Multiple sequence alignment - TraesCS2A01G480700

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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 TraesCS2A01G480700 chr2A 100.000 5756 0 0 1 5756 718349663 718355418 0.000000e+00 10630
1 TraesCS2A01G480700 chr5B 91.389 3635 246 24 1944 5546 522091616 522088017 0.000000e+00 4916
2 TraesCS2A01G480700 chr5B 94.645 1494 70 9 461 1949 522093133 522091645 0.000000e+00 2307
3 TraesCS2A01G480700 chr5B 89.631 434 19 5 4 436 522093536 522093128 3.950000e-146 529
4 TraesCS2A01G480700 chr5B 91.813 171 9 4 5588 5755 522088011 522087843 3.470000e-57 233
5 TraesCS2A01G480700 chr3D 82.996 2570 377 41 3183 5733 561014915 561017443 0.000000e+00 2270
6 TraesCS2A01G480700 chr3D 87.095 1852 174 37 113 1935 561011927 561013742 0.000000e+00 2036
7 TraesCS2A01G480700 chr3D 86.498 1148 120 29 1944 3068 561013784 561014919 0.000000e+00 1229
8 TraesCS2A01G480700 chr1D 82.443 2472 371 45 3183 5631 78399189 78396758 0.000000e+00 2102
9 TraesCS2A01G480700 chr1D 84.719 1852 192 52 111 1935 78402148 78400361 0.000000e+00 1768
10 TraesCS2A01G480700 chr1D 86.161 1120 121 28 1944 3045 78400319 78399216 0.000000e+00 1179
11 TraesCS2A01G480700 chr2D 82.282 2472 377 44 3183 5631 534499959 534502392 0.000000e+00 2082
12 TraesCS2A01G480700 chr2D 85.167 1854 178 53 113 1935 534497000 534498787 0.000000e+00 1810
13 TraesCS2A01G480700 chr2D 85.982 1120 123 28 1944 3045 534498829 534499932 0.000000e+00 1168
14 TraesCS2A01G480700 chr6A 82.090 201 36 0 3762 3962 74035164 74034964 7.670000e-39 172
15 TraesCS2A01G480700 chr1A 79.310 232 48 0 4322 4553 10175360 10175129 4.610000e-36 163
16 TraesCS2A01G480700 chr2B 81.095 201 38 0 3762 3962 2140966 2141166 1.660000e-35 161
17 TraesCS2A01G480700 chr2B 81.095 201 38 0 3762 3962 2160730 2160930 1.660000e-35 161
18 TraesCS2A01G480700 chr2B 80.597 201 39 0 3762 3962 2179956 2180156 7.720000e-34 156
19 TraesCS2A01G480700 chr3A 79.710 207 40 2 3757 3962 43124448 43124653 1.290000e-31 148


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 TraesCS2A01G480700 chr2A 718349663 718355418 5755 False 10630.000000 10630 100.000000 1 5756 1 chr2A.!!$F1 5755
1 TraesCS2A01G480700 chr5B 522087843 522093536 5693 True 1996.250000 4916 91.869500 4 5755 4 chr5B.!!$R1 5751
2 TraesCS2A01G480700 chr3D 561011927 561017443 5516 False 1845.000000 2270 85.529667 113 5733 3 chr3D.!!$F1 5620
3 TraesCS2A01G480700 chr1D 78396758 78402148 5390 True 1683.000000 2102 84.441000 111 5631 3 chr1D.!!$R1 5520
4 TraesCS2A01G480700 chr2D 534497000 534502392 5392 False 1686.666667 2082 84.477000 113 5631 3 chr2D.!!$F1 5518

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
448 475 0.037605 CCTGTTTAAGACGACGGCCT 60.038 55.0 0.0 0.0 0.00 5.19 F
1291 1372 0.031314 CGCCTACATCACGCATCTCT 59.969 55.0 0.0 0.0 0.00 3.10 F
2322 2443 0.107410 ACACACGGCAGAAGTTTCCA 60.107 50.0 0.0 0.0 0.00 3.53 F
3165 3316 0.887387 GTTTCTACCCCGCTTGTGCA 60.887 55.0 0.0 0.0 39.64 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1490 1571 1.221840 CCTTGTGGACATCCTCGGG 59.778 63.158 0.00 0.0 36.82 5.14 R
3145 3283 0.605589 GCACAAGCGGGGTAGAAACT 60.606 55.000 0.00 0.0 0.00 2.66 R
3605 3757 0.459585 GAGCGCCACACGGATAGAAA 60.460 55.000 2.29 0.0 43.93 2.52 R
4922 5091 0.524862 GCCAGCATTGAACTGTCCAG 59.475 55.000 0.00 0.0 33.09 3.86 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
73 74 2.593978 CCCCAGATCCAGGCACAG 59.406 66.667 0.00 0.00 0.00 3.66
102 103 2.661997 TGCGCAGGTGCAGATGTA 59.338 55.556 5.66 0.00 40.62 2.29
103 104 1.448365 TGCGCAGGTGCAGATGTAG 60.448 57.895 5.66 0.00 40.62 2.74
104 105 2.817423 GCGCAGGTGCAGATGTAGC 61.817 63.158 0.30 0.00 42.21 3.58
105 106 1.153489 CGCAGGTGCAGATGTAGCT 60.153 57.895 2.33 0.00 42.21 3.32
147 148 4.838152 GCAGCCGCGGATCCAAGA 62.838 66.667 33.48 0.00 0.00 3.02
