Multiple sequence alignment - TraesCS2B01G148800

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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 TraesCS2B01G148800 chr2B 100.000 9980 0 0 1 9980 115207310 115217289 0.000000e+00 18430
1 TraesCS2B01G148800 chr2B 94.944 178 9 0 8171 8348 115215399 115215576 7.630000e-71 279
2 TraesCS2B01G148800 chr2B 94.944 178 9 0 8090 8267 115215480 115215657 7.630000e-71 279
3 TraesCS2B01G148800 chr2B 92.784 97 7 0 8090 8186 115215561 115215657 3.760000e-29 141
4 TraesCS2B01G148800 chr2D 96.150 5429 161 17 485 5897 75249623 75255019 0.000000e+00 8824
5 TraesCS2B01G148800 chr2D 96.061 2488 66 5 5890 8348 75255095 75257579 0.000000e+00 4023
6 TraesCS2B01G148800 chr2D 94.997 1919 63 16 8090 9978 75257402 75259317 0.000000e+00 2981
7 TraesCS2B01G148800 chr2D 90.688 494 43 3 4 496 75247880 75248371 0.000000e+00 654
8 TraesCS2B01G148800 chr2D 87.928 497 55 5 1 496 75249003 75249495 1.870000e-161 580
9 TraesCS2B01G148800 chr2D 95.506 178 8 0 8090 8267 75257483 75257660 1.640000e-72 285
10 TraesCS2B01G148800 chr2D 84.364 275 37 5 8077 8348 75257227 75257498 2.140000e-66 265
11 TraesCS2B01G148800 chr2D 92.784 97 7 0 8090 8186 75257564 75257660 3.760000e-29 141
12 TraesCS2B01G148800 chr2D 89.815 108 11 0 8241 8348 75257310 75257417 1.350000e-28 139
13 TraesCS2B01G148800 chr2D 77.729 229 30 8 1 216 75248433 75248653 4.900000e-23 121
14 TraesCS2B01G148800 chr2A 95.889 5424 159 27 497 5897 74959064 74964446 0.000000e+00 8722
15 TraesCS2B01G148800 chr2A 96.450 4113 95 13 5890 9980 74964665 74968748 0.000000e+00 6739
16 TraesCS2B01G148800 chr2A 89.357 498 47 3 1 496 74958415 74958908 1.100000e-173 621
17 TraesCS2B01G148800 chr2A 94.382 178 10 0 8171 8348 74966838 74967015 3.550000e-69 274
18 TraesCS2B01G148800 chr2A 94.382 178 10 0 8090 8267 74966919 74967096 3.550000e-69 274
19 TraesCS2B01G148800 chr2A 98.095 105 2 0 5793 5897 74964487 74964591 6.160000e-42 183
20 TraesCS2B01G148800 chr2A 92.784 97 7 0 8252 8348 74966838 74966934 3.760000e-29 141
21 TraesCS2B01G148800 chr2A 92.784 97 7 0 8090 8186 74967000 74967096 3.760000e-29 141
22 TraesCS2B01G148800 chr7B 94.196 448 16 4 4165 4611 542982786 542982348 0.000000e+00 675
23 TraesCS2B01G148800 chr7B 94.118 442 18 4 3737 4174 542983371 542982934 0.000000e+00 665
24 TraesCS2B01G148800 chr7B 93.750 448 18 4 4165 4611 541688137 541687699 0.000000e+00 664
25 TraesCS2B01G148800 chr7B 93.750 448 18 4 4165 4611 542885634 542885196 0.000000e+00 664
26 TraesCS2B01G148800 chr7B 93.891 442 19 4 3737 4174 542886219 542885782 0.000000e+00 660
27 TraesCS2B01G148800 chr7B 93.665 442 19 5 3737 4174 541688731 541688295 0.000000e+00 652
28 TraesCS2B01G148800 chr4D 78.595 897 138 35 6439 7316 49234510 49233649 2.450000e-150 544
29 TraesCS2B01G148800 chr4D 78.405 903 140 36 6437 7319 49231661 49232528 4.100000e-148 536
30 TraesCS2B01G148800 chr6B 78.705 803 127 26 6439 7229 644396467 644397237 6.960000e-136 496
31 TraesCS2B01G148800 chr6B 77.574 874 145 32 6439 7298 447181852 447182688 1.950000e-131 481
32 TraesCS2B01G148800 chr7D 84.136 353 53 2 6969 7319 46093909 46094260 1.240000e-88 339


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 TraesCS2B01G148800 chr2B 115207310 115217289 9979 False 4782.250 18430 95.668000 1 9980 4 chr2B.!!$F1 9979
1 TraesCS2B01G148800 chr2D 75247880 75259317 11437 False 1801.300 8824 90.602200 1 9978 10 chr2D.!!$F1 9977
2 TraesCS2B01G148800 chr2A 74958415 74968748 10333 False 2136.875 8722 94.265375 1 9980 8 chr2A.!!$F1 9979
3 TraesCS2B01G148800 chr7B 542982348 542983371 1023 True 670.000 675 94.157000 3737 4611 2 chr7B.!!$R3 874
4 TraesCS2B01G148800 chr7B 542885196 542886219 1023 True 662.000 664 93.820500 3737 4611 2 chr7B.!!$R2 874
5 TraesCS2B01G148800 chr7B 541687699 541688731 1032 True 658.000 664 93.707500 3737 4611 2 chr7B.!!$R1 874
