Multiple sequence alignment - TraesCS3D01G041700

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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 TraesCS3D01G041700 chr3D 100.000 3953 0 0 1 3953 15978600 15974648 0.000000e+00 7300
1 TraesCS3D01G041700 chr3D 78.114 1156 204 39 1833 2953 15966192 15965051 0.000000e+00 688
2 TraesCS3D01G041700 chr3B 93.439 2835 112 33 410 3200 22915236 22918040 0.000000e+00 4137
3 TraesCS3D01G041700 chr3B 79.543 1095 196 26 1867 2944 23020817 23021900 0.000000e+00 756
4 TraesCS3D01G041700 chr3B 89.330 403 22 8 1 392 22890971 22891363 1.650000e-133 486
5 TraesCS3D01G041700 chr3A 94.268 2704 117 21 513 3212 20559189 20556520 0.000000e+00 4100
6 TraesCS3D01G041700 chr3A 87.268 754 69 12 3204 3943 20556363 20555623 0.000000e+00 835
7 TraesCS3D01G041700 chr3A 79.802 1109 193 27 1865 2953 20547266 20546169 0.000000e+00 778
8 TraesCS3D01G041700 chr3A 82.716 486 41 17 1 482 20559938 20559492 3.700000e-105 392
9 TraesCS3D01G041700 chr5B 82.521 1047 161 18 1893 2925 617435883 617434845 0.000000e+00 900
10 TraesCS3D01G041700 chr5B 81.112 1043 174 16 1914 2940 617292486 617291451 0.000000e+00 813
11 TraesCS3D01G041700 chr5D 82.122 1046 165 18 1893 2924 498172941 498171904 0.000000e+00 876
12 TraesCS3D01G041700 chr5D 81.382 1042 173 15 1914 2940 498290449 498289414 0.000000e+00 830


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 TraesCS3D01G041700 chr3D 15974648 15978600 3952 True 7300.000000 7300 100.000 1 3953 1 chr3D.!!$R2 3952
1 TraesCS3D01G041700 chr3D 15965051 15966192 1141 True 688.000000 688 78.114 1833 2953 1 chr3D.!!$R1 1120
2 TraesCS3D01G041700 chr3B 22915236 22918040 2804 False 4137.000000 4137 93.439 410 3200 1 chr3B.!!$F2 2790
3 TraesCS3D01G041700 chr3B 23020817 23021900 1083 False 756.000000 756 79.543 1867 2944 1 chr3B.!!$F3 1077
4 TraesCS3D01G041700 chr3A 20555623 20559938 4315 True 1775.666667 4100 88.084 1 3943 3 chr3A.!!$R2 3942
5 TraesCS3D01G041700 chr3A 20546169 20547266 1097 True 778.000000 778 79.802 1865 2953 1 chr3A.!!$R1 1088
6 TraesCS3D01G041700 chr5B 617434845 617435883 1038 True 900.000000 900 82.521 1893 2925 1 chr5B.!!$R2 1032
7 TraesCS3D01G041700 chr5B 617291451 617292486 1035 True 813.000000 813 81.112 1914 2940 1 chr5B.!!$R1 1026
8 TraesCS3D01G041700 chr5D 498171904 498172941 1037 True 876.000000 876 82.122 1893 2924 1 chr5D.!!$R1 1031
9 TraesCS3D01G041700 chr5D 498289414 498290449 1035 True 830.000000 830 81.382 1914 2940 1 chr5D.!!$R2 1026

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
78 79 0.250295 CGGCCGATGTATGGTCCATT 60.250 55.0 24.07 0.00 0.00 3.16 F
796 1081 0.543277 GATGCATGGTCTGTGGAGGA 59.457 55.0 2.46 0.00 0.00 3.71 F
819 1104 0.793250 GTGGTTGCTTCGAGCTTCTC 59.207 55.0 8.07 0.00 42.97 2.87 F
1819 2137 0.812811 CTCATGAGGACCGTGCATGG 60.813 60.0 23.83 23.83 39.76 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1591 1903 0.176680 ATGGTGCGATGTGAGAGGTC 59.823 55.000 0.00 0.00 0.0 3.85 R
1823 2141 0.726827 CTTCCGCACCTACGTACGTA 59.273 55.000 25.41 25.41 0.0 3.57 R
2700 3036 3.952508 TCCTGGCGCCACATGTGT 61.953 61.111 29.03 0.00 0.0 3.72 R
3670 4207 0.673437 CGAGCTCTTCCCTCATCTCC 59.327 60.000 12.85 0.00 0.0 3.71 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
20 21 1.014044 GGCGATGCTCGTGTCTTGAA 61.014 55.000 7.27 0.00 42.81 2.69
34 35 4.451096 GTGTCTTGAAGCTTTGTAATCCGA 59.549 41.667 0.00 0.00 0.00 4.55
49 50 2.937469 TCCGATTTCGTACGCCTAAA 57.063 45.000 11.24 6.74 37.74 1.85
58 59 0.798389 GTACGCCTAAACCGACCGAC 60.798 60.000 0.00 0.00 0.00 4.79
73 74 2.819550 GACCGGCCGATGTATGGT 59.180 61.111 30.73 14.54 35.14 3.55
78 79 0.250295 CGGCCGATGTATGGTCCATT 60.250 55.000 24.07 0.00 0.00 3.16