160 161 0.471191 TCCAAGATCCGATGCAGCAT 59.529 50.000 7.91 7.91 0.00 3.79
184 185 2.551912 CCCGGCGGGCAACAATATC 61.552 63.158 34.87 0.00 35.35 1.63
257 273 4.457496 GCCTAGCTGCAGTCGCCA 62.457 66.667 16.64 0.00 37.32 5.69
361 388 5.913946 AGGGCACTCCTTAATTAATAGCT 57.086 39.130 0.00 0.00 45.47 3.32
362 389 5.870706 AGGGCACTCCTTAATTAATAGCTC 58.129 41.667 0.00 0.00 45.47 4.09
363 390 4.691216 GGGCACTCCTTAATTAATAGCTCG 59.309 45.833 0.00 0.00 0.00 5.03
364 391 4.152580 GGCACTCCTTAATTAATAGCTCGC 59.847 45.833 0.00 4.29 0.00 5.03
365 392 4.991687 GCACTCCTTAATTAATAGCTCGCT 59.008 41.667 0.00 0.00 0.00 4.93
366 393 6.157211 GCACTCCTTAATTAATAGCTCGCTA 58.843 40.000 0.53 0.53 0.00 4.26
367 394 6.814146 GCACTCCTTAATTAATAGCTCGCTAT 59.186 38.462 5.63 5.63 40.63 2.97
368 395 7.201478 GCACTCCTTAATTAATAGCTCGCTATG 60.201 40.741 11.83 0.00 39.03 2.23
369 396 6.814146 ACTCCTTAATTAATAGCTCGCTATGC 59.186 38.462 11.83 0.00 39.03 3.14
384 411 1.003545 CTATGCGCGCTATGCAAGTTT 60.004 47.619 33.29 6.31 46.87 2.66
392 419 5.471962 CGCGCTATGCAAGTTTTAAATTTC 58.528 37.500 5.56 0.00 46.97 2.17
413 440 0.326927 TAGTGTAAGCAAGGGTGGCC 59.673 55.000 0.00 0.00 0.00 5.36
434 461 1.339727 CCCTTTACCGCTAAGCCTGTT 60.340 52.381 0.00 0.00 0.00 3.16
435 462 2.433436 CCTTTACCGCTAAGCCTGTTT 58.567 47.619 0.00 0.00 0.00 2.83
436 463 3.602483 CCTTTACCGCTAAGCCTGTTTA 58.398 45.455 0.00 0.00 0.00 2.01
437 464 4.004982 CCTTTACCGCTAAGCCTGTTTAA 58.995 43.478 0.00 0.00 0.00 1.52
438 465 4.094442 CCTTTACCGCTAAGCCTGTTTAAG 59.906 45.833 0.00 0.00 0.00 1.85
439 466 4.540359 TTACCGCTAAGCCTGTTTAAGA 57.460 40.909 0.00 0.00 0.00 2.10
440 467 2.696506 ACCGCTAAGCCTGTTTAAGAC 58.303 47.619 0.00 0.00 0.00 3.01
441 468 1.659098 CCGCTAAGCCTGTTTAAGACG 59.341 52.381 0.00 0.00 0.00 4.18
442 469 2.602878 CGCTAAGCCTGTTTAAGACGA 58.397 47.619 0.00 0.00 0.00 4.20
443 470 2.344741 CGCTAAGCCTGTTTAAGACGAC 59.655 50.000 0.00 0.00 0.00 4.34
444 471 2.344741 GCTAAGCCTGTTTAAGACGACG 59.655 50.000 0.00 0.00 0.00 5.12
445 472 1.792006 AAGCCTGTTTAAGACGACGG 58.208 50.000 0.00 0.00 0.00 4.79
446 473 0.669625 AGCCTGTTTAAGACGACGGC 60.670 55.000 0.00 0.00 36.44 5.68
447 474 1.632948 GCCTGTTTAAGACGACGGCC 61.633 60.000 0.00 0.00 32.87 6.13
448 475 0.037605 CCTGTTTAAGACGACGGCCT 60.038 55.000 0.00 0.00 0.00 5.19
449 476 1.203052 CCTGTTTAAGACGACGGCCTA 59.797 52.381 0.00 0.00 0.00 3.93
450 477 2.527100 CTGTTTAAGACGACGGCCTAG 58.473 52.381 0.00 0.00 0.00 3.02
451 478 2.161855 TGTTTAAGACGACGGCCTAGA 58.838 47.619 0.00 0.00 0.00 2.43
452 479 2.756760 TGTTTAAGACGACGGCCTAGAT 59.243 45.455 0.00 0.00 0.00 1.98
453 480 3.194116 TGTTTAAGACGACGGCCTAGATT 59.806 43.478 0.00 0.00 0.00 2.40
454 481 4.179298 GTTTAAGACGACGGCCTAGATTT 58.821 43.478 0.00 0.00 0.00 2.17
455 482 4.460948 TTAAGACGACGGCCTAGATTTT 57.539 40.909 0.00 0.00 0.00 1.82
456 483 5.581126 TTAAGACGACGGCCTAGATTTTA 57.419 39.130 0.00 0.00 0.00 1.52
457 484 3.433513 AGACGACGGCCTAGATTTTAC 57.566 47.619 0.00 0.00 0.00 2.01
458 485 2.756760 AGACGACGGCCTAGATTTTACA 59.243 45.455 0.00 0.00 0.00 2.41
459 486 3.114065 GACGACGGCCTAGATTTTACAG 58.886 50.000 0.00 0.00 0.00 2.74
460 487 1.859080 CGACGGCCTAGATTTTACAGC 59.141 52.381 0.00 0.00 0.00 4.40
461 488 2.481449 CGACGGCCTAGATTTTACAGCT 60.481 50.000 0.00 0.00 0.00 4.24
462 489 2.866762 GACGGCCTAGATTTTACAGCTG 59.133 50.000 13.48 13.48 0.00 4.24
604 663 5.929697 TTGTTTAGCTGACACTCTCATTG 57.070 39.130 0.00 0.00 0.00 2.82
684 754 2.942879 GCATCACGCACGTCCAAA 59.057 55.556 0.00 0.00 41.79 3.28
692 762 1.831389 CGCACGTCCAAACCACTCAG 61.831 60.000 0.00 0.00 0.00 3.35
697 767 1.202533 CGTCCAAACCACTCAGTCTGT 60.203 52.381 0.00 0.00 0.00 3.41
699 769 1.416401 TCCAAACCACTCAGTCTGTCC 59.584 52.381 0.00 0.00 0.00 4.02
704 774 0.457851 CCACTCAGTCTGTCCGATCC 59.542 60.000 0.00 0.00 0.00 3.36
