00 0.00 3.18
3163 3878 4.127907 CAGTCTCTCATGGCGTACTACTA 58.872 47.826 0.00 0.00 0.00 1.82
3164 3879 2.946329 CAGTCTCTCATGGCGTACTACT 59.054 50.000 0.00 0.00 0.00 2.57
3165 3880 2.033550 CCAGTCTCTCATGGCGTACTAC 59.966 54.545 0.00 0.00 0.00 2.73
3176 3961 3.706389 TTCATATCCCCCAGTCTCTCA 57.294 47.619 0.00 0.00 0.00 3.27
3184 3969 4.961730 CCTTTTCACAATTCATATCCCCCA 59.038 41.667 0.00 0.00 0.00 4.96
3256 4042 7.634671 ACACTTTATATTTTAGGGGTTTCCG 57.365 36.000 0.00 0.00 41.52 4.30
3424 4212 6.562608 AGCTAATTTCCCCATCTCCACTAATA 59.437 38.462 0.00 0.00 0.00 0.98


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

AutoCloner maintained by Alex Coulton.