Multiple sequence alignment - TraesCS5D01G400400

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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 TraesCS5D01G400400 chr5D 100.000 3707 0 0 1 3707 465696897 465700603 0.000000e+00 6846.0
1 TraesCS5D01G400400 chr5D 84.416 154 21 3 147 297 279160391 279160238 8.290000e-32 148.0
2 TraesCS5D01G400400 chr5A 94.275 2428 102 20 475 2889 586001288 586003691 0.000000e+00 3679.0
3 TraesCS5D01G400400 chr5A 91.617 167 13 1 1 166 585765370 585765536 2.880000e-56 230.0
4 TraesCS5D01G400400 chr5A 89.444 180 19 0 301 480 585766304 585766483 1.040000e-55 228.0
5 TraesCS5D01G400400 chr5A 90.076 131 13 0 168 298 585766139 585766269 1.770000e-38 171.0
6 TraesCS5D01G400400 chr5A 80.537 149 21 5 510 657 452286768 452286909 1.410000e-19 108.0
7 TraesCS5D01G400400 chr5B 94.714 1873 70 6 673 2531 572900304 572902161 0.000000e+00 2883.0
8 TraesCS5D01G400400 chr5B 91.223 376 19 4 2518 2889 572908684 572909049 1.990000e-137 499.0
9 TraesCS5D01G400400 chr5B 82.314 458 76 5 3092 3546 537810839 537810384 3.470000e-105 392.0
10 TraesCS5D01G400400 chr5B 89.457 313 28 4 1 312 572893300 572893608 1.250000e-104 390.0
11 TraesCS5D01G400400 chr5B 83.766 154 21 3 147 298 339296528 339296377 3.860000e-30 143.0
12 TraesCS5D01G400400 chr5B 90.826 109 4 3 2972 3079 572909437 572909540 1.390000e-29 141.0
13 TraesCS5D01G400400 chr7B 93.069 606 41 1 3102 3707 662529636 662529032 0.000000e+00 885.0
14 TraesCS5D01G400400 chr7B 83.553 152 24 1 148 298 385064669 385064518 1.390000e-29 141.0
15 TraesCS5D01G400400 chr7B 77.564 156 25 7 510 658 49017674 49017522 6.600000e-13 86.1
16 TraesCS5D01G400400 chr1B 91.763 607 44 3 3101 3707 289039927 289040527 0.000000e+00 839.0
17 TraesCS5D01G400400 chr1B 93.151 365 24 1 3170 3534 553655010 553654647 5.450000e-148 534.0
18 TraesCS5D01G400400 chr1B 81.065 169 28 4 133 298 117177899 117177732 8.350000e-27 132.0
19 TraesCS5D01G400400 chr2B 92.479 585 38 5 3083 3667 384750037 384750615 0.000000e+00 832.0
20 TraesCS5D01G400400 chr2B 94.709 189 10 0 3516 3704 780213461 780213649 1.010000e-75 294.0
21 TraesCS5D01G400400 chr2B 92.500 160 11 1 3321 3480 780209344 780209502 1.040000e-55 228.0
22 TraesCS5D01G400400 chr2B 79.730 148 26 3 511 656 385161275 385161130 1.820000e-18 104.0
23 TraesCS5D01G400400 chr2A 89.813 589 46 4 3088 3675 417745087 417744512 0.000000e+00 743.0
24 TraesCS5D01G400400 chr2A 83.553 152 22 3 148 297 716053036 716052886 4.990000e-29 139.0
25 TraesCS5D01G400400 chr2A 80.537 149 23 5 511 656 1617170 1617315 3.910000e-20 110.0
26 TraesCS5D01G400400 chr2D 93.065 447 29 2 3229 3675 317265858 317266302 0.000000e+00 652.0
27 TraesCS5D01G400400 chrUn 91.216 148 12 1 510 656 91456099 91456246 2.260000e-47 200.0
28 TraesCS5D01G400400 chr4B 86.301 146 19 1 511 656 639084942 639085086 1.380000e-34 158.0
29 TraesCS5D01G400400 chr4B 83.234 167 27 1 133 298 598571207 598571041 6.410000e-33 152.0
30 TraesCS5D01G400400 chr3D 80.473 169 29 4 147 312 460215582 460215415 3.890000e-25 126.0
31 TraesCS5D01G400400 chr6B 81.579 152 26 2 506 657 473279 473428 1.400000e-24 124.0
32 TraesCS5D01G400400 chr6B 89.130 46 5 0 510 555 212417822 212417777 1.440000e-04 58.4
33 TraesCS5D01G400400 chr1D 76.410 195 43 2 1910 2104 408529793 408529984 6.550000e-18 102.0
34 TraesCS5D01G400400 chr3B 79.433 141 21 7 1979 2115 448577099 448576963 3.940000e-15 93.5
35 TraesCS5D01G400400 chr3B 79.167 120 24 1 508 627 114578614 114578732 8.530000e-12 82.4
36 TraesCS5D01G400400 chr1A 79.231 130 27 0 1910 2039 504616238 504616367 1.420000e-14 91.6


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 TraesCS5D01G400400 chr5D 465696897 465700603 3706 False 6846.000000 6846 100.0000 1 3707 1 chr5D.!!$F1 3706
1 TraesCS5D01G400400 chr5A 586001288 586003691 2403 False 3679.000000 3679 94.2750 475 2889 1 chr5A.!!$F2 2414