6 TraesCS2B01G148800 chr4D 49233649 49234510 861 True 544.000 544 78.595000 6439 7316 1 chr4D.!!$R1 877
7 TraesCS2B01G148800 chr4D 49231661 49232528 867 False 536.000 536 78.405000 6437 7319 1 chr4D.!!$F1 882
8 TraesCS2B01G148800 chr6B 644396467 644397237 770 False 496.000 496 78.705000 6439 7229 1 chr6B.!!$F2 790
9 TraesCS2B01G148800 chr6B 447181852 447182688 836 False 481.000 481 77.574000 6439 7298 1 chr6B.!!$F1 859

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
568 1848 0.310854 CAAACCTCGGGCACTGAAAC 59.689 55.000 0.00 0.00 46.55 2.78 F
1299 2597 0.188587 AGGCCGTAGATGGAGATGGA 59.811 55.000 0.00 0.00 0.00 3.41 F
2198 3496 0.736053 AGCTACTACGCTCACTCTGC 59.264 55.000 0.00 0.00 34.57 4.26 F
3528 4829 1.001974 CTCGGACCATGAAACAGACCA 59.998 52.381 0.00 0.00 0.00 4.02 F
3768 5069 0.737219 GCCAACAAGGATAGCTGCAG 59.263 55.000 10.11 10.11 41.22 4.41 F
3941 5242 0.744771 GGCCGCTGGAGAGTTAAAGG 60.745 60.000 0.00 0.00 0.00 3.11 F
5574 7046 1.830477 AGCACAAAAACTTCCCAGCAA 59.170 42.857 0.00 0.00 0.00 3.91 F
6910 8616 0.880718 GCCGGCCTAGAAAGAATCCG 60.881 60.000 18.11 0.00 36.90 4.18 F
7147 8858 0.524862 CAGCTGATGAACAGGCAACC 59.475 55.000 8.42 0.00 45.82 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1879 3177 1.213678 TCCTTCATGGGCCAGATCTTG 59.786 52.381 13.78 4.84 36.20 3.02 R
2954 4255 2.170166 CTGGCAAATAAAGCACAGGGA 58.830 47.619 0.00 0.00 31.18 4.20 R
3728 5029 1.004745 ACCAGAGGCATTAGGTTGTGG 59.995 52.381 0.00 0.00 0.00 4.17 R
4906 6378 0.031857 TTTGTGCCATTTCCACAGCG 59.968 50.000 0.00 0.00 43.34 5.18 R
5574 7046 0.663153 GAAACACTGACCGCAAAGCT 59.337 50.000 0.00 0.00 0.00 3.74 R
5747 7219 2.086869 ACAAGAACCATGGCAGAATCG 58.913 47.619 13.04 0.00 0.00 3.34 R
6964 8670 0.447801 CCGGTTCATTCTTGGCTTCG 59.552 55.000 0.00 0.00 0.00 3.79 R
8596 10423 1.045407 AGCTTGTCCAGACGGTTGTA 58.955 50.000 0.00 0.00 0.00 2.41 R
9081 10929 1.270094 TGTCAGGTAGCTCAACAACCG 60.270 52.381 0.00 0.00 38.37 4.44 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
57 58 4.654262 ACTATCATGGGTACGATCCAACTT 59.346 41.667 0.00 0.00 37.87 2.66
72 73 5.224562 TCCAACTTGTTGTTCGTTTGTAG 57.775 39.130 11.82 0.00 36.63 2.74
84 85 5.818336 TGTTCGTTTGTAGTCCAAGAATCAA 59.182 36.000 0.00 0.00 33.75 2.57
91 92 8.299570 GTTTGTAGTCCAAGAATCAAACATGAT 58.700 33.333 0.00 0.00 41.96 2.45
95 96 9.132521 GTAGTCCAAGAATCAAACATGATTTTG 57.867 33.333 0.00 0.51 38.50 2.44
186 187 4.248859 CTCTCGAGCCAAAAAGAAGATGA 58.751 43.478 7.81 0.00 0.00 2.92
216 217 4.024133 GGCACCCAACATTTCATTTCAAAC 60.024 41.667 0.00 0.00 0.00 2.93
249 250 4.363546 AACTACTTGAATCCCTCCCCTA 57.636 45.455 0.00 0.00 0.00 3.53
259 260 3.707189 CTCCCCTACCCCACCCCT 61.707 72.222 0.00 0.00 0.00 4.79
278 280 1.152963 CGAATTTCCGGGCATCCCT 60.153 57.895 0.00 0.00 42.67 4.20
298 300 1.333308 TCGTCAAACCGTCGTGACTTA 59.667 47.619 11.33 0.00 41.65 2.24
299 301 2.118683 CGTCAAACCGTCGTGACTTAA 58.881 47.619 11.33 0.00 41.65 1.85
333 335 6.183360 TGCACAAAAGCCTAGAAAAAGAATGA 60.183 34.615 0.00 0.00 0.00 2.57
370 373 7.504926 AAAAATATACTAGTGACTGGGGACA 57.495 36.000 5.39 0.00 39.59 4.02
380 384 4.340489 TGGGGACATGGGACCGGA 62.340 66.667 9.46 0.00 33.40 5.14
391 395 1.153429 GGACCGGAAAGGGATCACG 60.153 63.158 9.46 0.00 46.96 4.35
423 427 2.334946 GCAAGCACTGCCCGATGAA 61.335 57.895 0.00 0.00 46.13 2.57
450 454 0.528924 CTGTTACCGTCCCGACATGA 59.471 55.000 0.00 0.00 0.00 3.07
472 476 6.383415 TGATGGTCGGCAAAAGTTTATTAAC 58.617 36.000 0.00 0.00 34.36 2.01
512 1226 6.912591 CGTCTTCTTTTTGTAATGCAAGAACT 59.087 34.615 0.00 0.00 38.47 3.01
557 1837 1.200519 TCTATCCCACCCAAACCTCG 58.799 55.000 0.00 0.00 0.00 4.63
568 1848 0.310854 CAAACCTCGGGCACTGAAAC 59.689 55.000 0.00 0.00 46.55 2.78
576 1860 0.320697 GGGCACTGAAACGTCCTACT 59.679 55.000 0.00 0.00 0.00 2.57