79 80 1.001520 CGGCCGATGTATGGTCCATTA 59.998 52.381 24.07 0.00 0.00 1.90
89 90 2.308039 GGTCCATTATCGTCGCCGC 61.308 63.158 0.00 0.00 0.00 6.53
107 108 2.322081 CCGTCGACCGCCATGTTTT 61.322 57.895 10.58 0.00 34.38 2.43
116 117 3.732892 CCATGTTTTCGCGGCGGT 61.733 61.111 23.46 0.00 0.00 5.68
117 118 2.501650 CATGTTTTCGCGGCGGTG 60.502 61.111 23.46 8.24 0.00 4.94
118 119 3.732892 ATGTTTTCGCGGCGGTGG 61.733 61.111 23.46 0.00 0.00 4.61
177 178 4.143333 CTCGATCCCACCGCCGTT 62.143 66.667 0.00 0.00 0.00 4.44
205 209 0.877213 ACGTACAGGTCCAACGTTGC 60.877 55.000 22.93 9.98 46.86 4.17
245 249 2.018542 GCATTCTGTTGCATGCCAAT 57.981 45.000 16.68 2.83 42.31 3.16
246 250 1.663643 GCATTCTGTTGCATGCCAATG 59.336 47.619 16.68 15.17 42.31 2.82
247 251 2.933492 GCATTCTGTTGCATGCCAATGT 60.933 45.455 16.68 0.00 42.31 2.71
266 270 2.693591 TGTCGTCCTCTTGTTGTTCTCT 59.306 45.455 0.00 0.00 0.00 3.10
269 273 2.726760 CGTCCTCTTGTTGTTCTCTTCG 59.273 50.000 0.00 0.00 0.00 3.79
283 287 7.681939 TGTTCTCTTCGTTTAATAATGCCTT 57.318 32.000 0.00 0.00 0.00 4.35
284 288 8.780846 TGTTCTCTTCGTTTAATAATGCCTTA 57.219 30.769 0.00 0.00 0.00 2.69
287 291 7.272978 TCTCTTCGTTTAATAATGCCTTAGCT 58.727 34.615 0.00 0.00 40.80 3.32
288 292 8.418662 TCTCTTCGTTTAATAATGCCTTAGCTA 58.581 33.333 0.00 0.00 40.80 3.32
289 293 8.589335 TCTTCGTTTAATAATGCCTTAGCTAG 57.411 34.615 0.00 0.00 40.80 3.42
291 295 6.823497 TCGTTTAATAATGCCTTAGCTAGGT 58.177 36.000 0.00 0.00 46.61 3.08
294 298 7.871463 CGTTTAATAATGCCTTAGCTAGGTACT 59.129 37.037 0.00 0.00 46.61 2.73
309 313 5.220931 GCTAGGTACTCTTGGCAATTTGATG 60.221 44.000 0.00 0.00 41.75 3.07
311 315 3.763897 GGTACTCTTGGCAATTTGATGGT 59.236 43.478 0.00 0.00 0.00 3.55
330 334 1.643868 TAGGCAAATGGCGCTTGACG 61.644 55.000 7.64 0.00 46.16 4.35
339 343 3.334751 CGCTTGACGGTGCGTTGA 61.335 61.111 3.48 0.00 46.09 3.18
340 344 2.551270 GCTTGACGGTGCGTTGAG 59.449 61.111 0.00 0.00 41.37 3.02
348 352 1.060713 CGGTGCGTTGAGTTACTGAG 58.939 55.000 0.00 0.00 0.00 3.35
349 353 1.602165 CGGTGCGTTGAGTTACTGAGT 60.602 52.381 0.00 0.00 0.00 3.41
358 362 3.713288 TGAGTTACTGAGTTTGGTGTCG 58.287 45.455 0.00 0.00 0.00 4.35
359 363 3.057734 GAGTTACTGAGTTTGGTGTCGG 58.942 50.000 0.00 0.00 0.00 4.79
360 364 2.433239 AGTTACTGAGTTTGGTGTCGGT 59.567 45.455 0.00 0.00 36.28 4.69
363 367 2.285977 ACTGAGTTTGGTGTCGGTTTC 58.714 47.619 0.00 0.00 0.00 2.78
364 368 2.285083 CTGAGTTTGGTGTCGGTTTCA 58.715 47.619 0.00 0.00 0.00 2.69
365 369 2.285083 TGAGTTTGGTGTCGGTTTCAG 58.715 47.619 0.00 0.00 0.00 3.02
366 370 2.285977 GAGTTTGGTGTCGGTTTCAGT 58.714 47.619 0.00 0.00 0.00 3.41
367 371 2.014128 AGTTTGGTGTCGGTTTCAGTG 58.986 47.619 0.00 0.00 0.00 3.66
368 372 1.064952 GTTTGGTGTCGGTTTCAGTGG 59.935 52.381 0.00 0.00 0.00 4.00
369 373 1.098712 TTGGTGTCGGTTTCAGTGGC 61.099 55.000 0.00 0.00 0.00 5.01
370 374 1.227853 GGTGTCGGTTTCAGTGGCT 60.228 57.895 0.00 0.00 0.00 4.75
371 375 1.507141 GGTGTCGGTTTCAGTGGCTG 61.507 60.000 0.00 0.00 0.00 4.85
372 376 1.891919 TGTCGGTTTCAGTGGCTGC 60.892 57.895 0.00 0.00 0.00 5.25
374 378 1.597854 TCGGTTTCAGTGGCTGCTG 60.598 57.895 0.00 3.79 37.81 4.41
375 379 2.647297 GGTTTCAGTGGCTGCTGC 59.353 61.111 7.10 7.10 36.49 5.25
376 380 2.195567 GGTTTCAGTGGCTGCTGCA 61.196 57.895 17.89 0.88 41.91 4.41
377 381 1.008079 GTTTCAGTGGCTGCTGCAC 60.008 57.895 17.89 12.86 41.91 4.57
378 382 1.453562 TTTCAGTGGCTGCTGCACA 60.454 52.632 17.89 9.96 41.91 4.57
384 388 3.054503 GGCTGCTGCACAGTCCAG 61.055 66.667 17.89 0.68 45.81 3.86
385 389 3.839353 GGCTGCTGCACAGTCCAGT 62.839 63.158 17.89 0.00 45.81 4.00
386 390 4.469883 CTGCTGCACAGTCCAGTT 57.530 55.556 0.00 0.00 41.86 3.16
387 391 3.612517 CTGCTGCACAGTCCAGTTA 57.387 52.632 0.00 0.00 41.86 2.24
