Multiple sequence alignment - TraesCS3A01G480600

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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 TraesCS3A01G480600 chr3A 100.000 6195 0 0 1 6195 711401978 711408172 0.000000e+00 11441.0
1 TraesCS3A01G480600 chr3D 95.156 5409 181 39 799 6195 575848672 575854011 0.000000e+00 8462.0
2 TraesCS3A01G480600 chr3D 95.500 200 9 0 392 591 575848058 575848257 2.790000e-83 320.0
3 TraesCS3A01G480600 chr3D 86.301 219 19 5 177 393 575847891 575848100 1.740000e-55 228.0
4 TraesCS3A01G480600 chr3B 93.534 3418 155 24 1 3365 768255980 768252576 0.000000e+00 5027.0
5 TraesCS3A01G480600 chr3B 95.148 2164 80 14 3418 5580 768252578 768250439 0.000000e+00 3391.0
6 TraesCS3A01G480600 chr3B 91.532 496 27 11 5662 6153 768250141 768249657 0.000000e+00 669.0
7 TraesCS3A01G480600 chr3B 100.000 36 0 0 6160 6195 768249623 768249588 4.010000e-07 67.6


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 TraesCS3A01G480600 chr3A 711401978 711408172 6194 False 11441.000000 11441 100.0000 1 6195 1 chr3A.!!$F1 6194
1 TraesCS3A01G480600 chr3D 575847891 575854011 6120 False 3003.333333 8462 92.3190 177 6195 3 chr3D.!!$F1 6018
2 TraesCS3A01G480600 chr3B 768249588 768255980 6392 True 2288.650000 5027 95.0535 1 6195 4 chr3B.!!$R1 6194

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
385 423 0.033796 CTTGTCCCATGTCTGCCCAT 60.034 55.0 0.00 0.0 0.00 4.00 F
386 424 0.409092 TTGTCCCATGTCTGCCCATT 59.591 50.0 0.00 0.0 0.00 3.16 F
607 692 0.534203 GGGTTGGTTTGAGCGTCTGA 60.534 55.0 0.00 0.0 0.00 3.27 F
786 873 0.884704 TCAGCTGAAAGAACCGCACC 60.885 55.0 15.67 0.0 34.07 5.01 F
2389 2717 0.534877 TGAAAGAAAGCAGCGCTCCA 60.535 50.0 7.13 0.0 38.25 3.86 F
3190 3518 0.471617 AGACTGCTTCAACTGCCACT 59.528 50.0 0.00 0.0 0.00 4.00 F
3873 4202 0.893727 ACCATTTGTGCGGTTCCCTC 60.894 55.0 0.00 0.0 28.43 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1968 2296 0.179215 CGAGCATTTCCTCACAACGC 60.179 55.000 0.00 0.00 0.00 4.84 R
2368 2696 1.200948 GGAGCGCTGCTTTCTTTCATT 59.799 47.619 22.85 0.00 39.88 2.57 R
2383 2711 5.627172 TCTTCGAAAAATACATTTGGAGCG 58.373 37.500 0.00 0.00 30.37 5.03 R
2503 2831 6.994496 TGCCAAACTGATCTGATAATAAGAGG 59.006 38.462 6.60 0.00 0.00 3.69 R
3579 3908 0.109179 GCATGCCATTTCGCAACTCA 60.109 50.000 6.36 0.00 43.24 3.41 R
4133 4462 0.963962 ATGGCTTCTGCAACCTGTTG 59.036 50.000 5.66 5.66 43.14 3.33 R
5725 6318 0.040692 GGCGACCAAAGAACGAAACC 60.041 55.000 0.00 0.00 0.00 3.27 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
73 79 4.814294 CCCGCCGTACCAGCTGTC 62.814 72.222 13.81 1.88 0.00 3.51
76 82 2.342279 GCCGTACCAGCTGTCACA 59.658 61.111 13.81 0.00 0.00 3.58
136 150 5.824904 TTCTTTCAGCTAGAATGGATTGC 57.175 39.130 0.00 0.00 35.83 3.56
145 159 3.225177 AGAATGGATTGCTCTGGGATG 57.775 47.619 0.00 0.00 0.00 3.51
148 162 1.288188 TGGATTGCTCTGGGATGACA 58.712 50.000 0.00 0.00 0.00 3.58
150 164 2.228059 GGATTGCTCTGGGATGACATG 58.772 52.381 0.00 0.00 0.00 3.21
168 182 3.259876 ACATGGTGATGAAATTTGCTGCT 59.740 39.130 0.00 0.00 33.36 4.24
169 183 3.306917 TGGTGATGAAATTTGCTGCTG 57.693 42.857 0.00 0.00 0.00 4.41
174 188 5.973565 GGTGATGAAATTTGCTGCTGTATAC 59.026 40.000 0.00 0.00 0.00 1.47
176 190 7.198390 GTGATGAAATTTGCTGCTGTATACAT 58.802 34.615 5.91 0.73 0.00 2.29
177 191 7.166970 GTGATGAAATTTGCTGCTGTATACATG 59.833 37.037 5.91 2.21 0.00 3.21
178 192 5.342433 TGAAATTTGCTGCTGTATACATGC 58.658 37.500 5.91 12.31 0.00 4.06
179 193 5.125900 TGAAATTTGCTGCTGTATACATGCT 59.874 36.000 20.56 6.51 0.00 3.79
180 194 4.825546 ATTTGCTGCTGTATACATGCTC 57.174 40.909 20.56 15.03 0.00 4.26
181 195 3.548745 TTGCTGCTGTATACATGCTCT 57.451 42.857 20.56 0.00 0.00 4.09
183 197 3.200483 TGCTGCTGTATACATGCTCTTG 58.800 45.455 20.56 12.76 0.00 3.02
184 198 2.032204 GCTGCTGTATACATGCTCTTGC 60.032 50.000 20.56 13.60 40.20 4.01