599 1884 3.239449 TGTCTTCCTCAAGCCAAGTAGA 58.761 45.455 0.00 0.00 0.00 2.59
735 2028 1.966451 CACACTGAAAGGCCCCGAC 60.966 63.158 0.00 0.00 39.30 4.79
749 2043 1.807742 CCCCGACTATGAACGCAAAAA 59.192 47.619 0.00 0.00 0.00 1.94
751 2045 2.482721 CCCGACTATGAACGCAAAAACT 59.517 45.455 0.00 0.00 0.00 2.66
820 2117 1.439679 GTCGCGAACCAGAATTCCTT 58.560 50.000 12.06 0.00 0.00 3.36
827 2124 0.988832 ACCAGAATTCCTTACGCCCA 59.011 50.000 0.65 0.00 0.00 5.36
1299 2597 0.188587 AGGCCGTAGATGGAGATGGA 59.811 55.000 0.00 0.00 0.00 3.41
1374 2672 2.041922 GGGGAAAATGGGGAGGCC 60.042 66.667 0.00 0.00 0.00 5.19
1405 2703 2.125106 CGGGGAAGAAGCGGAAGG 60.125 66.667 0.00 0.00 0.00 3.46
1476 2774 2.439156 GCGGCTGAAATGGAGGCT 60.439 61.111 0.00 0.00 33.89 4.58
1488 2786 1.452108 GGAGGCTGCCGCTAATGTT 60.452 57.895 21.68 0.00 36.09 2.71
1491 2789 2.102946 GCTGCCGCTAATGTTGCC 59.897 61.111 0.00 0.00 0.00 4.52
1500 2798 2.603135 CTAATGTTGCCGCTGCTGCC 62.603 60.000 13.49 0.00 38.71 4.85
1544 2842 2.191641 GGATGTGGCTCCAGCTCC 59.808 66.667 0.00 0.00 41.70 4.70
1586 2884 3.672295 CTGGGAGGAAGCGTCAGCC 62.672 68.421 1.14 1.74 46.67 4.85
1599 2897 1.679977 TCAGCCTGCAAATGGGAGC 60.680 57.895 0.00 0.00 32.79 4.70
1652 2950 2.728443 GATGCTGCGCTGGATAGGCT 62.728 60.000 20.57 0.00 0.00 4.58
1879 3177 3.246619 CGCTCTCTGAAGAACCACTTAC 58.753 50.000 0.00 0.00 39.13 2.34
1938 3236 9.696572 ATACACTGTATTAGGTAAGAGTCTTCA 57.303 33.333 9.12 0.00 0.00 3.02
1946 3244 5.428184 AGGTAAGAGTCTTCAATTCCCTG 57.572 43.478 9.12 0.00 0.00 4.45
1953 3251 8.712228 AAGAGTCTTCAATTCCCTGTTTTATT 57.288 30.769 0.00 0.00 0.00 1.40
1954 3252 9.807921 AAGAGTCTTCAATTCCCTGTTTTATTA 57.192 29.630 0.00 0.00 0.00 0.98
1955 3253 9.981460 AGAGTCTTCAATTCCCTGTTTTATTAT 57.019 29.630 0.00 0.00 0.00 1.28
1959 3257 9.131791 TCTTCAATTCCCTGTTTTATTATAGGC 57.868 33.333 0.00 0.00 0.00 3.93
1961 3259 9.487442 TTCAATTCCCTGTTTTATTATAGGCTT 57.513 29.630 0.00 0.00 0.00 4.35
1965 3263 8.974060 TTCCCTGTTTTATTATAGGCTTACAG 57.026 34.615 0.00 0.00 33.39 2.74
1997 3295 7.382759 AGTTTGTGAGAGACTCGTCTTTTAATC 59.617 37.037 0.52 0.00 40.61 1.75
2006 3304 8.057536 AGACTCGTCTTTTAATCATCTACTGT 57.942 34.615 0.00 0.00 36.31 3.55
2007 3305 8.524487 AGACTCGTCTTTTAATCATCTACTGTT 58.476 33.333 0.00 0.00 36.31 3.16
2008 3306 9.141400 GACTCGTCTTTTAATCATCTACTGTTT 57.859 33.333 0.00 0.00 0.00 2.83
2009 3307 9.490379 ACTCGTCTTTTAATCATCTACTGTTTT 57.510 29.630 0.00 0.00 0.00 2.43
2183 3481 3.987868 CAGCAACAGTAAAACTCGAGCTA 59.012 43.478 13.61 0.00 0.00 3.32
2186 3484 5.048224 AGCAACAGTAAAACTCGAGCTACTA 60.048 40.000 13.61 0.00 0.00 1.82
2198 3496 0.736053 AGCTACTACGCTCACTCTGC 59.264 55.000 0.00 0.00 34.57 4.26
2229 3527 6.923508 TGTTATTGAGATTGAGGCTATACGTG 59.076 38.462 0.00 0.00 0.00 4.49
2231 3529 2.959030 TGAGATTGAGGCTATACGTGCT 59.041 45.455 0.00 0.00 0.00 4.40
2242 3540 3.435671 GCTATACGTGCTGAACTTGGTTT 59.564 43.478 0.00 0.00 0.00 3.27
2258 3556 6.365520 ACTTGGTTTAAGGATGTCTGAGTTT 58.634 36.000 0.00 0.00 40.84 2.66
2277 3575 3.385314 TTGATGGAAATGATGAGGGCA 57.615 42.857 0.00 0.00 0.00 5.36
2537 3835 1.542472 TCGATGCAGAAGTACAACGGA 59.458 47.619 0.00 0.00 33.49 4.69
2772 4073 2.426522 TGCTTGAGTACCATTCTGTGC 58.573 47.619 0.00 0.00 0.00 4.57
2818 4119 7.284261 TCCATCAATTGTTAGACTTTTGTGTCA 59.716 33.333 5.13 0.00 39.27 3.58
2836 4137 6.241645 TGTGTCACAATTACATTCCCACATA 58.758 36.000 2.31 0.00 0.00 2.29
2837 4138 6.889177 TGTGTCACAATTACATTCCCACATAT 59.111 34.615 2.31 0.00 0.00 1.78
2877 4178 3.852578 ACATCTAGTTCCCATTCCCTTGT 59.147 43.478 0.00 0.00 0.00 3.16
2878 4179 4.202441 CATCTAGTTCCCATTCCCTTGTG 58.798 47.826 0.00 0.00 0.00 3.33
2917 4218 6.403866 TTGTGCTGTTTATTTCTCCACAAT 57.596 33.333 0.00 0.00 36.96 2.71
2952 4253 4.961438 ATTTCTTTTGTTGGCCACAGAT 57.039 36.364 3.88 0.00 36.48 2.90
2954 4255 3.228188 TCTTTTGTTGGCCACAGATCT 57.772 42.857 3.88 0.00 36.48 2.75
