Multiple sequence alignment - TraesCS4A01G382400

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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 TraesCS4A01G382400 chr4A 100.000 3166 0 0 1 3166 660652849 660656014 0.000000e+00 5847.0
1 TraesCS4A01G382400 chr4A 81.818 1144 103 55 836 1949 660624184 660625252 0.000000e+00 863.0
2 TraesCS4A01G382400 chr4A 86.411 287 34 3 1667 1949 660452655 660452940 3.070000e-80 309.0
3 TraesCS4A01G382400 chr4A 84.167 120 19 0 1422 1541 660452430 660452549 2.000000e-22 117.0
4 TraesCS4A01G382400 chr4A 87.356 87 6 3 622 708 660621306 660621387 9.350000e-16 95.3
5 TraesCS4A01G382400 chr7A 85.510 2657 172 99 605 3162 48755170 48757712 0.000000e+00 2577.0
6 TraesCS4A01G382400 chr7A 82.690 1011 85 44 906 1873 48715104 48716067 0.000000e+00 815.0
7 TraesCS4A01G382400 chr7A 81.517 936 104 41 973 1881 48583211 48584104 0.000000e+00 706.0
8 TraesCS4A01G382400 chr7A 82.460 439 37 15 1 412 48754358 48754783 6.500000e-92 348.0
9 TraesCS4A01G382400 chr7A 86.268 284 32 5 1671 1949 48526181 48526462 5.130000e-78 302.0
10 TraesCS4A01G382400 chr7A 88.889 63 7 0 208 270 48714865 48714927 9.420000e-11 78.7
11 TraesCS4A01G382400 chr7D 88.181 2166 105 59 570 2697 46587199 46585147 0.000000e+00 2442.0
12 TraesCS4A01G382400 chr7D 80.309 1102 110 57 906 1949 46671322 46670270 0.000000e+00 734.0
13 TraesCS4A01G382400 chr7D 87.430 358 26 8 2812 3162 46584986 46584641 8.230000e-106 394.0
14 TraesCS4A01G382400 chr7D 87.329 292 26 7 1671 1955 46711925 46711638 1.100000e-84 324.0
15 TraesCS4A01G382400 chr7D 73.973 365 67 11 1 340 46678871 46678510 4.290000e-24 122.0
16 TraesCS4A01G382400 chr7D 84.167 120 19 0 1422 1541 46712128 46712009 2.000000e-22 117.0
17 TraesCS4A01G382400 chr1B 81.379 290 40 12 1675 1953 418106102 418105816 1.140000e-54 224.0
18 TraesCS4A01G382400 chr3B 90.226 133 13 0 1421 1553 191290485 191290617 1.170000e-39 174.0
19 TraesCS4A01G382400 chr5D 74.172 302 45 21 1134 1421 438973786 438974068 9.350000e-16 95.3
20 TraesCS4A01G382400 chr5D 100.000 28 0 0 2295 2322 562648407 562648434 6.000000e-03 52.8


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 TraesCS4A01G382400 chr4A 660652849 660656014 3165 False 5847.00 5847 100.0000 1 3166 1 chr4A.!!$F1 3165
1 TraesCS4A01G382400 chr4A 660621306 660625252 3946 False 479.15 863 84.5870 622 1949 2 chr4A.!!$F3 1327
2 TraesCS4A01G382400 chr4A 660452430 660452940 510 False 213.00 309 85.2890 1422 1949 2 chr4A.!!$F2 527
3 TraesCS4A01G382400 chr7A 48754358 48757712 3354 False 1462.50 2577 83.9850 1 3162 2 chr7A.!!$F4 3161
4 TraesCS4A01G382400 chr7A 48583211 48584104 893 False 706.00 706 81.5170 973 1881 1 chr7A.!!$F2 908
5 TraesCS4A01G382400 chr7A 48714865 48716067 1202 False 446.85 815 85.7895 208 1873 2 chr7A.!!$F3 1665
6 TraesCS4A01G382400 chr7D 46584641 46587199 2558 True 1418.00 2442 87.8055 570 3162 2 chr7D.!!$R3 2592
7 TraesCS4A01G382400 chr7D 46670270 46671322 1052 True 734.00 734 80.3090 906 1949 1 chr7D.!!$R1 1043

