Multiple sequence alignment - TraesCS2B01G459600

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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 TraesCS2B01G459600 chr2B 100.000 2546 0 0 1 2546 653795283 653797828 0.000000e+00 4702.0
1 TraesCS2B01G459600 chr2B 84.524 924 98 25 815 1699 653808147 653809064 0.000000e+00 872.0
2 TraesCS2B01G459600 chr2B 83.314 851 117 11 853 1692 653788261 653789097 0.000000e+00 761.0
3 TraesCS2B01G459600 chr2B 95.745 47 2 0 2188 2234 653797401 653797447 2.720000e-10 76.8
4 TraesCS2B01G459600 chr2D 93.980 980 50 3 714 1686 547450516 547451493 0.000000e+00 1474.0
5 TraesCS2B01G459600 chr2D 95.039 907 34 4 789 1686 547489046 547489950 0.000000e+00 1415.0
6 TraesCS2B01G459600 chr2D 94.832 716 24 9 1 707 547449716 547450427 0.000000e+00 1105.0
7 TraesCS2B01G459600 chr2D 84.657 919 114 14 805 1699 547559292 547560207 0.000000e+00 891.0
8 TraesCS2B01G459600 chr2D 92.647 612 36 6 1 605 547283440 547284049 0.000000e+00 872.0
9 TraesCS2B01G459600 chr2D 81.854 1014 124 24 715 1690 547278057 547279048 0.000000e+00 798.0
10 TraesCS2B01G459600 chr2D 82.899 883 112 17 791 1650 547426969 547427835 0.000000e+00 758.0
11 TraesCS2B01G459600 chr2D 80.731 903 105 23 825 1686 547574423 547575297 7.680000e-180 640.0
12 TraesCS2B01G459600 chr2D 80.151 398 59 15 317 707 567596204 567596588 1.930000e-71 279.0
13 TraesCS2B01G459600 chr2D 88.426 216 23 2 1866 2080 14820921 14820707 2.510000e-65 259.0
14 TraesCS2B01G459600 chr2D 87.037 216 26 2 1866 2080 634559164 634558950 2.530000e-60 243.0
15 TraesCS2B01G459600 chr2D 91.566 83 6 1 2080 2161 293051226 293051308 2.070000e-21 113.0
16 TraesCS2B01G459600 chr2D 93.750 48 3 0 714 761 547548008 547548055 3.510000e-09 73.1
17 TraesCS2B01G459600 chr2A 94.080 777 42 3 910 1686 690805346 690806118 0.000000e+00 1177.0
18 TraesCS2B01G459600 chr2A 90.616 714 52 8 1 707 690794271 690794976 0.000000e+00 933.0
19 TraesCS2B01G459600 chr2A 84.802 908 111 17 806 1699 691392185 691391291 0.000000e+00 887.0
20 TraesCS2B01G459600 chr2A 83.934 915 113 15 800 1687 690747279 690748186 0.000000e+00 845.0
21 TraesCS2B01G459600 chr2A 90.796 402 22 8 316 707 690804512 690804908 8.070000e-145 523.0
22 TraesCS2B01G459600 chr2A 90.942 276 22 3 58 331 690796705 690796979 4.000000e-98 368.0
23 TraesCS2B01G459600 chr2A 91.339 254 9 3 706 946 690804962 690805215 4.060000e-88 335.0
24 TraesCS2B01G459600 chr2A 76.515 396 82 10 1139 1527 632390833 632391224 3.320000e-49 206.0
25 TraesCS2B01G459600 chr2A 89.634 164 6 3 706 859 690795030 690795192 5.560000e-47 198.0
26 TraesCS2B01G459600 chr1A 82.469 405 53 12 314 707 48983906 48983509 3.140000e-89 339.0
27 TraesCS2B01G459600 chr7A 90.909 231 17 2 2318 2545 683497352 683497123 8.850000e-80 307.0
28 TraesCS2B01G459600 chr7A 81.170 393 53 15 329 707 546511041 546511426 1.920000e-76 296.0
29 TraesCS2B01G459600 chr7A 88.696 230 23 1 2318 2544 7563488 7563259 6.940000e-71 278.0
30 TraesCS2B01G459600 chr7A 89.655 87 8 1 2079 2164 7563697 7563611 2.680000e-20 110.0
31 TraesCS2B01G459600 chr4D 81.034 406 53 17 317 707 130468755 130468359 4.120000e-78 302.0
32 TraesCS2B01G459600 chr4D 91.860 86 6 1 2080 2164 449824884 449824969 4.450000e-23 119.0
33 TraesCS2B01G459600 chr3A 90.476 231 14 4 2318 2545 621922343 621922568 5.330000e-77 298.0
34 TraesCS2B01G459600 chr3A 88.021 192 21 2 1887 2077 621921911 621922101 2.550000e-55 226.0
35 TraesCS2B01G459600 chr3A 90.805 87 7 1 2079 2164 621922146 621922232 5.760000e-22 115.0
36 TraesCS2B01G459600 chr1B 90.086 232 18 3 2318 2545 654243422 654243652 1.920000e-76 296.0
37 TraesCS2B01G459600 chr5B 89.610 231 21 1 2318 2545 381849596 381849366 8.910000e-75 291.0
38 TraesCS2B01G459600 chr3D 89.610 231 21 3 2318 2545 389080395 389080165 8.910000e-75 291.0
39 TraesCS2B01G459600 chr3D 90.741 216 18 2 1863 2077 424481713 424481927 1.150000e-73 287.0
40 TraesCS2B01G459600 chr3D 79.545 396 63 15 1697 2080 35252705 35252316 1.500000e-67 267.0
41 TraesCS2B01G459600 chr3D 88.947 190 16 4 1892 2080 489641239 489641054 1.970000e-56 230.0