2968 4269 4.851639 ACAGATCTCCCTGTGCTTTATT 57.148 40.909 0.00 0.00 44.93 1.40
3062 4363 7.231317 TGCTGATATGGGTTCTCATTTTATTCC 59.769 37.037 0.00 0.00 0.00 3.01
3117 4418 2.525105 TGGGGATAAAGCAAGGGAAC 57.475 50.000 0.00 0.00 0.00 3.62
3133 4434 3.073062 AGGGAACAACTGCAATACTCTGT 59.927 43.478 0.00 0.00 0.00 3.41
3332 4633 3.018856 TGCAGGGTTGATTCATGTGATC 58.981 45.455 0.00 0.00 0.00 2.92
3528 4829 1.001974 CTCGGACCATGAAACAGACCA 59.998 52.381 0.00 0.00 0.00 4.02
3564 4865 4.067896 CTGAAACAACCTAGTGAGCATGT 58.932 43.478 0.00 0.00 0.00 3.21
3567 4868 4.891992 AACAACCTAGTGAGCATGTACT 57.108 40.909 0.00 0.00 0.00 2.73
3575 4876 4.569761 AGTGAGCATGTACTGTATACCG 57.430 45.455 0.00 0.00 0.00 4.02
3674 4975 1.133790 GTTATACCCTGAGACGTGCGT 59.866 52.381 0.00 0.00 0.00 5.24
3728 5029 5.449725 GCTAATGAGAAGCCCAATCAAACTC 60.450 44.000 0.00 0.00 33.73 3.01
3768 5069 0.737219 GCCAACAAGGATAGCTGCAG 59.263 55.000 10.11 10.11 41.22 4.41
3818 5119 3.820467 TGTTAATGGTTTGTCTGCAGAGG 59.180 43.478 18.89 0.00 0.00 3.69
3941 5242 0.744771 GGCCGCTGGAGAGTTAAAGG 60.745 60.000 0.00 0.00 0.00 3.11
3951 5252 5.445964 TGGAGAGTTAAAGGACAAGCTTTT 58.554 37.500 0.00 0.00 0.00 2.27
4066 5369 7.397221 TGACTGATCAAAAGTTATCTGTGGAT 58.603 34.615 0.00 0.00 35.29 3.41
4163 5468 6.432581 ACTGATGGTAAGTGTATGGAGAGTA 58.567 40.000 0.00 0.00 0.00 2.59
4202 5673 3.625764 TGGTCCTTTGTCAGAAAAGAACG 59.374 43.478 0.00 0.00 39.12 3.95
4380 5851 6.092259 CCTCTTCTCACGGTATAACTTTTTGG 59.908 42.308 0.00 0.00 0.00 3.28
5263 6735 3.482436 CTCTAGCGAGAGGAACAGGTAT 58.518 50.000 15.50 0.00 44.92 2.73
5449 6921 5.575157 TCTAAGATGAGTGACTTCAGTCCT 58.425 41.667 10.86 2.09 43.80 3.85
5464 6936 3.384467 TCAGTCCTGAAAAGCCAAAAAGG 59.616 43.478 0.00 0.00 36.53 3.11
5507 6979 5.066593 ACCTCCTAGAGAAAGCACAAAAAG 58.933 41.667 0.00 0.00 0.00 2.27
5509 6981 6.183361 ACCTCCTAGAGAAAGCACAAAAAGTA 60.183 38.462 0.00 0.00 0.00 2.24
5574 7046 1.830477 AGCACAAAAACTTCCCAGCAA 59.170 42.857 0.00 0.00 0.00 3.91
5627 7099 4.460263 TGCCAGGTATGTAATTAAGCCAG 58.540 43.478 0.00 0.00 0.00 4.85
5636 7108 8.560374 GGTATGTAATTAAGCCAGATGTTCTTC 58.440 37.037 0.00 0.00 0.00 2.87
5675 7147 7.031975 AGAGCAAGCAAGTCATTAATTAAAGC 58.968 34.615 1.21 0.92 0.00 3.51
5676 7148 6.690530 AGCAAGCAAGTCATTAATTAAAGCA 58.309 32.000 1.21 0.00 0.00 3.91
5677 7149 7.153985 AGCAAGCAAGTCATTAATTAAAGCAA 58.846 30.769 1.21 0.00 0.00 3.91
5678 7150 7.330208 AGCAAGCAAGTCATTAATTAAAGCAAG 59.670 33.333 1.21 0.00 0.00 4.01
5679 7151 7.450627 CAAGCAAGTCATTAATTAAAGCAAGC 58.549 34.615 1.21 3.38 0.00 4.01
5680 7152 6.690530 AGCAAGTCATTAATTAAAGCAAGCA 58.309 32.000 1.21 0.00 0.00 3.91
5681 7153 7.153985 AGCAAGTCATTAATTAAAGCAAGCAA 58.846 30.769 1.21 0.00 0.00 3.91
5682 7154 7.330208 AGCAAGTCATTAATTAAAGCAAGCAAG 59.670 33.333 1.21 0.00 0.00 4.01
5683 7155 7.116805 GCAAGTCATTAATTAAAGCAAGCAAGT 59.883 33.333 1.21 0.00 0.00 3.16
5684 7156 8.642020 CAAGTCATTAATTAAAGCAAGCAAGTC 58.358 33.333 1.21 0.00 0.00 3.01
5685 7157 7.885297 AGTCATTAATTAAAGCAAGCAAGTCA 58.115 30.769 1.21 0.00 0.00 3.41
5686 7158 8.526147 AGTCATTAATTAAAGCAAGCAAGTCAT 58.474 29.630 1.21 0.00 0.00 3.06
5687 7159 9.143631 GTCATTAATTAAAGCAAGCAAGTCATT 57.856 29.630 1.21 0.00 0.00 2.57
5828 7300 7.766278 CAGTTACACTTGCCTAACTATTCATCT 59.234 37.037 0.00 0.00 32.51 2.90
5899 7597 8.964476 TCTGGCAATATCTAAAGAAAGTAAGG 57.036 34.615 0.00 0.00 0.00 2.69
5916 7614 8.635765 AAAGTAAGGAATTTCTTGCATGACTA 57.364 30.769 15.95 0.00 32.87 2.59
6015 7713 5.889289 ACCAACTTTTGTGGTATGTACAACT 59.111 36.000 0.00 0.00 37.73 3.16
6060 7758 6.941857 TGATATTCCTGTACAAGCTACACAA 58.058 36.000 0.00 0.00 0.00 3.33
6232 7930 2.291741 GCAGCTTGTTCTTAGTGTTGCT 59.708 45.455 0.00 0.00 0.00 3.91
6370 8068 8.978564 ATTTACAAATTGCAAATATGTCGACA 57.021 26.923 22.48 22.48 0.00 4.35
6425 8123 5.061933 GTCCTTAAGACCGTCGAAGAAAATC 59.938 44.000 3.36 0.00 37.75 2.17