388 392 1.882912 CTGCTGCACAGTCCAGTTAA 58.117 50.000 0.00 0.00 41.86 2.01
389 393 1.802960 CTGCTGCACAGTCCAGTTAAG 59.197 52.381 0.00 0.00 41.86 1.85
390 394 1.416030 TGCTGCACAGTCCAGTTAAGA 59.584 47.619 0.00 0.00 32.93 2.10
391 395 2.038952 TGCTGCACAGTCCAGTTAAGAT 59.961 45.455 0.00 0.00 32.93 2.40
392 396 2.675348 GCTGCACAGTCCAGTTAAGATC 59.325 50.000 0.00 0.00 32.93 2.75
393 397 3.866066 GCTGCACAGTCCAGTTAAGATCA 60.866 47.826 0.00 0.00 32.93 2.92
394 398 4.318332 CTGCACAGTCCAGTTAAGATCAA 58.682 43.478 0.00 0.00 0.00 2.57
395 399 4.318332 TGCACAGTCCAGTTAAGATCAAG 58.682 43.478 0.00 0.00 0.00 3.02
396 400 3.686726 GCACAGTCCAGTTAAGATCAAGG 59.313 47.826 0.00 0.00 0.00 3.61
397 401 4.563580 GCACAGTCCAGTTAAGATCAAGGA 60.564 45.833 0.00 0.00 0.00 3.36
398 402 5.738909 CACAGTCCAGTTAAGATCAAGGAT 58.261 41.667 0.00 0.00 0.00 3.24
399 403 6.176183 CACAGTCCAGTTAAGATCAAGGATT 58.824 40.000 0.00 0.00 0.00 3.01
400 404 7.331026 CACAGTCCAGTTAAGATCAAGGATTA 58.669 38.462 0.00 0.00 0.00 1.75
401 405 7.493971 CACAGTCCAGTTAAGATCAAGGATTAG 59.506 40.741 0.00 0.00 0.00 1.73
402 406 6.989169 CAGTCCAGTTAAGATCAAGGATTAGG 59.011 42.308 0.00 0.00 0.00 2.69
403 407 6.100424 AGTCCAGTTAAGATCAAGGATTAGGG 59.900 42.308 0.00 0.00 0.00 3.53
404 408 6.099845 GTCCAGTTAAGATCAAGGATTAGGGA 59.900 42.308 0.00 0.00 0.00 4.20
405 409 6.851836 TCCAGTTAAGATCAAGGATTAGGGAT 59.148 38.462 0.00 0.00 0.00 3.85
645 921 4.436998 CGGCCGTCCCTCTGACAC 62.437 72.222 19.50 0.00 44.71 3.67
745 1021 5.537188 ACTGTTACTCAAAAGCAGAGAGAG 58.463 41.667 0.00 0.00 36.91 3.20
746 1022 5.303078 ACTGTTACTCAAAAGCAGAGAGAGA 59.697 40.000 0.00 0.00 36.91 3.10
747 1023 5.777802 TGTTACTCAAAAGCAGAGAGAGAG 58.222 41.667 0.00 0.00 36.91 3.20
748 1024 5.536538 TGTTACTCAAAAGCAGAGAGAGAGA 59.463 40.000 0.00 0.00 36.91 3.10
749 1025 4.789012 ACTCAAAAGCAGAGAGAGAGAG 57.211 45.455 0.00 0.00 36.91 3.20
750 1026 4.406456 ACTCAAAAGCAGAGAGAGAGAGA 58.594 43.478 0.00 0.00 36.91 3.10
751 1027 4.460382 ACTCAAAAGCAGAGAGAGAGAGAG 59.540 45.833 0.00 0.00 36.91 3.20
752 1028 4.661222 TCAAAAGCAGAGAGAGAGAGAGA 58.339 43.478 0.00 0.00 0.00 3.10
753 1029 4.701651 TCAAAAGCAGAGAGAGAGAGAGAG 59.298 45.833 0.00 0.00 0.00 3.20
768 1044 3.051803 AGAGAGAGAGAGAGAGGGAGAGA 60.052 52.174 0.00 0.00 0.00 3.10
796 1081 0.543277 GATGCATGGTCTGTGGAGGA 59.457 55.000 2.46 0.00 0.00 3.71
815 1100 1.598130 GTGGTGGTTGCTTCGAGCT 60.598 57.895 8.07 0.00 42.97 4.09
819 1104 0.793250 GTGGTTGCTTCGAGCTTCTC 59.207 55.000 8.07 0.00 42.97 2.87
970 1255 2.279851 CCACCGACGACAAGCACA 60.280 61.111 0.00 0.00 0.00 4.57
988 1273 3.086600 CTCCCCCACTGCCTCCTC 61.087 72.222 0.00 0.00 0.00 3.71
993 1278 3.699894 CCACTGCCTCCTCGTGCT 61.700 66.667 0.00 0.00 0.00 4.40
997 1282 2.679996 TGCCTCCTCGTGCTAGCA 60.680 61.111 14.93 14.93 0.00 3.49
1200 1488 0.872021 CGAGCGGCAGGTACATTCTC 60.872 60.000 1.45 0.00 0.00 2.87
1567 1879 1.302511 GCCCGGTTCAAGAAGCTCA 60.303 57.895 0.00 0.00 36.72 4.26
1591 1903 3.742433 AGAAGACTGACAAGGTGAGTG 57.258 47.619 0.00 0.00 28.74 3.51
1593 1905 3.068873 AGAAGACTGACAAGGTGAGTGAC 59.931 47.826 0.00 0.00 28.74 3.67
1628 1945 5.678583 CACCATCTATCACTCCAAACTGAT 58.321 41.667 0.00 0.00 0.00 2.90
1630 1947 6.927936 CACCATCTATCACTCCAAACTGATAG 59.072 42.308 7.95 7.95 44.14 2.08
1653 1970 7.835634 AGAGATTTACTACTAGCAAACAAGC 57.164 36.000 0.00 0.00 0.00 4.01
1657 1974 7.764901 AGATTTACTACTAGCAAACAAGCTACC 59.235 37.037 0.00 0.00 44.50 3.18
1658 1975 3.846360 ACTACTAGCAAACAAGCTACCG 58.154 45.455 0.00 0.00 44.50 4.02
1659 1976 2.833631 ACTAGCAAACAAGCTACCGT 57.166 45.000 0.00 0.00 44.50 4.83
1660 1977 3.947910 ACTAGCAAACAAGCTACCGTA 57.052 42.857 0.00 0.00 44.50 4.02
1661 1978 3.846360 ACTAGCAAACAAGCTACCGTAG 58.154 45.455 0.76 0.76 44.50 3.51