213 251 1.753073 GGAATGGAATCTGCCCTTGTG 59.247 52.381 0.00 0.00 0.00 3.33
215 253 3.620488 GAATGGAATCTGCCCTTGTGTA 58.380 45.455 0.00 0.00 0.00 2.90
228 266 4.096382 GCCCTTGTGTATTACCATGAACTG 59.904 45.833 0.00 0.00 0.00 3.16
246 284 5.304101 TGAACTGGCTATTGGTGTCAATTTT 59.696 36.000 0.00 0.00 42.90 1.82
250 288 8.588290 ACTGGCTATTGGTGTCAATTTTTATA 57.412 30.769 0.00 0.00 42.90 0.98
269 307 9.953697 TTTTTATATACACAAACTTGCGAACTT 57.046 25.926 0.00 0.00 0.00 2.66
270 308 8.942669 TTTATATACACAAACTTGCGAACTTG 57.057 30.769 0.00 0.00 0.00 3.16
271 309 1.908065 ACACAAACTTGCGAACTTGC 58.092 45.000 0.00 0.00 0.00 4.01
284 322 3.803555 CGAACTTGCTCTTGATGTCAAC 58.196 45.455 0.00 0.00 0.00 3.18
286 324 4.376819 CGAACTTGCTCTTGATGTCAACTC 60.377 45.833 0.00 0.00 0.00 3.01
308 346 1.816224 TGCGTACTCTGTGTGAGCATA 59.184 47.619 9.02 0.00 46.41 3.14
330 368 0.179234 TCCGAGTTTGTTGAGGTGCA 59.821 50.000 0.00 0.00 0.00 4.57
335 373 1.824230 AGTTTGTTGAGGTGCAAAGCA 59.176 42.857 0.00 0.00 38.44 3.91
358 396 9.632638 AGCACAAATACAGGAGATAAAATGTAT 57.367 29.630 0.00 0.00 39.83 2.29
359 397 9.669353 GCACAAATACAGGAGATAAAATGTATG 57.331 33.333 0.00 0.00 38.51 2.39
367 405 8.932610 ACAGGAGATAAAATGTATGATCACTCT 58.067 33.333 0.00 0.00 0.00 3.24
368 406 9.775854 CAGGAGATAAAATGTATGATCACTCTT 57.224 33.333 0.00 0.00 0.00 2.85
369 407 9.775854 AGGAGATAAAATGTATGATCACTCTTG 57.224 33.333 0.00 0.00 0.00 3.02
370 408 9.553064 GGAGATAAAATGTATGATCACTCTTGT 57.447 33.333 0.00 0.00 0.00 3.16
372 410 9.553064 AGATAAAATGTATGATCACTCTTGTCC 57.447 33.333 0.00 0.00 0.00 4.02
373 411 8.682936 ATAAAATGTATGATCACTCTTGTCCC 57.317 34.615 0.00 0.00 0.00 4.46
374 412 5.698741 AATGTATGATCACTCTTGTCCCA 57.301 39.130 0.00 0.00 0.00 4.37
375 413 5.901413 ATGTATGATCACTCTTGTCCCAT 57.099 39.130 0.00 0.00 0.00 4.00
376 414 5.027293 TGTATGATCACTCTTGTCCCATG 57.973 43.478 0.00 0.00 0.00 3.66
377 415 4.471025 TGTATGATCACTCTTGTCCCATGT 59.529 41.667 0.00 0.00 0.00 3.21
378 416 3.616956 TGATCACTCTTGTCCCATGTC 57.383 47.619 0.00 0.00 0.00 3.06
379 417 3.176411 TGATCACTCTTGTCCCATGTCT 58.824 45.455 0.00 0.00 0.00 3.41
380 418 3.055602 TGATCACTCTTGTCCCATGTCTG 60.056 47.826 0.00 0.00 0.00 3.51
381 419 1.002430 TCACTCTTGTCCCATGTCTGC 59.998 52.381 0.00 0.00 0.00 4.26
382 420 0.326264 ACTCTTGTCCCATGTCTGCC 59.674 55.000 0.00 0.00 0.00 4.85
383 421 0.393537 CTCTTGTCCCATGTCTGCCC 60.394 60.000 0.00 0.00 0.00 5.36
384 422 1.133181 TCTTGTCCCATGTCTGCCCA 61.133 55.000 0.00 0.00 0.00 5.36
385 423 0.033796 CTTGTCCCATGTCTGCCCAT 60.034 55.000 0.00 0.00 0.00 4.00
386 424 0.409092 TTGTCCCATGTCTGCCCATT 59.591 50.000 0.00 0.00 0.00 3.16
387 425 0.409092 TGTCCCATGTCTGCCCATTT 59.591 50.000 0.00 0.00 0.00 2.32
388 426 0.819582 GTCCCATGTCTGCCCATTTG 59.180 55.000 0.00 0.00 0.00 2.32
389 427 0.703488 TCCCATGTCTGCCCATTTGA 59.297 50.000 0.00 0.00 0.00 2.69
390 428 1.288633 TCCCATGTCTGCCCATTTGAT 59.711 47.619 0.00 0.00 0.00 2.57
391 429 2.112998 CCCATGTCTGCCCATTTGATT 58.887 47.619 0.00 0.00 0.00 2.57
392 430 3.053019 TCCCATGTCTGCCCATTTGATTA 60.053 43.478 0.00 0.00 0.00 1.75
393 431 3.705579 CCCATGTCTGCCCATTTGATTAA 59.294 43.478 0.00 0.00 0.00 1.40
394 432 4.202182 CCCATGTCTGCCCATTTGATTAAG 60.202 45.833 0.00 0.00 0.00 1.85
395 433 4.646040 CCATGTCTGCCCATTTGATTAAGA 59.354 41.667 0.00 0.00 0.00 2.10
476 561 8.819974 AGATTCTTTAATGTTTGCAGTTTGTTG 58.180 29.630 0.00 0.00 0.00 3.33
534 619 4.535781 TGATGCTATTAACTGTGGCCAAT 58.464 39.130 7.24 0.00 0.00 3.16
535 620 4.338964 TGATGCTATTAACTGTGGCCAATG 59.661 41.667 7.24 5.73 0.00 2.82
581 666 6.875726 AGCTTCTGAATTTTAGGCCAAAAATC 59.124 34.615 5.01 12.57 39.51 2.17
607 692 0.534203 GGGTTGGTTTGAGCGTCTGA 60.534 55.000 0.00 0.00 0.00 3.27
608 693 1.305201 GGTTGGTTTGAGCGTCTGAA 58.695 50.000 0.00 0.00 0.00 3.02
667 753 7.394872 GTTTCTTGCTCATATCTTCAGTAACG 58.605 38.462 0.00 0.00 0.00 3.18