2 TraesCS5D01G400400 chr5A 585765370 585766483 1113 False 209.666667 230 90.3790 1 480 3 chr5A.!!$F3 479
3 TraesCS5D01G400400 chr5B 572900304 572902161 1857 False 2883.000000 2883 94.7140 673 2531 1 chr5B.!!$F2 1858
4 TraesCS5D01G400400 chr5B 572908684 572909540 856 False 320.000000 499 91.0245 2518 3079 2 chr5B.!!$F3 561
5 TraesCS5D01G400400 chr7B 662529032 662529636 604 True 885.000000 885 93.0690 3102 3707 1 chr7B.!!$R3 605
6 TraesCS5D01G400400 chr1B 289039927 289040527 600 False 839.000000 839 91.7630 3101 3707 1 chr1B.!!$F1 606
7 TraesCS5D01G400400 chr2B 384750037 384750615 578 False 832.000000 832 92.4790 3083 3667 1 chr2B.!!$F1 584
8 TraesCS5D01G400400 chr2B 780209344 780213649 4305 False 261.000000 294 93.6045 3321 3704 2 chr2B.!!$F2 383
9 TraesCS5D01G400400 chr2A 417744512 417745087 575 True 743.000000 743 89.8130 3088 3675 1 chr2A.!!$R1 587

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
952 1603 0.036732 TCGCTGGAATCCTGCAAGTT 59.963 50.0 26.73 0.0 46.59 2.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2919 3597 0.106149 GTACCTATGTTGAGGCCGGG 59.894 60.0 2.18 0.0 40.65 5.73 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
31 33 9.627123 TCATGTTTATAGAATTTTAGACCCCAG 57.373 33.333 0.00 0.00 0.00 4.45
80 82 7.698506 ATGAGTTCAGTTTGATCATCATTGT 57.301 32.000 0.00 0.00 23.63 2.71
148 150 7.880160 TTCATATTTTAGGTCCTTCATGGTG 57.120 36.000 0.00 0.00 37.07 4.17
152 154 1.204146 TAGGTCCTTCATGGTGCTCC 58.796 55.000 0.00 0.00 37.07 4.70
166 168 2.338015 GCTCCATGGTGTGCAGGTG 61.338 63.158 12.58 0.00 0.00 4.00
172 775 0.322816 ATGGTGTGCAGGTGCTAAGG 60.323 55.000 3.18 0.00 42.66 2.69
183 786 1.668419 GTGCTAAGGGTGCCACATAG 58.332 55.000 0.00 0.00 0.00 2.23
184 787 0.546122 TGCTAAGGGTGCCACATAGG 59.454 55.000 0.00 0.00 41.84 2.57
220 823 6.299141 TGTGAGAAAGCAATTAAAGAGGAGT 58.701 36.000 0.00 0.00 0.00 3.85
223 826 6.998074 TGAGAAAGCAATTAAAGAGGAGTGAA 59.002 34.615 0.00 0.00 0.00 3.18
234 837 4.744795 AGAGGAGTGAAAGCATTACGAT 57.255 40.909 0.00 0.00 0.00 3.73
254 857 3.071874 TGCCTCGGAAAGAAATGATGT 57.928 42.857 0.00 0.00 0.00 3.06
265 868 5.940192 AAGAAATGATGTTAAGCACGTGA 57.060 34.783 22.23 0.00 0.00 4.35
298 901 1.185315 GGCTACCAACCAATGCATGT 58.815 50.000 0.00 0.00 0.00 3.21
299 902 1.550072 GGCTACCAACCAATGCATGTT 59.450 47.619 0.00 0.00 0.00 2.71
306 941 4.021192 ACCAACCAATGCATGTTAAGGAAG 60.021 41.667 0.00 0.00 0.00 3.46
307 942 4.220382 CCAACCAATGCATGTTAAGGAAGA 59.780 41.667 0.00 0.00 0.00 2.87
321 956 9.740710 ATGTTAAGGAAGATTAGCTACAAAAGT 57.259 29.630 0.00 0.00 0.00 2.66
322 957 9.569122 TGTTAAGGAAGATTAGCTACAAAAGTT 57.431 29.630 0.00 0.00 0.00 2.66
343 978 7.658525 AGTTAATCACATATGCATTTGGGAA 57.341 32.000 23.26 7.78 0.00 3.97
358 993 2.638325 TGGGAAATTAGGACCTCACCA 58.362 47.619 0.00 0.00 0.00 4.17
369 1004 2.035832 GGACCTCACCAAAACACCAATG 59.964 50.000 0.00 0.00 0.00 2.82
373 1008 1.137872 TCACCAAAACACCAATGCACC 59.862 47.619 0.00 0.00 0.00 5.01
398 1033 6.401153 CGGAAAAGATTTGTCTCTAACTTCCG 60.401 42.308 13.08 13.08 41.07 4.30
400 1035 4.537135 AGATTTGTCTCTAACTTCCGCA 57.463 40.909 0.00 0.00 0.00 5.69
404 1039 4.859304 TTGTCTCTAACTTCCGCAGTAA 57.141 40.909 0.00 0.00 32.94 2.24
408 1043 1.542915 TCTAACTTCCGCAGTAACGCT 59.457 47.619 0.00 0.00 32.94 5.07
415 1050 1.205179 TCCGCAGTAACGCTTTGGATA 59.795 47.619 0.00 0.00 0.00 2.59
460 1095 9.871238 AACTCATTGACAAACGTCTATATTACT 57.129 29.630 0.00 0.00 34.31 2.24
462 1097 9.516314 CTCATTGACAAACGTCTATATTACTGA 57.484 33.333 0.00 0.00 34.31 3.41
466 1101 6.252015 TGACAAACGTCTATATTACTGAACGC 59.748 38.462 0.00 0.00 34.31 4.84
493 1128 8.336987 AGGGAGTACTATGCAGTCATATGTATA 58.663 37.037 1.90 0.00 34.88 1.47
503 1138 7.587629 TGCAGTCATATGTATAGTTACGTACC 58.412 38.462 1.90 0.00 33.66 3.34
545 1180 4.109675 CCCGATCCGCCCCACTTT 62.110 66.667 0.00 0.00 0.00 2.66