1795 2113 1.214373 TTCGGTTGACACGTAACGCC 61.214 55.000 0.00 0.00 0.00 5.68
1806 2124 1.203758 ACGTAACGCCATGACTCATGA 59.796 47.619 19.04 0.00 43.81 3.07
1816 2134 1.184970 TGACTCATGAGGACCGTGCA 61.185 55.000 26.08 9.56 0.00 4.57
1819 2137 0.812811 CTCATGAGGACCGTGCATGG 60.813 60.000 23.83 23.83 39.76 3.66
1821 2139 1.091771 CATGAGGACCGTGCATGGAC 61.092 60.000 31.74 24.49 36.61 4.02
1823 2141 3.296709 GAGGACCGTGCATGGACGT 62.297 63.158 33.10 25.43 37.66 4.34
2469 2805 2.586792 GCGCTCATGGAGAAGGGT 59.413 61.111 0.00 0.00 0.00 4.34
2628 2964 3.827898 CTCCGTGCCGAGGACCTC 61.828 72.222 11.87 11.87 33.58 3.85
2700 3036 2.534011 TGGGGGTTCATGCAGGGA 60.534 61.111 0.00 0.00 0.00 4.20
3050 3404 8.786898 ACACATTAATTTGATCTAATGGGATCG 58.213 33.333 17.17 4.29 40.06 3.69
3207 3569 7.695869 CGAGCTAGTAATTCCTCGTTTTATT 57.304 36.000 6.94 0.00 41.47 1.40
3212 3739 9.704098 GCTAGTAATTCCTCGTTTTATTGAAAG 57.296 33.333 0.00 0.00 0.00 2.62
3219 3746 6.527423 TCCTCGTTTTATTGAAAGTGGTACT 58.473 36.000 0.00 0.00 0.00 2.73
3240 3767 1.745653 GAATGCTTTCCCTCCTTTCCG 59.254 52.381 0.87 0.00 0.00 4.30
3306 3842 2.515071 TTTGTTGGGGGTGCATGGC 61.515 57.895 0.00 0.00 0.00 4.40
3311 3847 1.348008 TTGGGGGTGCATGGCAAAAA 61.348 50.000 0.00 0.00 41.47 1.94
3313 3849 1.479368 GGGGGTGCATGGCAAAAAGA 61.479 55.000 0.00 0.00 41.47 2.52
3315 3851 1.405933 GGGGTGCATGGCAAAAAGATC 60.406 52.381 0.00 0.00 41.47 2.75
3321 3857 3.740321 TGCATGGCAAAAAGATCGTTTTC 59.260 39.130 15.26 10.65 34.76 2.29
3350 3886 5.813672 GCAATTTATGTGTTGGAAGCATGAT 59.186 36.000 0.00 0.00 0.00 2.45
3364 3900 5.684626 GGAAGCATGATAATTCTTTCAAGCG 59.315 40.000 0.00 0.00 40.48 4.68
3370 3906 5.617609 TGATAATTCTTTCAAGCGAACACG 58.382 37.500 0.00 0.00 0.00 4.49
3371 3907 2.969443 ATTCTTTCAAGCGAACACGG 57.031 45.000 0.00 0.00 0.00 4.94
3379 3915 1.857837 CAAGCGAACACGGCAATTTTT 59.142 42.857 0.00 0.00 0.00 1.94
3381 3917 1.202359 AGCGAACACGGCAATTTTTGT 60.202 42.857 0.00 0.00 0.00 2.83
3393 3929 6.147000 ACGGCAATTTTTGTATCAAAATCCAC 59.853 34.615 8.18 1.23 0.00 4.02
3400 3936 9.829507 ATTTTTGTATCAAAATCCACTGTTTGA 57.170 25.926 8.18 1.68 45.20 2.69
3442 3979 6.932356 TTGAACAAATTGCCAAGCATTTTA 57.068 29.167 8.59 0.00 39.17 1.52
3443 3980 6.297694 TGAACAAATTGCCAAGCATTTTAC 57.702 33.333 8.59 5.59 39.17 2.01
3476 4013 4.381270 TCATAAAAGACGTTTGCAATTGCG 59.619 37.500 24.58 13.12 45.83 4.85
3505 4042 2.884639 ACAACAAACTTTCGCTGGCTAT 59.115 40.909 0.00 0.00 0.00 2.97
3506 4043 3.058224 ACAACAAACTTTCGCTGGCTATC 60.058 43.478 0.00 0.00 0.00 2.08
3510 4047 2.203015 TTTCGCTGGCTATCGGGC 60.203 61.111 0.00 0.00 41.27 6.13
3521 4058 2.488347 GGCTATCGGGCTCCCATTTTTA 60.488 50.000 5.70 0.00 37.53 1.52
3523 4060 3.004419 GCTATCGGGCTCCCATTTTTAAC 59.996 47.826 5.70 0.00 35.37 2.01
3566 4103 9.240159 GTCGTGAAAACAACAAAAATAATAGGT 57.760 29.630 0.00 0.00 0.00 3.08
3589 4126 4.355543 CACAAGGTGTGTATTGTATGCC 57.644 45.455 0.09 0.00 43.08 4.40
3592 4129 3.838244 AGGTGTGTATTGTATGCCGAT 57.162 42.857 0.00 0.00 0.00 4.18
3603 4140 3.194861 TGTATGCCGATAAGCTTGACAC 58.805 45.455 9.86 0.00 0.00 3.67
3604 4141 2.698855 ATGCCGATAAGCTTGACACT 57.301 45.000 9.86 0.00 0.00 3.55
3605 4142 2.472695 TGCCGATAAGCTTGACACTT 57.527 45.000 9.86 0.00 0.00 3.16
3606 4143 2.778299 TGCCGATAAGCTTGACACTTT 58.222 42.857 9.86 0.00 0.00 2.66
3607 4144 3.146066 TGCCGATAAGCTTGACACTTTT 58.854 40.909 9.86 0.00 0.00 2.27
3608 4145 3.188460 TGCCGATAAGCTTGACACTTTTC 59.812 43.478 9.86 0.00 0.00 2.29
3609 4146 3.188460 GCCGATAAGCTTGACACTTTTCA 59.812 43.478 9.86 0.00 0.00 2.69
3610 4147 4.320202 GCCGATAAGCTTGACACTTTTCAA 60.320 41.667 9.86 0.00 34.30 2.69
3611 4148 5.147162 CCGATAAGCTTGACACTTTTCAAC 58.853 41.667 9.86 0.00 32.02 3.18