6497 8198 4.497291 TTTTGTCGGGCCTTATGTATCT 57.503 40.909 0.84 0.00 0.00 1.98
6502 8203 2.035449 TCGGGCCTTATGTATCTTCGTG 59.965 50.000 0.84 0.00 0.00 4.35
6519 8222 7.780008 TCTTCGTGTGATGAAGAAAAAGTTA 57.220 32.000 5.89 0.00 44.63 2.24
6774 8480 3.597255 CAGCATCAAAGAAGAGCTCTCA 58.403 45.455 18.55 0.00 31.02 3.27
6910 8616 0.880718 GCCGGCCTAGAAAGAATCCG 60.881 60.000 18.11 0.00 36.90 4.18
6964 8670 3.876914 TGTCTGACAGTCAACCATCAAAC 59.123 43.478 6.36 0.00 0.00 2.93
7052 8759 4.161565 ACTCAGGTAAATCCGAGCATACAA 59.838 41.667 0.00 0.00 41.99 2.41
7147 8858 0.524862 CAGCTGATGAACAGGCAACC 59.475 55.000 8.42 0.00 45.82 3.77
7455 9171 2.418368 AAGTGAGCAACAGTTGACCA 57.582 45.000 17.99 10.32 40.21 4.02
7478 9194 6.484643 CCATTCAATATTTGTCGTGATCCTCT 59.515 38.462 0.00 0.00 0.00 3.69
7569 9285 9.569122 TTCCTAAGCTAACATTACTTTTGTCTT 57.431 29.630 0.00 0.00 0.00 3.01
7570 9286 8.999431 TCCTAAGCTAACATTACTTTTGTCTTG 58.001 33.333 0.00 0.00 0.00 3.02
7607 9323 5.344743 TGTTTTTGGAATTTGGCTGTGTA 57.655 34.783 0.00 0.00 0.00 2.90
7848 9564 3.710677 AGGATCAATCAGACAGGGAAGAG 59.289 47.826 0.00 0.00 0.00 2.85
7849 9565 3.181456 GGATCAATCAGACAGGGAAGAGG 60.181 52.174 0.00 0.00 0.00 3.69
7888 9604 2.887152 GAGGACAAGGACAGCAATTGTT 59.113 45.455 7.40 0.00 41.05 2.83
7922 9638 6.064060 TGTTCACTTCCAATGATCTGAAAGT 58.936 36.000 0.00 0.00 33.76 2.66
7973 9689 3.801050 CAGAGTCATAGCATTGAGGAACG 59.199 47.826 0.00 0.00 0.00 3.95
8520 10347 4.996788 AGATAGCAAATTTTCTGCAGGG 57.003 40.909 15.13 0.00 42.48 4.45
8621 10448 1.338105 CCGTCTGGACAAGCTTGATCA 60.338 52.381 32.50 24.69 37.49 2.92
9081 10929 7.655732 GGTAGAGAATTCCTTCTGATTAGCTTC 59.344 40.741 0.65 0.00 41.87 3.86
9376 11224 6.579666 ACTTGTGATTCATGTTGCACTATT 57.420 33.333 12.96 1.79 31.71 1.73
9380 11228 5.706833 TGTGATTCATGTTGCACTATTGAGT 59.293 36.000 12.96 0.00 35.80 3.41
9420 11268 2.224314 GTCTTTGAGTACAAGTGGCTGC 59.776 50.000 0.00 0.00 37.32 5.25
9572 11420 4.879197 TCCTGCTGTGATGATATAGTGG 57.121 45.455 0.00 0.00 0.00 4.00
9876 11752 0.328258 AAGCTGGTAAATCCACGGCT 59.672 50.000 0.00 0.00 45.63 5.52
9883 11759 2.418976 GGTAAATCCACGGCTTGTTCTC 59.581 50.000 0.00 0.00 35.97 2.87
9901 11777 6.721318 TGTTCTCCCTATAGCAGATTGTTTT 58.279 36.000 0.00 0.00 0.00 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 58 4.505808 TCTTGGACTACAAACGAACAACA 58.494 39.130 0.00 0.00 38.91 3.33
117 118 9.974980 GTTTCATTAACTGAGGTTTGGATTTTA 57.025 29.630 0.00 0.00 36.92 1.52
186 187 1.494960 AATGTTGGGTGCCACAGTTT 58.505 45.000 0.00 0.00 30.78 2.66
249 250 1.689412 GAAATTCGAGGGGTGGGGT 59.311 57.895 0.00 0.00 0.00 4.95
259 260 1.153046 GGGATGCCCGGAAATTCGA 60.153 57.895 0.73 0.00 32.13 3.71
278 280 0.101040 AAGTCACGACGGTTTGACGA 59.899 50.000 14.52 0.00 45.71 4.20
298 300 4.516323 AGGCTTTTGTGCATTCTTTTGTT 58.484 34.783 0.00 0.00 34.04 2.83
299 301 4.141233 AGGCTTTTGTGCATTCTTTTGT 57.859 36.364 0.00 0.00 34.04 2.83
356 359 0.415830 TCCCATGTCCCCAGTCACTA 59.584 55.000 0.00 0.00 0.00 2.74
370 373 0.623324 TGATCCCTTTCCGGTCCCAT 60.623 55.000 0.00 0.00 0.00 4.00
380 384 1.345112 ACCCCTATCCGTGATCCCTTT 60.345 52.381 0.00 0.00 0.00 3.11
391 395 1.340991 TGCTTGCTTGAACCCCTATCC 60.341 52.381 0.00 0.00 0.00 2.59
392 396 1.745653 GTGCTTGCTTGAACCCCTATC 59.254 52.381 0.00 0.00 0.00 2.08
423 427 3.329929 GGGACGGTAACAGAGACAAAT 57.670 47.619 0.00 0.00 0.00 2.32
450 454 5.395642 CGTTAATAAACTTTTGCCGACCAT 58.604 37.500 0.00 0.00 33.15 3.55
460 464 8.506437 GTTAGTGGTAAGCCGTTAATAAACTTT 58.494 33.333 0.00 0.00 37.67 2.66
472 476 0.529378 AGACGGTTAGTGGTAAGCCG 59.471 55.000 0.00 0.00 46.83 5.52
540 1820 1.276140 CCCGAGGTTTGGGTGGGATA 61.276 60.000 0.00 0.00 42.77 2.59
557 1837 0.320697 AGTAGGACGTTTCAGTGCCC 59.679 55.000 0.00 0.00 32.59 5.36
559 1839 3.846360 ACATAGTAGGACGTTTCAGTGC 58.154 45.455 0.00 0.00 0.00 4.40