597 1232 3.008049 TCCTCCAGGTTCAGCTTTAGTTC 59.992 47.826 0.00 0.00 36.34 3.01
634 1269 0.676184 TGTTTTTGCGGGCTTATGCA 59.324 45.000 2.72 0.00 41.91 3.96
655 1290 3.082470 TGCCCGTTTGCATCCCTA 58.918 55.556 0.00 0.00 36.04 3.53
656 1291 1.377987 TGCCCGTTTGCATCCCTAC 60.378 57.895 0.00 0.00 36.04 3.18
657 1292 1.077716 GCCCGTTTGCATCCCTACT 60.078 57.895 0.00 0.00 0.00 2.57
658 1293 1.095807 GCCCGTTTGCATCCCTACTC 61.096 60.000 0.00 0.00 0.00 2.59
659 1294 0.541863 CCCGTTTGCATCCCTACTCT 59.458 55.000 0.00 0.00 0.00 3.24
660 1295 1.760613 CCCGTTTGCATCCCTACTCTA 59.239 52.381 0.00 0.00 0.00 2.43
661 1296 2.224066 CCCGTTTGCATCCCTACTCTAG 60.224 54.545 0.00 0.00 0.00 2.43
662 1297 2.693591 CCGTTTGCATCCCTACTCTAGA 59.306 50.000 0.00 0.00 0.00 2.43
663 1298 3.243569 CCGTTTGCATCCCTACTCTAGAG 60.244 52.174 18.49 18.49 0.00 2.43
664 1299 3.723260 GTTTGCATCCCTACTCTAGAGC 58.277 50.000 19.97 4.54 0.00 4.09
665 1300 2.002505 TGCATCCCTACTCTAGAGCC 57.997 55.000 19.97 0.00 0.00 4.70
666 1301 1.262417 GCATCCCTACTCTAGAGCCC 58.738 60.000 19.97 0.00 0.00 5.19
667 1302 1.203125 GCATCCCTACTCTAGAGCCCT 60.203 57.143 19.97 3.04 0.00 5.19
668 1303 2.524306 CATCCCTACTCTAGAGCCCTG 58.476 57.143 19.97 6.63 0.00 4.45
669 1304 1.908643 TCCCTACTCTAGAGCCCTGA 58.091 55.000 19.97 8.87 0.00 3.86
670 1305 2.215093 TCCCTACTCTAGAGCCCTGAA 58.785 52.381 19.97 0.00 0.00 3.02
671 1306 2.175931 TCCCTACTCTAGAGCCCTGAAG 59.824 54.545 19.97 7.57 0.00 3.02
696 1331 4.157105 GCCGTTGGTATTTGTCCATAAGTT 59.843 41.667 0.00 0.00 34.75 2.66
757 1404 4.024387 TCACACTAAAGAACGCCATTGTTC 60.024 41.667 0.00 0.00 46.78 3.18
776 1426 0.447406 CTTGATCCAAACGCGCATGA 59.553 50.000 5.73 0.00 0.00 3.07
777 1427 0.877743 TTGATCCAAACGCGCATGAA 59.122 45.000 5.73 0.00 0.00 2.57
820 1470 0.040958 CCTTGAGTCGTTGCTTGTGC 60.041 55.000 0.00 0.00 40.20 4.57
952 1603 0.036732 TCGCTGGAATCCTGCAAGTT 59.963 50.000 26.73 0.00 46.59 2.66
1081 1732 2.210013 ACCGTCCTGCTCAGCTTCA 61.210 57.895 0.00 0.00 0.00 3.02
1473 2124 2.511600 CTCGTCCCCGCAATCACC 60.512 66.667 0.00 0.00 0.00 4.02
1530 2181 2.310233 CGTCAAGGTCAGCACCACG 61.310 63.158 0.00 0.00 46.68 4.94
1575 2226 4.224274 AACGTGTTCCCGCCGTCA 62.224 61.111 0.00 0.00 32.95 4.35
1701 2352 1.374125 CTGGTCGGCGAATCACACA 60.374 57.895 12.92 3.36 0.00 3.72
1809 2460 1.194781 ACCTCCTCGACCACATGCTT 61.195 55.000 0.00 0.00 0.00 3.91
2038 2697 1.782181 GCGCTCTTCAACGAGAACC 59.218 57.895 0.00 0.00 32.74 3.62
2175 2834 4.980805 GCCACGAACGACCTGCCA 62.981 66.667 0.14 0.00 0.00 4.92
2508 3167 8.641541 TGCTCCAGAAATTATTTTCAGAAGTTT 58.358 29.630 11.56 0.00 43.09 2.66
2546 3205 2.373540 ATGTGCCAATGACATTGCAC 57.626 45.000 29.24 29.24 42.34 4.57
2710 3388 1.876416 GCGTTACACCAGGCTGAAGAA 60.876 52.381 17.94 1.44 0.00 2.52
2711 3389 2.069273 CGTTACACCAGGCTGAAGAAG 58.931 52.381 17.94 0.41 0.00 2.85
2712 3390 2.548067 CGTTACACCAGGCTGAAGAAGT 60.548 50.000 17.94 9.04 0.00 3.01
2713 3391 2.808543 GTTACACCAGGCTGAAGAAGTG 59.191 50.000 17.94 16.84 0.00 3.16
2714 3392 1.131638 ACACCAGGCTGAAGAAGTGA 58.868 50.000 22.19 0.00 0.00 3.41
2715 3393 1.490490 ACACCAGGCTGAAGAAGTGAA 59.510 47.619 22.19 0.00 0.00 3.18
2716 3394 2.149578 CACCAGGCTGAAGAAGTGAAG 58.850 52.381 17.94 0.00 0.00 3.02
2717 3395 2.050144 ACCAGGCTGAAGAAGTGAAGA 58.950 47.619 17.94 0.00 0.00 2.87
2740 3418 4.754667 GTGGCGTTCCCTCCGGTC 62.755 72.222 0.00 0.00 0.00 4.79
2779 3457 4.530710 TGAATAGTGAACGCTTGTACCT 57.469 40.909 0.00 0.00 0.00 3.08
2780 3458 4.491676 TGAATAGTGAACGCTTGTACCTC 58.508 43.478 0.00 0.00 0.00 3.85
2790 3468 2.671351 CGCTTGTACCTCCCGCTATATG 60.671 54.545 0.00 0.00 0.00 1.78
2806 3484 2.837532 TATGTGTCTTGCTGCAGTCA 57.162 45.000 16.64 11.11 0.00 3.41
2820 3498 4.397417 GCTGCAGTCAACTTTCAGGATATT 59.603 41.667 16.64 0.00 0.00 1.28
2841 3519 4.238761 TCTAGTTTGAACTGTCTCACGG 57.761 45.455 6.64 0.00 40.07 4.94
2870 3548 9.248291 CGTATTGGAGGAAATAAAATTTGATGG 57.752 33.333 0.00 0.00 0.00 3.51
