Multiple sequence alignment - TraesCS4B01G179400

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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 TraesCS4B01G179400 chr4B 100.000 5436 0 0 1 5436 393155072 393160507 0.000000e+00 10039.0
1 TraesCS4B01G179400 chr4A 96.222 2991 94 9 1770 4754 159509172 159506195 0.000000e+00 4879.0
2 TraesCS4B01G179400 chr4A 95.884 899 29 6 817 1712 159510063 159509170 0.000000e+00 1448.0
3 TraesCS4B01G179400 chr4A 89.225 761 72 9 8 764 159513379 159512625 0.000000e+00 942.0
4 TraesCS4B01G179400 chr4A 97.318 522 11 1 4916 5434 159506196 159505675 0.000000e+00 883.0
5 TraesCS4B01G179400 chr4D 96.571 2566 67 7 2185 4748 315261883 315264429 0.000000e+00 4231.0
6 TraesCS4B01G179400 chr4D 96.667 930 23 6 784 1712 315260370 315261292 0.000000e+00 1539.0
7 TraesCS4B01G179400 chr4D 89.619 761 64 11 10 764 315259628 315260379 0.000000e+00 953.0
8 TraesCS4B01G179400 chr4D 97.241 290 6 1 4916 5205 315264434 315264721 1.760000e-134 490.0
9 TraesCS4B01G179400 chr4D 86.788 386 48 2 1784 2167 315261312 315261696 1.400000e-115 427.0
10 TraesCS4B01G179400 chr4D 95.726 234 4 2 5209 5436 315264824 315265057 6.650000e-99 372.0
11 TraesCS4B01G179400 chr4D 95.906 171 7 0 4750 4920 75782220 75782050 1.490000e-70 278.0
12 TraesCS4B01G179400 chr4D 94.318 176 8 2 4744 4918 69494133 69494307 8.980000e-68 268.0
13 TraesCS4B01G179400 chr6D 81.305 797 114 30 9 777 264451202 264450413 1.000000e-171 614.0
14 TraesCS4B01G179400 chr6D 95.376 173 7 1 4753 4924 32865334 32865162 1.930000e-69 274.0
15 TraesCS4B01G179400 chr3B 80.878 706 110 17 39 733 180370812 180371503 2.880000e-147 532.0
16 TraesCS4B01G179400 chr3B 97.297 37 1 0 1707 1743 734254321 734254357 4.550000e-06 63.9
17 TraesCS4B01G179400 chr6B 80.544 478 77 7 23 487 37616823 37617297 2.410000e-93 353.0
18 TraesCS4B01G179400 chr6B 85.470 117 15 1 650 764 567899797 567899681 2.660000e-23 121.0
19 TraesCS4B01G179400 chr6B 92.857 42 2 1 1708 1748 629435922 629435963 5.880000e-05 60.2
20 TraesCS4B01G179400 chr1B 96.512 172 6 0 4750 4921 322096927 322096756 8.910000e-73 285.0
21 TraesCS4B01G179400 chr2B 95.930 172 7 0 4753 4924 174794822 174794993 4.150000e-71 279.0
22 TraesCS4B01G179400 chr2B 95.858 169 7 0 4753 4921 719520669 719520501 1.930000e-69 274.0
23 TraesCS4B01G179400 chr2B 93.023 43 2 1 1707 1748 521814625 521814583 1.630000e-05 62.1
24 TraesCS4B01G179400 chr1D 95.402 174 8 0 4750 4923 178466473 178466300 1.490000e-70 278.0
25 TraesCS4B01G179400 chr1D 82.857 70 8 3 1710 1775 34654748 34654679 5.880000e-05 60.2
26 TraesCS4B01G179400 chr5D 94.444 180 9 1 4739 4917 274578191 274578012 5.360000e-70 276.0
27 TraesCS4B01G179400 chr5D 81.057 227 36 6 209 431 550659353 550659576 2.010000e-39 174.0
28 TraesCS4B01G179400 chr5D 80.663 181 33 2 527 707 445494093 445494271 7.340000e-29 139.0
29 TraesCS4B01G179400 chr5D 87.931 58 4 2 1718 1772 559461699 559461756 1.260000e-06 65.8
30 TraesCS4B01G179400 chr2D 93.923 181 10 1 4737 4917 560959664 560959485 6.940000e-69 272.0
31 TraesCS4B01G179400 chr2D 79.928 279 48 8 206 480 8468672 8468398 1.190000e-46 198.0
32 TraesCS4B01G179400 chr2A 75.000 644 126 23 119 753 649618913 649618296 1.160000e-66 265.0
33 TraesCS4B01G179400 chr2A 81.111 270 44 6 189 454 7493686 7493420 5.520000e-50 209.0
34 TraesCS4B01G179400 chr7D 74.026 770 138 42 15 764 530342270 530341543 1.940000e-64 257.0
35 TraesCS4B01G179400 chr7D 85.526 76 3 4 1703 1772 588028302 588028229 7.550000e-09 73.1
36 TraesCS4B01G179400 chr5A 75.566 618 89 38 162 764 599275012 599274442 1.170000e-61 248.0
37 TraesCS4B01G179400 chr5A 92.857 42 2 1 1708 1748 374902828 374902787 5.880000e-05 60.2
38 TraesCS4B01G179400 chr5B 75.260 481 77 25 220 694 440225580 440226024 2.000000e-44 191.0
39 TraesCS4B01G179400 chr5B 85.938 64 5 3 1711 1772 495485558 495485619 1.260000e-06 65.8
40 TraesCS4B01G179400 chr3A 77.914 326 58 10 162 478 14036069 14036389 2.000000e-44 191.0
41 TraesCS4B01G179400 chr7A 79.537 259 48 3 511 764 514669385 514669127 4.330000e-41 180.0
42 TraesCS4B01G179400 chr7A 86.301 73 3 3 1706 1772 679882285 679882214 7.550000e-09 73.1
43 TraesCS4B01G179400 chrUn 80.889 225 39 3 532 753 352850644 352850421 2.010000e-39 174.0


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 TraesCS4B01G179400 chr4B 393155072 393160507 5435 False 10039.000000 10039 100.000000 1 5436 1 chr4B.!!$F1 5435
1 TraesCS4B01G179400 chr4A 159505675 159513379 7704 True 2038.000000 4879 94.662250 8 5434 4 chr4A.!!$R1 5426
2 TraesCS4B01G179400 chr4D 315259628 315265057 5429 False 1335.333333 4231 93.768667 10 5436 6 chr4D.!!$F2 5426