737 807 4.879104 ATCAACGTCTAGTAGAGGTTCG 57.121 45.455 27.36 22.46 46.62 3.95
746 816 0.389426 GTAGAGGTTCGCCGCTTTGA 60.389 55.000 0.00 0.00 45.41 2.69
749 819 1.066430 AGAGGTTCGCCGCTTTGATAA 60.066 47.619 0.00 0.00 45.41 1.75
800 870 1.632046 CGCCGCACCGTTTCAGTTAT 61.632 55.000 0.00 0.00 0.00 1.89
890 960 0.538057 CACCCACACCAGCACTCATT 60.538 55.000 0.00 0.00 0.00 2.57
1066 1145 8.410673 TTTAGATCTAGTTCCATAGAGCGATT 57.589 34.615 2.02 0.00 41.88 3.34
1067 1146 6.909550 AGATCTAGTTCCATAGAGCGATTT 57.090 37.500 0.00 0.00 41.88 2.17
1068 1147 7.296628 AGATCTAGTTCCATAGAGCGATTTT 57.703 36.000 0.00 0.00 41.88 1.82
1101 1180 3.320541 TGAATCTTGTGCGGGTTGAAAAT 59.679 39.130 0.00 0.00 0.00 1.82
1291 1372 0.031314 CGCCTACATCACGCATCTCT 59.969 55.000 0.00 0.00 0.00 3.10
1490 1571 6.150641 GGATAACAAGGTACTCAGGTTTTTCC 59.849 42.308 0.00 0.96 38.49 3.13
1525 1606 2.236893 CAAGGTTTTTGGGATCCCATGG 59.763 50.000 34.21 12.18 46.64 3.66
1629 1713 1.550524 ACTGGAGTTCATAGCTTGCGA 59.449 47.619 0.00 0.00 0.00 5.10
1809 1893 4.196193 CAAATACGGAGGCCATAGTTCAA 58.804 43.478 5.01 0.00 0.00 2.69
1849 1933 3.962063 TGTACTGGTACAACTTCTGGACA 59.038 43.478 10.66 0.00 41.22 4.02
1965 2083 4.394300 AGCACAGCAAGTTATGTCAGATTC 59.606 41.667 0.00 0.00 0.00 2.52
1983 2101 9.659830 GTCAGATTCTGTTTTTGTTATACGTTT 57.340 29.630 13.23 0.00 32.61 3.60
2000 2118 4.711721 ACGTTTCATTGATCGACATGTTG 58.288 39.130 6.77 6.77 0.00 3.33
2001 2119 4.090729 CGTTTCATTGATCGACATGTTGG 58.909 43.478 13.27 2.41 0.00 3.77
2002 2120 3.763097 TTCATTGATCGACATGTTGGC 57.237 42.857 13.27 6.59 0.00 4.52
2048 2166 3.191371 ACAACCTTGATCTCGGCATTTTC 59.809 43.478 0.00 0.00 0.00 2.29
2087 2205 3.967326 TGATCCCACGGATATCTGACTTT 59.033 43.478 18.63 0.00 43.27 2.66
2174 2292 9.783081 TCATATTCTCATGCAAATGTACTACAT 57.217 29.630 0.00 0.00 41.31 2.29
2231 2351 9.825972 GATATTCTCTGATGTTTTTGTCGAAAA 57.174 29.630 0.00 0.00 34.93 2.29
2322 2443 0.107410 ACACACGGCAGAAGTTTCCA 60.107 50.000 0.00 0.00 0.00 3.53
2360 2481 1.215647 CAACGAGTAGAAGGCCGCT 59.784 57.895 0.00 0.93 0.00 5.52
2362 2483 2.583593 CGAGTAGAAGGCCGCTGC 60.584 66.667 10.95 9.61 0.00 5.25
2608 2736 6.091441 GCATTGAATCTAAGACTCGTGTTTCT 59.909 38.462 0.00 0.00 0.00 2.52
2665 2793 2.675658 AACAACAGTATGCAAGGGGT 57.324 45.000 0.00 0.00 42.53 4.95
2800 2928 4.962122 CGCTGTGTGTGTTGCCGC 62.962 66.667 0.00 0.00 0.00 6.53
2843 2971 2.292267 CTGCCTCAGGTCGCAATAAAT 58.708 47.619 0.00 0.00 33.87 1.40
2871 2999 8.777413 CCTATTCATGTTATCCATTATATGCCG 58.223 37.037 0.00 0.00 0.00 5.69
2873 3001 4.881273 TCATGTTATCCATTATATGCCGGC 59.119 41.667 22.73 22.73 0.00 6.13
2894 3022 2.038426 CGTTATCCCTCCATATGCCACA 59.962 50.000 0.00 0.00 0.00 4.17
2903 3031 6.101150 TCCCTCCATATGCCACATAATATACC 59.899 42.308 0.00 0.00 0.00 2.73
3048 3185 8.019669 CCACTTGATATTCTGTCTTTGTTTCTG 58.980 37.037 0.00 0.00 0.00 3.02
3049 3186 8.562892 CACTTGATATTCTGTCTTTGTTTCTGT 58.437 33.333 0.00 0.00 0.00 3.41
3050 3187 9.778741 ACTTGATATTCTGTCTTTGTTTCTGTA 57.221 29.630 0.00 0.00 0.00 2.74
3100 3237 6.127952 TGTTTTTACTACAAGCAACGAAAGGT 60.128 34.615 0.00 0.00 0.00 3.50
3115 3253 4.142902 ACGAAAGGTCTGCAAATTGATACG 60.143 41.667 0.00 0.00 0.00 3.06
3118 3256 6.238103 CGAAAGGTCTGCAAATTGATACGTAT 60.238 38.462 8.05 8.05 0.00 3.06
3151 3289 7.669722 TCAGCCCAAGTTATCAAATTAGTTTCT 59.330 33.333 0.00 0.00 0.00 2.52
3154 3292 8.188799 GCCCAAGTTATCAAATTAGTTTCTACC 58.811 37.037 0.00 0.00 0.00 3.18
3155 3293 8.683615 CCCAAGTTATCAAATTAGTTTCTACCC 58.316 37.037 0.00 0.00 0.00 3.69
3156 3294 8.683615 CCAAGTTATCAAATTAGTTTCTACCCC 58.316 37.037 0.00 0.00 0.00 4.95
3159 3310 4.563140 TCAAATTAGTTTCTACCCCGCT 57.437 40.909 0.00 0.00 0.00 5.52
3165 3316 0.887387 GTTTCTACCCCGCTTGTGCA 60.887 55.000 0.00 0.00 39.64 4.57
3168 3319 3.876589 CTACCCCGCTTGTGCACGT 62.877 63.158 13.13 4.41 39.64 4.49