703 789 9.996554 ATAACACATGTCGATTAATCAGGATAA 57.003 29.630 15.57 0.10 0.00 1.75
734 820 1.152118 GGGTTTCCCAGGGGCTTTT 60.152 57.895 5.33 0.00 44.65 2.27
763 850 5.122239 CACCATTGTTTCTATGCGAAGAGAA 59.878 40.000 0.00 0.00 32.21 2.87
784 871 1.229428 CTTCAGCTGAAAGAACCGCA 58.771 50.000 28.16 4.72 34.07 5.69
786 873 0.884704 TCAGCTGAAAGAACCGCACC 60.885 55.000 15.67 0.00 34.07 5.01
800 1127 1.768077 GCACCCCTAGATCAGCCCT 60.768 63.158 0.00 0.00 0.00 5.19
801 1128 2.049627 GCACCCCTAGATCAGCCCTG 62.050 65.000 0.00 0.00 0.00 4.45
897 1224 2.907634 TCTGACTGGCTACTACTCTCG 58.092 52.381 0.00 0.00 0.00 4.04
988 1316 7.496529 TGTTGTCCTCATCTTTTCAGTTAAG 57.503 36.000 0.00 0.00 0.00 1.85
1104 1432 2.126888 CGTGGGTGCATTGCGTTC 60.127 61.111 3.84 0.00 0.00 3.95
1311 1639 4.561123 CGCTCATCATCTTTCCAGAGCTAT 60.561 45.833 10.06 0.00 44.56 2.97
1407 1735 2.590092 GACCCTGATCCCAACCGG 59.410 66.667 0.00 0.00 0.00 5.28
1638 1966 4.137543 GGGATTTCTCCGATGCTATGTTT 58.862 43.478 0.00 0.00 43.11 2.83
1642 1970 6.260050 GGATTTCTCCGATGCTATGTTTGTTA 59.740 38.462 0.00 0.00 0.00 2.41
1812 2140 3.515901 CTGGGTCTACTCAGGTAAGCTTT 59.484 47.826 3.20 0.00 0.00 3.51
1896 2224 5.010213 GTGTGCTCTTATTTTGGGGTTAACA 59.990 40.000 8.10 0.00 0.00 2.41
1905 2233 2.666272 TGGGGTTAACACAGATTGCA 57.334 45.000 10.63 0.00 0.00 4.08
1977 2305 2.616842 ACCTTTGGTAAAGCGTTGTGAG 59.383 45.455 0.00 0.00 37.18 3.51
2034 2362 8.908786 ATGATCTCTCTGAGTCTAGTAGAAAG 57.091 38.462 0.17 0.76 0.00 2.62
2154 2482 7.519008 GCAAGTGGTGAGCATAGTGATATAAAC 60.519 40.741 0.00 0.00 0.00 2.01
2248 2576 1.553248 CCAAGGTACATCTTCGTCCCA 59.447 52.381 0.00 0.00 0.00 4.37
2273 2601 9.701355 CAACATTGTATTTGTTTCTGGTTTTTC 57.299 29.630 0.00 0.00 35.18 2.29
2296 2624 7.238486 TCCTTTGTTGGTTTACAATATGCAT 57.762 32.000 3.79 3.79 41.95 3.96
2368 2696 5.711506 ACTTATGCAGATGTTCACAAATGGA 59.288 36.000 0.00 0.00 0.00 3.41
2383 2711 4.992951 ACAAATGGAATGAAAGAAAGCAGC 59.007 37.500 0.00 0.00 0.00 5.25
2389 2717 0.534877 TGAAAGAAAGCAGCGCTCCA 60.535 50.000 7.13 0.00 38.25 3.86
2503 2831 0.524862 CACCTGCATTGGTTCAGCTC 59.475 55.000 0.00 0.00 38.45 4.09
2524 2852 8.149647 CAGCTCCTCTTATTATCAGATCAGTTT 58.850 37.037 0.00 0.00 0.00 2.66
2776 3104 2.094182 TGCAGGATTCGACTGTTCTACC 60.094 50.000 3.76 0.00 38.22 3.18
3128 3456 7.758076 CGTCCATGCGAAAATAGATATAAGGTA 59.242 37.037 0.00 0.00 0.00 3.08
3139 3467 7.793948 ATAGATATAAGGTAACCAGACCACC 57.206 40.000 0.00 0.00 42.47 4.61
3167 3495 1.131883 AGCATCACATTCGAAAGCTGC 59.868 47.619 0.00 8.95 31.53 5.25
3174 3502 4.093408 TCACATTCGAAAGCTGCAATAGAC 59.907 41.667 0.00 0.00 0.00 2.59
3186 3514 2.485426 TGCAATAGACTGCTTCAACTGC 59.515 45.455 0.00 0.00 43.07 4.40
3190 3518 0.471617 AGACTGCTTCAACTGCCACT 59.528 50.000 0.00 0.00 0.00 4.00
3397 3725 2.105649 TGTTGATCAACCTGCACCTGTA 59.894 45.455 30.66 9.56 40.46 2.74
3506 3835 2.892374 TGCTGAACATCAGTGGTATCG 58.108 47.619 8.97 0.00 45.94 2.92
3579 3908 4.022849 GGAACTGCATGCTAAGTTTCTTGT 60.023 41.667 20.65 1.94 36.77 3.16
3873 4202 0.893727 ACCATTTGTGCGGTTCCCTC 60.894 55.000 0.00 0.00 28.43 4.30
3957 4286 5.123027 GGATCAGTTTTAACCTTCTGCTGAG 59.877 44.000 0.00 0.00 35.40 3.35
4058 4387 7.724305 TGTTCAGACAGTTGGTTAGTAATTC 57.276 36.000 0.00 0.00 0.00 2.17
4100 4429 4.202182 GCACGTCAGGGTATGTTATCCTAA 60.202 45.833 0.00 0.00 37.11 2.69
4133 4462 5.932303 TGTACAGCTGATTTACTTCTTGGAC 59.068 40.000 23.35 0.00 0.00 4.02
4172 4501 4.334759 CCATTGAGTTCTCTAATGCTGGTG 59.665 45.833 13.87 0.00 32.01 4.17
4174 4503 2.568956 TGAGTTCTCTAATGCTGGTGCT 59.431 45.455 1.53 0.00 40.48 4.40
4234 4563 9.065871 GTTAATGCATTGATCAAGTTCAGTAAC 57.934 33.333 24.67 24.67 35.72 2.50
4556 4885 4.122046 CCAAAGGCTCTGGTTTCAAAAAG 58.878 43.478 0.00 0.00 0.00 2.27
4568 4897 7.279750 TGGTTTCAAAAAGTTACCAGGTATC 57.720 36.000 0.00 0.00 34.13 2.24