3 TraesCS4B01G179400 chr6D 264450413 264451202 789 True 614.000000 614 81.305000 9 777 1 chr6D.!!$R2 768
4 TraesCS4B01G179400 chr3B 180370812 180371503 691 False 532.000000 532 80.878000 39 733 1 chr3B.!!$F1 694
5 TraesCS4B01G179400 chr2A 649618296 649618913 617 True 265.000000 265 75.000000 119 753 1 chr2A.!!$R2 634
6 TraesCS4B01G179400 chr7D 530341543 530342270 727 True 257.000000 257 74.026000 15 764 1 chr7D.!!$R1 749
7 TraesCS4B01G179400 chr5A 599274442 599275012 570 True 248.000000 248 75.566000 162 764 1 chr5A.!!$R2 602

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
873 3501 1.134438 GGGAGGAAGAACCCAGGTGT 61.134 60.0 0.00 0.00 44.96 4.16 F
1725 4356 0.253020 AAAGTACCCCCTCGTCCCAT 60.253 55.0 0.00 0.00 0.00 4.00 F
1730 4361 0.327191 ACCCCCTCGTCCCATAATGT 60.327 55.0 0.00 0.00 0.00 2.71 F
2303 5114 1.018910 ACACACTACGTTTTGGGCAC 58.981 50.0 0.00 0.00 0.00 5.01 F
3772 6586 1.071605 GTGCCTTCATCGATATCGGC 58.928 55.0 24.12 17.93 40.29 5.54 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2025 4664 0.314618 TTGTGTCCATGTGCATGTGC 59.685 50.000 10.76 0.0 42.50 4.57 R
3207 6019 2.196742 ATCTAAGGGGGCATGAGTCA 57.803 50.000 0.00 0.0 0.00 3.41 R
3275 6087 5.105473 ACACGAATAAAGCTGCCTAGACTAA 60.105 40.000 0.00 0.0 0.00 2.24 R
4064 6878 0.815095 CGGTGAAAAGGTATTGGCCC 59.185 55.000 0.00 0.0 0.00 5.80 R
5404 8334 1.066303 CAGGTCGTCCTACAGATGCTC 59.934 57.143 0.00 0.0 43.07 4.26 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 52 7.119709 ACCCCTTGCATTTTATGGTAATTAC 57.880 36.000 7.09 7.09 0.00 1.89
72 73 2.303890 CCCCGTAGTCCACCTTTAAGTT 59.696 50.000 0.00 0.00 0.00 2.66
99 102 8.674607 AGGGAAATGAATCGTTATTGTAGTTTC 58.325 33.333 0.00 0.00 0.00 2.78
116 119 4.740902 AGTTTCATAGAAAACCCCTTGCT 58.259 39.130 0.00 0.00 39.46 3.91
379 397 6.444633 TCTTAATCAATAGAACGATCCGTCC 58.555 40.000 0.00 0.00 39.99 4.79
423 443 1.336440 TGGATTGCAAACGAACACCTG 59.664 47.619 1.71 0.00 0.00 4.00
468 488 6.526674 CGAAAGAAACCAATAGTAACAATGCC 59.473 38.462 0.00 0.00 0.00 4.40
493 518 7.407393 TTCATGCCTCATCAAAATATCACAA 57.593 32.000 0.00 0.00 0.00 3.33
494 519 7.407393 TCATGCCTCATCAAAATATCACAAA 57.593 32.000 0.00 0.00 0.00 2.83
495 520 7.838884 TCATGCCTCATCAAAATATCACAAAA 58.161 30.769 0.00 0.00 0.00 2.44
496 521 8.312564 TCATGCCTCATCAAAATATCACAAAAA 58.687 29.630 0.00 0.00 0.00 1.94
497 522 9.104965 CATGCCTCATCAAAATATCACAAAAAT 57.895 29.630 0.00 0.00 0.00 1.82
707 794 9.421806 CTATTGAGGTCTTCAGTCATGATTATC 57.578 37.037 0.00 0.00 37.07 1.75
719 806 6.015856 CAGTCATGATTATCGAGTTAGGGACT 60.016 42.308 0.00 0.00 46.37 3.85
721 808 7.724506 AGTCATGATTATCGAGTTAGGGACTTA 59.275 37.037 0.00 0.00 41.75 2.24
753 842 1.138069 TCTTCTGTTGCAACTCACGGA 59.862 47.619 28.61 16.98 0.00 4.69
765 854 2.919228 ACTCACGGACTCTTTTGCTTT 58.081 42.857 0.00 0.00 0.00 3.51
792 881 7.881775 TTTTAGAAGAAGGAACTCTTTTGCT 57.118 32.000 0.00 0.00 38.49 3.91
873 3501 1.134438 GGGAGGAAGAACCCAGGTGT 61.134 60.000 0.00 0.00 44.96 4.16
1344 3972 1.210931 CAATGGGTGCTCAACTGCG 59.789 57.895 0.00 0.00 35.36 5.18
1372 4000 3.899612 AGTAGGGGACTGGGATAGTAC 57.100 52.381 0.00 0.00 43.88 2.73
1376 4004 1.410648 GGGGACTGGGATAGTACGTCA 60.411 57.143 0.00 0.00 41.53 4.35
1378 4006 1.680207 GGACTGGGATAGTACGTCACC 59.320 57.143 0.00 0.00 40.53 4.02
1609 4239 3.244981 TGGGTTTGCCGTATTAGTTTCCT 60.245 43.478 0.00 0.00 34.97 3.36
1653 4284 0.395448 GAGGGGCGAGTGGTACTACT 60.395 60.000 12.22 12.22 0.00 2.57
1654 4285 0.395448 AGGGGCGAGTGGTACTACTC 60.395 60.000 25.11 25.11 42.83 2.59
1700 4331 6.925165 CCATTACTGTTTGTTCAATGCTTTCT 59.075 34.615 0.00 0.00 0.00 2.52
1708 4339 5.850557 TGTTCAATGCTTTCTGAAGGAAA 57.149 34.783 3.45 0.00 41.11 3.13
1716 4347 3.801307 TTTCTGAAGGAAAGTACCCCC 57.199 47.619 0.00 0.00 38.81 5.40
1717 4348 2.735259 TCTGAAGGAAAGTACCCCCT 57.265 50.000 0.00 0.00 0.00 4.79
1718 4349 2.547990 TCTGAAGGAAAGTACCCCCTC 58.452 52.381 0.00 0.00 0.00 4.30
1719 4350 1.207329 CTGAAGGAAAGTACCCCCTCG 59.793 57.143 0.00 0.00 0.00 4.63
1720 4351 1.273759 GAAGGAAAGTACCCCCTCGT 58.726 55.000 0.00 0.00 0.00 4.18
1721 4352 1.206610 GAAGGAAAGTACCCCCTCGTC 59.793 57.143 0.00 0.00 0.00 4.20
1722 4353 0.616964 AGGAAAGTACCCCCTCGTCC 60.617 60.000 0.00 0.00 0.00 4.79
1723 4354 1.620739 GGAAAGTACCCCCTCGTCCC 61.621 65.000 0.00 0.00 0.00 4.46
1724 4355 0.906282 GAAAGTACCCCCTCGTCCCA 60.906 60.000 0.00 0.00 0.00 4.37
1725 4356 0.253020 AAAGTACCCCCTCGTCCCAT 60.253 55.000 0.00 0.00 0.00 4.00
1726 4357 0.638292 AAGTACCCCCTCGTCCCATA 59.362 55.000 0.00 0.00 0.00 2.74
1727 4358 0.638292 AGTACCCCCTCGTCCCATAA 59.362 55.000 0.00 0.00 0.00 1.90
1728 4359 1.222298 AGTACCCCCTCGTCCCATAAT 59.778 52.381 0.00 0.00 0.00 1.28