3230 3382 3.617263 CACCTAATACTCACGCACCTTTC 59.383 47.826 0.00 0.00 0.00 2.62
3234 3386 0.981183 TACTCACGCACCTTTCCCAT 59.019 50.000 0.00 0.00 0.00 4.00
3249 3401 6.106003 CCTTTCCCATTTAATTGTTACAGCC 58.894 40.000 0.00 0.00 0.00 4.85
3259 3411 0.899019 TGTTACAGCCACATCGCCTA 59.101 50.000 0.00 0.00 0.00 3.93
3273 3425 1.472276 CGCCTATCGCACAGAACGTC 61.472 60.000 0.00 0.00 37.30 4.34
3317 3469 5.221441 CCAATATGGATGACTCCGTGTCTAA 60.221 44.000 7.21 0.00 45.37 2.10
3342 3494 2.690326 AAAAACGACGTCAGCAGCT 58.310 47.368 17.16 0.00 0.00 4.24
3355 3507 3.251729 GTCAGCAGCTTCTTTCAATGTCA 59.748 43.478 0.00 0.00 0.00 3.58
3384 3536 3.072184 ACTTCAAGTCTTGCCTCATGTCT 59.928 43.478 7.78 0.00 0.00 3.41
3420 3572 1.774217 TGACCTTCCTGCCAACCCT 60.774 57.895 0.00 0.00 0.00 4.34
3500 3652 1.016130 CACGGCTTCGCAACTGATCT 61.016 55.000 0.00 0.00 37.41 2.75
3544 3696 1.304381 CCCCCACATCCACCAACAG 60.304 63.158 0.00 0.00 0.00 3.16
3567 3719 2.501316 GGACCTTATTGCTGCCCATTTT 59.499 45.455 0.00 0.00 0.00 1.82
3634 3786 0.383949 TGTGGCGCTCCTTTTTGTTC 59.616 50.000 7.64 0.00 0.00 3.18
3639 3791 2.731451 GGCGCTCCTTTTTGTTCAATTC 59.269 45.455 7.64 0.00 0.00 2.17
3641 3793 3.670523 GCGCTCCTTTTTGTTCAATTCTC 59.329 43.478 0.00 0.00 0.00 2.87
3643 3795 4.319477 CGCTCCTTTTTGTTCAATTCTCGA 60.319 41.667 0.00 0.00 0.00 4.04
3674 3827 7.218014 CGCGCTGATTTTCATTCATAAACTTTA 59.782 33.333 5.56 0.00 0.00 1.85
3943 4096 3.056393 ACATGAATTGGAGGCACAACATG 60.056 43.478 16.60 16.60 39.14 3.21
3979 4132 1.659098 GTATAACAGCCACTCACACGC 59.341 52.381 0.00 0.00 0.00 5.34
3983 4136 2.974698 AGCCACTCACACGCTTGC 60.975 61.111 0.00 0.00 0.00 4.01
3986 4139 4.374702 CACTCACACGCTTGCCGC 62.375 66.667 0.00 0.00 41.76 6.53
4038 4191 6.299805 AGAAGAACATAATGACACTGGCTA 57.700 37.500 0.00 0.00 0.00 3.93
4209 4363 4.427956 AATTTCCCCCAATCCCAGTTTA 57.572 40.909 0.00 0.00 0.00 2.01
4228 4382 8.827677 CCAGTTTAATGCTATACTACCTTTCAC 58.172 37.037 0.00 0.00 0.00 3.18
4262 4420 9.190317 GACTTCCTATTTGAATAAACAATCCCT 57.810 33.333 0.00 0.00 0.00 4.20
4274 4432 5.357742 AAACAATCCCTCTTGCAAACTTT 57.642 34.783 0.00 0.00 0.00 2.66
4441 4599 2.308039 GGTCCACACGACGCAACTC 61.308 63.158 0.00 0.00 42.99 3.01
4577 4735 6.403309 CCCGTAATAGCTCAAGAAACCTTTTC 60.403 42.308 0.00 0.00 0.00 2.29
4629 4787 4.858140 TCGCAAATTCAGTGCAATACATTG 59.142 37.500 0.00 0.00 42.33 2.82
4680 4839 8.075593 ACATTTGTTTATGAACTCAAACATGC 57.924 30.769 1.75 0.00 42.48 4.06
4691 4850 6.014584 TGAACTCAAACATGCTTCTACCTCTA 60.015 38.462 0.00 0.00 0.00 2.43
4711 4871 7.555554 ACCTCTACAAATCTCTGATCCATTTTG 59.444 37.037 0.00 0.00 0.00 2.44
4762 4930 7.476153 TGGTACTCCATATAGTTAGGCACTAT 58.524 38.462 3.36 3.36 43.51 2.12
4851 5019 8.575649 TCTTCTTTTATGATTTTAGGTCCACC 57.424 34.615 0.00 0.00 0.00 4.61
4884 5052 2.414161 GCCTCCAGCAACGTTGATTTAC 60.414 50.000 31.62 13.28 42.97 2.01
4902 5071 7.670364 TGATTTACGTATCACATCCTGATGAT 58.330 34.615 13.81 1.76 40.12 2.45
4909 5078 8.029522 ACGTATCACATCCTGATGATAATACAC 58.970 37.037 13.81 2.33 40.12 2.90
4922 5091 8.304596 TGATGATAATACACTCTCCCGTATTTC 58.695 37.037 0.00 0.00 38.78 2.17
4947 5118 1.068055 CAGTTCAATGCTGGCAGAACC 60.068 52.381 20.86 0.40 40.82 3.62
5137 5309 1.419762 TGTGGTACCAGCTGTCACATT 59.580 47.619 16.93 0.00 34.01 2.71
5138 5310 2.076863 GTGGTACCAGCTGTCACATTC 58.923 52.381 16.93 0.00 0.00 2.67
5155 5327 1.250328 TTCGAACCTGCGAACCTAGA 58.750 50.000 0.00 0.00 44.43 2.43
5157 5329 2.646930 TCGAACCTGCGAACCTAGATA 58.353 47.619 0.00 0.00 37.35 1.98
5264 5440 0.530744 AGCCATGCTCGTTTCGTAGA 59.469 50.000 0.00 0.00 30.62 2.59
5271 5447 3.655486 TGCTCGTTTCGTAGATTTTCCA 58.345 40.909 0.00 0.00 35.04 3.53
5329 5505 7.128331 CCATTTGTCTTAGCTATTCAATCGTG 58.872 38.462 0.00 1.90 0.00 4.35
5334 5510 0.933097 AGCTATTCAATCGTGCAGCG 59.067 50.000 0.00 0.00 43.01 5.18
5346 5523 3.527533 TCGTGCAGCGTATATTCCTTTT 58.472 40.909 8.22 0.00 42.13 2.27
