Multiple sequence alignment - TraesCS6B01G219200

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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 TraesCS6B01G219200 chr6B 100.000 2849 0 0 1 2849 307187840 307184992 0.000000e+00 5262.0
1 TraesCS6B01G219200 chr6B 85.246 122 14 4 2443 2562 673950072 673950191 3.850000e-24 122.0
2 TraesCS6B01G219200 chr6A 96.948 1245 29 3 936 2180 332189551 332188316 0.000000e+00 2080.0
3 TraesCS6B01G219200 chr6A 89.564 527 41 8 2324 2848 332188252 332187738 0.000000e+00 656.0
4 TraesCS6B01G219200 chr6A 92.982 114 7 1 2171 2284 27130997 27130885 6.310000e-37 165.0
5 TraesCS6B01G219200 chr6A 85.965 114 8 4 707 820 332233019 332232914 6.450000e-22 115.0
6 TraesCS6B01G219200 chr6A 82.456 114 11 5 707 820 332197133 332197029 1.090000e-14 91.6
7 TraesCS6B01G219200 chr6D 92.123 1333 55 22 707 2012 259293756 259292447 0.000000e+00 1834.0
8 TraesCS6B01G219200 chr6D 95.517 290 12 1 2560 2848 259292119 259291830 2.000000e-126 462.0
9 TraesCS6B01G219200 chr6D 99.194 124 1 0 2324 2447 259292240 259292117 1.030000e-54 224.0
10 TraesCS6B01G219200 chr6D 93.750 144 8 1 2036 2179 259292456 259292314 6.180000e-52 215.0
11 TraesCS6B01G219200 chr6D 88.679 106 11 1 2462 2566 443851022 443850917 8.280000e-26 128.0
12 TraesCS6B01G219200 chr6D 97.674 43 1 0 2282 2324 259292316 259292274 1.090000e-09 75.0
13 TraesCS6B01G219200 chr7B 88.511 705 59 14 12 704 698113088 698113782 0.000000e+00 833.0
14 TraesCS6B01G219200 chr7B 88.085 705 62 14 12 704 698019251 698019945 0.000000e+00 817.0
15 TraesCS6B01G219200 chr7B 85.616 438 47 10 277 704 698011676 698012107 2.010000e-121 446.0
16 TraesCS6B01G219200 chr7B 85.616 438 47 10 277 704 698106056 698106487 2.010000e-121 446.0
17 TraesCS6B01G219200 chr7B 92.241 116 8 1 2175 2289 146961170 146961055 2.270000e-36 163.0
18 TraesCS6B01G219200 chr7B 89.313 131 10 4 2156 2284 699182726 699182598 8.170000e-36 161.0
19 TraesCS6B01G219200 chr7B 86.441 118 16 0 2445 2562 304137817 304137934 2.300000e-26 130.0
20 TraesCS6B01G219200 chr7B 100.000 28 0 0 2324 2351 604782611 604782584 5.000000e-03 52.8
21 TraesCS6B01G219200 chr3D 85.562 658 68 19 57 703 349869272 349869913 0.000000e+00 664.0
22 TraesCS6B01G219200 chr3D 92.308 117 9 0 2174 2290 582122929 582123045 1.760000e-37 167.0
23 TraesCS6B01G219200 chr3D 100.000 28 0 0 2324 2351 361660788 361660761 5.000000e-03 52.8
24 TraesCS6B01G219200 chrUn 87.650 583 52 12 133 704 378532375 378532948 0.000000e+00 660.0
25 TraesCS6B01G219200 chrUn 93.130 262 12 4 12 271 419038670 419038413 2.070000e-101 379.0
26 TraesCS6B01G219200 chrUn 93.130 262 12 4 12 271 419151489 419151232 2.070000e-101 379.0
27 TraesCS6B01G219200 chrUn 93.130 262 12 4 12 271 419235096 419235353 2.070000e-101 379.0
28 TraesCS6B01G219200 chr4D 85.388 657 70 19 57 703 214339012 214338372 0.000000e+00 658.0
29 TraesCS6B01G219200 chr5A 79.296 710 117 26 9 703 10551633 10552327 1.190000e-128 470.0
30 TraesCS6B01G219200 chr5D 86.499 437 43 12 277 703 35851038 35851468 1.550000e-127 466.0
31 TraesCS6B01G219200 chr4B 94.545 110 6 0 2175 2284 653417787 653417896 1.360000e-38 171.0
32 TraesCS6B01G219200 chr4B 89.908 109 10 1 2462 2569 81985221 81985113 3.830000e-29 139.0
33 TraesCS6B01G219200 chr4B 83.740 123 20 0 2441 2563 660702601 660702479 1.790000e-22 117.0
34 TraesCS6B01G219200 chr3A 94.545 110 6 0 2175 2284 630924425 630924316 1.360000e-38 171.0
35 TraesCS6B01G219200 chr1B 92.500 120 8 1 2176 2294 457004100 457003981 1.360000e-38 171.0
36 TraesCS6B01G219200 chr7D 92.241 116 9 0 2169 2284 370063033 370062918 6.310000e-37 165.0
37 TraesCS6B01G219200 chr2B 88.148 135 16 0 2170 2304 662882135 662882269 8.170000e-36 161.0
38 TraesCS6B01G219200 chr2B 85.470 117 16 1 2446 2562 659657788 659657903 1.390000e-23 121.0
39 TraesCS6B01G219200 chr4A 85.217 115 17 0 2446 2560 423675483 423675369 4.990000e-23 119.0
40 TraesCS6B01G219200 chr3B 84.746 118 18 0 2445 2562 253501434 253501551 4.990000e-23 119.0