1729 4360 1.346722 GTACCCCCTCGTCCCATAATG 59.653 57.143 0.00 0.00 0.00 1.90
1730 4361 0.327191 ACCCCCTCGTCCCATAATGT 60.327 55.000 0.00 0.00 0.00 2.71
1731 4362 1.061967 ACCCCCTCGTCCCATAATGTA 60.062 52.381 0.00 0.00 0.00 2.29
1732 4363 2.051692 CCCCCTCGTCCCATAATGTAA 58.948 52.381 0.00 0.00 0.00 2.41
1733 4364 2.038557 CCCCCTCGTCCCATAATGTAAG 59.961 54.545 0.00 0.00 0.00 2.34
1734 4365 2.969950 CCCCTCGTCCCATAATGTAAGA 59.030 50.000 0.00 0.00 0.00 2.10
1735 4366 3.244112 CCCCTCGTCCCATAATGTAAGAC 60.244 52.174 0.00 0.00 0.00 3.01
1740 4371 5.789710 CGTCCCATAATGTAAGACGTTTT 57.210 39.130 0.00 0.00 43.89 2.43
1741 4372 6.173191 CGTCCCATAATGTAAGACGTTTTT 57.827 37.500 0.00 0.00 43.89 1.94
1761 4392 5.957842 TTTTGAGTGACACATTATGGGAC 57.042 39.130 8.59 0.00 0.00 4.46
1850 4489 5.944007 GGACCTTGGAGCAACTTAAAGATTA 59.056 40.000 0.00 0.00 0.00 1.75
1854 4493 5.179452 TGGAGCAACTTAAAGATTAGCCT 57.821 39.130 0.00 0.00 0.00 4.58
1855 4494 4.943705 TGGAGCAACTTAAAGATTAGCCTG 59.056 41.667 0.00 0.00 0.00 4.85
1864 4503 7.336396 ACTTAAAGATTAGCCTGTTCGGTTAT 58.664 34.615 0.00 0.00 34.25 1.89
1870 4509 2.711542 AGCCTGTTCGGTTATTTCTGG 58.288 47.619 0.00 0.00 34.25 3.86
1924 4563 7.649705 TGATTGCTGCGTGTTTTTCTAAATTAA 59.350 29.630 0.00 0.00 0.00 1.40
1936 4575 7.770366 TTTTCTAAATTAAGTCCCCTCCAAC 57.230 36.000 0.00 0.00 0.00 3.77
1985 4624 8.507249 GCAGATCCAGCGAATTATTAAATTACT 58.493 33.333 0.00 0.00 35.41 2.24
2025 4664 3.651206 TGCTTTGCATATTGTTGTGTGG 58.349 40.909 0.00 0.00 31.71 4.17
2090 4732 1.942677 TTTTTCTCGAACGCACCTGA 58.057 45.000 0.00 0.00 0.00 3.86
2105 4747 2.489329 CACCTGAAATCACGCCTTTGAT 59.511 45.455 0.00 0.00 37.87 2.57
2167 4809 5.581126 ATTAGCATTGTACACACCAATGG 57.419 39.130 13.25 0.00 45.89 3.16
2182 4993 1.281925 AATGGCGAGGGGTGGAAGAT 61.282 55.000 0.00 0.00 0.00 2.40
2273 5084 3.887621 TTACATGTGGTACTCCTCTGC 57.112 47.619 9.11 0.00 34.23 4.26
2303 5114 1.018910 ACACACTACGTTTTGGGCAC 58.981 50.000 0.00 0.00 0.00 5.01
2309 5120 2.944409 TACGTTTTGGGCACGCTGGT 62.944 55.000 0.00 0.00 41.53 4.00
2514 5326 2.481952 GCATGCCTTCTCGATATTGACC 59.518 50.000 6.36 0.00 0.00 4.02
2738 5550 6.016276 CCATGCTATAACCATTGTTCCCTAAC 60.016 42.308 0.00 0.00 35.87 2.34
2876 5688 1.656441 CAACAGCAGCCAGTGTTCC 59.344 57.895 0.00 0.00 34.62 3.62
2921 5733 6.012858 TCAGTGGGTCTTTATGGTGTAGATTT 60.013 38.462 0.00 0.00 0.00 2.17
3005 5817 9.547753 TGGCTTTCTTATCAAGTAGTTATCATC 57.452 33.333 0.00 0.00 0.00 2.92
3182 5994 1.865788 CTTTGTCCGGCCCACATGTG 61.866 60.000 19.31 19.31 0.00 3.21
3201 6013 7.375808 CACATGTGTGTATGTTGTTACTTTGAC 59.624 37.037 18.03 0.00 39.17 3.18
3207 6019 7.083858 GTGTATGTTGTTACTTTGACATGCAT 58.916 34.615 8.81 0.00 43.45 3.96
3275 6087 2.028748 GGGTGAAATTGCAGCACTGATT 60.029 45.455 17.29 0.00 37.99 2.57
3306 6118 2.995939 CAGCTTTATTCGTGTGCTCAGA 59.004 45.455 0.00 0.00 0.00 3.27
3441 6253 9.263446 ACAGTCCTATACTCCTATTACAAAACA 57.737 33.333 0.00 0.00 35.76 2.83
3578 6392 5.009010 CACTAACTGTTGCTTGACCTTGATT 59.991 40.000 2.69 0.00 0.00 2.57
3772 6586 1.071605 GTGCCTTCATCGATATCGGC 58.928 55.000 24.12 17.93 40.29 5.54
3960 6774 9.991906 TGTTATTAGGTTATGATACTAAGCCAC 57.008 33.333 0.00 0.00 31.02 5.01
4011 6825 2.378038 ACAAAGAAGCTTGAGCCAACA 58.622 42.857 2.10 0.00 43.38 3.33
4064 6878 7.170828 GCTGGTTTTTGAAAAGGTAAGTAATGG 59.829 37.037 0.00 0.00 0.00 3.16
4067 6881 5.731957 TTTGAAAAGGTAAGTAATGGGGC 57.268 39.130 0.00 0.00 0.00 5.80
4083 6897 0.815095 GGGCCAATACCTTTTCACCG 59.185 55.000 4.39 0.00 0.00 4.94
4093 6907 4.295141 ACCTTTTCACCGGAATATGTCA 57.705 40.909 9.46 0.00 31.93 3.58
4219 7033 2.285220 CGACATGTTAAGATTCCAGCCG 59.715 50.000 0.00 0.00 0.00 5.52
4248 7062 3.678072 CCGCTATAACCATTATGTGACGG 59.322 47.826 0.00 0.00 0.00 4.79
4251 7065 5.475719 GCTATAACCATTATGTGACGGCTA 58.524 41.667 0.00 0.00 0.00 3.93
4510 7324 3.811722 GTGAATGCACGATGAAGACAA 57.188 42.857 0.00 0.00 34.94 3.18
4511 7325 4.346734 GTGAATGCACGATGAAGACAAT 57.653 40.909 0.00 0.00 34.94 2.71
4550 7375 2.200373 ATTTCCCCTCGTCAACTTGG 57.800 50.000 0.00 0.00 0.00 3.61
4551 7376 0.536460 TTTCCCCTCGTCAACTTGGC 60.536 55.000 0.00 0.00 0.00 4.52
4679 7504 0.314302 GCGTGTACAGTCAGTCACCT 59.686 55.000 0.00 0.00 0.00 4.00
4748 7573 4.406069 CATTAACAGCACATTGTCTTCCG 58.594 43.478 0.00 0.00 0.00 4.30
4750 7575 2.479566 ACAGCACATTGTCTTCCGAT 57.520 45.000 0.00 0.00 0.00 4.18
4752 7577 4.142609 ACAGCACATTGTCTTCCGATAT 57.857 40.909 0.00 0.00 0.00 1.63
4753 7578 5.276461 ACAGCACATTGTCTTCCGATATA 57.724 39.130 0.00 0.00 0.00 0.86
4754 7579 5.050490 ACAGCACATTGTCTTCCGATATAC 58.950 41.667 0.00 0.00 0.00 1.47
4755 7580 5.163405 ACAGCACATTGTCTTCCGATATACT 60.163 40.000 0.00 0.00 0.00 2.12
4756 7581 5.403766 CAGCACATTGTCTTCCGATATACTC 59.596 44.000 0.00 0.00 0.00 2.59