2889 3567 3.025262 TGGTTCTTGTTGTTGGTAACCC 58.975 45.455 0.00 0.00 36.39 4.11
2890 3568 3.025262 GGTTCTTGTTGTTGGTAACCCA 58.975 45.455 0.00 0.00 39.65 4.51
2891 3569 3.067601 GGTTCTTGTTGTTGGTAACCCAG 59.932 47.826 0.00 0.00 43.15 4.45
2892 3570 3.655615 TCTTGTTGTTGGTAACCCAGT 57.344 42.857 0.00 0.00 43.15 4.00
2893 3571 3.283751 TCTTGTTGTTGGTAACCCAGTG 58.716 45.455 0.00 0.00 43.15 3.66
2894 3572 2.060050 TGTTGTTGGTAACCCAGTGG 57.940 50.000 0.63 0.63 43.15 4.00
2895 3573 0.671796 GTTGTTGGTAACCCAGTGGC 59.328 55.000 2.61 0.00 43.15 5.01
2896 3574 0.820074 TTGTTGGTAACCCAGTGGCG 60.820 55.000 2.61 0.00 43.15 5.69
2897 3575 1.969589 GTTGGTAACCCAGTGGCGG 60.970 63.158 2.61 0.00 43.15 6.13
2898 3576 2.148052 TTGGTAACCCAGTGGCGGA 61.148 57.895 2.61 0.00 43.15 5.54
2899 3577 2.119484 TTGGTAACCCAGTGGCGGAG 62.119 60.000 2.61 0.00 43.15 4.63
2934 3612 2.510906 CCCCCGGCCTCAACATAG 59.489 66.667 0.00 0.00 0.00 2.23
2935 3613 2.510906 CCCCGGCCTCAACATAGG 59.489 66.667 0.00 0.00 39.87 2.57
2936 3614 2.375345 CCCCGGCCTCAACATAGGT 61.375 63.158 0.00 0.00 39.02 3.08
2937 3615 1.052124 CCCCGGCCTCAACATAGGTA 61.052 60.000 0.00 0.00 39.02 3.08
2938 3616 0.106149 CCCGGCCTCAACATAGGTAC 59.894 60.000 0.00 0.00 39.02 3.34
2939 3617 0.249322 CCGGCCTCAACATAGGTACG 60.249 60.000 0.00 0.00 39.02 3.67
2940 3618 0.874607 CGGCCTCAACATAGGTACGC 60.875 60.000 0.00 0.00 39.02 4.42
2941 3619 0.532196 GGCCTCAACATAGGTACGCC 60.532 60.000 0.00 0.00 39.02 5.68
2942 3620 0.177141 GCCTCAACATAGGTACGCCA 59.823 55.000 0.00 0.00 39.02 5.69
2943 3621 1.202651 GCCTCAACATAGGTACGCCAT 60.203 52.381 0.00 0.00 39.02 4.40
2944 3622 2.745152 GCCTCAACATAGGTACGCCATT 60.745 50.000 0.00 0.00 39.02 3.16
2945 3623 2.872245 CCTCAACATAGGTACGCCATTG 59.128 50.000 0.00 0.00 37.19 2.82
2946 3624 3.531538 CTCAACATAGGTACGCCATTGT 58.468 45.455 0.00 0.00 37.19 2.71
2947 3625 3.266636 TCAACATAGGTACGCCATTGTG 58.733 45.455 0.00 0.00 34.00 3.33
2948 3626 2.325583 ACATAGGTACGCCATTGTGG 57.674 50.000 0.00 0.00 41.55 4.17
2949 3627 1.557832 ACATAGGTACGCCATTGTGGT 59.442 47.619 0.00 0.00 40.46 4.16
2950 3628 2.767394 ACATAGGTACGCCATTGTGGTA 59.233 45.455 0.00 0.00 40.46 3.25
2951 3629 3.198200 ACATAGGTACGCCATTGTGGTAA 59.802 43.478 0.00 0.00 40.46 2.85
2952 3630 2.103537 AGGTACGCCATTGTGGTAAC 57.896 50.000 0.00 0.00 40.46 2.50
2953 3631 1.089112 GGTACGCCATTGTGGTAACC 58.911 55.000 0.00 0.26 40.46 2.85
2954 3632 1.339342 GGTACGCCATTGTGGTAACCT 60.339 52.381 0.00 0.00 40.46 3.50
2955 3633 2.429478 GTACGCCATTGTGGTAACCTT 58.571 47.619 0.00 0.00 40.46 3.50
2956 3634 1.989706 ACGCCATTGTGGTAACCTTT 58.010 45.000 0.00 0.00 40.46 3.11
2957 3635 1.611491 ACGCCATTGTGGTAACCTTTG 59.389 47.619 0.00 0.00 40.46 2.77
2958 3636 1.668628 CGCCATTGTGGTAACCTTTGC 60.669 52.381 0.00 0.00 40.46 3.68
3012 4059 5.305585 TGTTCGCCAAGTAGAAGAAAATCT 58.694 37.500 0.00 0.00 0.00 2.40
3033 4080 0.393077 ACCACCTGTCAGTAGTGCAC 59.607 55.000 9.40 9.40 0.00 4.57
3034 4081 0.667487 CCACCTGTCAGTAGTGCACG 60.667 60.000 12.01 0.00 0.00 5.34
3035 4082 0.313987 CACCTGTCAGTAGTGCACGA 59.686 55.000 12.01 2.52 0.00 4.35
3037 4084 1.000163 ACCTGTCAGTAGTGCACGAAG 60.000 52.381 12.01 2.68 0.00 3.79
3038 4085 1.269723 CCTGTCAGTAGTGCACGAAGA 59.730 52.381 12.01 5.23 0.00 2.87
3040 4087 2.726760 CTGTCAGTAGTGCACGAAGAAC 59.273 50.000 12.01 9.26 0.00 3.01
3042 4089 2.471743 GTCAGTAGTGCACGAAGAACAC 59.528 50.000 12.01 0.01 37.19 3.32
3043 4090 2.361119 TCAGTAGTGCACGAAGAACACT 59.639 45.455 12.01 4.63 45.53 3.55
3044 4091 3.123804 CAGTAGTGCACGAAGAACACTT 58.876 45.455 12.01 0.00 42.41 3.16
3045 4092 3.060272 CAGTAGTGCACGAAGAACACTTG 60.060 47.826 12.01 0.00 42.41 3.16
3054 4101 6.142817 GCACGAAGAACACTTGAAAATATGT 58.857 36.000 0.00 0.00 0.00 2.29
3079 4126 4.512944 CGGCTGAACAGAAGCATACATATT 59.487 41.667 5.97 0.00 42.69 1.28