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 TraesCS6B01G219200 chr6B 307184992 307187840 2848 True 5262 5262 100.0000 1 2849 1 chr6B.!!$R1 2848
1 TraesCS6B01G219200 chr6A 332187738 332189551 1813 True 1368 2080 93.2560 936 2848 2 chr6A.!!$R4 1912
2 TraesCS6B01G219200 chr6D 259291830 259293756 1926 True 562 1834 95.6516 707 2848 5 chr6D.!!$R2 2141
3 TraesCS6B01G219200 chr7B 698113088 698113782 694 False 833 833 88.5110 12 704 1 chr7B.!!$F5 692
4 TraesCS6B01G219200 chr7B 698019251 698019945 694 False 817 817 88.0850 12 704 1 chr7B.!!$F3 692
5 TraesCS6B01G219200 chr3D 349869272 349869913 641 False 664 664 85.5620 57 703 1 chr3D.!!$F1 646
6 TraesCS6B01G219200 chrUn 378532375 378532948 573 False 660 660 87.6500 133 704 1 chrUn.!!$F1 571
7 TraesCS6B01G219200 chr4D 214338372 214339012 640 True 658 658 85.3880 57 703 1 chr4D.!!$R1 646
8 TraesCS6B01G219200 chr5A 10551633 10552327 694 False 470 470 79.2960 9 703 1 chr5A.!!$F1 694

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
590 616 0.17576 ACGGTGGAGATGACATTCCG 59.824 55.0 0.0 0.0 41.77 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2072 2149 0.261696 ACCAAAACTGGCCACCTCTT 59.738 50.0 0.0 0.0 0.0 2.85 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
25 26 1.153628 GCGCTCTTGTATCCACCGT 60.154 57.895 0.00 0.00 0.00 4.83
95 98 4.577988 TTCCGAATCTGGGATTTTACCA 57.422 40.909 0.00 0.00 36.38 3.25
123 126 0.972883 AGACTCTCCAGCAACCAGAC 59.027 55.000 0.00 0.00 0.00 3.51
207 224 2.158475 ACACAAGCAGAGGGATTTTCCA 60.158 45.455 0.00 0.00 38.64 3.53
272 289 1.051812 CCGATTGGGCCTCTGATACT 58.948 55.000 4.53 0.00 0.00 2.12
279 296 5.450818 TTGGGCCTCTGATACTAATTGTT 57.549 39.130 4.53 0.00 0.00 2.83
292 309 8.768397 TGATACTAATTGTTAGGAACCTGACAT 58.232 33.333 16.90 7.86 41.17 3.06
302 320 2.093447 GGAACCTGACATGGATCGAACT 60.093 50.000 0.00 0.00 30.72 3.01
311 329 5.803461 TGACATGGATCGAACTAACTAAACG 59.197 40.000 0.00 0.00 0.00 3.60
316 334 4.499758 GGATCGAACTAACTAAACGCTCAG 59.500 45.833 0.00 0.00 0.00 3.35
318 336 2.984471 CGAACTAACTAAACGCTCAGCA 59.016 45.455 0.00 0.00 0.00 4.41
319 337 3.612860 CGAACTAACTAAACGCTCAGCAT 59.387 43.478 0.00 0.00 0.00 3.79
320 338 4.259451 CGAACTAACTAAACGCTCAGCATC 60.259 45.833 0.00 0.00 0.00 3.91
325 343 2.196749 CTAAACGCTCAGCATCGTGAT 58.803 47.619 0.00 0.00 39.06 3.06
334 352 3.778618 TCAGCATCGTGATTTCAGAGAG 58.221 45.455 0.00 0.00 0.00 3.20
338 356 3.935203 GCATCGTGATTTCAGAGAGGAAA 59.065 43.478 0.00 0.00 40.72 3.13
341 359 6.404074 GCATCGTGATTTCAGAGAGGAAATTT 60.404 38.462 3.01 0.00 45.05 1.82
348 366 4.740154 TCAGAGAGGAAATTTGGGGAAA 57.260 40.909 0.00 0.00 0.00 3.13
369 389 6.358974 AAATTTGCTAGGGTTTGTATTGCT 57.641 33.333 0.00 0.00 0.00 3.91
370 390 5.582689 ATTTGCTAGGGTTTGTATTGCTC 57.417 39.130 0.00 0.00 0.00 4.26
373 393 3.263170 TGCTAGGGTTTGTATTGCTCAGA 59.737 43.478 0.00 0.00 0.00 3.27
379 400 4.079253 GGTTTGTATTGCTCAGAAAGGGA 58.921 43.478 0.00 0.00 0.00 4.20
384 405 5.385198 TGTATTGCTCAGAAAGGGAAAAGT 58.615 37.500 0.00 0.00 0.00 2.66
385 406 6.539173 TGTATTGCTCAGAAAGGGAAAAGTA 58.461 36.000 0.00 0.00 0.00 2.24
386 407 6.655003 TGTATTGCTCAGAAAGGGAAAAGTAG 59.345 38.462 0.00 0.00 0.00 2.57
387 408 3.412386 TGCTCAGAAAGGGAAAAGTAGC 58.588 45.455 0.00 0.00 0.00 3.58
388 409 3.181445 TGCTCAGAAAGGGAAAAGTAGCA 60.181 43.478 0.00 0.00 35.26 3.49
393 414 4.279420 CAGAAAGGGAAAAGTAGCAAAGCT 59.721 41.667 0.00 0.00 43.41 3.74
436 461 6.734502 TTATACCCACAATAATCGAGTCCA 57.265 37.500 0.00 0.00 0.00 4.02
451 476 4.072131 CGAGTCCAAAAATGGAGAAGGAA 58.928 43.478 0.00 0.00 38.88 3.36
461 486 0.611714 GGAGAAGGAACGGTGGCTAA 59.388 55.000 0.00 0.00 0.00 3.09
590 616 0.175760 ACGGTGGAGATGACATTCCG 59.824 55.000 0.00 0.00 41.77 4.30
610 636 2.467838 GGTAGCGAACCGTTATCTTCC 58.532 52.381 0.00 0.00 38.88 3.46
646 672 1.106944 TGGCAGATCGACGGCTCATA 61.107 55.000 0.00 0.00 39.51 2.15
648 674 1.132588 GCAGATCGACGGCTCATAAC 58.867 55.000 0.00 0.00 36.79 1.89
682 708 3.173953 TGGAACAGGGCAAATCTTCAT 57.826 42.857 0.00 0.00 0.00 2.57