4757 7582 4.686554 GCACATTGTCTTCCGATATACTCC 59.313 45.833 0.00 0.00 0.00 3.85
4758 7583 5.230942 CACATTGTCTTCCGATATACTCCC 58.769 45.833 0.00 0.00 0.00 4.30
4759 7584 5.011125 CACATTGTCTTCCGATATACTCCCT 59.989 44.000 0.00 0.00 0.00 4.20
4760 7585 5.244178 ACATTGTCTTCCGATATACTCCCTC 59.756 44.000 0.00 0.00 0.00 4.30
4761 7586 3.764218 TGTCTTCCGATATACTCCCTCC 58.236 50.000 0.00 0.00 0.00 4.30
4762 7587 2.748532 GTCTTCCGATATACTCCCTCCG 59.251 54.545 0.00 0.00 0.00 4.63
4763 7588 2.374504 TCTTCCGATATACTCCCTCCGT 59.625 50.000 0.00 0.00 0.00 4.69
4764 7589 2.965671 TCCGATATACTCCCTCCGTT 57.034 50.000 0.00 0.00 0.00 4.44
4765 7590 2.787994 TCCGATATACTCCCTCCGTTC 58.212 52.381 0.00 0.00 0.00 3.95
4766 7591 1.817447 CCGATATACTCCCTCCGTTCC 59.183 57.143 0.00 0.00 0.00 3.62
4767 7592 2.554785 CCGATATACTCCCTCCGTTCCT 60.555 54.545 0.00 0.00 0.00 3.36
4768 7593 3.307975 CCGATATACTCCCTCCGTTCCTA 60.308 52.174 0.00 0.00 0.00 2.94
4769 7594 4.330250 CGATATACTCCCTCCGTTCCTAA 58.670 47.826 0.00 0.00 0.00 2.69
4770 7595 4.763793 CGATATACTCCCTCCGTTCCTAAA 59.236 45.833 0.00 0.00 0.00 1.85
4771 7596 5.418209 CGATATACTCCCTCCGTTCCTAAAT 59.582 44.000 0.00 0.00 0.00 1.40
4772 7597 6.600822 CGATATACTCCCTCCGTTCCTAAATA 59.399 42.308 0.00 0.00 0.00 1.40
4773 7598 7.284944 CGATATACTCCCTCCGTTCCTAAATAT 59.715 40.741 0.00 0.00 0.00 1.28
4774 7599 8.912614 ATATACTCCCTCCGTTCCTAAATATT 57.087 34.615 0.00 0.00 0.00 1.28
4775 7600 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
4776 7601 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
4777 7602 4.457466 TCCCTCCGTTCCTAAATATTTGC 58.543 43.478 11.05 0.00 0.00 3.68
4778 7603 3.568430 CCCTCCGTTCCTAAATATTTGCC 59.432 47.826 11.05 0.00 0.00 4.52
4779 7604 4.461198 CCTCCGTTCCTAAATATTTGCCT 58.539 43.478 11.05 0.00 0.00 4.75
4780 7605 4.887655 CCTCCGTTCCTAAATATTTGCCTT 59.112 41.667 11.05 0.00 0.00 4.35
4781 7606 5.359860 CCTCCGTTCCTAAATATTTGCCTTT 59.640 40.000 11.05 0.00 0.00 3.11
4782 7607 6.127451 CCTCCGTTCCTAAATATTTGCCTTTT 60.127 38.462 11.05 0.00 0.00 2.27
4783 7608 7.234661 TCCGTTCCTAAATATTTGCCTTTTT 57.765 32.000 11.05 0.00 0.00 1.94
4784 7609 8.350852 TCCGTTCCTAAATATTTGCCTTTTTA 57.649 30.769 11.05 0.00 0.00 1.52
4785 7610 8.463607 TCCGTTCCTAAATATTTGCCTTTTTAG 58.536 33.333 11.05 0.00 33.47 1.85
4786 7611 8.463607 CCGTTCCTAAATATTTGCCTTTTTAGA 58.536 33.333 11.05 0.00 34.90 2.10
4787 7612 9.503427 CGTTCCTAAATATTTGCCTTTTTAGAG 57.497 33.333 11.05 0.00 34.90 2.43
4798 7623 8.647143 TTTGCCTTTTTAGAGATTTCAACAAG 57.353 30.769 0.00 0.00 0.00 3.16
4799 7624 7.346751 TGCCTTTTTAGAGATTTCAACAAGT 57.653 32.000 0.00 0.00 0.00 3.16
4800 7625 7.202526 TGCCTTTTTAGAGATTTCAACAAGTG 58.797 34.615 0.00 0.00 0.00 3.16
4801 7626 7.068103 TGCCTTTTTAGAGATTTCAACAAGTGA 59.932 33.333 0.00 0.00 0.00 3.41
4802 7627 7.379797 GCCTTTTTAGAGATTTCAACAAGTGAC 59.620 37.037 0.00 0.00 35.39 3.67
4803 7628 8.624776 CCTTTTTAGAGATTTCAACAAGTGACT 58.375 33.333 0.00 0.00 35.39 3.41
4806 7631 9.607988 TTTTAGAGATTTCAACAAGTGACTACA 57.392 29.630 0.00 0.00 35.39 2.74
4807 7632 9.778741 TTTAGAGATTTCAACAAGTGACTACAT 57.221 29.630 0.00 0.00 35.39 2.29
4810 7635 9.376075 AGAGATTTCAACAAGTGACTACATATG 57.624 33.333 0.00 0.00 35.39 1.78
4811 7636 8.498054 AGATTTCAACAAGTGACTACATATGG 57.502 34.615 7.80 0.00 35.39 2.74
4812 7637 8.321353 AGATTTCAACAAGTGACTACATATGGA 58.679 33.333 7.80 0.00 35.39 3.41
4813 7638 7.905604 TTTCAACAAGTGACTACATATGGAG 57.094 36.000 13.77 13.77 35.39 3.86
4814 7639 5.419542 TCAACAAGTGACTACATATGGAGC 58.580 41.667 15.30 8.47 0.00 4.70
4815 7640 5.046663 TCAACAAGTGACTACATATGGAGCA 60.047 40.000 15.30 10.95 0.00 4.26
4816 7641 5.420725 ACAAGTGACTACATATGGAGCAA 57.579 39.130 15.30 0.16 0.00 3.91
4817 7642 5.804639 ACAAGTGACTACATATGGAGCAAA 58.195 37.500 15.30 0.00 0.00 3.68
4818 7643 6.237901 ACAAGTGACTACATATGGAGCAAAA 58.762 36.000 15.30 0.00 0.00 2.44
4819 7644 6.886459 ACAAGTGACTACATATGGAGCAAAAT 59.114 34.615 15.30 0.00 0.00 1.82
4820 7645 6.932356 AGTGACTACATATGGAGCAAAATG 57.068 37.500 15.30 0.00 0.00 2.32
4821 7646 6.653020 AGTGACTACATATGGAGCAAAATGA 58.347 36.000 15.30 0.00 0.00 2.57
4822 7647 6.765036 AGTGACTACATATGGAGCAAAATGAG 59.235 38.462 15.30 0.00 0.00 2.90
4823 7648 6.540189 GTGACTACATATGGAGCAAAATGAGT 59.460 38.462 15.30 0.00 0.00 3.41
4824 7649 6.539826 TGACTACATATGGAGCAAAATGAGTG 59.460 38.462 15.30 0.00 0.00 3.51
4825 7650 6.653020 ACTACATATGGAGCAAAATGAGTGA 58.347 36.000 15.30 0.00 0.00 3.41
4826 7651 7.112122 ACTACATATGGAGCAAAATGAGTGAA 58.888 34.615 15.30 0.00 0.00 3.18
4827 7652 7.776969 ACTACATATGGAGCAAAATGAGTGAAT 59.223 33.333 15.30 0.00 0.00 2.57