4592 4921 5.620654 CGATGTTGTTGAGAATGCTTGGAAT 60.621 40.000 0.00 0.00 0.00 3.01
4594 4923 6.839124 TGTTGTTGAGAATGCTTGGAATAT 57.161 33.333 0.00 0.00 0.00 1.28
4595 4924 7.230849 TGTTGTTGAGAATGCTTGGAATATT 57.769 32.000 0.00 0.00 0.00 1.28
4596 4925 8.347004 TGTTGTTGAGAATGCTTGGAATATTA 57.653 30.769 0.00 0.00 0.00 0.98
4933 5269 2.287915 TGCTTTGCGTTTCTTCTGAGAC 59.712 45.455 0.00 0.00 0.00 3.36
4934 5270 2.545946 GCTTTGCGTTTCTTCTGAGACT 59.454 45.455 0.00 0.00 0.00 3.24
4935 5271 3.605692 GCTTTGCGTTTCTTCTGAGACTG 60.606 47.826 0.00 0.00 0.00 3.51
4936 5272 3.452755 TTGCGTTTCTTCTGAGACTGA 57.547 42.857 0.00 0.00 0.00 3.41
4937 5273 3.018598 TGCGTTTCTTCTGAGACTGAG 57.981 47.619 0.00 0.00 0.00 3.35
4938 5274 2.623416 TGCGTTTCTTCTGAGACTGAGA 59.377 45.455 0.00 0.00 0.00 3.27
5041 5377 4.593864 GAGGACGAGCGGGCCATC 62.594 72.222 4.39 0.00 0.00 3.51
5225 5561 5.221461 ACAGGTCTCGTGTAAGATGTTTTCT 60.221 40.000 0.00 0.00 35.70 2.52
5228 5564 5.465724 GGTCTCGTGTAAGATGTTTTCTGTT 59.534 40.000 0.00 0.00 33.93 3.16
5234 5570 8.666573 TCGTGTAAGATGTTTTCTGTTGTTTTA 58.333 29.630 0.00 0.00 33.93 1.52
5329 5667 3.248602 CACCTCTTGCTTGAGTTACACAC 59.751 47.826 5.96 0.00 32.50 3.82
5330 5668 3.118408 ACCTCTTGCTTGAGTTACACACA 60.118 43.478 5.96 0.00 32.50 3.72
5331 5669 3.248602 CCTCTTGCTTGAGTTACACACAC 59.751 47.826 5.96 0.00 32.50 3.82
5332 5670 3.867857 TCTTGCTTGAGTTACACACACA 58.132 40.909 0.00 0.00 0.00 3.72
5333 5671 3.621268 TCTTGCTTGAGTTACACACACAC 59.379 43.478 0.00 0.00 0.00 3.82
5334 5672 2.979240 TGCTTGAGTTACACACACACA 58.021 42.857 0.00 0.00 0.00 3.72
5335 5673 2.675844 TGCTTGAGTTACACACACACAC 59.324 45.455 0.00 0.00 0.00 3.82
5412 5752 6.618379 GCTGGAATAAATGTTTCCGCAAAAAG 60.618 38.462 11.58 0.16 44.67 2.27
5427 5767 6.477360 TCCGCAAAAAGAAAGTTGGAATAAAC 59.523 34.615 0.00 0.00 0.00 2.01
5457 5797 5.298989 TGTTTTGCTTCTCCCTAGTTGTA 57.701 39.130 0.00 0.00 0.00 2.41
5459 5799 5.071250 TGTTTTGCTTCTCCCTAGTTGTAGA 59.929 40.000 0.00 0.00 0.00 2.59
5460 5800 5.818678 TTTGCTTCTCCCTAGTTGTAGAA 57.181 39.130 0.00 0.00 0.00 2.10
5461 5801 4.803098 TGCTTCTCCCTAGTTGTAGAAC 57.197 45.455 0.00 0.00 0.00 3.01
5463 5803 4.838986 TGCTTCTCCCTAGTTGTAGAACTT 59.161 41.667 10.92 0.00 39.56 2.66
5464 5804 5.172205 GCTTCTCCCTAGTTGTAGAACTTG 58.828 45.833 10.92 8.82 39.56 3.16
5466 5806 6.591750 TTCTCCCTAGTTGTAGAACTTGAG 57.408 41.667 10.92 13.53 39.56 3.02
5467 5807 5.888901 TCTCCCTAGTTGTAGAACTTGAGA 58.111 41.667 10.92 15.31 39.56 3.27
5468 5808 6.312529 TCTCCCTAGTTGTAGAACTTGAGAA 58.687 40.000 18.64 9.01 39.56 2.87
5489 5835 6.615088 AGAATGTTGTCTGAAATGTGCATAC 58.385 36.000 0.00 0.00 0.00 2.39
5499 5845 5.404096 TGAAATGTGCATACAGCTTTGATG 58.596 37.500 0.00 0.00 45.94 3.07
5504 5850 3.374988 GTGCATACAGCTTTGATGTGCTA 59.625 43.478 0.00 0.00 45.94 3.49
5553 5899 6.655078 ACAATGTTCTCTTAAAAGCCACAT 57.345 33.333 0.00 0.00 0.00 3.21
5586 5932 5.929697 TGCACAACTTTCTCATTAGTCAG 57.070 39.130 0.00 0.00 0.00 3.51
5596 5942 6.665992 TTCTCATTAGTCAGTACACCACTT 57.334 37.500 0.00 0.00 34.26 3.16
5598 5944 7.770366 TCTCATTAGTCAGTACACCACTTTA 57.230 36.000 0.00 0.00 34.26 1.85
5599 5945 7.827701 TCTCATTAGTCAGTACACCACTTTAG 58.172 38.462 0.00 0.00 34.26 1.85
5600 5946 6.395629 TCATTAGTCAGTACACCACTTTAGC 58.604 40.000 0.00 0.00 34.26 3.09
5601 5947 5.794726 TTAGTCAGTACACCACTTTAGCA 57.205 39.130 0.00 0.00 34.26 3.49
5602 5948 4.891992 AGTCAGTACACCACTTTAGCAT 57.108 40.909 0.00 0.00 34.26 3.79
5603 5949 4.569943 AGTCAGTACACCACTTTAGCATG 58.430 43.478 0.00 0.00 34.26 4.06
5604 5950 4.040461 AGTCAGTACACCACTTTAGCATGT 59.960 41.667 0.00 0.00 34.26 3.21
5606 5952 5.577164 GTCAGTACACCACTTTAGCATGTAG 59.423 44.000 0.00 0.00 34.26 2.74
5607 5953 5.245301 TCAGTACACCACTTTAGCATGTAGT 59.755 40.000 0.00 0.00 34.26 2.73
5608 5954 6.434965 TCAGTACACCACTTTAGCATGTAGTA 59.565 38.462 0.00 0.00 34.26 1.82