704 730 4.510167 AGATGTATTAAGCTGGCCTGTT 57.490 40.909 11.69 1.68 0.00 3.16
705 731 5.630415 AGATGTATTAAGCTGGCCTGTTA 57.370 39.130 11.69 6.11 0.00 2.41
744 770 1.284297 GCGGTGGCACTGATTTTTGC 61.284 55.000 29.90 6.44 39.62 3.68
746 772 0.667184 GGTGGCACTGATTTTTGCGG 60.667 55.000 18.45 0.00 39.81 5.69
754 780 1.655099 CTGATTTTTGCGGGCAAATCG 59.345 47.619 18.43 7.94 44.14 3.34
755 781 1.270826 TGATTTTTGCGGGCAAATCGA 59.729 42.857 18.43 9.14 44.14 3.59
757 783 1.989430 TTTTTGCGGGCAAATCGATC 58.011 45.000 18.43 0.00 44.14 3.69
758 784 0.884514 TTTTGCGGGCAAATCGATCA 59.115 45.000 18.43 1.13 44.14 2.92
759 785 1.102154 TTTGCGGGCAAATCGATCAT 58.898 45.000 14.35 0.00 40.51 2.45
760 786 0.381445 TTGCGGGCAAATCGATCATG 59.619 50.000 3.16 2.32 32.44 3.07
761 787 1.283793 GCGGGCAAATCGATCATGG 59.716 57.895 0.00 0.00 0.00 3.66
762 788 1.951510 CGGGCAAATCGATCATGGG 59.048 57.895 0.00 0.00 0.00 4.00
763 789 1.518056 CGGGCAAATCGATCATGGGG 61.518 60.000 0.00 0.00 0.00 4.96
839 865 7.715265 TTTTCTACTGCGATGGATTCTAATC 57.285 36.000 0.00 0.00 34.66 1.75
840 866 6.656632 TTCTACTGCGATGGATTCTAATCT 57.343 37.500 2.91 0.00 35.73 2.40
841 867 6.018589 TCTACTGCGATGGATTCTAATCTG 57.981 41.667 2.91 0.00 35.73 2.90
842 868 4.944619 ACTGCGATGGATTCTAATCTGA 57.055 40.909 2.91 0.00 35.73 3.27
843 869 4.626042 ACTGCGATGGATTCTAATCTGAC 58.374 43.478 2.91 0.00 35.73 3.51
844 870 3.642705 TGCGATGGATTCTAATCTGACG 58.357 45.455 2.91 6.98 35.73 4.35
845 871 3.317993 TGCGATGGATTCTAATCTGACGA 59.682 43.478 14.51 0.00 35.73 4.20
846 872 4.021981 TGCGATGGATTCTAATCTGACGAT 60.022 41.667 14.51 0.00 35.73 3.73
847 873 4.926238 GCGATGGATTCTAATCTGACGATT 59.074 41.667 14.51 0.00 42.34 3.34
848 874 6.093404 GCGATGGATTCTAATCTGACGATTA 58.907 40.000 14.51 0.00 40.28 1.75
849 875 6.754209 GCGATGGATTCTAATCTGACGATTAT 59.246 38.462 14.51 0.00 40.36 1.28
850 876 7.276658 GCGATGGATTCTAATCTGACGATTATT 59.723 37.037 14.51 0.00 40.36 1.40
851 877 9.788960 CGATGGATTCTAATCTGACGATTATTA 57.211 33.333 2.91 0.00 40.36 0.98
861 887 7.772332 ATCTGACGATTATTACAAGGTGAAC 57.228 36.000 0.00 0.00 0.00 3.18
915 961 1.109323 AAACACAGCAGCCCCTCAAC 61.109 55.000 0.00 0.00 0.00 3.18
916 962 1.999634 AACACAGCAGCCCCTCAACT 62.000 55.000 0.00 0.00 0.00 3.16
919 965 1.073722 CAGCAGCCCCTCAACTCAA 59.926 57.895 0.00 0.00 0.00 3.02
921 967 0.185901 AGCAGCCCCTCAACTCAAAA 59.814 50.000 0.00 0.00 0.00 2.44
924 1000 1.338020 CAGCCCCTCAACTCAAAACAC 59.662 52.381 0.00 0.00 0.00 3.32
926 1002 1.067060 GCCCCTCAACTCAAAACACAC 59.933 52.381 0.00 0.00 0.00 3.82
934 1010 5.159925 TCAACTCAAAACACACACACAATG 58.840 37.500 0.00 0.00 0.00 2.82
944 1020 4.219507 ACACACACACAATGGAAAGAAACA 59.780 37.500 0.00 0.00 0.00 2.83
948 1024 4.462483 ACACACAATGGAAAGAAACACACT 59.538 37.500 0.00 0.00 0.00 3.55
1349 1425 4.824515 CCCTCCTCTCCTCCGCGT 62.825 72.222 4.92 0.00 0.00 6.01
1638 1714 0.321122 CCAAGCTCAAGTTCCTCGCT 60.321 55.000 0.00 0.00 0.00 4.93
1656 1732 2.440065 GACGGCATGGGCATGGAA 60.440 61.111 0.00 0.00 43.71 3.53
1718 1794 0.253347 AGCTTGGAGGGGAGGATCAA 60.253 55.000 0.00 0.00 36.25 2.57
1828 1904 1.201414 TCTTAGATGCAACGCTGTCGA 59.799 47.619 0.00 0.00 39.41 4.20
1901 1977 1.236616 TGCACTGCATCTGGTTTCGG 61.237 55.000 0.00 0.00 31.71 4.30
1930 2007 3.640498 TGGTGCATTGAGTTTGAATCCAA 59.360 39.130 0.00 0.00 0.00 3.53
1937 2014 8.030692 TGCATTGAGTTTGAATCCAATTAAGAG 58.969 33.333 0.00 0.00 31.46 2.85
2028 2105 2.999355 GAGGATAGCTCGCAATGGATTC 59.001 50.000 0.00 0.00 0.00 2.52
2029 2106 2.369860 AGGATAGCTCGCAATGGATTCA 59.630 45.455 0.00 0.00 0.00 2.57
2180 2257 7.090953 AGCTGTCTGTCTTTATGTACTACTC 57.909 40.000 0.00 0.00 0.00 2.59
2181 2258 6.095720 AGCTGTCTGTCTTTATGTACTACTCC 59.904 42.308 0.00 0.00 0.00 3.85
2182 2259 6.680872 GCTGTCTGTCTTTATGTACTACTCCC 60.681 46.154 0.00 0.00 0.00 4.30
2183 2260 6.491383 TGTCTGTCTTTATGTACTACTCCCT 58.509 40.000 0.00 0.00 0.00 4.20
2184 2261 6.602406 TGTCTGTCTTTATGTACTACTCCCTC 59.398 42.308 0.00 0.00 0.00 4.30