42 TraesCS2B01G459600 chr3D 91.667 84 6 1 2079 2161 424481961 424482044 5.760000e-22 115.0
43 TraesCS2B01G459600 chr3D 89.655 87 7 2 2079 2164 489641013 489640928 2.680000e-20 110.0
44 TraesCS2B01G459600 chr1D 89.655 232 19 3 2318 2546 240897532 240897303 8.910000e-75 291.0
45 TraesCS2B01G459600 chr1D 79.851 402 64 12 318 710 441748038 441747645 6.940000e-71 278.0
46 TraesCS2B01G459600 chr1D 89.352 216 20 3 1866 2080 240981041 240980828 4.180000e-68 268.0
47 TraesCS2B01G459600 chr7B 88.745 231 23 3 2318 2545 11613765 11613995 1.930000e-71 279.0
48 TraesCS2B01G459600 chr7B 89.401 217 20 3 1862 2077 10945102 10945316 1.160000e-68 270.0
49 TraesCS2B01G459600 chr7B 90.588 85 7 1 2079 2162 11613556 11613640 7.450000e-21 111.0
50 TraesCS2B01G459600 chr7B 92.308 65 3 2 640 704 467602664 467602726 9.700000e-15 91.6
51 TraesCS2B01G459600 chr5D 88.312 231 23 2 2318 2545 212199769 212199998 8.970000e-70 274.0
52 TraesCS2B01G459600 chr4B 85.887 248 32 2 1831 2078 582743409 582743165 6.990000e-66 261.0
53 TraesCS2B01G459600 chr5A 79.250 400 53 17 317 707 12659852 12660230 4.200000e-63 252.0
54 TraesCS2B01G459600 chr7D 90.805 87 7 1 2079 2164 623783282 623783368 5.760000e-22 115.0
55 TraesCS2B01G459600 chr6D 90.909 88 5 2 2080 2164 60537000 60536913 5.760000e-22 115.0


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 TraesCS2B01G459600 chr2B 653795283 653797828 2545 False 2389.400000 4702 97.872500 1 2546 2 chr2B.!!$F3 2545
1 TraesCS2B01G459600 chr2B 653808147 653809064 917 False 872.000000 872 84.524000 815 1699 1 chr2B.!!$F2 884
2 TraesCS2B01G459600 chr2B 653788261 653789097 836 False 761.000000 761 83.314000 853 1692 1 chr2B.!!$F1 839
3 TraesCS2B01G459600 chr2D 547489046 547489950 904 False 1415.000000 1415 95.039000 789 1686 1 chr2D.!!$F5 897
4 TraesCS2B01G459600 chr2D 547449716 547451493 1777 False 1289.500000 1474 94.406000 1 1686 2 chr2D.!!$F10 1685
5 TraesCS2B01G459600 chr2D 547559292 547560207 915 False 891.000000 891 84.657000 805 1699 1 chr2D.!!$F7 894
6 TraesCS2B01G459600 chr2D 547283440 547284049 609 False 872.000000 872 92.647000 1 605 1 chr2D.!!$F3 604
7 TraesCS2B01G459600 chr2D 547278057 547279048 991 False 798.000000 798 81.854000 715 1690 1 chr2D.!!$F2 975
8 TraesCS2B01G459600 chr2D 547426969 547427835 866 False 758.000000 758 82.899000 791 1650 1 chr2D.!!$F4 859
9 TraesCS2B01G459600 chr2D 547574423 547575297 874 False 640.000000 640 80.731000 825 1686 1 chr2D.!!$F8 861
10 TraesCS2B01G459600 chr2A 691391291 691392185 894 True 887.000000 887 84.802000 806 1699 1 chr2A.!!$R1 893
11 TraesCS2B01G459600 chr2A 690747279 690748186 907 False 845.000000 845 83.934000 800 1687 1 chr2A.!!$F2 887
12 TraesCS2B01G459600 chr2A 690804512 690806118 1606 False 678.333333 1177 92.071667 316 1686 3 chr2A.!!$F4 1370
13 TraesCS2B01G459600 chr2A 690794271 690796979 2708 False 499.666667 933 90.397333 1 859 3 chr2A.!!$F3 858
14 TraesCS2B01G459600 chr3A 621921911 621922568 657 False 213.000000 298 89.767333 1887 2545 3 chr3A.!!$F1 658

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
148 150 0.88649 CTCACTCGCCAACTTGCCTT 60.886 55.0 0.0 0.0 0.0 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1715 3234 0.038526 ATAGTTCCGCGCGATAAGGG 60.039 55.0 34.63 13.91 0.0 3.95 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
92 94 6.012333 ACCTAATATCTAGACAGGGAGATCGT 60.012 42.308 13.33 0.00 34.28 3.73
148 150 0.886490 CTCACTCGCCAACTTGCCTT 60.886 55.000 0.00 0.00 0.00 4.35
183 185 1.544691 GAGACTTCGGCCACTTAGTGA 59.455 52.381 14.66 0.00 35.23 3.41
284 288 5.121611 CACTTGAACTTATTGTATGGACGCA 59.878 40.000 0.00 0.00 0.00 5.24
761 871 6.695278 CACATTTTTGTGTGTACGAAAGGAAT 59.305 34.615 0.00 0.00 43.43 3.01
786 896 7.555965 TGTCTGTTGTGCAAGTATATATCAGT 58.444 34.615 0.00 0.00 0.00 3.41
895 1697 5.678483 CGCTTCATGTTAATTCTCCGAATTG 59.322 40.000 11.06 0.00 0.00 2.32
1144 2571 2.030562 CCGTGGCGTTCCAGTTCT 59.969 61.111 0.00 0.00 44.48 3.01
1546 3035 2.106332 CCGACCCGCCATACTGAC 59.894 66.667 0.00 0.00 0.00 3.51
1586 3095 1.747355 CATCAGGAAAGATGTGGCCAC 59.253 52.381 29.67 29.67 40.35 5.01