5349 5526 5.581479 TCGTGCAGCGTATATTCCTTTTTAA 59.419 36.000 8.22 0.00 42.13 1.52
5411 5588 7.709269 TCCATACTGTTAGTTATCGCATTTC 57.291 36.000 0.00 0.00 0.00 2.17
5412 5589 6.704493 TCCATACTGTTAGTTATCGCATTTCC 59.296 38.462 0.00 0.00 0.00 3.13
5413 5590 6.706270 CCATACTGTTAGTTATCGCATTTCCT 59.294 38.462 0.00 0.00 0.00 3.36
5416 5594 5.354234 ACTGTTAGTTATCGCATTTCCTTGG 59.646 40.000 0.00 0.00 0.00 3.61
5439 5617 5.407407 AACACCTGACTATGTTACCTCAG 57.593 43.478 0.00 0.00 37.27 3.35
5464 5642 6.147864 TGCTATAAAATGTTGCCTCAATCC 57.852 37.500 0.00 0.00 0.00 3.01
5472 5650 2.097825 GTTGCCTCAATCCAAGCTCAT 58.902 47.619 0.00 0.00 0.00 2.90
5487 5665 0.592637 CTCATGAGCGGCACACAAAA 59.407 50.000 10.38 0.00 0.00 2.44
5498 5676 4.260538 GCGGCACACAAAATTCAAATTTCA 60.261 37.500 0.00 0.00 37.62 2.69
5499 5677 5.433855 CGGCACACAAAATTCAAATTTCAG 58.566 37.500 1.43 1.40 37.62 3.02
5520 5699 2.256445 GTGCCGTAATTTTGCACGAT 57.744 45.000 9.84 0.00 44.95 3.73
5546 5725 4.205323 CCTTTTTCAGGTGACGTTGTAC 57.795 45.455 0.00 0.00 37.99 2.90
5551 5730 3.941035 GGTGACGTTGTACCACCG 58.059 61.111 7.52 0.00 40.61 4.94
5557 5736 0.393820 ACGTTGTACCACCGAACCAT 59.606 50.000 3.37 0.00 0.00 3.55
5563 5742 4.289238 TGTACCACCGAACCATAACATT 57.711 40.909 0.00 0.00 0.00 2.71
5564 5743 4.255301 TGTACCACCGAACCATAACATTC 58.745 43.478 0.00 0.00 0.00 2.67
5568 5747 3.315191 CCACCGAACCATAACATTCCATC 59.685 47.826 0.00 0.00 0.00 3.51
5591 5770 2.729491 GCGGCAGCACGGAAAAAC 60.729 61.111 3.18 0.00 44.35 2.43
5594 5773 0.934436 CGGCAGCACGGAAAAACAAG 60.934 55.000 0.00 0.00 0.00 3.16
5639 5818 4.436332 CGGGTTACACTTAGTATCCAACC 58.564 47.826 7.59 7.59 42.13 3.77
5664 5845 5.061920 ACAGTCTCGACTATTTCAAGTCC 57.938 43.478 0.00 0.00 42.46 3.85
5680 5861 1.207089 AGTCCTGCAAATTCGATCCGA 59.793 47.619 0.00 0.00 0.00 4.55
5722 5903 5.106712 GCATCGAAGTTCATTACTTGTCCAA 60.107 40.000 3.32 0.00 47.00 3.53
5738 5919 5.217978 TGTCCAACACGTAAAGTCCTAAT 57.782 39.130 0.00 0.00 0.00 1.73
5741 5922 5.119743 GTCCAACACGTAAAGTCCTAATCAC 59.880 44.000 0.00 0.00 0.00 3.06
5749 5930 6.803807 ACGTAAAGTCCTAATCACGAACTAAC 59.196 38.462 0.00 0.00 33.81 2.34
5752 5933 9.148104 GTAAAGTCCTAATCACGAACTAACATT 57.852 33.333 0.00 0.00 0.00 2.71
5755 5936 9.886132 AAGTCCTAATCACGAACTAACATTATT 57.114 29.630 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 1.751927 CTGAGCAGGACCATTGCCC 60.752 63.158 2.19 0.00 42.48 5.36
57 58 0.549950 AATCTGTGCCTGGATCTGGG 59.450 55.000 0.00 4.28 0.00 4.45
97 98 2.512286 TGCGCAGGCAGCTACATC 60.512 61.111 5.66 0.00 46.21 3.06
138 139 1.805869 CTGCATCGGATCTTGGATCC 58.194 55.000 14.58 14.58 34.90 3.36
145 146 0.321021 GGAGATGCTGCATCGGATCT 59.679 55.000 30.53 17.96 44.67 2.75
147 148 1.374190 GGGAGATGCTGCATCGGAT 59.626 57.895 30.53 17.80 44.67 4.18
257 273 3.689347 TGTTCACTGCTGCCATAAGAAT 58.311 40.909 0.00 0.00 0.00 2.40
363 390 1.154525 CTTGCATAGCGCGCATAGC 60.155 57.895 35.10 30.42 46.97 2.97
364 391 0.583438 AACTTGCATAGCGCGCATAG 59.417 50.000 35.10 22.20 46.97 2.23
365 392 1.013596 AAACTTGCATAGCGCGCATA 58.986 45.000 35.10 21.96 46.97 3.14
366 393 0.171007 AAAACTTGCATAGCGCGCAT 59.829 45.000 35.10 21.19 46.97 4.73
367 394 0.799393 TAAAACTTGCATAGCGCGCA 59.201 45.000 35.10 19.76 46.97 6.09
368 395 1.889891 TTAAAACTTGCATAGCGCGC 58.110 45.000 26.66 26.66 46.97 6.86
369 396 5.286082 AGAAATTTAAAACTTGCATAGCGCG 59.714 36.000 0.00 0.00 46.97 6.86
370 397 6.632171 AGAAATTTAAAACTTGCATAGCGC 57.368 33.333 0.00 0.00 42.89 5.92
371 398 9.341899 ACTAAGAAATTTAAAACTTGCATAGCG 57.658 29.630 12.60 0.00 0.00 4.26
384 411 8.573035 CACCCTTGCTTACACTAAGAAATTTAA 58.427 33.333 0.00 0.00 38.02 1.52
392 419 2.084546 GCCACCCTTGCTTACACTAAG 58.915 52.381 0.00 0.00 38.80 2.18
413 440 0.463833 CAGGCTTAGCGGTAAAGGGG 60.464 60.000 8.61 0.00 0.00 4.79