2185 2262 6.602406 GTCTGTCTTTATGTACTACTCCCTCA 59.398 42.308 0.00 0.00 0.00 3.86
2186 2263 7.122353 GTCTGTCTTTATGTACTACTCCCTCAA 59.878 40.741 0.00 0.00 0.00 3.02
2187 2264 7.839705 TCTGTCTTTATGTACTACTCCCTCAAT 59.160 37.037 0.00 0.00 0.00 2.57
2188 2265 8.375493 TGTCTTTATGTACTACTCCCTCAATT 57.625 34.615 0.00 0.00 0.00 2.32
2189 2266 8.475639 TGTCTTTATGTACTACTCCCTCAATTC 58.524 37.037 0.00 0.00 0.00 2.17
2190 2267 7.648510 GTCTTTATGTACTACTCCCTCAATTCG 59.351 40.741 0.00 0.00 0.00 3.34
2191 2268 4.939052 ATGTACTACTCCCTCAATTCGG 57.061 45.455 0.00 0.00 0.00 4.30
2192 2269 3.972133 TGTACTACTCCCTCAATTCGGA 58.028 45.455 0.00 0.00 0.00 4.55
2193 2270 4.346730 TGTACTACTCCCTCAATTCGGAA 58.653 43.478 0.00 0.00 0.00 4.30
2194 2271 4.960469 TGTACTACTCCCTCAATTCGGAAT 59.040 41.667 0.00 0.00 0.00 3.01
2195 2272 5.424252 TGTACTACTCCCTCAATTCGGAATT 59.576 40.000 10.11 10.11 0.00 2.17
2196 2273 6.608405 TGTACTACTCCCTCAATTCGGAATTA 59.392 38.462 15.13 4.54 0.00 1.40
2197 2274 5.915175 ACTACTCCCTCAATTCGGAATTAC 58.085 41.667 15.13 0.00 0.00 1.89
2198 2275 5.661759 ACTACTCCCTCAATTCGGAATTACT 59.338 40.000 15.13 0.00 0.00 2.24
2199 2276 5.437191 ACTCCCTCAATTCGGAATTACTT 57.563 39.130 15.13 0.00 0.00 2.24
2200 2277 5.186198 ACTCCCTCAATTCGGAATTACTTG 58.814 41.667 15.13 5.66 0.00 3.16
2201 2278 5.174037 TCCCTCAATTCGGAATTACTTGT 57.826 39.130 15.13 0.00 0.00 3.16
2202 2279 5.566469 TCCCTCAATTCGGAATTACTTGTT 58.434 37.500 15.13 0.00 0.00 2.83
2203 2280 5.414454 TCCCTCAATTCGGAATTACTTGTTG 59.586 40.000 15.13 3.95 0.00 3.33
2204 2281 5.095490 CCTCAATTCGGAATTACTTGTTGC 58.905 41.667 15.13 0.00 0.00 4.17
2205 2282 4.717991 TCAATTCGGAATTACTTGTTGCG 58.282 39.130 15.13 1.24 40.99 4.85
2206 2283 4.214545 TCAATTCGGAATTACTTGTTGCGT 59.785 37.500 15.13 0.00 40.58 5.24
2207 2284 5.408909 TCAATTCGGAATTACTTGTTGCGTA 59.591 36.000 15.13 0.00 40.58 4.42
2208 2285 5.866335 ATTCGGAATTACTTGTTGCGTAA 57.134 34.783 0.00 0.00 40.58 3.18
2209 2286 5.670149 TTCGGAATTACTTGTTGCGTAAA 57.330 34.783 0.00 0.00 40.58 2.01
2210 2287 5.866335 TCGGAATTACTTGTTGCGTAAAT 57.134 34.783 0.00 0.00 40.58 1.40
2211 2288 5.623335 TCGGAATTACTTGTTGCGTAAATG 58.377 37.500 0.00 0.00 40.58 2.32
2212 2289 4.791163 CGGAATTACTTGTTGCGTAAATGG 59.209 41.667 0.00 0.00 35.97 3.16
2213 2290 5.391097 CGGAATTACTTGTTGCGTAAATGGA 60.391 40.000 0.00 0.00 35.97 3.41
2214 2291 6.560711 GGAATTACTTGTTGCGTAAATGGAT 58.439 36.000 0.00 0.00 31.36 3.41
2215 2292 6.472163 GGAATTACTTGTTGCGTAAATGGATG 59.528 38.462 0.00 0.00 31.36 3.51
2216 2293 5.950758 TTACTTGTTGCGTAAATGGATGT 57.049 34.783 0.00 0.00 0.00 3.06
2217 2294 7.618502 ATTACTTGTTGCGTAAATGGATGTA 57.381 32.000 0.00 0.00 31.36 2.29
2218 2295 7.618502 TTACTTGTTGCGTAAATGGATGTAT 57.381 32.000 0.00 0.00 0.00 2.29
2219 2296 6.119144 ACTTGTTGCGTAAATGGATGTATC 57.881 37.500 0.00 0.00 0.00 2.24
2220 2297 5.880332 ACTTGTTGCGTAAATGGATGTATCT 59.120 36.000 0.00 0.00 0.00 1.98
2221 2298 7.045416 ACTTGTTGCGTAAATGGATGTATCTA 58.955 34.615 0.00 0.00 0.00 1.98
2222 2299 7.224753 ACTTGTTGCGTAAATGGATGTATCTAG 59.775 37.037 0.00 0.00 0.00 2.43
2223 2300 6.811954 TGTTGCGTAAATGGATGTATCTAGA 58.188 36.000 0.00 0.00 0.00 2.43
2224 2301 6.700081 TGTTGCGTAAATGGATGTATCTAGAC 59.300 38.462 0.00 0.00 0.00 2.59
2225 2302 5.458015 TGCGTAAATGGATGTATCTAGACG 58.542 41.667 0.00 0.00 0.00 4.18
2226 2303 5.009310 TGCGTAAATGGATGTATCTAGACGT 59.991 40.000 0.00 0.00 30.30 4.34
2227 2304 6.205270 TGCGTAAATGGATGTATCTAGACGTA 59.795 38.462 0.00 5.19 30.30 3.57
2228 2305 7.094506 TGCGTAAATGGATGTATCTAGACGTAT 60.095 37.037 0.00 0.00 30.30 3.06
2229 2306 7.754027 GCGTAAATGGATGTATCTAGACGTATT 59.246 37.037 0.00 0.00 30.30 1.89
2230 2307 9.622004 CGTAAATGGATGTATCTAGACGTATTT 57.378 33.333 0.00 0.00 0.00 1.40
2258 2335 8.962679 AGTTCTAGATATATCCATTTCCGAGAC 58.037 37.037 9.18 0.00 0.00 3.36
2259 2336 8.740906 GTTCTAGATATATCCATTTCCGAGACA 58.259 37.037 9.18 0.00 0.00 3.41
2260 2337 8.879427 TCTAGATATATCCATTTCCGAGACAA 57.121 34.615 9.18 0.00 0.00 3.18
2261 2338 8.961634 TCTAGATATATCCATTTCCGAGACAAG 58.038 37.037 9.18 0.00 0.00 3.16