1666 3182 4.504858 GGAAATTCGGACTACACTGTGAT 58.495 43.478 15.86 1.48 0.00 3.06
1717 3236 5.261209 CTAGAGCATGTCTAGCATATCCC 57.739 47.826 15.04 0.00 46.64 3.85
1718 3237 3.788933 AGAGCATGTCTAGCATATCCCT 58.211 45.455 0.00 0.00 35.74 4.20
1719 3238 4.166539 AGAGCATGTCTAGCATATCCCTT 58.833 43.478 0.00 0.00 35.74 3.95
1720 3239 5.336945 AGAGCATGTCTAGCATATCCCTTA 58.663 41.667 0.00 0.00 35.74 2.69
1721 3240 5.963253 AGAGCATGTCTAGCATATCCCTTAT 59.037 40.000 0.00 0.00 35.74 1.73
1722 3241 6.098124 AGAGCATGTCTAGCATATCCCTTATC 59.902 42.308 0.00 0.00 35.74 1.75
1723 3242 5.046529 GCATGTCTAGCATATCCCTTATCG 58.953 45.833 0.00 0.00 35.74 2.92
1724 3243 4.720649 TGTCTAGCATATCCCTTATCGC 57.279 45.455 0.00 0.00 0.00 4.58
1725 3244 3.128764 TGTCTAGCATATCCCTTATCGCG 59.871 47.826 0.00 0.00 0.00 5.87
1726 3245 2.099263 TCTAGCATATCCCTTATCGCGC 59.901 50.000 0.00 0.00 0.00 6.86
1727 3246 0.458543 AGCATATCCCTTATCGCGCG 60.459 55.000 26.76 26.76 0.00 6.86
1728 3247 1.421410 GCATATCCCTTATCGCGCGG 61.421 60.000 31.69 13.83 0.00 6.46
1729 3248 0.172578 CATATCCCTTATCGCGCGGA 59.827 55.000 31.69 18.44 0.00 5.54
1730 3249 0.892755 ATATCCCTTATCGCGCGGAA 59.107 50.000 31.69 22.38 0.00 4.30
1731 3250 0.038892 TATCCCTTATCGCGCGGAAC 60.039 55.000 31.69 0.00 0.00 3.62
1732 3251 1.745320 ATCCCTTATCGCGCGGAACT 61.745 55.000 31.69 14.69 0.00 3.01
1733 3252 1.102809 TCCCTTATCGCGCGGAACTA 61.103 55.000 31.69 10.88 0.00 2.24
1734 3253 0.038526 CCCTTATCGCGCGGAACTAT 60.039 55.000 31.69 18.05 0.00 2.12
1735 3254 1.200716 CCCTTATCGCGCGGAACTATA 59.799 52.381 31.69 16.91 0.00 1.31
1736 3255 2.352030 CCCTTATCGCGCGGAACTATAA 60.352 50.000 31.69 22.73 0.00 0.98
1737 3256 3.311106 CCTTATCGCGCGGAACTATAAA 58.689 45.455 31.69 7.32 0.00 1.40
1738 3257 3.364023 CCTTATCGCGCGGAACTATAAAG 59.636 47.826 31.69 15.15 0.00 1.85
1739 3258 2.503920 ATCGCGCGGAACTATAAAGT 57.496 45.000 31.69 0.00 37.65 2.66
1740 3259 3.631145 ATCGCGCGGAACTATAAAGTA 57.369 42.857 31.69 5.57 33.75 2.24
1741 3260 3.419264 TCGCGCGGAACTATAAAGTAA 57.581 42.857 31.69 1.11 33.75 2.24
1742 3261 3.365832 TCGCGCGGAACTATAAAGTAAG 58.634 45.455 31.69 0.00 33.75 2.34
1743 3262 3.111098 CGCGCGGAACTATAAAGTAAGT 58.889 45.455 24.84 0.00 33.75 2.24
1744 3263 4.035091 TCGCGCGGAACTATAAAGTAAGTA 59.965 41.667 31.69 0.00 33.75 2.24
1745 3264 4.913924 CGCGCGGAACTATAAAGTAAGTAT 59.086 41.667 24.84 0.00 33.75 2.12
1746 3265 6.073276 TCGCGCGGAACTATAAAGTAAGTATA 60.073 38.462 31.69 0.00 33.75 1.47
1747 3266 6.578545 CGCGCGGAACTATAAAGTAAGTATAA 59.421 38.462 24.84 0.00 33.75 0.98
1748 3267 7.201215 CGCGCGGAACTATAAAGTAAGTATAAG 60.201 40.741 24.84 0.00 33.75 1.73
1749 3268 7.805071 GCGCGGAACTATAAAGTAAGTATAAGA 59.195 37.037 8.83 0.00 33.75 2.10
1750 3269 9.327529 CGCGGAACTATAAAGTAAGTATAAGAG 57.672 37.037 0.00 0.00 33.75 2.85
1751 3270 9.127006 GCGGAACTATAAAGTAAGTATAAGAGC 57.873 37.037 0.00 0.00 33.75 4.09
1752 3271 9.623350 CGGAACTATAAAGTAAGTATAAGAGCC 57.377 37.037 0.00 0.00 33.75 4.70
1755 3274 9.962783 AACTATAAAGTAAGTATAAGAGCCACG 57.037 33.333 0.00 0.00 33.75 4.94
1756 3275 8.574737 ACTATAAAGTAAGTATAAGAGCCACGG 58.425 37.037 0.00 0.00 32.84 4.94
1757 3276 5.927281 AAAGTAAGTATAAGAGCCACGGA 57.073 39.130 0.00 0.00 0.00 4.69
1758 3277 5.927281 AAGTAAGTATAAGAGCCACGGAA 57.073 39.130 0.00 0.00 0.00 4.30
1759 3278 5.927281 AGTAAGTATAAGAGCCACGGAAA 57.073 39.130 0.00 0.00 0.00 3.13
1760 3279 6.290294 AGTAAGTATAAGAGCCACGGAAAA 57.710 37.500 0.00 0.00 0.00 2.29
1761 3280 6.104665 AGTAAGTATAAGAGCCACGGAAAAC 58.895 40.000 0.00 0.00 0.00 2.43
1773 3292 1.696988 CGGAAAACGCATTTTGAGGG 58.303 50.000 0.00 0.00 38.17 4.30
1774 3293 1.428448 GGAAAACGCATTTTGAGGGC 58.572 50.000 0.00 0.00 38.17 5.19
1775 3294 1.000843 GGAAAACGCATTTTGAGGGCT 59.999 47.619 0.00 0.00 38.17 5.19
1776 3295 2.061028 GAAAACGCATTTTGAGGGCTG 58.939 47.619 0.00 0.00 38.17 4.85
1777 3296 0.318120 AAACGCATTTTGAGGGCTGG 59.682 50.000 0.00 0.00 0.00 4.85
1778 3297 2.158561 AACGCATTTTGAGGGCTGGC 62.159 55.000 0.00 0.00 0.00 4.85
1779 3298 2.182537 GCATTTTGAGGGCTGGCG 59.817 61.111 0.00 0.00 0.00 5.69