4828 7653 7.035840 ACATATGGAGCAAAATGAGTGAATC 57.964 36.000 7.80 0.00 0.00 2.52
4829 7654 6.832384 ACATATGGAGCAAAATGAGTGAATCT 59.168 34.615 7.80 0.00 0.00 2.40
4830 7655 7.994911 ACATATGGAGCAAAATGAGTGAATCTA 59.005 33.333 7.80 0.00 0.00 1.98
4831 7656 6.690194 ATGGAGCAAAATGAGTGAATCTAC 57.310 37.500 0.00 0.00 0.00 2.59
4832 7657 5.559770 TGGAGCAAAATGAGTGAATCTACA 58.440 37.500 0.00 0.00 0.00 2.74
4833 7658 5.412594 TGGAGCAAAATGAGTGAATCTACAC 59.587 40.000 0.00 0.00 40.60 2.90
4869 7694 9.081204 TGTTTATATACATCCGTATGTGGTAGT 57.919 33.333 3.56 0.00 45.99 2.73
4870 7695 9.918630 GTTTATATACATCCGTATGTGGTAGTT 57.081 33.333 3.56 0.00 45.99 2.24
4872 7697 7.770366 ATATACATCCGTATGTGGTAGTTCA 57.230 36.000 3.56 0.00 45.99 3.18
4873 7698 6.665992 ATACATCCGTATGTGGTAGTTCAT 57.334 37.500 3.56 0.00 45.99 2.57
4874 7699 5.353394 ACATCCGTATGTGGTAGTTCATT 57.647 39.130 0.00 0.00 44.79 2.57
4875 7700 5.741011 ACATCCGTATGTGGTAGTTCATTT 58.259 37.500 0.00 0.00 44.79 2.32
4876 7701 5.584649 ACATCCGTATGTGGTAGTTCATTTG 59.415 40.000 0.00 0.00 44.79 2.32
4877 7702 5.408880 TCCGTATGTGGTAGTTCATTTGA 57.591 39.130 0.00 0.00 0.00 2.69
4878 7703 5.984725 TCCGTATGTGGTAGTTCATTTGAT 58.015 37.500 0.00 0.00 0.00 2.57
4879 7704 7.114866 TCCGTATGTGGTAGTTCATTTGATA 57.885 36.000 0.00 0.00 0.00 2.15
4880 7705 7.732025 TCCGTATGTGGTAGTTCATTTGATAT 58.268 34.615 0.00 0.00 0.00 1.63
4881 7706 7.870954 TCCGTATGTGGTAGTTCATTTGATATC 59.129 37.037 0.00 0.00 0.00 1.63
4882 7707 7.872993 CCGTATGTGGTAGTTCATTTGATATCT 59.127 37.037 3.98 0.00 0.00 1.98
4883 7708 8.916654 CGTATGTGGTAGTTCATTTGATATCTC 58.083 37.037 3.98 0.00 0.00 2.75
4884 7709 9.988815 GTATGTGGTAGTTCATTTGATATCTCT 57.011 33.333 3.98 0.00 0.00 3.10
4912 7737 8.581253 AAAGACAAATATTTAGGAACTGAGGG 57.419 34.615 0.00 0.00 41.52 4.30
4913 7738 7.510675 AGACAAATATTTAGGAACTGAGGGA 57.489 36.000 0.00 0.00 41.52 4.20
4914 7739 7.569240 AGACAAATATTTAGGAACTGAGGGAG 58.431 38.462 0.00 0.00 41.52 4.30
4986 7811 4.133078 AGTGCCAGAAAGAAACAAGAGAG 58.867 43.478 0.00 0.00 0.00 3.20
5097 7922 4.201990 CCACAGGAAGAGCTATTGAAATGC 60.202 45.833 0.00 0.00 0.00 3.56
5404 8334 5.163591 TGCTGATTGCTGAACCATCTAATTG 60.164 40.000 0.00 0.00 43.37 2.32
5418 8348 5.931146 CCATCTAATTGAGCATCTGTAGGAC 59.069 44.000 0.00 0.00 34.92 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 6.106003 CCATAAAATGCAAGGGGTTTTCTAC 58.894 40.000 0.00 0.00 0.00 2.59
51 52 1.904537 ACTTAAAGGTGGACTACGGGG 59.095 52.381 0.00 0.00 0.00 5.73
72 73 9.675464 AAACTACAATAACGATTCATTTCCCTA 57.325 29.630 0.00 0.00 0.00 3.53
99 102 4.080638 AGAGAGAGCAAGGGGTTTTCTATG 60.081 45.833 0.00 0.00 0.00 2.23
116 119 7.994911 TGTACTACGGGTTAATTATCAGAGAGA 59.005 37.037 0.00 0.00 0.00 3.10
235 251 6.702716 TGTTAAAGTTGGAGTTAGGGTTTG 57.297 37.500 0.00 0.00 0.00 2.93
402 422 2.028130 AGGTGTTCGTTTGCAATCCAA 58.972 42.857 0.00 0.00 0.00 3.53
423 443 9.887406 TCTTTCGTCTTTAATATGGTTTTGTTC 57.113 29.630 0.00 0.00 0.00 3.18
468 488 7.034685 TGTGATATTTTGATGAGGCATGAAG 57.965 36.000 0.00 0.00 0.00 3.02
504 529 9.934190 GCAATTTGTTTTTGTTGTGAGATATTT 57.066 25.926 0.00 0.00 0.00 1.40
505 530 9.328845 AGCAATTTGTTTTTGTTGTGAGATATT 57.671 25.926 0.00 0.00 0.00 1.28
506 531 8.891671 AGCAATTTGTTTTTGTTGTGAGATAT 57.108 26.923 0.00 0.00 0.00 1.63
507 532 7.978414 TGAGCAATTTGTTTTTGTTGTGAGATA 59.022 29.630 0.00 0.00 0.00 1.98
508 533 6.817641 TGAGCAATTTGTTTTTGTTGTGAGAT 59.182 30.769 0.00 0.00 0.00 2.75
509 534 6.162079 TGAGCAATTTGTTTTTGTTGTGAGA 58.838 32.000 0.00 0.00 0.00 3.27
510 535 6.406093 TGAGCAATTTGTTTTTGTTGTGAG 57.594 33.333 0.00 0.00 0.00 3.51
511 536 6.981762 ATGAGCAATTTGTTTTTGTTGTGA 57.018 29.167 0.00 0.00 0.00 3.58
512 537 9.160576 CAATATGAGCAATTTGTTTTTGTTGTG 57.839 29.630 0.00 0.00 0.00 3.33
513 538 8.891720 ACAATATGAGCAATTTGTTTTTGTTGT 58.108 25.926 0.00 2.92 0.00 3.32
514 539 9.160576 CACAATATGAGCAATTTGTTTTTGTTG 57.839 29.630 0.00 2.39 30.23 3.33
517 542 6.797995 GGCACAATATGAGCAATTTGTTTTTG 59.202 34.615 2.41 0.00 35.63 2.44
736 823 0.464036 AGTCCGTGAGTTGCAACAGA 59.536 50.000 30.11 13.95 0.00 3.41
772 861 5.994668 CACTAGCAAAAGAGTTCCTTCTTCT 59.005 40.000 0.00 0.00 36.42 2.85
773 862 5.760743 ACACTAGCAAAAGAGTTCCTTCTTC 59.239 40.000 0.00 0.00 36.42 2.87
775 864 5.297569 ACACTAGCAAAAGAGTTCCTTCT 57.702 39.130 0.00 0.00 33.02 2.85
776 865 8.950208 ATATACACTAGCAAAAGAGTTCCTTC 57.050 34.615 0.00 0.00 33.02 3.46
852 3480 1.918800 CCTGGGTTCTTCCTCCCGT 60.919 63.158 0.00 0.00 46.13 5.28
873 3501 2.838225 GGCCGCTAGACTGGGCTA 60.838 66.667 13.28 0.00 46.62 3.93
1287 3915 0.667487 CGAGCGAGCAGGAACAAGAA 60.667 55.000 0.00 0.00 0.00 2.52
1344 3972 2.161030 CCAGTCCCCTACTAGCGATAC 58.839 57.143 0.00 0.00 35.76 2.24