2262 2339 7.546250 AGATATATCCATTTCCGAGACAAGT 57.454 36.000 9.18 0.00 0.00 3.16
2263 2340 8.651589 AGATATATCCATTTCCGAGACAAGTA 57.348 34.615 9.18 0.00 0.00 2.24
2264 2341 9.090103 AGATATATCCATTTCCGAGACAAGTAA 57.910 33.333 9.18 0.00 0.00 2.24
2265 2342 9.141400 GATATATCCATTTCCGAGACAAGTAAC 57.859 37.037 0.81 0.00 0.00 2.50
2266 2343 4.884668 TCCATTTCCGAGACAAGTAACT 57.115 40.909 0.00 0.00 0.00 2.24
2267 2344 4.817517 TCCATTTCCGAGACAAGTAACTC 58.182 43.478 0.00 0.00 0.00 3.01
2268 2345 3.933332 CCATTTCCGAGACAAGTAACTCC 59.067 47.826 0.00 0.00 0.00 3.85
2269 2346 3.293311 TTTCCGAGACAAGTAACTCCG 57.707 47.619 0.00 0.00 0.00 4.63
2270 2347 2.189594 TCCGAGACAAGTAACTCCGA 57.810 50.000 0.00 0.00 0.00 4.55
2271 2348 2.507484 TCCGAGACAAGTAACTCCGAA 58.493 47.619 0.00 0.00 0.00 4.30
2272 2349 3.087031 TCCGAGACAAGTAACTCCGAAT 58.913 45.455 0.00 0.00 0.00 3.34
2273 2350 3.119602 TCCGAGACAAGTAACTCCGAATG 60.120 47.826 0.00 0.00 0.00 2.67
2274 2351 3.179830 CGAGACAAGTAACTCCGAATGG 58.820 50.000 0.00 0.00 0.00 3.16
2275 2352 3.119602 CGAGACAAGTAACTCCGAATGGA 60.120 47.826 0.00 0.00 43.88 3.41
2318 2395 4.669866 TGTAAGTCTTCTACTCCCTCCA 57.330 45.455 0.00 0.00 37.50 3.86
2451 2562 5.880901 AGATTTATCATGACATGTACCCCC 58.119 41.667 14.98 3.12 0.00 5.40
2472 2583 3.610911 CCCTGTCTGGAAATACTTGTCC 58.389 50.000 0.00 0.00 38.35 4.02
2473 2584 3.262420 CCTGTCTGGAAATACTTGTCCG 58.738 50.000 0.00 0.00 36.65 4.79
2478 2589 5.221561 TGTCTGGAAATACTTGTCCGAGAAA 60.222 40.000 0.00 0.00 36.65 2.52
2479 2590 5.875359 GTCTGGAAATACTTGTCCGAGAAAT 59.125 40.000 0.00 0.00 36.65 2.17
2480 2591 5.874810 TCTGGAAATACTTGTCCGAGAAATG 59.125 40.000 0.00 0.00 36.65 2.32
2481 2592 5.800296 TGGAAATACTTGTCCGAGAAATGA 58.200 37.500 0.00 0.00 36.65 2.57
2482 2593 6.234920 TGGAAATACTTGTCCGAGAAATGAA 58.765 36.000 0.00 0.00 36.65 2.57
2483 2594 6.884295 TGGAAATACTTGTCCGAGAAATGAAT 59.116 34.615 0.00 0.00 36.65 2.57
2484 2595 8.044309 TGGAAATACTTGTCCGAGAAATGAATA 58.956 33.333 0.00 0.00 36.65 1.75
2485 2596 8.336080 GGAAATACTTGTCCGAGAAATGAATAC 58.664 37.037 0.00 0.00 0.00 1.89
2486 2597 8.786826 AAATACTTGTCCGAGAAATGAATACA 57.213 30.769 0.00 0.00 0.00 2.29
2487 2598 8.786826 AATACTTGTCCGAGAAATGAATACAA 57.213 30.769 0.00 0.00 0.00 2.41
2494 2605 7.990314 TGTCCGAGAAATGAATACAAATGGATA 59.010 33.333 0.00 0.00 0.00 2.59
2549 2660 8.181487 TCTATTTCTTCGACAAGTATTTTCGG 57.819 34.615 0.00 0.00 33.50 4.30
2553 2664 3.557577 TCGACAAGTATTTTCGGACGA 57.442 42.857 0.00 0.00 33.50 4.20
2566 2677 1.542915 TCGGACGAAGGGAGTAGTTTG 59.457 52.381 0.00 0.00 0.00 2.93
2640 2752 5.652014 GTCAAATCACCATATTGAAGACCCA 59.348 40.000 0.00 0.00 35.07 4.51
2698 2810 4.569865 GGAAGTAGGTGTTTCCATGGGATT 60.570 45.833 13.02 0.00 41.97 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.299003 GATACAAGAGCGCGACAAGC 59.701 55.000 12.10 0.00 43.95 4.01
1 2 0.924090 GGATACAAGAGCGCGACAAG 59.076 55.000 12.10 2.11 0.00 3.16
2 3 3.044809 GGATACAAGAGCGCGACAA 57.955 52.632 12.10 0.00 0.00 3.18
80 82 4.111577 TCTCCTGTGGTAAAATCCCAGAT 58.888 43.478 0.00 0.00 31.13 2.90
123 126 1.129998 CGCAGGCAGTCTGAATTTCAG 59.870 52.381 18.49 18.49 46.18 3.02
176 192 0.453282 CTGCTTGTGTCGATTTGGCG 60.453 55.000 0.00 0.00 0.00 5.69
177 193 0.874390 TCTGCTTGTGTCGATTTGGC 59.126 50.000 0.00 0.00 0.00 4.52
181 197 0.976641 TCCCTCTGCTTGTGTCGATT 59.023 50.000 0.00 0.00 0.00 3.34
272 289 6.381498 TCCATGTCAGGTTCCTAACAATTA 57.619 37.500 0.00 0.00 0.00 1.40
279 296 3.026707 TCGATCCATGTCAGGTTCCTA 57.973 47.619 0.00 0.00 0.00 2.94
292 309 4.082625 TGAGCGTTTAGTTAGTTCGATCCA 60.083 41.667 0.00 0.00 36.37 3.41
302 320 2.921121 CACGATGCTGAGCGTTTAGTTA 59.079 45.455 0.00 0.00 42.88 2.24
311 329 2.274437 TCTGAAATCACGATGCTGAGC 58.726 47.619 0.00 0.00 0.00 4.26
316 334 3.170791 TCCTCTCTGAAATCACGATGC 57.829 47.619 0.00 0.00 0.00 3.91
318 336 6.094603 CCAAATTTCCTCTCTGAAATCACGAT 59.905 38.462 0.00 0.00 42.58 3.73
319 337 5.412594 CCAAATTTCCTCTCTGAAATCACGA 59.587 40.000 0.00 0.00 42.58 4.35