5609 5955 7.039574 TCAGTACACCACTTTAGCATGTAGTAA 60.040 37.037 0.00 0.00 34.26 2.24
5613 5959 8.888579 ACACCACTTTAGCATGTAGTAATATC 57.111 34.615 0.00 0.00 0.00 1.63
5645 5991 0.603569 AAAGACTGCGGATCGACAGT 59.396 50.000 16.59 16.59 42.87 3.55
5657 6003 4.156008 CGGATCGACAGTATGGATGTATGA 59.844 45.833 0.00 0.00 43.62 2.15
5697 6290 2.746359 AGCGCTTCAGCTCCTTGT 59.254 55.556 2.64 0.00 45.67 3.16
5705 6298 5.163913 GCGCTTCAGCTCCTTGTTATATATG 60.164 44.000 0.00 0.00 39.32 1.78
5712 6305 6.883217 CAGCTCCTTGTTATATATGCCTCAAT 59.117 38.462 0.00 0.00 0.00 2.57
5759 6352 5.308976 TGGTCGCCTCGGGTATATATATA 57.691 43.478 0.00 0.00 0.00 0.86
5762 6355 6.432162 TGGTCGCCTCGGGTATATATATATTC 59.568 42.308 10.48 5.77 0.00 1.75
5765 6358 8.235905 GTCGCCTCGGGTATATATATATTCTTC 58.764 40.741 10.48 2.96 0.00 2.87
5799 6392 9.902196 CATTAACTTGCATATGCTATCAATCAA 57.098 29.630 27.13 10.45 42.66 2.57
5807 6400 8.635328 TGCATATGCTATCAATCAAACTGAAAT 58.365 29.630 27.13 0.00 42.66 2.17
5814 6407 8.474577 GCTATCAATCAAACTGAAATATTTGCG 58.525 33.333 5.17 0.00 36.06 4.85
5899 6494 6.706270 TGCAAATCTAGCTAAGCTAATACACC 59.294 38.462 0.00 0.00 40.82 4.16
6017 6612 3.494336 CGACGTACTCTCCGCCGT 61.494 66.667 0.00 0.00 36.04 5.68
6117 6713 9.197694 ACACGTATTTTATCTCTGAATGATAGC 57.802 33.333 0.00 0.00 0.00 2.97
6154 6753 2.417933 CAGCAGAGCCTTGTTCATACAC 59.582 50.000 0.00 0.00 32.98 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 70 0.107456 CTCACCTTGTGACAGCTGGT 59.893 55.000 19.93 0.41 37.67 4.00
114 120 5.503927 AGCAATCCATTCTAGCTGAAAGAA 58.496 37.500 0.00 0.00 38.29 2.52
115 121 5.104610 AGAGCAATCCATTCTAGCTGAAAGA 60.105 40.000 0.00 1.00 38.29 2.52
116 122 5.007823 CAGAGCAATCCATTCTAGCTGAAAG 59.992 44.000 0.00 0.00 38.29 2.62
117 123 4.880120 CAGAGCAATCCATTCTAGCTGAAA 59.120 41.667 0.00 0.00 38.29 2.69
118 124 4.449131 CAGAGCAATCCATTCTAGCTGAA 58.551 43.478 0.00 0.00 39.24 3.02
119 125 3.181457 CCAGAGCAATCCATTCTAGCTGA 60.181 47.826 0.00 0.00 35.36 4.26
120 126 3.139850 CCAGAGCAATCCATTCTAGCTG 58.860 50.000 0.00 0.00 35.36 4.24
121 127 2.106166 CCCAGAGCAATCCATTCTAGCT 59.894 50.000 0.00 0.00 38.43 3.32
122 128 2.105477 TCCCAGAGCAATCCATTCTAGC 59.895 50.000 0.00 0.00 0.00 3.42
123 129 4.041321 TCATCCCAGAGCAATCCATTCTAG 59.959 45.833 0.00 0.00 0.00 2.43
136 150 2.436911 TCATCACCATGTCATCCCAGAG 59.563 50.000 0.00 0.00 0.00 3.35
145 159 3.615496 GCAGCAAATTTCATCACCATGTC 59.385 43.478 0.00 0.00 0.00 3.06
148 162 3.259876 ACAGCAGCAAATTTCATCACCAT 59.740 39.130 0.00 0.00 0.00 3.55
150 164 3.308438 ACAGCAGCAAATTTCATCACC 57.692 42.857 0.00 0.00 0.00 4.02
177 191 3.439476 CCATTCCAGCTATATGCAAGAGC 59.561 47.826 9.24 9.24 45.94 4.09
178 192 4.903054 TCCATTCCAGCTATATGCAAGAG 58.097 43.478 0.00 0.00 45.94 2.85
179 193 4.980339 TCCATTCCAGCTATATGCAAGA 57.020 40.909 0.00 0.00 45.94 3.02
180 194 5.944599 AGATTCCATTCCAGCTATATGCAAG 59.055 40.000 0.00 0.00 45.94 4.01
181 195 5.708697 CAGATTCCATTCCAGCTATATGCAA 59.291 40.000 0.00 0.00 45.94 4.08
183 197 4.096081 GCAGATTCCATTCCAGCTATATGC 59.904 45.833 0.00 0.00 43.29 3.14
184 198 4.639310 GGCAGATTCCATTCCAGCTATATG 59.361 45.833 0.00 0.00 0.00 1.78
189 227 0.106318 GGGCAGATTCCATTCCAGCT 60.106 55.000 0.00 0.00 0.00 4.24
193 231 1.753073 CACAAGGGCAGATTCCATTCC 59.247 52.381 0.00 0.00 0.00 3.01
246 284 7.018826 GCAAGTTCGCAAGTTTGTGTATATAA 58.981 34.615 5.43 0.00 39.58 0.98
250 288 3.315191 AGCAAGTTCGCAAGTTTGTGTAT 59.685 39.130 5.43 0.00 39.58 2.29
256 294 2.682856 TCAAGAGCAAGTTCGCAAGTTT 59.317 40.909 0.00 0.00 39.48 2.66
264 302 4.376819 CGAGTTGACATCAAGAGCAAGTTC 60.377 45.833 0.00 0.00 36.39 3.01
265 303 3.496130 CGAGTTGACATCAAGAGCAAGTT 59.504 43.478 0.00 0.00 36.39 2.66
266 304 3.062763 CGAGTTGACATCAAGAGCAAGT 58.937 45.455 0.00 0.00 36.39 3.16
267 305 3.062763 ACGAGTTGACATCAAGAGCAAG 58.937 45.455 0.00 0.00 36.39 4.01