568 1848 4.498345 GCTTGAGGAAGACATAGTAGGACG 60.498 50.000 0.00 0.00 0.00 4.79
599 1884 1.064240 TGAGTGCCATGATGCCATCTT 60.064 47.619 6.21 0.00 0.00 2.40
608 1893 5.010820 TGAAATGAAATGTTGAGTGCCATGA 59.989 36.000 0.00 0.00 0.00 3.07
617 1902 6.867816 CCCTTCGATTTGAAATGAAATGTTGA 59.132 34.615 0.00 0.00 35.79 3.18
703 1989 0.947660 AGTGTGTGTGAGCAGCGATG 60.948 55.000 0.00 0.00 0.00 3.84
704 1990 0.947660 CAGTGTGTGTGAGCAGCGAT 60.948 55.000 0.00 0.00 0.00 4.58
705 1991 1.592400 CAGTGTGTGTGAGCAGCGA 60.592 57.895 0.00 0.00 0.00 4.93
749 2043 4.417426 AGCAGGCGTGGTTATATTAAGT 57.583 40.909 5.06 0.00 0.00 2.24
751 2045 4.131596 GGAAGCAGGCGTGGTTATATTAA 58.868 43.478 22.37 0.00 44.50 1.40
797 2094 1.289109 AATTCTGGTTCGCGACGGTG 61.289 55.000 9.15 0.00 0.00 4.94
798 2095 1.005394 AATTCTGGTTCGCGACGGT 60.005 52.632 9.15 0.00 0.00 4.83
802 2099 2.613691 GTAAGGAATTCTGGTTCGCGA 58.386 47.619 3.71 3.71 0.00 5.87
820 2117 2.115695 GGGTTTGGGTTGGGCGTA 59.884 61.111 0.00 0.00 0.00 4.42
1139 2437 2.143419 ATGGAGCCCATCTCGTCCC 61.143 63.158 1.21 0.00 40.74 4.46
1314 2612 2.353839 GTTGCAAGCACAGGCACG 60.354 61.111 0.00 0.00 44.61 5.34
1500 2798 2.202676 GAAGTCTCGGCAGCCTCG 60.203 66.667 10.54 0.00 0.00 4.63
1539 2837 1.227089 CGTAGCAGCAATCGGAGCT 60.227 57.895 0.00 0.00 44.62 4.09
1586 2884 2.753966 CGACCGCTCCCATTTGCAG 61.754 63.158 0.00 0.00 0.00 4.41
1599 2897 3.384014 GACTGAGCGAGACCGACCG 62.384 68.421 0.00 0.00 38.22 4.79
1612 2910 1.676529 CTCTAAATCCCTCGCGACTGA 59.323 52.381 3.71 4.76 0.00 3.41
1800 3098 4.680237 TGCTTACACCGCAGCGCT 62.680 61.111 10.07 2.64 39.04 5.92
1879 3177 1.213678 TCCTTCATGGGCCAGATCTTG 59.786 52.381 13.78 4.84 36.20 3.02
1908 3206 8.307582 ACTCTTACCTAATACAGTGTATTGCT 57.692 34.615 30.37 17.91 0.00 3.91
1938 3236 9.930158 TGTAAGCCTATAATAAAACAGGGAATT 57.070 29.630 0.00 0.00 0.00 2.17
1953 3251 8.377034 TCACAAACTAAAACCTGTAAGCCTATA 58.623 33.333 0.00 0.00 0.00 1.31
1954 3252 7.228590 TCACAAACTAAAACCTGTAAGCCTAT 58.771 34.615 0.00 0.00 0.00 2.57
1955 3253 6.593807 TCACAAACTAAAACCTGTAAGCCTA 58.406 36.000 0.00 0.00 0.00 3.93
1956 3254 5.442391 TCACAAACTAAAACCTGTAAGCCT 58.558 37.500 0.00 0.00 0.00 4.58
1958 3256 6.482308 TCTCTCACAAACTAAAACCTGTAAGC 59.518 38.462 0.00 0.00 0.00 3.09
1959 3257 7.711339 AGTCTCTCACAAACTAAAACCTGTAAG 59.289 37.037 0.00 0.00 0.00 2.34
1961 3259 7.120923 AGTCTCTCACAAACTAAAACCTGTA 57.879 36.000 0.00 0.00 0.00 2.74
1962 3260 5.990668 AGTCTCTCACAAACTAAAACCTGT 58.009 37.500 0.00 0.00 0.00 4.00
1963 3261 5.175856 CGAGTCTCTCACAAACTAAAACCTG 59.824 44.000 0.00 0.00 0.00 4.00
1965 3263 5.048507 ACGAGTCTCTCACAAACTAAAACC 58.951 41.667 0.00 0.00 0.00 3.27
1973 3271 7.207383 TGATTAAAAGACGAGTCTCTCACAAA 58.793 34.615 6.19 0.00 39.39 2.83
1975 3273 6.327279 TGATTAAAAGACGAGTCTCTCACA 57.673 37.500 6.19 1.10 39.39 3.58
1976 3274 7.254852 AGATGATTAAAAGACGAGTCTCTCAC 58.745 38.462 6.19 0.00 39.39 3.51
2008 3306 8.912988 CCCAGTTAAGATTCCTATGCAATTAAA 58.087 33.333 0.00 0.00 0.00 1.52
2009 3307 8.278639 TCCCAGTTAAGATTCCTATGCAATTAA 58.721 33.333 0.00 0.00 0.00 1.40
2198 3496 5.699915 AGCCTCAATCTCAATAACATCATCG 59.300 40.000 0.00 0.00 0.00 3.84
2201 3499 7.814587 CGTATAGCCTCAATCTCAATAACATCA 59.185 37.037 0.00 0.00 0.00 3.07
2229 3527 4.762251 AGACATCCTTAAACCAAGTTCAGC 59.238 41.667 0.00 0.00 31.77 4.26
2231 3529 5.935945 TCAGACATCCTTAAACCAAGTTCA 58.064 37.500 0.00 0.00 31.77 3.18
2242 3540 6.373005 TTCCATCAAACTCAGACATCCTTA 57.627 37.500 0.00 0.00 0.00 2.69
2258 3556 2.242965 ACTGCCCTCATCATTTCCATCA 59.757 45.455 0.00 0.00 0.00 3.07
2277 3575 5.326069 TCTTCTTGAACCAGTAGCTCTACT 58.674 41.667 3.84 3.84 46.52 2.57
2322 3620 2.371510 GAGAAGAATCTGCTAGGGCCAT 59.628 50.000 6.18 0.00 35.54 4.40
2537 3835 4.713321 ACAAGCTTTGCCATATTTCTGGAT 59.287 37.500 0.00 0.00 38.69 3.41
2836 4137 9.383519 CTAGATGTACAGTGAAACATAAACCAT 57.616 33.333 13.42 0.00 41.43 3.55