1780 3299 2.182537 CATTTTGAGGGCTGGCGC 59.817 61.111 0.00 0.00 0.00 6.53
1781 3300 3.443045 ATTTTGAGGGCTGGCGCG 61.443 61.111 0.00 0.00 36.88 6.86
1798 3317 4.235762 GGGCTGCGGCGGAATAGA 62.236 66.667 14.15 0.00 39.81 1.98
1799 3318 2.967615 GGCTGCGGCGGAATAGAC 60.968 66.667 14.15 0.00 39.81 2.59
1800 3319 2.967615 GCTGCGGCGGAATAGACC 60.968 66.667 14.15 0.00 0.00 3.85
1801 3320 2.280186 CTGCGGCGGAATAGACCC 60.280 66.667 9.78 0.00 0.00 4.46
1802 3321 3.809374 CTGCGGCGGAATAGACCCC 62.809 68.421 9.78 0.00 0.00 4.95
1807 3326 4.946038 CGGAATAGACCCCGCAAA 57.054 55.556 0.00 0.00 39.22 3.68
1808 3327 2.690326 CGGAATAGACCCCGCAAAG 58.310 57.895 0.00 0.00 39.22 2.77
1809 3328 0.107848 CGGAATAGACCCCGCAAAGT 60.108 55.000 0.00 0.00 39.22 2.66
1810 3329 1.664873 GGAATAGACCCCGCAAAGTC 58.335 55.000 0.00 0.00 0.00 3.01
1811 3330 1.287425 GAATAGACCCCGCAAAGTCG 58.713 55.000 0.00 0.00 38.08 4.18
1812 3331 0.899720 AATAGACCCCGCAAAGTCGA 59.100 50.000 0.00 0.00 38.08 4.20
1813 3332 0.899720 ATAGACCCCGCAAAGTCGAA 59.100 50.000 0.00 0.00 38.08 3.71
1814 3333 0.899720 TAGACCCCGCAAAGTCGAAT 59.100 50.000 0.00 0.00 38.08 3.34
1815 3334 0.673644 AGACCCCGCAAAGTCGAATG 60.674 55.000 0.00 0.00 38.08 2.67
1816 3335 1.644786 GACCCCGCAAAGTCGAATGG 61.645 60.000 0.00 0.00 0.00 3.16
1817 3336 1.674322 CCCCGCAAAGTCGAATGGT 60.674 57.895 0.00 0.00 0.00 3.55
1818 3337 0.391927 CCCCGCAAAGTCGAATGGTA 60.392 55.000 0.00 0.00 0.00 3.25
1819 3338 1.444836 CCCGCAAAGTCGAATGGTAA 58.555 50.000 0.00 0.00 0.00 2.85
1820 3339 1.807742 CCCGCAAAGTCGAATGGTAAA 59.192 47.619 0.00 0.00 0.00 2.01
1821 3340 2.226912 CCCGCAAAGTCGAATGGTAAAA 59.773 45.455 0.00 0.00 0.00 1.52
1822 3341 3.231160 CCGCAAAGTCGAATGGTAAAAC 58.769 45.455 0.00 0.00 0.00 2.43
1823 3342 3.304123 CCGCAAAGTCGAATGGTAAAACA 60.304 43.478 0.00 0.00 0.00 2.83
1824 3343 3.662186 CGCAAAGTCGAATGGTAAAACAC 59.338 43.478 0.00 0.00 0.00 3.32
1825 3344 4.602995 GCAAAGTCGAATGGTAAAACACA 58.397 39.130 0.00 0.00 0.00 3.72
1826 3345 4.675114 GCAAAGTCGAATGGTAAAACACAG 59.325 41.667 0.00 0.00 0.00 3.66
1827 3346 4.483476 AAGTCGAATGGTAAAACACAGC 57.517 40.909 0.00 0.00 0.00 4.40
1828 3347 2.812011 AGTCGAATGGTAAAACACAGCC 59.188 45.455 0.00 0.00 0.00 4.85
1829 3348 2.812011 GTCGAATGGTAAAACACAGCCT 59.188 45.455 0.00 0.00 0.00 4.58
1830 3349 2.811431 TCGAATGGTAAAACACAGCCTG 59.189 45.455 0.00 0.00 0.00 4.85
1831 3350 2.668279 CGAATGGTAAAACACAGCCTGC 60.668 50.000 0.00 0.00 0.00 4.85
1832 3351 0.881118 ATGGTAAAACACAGCCTGCG 59.119 50.000 0.00 0.00 0.00 5.18
1833 3352 1.081442 GGTAAAACACAGCCTGCGC 60.081 57.895 0.00 0.00 0.00 6.09
1834 3353 1.081442 GTAAAACACAGCCTGCGCC 60.081 57.895 4.18 0.00 34.57 6.53
1835 3354 2.612567 TAAAACACAGCCTGCGCCG 61.613 57.895 4.18 0.00 34.57 6.46
1849 3368 2.915137 GCCGGCCCTCAAACCAAA 60.915 61.111 18.11 0.00 0.00 3.28
1850 3369 2.503382 GCCGGCCCTCAAACCAAAA 61.503 57.895 18.11 0.00 0.00 2.44
1851 3370 2.034048 GCCGGCCCTCAAACCAAAAA 62.034 55.000 18.11 0.00 0.00 1.94
1937 3456 8.986477 AATACAGCAATCTTCCAAATTACAAC 57.014 30.769 0.00 0.00 0.00 3.32
1939 3458 6.815089 ACAGCAATCTTCCAAATTACAACAA 58.185 32.000 0.00 0.00 0.00 2.83
2012 3532 9.161629 TCTGAATACAACAACGATACAAATCAT 57.838 29.630 0.00 0.00 31.93 2.45
2077 3597 1.450669 GCCCATGCCTTTGCCAATG 60.451 57.895 0.00 0.00 36.33 2.82
2083 3646 1.422531 TGCCTTTGCCAATGGTCTTT 58.577 45.000 10.69 0.00 36.33 2.52
2089 3652 5.473162 GCCTTTGCCAATGGTCTTTAATTTT 59.527 36.000 10.69 0.00 0.00 1.82
2091 3654 6.149308 CCTTTGCCAATGGTCTTTAATTTTCC 59.851 38.462 0.00 0.00 0.00 3.13
2093 3656 4.524714 TGCCAATGGTCTTTAATTTTCCGA 59.475 37.500 0.00 0.00 0.00 4.55
2098 3661 8.413229 CCAATGGTCTTTAATTTTCCGATATGT 58.587 33.333 0.00 0.00 0.00 2.29
2147 3711 1.476891 TCTCTAGATGGTTCACACGGC 59.523 52.381 0.00 0.00 0.00 5.68
2196 3760 2.531852 AGGAACTCCGGTCAGGGT 59.468 61.111 0.00 0.00 42.08 4.34
2197 3761 1.609794 AGGAACTCCGGTCAGGGTC 60.610 63.158 0.00 0.00 42.08 4.46
2198 3762 1.609794 GGAACTCCGGTCAGGGTCT 60.610 63.158 0.00 0.00 41.52 3.85
2199 3763 1.605971 GGAACTCCGGTCAGGGTCTC 61.606 65.000 0.00 0.00 41.52 3.36