268 306 2.802247 CACGAGTTGACATCAAGAGCAA 59.198 45.455 0.00 0.00 36.39 3.91
269 307 2.407090 CACGAGTTGACATCAAGAGCA 58.593 47.619 0.00 0.00 36.39 4.26
270 308 1.127582 GCACGAGTTGACATCAAGAGC 59.872 52.381 0.00 0.00 36.39 4.09
271 309 1.388093 CGCACGAGTTGACATCAAGAG 59.612 52.381 0.00 0.00 36.39 2.85
284 322 0.237498 TCACACAGAGTACGCACGAG 59.763 55.000 0.00 0.00 0.00 4.18
286 324 1.337817 GCTCACACAGAGTACGCACG 61.338 60.000 0.00 0.00 46.47 5.34
308 346 2.494059 CACCTCAACAAACTCGGACAT 58.506 47.619 0.00 0.00 0.00 3.06
330 368 8.806146 ACATTTTATCTCCTGTATTTGTGCTTT 58.194 29.630 0.00 0.00 0.00 3.51
369 407 0.819582 CAAATGGGCAGACATGGGAC 59.180 55.000 0.00 0.00 0.00 4.46
370 408 0.703488 TCAAATGGGCAGACATGGGA 59.297 50.000 0.00 0.00 0.00 4.37
371 409 1.784358 ATCAAATGGGCAGACATGGG 58.216 50.000 0.00 0.00 0.00 4.00
372 410 4.646040 TCTTAATCAAATGGGCAGACATGG 59.354 41.667 0.00 0.00 0.00 3.66
373 411 5.840243 TCTTAATCAAATGGGCAGACATG 57.160 39.130 0.00 0.00 0.00 3.21
374 412 5.895534 ACATCTTAATCAAATGGGCAGACAT 59.104 36.000 0.00 0.00 0.00 3.06
375 413 5.263599 ACATCTTAATCAAATGGGCAGACA 58.736 37.500 0.00 0.00 0.00 3.41
376 414 5.841957 ACATCTTAATCAAATGGGCAGAC 57.158 39.130 0.00 0.00 0.00 3.51
377 415 7.289310 TCATACATCTTAATCAAATGGGCAGA 58.711 34.615 0.00 0.00 0.00 4.26
378 416 7.514784 TCATACATCTTAATCAAATGGGCAG 57.485 36.000 0.00 0.00 0.00 4.85
379 417 7.724951 TGATCATACATCTTAATCAAATGGGCA 59.275 33.333 0.00 0.00 0.00 5.36
380 418 8.025445 GTGATCATACATCTTAATCAAATGGGC 58.975 37.037 0.00 0.00 0.00 5.36
381 419 9.293404 AGTGATCATACATCTTAATCAAATGGG 57.707 33.333 0.00 0.00 0.00 4.00
385 423 9.551734 CTGGAGTGATCATACATCTTAATCAAA 57.448 33.333 0.00 0.00 0.00 2.69
386 424 8.708378 ACTGGAGTGATCATACATCTTAATCAA 58.292 33.333 0.00 0.00 0.00 2.57
387 425 8.255111 ACTGGAGTGATCATACATCTTAATCA 57.745 34.615 0.00 0.00 0.00 2.57
388 426 9.202273 GAACTGGAGTGATCATACATCTTAATC 57.798 37.037 0.00 0.00 0.00 1.75
389 427 8.153550 GGAACTGGAGTGATCATACATCTTAAT 58.846 37.037 0.00 0.00 0.00 1.40
390 428 7.125659 TGGAACTGGAGTGATCATACATCTTAA 59.874 37.037 0.00 0.00 0.00 1.85
391 429 6.611236 TGGAACTGGAGTGATCATACATCTTA 59.389 38.462 0.00 0.00 0.00 2.10
392 430 5.426509 TGGAACTGGAGTGATCATACATCTT 59.573 40.000 0.00 0.00 0.00 2.40
393 431 4.964897 TGGAACTGGAGTGATCATACATCT 59.035 41.667 0.00 0.00 0.00 2.90
394 432 5.282055 TGGAACTGGAGTGATCATACATC 57.718 43.478 0.00 0.00 0.00 3.06
395 433 5.131642 ACATGGAACTGGAGTGATCATACAT 59.868 40.000 0.00 0.00 0.00 2.29
529 614 0.614812 ACCTTGGATTTGGCATTGGC 59.385 50.000 2.73 2.73 40.13 4.52
534 619 3.198635 TGAAACAAACCTTGGATTTGGCA 59.801 39.130 14.39 0.00 40.64 4.92
535 620 3.802866 TGAAACAAACCTTGGATTTGGC 58.197 40.909 14.39 0.00 40.64 4.52
607 692 8.189119 TGACTTCCAAATTTTAGCCTACAATT 57.811 30.769 0.00 0.00 0.00 2.32
608 693 7.093771 CCTGACTTCCAAATTTTAGCCTACAAT 60.094 37.037 0.00 0.00 0.00 2.71
667 753 3.301835 CGACATGTGTTATCGCTTACTGC 60.302 47.826 1.15 0.00 38.57 4.40
734 820 6.078202 TCGCATAGAAACAATGGTGAAAAA 57.922 33.333 0.00 0.00 0.00 1.94
768 855 1.576421 GGTGCGGTTCTTTCAGCTG 59.424 57.895 7.63 7.63 0.00 4.24
782 869 1.768077 AGGGCTGATCTAGGGGTGC 60.768 63.158 0.00 0.00 0.00 5.01
784 871 1.074167 CCAGGGCTGATCTAGGGGT 60.074 63.158 0.00 0.00 0.00 4.95
786 873 0.982704 CATCCAGGGCTGATCTAGGG 59.017 60.000 0.00 0.00 0.00 3.53
800 1127 0.252696 AGGGTGTGACCTAGCATCCA 60.253 55.000 0.90 0.00 39.65 3.41
801 1128 0.912486 AAGGGTGTGACCTAGCATCC 59.088 55.000 0.00 0.00 40.87 3.51
988 1316 0.879765 ACTCTCATTGTGCAAGCAGC 59.120 50.000 0.00 0.00 45.96 5.25
1311 1639 5.774102 ATCCATCATAGATGCTGATCCAA 57.226 39.130 1.52 0.00 31.00 3.53
1407 1735 6.929049 TGGATAATCCGACATACTGAACATTC 59.071 38.462 0.00 0.00 40.17 2.67
1638 1966 7.558444 ACAACCTTTCTTTCACTACCAATAACA 59.442 33.333 0.00 0.00 0.00 2.41