1372 4000 5.276868 GCAACTATAAGCAATACAGGTGACG 60.277 44.000 0.00 0.00 0.00 4.35
1376 4004 9.712305 CTATAAGCAACTATAAGCAATACAGGT 57.288 33.333 0.00 0.00 0.00 4.00
1417 4047 5.993106 AAACTTATGAGCGATCTAAAGCC 57.007 39.130 13.21 0.00 0.00 4.35
1549 4179 2.877043 TTCTATTCGAACCTACGGGC 57.123 50.000 0.00 0.00 35.63 6.13
1653 4284 4.142447 GGTGCTGTCGTTCTAGATTACAGA 60.142 45.833 23.53 12.14 39.93 3.41
1654 4285 4.106197 GGTGCTGTCGTTCTAGATTACAG 58.894 47.826 18.46 18.46 40.38 2.74
1700 4331 1.272807 CGAGGGGGTACTTTCCTTCA 58.727 55.000 10.96 0.00 0.00 3.02
1708 4339 0.638292 TTATGGGACGAGGGGGTACT 59.362 55.000 0.00 0.00 0.00 2.73
1709 4340 1.346722 CATTATGGGACGAGGGGGTAC 59.653 57.143 0.00 0.00 0.00 3.34
1710 4341 1.061967 ACATTATGGGACGAGGGGGTA 60.062 52.381 0.00 0.00 0.00 3.69
1711 4342 0.327191 ACATTATGGGACGAGGGGGT 60.327 55.000 0.00 0.00 0.00 4.95
1712 4343 1.724545 TACATTATGGGACGAGGGGG 58.275 55.000 0.00 0.00 0.00 5.40
1713 4344 2.969950 TCTTACATTATGGGACGAGGGG 59.030 50.000 0.00 0.00 0.00 4.79
1714 4345 3.991367 GTCTTACATTATGGGACGAGGG 58.009 50.000 0.00 0.00 0.00 4.30
1738 4369 5.830457 TGTCCCATAATGTGTCACTCAAAAA 59.170 36.000 4.27 0.00 0.00 1.94
1739 4370 5.380900 TGTCCCATAATGTGTCACTCAAAA 58.619 37.500 4.27 0.00 0.00 2.44
1740 4371 4.979335 TGTCCCATAATGTGTCACTCAAA 58.021 39.130 4.27 0.00 0.00 2.69
1741 4372 4.285775 TCTGTCCCATAATGTGTCACTCAA 59.714 41.667 4.27 0.00 0.00 3.02
1742 4373 3.837731 TCTGTCCCATAATGTGTCACTCA 59.162 43.478 4.27 0.00 0.00 3.41
1743 4374 4.437239 CTCTGTCCCATAATGTGTCACTC 58.563 47.826 4.27 0.00 0.00 3.51
1744 4375 3.198635 CCTCTGTCCCATAATGTGTCACT 59.801 47.826 4.27 0.00 0.00 3.41
1745 4376 3.535561 CCTCTGTCCCATAATGTGTCAC 58.464 50.000 0.00 0.00 0.00 3.67
1746 4377 2.505407 CCCTCTGTCCCATAATGTGTCA 59.495 50.000 0.00 0.00 0.00 3.58
1747 4378 2.771943 TCCCTCTGTCCCATAATGTGTC 59.228 50.000 0.00 0.00 0.00 3.67
1748 4379 2.774234 CTCCCTCTGTCCCATAATGTGT 59.226 50.000 0.00 0.00 0.00 3.72
1749 4380 2.774234 ACTCCCTCTGTCCCATAATGTG 59.226 50.000 0.00 0.00 0.00 3.21
1750 4381 3.136641 ACTCCCTCTGTCCCATAATGT 57.863 47.619 0.00 0.00 0.00 2.71
1751 4382 5.832539 ATTACTCCCTCTGTCCCATAATG 57.167 43.478 0.00 0.00 0.00 1.90
1752 4383 7.474936 GCTTTATTACTCCCTCTGTCCCATAAT 60.475 40.741 0.00 0.00 0.00 1.28
1753 4384 6.183361 GCTTTATTACTCCCTCTGTCCCATAA 60.183 42.308 0.00 0.00 0.00 1.90
1754 4385 5.307196 GCTTTATTACTCCCTCTGTCCCATA 59.693 44.000 0.00 0.00 0.00 2.74
1755 4386 4.103311 GCTTTATTACTCCCTCTGTCCCAT 59.897 45.833 0.00 0.00 0.00 4.00
1756 4387 3.454812 GCTTTATTACTCCCTCTGTCCCA 59.545 47.826 0.00 0.00 0.00 4.37
1757 4388 3.712218 AGCTTTATTACTCCCTCTGTCCC 59.288 47.826 0.00 0.00 0.00 4.46
1758 4389 6.673839 ATAGCTTTATTACTCCCTCTGTCC 57.326 41.667 0.00 0.00 0.00 4.02
1759 4390 9.863845 GAATATAGCTTTATTACTCCCTCTGTC 57.136 37.037 9.11 0.00 0.00 3.51
1760 4391 9.608718 AGAATATAGCTTTATTACTCCCTCTGT 57.391 33.333 9.11 0.00 0.00 3.41
1850 4489 2.039879 ACCAGAAATAACCGAACAGGCT 59.960 45.455 0.00 0.00 46.52 4.58
1854 4493 4.202274 TGTCAGACCAGAAATAACCGAACA 60.202 41.667 0.00 0.00 0.00 3.18
1855 4494 4.151867 GTGTCAGACCAGAAATAACCGAAC 59.848 45.833 0.00 0.00 0.00 3.95
1864 4503 6.353323 TGAAAGTATTGTGTCAGACCAGAAA 58.647 36.000 0.00 0.00 0.00 2.52
1870 4509 5.237344 AGTTGCTGAAAGTATTGTGTCAGAC 59.763 40.000 3.78 0.00 39.94 3.51
1936 4575 8.893219 TGCTTAATTCAATATCACAGACCTAG 57.107 34.615 0.00 0.00 0.00 3.02
1985 4624 5.468540 AGCAGACTGTTCACTGTAATACA 57.531 39.130 3.99 0.00 36.62 2.29
2025 4664 0.314618 TTGTGTCCATGTGCATGTGC 59.685 50.000 10.76 0.00 42.50 4.57
2076 4716 1.126846 GTGATTTCAGGTGCGTTCGAG 59.873 52.381 0.00 0.00 0.00 4.04
2085 4727 2.270352 TCAAAGGCGTGATTTCAGGT 57.730 45.000 2.61 0.00 34.50 4.00
2105 4747 4.852650 GCGCGTATTTAGCACCTTTTTAAA 59.147 37.500 8.43 0.00 34.19 1.52
2120 4762 0.947180 ACTGGTCGTTTGCGCGTATT 60.947 50.000 8.43 0.00 38.14 1.89
2167 4809 1.144936 CAGATCTTCCACCCCTCGC 59.855 63.158 0.00 0.00 0.00 5.03
2221 5032 9.289782 GGAGATAATAATAGAATTGTTGGCACT 57.710 33.333 0.00 0.00 0.00 4.40
2267 5078 2.553602 TGTGTTGCACAAATAGCAGAGG 59.446 45.455 0.00 0.00 41.69 3.69
2514 5326 2.170187 GGATGCCTGCCTCCTCTATATG 59.830 54.545 6.24 0.00 0.00 1.78
2738 5550 5.962433 TCTACAGGAGAAGTTATTCAACGG 58.038 41.667 0.00 0.00 39.78 4.44
2870 5682 7.875971 ACTGACATTCATTTTCTAAGGAACAC 58.124 34.615 0.00 0.00 36.94 3.32
2876 5688 8.019669 CCACTGAACTGACATTCATTTTCTAAG 58.980 37.037 0.00 0.00 37.93 2.18
3005 5817 8.385111 GCAAAATCATTACAATCCAATGAACAG 58.615 33.333 2.21 0.00 43.58 3.16
3182 5994 6.434596 TGCATGTCAAAGTAACAACATACAC 58.565 36.000 0.00 0.00 31.40 2.90
3207 6019 2.196742 ATCTAAGGGGGCATGAGTCA 57.803 50.000 0.00 0.00 0.00 3.41