2200 3764 0.612453 GAACTCCGGTCAGGGTCTCT 60.612 60.000 0.00 0.00 41.52 3.10
2201 3765 0.702902 AACTCCGGTCAGGGTCTCTA 59.297 55.000 0.00 0.00 41.52 2.43
2202 3766 0.256464 ACTCCGGTCAGGGTCTCTAG 59.744 60.000 0.00 0.00 41.52 2.43
2203 3767 0.547075 CTCCGGTCAGGGTCTCTAGA 59.453 60.000 0.00 0.00 41.52 2.43
2204 3768 1.144093 CTCCGGTCAGGGTCTCTAGAT 59.856 57.143 0.00 0.00 41.52 1.98
2205 3769 1.133761 TCCGGTCAGGGTCTCTAGATG 60.134 57.143 0.00 0.00 41.52 2.90
2206 3770 1.323412 CGGTCAGGGTCTCTAGATGG 58.677 60.000 0.00 0.00 0.00 3.51
2207 3771 1.410365 CGGTCAGGGTCTCTAGATGGT 60.410 57.143 0.00 0.00 0.00 3.55
2208 3772 2.753247 GGTCAGGGTCTCTAGATGGTT 58.247 52.381 0.00 0.00 0.00 3.67
2209 3773 2.696187 GGTCAGGGTCTCTAGATGGTTC 59.304 54.545 0.00 0.00 0.00 3.62
2210 3774 3.366396 GTCAGGGTCTCTAGATGGTTCA 58.634 50.000 0.00 0.00 0.00 3.18
2211 3775 3.131400 GTCAGGGTCTCTAGATGGTTCAC 59.869 52.174 0.00 0.00 0.00 3.18
2212 3776 3.099905 CAGGGTCTCTAGATGGTTCACA 58.900 50.000 0.00 0.00 0.00 3.58
2213 3777 3.100671 AGGGTCTCTAGATGGTTCACAC 58.899 50.000 0.00 0.00 0.00 3.82
2214 3778 2.159226 GGGTCTCTAGATGGTTCACACG 60.159 54.545 0.00 0.00 0.00 4.49
2215 3779 2.159226 GGTCTCTAGATGGTTCACACGG 60.159 54.545 0.00 0.00 0.00 4.94
2216 3780 1.476891 TCTCTAGATGGTTCACACGGC 59.523 52.381 0.00 0.00 0.00 5.68
2217 3781 1.478510 CTCTAGATGGTTCACACGGCT 59.521 52.381 0.00 0.00 0.00 5.52
2218 3782 2.688446 CTCTAGATGGTTCACACGGCTA 59.312 50.000 0.00 0.00 0.00 3.93
2219 3783 2.426024 TCTAGATGGTTCACACGGCTAC 59.574 50.000 0.00 0.00 0.00 3.58
2220 3784 0.249398 AGATGGTTCACACGGCTACC 59.751 55.000 0.00 0.00 0.00 3.18
2234 3798 3.255969 GGCTACCGACATTTTCCTACA 57.744 47.619 0.00 0.00 0.00 2.74
2235 3799 3.195661 GGCTACCGACATTTTCCTACAG 58.804 50.000 0.00 0.00 0.00 2.74
2266 3830 1.769026 TCAGGTCCCTCTCATCTTCG 58.231 55.000 0.00 0.00 0.00 3.79
2275 3839 5.417266 GTCCCTCTCATCTTCGATGATCATA 59.583 44.000 8.54 0.00 0.00 2.15
2285 3849 8.648968 CATCTTCGATGATCATATTGTGAAGAG 58.351 37.037 24.85 18.36 42.45 2.85
2306 3870 2.030805 GTCACACAATGTTTCTCAGGGC 60.031 50.000 0.00 0.00 0.00 5.19
2358 3949 5.547666 ACCCCAAAGGCTCTTTCAATATTTT 59.452 36.000 0.00 0.00 40.58 1.82
2375 3966 1.178534 TTTTTCGGGCAGCCTCTTGG 61.179 55.000 12.43 0.00 0.00 3.61
2376 3967 2.063015 TTTTCGGGCAGCCTCTTGGA 62.063 55.000 12.43 0.00 34.57 3.53
2388 3979 2.353109 GCCTCTTGGACCTTTGCAAATC 60.353 50.000 13.23 8.30 31.86 2.17
2391 3982 3.303938 TCTTGGACCTTTGCAAATCCAA 58.696 40.909 31.16 31.16 46.53 3.53
2403 3994 4.102035 GCAAATCCAACTTGCTTCCTAG 57.898 45.455 0.41 0.00 44.66 3.02
2415 4006 5.188948 ACTTGCTTCCTAGTTTTGGGTTTTT 59.811 36.000 0.00 0.00 0.00 1.94
2438 4029 7.815840 TTTGATGGTCTTGACAAATGTAGAA 57.184 32.000 3.08 0.00 0.00 2.10
2492 4136 2.455557 CCCTTTGTGTATTGATGCCCA 58.544 47.619 0.00 0.00 0.00 5.36
2493 4137 3.033184 CCCTTTGTGTATTGATGCCCAT 58.967 45.455 0.00 0.00 0.00 4.00
2494 4138 3.451902 CCCTTTGTGTATTGATGCCCATT 59.548 43.478 0.00 0.00 0.00 3.16
2514 4196 2.212652 TCACTGTGTAGTTGCAAGCAG 58.787 47.619 0.00 6.38 34.07 4.24
2545 4230 6.371548 CCACTAGCAAGTCTAGCAAACAAATA 59.628 38.462 0.00 0.00 46.93 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 1.814169 GCCCGCCTAAGAAAGACCG 60.814 63.158 0.00 0.00 0.00 4.79
65 67 6.781857 TCTCCCTGTCTAGATATTAGGTGA 57.218 41.667 0.00 0.00 0.00 4.02
92 94 1.788229 TCATAAGACCCAGGCGATCA 58.212 50.000 0.00 0.00 0.00 2.92
148 150 2.219164 TCTCAGAGGGCTTGCTGCA 61.219 57.895 0.00 0.00 45.15 4.41
284 288 4.142249 GCCCCGCTTTATAAAGTCAACAAT 60.142 41.667 22.94 0.00 38.28 2.71
666 682 7.512992 TCCATGAAGGCCTTAATTTTGAAAAA 58.487 30.769 20.54 0.00 37.29 1.94
707 725 6.239945 CAAATGAAATAAATTTGTTCGCCCG 58.760 36.000 0.00 0.00 39.24 6.13
761 871 7.492344 CACTGATATATACTTGCACAACAGACA 59.508 37.037 0.00 0.00 0.00 3.41
786 896 3.402110 TGTACGTACGACTTCCTTCTCA 58.598 45.455 24.41 2.93 0.00 3.27
1586 3095 8.939929 ACGCCTTATTTCTCATCATGTATTATG 58.060 33.333 0.00 0.00 0.00 1.90
1636 3148 6.381994 AGTGTAGTCCGAATTTCCCATTACTA 59.618 38.462 0.00 0.00 0.00 1.82
1699 3218 5.163468 CGATAAGGGATATGCTAGACATGCT 60.163 44.000 9.16 0.00 40.06 3.79