434 461 4.460948 AAAATCTAGGCCGTCGTCTTAA 57.539 40.909 0.00 0.00 0.00 1.85
435 462 4.398988 TGTAAAATCTAGGCCGTCGTCTTA 59.601 41.667 0.00 0.00 0.00 2.10
436 463 3.194116 TGTAAAATCTAGGCCGTCGTCTT 59.806 43.478 0.00 0.00 0.00 3.01
437 464 2.756760 TGTAAAATCTAGGCCGTCGTCT 59.243 45.455 0.00 0.00 0.00 4.18
438 465 3.114065 CTGTAAAATCTAGGCCGTCGTC 58.886 50.000 0.00 0.00 0.00 4.20
439 466 2.737679 GCTGTAAAATCTAGGCCGTCGT 60.738 50.000 0.00 0.00 0.00 4.34
440 467 1.859080 GCTGTAAAATCTAGGCCGTCG 59.141 52.381 0.00 0.00 0.00 5.12
441 468 2.866762 CAGCTGTAAAATCTAGGCCGTC 59.133 50.000 5.25 0.00 0.00 4.79
442 469 2.236395 ACAGCTGTAAAATCTAGGCCGT 59.764 45.455 20.16 0.00 0.00 5.68
443 470 2.906354 ACAGCTGTAAAATCTAGGCCG 58.094 47.619 20.16 0.00 0.00 6.13
444 471 4.010349 ACAACAGCTGTAAAATCTAGGCC 58.990 43.478 22.01 0.00 36.10 5.19
445 472 4.672801 GCACAACAGCTGTAAAATCTAGGC 60.673 45.833 22.01 9.92 36.10 3.93
446 473 4.697352 AGCACAACAGCTGTAAAATCTAGG 59.303 41.667 22.01 3.79 44.66 3.02
447 474 5.869753 AGCACAACAGCTGTAAAATCTAG 57.130 39.130 22.01 5.76 44.66 2.43
448 475 7.606073 TGATTAGCACAACAGCTGTAAAATCTA 59.394 33.333 22.01 14.40 46.11 1.98
449 476 6.430925 TGATTAGCACAACAGCTGTAAAATCT 59.569 34.615 22.01 15.36 46.11 2.40
450 477 6.611381 TGATTAGCACAACAGCTGTAAAATC 58.389 36.000 22.01 19.83 46.11 2.17
451 478 6.573664 TGATTAGCACAACAGCTGTAAAAT 57.426 33.333 22.01 12.87 46.11 1.82
452 479 6.205784 GTTGATTAGCACAACAGCTGTAAAA 58.794 36.000 22.01 8.65 46.11 1.52
453 480 5.757886 GTTGATTAGCACAACAGCTGTAAA 58.242 37.500 22.01 8.30 46.11 2.01
454 481 5.356882 GTTGATTAGCACAACAGCTGTAA 57.643 39.130 22.01 10.04 46.11 2.41
456 483 3.904136 GTTGATTAGCACAACAGCTGT 57.096 42.857 15.25 15.25 46.11 4.40
462 489 7.975616 ACATATTTGGATGTTGATTAGCACAAC 59.024 33.333 0.00 0.00 45.07 3.32
534 590 8.687824 AAAAATAATACAATCTGAAACCAGCG 57.312 30.769 0.00 0.00 0.00 5.18
604 663 5.050159 TGCTGATTCGCACACATTATATGTC 60.050 40.000 0.00 0.00 36.78 3.06
676 745 1.120530 AGACTGAGTGGTTTGGACGT 58.879 50.000 0.00 0.00 0.00 4.34
678 747 2.484889 GACAGACTGAGTGGTTTGGAC 58.515 52.381 10.08 0.00 0.00 4.02
684 754 1.178276 GATCGGACAGACTGAGTGGT 58.822 55.000 10.08 0.00 37.31 4.16
692 762 1.272490 TCACAGTTGGATCGGACAGAC 59.728 52.381 0.73 0.00 0.00 3.51
697 767 3.704061 TGATATGTCACAGTTGGATCGGA 59.296 43.478 0.00 0.00 0.00 4.55
699 769 4.026558 CGTTGATATGTCACAGTTGGATCG 60.027 45.833 0.00 0.00 33.11 3.69
704 774 6.093404 ACTAGACGTTGATATGTCACAGTTG 58.907 40.000 0.00 0.00 41.80 3.16
746 816 0.690762 ACTGGGACGTGTTGGCTTAT 59.309 50.000 0.00 0.00 0.00 1.73
749 819 2.426023 GACTGGGACGTGTTGGCT 59.574 61.111 0.00 0.00 0.00 4.75
823 893 2.026729 TGCTCAATGGAAATGACGGGTA 60.027 45.455 0.00 0.00 0.00 3.69
825 895 1.133025 GTGCTCAATGGAAATGACGGG 59.867 52.381 0.00 0.00 0.00 5.28
836 906 4.005650 AGGGATATAATGCGTGCTCAATG 58.994 43.478 0.00 0.00 0.00 2.82
890 960 0.834261 TGGGACGACATGGACAGGAA 60.834 55.000 0.00 0.00 0.00 3.36
1038 1117 9.168451 TCGCTCTATGGAACTAGATCTAAATAG 57.832 37.037 3.57 6.77 0.00 1.73
1045 1124 7.570324 GCAAAAATCGCTCTATGGAACTAGATC 60.570 40.741 0.00 0.00 0.00 2.75
1066 1145 4.219070 CACAAGATTCAGATCCAGGCAAAA 59.781 41.667 0.00 0.00 32.44 2.44
1067 1146 3.760151 CACAAGATTCAGATCCAGGCAAA 59.240 43.478 0.00 0.00 32.44 3.68
1068 1147 3.349927 CACAAGATTCAGATCCAGGCAA 58.650 45.455 0.00 0.00 32.44 4.52
1276 1357 3.774066 CTTGACAGAGATGCGTGATGTA 58.226 45.455 0.00 0.00 0.00 2.29
1388 1469 3.252701 CACTTCAAACTCAGCTTCTGCAT 59.747 43.478 0.00 0.00 42.74 3.96
1490 1571 1.221840 CCTTGTGGACATCCTCGGG 59.778 63.158 0.00 0.00 36.82 5.14
1525 1606 1.966451 CTTTCCACTGCGGTGACCC 60.966 63.158 27.46 0.00 45.61 4.46
1629 1713 3.805971 GCAACAAGAAATTTTCTGCAGCT 59.194 39.130 9.47 0.00 40.59 4.24
1809 1893 5.294306 CAGTACATACTCGCACCAATTGAAT 59.706 40.000 7.12 0.00 33.46 2.57