3615 4152 4.311816 AGCTTGACACTTTTCAACCATG 57.688 40.909 0.00 0.00 32.02 3.66
3629 4166 5.957842 TCAACCATGTTAAAGTAGGCTTG 57.042 39.130 0.00 0.00 34.71 4.01
3644 4181 3.683802 AGGCTTGATCTTTTCTGTGGAG 58.316 45.455 0.00 0.00 0.00 3.86
3669 4206 6.654161 GTGCGACCTACTCCTATATTAGAAGA 59.346 42.308 0.00 0.00 0.00 2.87
3670 4207 6.879993 TGCGACCTACTCCTATATTAGAAGAG 59.120 42.308 0.00 0.00 0.00 2.85
3671 4208 6.316890 GCGACCTACTCCTATATTAGAAGAGG 59.683 46.154 0.00 0.00 0.00 3.69
3672 4209 7.622713 CGACCTACTCCTATATTAGAAGAGGA 58.377 42.308 0.00 0.00 36.64 3.71
3737 4274 3.124297 GCCACTTTGAGATTCTCTTCACG 59.876 47.826 14.54 1.55 0.00 4.35
3753 4293 1.889170 TCACGAGAGAAGCACACTCAT 59.111 47.619 0.00 0.00 36.31 2.90
3765 4305 1.226802 CACTCATGGCTCGAGTCCG 60.227 63.158 15.72 5.85 41.80 4.79
3801 4341 4.286297 TCCACTTCTTTCGTTGATCCAT 57.714 40.909 0.00 0.00 0.00 3.41
3803 4343 4.002982 CCACTTCTTTCGTTGATCCATGA 58.997 43.478 0.00 0.00 0.00 3.07
3819 4359 5.560722 TCCATGACTTTCAAAGTACCTCA 57.439 39.130 1.74 0.00 43.03 3.86
3820 4360 5.551233 TCCATGACTTTCAAAGTACCTCAG 58.449 41.667 1.74 0.00 43.03 3.35
3831 4371 1.433592 AGTACCTCAGACCCTGAACCT 59.566 52.381 0.00 0.00 40.18 3.50
3840 4380 0.252284 ACCCTGAACCTCGACTCCAT 60.252 55.000 0.00 0.00 0.00 3.41
3842 4382 1.406069 CCCTGAACCTCGACTCCATTG 60.406 57.143 0.00 0.00 0.00 2.82
3869 4409 3.471806 GGTCTCTTCGGGGGAGCC 61.472 72.222 0.00 0.00 0.00 4.70
3870 4410 2.364448 GTCTCTTCGGGGGAGCCT 60.364 66.667 0.00 0.00 0.00 4.58
3878 4418 1.993391 CGGGGGAGCCTTCCACTTA 60.993 63.158 0.00 0.00 46.84 2.24
3879 4419 1.559065 CGGGGGAGCCTTCCACTTAA 61.559 60.000 0.00 0.00 46.84 1.85
3884 4424 4.571148 GGGGGAGCCTTCCACTTAATTTTA 60.571 45.833 0.00 0.00 46.84 1.52
3924 4464 8.466798 GGAGCACTACAAATATTGTTGGTTAAT 58.533 33.333 0.54 0.00 42.22 1.40
3925 4465 9.289303 GAGCACTACAAATATTGTTGGTTAATG 57.711 33.333 0.54 0.00 42.22 1.90
3934 4474 4.981389 TTGTTGGTTAATGAAAATGCGC 57.019 36.364 0.00 0.00 0.00 6.09
3936 4476 1.623359 TGGTTAATGAAAATGCGCGC 58.377 45.000 27.26 27.26 0.00 6.86
3939 4479 1.459767 TTAATGAAAATGCGCGCGCG 61.460 50.000 45.73 45.73 45.51 6.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 4.266976 CGTACGAAATCGGATTACAAAGCT 59.733 41.667 10.44 0.00 44.95 3.74
34 35 2.262211 GTCGGTTTAGGCGTACGAAAT 58.738 47.619 21.65 5.97 35.17 2.17
58 59 2.030562 GGACCATACATCGGCCGG 59.969 66.667 27.83 13.23 0.00 6.13
61 62 2.930040 CGATAATGGACCATACATCGGC 59.070 50.000 28.03 9.18 36.33 5.54
62 63 4.174009 GACGATAATGGACCATACATCGG 58.826 47.826 33.25 23.26 40.25 4.18
64 65 3.612860 GCGACGATAATGGACCATACATC 59.387 47.826 7.59 12.31 0.00 3.06
65 66 3.585862 GCGACGATAATGGACCATACAT 58.414 45.455 7.59 4.26 0.00 2.29
89 90 2.235536 GAAAACATGGCGGTCGACGG 62.236 60.000 17.98 17.98 44.51 4.79
124 125 4.389576 GACGCGCCCAACTTGCAG 62.390 66.667 5.73 0.00 0.00 4.41
177 178 2.288666 GGACCTGTACGTACGTCCATA 58.711 52.381 31.48 3.94 0.00 2.74
215 219 1.471119 ACAGAATGCAATGCAGAGGG 58.529 50.000 14.98 6.15 43.65 4.30
218 222 2.357327 GCAACAGAATGCAATGCAGA 57.643 45.000 14.98 0.00 43.65 4.26
228 232 2.416296 CGACATTGGCATGCAACAGAAT 60.416 45.455 21.36 6.20 33.05 2.40
245 249 2.693591 AGAGAACAACAAGAGGACGACA 59.306 45.455 0.00 0.00 0.00 4.35
246 250 3.372660 AGAGAACAACAAGAGGACGAC 57.627 47.619 0.00 0.00 0.00 4.34
247 251 3.550233 CGAAGAGAACAACAAGAGGACGA 60.550 47.826 0.00 0.00 0.00 4.20
266 270 7.724305 CCTAGCTAAGGCATTATTAAACGAA 57.276 36.000 0.00 0.00 38.97 3.85
283 287 5.188948 TCAAATTGCCAAGAGTACCTAGCTA 59.811 40.000 0.00 0.00 0.00 3.32
284 288 4.019321 TCAAATTGCCAAGAGTACCTAGCT 60.019 41.667 0.00 0.00 0.00 3.32
287 291 5.192927 CCATCAAATTGCCAAGAGTACCTA 58.807 41.667 0.00 0.00 0.00 3.08