3080 4127 5.008019 CGGCTGAACAGAAGCATACATATTT 59.992 40.000 5.97 0.00 42.69 1.40
3081 4128 6.433766 GGCTGAACAGAAGCATACATATTTC 58.566 40.000 5.97 0.00 42.69 2.17
3082 4129 6.261826 GGCTGAACAGAAGCATACATATTTCT 59.738 38.462 5.97 0.00 42.69 2.52
3083 4130 7.201767 GGCTGAACAGAAGCATACATATTTCTT 60.202 37.037 5.97 0.00 42.69 2.52
3084 4131 8.186821 GCTGAACAGAAGCATACATATTTCTTT 58.813 33.333 5.97 0.00 40.52 2.52
3141 4188 3.677148 CGATTACTCGCTGGCCATATCAT 60.677 47.826 5.51 0.00 38.20 2.45
3150 4197 2.953648 CTGGCCATATCATCAGCAACAA 59.046 45.455 5.51 0.00 0.00 2.83
3152 4199 2.689471 GGCCATATCATCAGCAACAACA 59.311 45.455 0.00 0.00 0.00 3.33
3176 4223 1.414919 AGTACAGGTTGCGGAAAGTGA 59.585 47.619 6.53 0.00 0.00 3.41
3261 4308 2.099098 GCTTTATTGCAACCACGGCTAT 59.901 45.455 0.00 0.00 0.00 2.97
3276 4323 5.179368 CCACGGCTATAATAATCCACACTTG 59.821 44.000 0.00 0.00 0.00 3.16
3293 4340 4.451096 ACACTTGCAACATTTAGACCTACG 59.549 41.667 0.00 0.00 0.00 3.51
3328 4375 5.590259 ACTTCACATCTGTAAACAAAGTGCT 59.410 36.000 0.00 0.00 0.00 4.40
3385 4433 2.270352 TCCTTCAGCGTTGTGGAATT 57.730 45.000 12.35 0.00 0.00 2.17
3403 4451 9.829507 TGTGGAATTTGTTTCAAATATCACTTT 57.170 25.926 23.55 7.80 35.94 2.66
3425 4473 0.698238 TGGCAGCCCAAATGAGTAGT 59.302 50.000 9.64 0.00 38.46 2.73
3460 4508 1.331214 CTGAAGGGCCAAAGCTTCAA 58.669 50.000 18.93 7.26 34.04 2.69
3500 7524 3.284617 CATGATTCAGATTCCCTGCACA 58.715 45.455 0.00 0.00 42.62 4.57
3501 7525 3.438216 TGATTCAGATTCCCTGCACAA 57.562 42.857 0.00 0.00 42.62 3.33
3537 8508 3.459828 TCCTTGGTCATTCCTGATGGTA 58.540 45.455 0.00 0.00 36.37 3.25
3549 8520 0.780637 TGATGGTAAAACCCCAGCCA 59.219 50.000 0.00 0.00 37.58 4.75
3694 8665 5.114081 TGCACATGTTCAGATGATAGTCAG 58.886 41.667 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 9.408648 ACTGGGGTCTAAAATTCTATAAACATG 57.591 33.333 0.00 0.00 0.00 3.21
7 8 9.990868 AACTGGGGTCTAAAATTCTATAAACAT 57.009 29.630 0.00 0.00 0.00 2.71
8 9 9.238368 CAACTGGGGTCTAAAATTCTATAAACA 57.762 33.333 0.00 0.00 0.00 2.83
9 10 9.457436 TCAACTGGGGTCTAAAATTCTATAAAC 57.543 33.333 0.00 0.00 0.00 2.01
27 29 7.630242 ACTTGTTACATTATCATCAACTGGG 57.370 36.000 0.00 0.00 0.00 4.45
99 101 5.073428 TGTAAAATGATACTTGGGTGCACA 58.927 37.500 20.43 0.00 0.00 4.57
100 102 5.637006 TGTAAAATGATACTTGGGTGCAC 57.363 39.130 8.80 8.80 0.00 4.57
129 131 4.273318 GAGCACCATGAAGGACCTAAAAT 58.727 43.478 0.00 0.00 41.22 1.82
130 132 3.561313 GGAGCACCATGAAGGACCTAAAA 60.561 47.826 0.00 0.00 41.22 1.52
148 150 2.034687 ACCTGCACACCATGGAGC 59.965 61.111 21.47 19.03 45.16 4.70
152 154 0.806868 CTTAGCACCTGCACACCATG 59.193 55.000 0.00 0.00 45.16 3.66
154 156 1.073025 CCTTAGCACCTGCACACCA 59.927 57.895 0.00 0.00 45.16 4.17
166 168 3.403936 CCTATGTGGCACCCTTAGC 57.596 57.895 16.26 0.00 0.00 3.09
183 786 4.151157 GCTTTCTCACATCAATGTTTTGCC 59.849 41.667 0.00 0.00 39.39 4.52
184 787 4.746115 TGCTTTCTCACATCAATGTTTTGC 59.254 37.500 0.00 0.00 39.39 3.68
189 792 8.579006 TCTTTAATTGCTTTCTCACATCAATGT 58.421 29.630 0.00 0.00 42.84 2.71
192 795 7.448161 TCCTCTTTAATTGCTTTCTCACATCAA 59.552 33.333 0.00 0.00 0.00 2.57
234 837 3.071874 ACATCATTTCTTTCCGAGGCA 57.928 42.857 0.00 0.00 0.00 4.75
240 843 5.569059 CACGTGCTTAACATCATTTCTTTCC 59.431 40.000 0.82 0.00 0.00 3.13
241 844 6.370593 TCACGTGCTTAACATCATTTCTTTC 58.629 36.000 11.67 0.00 0.00 2.62
242 845 6.312399 TCACGTGCTTAACATCATTTCTTT 57.688 33.333 11.67 0.00 0.00 2.52
254 857 3.046968 TGCATAGGTTCACGTGCTTAA 57.953 42.857 11.67 0.00 36.80 1.85
265 868 3.707316 TGGTAGCCATTTTGCATAGGTT 58.293 40.909 0.00 0.00 0.00 3.50
323 958 8.152246 CCTAATTTCCCAAATGCATATGTGATT 58.848 33.333 0.00 0.72 0.00 2.57
343 978 4.149598 GGTGTTTTGGTGAGGTCCTAATT 58.850 43.478 0.00 0.00 0.00 1.40
348 983 1.770294 TTGGTGTTTTGGTGAGGTCC 58.230 50.000 0.00 0.00 0.00 4.46
358 993 1.115467 TTCCGGTGCATTGGTGTTTT 58.885 45.000 0.00 0.00 0.00 2.43