1642 1970 5.535030 GGACAACCTTTCTTTCACTACCAAT 59.465 40.000 0.00 0.00 0.00 3.16
1791 2119 2.921834 AGCTTACCTGAGTAGACCCA 57.078 50.000 0.00 0.00 0.00 4.51
1896 2224 3.731716 TTGCCACTCTGCAATCTGT 57.268 47.368 0.00 0.00 45.77 3.41
1905 2233 1.701847 AGTGAATCCAGTTGCCACTCT 59.298 47.619 0.00 0.00 33.27 3.24
1968 2296 0.179215 CGAGCATTTCCTCACAACGC 60.179 55.000 0.00 0.00 0.00 4.84
1977 2305 6.367969 TCTTAGTAAAACAGTCGAGCATTTCC 59.632 38.462 0.00 0.00 0.00 3.13
2059 2387 6.352137 GGGAAATAATCAACTTGATGGGCTTT 60.352 38.462 4.99 3.71 37.15 3.51
2154 2482 6.391227 AAACCTTGTCCACTAACAAAGATG 57.609 37.500 0.00 0.00 38.60 2.90
2248 2576 8.888716 GGAAAAACCAGAAACAAATACAATGTT 58.111 29.630 0.00 0.00 39.43 2.71
2273 2601 9.598517 AATATGCATATTGTAAACCAACAAAGG 57.401 29.630 27.22 0.00 42.33 3.11
2293 2621 4.873817 TGATGCACTATGCCAAAATATGC 58.126 39.130 0.00 0.00 44.23 3.14
2296 2624 6.528537 AGTTTGATGCACTATGCCAAAATA 57.471 33.333 6.75 0.00 44.23 1.40
2368 2696 1.200948 GGAGCGCTGCTTTCTTTCATT 59.799 47.619 22.85 0.00 39.88 2.57
2383 2711 5.627172 TCTTCGAAAAATACATTTGGAGCG 58.373 37.500 0.00 0.00 30.37 5.03
2389 2717 7.274250 GCAGAAGCATCTTCGAAAAATACATTT 59.726 33.333 0.00 0.00 41.58 2.32
2503 2831 6.994496 TGCCAAACTGATCTGATAATAAGAGG 59.006 38.462 6.60 0.00 0.00 3.69
2776 3104 8.669394 AAATTCGTTAAAATAAGCTTCTTCCG 57.331 30.769 0.00 1.29 0.00 4.30
3110 3438 9.420551 GGTCTGGTTACCTTATATCTATTTTCG 57.579 37.037 2.07 0.00 36.53 3.46
3128 3456 1.276421 CTCAATCTCGGTGGTCTGGTT 59.724 52.381 0.00 0.00 0.00 3.67
3139 3467 3.118542 TCGAATGTGATGCTCAATCTCG 58.881 45.455 0.00 0.00 36.15 4.04
3167 3495 3.076621 TGGCAGTTGAAGCAGTCTATTG 58.923 45.455 0.00 0.00 0.00 1.90
3174 3502 0.595095 GGAAGTGGCAGTTGAAGCAG 59.405 55.000 13.24 0.00 0.00 4.24
3186 3514 1.799258 GCTGCACTTGTGGGAAGTGG 61.799 60.000 14.65 2.58 45.72 4.00
3190 3518 1.073025 ATCGCTGCACTTGTGGGAA 59.927 52.632 0.00 0.00 0.00 3.97
3340 3668 9.173021 CAACAATTGTAGGATTGGATTACTACA 57.827 33.333 12.39 0.00 42.71 2.74
3413 3741 2.978156 ACCCAACCACATGACATTCT 57.022 45.000 0.00 0.00 0.00 2.40
3423 3751 1.283613 TCACCATCCATACCCAACCAC 59.716 52.381 0.00 0.00 0.00 4.16
3506 3835 6.094881 TCCTTAACTTTAATACATGCACCAGC 59.905 38.462 0.00 0.00 42.57 4.85
3555 3884 3.754965 AGAAACTTAGCATGCAGTTCCA 58.245 40.909 21.98 0.00 31.79 3.53
3579 3908 0.109179 GCATGCCATTTCGCAACTCA 60.109 50.000 6.36 0.00 43.24 3.41
3873 4202 1.300233 GGAGAGACGGCGGCATTAG 60.300 63.158 18.30 0.00 0.00 1.73
3957 4286 7.837505 GTGTTTATTAGGAGCAAAACAAACAC 58.162 34.615 10.19 10.19 43.86 3.32
4058 4387 5.760253 ACGTGCCAAAGAAATGGATCTATAG 59.240 40.000 0.00 0.00 43.54 1.31
4072 4401 1.086696 CATACCCTGACGTGCCAAAG 58.913 55.000 0.00 0.00 0.00 2.77
4100 4429 4.357918 AATCAGCTGTACAGTTCCTGTT 57.642 40.909 23.44 13.89 42.59 3.16
4133 4462 0.963962 ATGGCTTCTGCAACCTGTTG 59.036 50.000 5.66 5.66 43.14 3.33
4172 4501 4.707030 TGTTTGTCATCATCATCCAAGC 57.293 40.909 0.00 0.00 0.00 4.01
4174 4503 6.014413 ACCATTTGTTTGTCATCATCATCCAA 60.014 34.615 0.00 0.00 0.00 3.53
4234 4563 8.394971 TCATAAATATTCAGGCATACCAACTG 57.605 34.615 0.00 0.00 39.06 3.16
4556 4885 5.172934 TCAACAACATCGATACCTGGTAAC 58.827 41.667 11.17 7.37 0.00 2.50
4568 4897 3.189080 TCCAAGCATTCTCAACAACATCG 59.811 43.478 0.00 0.00 0.00 3.84
4769 5098 5.115480 TGCTCAAATCAAACAAAAGAACCC 58.885 37.500 0.00 0.00 0.00 4.11
4933 5269 3.049708 TGTCAACCATTCAGCTCTCAG 57.950 47.619 0.00 0.00 0.00 3.35
4934 5270 3.008266 TCATGTCAACCATTCAGCTCTCA 59.992 43.478 0.00 0.00 0.00 3.27
4935 5271 3.603532 TCATGTCAACCATTCAGCTCTC 58.396 45.455 0.00 0.00 0.00 3.20
4936 5272 3.607741 CTCATGTCAACCATTCAGCTCT 58.392 45.455 0.00 0.00 0.00 4.09
4937 5273 2.097142 GCTCATGTCAACCATTCAGCTC 59.903 50.000 0.00 0.00 0.00 4.09
4938 5274 2.089980 GCTCATGTCAACCATTCAGCT 58.910 47.619 0.00 0.00 0.00 4.24