288 292 4.019174 CCATCAAATTGCCAAGAGTACCT 58.981 43.478 0.00 0.00 0.00 3.08
289 293 3.763897 ACCATCAAATTGCCAAGAGTACC 59.236 43.478 0.00 0.00 0.00 3.34
291 295 5.192927 CCTACCATCAAATTGCCAAGAGTA 58.807 41.667 0.00 0.00 0.00 2.59
294 298 2.760092 GCCTACCATCAAATTGCCAAGA 59.240 45.455 0.00 0.00 0.00 3.02
309 313 1.139520 CAAGCGCCATTTGCCTACC 59.860 57.895 2.29 0.00 36.24 3.18
311 315 1.643868 CGTCAAGCGCCATTTGCCTA 61.644 55.000 2.29 0.00 36.24 3.93
330 334 2.150397 ACTCAGTAACTCAACGCACC 57.850 50.000 0.00 0.00 0.00 5.01
339 343 2.433239 ACCGACACCAAACTCAGTAACT 59.567 45.455 0.00 0.00 0.00 2.24
340 344 2.830104 ACCGACACCAAACTCAGTAAC 58.170 47.619 0.00 0.00 0.00 2.50
348 352 1.064952 CCACTGAAACCGACACCAAAC 59.935 52.381 0.00 0.00 0.00 2.93
349 353 1.384525 CCACTGAAACCGACACCAAA 58.615 50.000 0.00 0.00 0.00 3.28
358 362 2.195567 TGCAGCAGCCACTGAAACC 61.196 57.895 7.73 0.00 40.25 3.27
359 363 1.008079 GTGCAGCAGCCACTGAAAC 60.008 57.895 7.73 1.77 40.25 2.78
360 364 1.449726 CTGTGCAGCAGCCACTGAAA 61.450 55.000 7.73 0.00 40.25 2.69
370 374 1.416030 TCTTAACTGGACTGTGCAGCA 59.584 47.619 26.35 13.62 39.63 4.41
371 375 2.169832 TCTTAACTGGACTGTGCAGC 57.830 50.000 26.35 0.00 39.63 5.25
372 376 3.930336 TGATCTTAACTGGACTGTGCAG 58.070 45.455 25.09 25.09 41.93 4.41
374 378 3.686726 CCTTGATCTTAACTGGACTGTGC 59.313 47.826 0.00 0.00 0.00 4.57
375 379 5.152623 TCCTTGATCTTAACTGGACTGTG 57.847 43.478 0.00 0.00 0.00 3.66
376 380 6.380079 AATCCTTGATCTTAACTGGACTGT 57.620 37.500 0.00 0.00 0.00 3.55
377 381 6.989169 CCTAATCCTTGATCTTAACTGGACTG 59.011 42.308 0.00 0.00 0.00 3.51
378 382 6.100424 CCCTAATCCTTGATCTTAACTGGACT 59.900 42.308 0.00 0.00 0.00 3.85
379 383 6.099845 TCCCTAATCCTTGATCTTAACTGGAC 59.900 42.308 0.00 0.00 0.00 4.02
380 384 6.209774 TCCCTAATCCTTGATCTTAACTGGA 58.790 40.000 0.00 0.00 0.00 3.86
381 385 6.500589 TCCCTAATCCTTGATCTTAACTGG 57.499 41.667 0.00 0.00 0.00 4.00
393 397 9.230477 CCAGGACATTATATATCCCTAATCCTT 57.770 37.037 0.00 0.00 32.47 3.36
394 398 8.587244 TCCAGGACATTATATATCCCTAATCCT 58.413 37.037 0.00 0.00 32.47 3.24
395 399 8.798975 TCCAGGACATTATATATCCCTAATCC 57.201 38.462 0.00 0.00 32.47 3.01
400 404 8.705594 CGTAATTCCAGGACATTATATATCCCT 58.294 37.037 0.00 0.00 32.47 4.20
401 405 8.701895 TCGTAATTCCAGGACATTATATATCCC 58.298 37.037 0.00 0.00 32.47 3.85
402 406 9.530633 GTCGTAATTCCAGGACATTATATATCC 57.469 37.037 0.00 0.00 34.29 2.59
403 407 9.234384 CGTCGTAATTCCAGGACATTATATATC 57.766 37.037 0.00 0.00 33.86 1.63
404 408 8.195436 CCGTCGTAATTCCAGGACATTATATAT 58.805 37.037 0.00 0.00 33.86 0.86
405 409 7.394077 TCCGTCGTAATTCCAGGACATTATATA 59.606 37.037 0.00 0.00 33.86 0.86
515 791 2.742589 GGGAAGAGACAACTAAAAGCGG 59.257 50.000 0.00 0.00 0.00 5.52
522 798 2.708861 TGGCTTTGGGAAGAGACAACTA 59.291 45.455 0.00 0.00 34.71 2.24
745 1021 3.309296 TCTCCCTCTCTCTCTCTCTCTC 58.691 54.545 0.00 0.00 0.00 3.20
746 1022 3.051803 TCTCTCCCTCTCTCTCTCTCTCT 60.052 52.174 0.00 0.00 0.00 3.10
747 1023 3.309296 TCTCTCCCTCTCTCTCTCTCTC 58.691 54.545 0.00 0.00 0.00 3.20
748 1024 3.312890 CTCTCTCCCTCTCTCTCTCTCT 58.687 54.545 0.00 0.00 0.00 3.10
749 1025 2.370189 CCTCTCTCCCTCTCTCTCTCTC 59.630 59.091 0.00 0.00 0.00 3.20
750 1026 2.412591 CCTCTCTCCCTCTCTCTCTCT 58.587 57.143 0.00 0.00 0.00 3.10
751 1027 1.421646 CCCTCTCTCCCTCTCTCTCTC 59.578 61.905 0.00 0.00 0.00 3.20
752 1028 1.522900 CCCTCTCTCCCTCTCTCTCT 58.477 60.000 0.00 0.00 0.00 3.10
753 1029 0.478507 CCCCTCTCTCCCTCTCTCTC 59.521 65.000 0.00 0.00 0.00 3.20
768 1044 1.642762 AGACCATGCATCTTTTCCCCT 59.357 47.619 0.00 0.00 0.00 4.79
796 1081 1.598130 GCTCGAAGCAACCACCACT 60.598 57.895 2.53 0.00 41.89 4.00
815 1100 2.680841 CCGGTCGCAAAATATTGGAGAA 59.319 45.455 0.00 0.00 37.02 2.87