369 1004 2.814336 AGAGACAAATCTTTTCCGGTGC 59.186 45.455 0.00 0.00 34.34 5.01
373 1008 6.401153 CGGAAGTTAGAGACAAATCTTTTCCG 60.401 42.308 15.63 15.63 42.83 4.30
398 1033 2.739293 GCTATCCAAAGCGTTACTGC 57.261 50.000 0.00 0.00 31.76 4.40
408 1043 6.143915 ACATAGGGAGTAGAAGCTATCCAAA 58.856 40.000 0.00 0.00 33.24 3.28
415 1050 6.195700 TGAGTTTACATAGGGAGTAGAAGCT 58.804 40.000 0.00 0.00 0.00 3.74
457 1092 2.211250 AGTACTCCCTGCGTTCAGTA 57.789 50.000 0.00 0.00 38.66 2.74
460 1095 1.136305 GCATAGTACTCCCTGCGTTCA 59.864 52.381 0.00 0.00 0.00 3.18
462 1097 1.137086 CTGCATAGTACTCCCTGCGTT 59.863 52.381 15.93 0.00 37.44 4.84
466 1101 5.244851 ACATATGACTGCATAGTACTCCCTG 59.755 44.000 10.38 0.00 40.14 4.45
503 1138 1.892474 GCTCTGCATCCCTACTCTAGG 59.108 57.143 0.00 0.00 45.81 3.02
528 1163 4.109675 AAAGTGGGGCGGATCGGG 62.110 66.667 2.13 0.00 0.00 5.14
529 1164 2.246761 TACAAAGTGGGGCGGATCGG 62.247 60.000 0.00 0.00 0.00 4.18
558 1193 8.652290 ACCTGGAGGATTATAACTAACTTGATC 58.348 37.037 0.00 0.00 38.94 2.92
565 1200 6.615726 AGCTGAACCTGGAGGATTATAACTAA 59.384 38.462 0.00 0.00 38.94 2.24
568 1203 5.297569 AGCTGAACCTGGAGGATTATAAC 57.702 43.478 0.00 0.00 38.94 1.89
569 1204 5.975988 AAGCTGAACCTGGAGGATTATAA 57.024 39.130 0.00 0.00 38.94 0.98
570 1205 5.975988 AAAGCTGAACCTGGAGGATTATA 57.024 39.130 0.00 0.00 38.94 0.98
571 1206 4.870021 AAAGCTGAACCTGGAGGATTAT 57.130 40.909 0.00 0.00 38.94 1.28
572 1207 4.783227 ACTAAAGCTGAACCTGGAGGATTA 59.217 41.667 0.00 0.00 38.94 1.75
573 1208 3.589288 ACTAAAGCTGAACCTGGAGGATT 59.411 43.478 0.00 0.00 38.94 3.01
574 1209 3.185455 ACTAAAGCTGAACCTGGAGGAT 58.815 45.455 0.00 0.00 38.94 3.24
575 1210 2.621070 ACTAAAGCTGAACCTGGAGGA 58.379 47.619 0.00 0.00 38.94 3.71
576 1211 3.244561 TGAACTAAAGCTGAACCTGGAGG 60.245 47.826 0.00 0.00 42.17 4.30
577 1212 3.999663 CTGAACTAAAGCTGAACCTGGAG 59.000 47.826 0.00 0.00 0.00 3.86
578 1213 3.391296 ACTGAACTAAAGCTGAACCTGGA 59.609 43.478 0.00 0.00 0.00 3.86
581 1216 7.556635 AGTTTAAACTGAACTAAAGCTGAACCT 59.443 33.333 19.94 0.00 37.98 3.50
611 1246 1.243902 TAAGCCCGCAAAAACAGGAG 58.756 50.000 0.00 0.00 0.00 3.69
644 1279 2.700897 GGCTCTAGAGTAGGGATGCAAA 59.299 50.000 20.75 0.00 0.00 3.68
655 1290 1.190643 GCACTTCAGGGCTCTAGAGT 58.809 55.000 20.75 0.00 0.00 3.24
656 1291 0.463620 GGCACTTCAGGGCTCTAGAG 59.536 60.000 15.85 15.85 0.00 2.43
657 1292 1.323271 CGGCACTTCAGGGCTCTAGA 61.323 60.000 0.04 0.00 0.00 2.43
658 1293 1.142748 CGGCACTTCAGGGCTCTAG 59.857 63.158 0.04 0.00 0.00 2.43
659 1294 1.192146 AACGGCACTTCAGGGCTCTA 61.192 55.000 0.04 0.00 0.00 2.43
660 1295 2.520536 AACGGCACTTCAGGGCTCT 61.521 57.895 0.04 0.00 0.00 4.09
661 1296 2.032681 AACGGCACTTCAGGGCTC 59.967 61.111 0.04 0.00 0.00 4.70
662 1297 2.281761 CAACGGCACTTCAGGGCT 60.282 61.111 0.04 0.00 0.00 5.19
663 1298 2.741486 TACCAACGGCACTTCAGGGC 62.741 60.000 0.00 0.00 0.00 5.19
664 1299 0.035439 ATACCAACGGCACTTCAGGG 60.035 55.000 0.00 0.00 0.00 4.45
665 1300 1.821216 AATACCAACGGCACTTCAGG 58.179 50.000 0.00 0.00 0.00 3.86
666 1301 2.552315 ACAAATACCAACGGCACTTCAG 59.448 45.455 0.00 0.00 0.00 3.02
667 1302 2.550606 GACAAATACCAACGGCACTTCA 59.449 45.455 0.00 0.00 0.00 3.02
668 1303 2.095415 GGACAAATACCAACGGCACTTC 60.095 50.000 0.00 0.00 0.00 3.01
669 1304 1.883926 GGACAAATACCAACGGCACTT 59.116 47.619 0.00 0.00 0.00 3.16
670 1305 1.202830 TGGACAAATACCAACGGCACT 60.203 47.619 0.00 0.00 34.25 4.40
671 1306 1.240256 TGGACAAATACCAACGGCAC 58.760 50.000 0.00 0.00 34.25 5.01
696 1331 1.065102 GCTCGCAGTCACCGATAGTTA 59.935 52.381 0.00 0.00 33.83 2.24
757 1404 0.447406 TCATGCGCGTTTGGATCAAG 59.553 50.000 8.43 0.00 0.00 3.02
803 1453 1.087202 ACGCACAAGCAACGACTCAA 61.087 50.000 0.00 0.00 42.27 3.02
820 1470 3.064820 GCCATTGTTATTGTCCCACTACG 59.935 47.826 0.00 0.00 0.00 3.51
926 1577 2.945668 GCAGGATTCCAGCGATAAAAGT 59.054 45.455 4.16 0.00 0.00 2.66
952 1603 1.802069 TGTAGCATAACGCAAGCACA 58.198 45.000 0.00 0.00 46.13 4.57