1849 1933 3.386078 TCACTCTTCAGCTTCTTGACTGT 59.614 43.478 0.00 0.00 35.37 3.55
1936 2020 7.606073 TCTGACATAACTTGCTGTGCTAAAATA 59.394 33.333 0.00 0.00 0.00 1.40
1983 2101 2.989909 AGCCAACATGTCGATCAATGA 58.010 42.857 0.00 0.00 0.00 2.57
1990 2108 1.468565 GCGTAGTAGCCAACATGTCGA 60.469 52.381 0.00 0.00 0.00 4.20
2000 2118 3.933332 ACAAGAAAATCTGCGTAGTAGCC 59.067 43.478 0.00 0.00 41.03 3.93
2001 2119 5.316770 CAACAAGAAAATCTGCGTAGTAGC 58.683 41.667 0.00 0.00 41.03 3.58
2002 2120 5.637810 TCCAACAAGAAAATCTGCGTAGTAG 59.362 40.000 0.00 0.00 43.21 2.57
2048 2166 3.063997 GGATCACGTTATGAGGCTTGTTG 59.936 47.826 0.00 0.00 41.91 3.33
2202 2322 7.971722 TCGACAAAAACATCAGAGAATATCGTA 59.028 33.333 0.00 0.00 0.00 3.43
2203 2323 6.811665 TCGACAAAAACATCAGAGAATATCGT 59.188 34.615 0.00 0.00 0.00 3.73
2204 2324 7.221828 TCGACAAAAACATCAGAGAATATCG 57.778 36.000 0.00 0.00 0.00 2.92
2226 2346 7.634432 GCGGGATTTAGCATTTTTAAATTTTCG 59.366 33.333 0.00 0.00 32.42 3.46
2231 2351 5.815222 GTGGCGGGATTTAGCATTTTTAAAT 59.185 36.000 0.00 0.00 34.36 1.40
2246 2366 1.864669 AAAAATCATGGTGGCGGGAT 58.135 45.000 0.00 0.00 0.00 3.85
2247 2367 3.372557 AAAAATCATGGTGGCGGGA 57.627 47.368 0.00 0.00 0.00 5.14
2272 2393 1.521010 CCGCATCTCTCAGCTGTGG 60.521 63.158 14.67 8.31 35.94 4.17
2322 2443 2.427095 TGATGACGACGGAACAGATGAT 59.573 45.455 0.00 0.00 0.00 2.45
2579 2700 5.062183 CACGAGTCTTAGATTCAATGCGAAA 59.938 40.000 5.62 0.00 37.12 3.46
2581 2702 4.105486 CACGAGTCTTAGATTCAATGCGA 58.895 43.478 5.62 0.00 0.00 5.10
2582 2703 3.859961 ACACGAGTCTTAGATTCAATGCG 59.140 43.478 5.62 0.00 0.00 4.73
2583 2704 5.786401 AACACGAGTCTTAGATTCAATGC 57.214 39.130 5.62 0.00 0.00 3.56
2585 2706 6.091441 GCAGAAACACGAGTCTTAGATTCAAT 59.909 38.462 5.62 0.00 0.00 2.57
2591 2712 4.585955 AAGCAGAAACACGAGTCTTAGA 57.414 40.909 0.00 0.00 0.00 2.10
2597 2725 1.378531 TGCAAAGCAGAAACACGAGT 58.621 45.000 0.00 0.00 33.32 4.18
2608 2736 1.671054 GTCCGCTACCTGCAAAGCA 60.671 57.895 13.82 0.00 43.06 3.91
2665 2793 2.813754 GGCTTGTGTCAACTGCATAAGA 59.186 45.455 11.74 0.00 37.28 2.10
2800 2928 1.151777 AGTCAGTGAAACCACGCACG 61.152 55.000 0.00 0.00 39.88 5.34
2871 2999 1.679032 GGCATATGGAGGGATAACGCC 60.679 57.143 4.56 0.00 0.00 5.68
2873 3001 2.038426 TGTGGCATATGGAGGGATAACG 59.962 50.000 4.56 0.00 0.00 3.18
2925 3055 2.223572 CGATTTGGAATTAGCAGTGCCC 60.224 50.000 12.58 5.90 0.00 5.36
2966 3096 5.452078 TTTACCCTGAATTTTGTGAGCAG 57.548 39.130 0.00 0.00 0.00 4.24
3125 3263 7.669722 AGAAACTAATTTGATAACTTGGGCTGA 59.330 33.333 0.00 0.00 0.00 4.26
3145 3283 0.605589 GCACAAGCGGGGTAGAAACT 60.606 55.000 0.00 0.00 0.00 2.66
3151 3289 3.869473 GACGTGCACAAGCGGGGTA 62.869 63.158 18.64 0.00 46.23 3.69
3172 3323 1.948104 AACTAGAAAGCACGCACACA 58.052 45.000 0.00 0.00 0.00 3.72
3230 3382 5.398603 TGTGGCTGTAACAATTAAATGGG 57.601 39.130 0.00 0.00 0.00 4.00
3234 3386 4.380023 GGCGATGTGGCTGTAACAATTAAA 60.380 41.667 0.00 0.00 40.72 1.52
3259 3411 1.729472 CGAAGAGACGTTCTGTGCGAT 60.729 52.381 6.68 0.00 35.91 4.58
3273 3425 1.061570 GGAATGCTTGCGCGAAGAG 59.938 57.895 12.10 4.67 39.65 2.85
3287 3439 3.560025 GGAGTCATCCATATTGGCGGAAT 60.560 47.826 0.00 0.00 45.87 3.01
3342 3494 8.168790 TGAAGTGATTGATGACATTGAAAGAA 57.831 30.769 0.00 0.00 0.00 2.52
3355 3507 4.660168 AGGCAAGACTTGAAGTGATTGAT 58.340 39.130 19.51 7.65 0.00 2.57
3384 3536 4.058124 GGTCAGCATACATTTCAGCGATA 58.942 43.478 0.00 0.00 0.00 2.92
3420 3572 6.668645 ACATTGGCCAAATACAGTTATAGGA 58.331 36.000 24.71 0.00 0.00 2.94
3452 3604 8.432805 GGAATATGTATTTCCTCTTCTGAAGGA 58.567 37.037 16.83 5.80 0.00 3.36
3500 3652 2.515398 CAACTCCCCTGCACCACA 59.485 61.111 0.00 0.00 0.00 4.17
3544 3696 2.481471 GGGCAGCAATAAGGTCCGC 61.481 63.158 0.00 0.00 0.00 5.54
3567 3719 2.997980 TCTTGCTGTGACAACTCCAAA 58.002 42.857 0.00 0.00 0.00 3.28
3600 3752 2.695359 GCCACACGGATAGAAAAGACA 58.305 47.619 0.00 0.00 0.00 3.41