819 1104 0.591236 CGCCGGTCGCAAAATATTGG 60.591 55.000 1.90 0.00 37.02 3.16
970 1255 3.933542 GAGGAGGCAGTGGGGGAGT 62.934 68.421 0.00 0.00 0.00 3.85
989 1274 2.117156 CAGGCCATGGTGCTAGCAC 61.117 63.158 34.99 34.99 45.49 4.40
993 1278 2.273123 CTGCAGGCCATGGTGCTA 59.727 61.111 23.49 12.05 40.54 3.49
1363 1675 2.281070 CACCAGTGCGCACTCCTT 60.281 61.111 38.87 22.93 40.20 3.36
1509 1821 1.842562 ACCTGGAGATCCATCACCTTG 59.157 52.381 0.00 0.00 46.46 3.61
1567 1879 3.309296 TCACCTTGTCAGTCTTCTTCCT 58.691 45.455 0.00 0.00 0.00 3.36
1591 1903 0.176680 ATGGTGCGATGTGAGAGGTC 59.823 55.000 0.00 0.00 0.00 3.85
1593 1905 0.463204 AGATGGTGCGATGTGAGAGG 59.537 55.000 0.00 0.00 0.00 3.69
1628 1945 8.750298 AGCTTGTTTGCTAGTAGTAAATCTCTA 58.250 33.333 15.29 1.60 42.10 2.43
1630 1947 7.835634 AGCTTGTTTGCTAGTAGTAAATCTC 57.164 36.000 15.29 5.13 42.10 2.75
1631 1948 7.764901 GGTAGCTTGTTTGCTAGTAGTAAATCT 59.235 37.037 15.29 12.23 44.93 2.40
1646 1963 3.056322 CCTACACCTACGGTAGCTTGTTT 60.056 47.826 19.54 6.50 37.49 2.83
1648 1965 2.097825 CCTACACCTACGGTAGCTTGT 58.902 52.381 18.77 18.77 37.49 3.16
1649 1966 2.097825 ACCTACACCTACGGTAGCTTG 58.902 52.381 9.70 10.72 37.49 4.01
1651 1968 1.005215 ACACCTACACCTACGGTAGCT 59.995 52.381 9.70 0.00 37.49 3.32
1652 1969 1.467920 ACACCTACACCTACGGTAGC 58.532 55.000 9.70 0.00 37.49 3.58
1653 1970 3.609853 TGTACACCTACACCTACGGTAG 58.390 50.000 8.22 8.22 38.33 3.18
1654 1971 3.712016 TGTACACCTACACCTACGGTA 57.288 47.619 0.00 0.00 32.11 4.02
1657 1974 8.483307 AAAAATATTGTACACCTACACCTACG 57.517 34.615 0.00 0.00 32.28 3.51
1658 1975 9.662947 AGAAAAATATTGTACACCTACACCTAC 57.337 33.333 0.00 0.00 32.28 3.18
1795 2113 1.931906 CACGGTCCTCATGAGTCATG 58.068 55.000 24.60 24.60 42.60 3.07
1806 2124 1.980232 TACGTCCATGCACGGTCCT 60.980 57.895 14.71 0.00 44.41 3.85
1823 2141 0.726827 CTTCCGCACCTACGTACGTA 59.273 55.000 25.41 25.41 0.00 3.57
2700 3036 3.952508 TCCTGGCGCCACATGTGT 61.953 61.111 29.03 0.00 0.00 3.72
3022 3372 7.715657 TCCCATTAGATCAAATTAATGTGTGC 58.284 34.615 5.52 0.00 36.16 4.57
3050 3404 4.461081 TGTATGTGGTACAATTCCTTTGCC 59.539 41.667 0.00 0.00 44.16 4.52
3160 3522 8.613613 TCGTCAATTTTATTCATTCATTTCCG 57.386 30.769 0.00 0.00 0.00 4.30
3207 3569 4.518970 GGAAAGCATTCAGTACCACTTTCA 59.481 41.667 13.43 0.00 42.90 2.69
3212 3739 3.010420 GAGGGAAAGCATTCAGTACCAC 58.990 50.000 3.82 0.00 37.29 4.16
3219 3746 2.807676 GGAAAGGAGGGAAAGCATTCA 58.192 47.619 3.82 0.00 37.29 2.57
3249 3776 8.823220 ACATTACCCTAAAAATGAAGCTACAT 57.177 30.769 2.30 0.00 36.73 2.29
3250 3777 8.644374 AACATTACCCTAAAAATGAAGCTACA 57.356 30.769 2.30 0.00 36.73 2.74
3262 3798 8.848182 ACGTTTGTTGAATAACATTACCCTAAA 58.152 29.630 0.00 0.00 45.56 1.85
3263 3799 8.393671 ACGTTTGTTGAATAACATTACCCTAA 57.606 30.769 0.00 0.00 45.56 2.69
3283 3819 1.258445 TGCACCCCCAACAAACGTTT 61.258 50.000 7.96 7.96 0.00 3.60
3286 3822 1.006337 CATGCACCCCCAACAAACG 60.006 57.895 0.00 0.00 0.00 3.60
3298 3834 2.352503 ACGATCTTTTTGCCATGCAC 57.647 45.000 0.00 0.00 38.71 4.57
3306 3842 4.367450 TGCCTTGGAAAACGATCTTTTTG 58.633 39.130 14.03 1.80 0.00 2.44
3311 3847 4.871933 AAATTGCCTTGGAAAACGATCT 57.128 36.364 0.00 0.00 0.00 2.75
3313 3849 5.868801 CACATAAATTGCCTTGGAAAACGAT 59.131 36.000 0.00 0.00 0.00 3.73
3315 3851 4.987912 ACACATAAATTGCCTTGGAAAACG 59.012 37.500 0.00 0.00 0.00 3.60
3321 3857 4.533919 TCCAACACATAAATTGCCTTGG 57.466 40.909 0.00 0.00 36.89 3.61
3350 3886 3.364565 GCCGTGTTCGCTTGAAAGAATTA 60.365 43.478 0.00 0.00 32.31 1.40
3364 3900 6.517914 TTTGATACAAAAATTGCCGTGTTC 57.482 33.333 0.00 0.00 0.00 3.18
3370 3906 7.173047 ACAGTGGATTTTGATACAAAAATTGCC 59.827 33.333 12.43 11.60 39.31 4.52
3371 3907 8.086851 ACAGTGGATTTTGATACAAAAATTGC 57.913 30.769 12.43 4.96 39.31 3.56