1700 3219 5.046529 CGATAAGGGATATGCTAGACATGC 58.953 45.833 9.16 0.00 40.06 4.06
1701 3220 5.046529 GCGATAAGGGATATGCTAGACATG 58.953 45.833 9.16 0.00 40.06 3.21
1702 3221 4.202060 CGCGATAAGGGATATGCTAGACAT 60.202 45.833 0.00 0.00 37.62 3.06
1703 3222 3.128764 CGCGATAAGGGATATGCTAGACA 59.871 47.826 0.00 0.00 34.27 3.41
1704 3223 3.696898 CGCGATAAGGGATATGCTAGAC 58.303 50.000 0.00 0.00 34.27 2.59
1705 3224 2.099263 GCGCGATAAGGGATATGCTAGA 59.901 50.000 12.10 0.00 34.27 2.43
1706 3225 2.464865 GCGCGATAAGGGATATGCTAG 58.535 52.381 12.10 0.00 34.27 3.42
1707 3226 1.202256 CGCGCGATAAGGGATATGCTA 60.202 52.381 28.94 0.00 34.27 3.49
1708 3227 0.458543 CGCGCGATAAGGGATATGCT 60.459 55.000 28.94 0.00 34.27 3.79
1709 3228 1.421410 CCGCGCGATAAGGGATATGC 61.421 60.000 34.63 0.00 34.27 3.14
1710 3229 0.172578 TCCGCGCGATAAGGGATATG 59.827 55.000 34.63 9.91 34.27 1.78
1711 3230 0.892755 TTCCGCGCGATAAGGGATAT 59.107 50.000 34.63 0.00 34.27 1.63
1712 3231 0.038892 GTTCCGCGCGATAAGGGATA 60.039 55.000 34.63 6.80 34.27 2.59
1713 3232 1.300697 GTTCCGCGCGATAAGGGAT 60.301 57.895 34.63 0.00 34.27 3.85
1714 3233 1.102809 TAGTTCCGCGCGATAAGGGA 61.103 55.000 34.63 16.39 34.27 4.20
1715 3234 0.038526 ATAGTTCCGCGCGATAAGGG 60.039 55.000 34.63 13.91 0.00 3.95
1716 3235 2.624316 TATAGTTCCGCGCGATAAGG 57.376 50.000 34.63 14.77 0.00 2.69
1717 3236 3.979495 ACTTTATAGTTCCGCGCGATAAG 59.021 43.478 34.63 21.14 0.00 1.73
1718 3237 3.968649 ACTTTATAGTTCCGCGCGATAA 58.031 40.909 34.63 22.75 0.00 1.75
1719 3238 3.631145 ACTTTATAGTTCCGCGCGATA 57.369 42.857 34.63 17.87 0.00 2.92
1720 3239 2.503920 ACTTTATAGTTCCGCGCGAT 57.496 45.000 34.63 19.05 0.00 4.58
1721 3240 3.181497 ACTTACTTTATAGTTCCGCGCGA 60.181 43.478 34.63 15.16 35.78 5.87
1722 3241 3.111098 ACTTACTTTATAGTTCCGCGCG 58.889 45.455 25.67 25.67 35.78 6.86
1723 3242 7.805071 TCTTATACTTACTTTATAGTTCCGCGC 59.195 37.037 0.00 0.00 35.78 6.86
1724 3243 9.327529 CTCTTATACTTACTTTATAGTTCCGCG 57.672 37.037 0.00 0.00 35.78 6.46
1725 3244 9.127006 GCTCTTATACTTACTTTATAGTTCCGC 57.873 37.037 0.00 0.00 35.78 5.54
1726 3245 9.623350 GGCTCTTATACTTACTTTATAGTTCCG 57.377 37.037 0.00 0.00 35.78 4.30
1729 3248 9.962783 CGTGGCTCTTATACTTACTTTATAGTT 57.037 33.333 0.00 0.00 35.78 2.24
1730 3249 8.574737 CCGTGGCTCTTATACTTACTTTATAGT 58.425 37.037 0.00 0.00 38.44 2.12
1731 3250 8.790718 TCCGTGGCTCTTATACTTACTTTATAG 58.209 37.037 0.00 0.00 0.00 1.31
1732 3251 8.696043 TCCGTGGCTCTTATACTTACTTTATA 57.304 34.615 0.00 0.00 0.00 0.98
1733 3252 7.592885 TCCGTGGCTCTTATACTTACTTTAT 57.407 36.000 0.00 0.00 0.00 1.40
1734 3253 7.408756 TTCCGTGGCTCTTATACTTACTTTA 57.591 36.000 0.00 0.00 0.00 1.85
1735 3254 5.927281 TCCGTGGCTCTTATACTTACTTT 57.073 39.130 0.00 0.00 0.00 2.66
1736 3255 5.927281 TTCCGTGGCTCTTATACTTACTT 57.073 39.130 0.00 0.00 0.00 2.24
1737 3256 5.927281 TTTCCGTGGCTCTTATACTTACT 57.073 39.130 0.00 0.00 0.00 2.24
1738 3257 5.005107 CGTTTTCCGTGGCTCTTATACTTAC 59.995 44.000 0.00 0.00 0.00 2.34
1739 3258 5.104374 CGTTTTCCGTGGCTCTTATACTTA 58.896 41.667 0.00 0.00 0.00 2.24
1740 3259 3.930848 CGTTTTCCGTGGCTCTTATACTT 59.069 43.478 0.00 0.00 0.00 2.24
1741 3260 3.518590 CGTTTTCCGTGGCTCTTATACT 58.481 45.455 0.00 0.00 0.00 2.12
1742 3261 2.030091 GCGTTTTCCGTGGCTCTTATAC 59.970 50.000 0.00 0.00 39.32 1.47
1743 3262 2.273557 GCGTTTTCCGTGGCTCTTATA 58.726 47.619 0.00 0.00 39.32 0.98
1744 3263 1.084289 GCGTTTTCCGTGGCTCTTAT 58.916 50.000 0.00 0.00 39.32 1.73
1745 3264 0.249953 TGCGTTTTCCGTGGCTCTTA 60.250 50.000 0.00 0.00 39.32 2.10
1746 3265 0.889186 ATGCGTTTTCCGTGGCTCTT 60.889 50.000 0.00 0.00 39.32 2.85
1747 3266 0.889186 AATGCGTTTTCCGTGGCTCT 60.889 50.000 0.00 0.00 39.32 4.09
1748 3267 0.039527 AAATGCGTTTTCCGTGGCTC 60.040 50.000 0.00 0.00 39.32 4.70
1749 3268 0.387565 AAAATGCGTTTTCCGTGGCT 59.612 45.000 10.90 0.00 39.32 4.75
1750 3269 0.506506 CAAAATGCGTTTTCCGTGGC 59.493 50.000 13.72 0.00 35.41 5.01
1751 3270 2.050691 CTCAAAATGCGTTTTCCGTGG 58.949 47.619 13.72 3.15 35.41 4.94
1752 3271 2.050691 CCTCAAAATGCGTTTTCCGTG 58.949 47.619 13.72 4.19 35.41 4.94