965 1616 5.968254 TCTGTTTATAACGTGGATGTAGCA 58.032 37.500 0.00 0.00 0.00 3.49
1081 1732 4.567318 GGCAATGGCGAGGAAGAT 57.433 55.556 0.00 0.00 42.47 2.40
1512 2163 2.310233 CGTGGTGCTGACCTTGACG 61.310 63.158 0.00 0.00 43.58 4.35
1530 2181 3.492311 GAGAGCGTCCATCCCGAGC 62.492 68.421 0.00 0.00 0.00 5.03
2091 2750 4.112341 ACCTCGTACACCGCGCTC 62.112 66.667 5.56 0.00 36.19 5.03
2094 2753 3.792047 TCGACCTCGTACACCGCG 61.792 66.667 0.00 0.00 40.80 6.46
2175 2834 2.375345 CCACAGCTTCCCGGGGTAT 61.375 63.158 23.50 0.88 0.00 2.73
2508 3167 8.198778 TGGCACATTTCGAGTGTATTTATAGTA 58.801 33.333 5.37 0.00 39.17 1.82
2513 3172 6.372937 TCATTGGCACATTTCGAGTGTATTTA 59.627 34.615 5.37 0.00 39.30 1.40
2546 3205 8.853345 GCAATAAGTAGAACACACATTCAAATG 58.147 33.333 1.20 1.20 42.10 2.32
2557 3216 9.326413 ACAACATATAGGCAATAAGTAGAACAC 57.674 33.333 0.00 0.00 0.00 3.32
2710 3388 1.376424 CGCCACCAGCATCTTCACT 60.376 57.895 0.00 0.00 44.04 3.41
2711 3389 1.237285 AACGCCACCAGCATCTTCAC 61.237 55.000 0.00 0.00 44.04 3.18
2712 3390 0.955428 GAACGCCACCAGCATCTTCA 60.955 55.000 0.00 0.00 44.04 3.02
2713 3391 1.648467 GGAACGCCACCAGCATCTTC 61.648 60.000 0.00 0.00 44.04 2.87
2714 3392 1.675641 GGAACGCCACCAGCATCTT 60.676 57.895 0.00 0.00 44.04 2.40
2715 3393 2.045926 GGAACGCCACCAGCATCT 60.046 61.111 0.00 0.00 44.04 2.90
2716 3394 3.134127 GGGAACGCCACCAGCATC 61.134 66.667 0.00 0.00 44.04 3.91
2717 3395 3.628646 GAGGGAACGCCACCAGCAT 62.629 63.158 0.00 0.00 44.04 3.79
2740 3418 9.345517 CACTATTCAATCATTGGTGTGTTTTAG 57.654 33.333 0.00 0.00 0.00 1.85
2779 3457 2.039418 AGCAAGACACATATAGCGGGA 58.961 47.619 0.00 0.00 0.00 5.14
2780 3458 2.138320 CAGCAAGACACATATAGCGGG 58.862 52.381 0.00 0.00 0.00 6.13
2790 3468 1.303309 AGTTGACTGCAGCAAGACAC 58.697 50.000 15.27 7.94 0.00 3.67
2820 3498 3.635373 ACCGTGAGACAGTTCAAACTAGA 59.365 43.478 0.00 0.00 37.08 2.43
2831 3509 2.094906 TCCAATACGAACCGTGAGACAG 60.095 50.000 1.93 0.00 41.39 3.51
2841 3519 9.849166 TCAAATTTTATTTCCTCCAATACGAAC 57.151 29.630 0.00 0.00 0.00 3.95
2889 3567 3.854669 CCCCTAGCTCCGCCACTG 61.855 72.222 0.00 0.00 0.00 3.66
2917 3595 2.510906 CTATGTTGAGGCCGGGGG 59.489 66.667 2.18 0.00 0.00 5.40
2918 3596 1.052124 TACCTATGTTGAGGCCGGGG 61.052 60.000 2.18 0.00 40.65 5.73
2919 3597 0.106149 GTACCTATGTTGAGGCCGGG 59.894 60.000 2.18 0.00 40.65 5.73
2920 3598 0.249322 CGTACCTATGTTGAGGCCGG 60.249 60.000 0.00 0.00 40.65 6.13
2921 3599 0.874607 GCGTACCTATGTTGAGGCCG 60.875 60.000 0.00 0.00 40.65 6.13
2922 3600 0.532196 GGCGTACCTATGTTGAGGCC 60.532 60.000 0.00 0.00 40.65 5.19
2923 3601 0.177141 TGGCGTACCTATGTTGAGGC 59.823 55.000 0.00 0.00 40.65 4.70
2924 3602 2.872245 CAATGGCGTACCTATGTTGAGG 59.128 50.000 0.00 0.00 42.89 3.86
2925 3603 3.309682 CACAATGGCGTACCTATGTTGAG 59.690 47.826 0.00 0.00 34.49 3.02
2926 3604 3.266636 CACAATGGCGTACCTATGTTGA 58.733 45.455 0.00 0.00 34.49 3.18
2927 3605 2.354510 CCACAATGGCGTACCTATGTTG 59.645 50.000 0.00 0.00 34.49 3.33
2928 3606 2.026636 ACCACAATGGCGTACCTATGTT 60.027 45.455 0.00 0.00 42.67 2.71
2929 3607 1.557832 ACCACAATGGCGTACCTATGT 59.442 47.619 0.00 0.00 42.67 2.29
2930 3608 2.325583 ACCACAATGGCGTACCTATG 57.674 50.000 0.00 0.00 42.67 2.23
2931 3609 3.432608 GGTTACCACAATGGCGTACCTAT 60.433 47.826 0.00 0.00 42.67 2.57
2932 3610 2.093553 GGTTACCACAATGGCGTACCTA 60.094 50.000 0.00 0.00 42.67 3.08
2933 3611 1.339342 GGTTACCACAATGGCGTACCT 60.339 52.381 0.00 0.00 42.67 3.08
2934 3612 1.089112 GGTTACCACAATGGCGTACC 58.911 55.000 0.00 0.00 42.67 3.34
2935 3613 2.103537 AGGTTACCACAATGGCGTAC 57.896 50.000 3.51 0.00 42.67 3.67
2936 3614 2.814919 CAAAGGTTACCACAATGGCGTA 59.185 45.455 3.51 0.00 42.67 4.42
2937 3615 1.611491 CAAAGGTTACCACAATGGCGT 59.389 47.619 3.51 0.00 42.67 5.68
2938 3616 1.668628 GCAAAGGTTACCACAATGGCG 60.669 52.381 3.51 0.00 42.67 5.69
2939 3617 1.618343 AGCAAAGGTTACCACAATGGC 59.382 47.619 3.51 0.00 42.67 4.40