320 338 5.392380 CCCAAATTTCCTCTCTGAAATCACG 60.392 44.000 0.00 0.00 42.58 4.35
325 343 4.740154 TCCCCAAATTTCCTCTCTGAAA 57.260 40.909 0.00 0.00 38.51 2.69
334 352 5.185454 CCTAGCAAATTTCCCCAAATTTCC 58.815 41.667 3.03 0.00 45.31 3.13
338 356 3.802132 ACCCTAGCAAATTTCCCCAAAT 58.198 40.909 0.00 0.00 33.27 2.32
341 359 2.903135 CAAACCCTAGCAAATTTCCCCA 59.097 45.455 0.00 0.00 0.00 4.96
348 366 5.016173 TGAGCAATACAAACCCTAGCAAAT 58.984 37.500 0.00 0.00 0.00 2.32
369 389 4.278419 GCTTTGCTACTTTTCCCTTTCTGA 59.722 41.667 0.00 0.00 0.00 3.27
370 390 4.279420 AGCTTTGCTACTTTTCCCTTTCTG 59.721 41.667 0.00 0.00 36.99 3.02
373 393 3.253432 CGAGCTTTGCTACTTTTCCCTTT 59.747 43.478 0.00 0.00 39.88 3.11
379 400 1.266989 GTGGCGAGCTTTGCTACTTTT 59.733 47.619 17.37 0.00 39.88 2.27
384 405 2.434185 CGGTGGCGAGCTTTGCTA 60.434 61.111 11.13 3.08 39.88 3.49
436 461 2.890945 CCACCGTTCCTTCTCCATTTTT 59.109 45.455 0.00 0.00 0.00 1.94
461 486 6.588719 TGCTTTTCACCTGTAATTGCTATT 57.411 33.333 0.00 0.00 0.00 1.73
467 492 5.068987 TCTGCTTTGCTTTTCACCTGTAATT 59.931 36.000 0.00 0.00 0.00 1.40
500 526 1.499056 GACAACGCATGTGCTCTGG 59.501 57.895 6.08 0.00 44.12 3.86
590 616 2.100418 AGGAAGATAACGGTTCGCTACC 59.900 50.000 0.00 0.00 44.03 3.18
610 636 1.443407 CATCCAGTGGCTCCCGTAG 59.557 63.158 3.51 0.00 0.00 3.51
646 672 1.736645 CCAGCGTGTCGGAATCGTT 60.737 57.895 5.32 0.00 37.69 3.85
648 674 1.445410 TTCCAGCGTGTCGGAATCG 60.445 57.895 0.00 0.00 36.36 3.34
682 708 5.630415 AACAGGCCAGCTTAATACATCTA 57.370 39.130 5.01 0.00 0.00 1.98
744 770 1.518056 CCCCATGATCGATTTGCCCG 61.518 60.000 0.00 0.00 0.00 6.13
746 772 1.108727 TGCCCCATGATCGATTTGCC 61.109 55.000 0.00 0.00 0.00 4.52
754 780 0.610232 GTAGCCCATGCCCCATGATC 60.610 60.000 6.77 0.00 43.81 2.92
755 781 1.462035 GTAGCCCATGCCCCATGAT 59.538 57.895 6.77 0.00 43.81 2.45
757 783 2.595463 CGTAGCCCATGCCCCATG 60.595 66.667 0.00 0.00 41.10 3.66
776 802 0.319405 AAGGGTTGTTCCTCGTACCG 59.681 55.000 0.00 0.00 35.80 4.02
781 807 1.687563 AAACCAAGGGTTGTTCCTCG 58.312 50.000 0.67 0.00 46.20 4.63
815 841 7.439356 CAGATTAGAATCCATCGCAGTAGAAAA 59.561 37.037 0.00 0.00 36.04 2.29
819 845 5.861251 GTCAGATTAGAATCCATCGCAGTAG 59.139 44.000 0.00 0.00 36.04 2.57
822 848 3.672397 CGTCAGATTAGAATCCATCGCAG 59.328 47.826 0.00 0.00 36.04 5.18
824 850 3.902150 TCGTCAGATTAGAATCCATCGC 58.098 45.455 0.00 0.00 36.04 4.58
837 863 6.761714 GGTTCACCTTGTAATAATCGTCAGAT 59.238 38.462 0.00 0.00 39.12 2.90
838 864 6.103997 GGTTCACCTTGTAATAATCGTCAGA 58.896 40.000 0.00 0.00 0.00 3.27
839 865 5.005394 CGGTTCACCTTGTAATAATCGTCAG 59.995 44.000 0.00 0.00 0.00 3.51
840 866 4.865925 CGGTTCACCTTGTAATAATCGTCA 59.134 41.667 0.00 0.00 0.00 4.35
841 867 4.269363 CCGGTTCACCTTGTAATAATCGTC 59.731 45.833 0.00 0.00 0.00 4.20
842 868 4.081531 TCCGGTTCACCTTGTAATAATCGT 60.082 41.667 0.00 0.00 0.00 3.73
843 869 4.435425 TCCGGTTCACCTTGTAATAATCG 58.565 43.478 0.00 0.00 0.00 3.34
844 870 4.814771 CCTCCGGTTCACCTTGTAATAATC 59.185 45.833 0.00 0.00 0.00 1.75
845 871 4.384868 CCCTCCGGTTCACCTTGTAATAAT 60.385 45.833 0.00 0.00 0.00 1.28
846 872 3.054948 CCCTCCGGTTCACCTTGTAATAA 60.055 47.826 0.00 0.00 0.00 1.40
847 873 2.502538 CCCTCCGGTTCACCTTGTAATA 59.497 50.000 0.00 0.00 0.00 0.98
848 874 1.280998 CCCTCCGGTTCACCTTGTAAT 59.719 52.381 0.00 0.00 0.00 1.89
849 875 0.688487 CCCTCCGGTTCACCTTGTAA 59.312 55.000 0.00 0.00 0.00 2.41
850 876 1.833787 GCCCTCCGGTTCACCTTGTA 61.834 60.000 0.00 0.00 0.00 2.41
851 877 3.157680 CCCTCCGGTTCACCTTGT 58.842 61.111 0.00 0.00 0.00 3.16
852 878 1.550130 TAGCCCTCCGGTTCACCTTG 61.550 60.000 0.00 0.00 0.00 3.61
853 879 1.229400 TAGCCCTCCGGTTCACCTT 60.229 57.895 0.00 0.00 0.00 3.50
854 880 1.988406 GTAGCCCTCCGGTTCACCT 60.988 63.158 0.00 0.00 0.00 4.00
855 881 2.582978 GTAGCCCTCCGGTTCACC 59.417 66.667 0.00 0.00 0.00 4.02
886 932 2.328099 GCTGTGTTTGCTAGGCGCT 61.328 57.895 7.64 0.00 40.11 5.92
915 961 4.368874 TCCATTGTGTGTGTGTTTTGAG 57.631 40.909 0.00 0.00 0.00 3.02
916 962 4.790765 TTCCATTGTGTGTGTGTTTTGA 57.209 36.364 0.00 0.00 0.00 2.69