2837 4138 8.372459 ACTAGATGTACAGTGAAACATAAACCA 58.628 33.333 13.42 1.43 41.43 3.67
2877 4178 4.219070 AGCACAAATTAAGCAGATGAAGCA 59.781 37.500 0.00 0.00 0.00 3.91
2878 4179 4.561606 CAGCACAAATTAAGCAGATGAAGC 59.438 41.667 0.00 0.00 0.00 3.86
2917 4218 9.681692 CAACAAAAGAAATTAGTGTGATGATCA 57.318 29.630 0.00 0.00 0.00 2.92
2952 4253 2.224992 TGGCAAATAAAGCACAGGGAGA 60.225 45.455 0.00 0.00 0.00 3.71
2954 4255 2.170166 CTGGCAAATAAAGCACAGGGA 58.830 47.619 0.00 0.00 31.18 4.20
2968 4269 3.244078 ACACGATAAGAACTCACTGGCAA 60.244 43.478 0.00 0.00 0.00 4.52
3092 4393 4.044825 TCCCTTGCTTTATCCCCAAAACTA 59.955 41.667 0.00 0.00 0.00 2.24
3117 4418 5.565723 GCAAAAACAGAGTATTGCAGTTG 57.434 39.130 12.71 0.00 45.61 3.16
3213 4514 8.877533 TTTCCAAAGAAAAACGAATCATCGCAC 61.878 37.037 0.00 0.00 44.63 5.34
3224 4525 8.986477 ATAGGATCAATTTCCAAAGAAAAACG 57.014 30.769 0.00 0.00 44.91 3.60
3332 4633 3.784511 ATAATGGCATGGAGAGTCTGG 57.215 47.619 0.00 0.00 0.00 3.86
3551 4852 5.334957 CGGTATACAGTACATGCTCACTAGG 60.335 48.000 5.01 0.00 0.00 3.02
3564 4865 6.509656 CCATGCTTTTCTACGGTATACAGTA 58.490 40.000 14.07 14.07 0.00 2.74
3567 4868 4.124238 GCCATGCTTTTCTACGGTATACA 58.876 43.478 5.01 0.00 0.00 2.29
3575 4876 3.753272 TGTTGAGAGCCATGCTTTTCTAC 59.247 43.478 0.00 0.65 39.88 2.59
3674 4975 5.193663 TCATTGCCGTTTTGAGAAATTGA 57.806 34.783 0.00 0.00 0.00 2.57
3728 5029 1.004745 ACCAGAGGCATTAGGTTGTGG 59.995 52.381 0.00 0.00 0.00 4.17
3768 5069 4.397417 AGCCAACATCATCTTGCTTAGAAC 59.603 41.667 0.00 0.00 36.22 3.01
3818 5119 2.941720 GAGGTGATGCATCTTTCTGGTC 59.058 50.000 26.32 10.26 0.00 4.02
3941 5242 6.093357 CCTTCCTCATTCTCTAAAAGCTTGTC 59.907 42.308 0.00 0.00 0.00 3.18
3951 5252 5.485353 TGCTTCTTTCCTTCCTCATTCTCTA 59.515 40.000 0.00 0.00 0.00 2.43
4066 5369 4.766891 CAGCCACATTTTTCCTTTAGGAGA 59.233 41.667 0.00 0.00 46.36 3.71
4202 5673 5.189180 AGCAAGGACAATATGACTTTCCTC 58.811 41.667 0.00 0.00 35.55 3.71
4677 6149 1.597663 GTGAAACACTTGACGGGACAG 59.402 52.381 0.00 0.00 36.32 3.51
4906 6378 0.031857 TTTGTGCCATTTCCACAGCG 59.968 50.000 0.00 0.00 43.34 5.18
4965 6437 9.161629 CCCAATTTTATTGATACTTCCCAAAAC 57.838 33.333 1.11 0.00 0.00 2.43
5051 6523 5.448654 AGAGAGAGTGCTCAATATCTCAGT 58.551 41.667 19.55 2.45 43.81 3.41
5263 6735 3.882888 GGACATGACTTTCACTCAACCAA 59.117 43.478 0.00 0.00 0.00 3.67
5287 6759 5.569355 TCATATGCCCTCAAAAGACTCAAA 58.431 37.500 0.00 0.00 0.00 2.69
5449 6921 5.128499 TGATCTTGACCTTTTTGGCTTTTCA 59.872 36.000 0.00 0.00 40.22 2.69
5464 6936 4.999950 AGGTCATCAAACACTGATCTTGAC 59.000 41.667 0.00 0.00 43.28 3.18
5507 6979 5.639931 CCTCTAGTTTTTGTGCTTCCTCTAC 59.360 44.000 0.00 0.00 0.00 2.59
5509 6981 4.348168 TCCTCTAGTTTTTGTGCTTCCTCT 59.652 41.667 0.00 0.00 0.00 3.69
5574 7046 0.663153 GAAACACTGACCGCAAAGCT 59.337 50.000 0.00 0.00 0.00 3.74
5651 7123 6.808212 TGCTTTAATTAATGACTTGCTTGCTC 59.192 34.615 13.70 0.00 0.00 4.26
5669 7141 9.539825 TGAAATTTAATGACTTGCTTGCTTTAA 57.460 25.926 0.00 0.00 0.00 1.52
5670 7142 9.709495 ATGAAATTTAATGACTTGCTTGCTTTA 57.291 25.926 0.00 0.00 0.00 1.85
5671 7143 8.611654 ATGAAATTTAATGACTTGCTTGCTTT 57.388 26.923 0.00 0.00 0.00 3.51
5672 7144 8.500773 CAATGAAATTTAATGACTTGCTTGCTT 58.499 29.630 0.00 0.00 31.22 3.91
5673 7145 7.360607 GCAATGAAATTTAATGACTTGCTTGCT 60.361 33.333 4.86 0.00 31.22 3.91
5674 7146 6.739550 GCAATGAAATTTAATGACTTGCTTGC 59.260 34.615 4.86 0.00 31.22 4.01
5675 7147 7.798801 TGCAATGAAATTTAATGACTTGCTTG 58.201 30.769 11.22 0.00 38.74 4.01
5676 7148 7.966246 TGCAATGAAATTTAATGACTTGCTT 57.034 28.000 11.22 0.00 38.74 3.91
5677 7149 7.966246 TTGCAATGAAATTTAATGACTTGCT 57.034 28.000 11.22 0.00 38.74 3.91
5678 7150 9.109533 CTTTTGCAATGAAATTTAATGACTTGC 57.890 29.630 0.00 5.08 38.50 4.01
5681 7153 9.328845 ACACTTTTGCAATGAAATTTAATGACT 57.671 25.926 0.00 0.00 31.22 3.41
5682 7154 9.584839 GACACTTTTGCAATGAAATTTAATGAC 57.415 29.630 0.00 0.00 31.22 3.06