2940 3618 2.029110 CCAGCAAAGGTTACCACAATGG 60.029 50.000 3.51 1.25 45.02 3.16
2941 3619 2.627699 ACCAGCAAAGGTTACCACAATG 59.372 45.455 3.51 0.00 39.34 2.82
2942 3620 2.957474 ACCAGCAAAGGTTACCACAAT 58.043 42.857 3.51 0.00 39.34 2.71
2943 3621 2.445682 ACCAGCAAAGGTTACCACAA 57.554 45.000 3.51 0.00 39.34 3.33
2951 3629 7.719633 CCACATAGTAATATAACCAGCAAAGGT 59.280 37.037 0.00 0.00 45.91 3.50
2952 3630 7.308589 GCCACATAGTAATATAACCAGCAAAGG 60.309 40.741 0.00 0.00 0.00 3.11
2953 3631 7.228507 TGCCACATAGTAATATAACCAGCAAAG 59.771 37.037 0.00 0.00 0.00 2.77
2954 3632 7.057264 TGCCACATAGTAATATAACCAGCAAA 58.943 34.615 0.00 0.00 0.00 3.68
2955 3633 6.596621 TGCCACATAGTAATATAACCAGCAA 58.403 36.000 0.00 0.00 0.00 3.91
2956 3634 6.181206 TGCCACATAGTAATATAACCAGCA 57.819 37.500 0.00 0.00 0.00 4.41
2957 3635 5.122396 GCTGCCACATAGTAATATAACCAGC 59.878 44.000 0.00 0.00 34.82 4.85
2958 3636 5.348724 CGCTGCCACATAGTAATATAACCAG 59.651 44.000 0.00 0.00 0.00 4.00
3033 4080 6.519761 CCGAACATATTTTCAAGTGTTCTTCG 59.480 38.462 13.22 3.62 44.98 3.79
3034 4081 6.305638 GCCGAACATATTTTCAAGTGTTCTTC 59.694 38.462 13.22 3.73 44.98 2.87
3035 4082 6.016276 AGCCGAACATATTTTCAAGTGTTCTT 60.016 34.615 13.22 0.00 44.98 2.52
3037 4084 5.569059 CAGCCGAACATATTTTCAAGTGTTC 59.431 40.000 6.95 6.95 44.18 3.18
3038 4085 5.240623 TCAGCCGAACATATTTTCAAGTGTT 59.759 36.000 2.71 0.00 37.49 3.32
3040 4087 5.295431 TCAGCCGAACATATTTTCAAGTG 57.705 39.130 2.71 0.00 0.00 3.16
3054 4101 2.289382 TGTATGCTTCTGTTCAGCCGAA 60.289 45.455 0.00 0.00 36.33 4.30
3057 4104 6.261826 AGAAATATGTATGCTTCTGTTCAGCC 59.738 38.462 0.00 0.00 36.33 4.85
3079 4126 9.771534 TGTTTCCTTTCAAAAGAAAGAAAAGAA 57.228 25.926 17.03 10.09 42.94 2.52
3080 4127 9.203421 GTGTTTCCTTTCAAAAGAAAGAAAAGA 57.797 29.630 17.03 7.32 42.94 2.52
3081 4128 8.987890 TGTGTTTCCTTTCAAAAGAAAGAAAAG 58.012 29.630 17.03 3.42 42.94 2.27
3082 4129 8.894768 TGTGTTTCCTTTCAAAAGAAAGAAAA 57.105 26.923 17.03 8.54 42.94 2.29
3083 4130 8.364142 TCTGTGTTTCCTTTCAAAAGAAAGAAA 58.636 29.630 17.03 12.60 42.94 2.52
3084 4131 7.891561 TCTGTGTTTCCTTTCAAAAGAAAGAA 58.108 30.769 17.03 8.43 42.94 2.52
3085 4132 7.461182 TCTGTGTTTCCTTTCAAAAGAAAGA 57.539 32.000 17.03 0.28 42.94 2.52
3086 4133 8.707938 AATCTGTGTTTCCTTTCAAAAGAAAG 57.292 30.769 10.24 10.24 40.73 2.62
3090 4137 9.971922 ATAGAAATCTGTGTTTCCTTTCAAAAG 57.028 29.630 0.00 0.00 38.55 2.27
3141 4188 4.283467 ACCTGTACTAGATGTTGTTGCTGA 59.717 41.667 0.00 0.00 0.00 4.26
3150 4197 2.453521 TCCGCAACCTGTACTAGATGT 58.546 47.619 0.00 0.00 0.00 3.06
3152 4199 3.514309 ACTTTCCGCAACCTGTACTAGAT 59.486 43.478 0.00 0.00 0.00 1.98
3176 4223 0.543749 GCTATGAGACCTGGCTTGGT 59.456 55.000 2.57 2.57 44.10 3.67
3261 4308 9.237187 TCTAAATGTTGCAAGTGTGGATTATTA 57.763 29.630 0.00 0.00 0.00 0.98
3276 4323 6.040878 AGATGTACGTAGGTCTAAATGTTGC 58.959 40.000 7.65 0.00 0.00 4.17
3284 4331 8.454106 GTGAAGTTTAAGATGTACGTAGGTCTA 58.546 37.037 9.39 0.00 0.00 2.59
3403 4451 0.040058 ACTCATTTGGGCTGCCATCA 59.960 50.000 22.05 7.32 0.00 3.07
3404 4452 1.952296 CTACTCATTTGGGCTGCCATC 59.048 52.381 22.05 4.31 0.00 3.51
3405 4453 1.285962 ACTACTCATTTGGGCTGCCAT 59.714 47.619 22.05 2.11 0.00 4.40
3425 4473 5.428253 CCCTTCAGCAAGCAACTATTACTA 58.572 41.667 0.00 0.00 0.00 1.82
3460 4508 3.090210 TGTCTCCAATCCATTGCATGT 57.910 42.857 0.00 0.00 36.48 3.21
3472 4520 4.476113 AGGGAATCTGAATCATGTCTCCAA 59.524 41.667 0.00 0.00 0.00 3.53
3500 7524 2.032681 GAACACTCCTGGCGGCTT 59.967 61.111 11.43 0.00 0.00 4.35
3501 7525 4.021925 GGAACACTCCTGGCGGCT 62.022 66.667 11.43 0.00 38.88 5.52
3513 8484 3.561960 CCATCAGGAATGACCAAGGAACA 60.562 47.826 0.00 0.00 42.04 3.18
3537 8508 1.153756 CTCAGGTGGCTGGGGTTTT 59.846 57.895 0.00 0.00 0.00 2.43
3549 8520 3.914426 ACTGAAGAAACACACTCAGGT 57.086 42.857 3.25 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.