919 965 5.398603 TTCTTTCCATTGTGTGTGTGTTT 57.601 34.783 0.00 0.00 0.00 2.83
921 967 4.219507 TGTTTCTTTCCATTGTGTGTGTGT 59.780 37.500 0.00 0.00 0.00 3.72
924 1000 4.562394 GTGTGTTTCTTTCCATTGTGTGTG 59.438 41.667 0.00 0.00 0.00 3.82
926 1002 4.799949 CAGTGTGTTTCTTTCCATTGTGTG 59.200 41.667 0.00 0.00 0.00 3.82
934 1010 4.398044 TGAAGAACCAGTGTGTTTCTTTCC 59.602 41.667 11.07 3.54 0.00 3.13
948 1024 3.616560 GCGAGTTATCCACTGAAGAACCA 60.617 47.826 0.00 0.00 35.01 3.67
1638 1714 3.279504 TTCCATGCCCATGCCGTCA 62.280 57.895 2.75 0.00 37.49 4.35
1718 1794 3.574074 AATGCTTGGTGCCTCGGCT 62.574 57.895 9.65 0.00 42.00 5.52
1828 1904 3.851458 TCACATCCTCTGCATATTGCT 57.149 42.857 0.75 0.00 45.31 3.91
1901 1977 5.527951 TCAAACTCAATGCACCACAATTAC 58.472 37.500 0.00 0.00 0.00 1.89
1930 2007 7.283354 GGCACATTAGAGGCTAAAACTCTTAAT 59.717 37.037 0.00 0.00 42.41 1.40
1937 2014 5.385509 TTTGGCACATTAGAGGCTAAAAC 57.614 39.130 0.00 0.00 39.30 2.43
2068 2145 3.005791 CCAAAACTGGCCACCTCTTAAAG 59.994 47.826 0.00 0.00 0.00 1.85
2072 2149 0.261696 ACCAAAACTGGCCACCTCTT 59.738 50.000 0.00 0.00 0.00 2.85
2081 2158 3.758554 CTCCACCATAGAACCAAAACTGG 59.241 47.826 0.00 0.00 0.00 4.00
2180 2257 5.640732 CAACAAGTAATTCCGAATTGAGGG 58.359 41.667 15.37 6.32 32.38 4.30
2181 2258 5.095490 GCAACAAGTAATTCCGAATTGAGG 58.905 41.667 15.37 6.03 32.38 3.86
2182 2259 4.788100 CGCAACAAGTAATTCCGAATTGAG 59.212 41.667 15.37 6.04 32.38 3.02
2183 2260 4.214545 ACGCAACAAGTAATTCCGAATTGA 59.785 37.500 15.37 0.00 32.38 2.57
2184 2261 4.472286 ACGCAACAAGTAATTCCGAATTG 58.528 39.130 15.37 4.00 32.38 2.32
2185 2262 4.759516 ACGCAACAAGTAATTCCGAATT 57.240 36.364 11.09 11.09 34.90 2.17
2186 2263 5.866335 TTACGCAACAAGTAATTCCGAAT 57.134 34.783 0.00 0.00 0.00 3.34
2187 2264 5.670149 TTTACGCAACAAGTAATTCCGAA 57.330 34.783 0.00 0.00 34.50 4.30
2188 2265 5.391097 CCATTTACGCAACAAGTAATTCCGA 60.391 40.000 0.00 0.00 34.50 4.55
2189 2266 4.791163 CCATTTACGCAACAAGTAATTCCG 59.209 41.667 0.00 0.00 34.50 4.30
2190 2267 5.945155 TCCATTTACGCAACAAGTAATTCC 58.055 37.500 0.00 0.00 34.50 3.01
2191 2268 7.027161 ACATCCATTTACGCAACAAGTAATTC 58.973 34.615 0.00 0.00 34.50 2.17
2192 2269 6.919721 ACATCCATTTACGCAACAAGTAATT 58.080 32.000 0.00 0.00 34.50 1.40
2193 2270 6.509418 ACATCCATTTACGCAACAAGTAAT 57.491 33.333 0.00 0.00 34.50 1.89
2194 2271 5.950758 ACATCCATTTACGCAACAAGTAA 57.049 34.783 0.00 0.00 32.84 2.24
2195 2272 7.045416 AGATACATCCATTTACGCAACAAGTA 58.955 34.615 0.00 0.00 0.00 2.24
2196 2273 5.880332 AGATACATCCATTTACGCAACAAGT 59.120 36.000 0.00 0.00 0.00 3.16
2197 2274 6.363577 AGATACATCCATTTACGCAACAAG 57.636 37.500 0.00 0.00 0.00 3.16
2198 2275 7.223971 GTCTAGATACATCCATTTACGCAACAA 59.776 37.037 0.00 0.00 0.00 2.83
2199 2276 6.700081 GTCTAGATACATCCATTTACGCAACA 59.300 38.462 0.00 0.00 0.00 3.33
2200 2277 6.129168 CGTCTAGATACATCCATTTACGCAAC 60.129 42.308 0.00 0.00 0.00 4.17
2201 2278 5.918576 CGTCTAGATACATCCATTTACGCAA 59.081 40.000 0.00 0.00 0.00 4.85
2202 2279 5.009310 ACGTCTAGATACATCCATTTACGCA 59.991 40.000 0.00 0.00 0.00 5.24
2203 2280 5.458891 ACGTCTAGATACATCCATTTACGC 58.541 41.667 0.00 0.00 0.00 4.42
2204 2281 9.622004 AAATACGTCTAGATACATCCATTTACG 57.378 33.333 0.00 0.00 0.00 3.18
2232 2309 8.962679 GTCTCGGAAATGGATATATCTAGAACT 58.037 37.037 12.42 0.00 0.00 3.01
2233 2310 8.740906 TGTCTCGGAAATGGATATATCTAGAAC 58.259 37.037 12.42 2.51 0.00 3.01
2234 2311 8.879427 TGTCTCGGAAATGGATATATCTAGAA 57.121 34.615 12.42 0.00 0.00 2.10
2235 2312 8.879427 TTGTCTCGGAAATGGATATATCTAGA 57.121 34.615 12.42 0.00 0.00 2.43
2236 2313 8.744652 ACTTGTCTCGGAAATGGATATATCTAG 58.255 37.037 12.42 0.00 0.00 2.43
2237 2314 8.651589 ACTTGTCTCGGAAATGGATATATCTA 57.348 34.615 12.42 6.97 0.00 1.98
2238 2315 7.546250 ACTTGTCTCGGAAATGGATATATCT 57.454 36.000 12.42 0.00 0.00 1.98
2239 2316 9.141400 GTTACTTGTCTCGGAAATGGATATATC 57.859 37.037 3.96 3.96 0.00 1.63
2240 2317 8.871125 AGTTACTTGTCTCGGAAATGGATATAT 58.129 33.333 0.00 0.00 0.00 0.86