5683 7155 9.322773 TGACACTTTTGCAATGAAATTTAATGA 57.677 25.926 0.00 0.00 31.22 2.57
5684 7156 9.588774 CTGACACTTTTGCAATGAAATTTAATG 57.411 29.630 0.00 0.00 31.22 1.90
5685 7157 9.328845 ACTGACACTTTTGCAATGAAATTTAAT 57.671 25.926 0.00 0.00 31.22 1.40
5686 7158 8.715191 ACTGACACTTTTGCAATGAAATTTAA 57.285 26.923 0.00 0.00 31.22 1.52
5687 7159 8.715191 AACTGACACTTTTGCAATGAAATTTA 57.285 26.923 0.00 0.00 31.22 1.40
5747 7219 2.086869 ACAAGAACCATGGCAGAATCG 58.913 47.619 13.04 0.00 0.00 3.34
5752 7224 3.645884 CAAAGAACAAGAACCATGGCAG 58.354 45.455 13.04 0.00 0.00 4.85
5899 7597 6.089954 GCAAAACCTAGTCATGCAAGAAATTC 59.910 38.462 0.00 0.00 37.00 2.17
5916 7614 6.187682 ACTAATAACAGGCATAGCAAAACCT 58.812 36.000 0.00 0.00 0.00 3.50
6015 7713 3.769739 ACATCGGCTAGATTGGCAATA 57.230 42.857 13.65 0.00 37.52 1.90
6175 7873 7.502226 TGAAATGTACTTCCAGTTTCAGTTCAT 59.498 33.333 14.56 0.00 38.97 2.57
6192 7890 5.462034 CTGCAGAAGCTACTGAAATGTAC 57.538 43.478 8.42 0.00 42.74 2.90
6287 7985 5.832539 TCAGAAGACAAAAAGAGGGAGAT 57.167 39.130 0.00 0.00 0.00 2.75
6482 8183 2.223971 ACACGAAGATACATAAGGCCCG 60.224 50.000 0.00 0.00 0.00 6.13
6496 8197 8.835467 TTTAACTTTTTCTTCATCACACGAAG 57.165 30.769 0.00 0.00 41.05 3.79
6497 8198 9.796120 AATTTAACTTTTTCTTCATCACACGAA 57.204 25.926 0.00 0.00 0.00 3.85
6545 8248 7.118723 AGGCCAAACTTAATACTTGATGATGA 58.881 34.615 5.01 0.00 0.00 2.92
6774 8480 5.368989 TCTTTTTCGGAGAGCTCTTTTTCT 58.631 37.500 19.36 0.00 38.43 2.52
6788 8494 3.003689 TGCTTCTTCTGCTTCTTTTTCGG 59.996 43.478 0.00 0.00 0.00 4.30
6910 8616 8.128582 TGTGATTTATTCTTTGACACACTCAAC 58.871 33.333 0.00 0.00 38.70 3.18
6964 8670 0.447801 CCGGTTCATTCTTGGCTTCG 59.552 55.000 0.00 0.00 0.00 3.79
7035 8742 4.332819 AGCTTGTTGTATGCTCGGATTTAC 59.667 41.667 0.00 0.00 35.02 2.01
7052 8759 4.551388 CTCTTCTTCTTACGACAGCTTGT 58.449 43.478 0.00 0.00 0.00 3.16
7147 8858 8.424274 AAACAATTCTTGCTTTCCTAAAACTG 57.576 30.769 0.00 0.00 0.00 3.16
7189 8901 5.066593 ACTGGACTGGTTTCTGAAATCTTC 58.933 41.667 14.01 10.04 0.00 2.87
7316 9032 7.934120 AGATACATAGCATGAAGTAAACCCTTC 59.066 37.037 0.00 0.00 41.01 3.46
7455 9171 9.265901 CTAAGAGGATCACGACAAATATTGAAT 57.734 33.333 0.00 0.00 37.82 2.57
7569 9285 5.106396 CCAAAAACAATTGTTTGTCTTGCCA 60.106 36.000 31.54 0.00 46.47 4.92
7570 9286 5.123027 TCCAAAAACAATTGTTTGTCTTGCC 59.877 36.000 31.54 0.00 46.47 4.52
7607 9323 7.001099 AGGAGCAATTGAAGTGAATGAAATT 57.999 32.000 10.34 0.00 40.93 1.82
7848 9564 5.128008 GTCCTCTATAGACCTATCAATGGCC 59.872 48.000 0.00 0.00 0.00 5.36
7849 9565 5.717178 TGTCCTCTATAGACCTATCAATGGC 59.283 44.000 0.00 0.00 33.09 4.40
7888 9604 4.600692 TGGAAGTGAACAGATCTTTCGA 57.399 40.909 0.00 0.00 0.00 3.71
7922 9638 3.669536 TCAATGTTATGACCGTGAAGCA 58.330 40.909 0.00 0.00 0.00 3.91
7973 9689 6.184789 TCCAAACAAATACTATCAGGAACCC 58.815 40.000 0.00 0.00 0.00 4.11
8520 10347 4.276926 AGCTCTTTCAGACATTGTGTTTCC 59.723 41.667 0.00 0.00 0.00 3.13
8596 10423 1.045407 AGCTTGTCCAGACGGTTGTA 58.955 50.000 0.00 0.00 0.00 2.41
8621 10448 3.379452 AGCTCCTTTAGACTGCTATGGT 58.621 45.455 0.00 0.00 31.71 3.55
9081 10929 1.270094 TGTCAGGTAGCTCAACAACCG 60.270 52.381 0.00 0.00 38.37 4.44
9218 11066 1.002366 CGCTTGTCAGGTCAGCATAC 58.998 55.000 0.00 0.00 0.00 2.39
9376 11224 6.009589 ACATCCCAATCAACACATAAACTCA 58.990 36.000 0.00 0.00 0.00 3.41
9380 11228 7.232330 TCAAAGACATCCCAATCAACACATAAA 59.768 33.333 0.00 0.00 0.00 1.40
9420 11268 2.298411 AGTGCAGCACAACCAAAAAG 57.702 45.000 27.35 0.00 36.74 2.27
9572 11420 7.907214 AAACATGGAATCTAGTTCTGTGTAC 57.093 36.000 0.00 0.00 35.15 2.90
9876 11752 5.957771 ACAATCTGCTATAGGGAGAACAA 57.042 39.130 1.04 0.00 45.21 2.83
9883 11759 5.221126 GCTGGAAAAACAATCTGCTATAGGG 60.221 44.000 1.04 0.00 0.00 3.53


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

AutoCloner maintained by Alex Coulton.