3379 3915 6.770303 TCTGTCAAACAGTGGATTTTGATACA 59.230 34.615 9.76 5.38 46.03 2.29
3381 3917 7.502226 ACTTCTGTCAAACAGTGGATTTTGATA 59.498 33.333 9.76 7.13 46.03 2.15
3393 3929 3.067180 ACATGGCAACTTCTGTCAAACAG 59.933 43.478 0.00 0.57 44.57 3.16
3400 3936 3.446873 TCAAAACACATGGCAACTTCTGT 59.553 39.130 0.00 0.00 37.61 3.41
3409 3945 4.281264 GCAATTTGTTCAAAACACATGGC 58.719 39.130 0.00 3.35 40.22 4.40
3464 4001 1.431496 AAGGCATCGCAATTGCAAAC 58.569 45.000 28.77 14.87 41.95 2.93
3467 4004 1.172175 TGTAAGGCATCGCAATTGCA 58.828 45.000 28.77 16.65 41.95 4.08
3474 4011 2.989422 AGTTTGTTGTAAGGCATCGC 57.011 45.000 0.00 0.00 0.00 4.58
3476 4013 3.668656 GCGAAAGTTTGTTGTAAGGCATC 59.331 43.478 0.00 0.00 0.00 3.91
3505 4042 2.588464 TGTTAAAAATGGGAGCCCGA 57.412 45.000 0.29 0.00 39.42 5.14
3506 4043 4.036380 GTCTATGTTAAAAATGGGAGCCCG 59.964 45.833 0.29 0.00 39.42 6.13
3521 4058 6.982141 TCACGACAACAAAACTAGTCTATGTT 59.018 34.615 12.54 12.54 34.74 2.71
3523 4060 7.402811 TTCACGACAACAAAACTAGTCTATG 57.597 36.000 0.00 0.00 0.00 2.23
3588 4125 5.147162 GTTGAAAAGTGTCAAGCTTATCGG 58.853 41.667 0.00 0.00 38.17 4.18
3603 4140 6.981722 AGCCTACTTTAACATGGTTGAAAAG 58.018 36.000 3.43 3.43 36.41 2.27
3604 4141 6.969993 AGCCTACTTTAACATGGTTGAAAA 57.030 33.333 0.00 0.00 0.00 2.29
3605 4142 6.547880 TCAAGCCTACTTTAACATGGTTGAAA 59.452 34.615 0.00 0.00 32.29 2.69
3606 4143 6.065374 TCAAGCCTACTTTAACATGGTTGAA 58.935 36.000 0.00 0.00 32.29 2.69
3607 4144 5.626142 TCAAGCCTACTTTAACATGGTTGA 58.374 37.500 0.00 0.00 32.29 3.18
3608 4145 5.957842 TCAAGCCTACTTTAACATGGTTG 57.042 39.130 0.00 0.00 32.29 3.77
3609 4146 6.485171 AGATCAAGCCTACTTTAACATGGTT 58.515 36.000 0.00 0.00 32.29 3.67
3610 4147 6.067217 AGATCAAGCCTACTTTAACATGGT 57.933 37.500 0.00 0.00 32.29 3.55
3611 4148 7.396540 AAAGATCAAGCCTACTTTAACATGG 57.603 36.000 0.00 0.00 32.29 3.66
3615 4152 8.017946 CACAGAAAAGATCAAGCCTACTTTAAC 58.982 37.037 0.00 0.00 32.29 2.01
3629 4166 2.413453 GTCGCACTCCACAGAAAAGATC 59.587 50.000 0.00 0.00 0.00 2.75
3644 4181 6.654161 TCTTCTAATATAGGAGTAGGTCGCAC 59.346 42.308 0.00 0.00 32.96 5.34
3669 4206 1.753847 CGAGCTCTTCCCTCATCTCCT 60.754 57.143 12.85 0.00 0.00 3.69
3670 4207 0.673437 CGAGCTCTTCCCTCATCTCC 59.327 60.000 12.85 0.00 0.00 3.71
3671 4208 1.336755 GTCGAGCTCTTCCCTCATCTC 59.663 57.143 12.85 0.00 0.00 2.75
3672 4209 1.398692 GTCGAGCTCTTCCCTCATCT 58.601 55.000 12.85 0.00 0.00 2.90
3737 4274 1.066286 AGCCATGAGTGTGCTTCTCTC 60.066 52.381 0.00 0.00 37.24 3.20
3753 4293 1.176619 TGTCTTTCGGACTCGAGCCA 61.177 55.000 13.61 3.50 46.75 4.75
3765 4305 5.249420 AGAAGTGGATTAGCCTTGTCTTTC 58.751 41.667 0.00 0.00 37.63 2.62
3801 4341 4.202326 GGGTCTGAGGTACTTTGAAAGTCA 60.202 45.833 14.64 5.49 41.55 3.41
3803 4343 3.974642 AGGGTCTGAGGTACTTTGAAAGT 59.025 43.478 15.57 15.57 41.55 2.66
3819 4359 0.612453 GGAGTCGAGGTTCAGGGTCT 60.612 60.000 0.00 0.00 0.00 3.85
3820 4360 0.898789 TGGAGTCGAGGTTCAGGGTC 60.899 60.000 0.00 0.00 0.00 4.46
3831 4371 2.559698 TTCAAAGGCAATGGAGTCGA 57.440 45.000 0.00 0.00 0.00 4.20
3854 4394 1.686110 GAAGGCTCCCCCGAAGAGA 60.686 63.158 0.00 0.00 39.21 3.10
3860 4400 1.559065 TTAAGTGGAAGGCTCCCCCG 61.559 60.000 0.00 0.00 41.64 5.73
3884 4424 8.602472 TTGTAGTGCTCCCCATAAATTAAAAT 57.398 30.769 0.00 0.00 0.00 1.82
3890 4430 7.784550 ACAATATTTGTAGTGCTCCCCATAAAT 59.215 33.333 0.00 0.00 43.27 1.40
3895 4435 4.584638 ACAATATTTGTAGTGCTCCCCA 57.415 40.909 0.00 0.00 43.27 4.96
3896 4436 4.097892 CCAACAATATTTGTAGTGCTCCCC 59.902 45.833 0.00 0.00 44.59 4.81
3897 4437 4.705023 ACCAACAATATTTGTAGTGCTCCC 59.295 41.667 0.00 0.00 44.59 4.30


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

AutoCloner maintained by Alex Coulton.