1753 3272 1.000717 CCCTCAAAATGCGTTTTCCGT 60.001 47.619 13.72 0.00 35.41 4.69
1754 3273 1.696988 CCCTCAAAATGCGTTTTCCG 58.303 50.000 13.72 7.74 35.41 4.30
1755 3274 1.000843 AGCCCTCAAAATGCGTTTTCC 59.999 47.619 13.72 1.39 35.41 3.13
1756 3275 2.061028 CAGCCCTCAAAATGCGTTTTC 58.939 47.619 13.72 2.95 35.41 2.29
1757 3276 1.270252 CCAGCCCTCAAAATGCGTTTT 60.270 47.619 10.90 10.90 38.03 2.43
1758 3277 0.318120 CCAGCCCTCAAAATGCGTTT 59.682 50.000 0.00 0.00 0.00 3.60
1759 3278 1.966762 CCAGCCCTCAAAATGCGTT 59.033 52.632 0.00 0.00 0.00 4.84
1760 3279 2.639327 GCCAGCCCTCAAAATGCGT 61.639 57.895 0.00 0.00 0.00 5.24
1761 3280 2.182537 GCCAGCCCTCAAAATGCG 59.817 61.111 0.00 0.00 0.00 4.73
1762 3281 2.182537 CGCCAGCCCTCAAAATGC 59.817 61.111 0.00 0.00 0.00 3.56
1763 3282 2.182537 GCGCCAGCCCTCAAAATG 59.817 61.111 0.00 0.00 37.42 2.32
1764 3283 3.443045 CGCGCCAGCCCTCAAAAT 61.443 61.111 0.00 0.00 41.18 1.82
1781 3300 4.235762 TCTATTCCGCCGCAGCCC 62.236 66.667 0.00 0.00 34.57 5.19
1782 3301 2.967615 GTCTATTCCGCCGCAGCC 60.968 66.667 0.00 0.00 34.57 4.85
1783 3302 2.967615 GGTCTATTCCGCCGCAGC 60.968 66.667 0.00 0.00 0.00 5.25
1784 3303 2.280186 GGGTCTATTCCGCCGCAG 60.280 66.667 0.00 0.00 0.00 5.18
1785 3304 3.857038 GGGGTCTATTCCGCCGCA 61.857 66.667 0.00 0.00 35.61 5.69
1786 3305 4.963428 CGGGGTCTATTCCGCCGC 62.963 72.222 2.97 0.00 39.78 6.53
1791 3310 1.664873 GACTTTGCGGGGTCTATTCC 58.335 55.000 0.00 0.00 0.00 3.01
1792 3311 1.134907 TCGACTTTGCGGGGTCTATTC 60.135 52.381 0.00 0.00 0.00 1.75
1793 3312 0.899720 TCGACTTTGCGGGGTCTATT 59.100 50.000 0.00 0.00 0.00 1.73
1794 3313 0.899720 TTCGACTTTGCGGGGTCTAT 59.100 50.000 0.00 0.00 0.00 1.98
1795 3314 0.899720 ATTCGACTTTGCGGGGTCTA 59.100 50.000 0.00 0.00 0.00 2.59
1796 3315 0.673644 CATTCGACTTTGCGGGGTCT 60.674 55.000 0.00 0.00 0.00 3.85
1797 3316 1.644786 CCATTCGACTTTGCGGGGTC 61.645 60.000 0.00 0.00 0.00 4.46
1798 3317 1.674322 CCATTCGACTTTGCGGGGT 60.674 57.895 0.00 0.00 0.00 4.95
1799 3318 0.391927 TACCATTCGACTTTGCGGGG 60.392 55.000 0.00 0.00 0.00 5.73
1800 3319 1.444836 TTACCATTCGACTTTGCGGG 58.555 50.000 0.00 0.00 0.00 6.13
1801 3320 3.231160 GTTTTACCATTCGACTTTGCGG 58.769 45.455 0.00 0.00 0.00 5.69
1802 3321 3.662186 GTGTTTTACCATTCGACTTTGCG 59.338 43.478 0.00 0.00 0.00 4.85
1803 3322 4.602995 TGTGTTTTACCATTCGACTTTGC 58.397 39.130 0.00 0.00 0.00 3.68
1804 3323 4.675114 GCTGTGTTTTACCATTCGACTTTG 59.325 41.667 0.00 0.00 0.00 2.77
1805 3324 4.261447 GGCTGTGTTTTACCATTCGACTTT 60.261 41.667 0.00 0.00 0.00 2.66
1806 3325 3.252458 GGCTGTGTTTTACCATTCGACTT 59.748 43.478 0.00 0.00 0.00 3.01
1807 3326 2.812011 GGCTGTGTTTTACCATTCGACT 59.188 45.455 0.00 0.00 0.00 4.18
1808 3327 2.812011 AGGCTGTGTTTTACCATTCGAC 59.188 45.455 0.00 0.00 0.00 4.20
1809 3328 2.811431 CAGGCTGTGTTTTACCATTCGA 59.189 45.455 6.28 0.00 0.00 3.71
1810 3329 2.668279 GCAGGCTGTGTTTTACCATTCG 60.668 50.000 17.16 0.00 0.00 3.34
1811 3330 2.668279 CGCAGGCTGTGTTTTACCATTC 60.668 50.000 19.69 0.00 0.00 2.67
1812 3331 1.269448 CGCAGGCTGTGTTTTACCATT 59.731 47.619 19.69 0.00 0.00 3.16
1813 3332 0.881118 CGCAGGCTGTGTTTTACCAT 59.119 50.000 19.69 0.00 0.00 3.55
1814 3333 1.791103 GCGCAGGCTGTGTTTTACCA 61.791 55.000 27.16 0.00 35.83 3.25
1815 3334 1.081442 GCGCAGGCTGTGTTTTACC 60.081 57.895 27.16 7.57 35.83 2.85
1816 3335 4.533566 GCGCAGGCTGTGTTTTAC 57.466 55.556 27.16 8.28 35.83 2.01
1832 3351 2.034048 TTTTTGGTTTGAGGGCCGGC 62.034 55.000 21.18 21.18 0.00 6.13
1833 3352 2.128729 TTTTTGGTTTGAGGGCCGG 58.871 52.632 0.00 0.00 0.00 6.13
1984 3503 9.988350 GATTTGTATCGTTGTTGTATTCAGAAT 57.012 29.630 0.20 0.20 0.00 2.40
2033 3553 8.921670 CAGTAATAAAACCTGCCATTTTTACAC 58.078 33.333 0.00 0.00 31.64 2.90
2089 3652 5.808366 AGCATTCCTTTAGACATATCGGA 57.192 39.130 0.00 0.00 0.00 4.55
2091 3654 6.851222 ACAAGCATTCCTTTAGACATATCG 57.149 37.500 0.00 0.00 0.00 2.92
2093 3656 7.095060 CGCATACAAGCATTCCTTTAGACATAT 60.095 37.037 0.00 0.00 0.00 1.78
2098 3661 3.876914 CCGCATACAAGCATTCCTTTAGA 59.123 43.478 0.00 0.00 0.00 2.10
2101 3664 2.423538 GACCGCATACAAGCATTCCTTT 59.576 45.455 0.00 0.00 0.00 3.11