5225 5561 7.918562 GGTGCAGTTCTAATCTTTAAAACAACA 59.081 33.333 0.00 0.00 0.00 3.33
5228 5564 7.500892 TCTGGTGCAGTTCTAATCTTTAAAACA 59.499 33.333 0.00 0.00 32.61 2.83
5234 5570 5.413833 CACATCTGGTGCAGTTCTAATCTTT 59.586 40.000 0.00 0.00 41.36 2.52
5237 5573 4.871993 CACATCTGGTGCAGTTCTAATC 57.128 45.455 0.00 0.00 41.36 1.75
5258 5596 5.527582 ACATACAGTGTTGTCCTTCTTTGTC 59.472 40.000 0.00 0.00 38.01 3.18
5329 5667 1.662517 TGCTTGTACCAGTGTGTGTG 58.337 50.000 0.00 0.00 0.00 3.82
5330 5668 2.221169 CATGCTTGTACCAGTGTGTGT 58.779 47.619 0.00 0.00 0.00 3.72
5331 5669 2.031769 CACATGCTTGTACCAGTGTGTG 60.032 50.000 14.65 14.65 33.76 3.82
5332 5670 2.221169 CACATGCTTGTACCAGTGTGT 58.779 47.619 4.73 5.47 33.76 3.72
5333 5671 1.536766 CCACATGCTTGTACCAGTGTG 59.463 52.381 4.73 9.52 37.34 3.82
5334 5672 1.142870 ACCACATGCTTGTACCAGTGT 59.857 47.619 4.73 0.00 33.76 3.55
5335 5673 1.896220 ACCACATGCTTGTACCAGTG 58.104 50.000 4.73 0.00 33.76 3.66
5400 5738 4.457834 TCCAACTTTCTTTTTGCGGAAA 57.542 36.364 0.00 0.00 0.00 3.13
5412 5752 6.970613 ACAAACAGACGTTTATTCCAACTTTC 59.029 34.615 0.00 0.00 43.57 2.62
5427 5767 3.363178 GGAGAAGCAAAACAAACAGACG 58.637 45.455 0.00 0.00 0.00 4.18
5436 5776 5.548406 TCTACAACTAGGGAGAAGCAAAAC 58.452 41.667 0.00 0.00 0.00 2.43
5457 5797 7.284034 ACATTTCAGACAACATTCTCAAGTTCT 59.716 33.333 0.00 0.00 0.00 3.01
5459 5799 7.198390 CACATTTCAGACAACATTCTCAAGTT 58.802 34.615 0.00 0.00 0.00 2.66
5460 5800 6.732154 CACATTTCAGACAACATTCTCAAGT 58.268 36.000 0.00 0.00 0.00 3.16
5461 5801 5.628193 GCACATTTCAGACAACATTCTCAAG 59.372 40.000 0.00 0.00 0.00 3.02
5463 5803 4.579753 TGCACATTTCAGACAACATTCTCA 59.420 37.500 0.00 0.00 0.00 3.27
5464 5804 5.112220 TGCACATTTCAGACAACATTCTC 57.888 39.130 0.00 0.00 0.00 2.87
5466 5806 6.380995 TGTATGCACATTTCAGACAACATTC 58.619 36.000 0.00 0.00 33.38 2.67
5467 5807 6.330004 TGTATGCACATTTCAGACAACATT 57.670 33.333 0.00 0.00 33.38 2.71
5468 5808 5.620654 GCTGTATGCACATTTCAGACAACAT 60.621 40.000 15.02 0.00 42.31 2.71
5489 5835 2.022195 AGGCATAGCACATCAAAGCTG 58.978 47.619 0.00 0.00 41.97 4.24
5553 5899 4.336993 AGAAAGTTGTGCAACGGTGAAATA 59.663 37.500 3.55 0.00 45.50 1.40
5586 5932 9.760077 ATATTACTACATGCTAAAGTGGTGTAC 57.240 33.333 0.00 0.00 31.66 2.90
5608 5954 9.282569 GCAGTCTTTTCATAGAAGGATGATATT 57.717 33.333 0.00 0.00 35.77 1.28
5609 5955 7.601886 CGCAGTCTTTTCATAGAAGGATGATAT 59.398 37.037 0.00 0.00 35.77 1.63
5613 5959 4.272018 CCGCAGTCTTTTCATAGAAGGATG 59.728 45.833 0.00 0.00 0.00 3.51
5623 5969 1.000394 TGTCGATCCGCAGTCTTTTCA 60.000 47.619 0.00 0.00 0.00 2.69
5633 5979 1.000163 ACATCCATACTGTCGATCCGC 60.000 52.381 0.00 0.00 0.00 5.54
5657 6003 7.148507 CGCTTCAGAACTGTTTTTCAGAGATAT 60.149 37.037 0.00 0.00 46.27 1.63
5725 6318 0.040692 GGCGACCAAAGAACGAAACC 60.041 55.000 0.00 0.00 0.00 3.27
5727 6320 1.223187 GAGGCGACCAAAGAACGAAA 58.777 50.000 0.00 0.00 0.00 3.46
5737 6330 2.519771 ATATATACCCGAGGCGACCA 57.480 50.000 0.00 0.00 0.00 4.02
5759 6352 3.123804 AGTTAATGCGCGATCGAAGAAT 58.876 40.909 21.57 9.06 43.58 2.40
5762 6355 2.618419 CAAGTTAATGCGCGATCGAAG 58.382 47.619 21.57 13.01 38.10 3.79
5765 6358 2.758356 GCAAGTTAATGCGCGATCG 58.242 52.632 12.10 11.69 36.45 3.69
5807 6400 7.589395 TCAGCTTGTAAATCTTTTCGCAAATA 58.411 30.769 0.00 0.00 0.00 1.40
5814 6407 6.524586 CCGTCAATCAGCTTGTAAATCTTTTC 59.475 38.462 0.00 0.00 36.20 2.29
5899 6494 0.960861 GGAACAGGCCGAAAAGGGAG 60.961 60.000 0.00 0.00 41.48 4.30
5938 6533 1.600916 GGTCCTTGTCACAGCCACC 60.601 63.158 0.00 0.00 0.00 4.61
5996 6591 4.233635 CGGAGAGTACGTCGGCGG 62.234 72.222 16.39 0.00 43.45 6.13
6117 6713 2.086094 TGCTGATTGGCATGTACTGTG 58.914 47.619 0.00 0.00 37.29 3.66
6141 6740 6.103997 AGGTACGTATTGTGTATGAACAAGG 58.896 40.000 0.00 0.00 42.99 3.61


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

AutoCloner maintained by Alex Coulton.