3275 6087 5.105473 ACACGAATAAAGCTGCCTAGACTAA 60.105 40.000 0.00 0.00 0.00 2.24
3441 6253 9.200817 AGCAACAAAACCATAGGATATAACAAT 57.799 29.630 0.00 0.00 0.00 2.71
3760 6574 2.278026 TGATTCCGCCGATATCGATG 57.722 50.000 26.32 16.63 43.02 3.84
3772 6586 2.358957 TGCAGAAGTCCATTGATTCCG 58.641 47.619 0.00 0.00 0.00 4.30
4011 6825 3.596214 GTTACGAATCATGTCACCAGGT 58.404 45.455 0.00 0.00 0.00 4.00
4064 6878 0.815095 CGGTGAAAAGGTATTGGCCC 59.185 55.000 0.00 0.00 0.00 5.80
4067 6881 5.592688 ACATATTCCGGTGAAAAGGTATTGG 59.407 40.000 0.00 0.00 33.32 3.16
4083 6897 8.391106 GTCAGTTTGTCTGTTATGACATATTCC 58.609 37.037 0.00 0.00 45.03 3.01
4093 6907 6.769512 ACCAGTATGTCAGTTTGTCTGTTAT 58.230 36.000 0.00 0.00 43.97 1.89
4112 6926 5.891551 CCTAATTTGGGCATAGTAAACCAGT 59.108 40.000 0.00 0.00 33.96 4.00
4219 7033 5.046807 ACATAATGGTTATAGCGGTACCTCC 60.047 44.000 10.90 0.44 33.05 4.30
4248 7062 1.927210 CATCACGTCGGTGCATAGC 59.073 57.895 0.00 0.00 44.03 2.97
4251 7065 2.047370 TGCATCACGTCGGTGCAT 60.047 55.556 18.01 0.00 43.30 3.96
4259 7073 1.070175 GTTGCGTAAACTGCATCACGT 60.070 47.619 10.05 0.00 42.84 4.49
4304 7118 8.017946 GGAAGACAGACAAATTATTTCAGTCAC 58.982 37.037 9.70 2.87 0.00 3.67
4406 7220 1.003051 TGGGTAGCCCTTCCTCCTC 59.997 63.158 8.85 0.00 45.70 3.71
4473 7287 6.040278 TGCATTCACAAAAAGATGAACTACCA 59.960 34.615 0.00 0.00 37.64 3.25
4480 7294 4.827304 TCGTGCATTCACAAAAAGATGA 57.173 36.364 0.00 0.00 43.28 2.92
4550 7375 6.683974 ACTTCATACACAATGATACAAGGC 57.316 37.500 0.00 0.00 44.13 4.35
4647 7472 1.529865 GTACACGCACACCCTTTTCTC 59.470 52.381 0.00 0.00 0.00 2.87
4679 7504 1.618343 GCTTAAGCCAGCCCTTTTTGA 59.382 47.619 17.00 0.00 33.21 2.69
4748 7573 6.854091 ATTTAGGAACGGAGGGAGTATATC 57.146 41.667 0.00 0.00 0.00 1.63
4750 7575 8.591072 CAAATATTTAGGAACGGAGGGAGTATA 58.409 37.037 0.00 0.00 0.00 1.47
4752 7577 6.687139 GCAAATATTTAGGAACGGAGGGAGTA 60.687 42.308 0.00 0.00 0.00 2.59
4753 7578 5.681639 CAAATATTTAGGAACGGAGGGAGT 58.318 41.667 0.00 0.00 0.00 3.85
4754 7579 4.515567 GCAAATATTTAGGAACGGAGGGAG 59.484 45.833 0.00 0.00 0.00 4.30
4755 7580 4.457466 GCAAATATTTAGGAACGGAGGGA 58.543 43.478 0.00 0.00 0.00 4.20
4756 7581 3.568430 GGCAAATATTTAGGAACGGAGGG 59.432 47.826 0.00 0.00 0.00 4.30
4757 7582 4.461198 AGGCAAATATTTAGGAACGGAGG 58.539 43.478 0.00 0.00 0.00 4.30
4758 7583 6.451064 AAAGGCAAATATTTAGGAACGGAG 57.549 37.500 0.00 0.00 0.00 4.63
4759 7584 6.844097 AAAAGGCAAATATTTAGGAACGGA 57.156 33.333 0.00 0.00 0.00 4.69
4760 7585 8.463607 TCTAAAAAGGCAAATATTTAGGAACGG 58.536 33.333 0.00 0.00 36.48 4.44
4761 7586 9.503427 CTCTAAAAAGGCAAATATTTAGGAACG 57.497 33.333 0.00 0.00 36.48 3.95
4772 7597 9.264719 CTTGTTGAAATCTCTAAAAAGGCAAAT 57.735 29.630 0.00 0.00 0.00 2.32
4773 7598 8.257306 ACTTGTTGAAATCTCTAAAAAGGCAAA 58.743 29.630 0.00 0.00 0.00 3.68
4774 7599 7.706179 CACTTGTTGAAATCTCTAAAAAGGCAA 59.294 33.333 0.00 0.00 0.00 4.52
4775 7600 7.068103 TCACTTGTTGAAATCTCTAAAAAGGCA 59.932 33.333 0.00 0.00 0.00 4.75
4776 7601 7.379797 GTCACTTGTTGAAATCTCTAAAAAGGC 59.620 37.037 0.00 0.00 35.39 4.35
4777 7602 8.624776 AGTCACTTGTTGAAATCTCTAAAAAGG 58.375 33.333 0.00 0.00 35.39 3.11
4780 7605 9.607988 TGTAGTCACTTGTTGAAATCTCTAAAA 57.392 29.630 0.00 0.00 35.39 1.52
4781 7606 9.778741 ATGTAGTCACTTGTTGAAATCTCTAAA 57.221 29.630 0.00 0.00 35.39 1.85
4784 7609 9.376075 CATATGTAGTCACTTGTTGAAATCTCT 57.624 33.333 0.00 0.00 35.39 3.10
4785 7610 8.607459 CCATATGTAGTCACTTGTTGAAATCTC 58.393 37.037 1.24 0.00 35.39 2.75
4786 7611 8.321353 TCCATATGTAGTCACTTGTTGAAATCT 58.679 33.333 1.24 0.00 35.39 2.40
4787 7612 8.492673 TCCATATGTAGTCACTTGTTGAAATC 57.507 34.615 1.24 0.00 35.39 2.17
4788 7613 7.066284 GCTCCATATGTAGTCACTTGTTGAAAT 59.934 37.037 1.24 0.00 35.39 2.17
4789 7614 6.371548 GCTCCATATGTAGTCACTTGTTGAAA 59.628 38.462 1.24 0.00 35.39 2.69
4790 7615 5.874810 GCTCCATATGTAGTCACTTGTTGAA 59.125 40.000 1.24 0.00 35.39 2.69
4791 7616 5.046663 TGCTCCATATGTAGTCACTTGTTGA 60.047 40.000 1.24 0.00 0.00 3.18
4792 7617 5.178061 TGCTCCATATGTAGTCACTTGTTG 58.822 41.667 1.24 0.00 0.00 3.33
4793 7618 5.420725 TGCTCCATATGTAGTCACTTGTT 57.579 39.130 1.24 0.00 0.00 2.83
4794 7619 5.420725 TTGCTCCATATGTAGTCACTTGT 57.579 39.130 1.24 0.00 0.00 3.16
4795 7620 6.741992 TTTTGCTCCATATGTAGTCACTTG 57.258 37.500 1.24 0.00 0.00 3.16
4796 7621 7.112122 TCATTTTGCTCCATATGTAGTCACTT 58.888 34.615 1.24 0.00 0.00 3.16
4797 7622 6.653020 TCATTTTGCTCCATATGTAGTCACT 58.347 36.000 1.24 0.00 0.00 3.41
4798 7623 6.540189 ACTCATTTTGCTCCATATGTAGTCAC 59.460 38.462 1.24 0.00 0.00 3.67
4799 7624 6.539826 CACTCATTTTGCTCCATATGTAGTCA 59.460 38.462 1.24 0.00 0.00 3.41
4800 7625 6.763135 TCACTCATTTTGCTCCATATGTAGTC 59.237 38.462 1.24 0.00 0.00 2.59