2241 2318 8.246430 AGTTACTTGTCTCGGAAATGGATATA 57.754 34.615 0.00 0.00 0.00 0.86
2242 2319 7.125792 AGTTACTTGTCTCGGAAATGGATAT 57.874 36.000 0.00 0.00 0.00 1.63
2243 2320 6.406624 GGAGTTACTTGTCTCGGAAATGGATA 60.407 42.308 0.00 0.00 0.00 2.59
2244 2321 5.420409 GAGTTACTTGTCTCGGAAATGGAT 58.580 41.667 0.00 0.00 0.00 3.41
2245 2322 4.322499 GGAGTTACTTGTCTCGGAAATGGA 60.322 45.833 0.00 0.00 0.00 3.41
2246 2323 3.933332 GGAGTTACTTGTCTCGGAAATGG 59.067 47.826 0.00 0.00 0.00 3.16
2247 2324 3.612860 CGGAGTTACTTGTCTCGGAAATG 59.387 47.826 0.00 0.00 34.46 2.32
2248 2325 3.508793 TCGGAGTTACTTGTCTCGGAAAT 59.491 43.478 0.00 0.00 37.19 2.17
2249 2326 2.886523 TCGGAGTTACTTGTCTCGGAAA 59.113 45.455 0.00 0.00 37.19 3.13
2250 2327 2.507484 TCGGAGTTACTTGTCTCGGAA 58.493 47.619 0.00 0.00 37.19 4.30
2251 2328 2.189594 TCGGAGTTACTTGTCTCGGA 57.810 50.000 0.00 0.00 37.57 4.55
2252 2329 3.179830 CATTCGGAGTTACTTGTCTCGG 58.820 50.000 0.00 0.00 34.06 4.63
2253 2330 3.119602 TCCATTCGGAGTTACTTGTCTCG 60.120 47.826 0.00 0.00 35.91 4.04
2254 2331 4.451629 TCCATTCGGAGTTACTTGTCTC 57.548 45.455 0.00 0.00 35.91 3.36
2266 2343 0.337082 TGGTACTCCCTCCATTCGGA 59.663 55.000 0.00 0.00 39.79 4.55
2267 2344 0.464452 GTGGTACTCCCTCCATTCGG 59.536 60.000 0.00 0.00 36.09 4.30
2268 2345 1.486211 AGTGGTACTCCCTCCATTCG 58.514 55.000 0.00 0.00 36.09 3.34
2269 2346 4.040584 GGATTAGTGGTACTCCCTCCATTC 59.959 50.000 0.00 0.00 36.09 2.67
2270 2347 3.974642 GGATTAGTGGTACTCCCTCCATT 59.025 47.826 0.00 0.00 36.09 3.16
2271 2348 3.051341 TGGATTAGTGGTACTCCCTCCAT 60.051 47.826 0.00 0.00 36.09 3.41
2272 2349 2.316677 TGGATTAGTGGTACTCCCTCCA 59.683 50.000 0.00 0.00 31.72 3.86
2273 2350 3.042059 TGGATTAGTGGTACTCCCTCC 57.958 52.381 0.00 0.00 28.64 4.30
2274 2351 5.431179 TTTTGGATTAGTGGTACTCCCTC 57.569 43.478 0.00 0.00 28.64 4.30
2275 2352 5.253096 ACATTTTGGATTAGTGGTACTCCCT 59.747 40.000 0.00 0.00 28.64 4.20
2276 2353 5.506708 ACATTTTGGATTAGTGGTACTCCC 58.493 41.667 0.00 0.00 28.64 4.30
2277 2354 7.827729 ACTTACATTTTGGATTAGTGGTACTCC 59.172 37.037 0.00 0.00 0.00 3.85
2278 2355 8.788325 ACTTACATTTTGGATTAGTGGTACTC 57.212 34.615 0.00 0.00 0.00 2.59
2279 2356 8.603304 AGACTTACATTTTGGATTAGTGGTACT 58.397 33.333 0.00 0.00 0.00 2.73
2280 2357 8.788325 AGACTTACATTTTGGATTAGTGGTAC 57.212 34.615 0.00 0.00 0.00 3.34
2281 2358 9.444600 GAAGACTTACATTTTGGATTAGTGGTA 57.555 33.333 0.00 0.00 0.00 3.25
2282 2359 8.164070 AGAAGACTTACATTTTGGATTAGTGGT 58.836 33.333 0.00 0.00 0.00 4.16
2334 2445 7.186972 TGACTAGTAAAATTCTACTCCCTCCA 58.813 38.462 0.00 0.00 34.03 3.86
2451 2562 3.610911 GGACAAGTATTTCCAGACAGGG 58.389 50.000 0.00 0.00 38.24 4.45
2452 2563 3.056107 TCGGACAAGTATTTCCAGACAGG 60.056 47.826 0.00 0.00 39.47 4.00
2454 2565 3.830178 TCTCGGACAAGTATTTCCAGACA 59.170 43.478 0.00 0.00 0.00 3.41
2457 2568 5.874810 TCATTTCTCGGACAAGTATTTCCAG 59.125 40.000 0.00 0.00 0.00 3.86
2458 2569 5.800296 TCATTTCTCGGACAAGTATTTCCA 58.200 37.500 0.00 0.00 0.00 3.53
2463 2574 8.786826 TTTGTATTCATTTCTCGGACAAGTAT 57.213 30.769 0.00 0.00 0.00 2.12
2512 2623 9.447040 TGTCGAAGAAATAGATGTATTTAGACG 57.553 33.333 7.77 12.22 38.70 4.18
2526 2637 7.201376 CGTCCGAAAATACTTGTCGAAGAAATA 60.201 37.037 1.13 0.00 39.69 1.40
2532 2643 3.899734 TCGTCCGAAAATACTTGTCGAA 58.100 40.909 1.13 0.00 36.92 3.71
2533 2644 3.557577 TCGTCCGAAAATACTTGTCGA 57.442 42.857 1.13 0.00 36.92 4.20
2534 2645 3.060363 CCTTCGTCCGAAAATACTTGTCG 59.940 47.826 3.52 0.00 33.34 4.35
2543 2654 2.242043 ACTACTCCCTTCGTCCGAAAA 58.758 47.619 3.52 0.00 33.34 2.29
2546 2657 1.542915 CAAACTACTCCCTTCGTCCGA 59.457 52.381 0.00 0.00 0.00 4.55
2549 2660 5.476614 ACATTACAAACTACTCCCTTCGTC 58.523 41.667 0.00 0.00 0.00 4.20
2601 2713 5.697633 GTGATTTGACCAACAATTTCTGCAT 59.302 36.000 0.00 0.00 38.36 3.96
2640 2752 4.027437 CCTAGCTCTTTTAGGACAGGACT 58.973 47.826 0.00 0.00 40.12 3.85
2698 2810 7.633193 ACCAAACAACAGTTCAGTTTACATA 57.367 32.000 2.31 0.00 34.03 2.29


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

AutoCloner maintained by Alex Coulton.