2166 3730 3.771798 GGAGTTCCTCTACGACAATGTC 58.228 50.000 2.75 2.75 0.00 3.06
2167 3731 3.870633 GGAGTTCCTCTACGACAATGT 57.129 47.619 0.00 0.00 0.00 2.71
2175 3739 1.104630 CCTGACCGGAGTTCCTCTAC 58.895 60.000 9.46 0.00 33.16 2.59
2176 3740 0.033405 CCCTGACCGGAGTTCCTCTA 60.033 60.000 9.46 0.00 33.16 2.43
2177 3741 1.305381 CCCTGACCGGAGTTCCTCT 60.305 63.158 9.46 0.00 33.16 3.69
2178 3742 1.605971 GACCCTGACCGGAGTTCCTC 61.606 65.000 9.46 0.00 33.16 3.71
2179 3743 1.609794 GACCCTGACCGGAGTTCCT 60.610 63.158 9.46 0.00 33.16 3.36
2180 3744 1.605971 GAGACCCTGACCGGAGTTCC 61.606 65.000 9.46 0.00 33.16 3.62
2181 3745 0.612453 AGAGACCCTGACCGGAGTTC 60.612 60.000 9.46 0.00 33.16 3.01
2182 3746 0.702902 TAGAGACCCTGACCGGAGTT 59.297 55.000 9.46 0.00 33.16 3.01
2183 3747 0.256464 CTAGAGACCCTGACCGGAGT 59.744 60.000 9.46 0.00 33.16 3.85
2184 3748 0.547075 TCTAGAGACCCTGACCGGAG 59.453 60.000 9.46 0.00 33.16 4.63
2185 3749 1.133761 CATCTAGAGACCCTGACCGGA 60.134 57.143 9.46 0.00 33.16 5.14
2186 3750 1.323412 CATCTAGAGACCCTGACCGG 58.677 60.000 0.00 0.00 0.00 5.28
2187 3751 1.323412 CCATCTAGAGACCCTGACCG 58.677 60.000 0.00 0.00 0.00 4.79
2188 3752 2.463047 ACCATCTAGAGACCCTGACC 57.537 55.000 0.00 0.00 0.00 4.02
2189 3753 3.131400 GTGAACCATCTAGAGACCCTGAC 59.869 52.174 0.00 0.00 0.00 3.51
2190 3754 3.245622 TGTGAACCATCTAGAGACCCTGA 60.246 47.826 0.00 0.00 0.00 3.86
2191 3755 3.099905 TGTGAACCATCTAGAGACCCTG 58.900 50.000 0.00 0.00 0.00 4.45
2192 3756 3.100671 GTGTGAACCATCTAGAGACCCT 58.899 50.000 0.00 0.00 0.00 4.34
2193 3757 2.159226 CGTGTGAACCATCTAGAGACCC 60.159 54.545 0.00 0.00 0.00 4.46
2194 3758 2.159226 CCGTGTGAACCATCTAGAGACC 60.159 54.545 0.00 0.00 0.00 3.85
2195 3759 2.735762 GCCGTGTGAACCATCTAGAGAC 60.736 54.545 0.00 0.00 0.00 3.36
2196 3760 1.476891 GCCGTGTGAACCATCTAGAGA 59.523 52.381 0.00 0.00 0.00 3.10
2197 3761 1.478510 AGCCGTGTGAACCATCTAGAG 59.521 52.381 0.00 0.00 0.00 2.43
2198 3762 1.557099 AGCCGTGTGAACCATCTAGA 58.443 50.000 0.00 0.00 0.00 2.43
2199 3763 2.481449 GGTAGCCGTGTGAACCATCTAG 60.481 54.545 0.00 0.00 32.04 2.43
2200 3764 1.479323 GGTAGCCGTGTGAACCATCTA 59.521 52.381 0.00 0.00 32.04 1.98
2201 3765 0.249398 GGTAGCCGTGTGAACCATCT 59.751 55.000 0.00 0.00 32.04 2.90
2202 3766 1.082117 CGGTAGCCGTGTGAACCATC 61.082 60.000 0.00 0.00 42.73 3.51
2203 3767 1.079405 CGGTAGCCGTGTGAACCAT 60.079 57.895 0.00 0.00 42.73 3.55
2204 3768 2.340809 CGGTAGCCGTGTGAACCA 59.659 61.111 0.00 0.00 42.73 3.67
2214 3778 3.195661 CTGTAGGAAAATGTCGGTAGCC 58.804 50.000 0.00 0.00 0.00 3.93
2215 3779 3.118884 TCCTGTAGGAAAATGTCGGTAGC 60.119 47.826 0.00 0.00 42.18 3.58
2216 3780 4.730949 TCCTGTAGGAAAATGTCGGTAG 57.269 45.455 0.00 0.00 42.18 3.18
2250 3814 2.311463 TCATCGAAGATGAGAGGGACC 58.689 52.381 8.48 0.00 45.12 4.46
2285 3849 2.030805 GCCCTGAGAAACATTGTGTGAC 60.031 50.000 0.00 0.00 0.00 3.67
2289 3853 1.466167 CGAGCCCTGAGAAACATTGTG 59.534 52.381 0.00 0.00 0.00 3.33
2294 3858 0.603707 CAAGCGAGCCCTGAGAAACA 60.604 55.000 0.00 0.00 0.00 2.83
2295 3859 0.603975 ACAAGCGAGCCCTGAGAAAC 60.604 55.000 0.00 0.00 0.00 2.78
2297 3861 1.293498 GACAAGCGAGCCCTGAGAA 59.707 57.895 0.00 0.00 0.00 2.87
2299 3863 2.125350 GGACAAGCGAGCCCTGAG 60.125 66.667 0.00 0.00 0.00 3.35
2358 3949 2.034066 CCAAGAGGCTGCCCGAAA 59.966 61.111 16.57 0.00 35.76 3.46
2367 3958 1.039856 TTTGCAAAGGTCCAAGAGGC 58.960 50.000 8.05 0.00 33.74 4.70
2388 3979 3.005791 CCCAAAACTAGGAAGCAAGTTGG 59.994 47.826 4.75 0.00 36.12 3.77
2391 3982 3.595190 ACCCAAAACTAGGAAGCAAGT 57.405 42.857 0.00 0.00 0.00 3.16
2415 4006 6.770303 TGTTCTACATTTGTCAAGACCATCAA 59.230 34.615 0.00 0.00 0.00 2.57
2438 4029 4.323562 GCTGATGGTACTTACCCTTCTTGT 60.324 45.833 2.89 0.00 45.87 3.16
2492 4136 3.213506 TGCTTGCAACTACACAGTGAAT 58.786 40.909 7.81 0.00 34.36 2.57
2493 4137 2.613595 CTGCTTGCAACTACACAGTGAA 59.386 45.455 7.81 0.00 34.36 3.18
2494 4138 2.212652 CTGCTTGCAACTACACAGTGA 58.787 47.619 7.81 0.00 34.36 3.41
2514 4196 3.491792 GCTAGACTTGCTAGTGGTGATCC 60.492 52.174 5.27 0.00 46.81 3.36


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

AutoCloner maintained by Alex Coulton.