4801 7626 6.653020 TCACTCATTTTGCTCCATATGTAGT 58.347 36.000 1.24 0.00 0.00 2.73
4802 7627 7.558161 TTCACTCATTTTGCTCCATATGTAG 57.442 36.000 1.24 0.00 0.00 2.74
4803 7628 7.994911 AGATTCACTCATTTTGCTCCATATGTA 59.005 33.333 1.24 0.00 0.00 2.29
4804 7629 6.832384 AGATTCACTCATTTTGCTCCATATGT 59.168 34.615 1.24 0.00 0.00 2.29
4805 7630 7.273320 AGATTCACTCATTTTGCTCCATATG 57.727 36.000 0.00 0.00 0.00 1.78
4806 7631 7.994911 TGTAGATTCACTCATTTTGCTCCATAT 59.005 33.333 0.00 0.00 0.00 1.78
4807 7632 7.280876 GTGTAGATTCACTCATTTTGCTCCATA 59.719 37.037 0.00 0.00 35.68 2.74
4808 7633 6.094603 GTGTAGATTCACTCATTTTGCTCCAT 59.905 38.462 0.00 0.00 35.68 3.41
4809 7634 5.412594 GTGTAGATTCACTCATTTTGCTCCA 59.587 40.000 0.00 0.00 35.68 3.86
4810 7635 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
4811 7636 6.734104 AGTGTAGATTCACTCATTTTGCTC 57.266 37.500 0.00 0.00 44.07 4.26
4843 7668 9.081204 ACTACCACATACGGATGTATATAAACA 57.919 33.333 14.23 0.00 44.82 2.83
4844 7669 9.918630 AACTACCACATACGGATGTATATAAAC 57.081 33.333 14.23 0.00 44.82 2.01
4846 7671 9.299465 TGAACTACCACATACGGATGTATATAA 57.701 33.333 14.23 0.00 44.82 0.98
4847 7672 8.866970 TGAACTACCACATACGGATGTATATA 57.133 34.615 14.23 5.36 44.82 0.86
4848 7673 7.770366 TGAACTACCACATACGGATGTATAT 57.230 36.000 14.23 4.37 44.82 0.86
4849 7674 7.770366 ATGAACTACCACATACGGATGTATA 57.230 36.000 14.23 8.27 44.82 1.47
4850 7675 6.665992 ATGAACTACCACATACGGATGTAT 57.334 37.500 14.23 7.46 44.82 2.29
4851 7676 6.474140 AATGAACTACCACATACGGATGTA 57.526 37.500 14.23 0.00 44.82 2.29
4853 7678 5.815222 TCAAATGAACTACCACATACGGATG 59.185 40.000 5.94 5.94 39.16 3.51
4854 7679 5.984725 TCAAATGAACTACCACATACGGAT 58.015 37.500 0.00 0.00 0.00 4.18
4855 7680 5.408880 TCAAATGAACTACCACATACGGA 57.591 39.130 0.00 0.00 0.00 4.69
4856 7681 7.872993 AGATATCAAATGAACTACCACATACGG 59.127 37.037 5.32 0.00 0.00 4.02
4857 7682 8.818141 AGATATCAAATGAACTACCACATACG 57.182 34.615 5.32 0.00 0.00 3.06
4858 7683 9.988815 AGAGATATCAAATGAACTACCACATAC 57.011 33.333 5.32 0.00 0.00 2.39
4886 7711 9.025041 CCCTCAGTTCCTAAATATTTGTCTTTT 57.975 33.333 11.05 0.00 0.00 2.27
4887 7712 8.390921 TCCCTCAGTTCCTAAATATTTGTCTTT 58.609 33.333 11.05 0.00 0.00 2.52
4888 7713 7.928873 TCCCTCAGTTCCTAAATATTTGTCTT 58.071 34.615 11.05 0.00 0.00 3.01
4889 7714 7.182930 ACTCCCTCAGTTCCTAAATATTTGTCT 59.817 37.037 11.05 0.00 26.56 3.41
4890 7715 7.339482 ACTCCCTCAGTTCCTAAATATTTGTC 58.661 38.462 11.05 0.00 26.56 3.18
4891 7716 7.272144 ACTCCCTCAGTTCCTAAATATTTGT 57.728 36.000 11.05 0.00 26.56 2.83
4892 7717 9.853177 AATACTCCCTCAGTTCCTAAATATTTG 57.147 33.333 11.05 1.40 36.43 2.32
4894 7719 9.853177 CAAATACTCCCTCAGTTCCTAAATATT 57.147 33.333 0.00 0.00 36.43 1.28
4895 7720 9.004231 ACAAATACTCCCTCAGTTCCTAAATAT 57.996 33.333 0.00 0.00 36.43 1.28
4896 7721 8.265055 CACAAATACTCCCTCAGTTCCTAAATA 58.735 37.037 0.00 0.00 36.43 1.40
4897 7722 7.112779 CACAAATACTCCCTCAGTTCCTAAAT 58.887 38.462 0.00 0.00 36.43 1.40
4898 7723 6.043938 ACACAAATACTCCCTCAGTTCCTAAA 59.956 38.462 0.00 0.00 36.43 1.85
4899 7724 5.546499 ACACAAATACTCCCTCAGTTCCTAA 59.454 40.000 0.00 0.00 36.43 2.69
4900 7725 5.091552 ACACAAATACTCCCTCAGTTCCTA 58.908 41.667 0.00 0.00 36.43 2.94
4901 7726 3.910627 ACACAAATACTCCCTCAGTTCCT 59.089 43.478 0.00 0.00 36.43 3.36
4902 7727 4.254492 GACACAAATACTCCCTCAGTTCC 58.746 47.826 0.00 0.00 36.43 3.62
4903 7728 4.254492 GGACACAAATACTCCCTCAGTTC 58.746 47.826 0.00 0.00 36.43 3.01
4904 7729 3.650942 TGGACACAAATACTCCCTCAGTT 59.349 43.478 0.00 0.00 36.43 3.16
4905 7730 3.248024 TGGACACAAATACTCCCTCAGT 58.752 45.455 0.00 0.00 39.41 3.41
4906 7731 3.981071 TGGACACAAATACTCCCTCAG 57.019 47.619 0.00 0.00 0.00 3.35
4907 7732 6.381498 TTTATGGACACAAATACTCCCTCA 57.619 37.500 0.00 0.00 0.00 3.86
4908 7733 7.110155 TCTTTTATGGACACAAATACTCCCTC 58.890 38.462 0.00 0.00 0.00 4.30
4909 7734 7.027874 TCTTTTATGGACACAAATACTCCCT 57.972 36.000 0.00 0.00 0.00 4.20
4910 7735 6.183360 GCTCTTTTATGGACACAAATACTCCC 60.183 42.308 0.00 0.00 0.00 4.30
4911 7736 6.456988 CGCTCTTTTATGGACACAAATACTCC 60.457 42.308 0.00 0.00 0.00 3.85
4912 7737 6.092259 ACGCTCTTTTATGGACACAAATACTC 59.908 38.462 0.00 0.00 0.00 2.59
4913 7738 5.938125 ACGCTCTTTTATGGACACAAATACT 59.062 36.000 0.00 0.00 0.00 2.12
4914 7739 6.178239 ACGCTCTTTTATGGACACAAATAC 57.822 37.500 0.00 0.00 0.00 1.89
4986 7811 5.652452 AGTTACAAAAGTGGATATGCTTCCC 59.348 40.000 0.00 0.00 34.67 3.97
5097 7922 4.287238 ACAAGCAGACGGTTTTAAGTTG 57.713 40.909 0.00 0.00 0.00 3.16
5404 8334 1.066303 CAGGTCGTCCTACAGATGCTC 59.934 57.143 0.00 0.00 43.07 4.26
5418 8348 3.947173 AGCTCCATCCTCAGGTCG 58.053 61.111 0.00 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.