3605 3757 0.459585 GAGCGCCACACGGATAGAAA 60.460 55.000 2.29 0.00 43.93 2.52
3634 3786 1.073216 AGCGCGACTGTCGAGAATTG 61.073 55.000 32.50 15.60 43.74 2.32
3674 3827 4.822685 TGTTGCTGGCAAAAATATGGAT 57.177 36.364 9.67 0.00 37.70 3.41
3703 3856 2.691526 TGGGCAATGAGATTCAGCATTC 59.308 45.455 0.00 0.00 32.74 2.67
3943 4096 4.396790 TGTTATACCGCAAATTCAGGTTCC 59.603 41.667 5.02 0.00 39.31 3.62
3979 4132 5.228427 GGTAAATACAAAATTACGCGGCAAG 59.772 40.000 12.47 0.00 33.74 4.01
3983 4136 6.354039 AGAGGTAAATACAAAATTACGCGG 57.646 37.500 12.47 0.00 33.74 6.46
3986 4139 9.887406 ACAACAAGAGGTAAATACAAAATTACG 57.113 29.630 0.00 0.00 33.74 3.18
4209 4363 7.611855 AGCAAAAGTGAAAGGTAGTATAGCATT 59.388 33.333 0.00 0.00 42.67 3.56
4228 4382 9.912634 TTTATTCAAATAGGAAGTCAGCAAAAG 57.087 29.630 0.00 0.00 0.00 2.27
4262 4420 7.816995 ACATTTAAGTGACAAAAGTTTGCAAGA 59.183 29.630 4.81 0.00 41.79 3.02
4274 4432 7.915293 ACCGAATCATACATTTAAGTGACAA 57.085 32.000 4.81 0.00 0.00 3.18
4629 4787 1.451028 CTGGAGCAGGGTAGCAAGC 60.451 63.158 0.00 0.00 36.85 4.01
4655 4813 7.927629 AGCATGTTTGAGTTCATAAACAAATGT 59.072 29.630 6.62 0.00 46.21 2.71
4680 4839 7.286546 TGGATCAGAGATTTGTAGAGGTAGAAG 59.713 40.741 0.00 0.00 0.00 2.85
4691 4850 5.021458 AGCCAAAATGGATCAGAGATTTGT 58.979 37.500 0.00 0.00 40.96 2.83
4711 4871 4.995124 TCATCTCTGTTCGTAAGTTAGCC 58.005 43.478 0.00 0.00 39.48 3.93
4762 4930 2.291209 TTTTGAGCTTCTGGCCATCA 57.709 45.000 5.51 3.25 43.05 3.07
4884 5052 8.246871 AGTGTATTATCATCAGGATGTGATACG 58.753 37.037 8.97 0.00 44.73 3.06
4902 5071 6.040166 GTCCAGAAATACGGGAGAGTGTATTA 59.960 42.308 0.00 0.00 42.99 0.98
4909 5078 3.444703 CTGTCCAGAAATACGGGAGAG 57.555 52.381 0.00 0.00 44.38 3.20
4922 5091 0.524862 GCCAGCATTGAACTGTCCAG 59.475 55.000 0.00 0.00 33.09 3.86
4947 5118 3.243636 ACTCATGAAGTGCTTGCCTTTTG 60.244 43.478 0.00 0.00 36.65 2.44
5108 5280 1.428448 CTGGTACCACACACATCACG 58.572 55.000 11.60 0.00 0.00 4.35
5137 5309 1.471119 ATCTAGGTTCGCAGGTTCGA 58.529 50.000 0.00 0.00 36.60 3.71
5138 5310 3.644884 ATATCTAGGTTCGCAGGTTCG 57.355 47.619 0.00 0.00 0.00 3.95
5157 5329 9.975218 AAACTACTTAGGGTACATGATTCAAAT 57.025 29.630 0.00 0.00 0.00 2.32
5264 5440 6.655078 ACAAGTTAGTTGCTGATGGAAAAT 57.345 33.333 0.00 0.00 40.15 1.82
5329 5505 6.143919 GCCAATTAAAAAGGAATATACGCTGC 59.856 38.462 0.00 0.00 0.00 5.25
5369 5546 1.134521 GGATGCACATACTTCGGTGGA 60.135 52.381 0.00 0.00 39.68 4.02
5371 5548 2.022764 TGGATGCACATACTTCGGTG 57.977 50.000 0.00 0.00 38.05 4.94
5411 5588 3.703001 ACATAGTCAGGTGTTCCAAGG 57.297 47.619 0.00 0.00 35.89 3.61
5412 5589 4.935808 GGTAACATAGTCAGGTGTTCCAAG 59.064 45.833 0.00 0.00 39.18 3.61
5413 5590 4.595781 AGGTAACATAGTCAGGTGTTCCAA 59.404 41.667 0.00 0.00 39.18 3.53
5416 5594 5.401531 TGAGGTAACATAGTCAGGTGTTC 57.598 43.478 0.00 0.00 39.18 3.18
5439 5617 4.637483 TGAGGCAACATTTTATAGCAGC 57.363 40.909 0.00 0.00 41.41 5.25
5472 5650 1.028130 TGAATTTTGTGTGCCGCTCA 58.972 45.000 0.00 0.00 0.00 4.26
5477 5655 6.258507 ACTCTGAAATTTGAATTTTGTGTGCC 59.741 34.615 0.00 0.00 38.64 5.01
5487 5665 5.957842 TTACGGCACTCTGAAATTTGAAT 57.042 34.783 0.00 0.00 0.00 2.57
5546 5725 2.717390 TGGAATGTTATGGTTCGGTGG 58.283 47.619 0.00 0.00 0.00 4.61
5568 5747 3.576356 CCGTGCTGCCGCCATAAG 61.576 66.667 0.00 0.00 34.43 1.73
5574 5753 2.729491 GTTTTTCCGTGCTGCCGC 60.729 61.111 0.00 0.00 0.00 6.53
5577 5756 2.202295 TTCTTGTTTTTCCGTGCTGC 57.798 45.000 0.00 0.00 0.00 5.25
5639 5818 3.759527 TGAAATAGTCGAGACTGTCCG 57.240 47.619 15.36 8.14 42.52 4.79
5664 5845 0.305922 GGCTCGGATCGAATTTGCAG 59.694 55.000 0.00 0.00 34.74 4.41
5680 5861 0.758734 GCAAAGTGGGGAAAAAGGCT 59.241 50.000 0.00 0.00 0.00 4.58
5722 5903 4.771590 TCGTGATTAGGACTTTACGTGT 57.228 40.909 0.00 0.00 33.68 4.49


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

AutoCloner maintained by Alex Coulton.