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
959 4002 0.029035 CAGCTCATCATTTGCTCGCC 59.971 55.0 0.0 0.0 34.51 5.54 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2734 5962 0.103208 AGGTTCATCGAGGCGCTTAG 59.897 55.0 7.64 0.0 0.0 2.18 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
34 35 4.063998 TCGAACAAGATCCTCCATGATG 57.936 45.455 0.00 0.00 0.00 3.07
50 51 0.901124 GATGAGGAGGCACACAGAGT 59.099 55.000 0.00 0.00 0.00 3.24
70 72 5.643777 AGAGTAACCCATGACGAAAATTCTG 59.356 40.000 0.00 0.00 0.00 3.02
71 73 3.575965 AACCCATGACGAAAATTCTGC 57.424 42.857 0.00 0.00 0.00 4.26
72 74 2.795329 ACCCATGACGAAAATTCTGCT 58.205 42.857 0.00 0.00 0.00 4.24
73 75 3.950397 ACCCATGACGAAAATTCTGCTA 58.050 40.909 0.00 0.00 0.00 3.49
74 76 3.689649 ACCCATGACGAAAATTCTGCTAC 59.310 43.478 0.00 0.00 0.00 3.58
77 79 5.335583 CCCATGACGAAAATTCTGCTACAAA 60.336 40.000 0.00 0.00 0.00 2.83
80 82 7.329226 CCATGACGAAAATTCTGCTACAAATTT 59.671 33.333 0.00 0.00 36.81 1.82
99 101 0.871722 TTGTACTTGTGGCGTGCATC 59.128 50.000 0.00 0.00 0.00 3.91
115 125 4.593157 GTGCATCGTTTTCACTTGTTGTA 58.407 39.130 0.00 0.00 0.00 2.41
116 126 5.031578 GTGCATCGTTTTCACTTGTTGTAA 58.968 37.500 0.00 0.00 0.00 2.41
132 142 9.569122 ACTTGTTGTAACATGAGGTTTAGTATT 57.431 29.630 15.00 0.00 40.96 1.89
149 159 8.947115 GTTTAGTATTTGCCCCTATGACATATC 58.053 37.037 0.00 0.00 0.00 1.63
150 160 6.067217 AGTATTTGCCCCTATGACATATCC 57.933 41.667 0.00 0.00 0.00 2.59
156 166 3.068873 GCCCCTATGACATATCCGATCTC 59.931 52.174 0.00 0.00 0.00 2.75
157 167 4.281657 CCCCTATGACATATCCGATCTCA 58.718 47.826 0.00 0.00 0.00 3.27
158 168 4.340666 CCCCTATGACATATCCGATCTCAG 59.659 50.000 0.00 0.00 0.00 3.35
161 171 2.881734 TGACATATCCGATCTCAGGCT 58.118 47.619 0.00 0.00 0.00 4.58
209 236 3.826729 GGCAGTTTCTTGGTAGGTTTCAT 59.173 43.478 0.00 0.00 0.00 2.57
214 241 6.918022 CAGTTTCTTGGTAGGTTTCATCAAAC 59.082 38.462 0.00 0.00 41.22 2.93
248 275 6.867816 TGGTATTTCACATTTGTCTTTCATGC 59.132 34.615 0.00 0.00 0.00 4.06
255 282 6.643360 TCACATTTGTCTTTCATGCATTGAAG 59.357 34.615 0.00 4.40 44.90 3.02
294 321 5.051891 GCAGAGTGCATGAAGTTTGTTAT 57.948 39.130 0.00 0.00 44.26 1.89
296 323 5.922544 GCAGAGTGCATGAAGTTTGTTATTT 59.077 36.000 0.00 0.00 44.26 1.40
297 324 6.421801 GCAGAGTGCATGAAGTTTGTTATTTT 59.578 34.615 0.00 0.00 44.26 1.82
299 326 8.905702 CAGAGTGCATGAAGTTTGTTATTTTAC 58.094 33.333 0.00 0.00 0.00 2.01
300 327 8.629158 AGAGTGCATGAAGTTTGTTATTTTACA 58.371 29.630 0.00 0.00 0.00 2.41
301 328 9.243637 GAGTGCATGAAGTTTGTTATTTTACAA 57.756 29.630 0.00 0.00 36.30 2.41
302 329 9.030301 AGTGCATGAAGTTTGTTATTTTACAAC 57.970 29.630 0.00 0.00 37.72 3.32
303 330 8.812329 GTGCATGAAGTTTGTTATTTTACAACA 58.188 29.630 0.00 0.00 37.72 3.33
304 331 8.812329 TGCATGAAGTTTGTTATTTTACAACAC 58.188 29.630 0.00 0.00 37.72 3.32
305 332 8.272866 GCATGAAGTTTGTTATTTTACAACACC 58.727 33.333 0.00 0.00 37.72 4.16
306 333 9.307121 CATGAAGTTTGTTATTTTACAACACCA 57.693 29.630 0.00 0.00 37.72 4.17
307 334 8.918961 TGAAGTTTGTTATTTTACAACACCAG 57.081 30.769 0.00 0.00 37.72 4.00
308 335 8.524487 TGAAGTTTGTTATTTTACAACACCAGT 58.476 29.630 0.00 0.00 37.72 4.00
309 336 8.920509 AAGTTTGTTATTTTACAACACCAGTC 57.079 30.769 0.00 0.00 37.72 3.51
310 337 8.057536 AGTTTGTTATTTTACAACACCAGTCA 57.942 30.769 0.00 0.00 37.72 3.41
320 347 3.381272 ACAACACCAGTCATCCAAACTTG 59.619 43.478 0.00 0.00 0.00 3.16
342 369 7.985184 ACTTGAAGAGTTAACATGTTGTACTCA 59.015 33.333 33.66 22.52 37.70 3.41
371 398 7.120285 TGTCAGCTCTTTTCTATCAATTGAAGG 59.880 37.037 13.09 8.34 0.00 3.46
391 418 9.921637 TTGAAGGTATAAATGGAATTCAACAAC 57.078 29.630 7.93 0.00 33.67 3.32
392 419 8.240682 TGAAGGTATAAATGGAATTCAACAACG 58.759 33.333 7.93 0.00 33.67 4.10
394 421 7.758495 AGGTATAAATGGAATTCAACAACGTC 58.242 34.615 7.93 0.00 33.67 4.34
395 422 6.970613 GGTATAAATGGAATTCAACAACGTCC 59.029 38.462 7.93 0.00 33.67 4.79
396 423 4.927978 AAATGGAATTCAACAACGTCCA 57.072 36.364 7.93 0.00 42.38 4.02
397 424 3.915437 ATGGAATTCAACAACGTCCAC 57.085 42.857 7.93 0.00 41.05 4.02
412 439 1.683385 GTCCACTGCTTTTCTTGCCTT 59.317 47.619 0.00 0.00 0.00 4.35
414 441 1.269936 CCACTGCTTTTCTTGCCTTGG 60.270 52.381 0.00 0.00 0.00 3.61
415 442 1.043022 ACTGCTTTTCTTGCCTTGGG 58.957 50.000 0.00 0.00 0.00 4.12
416 443 1.043022 CTGCTTTTCTTGCCTTGGGT 58.957 50.000 0.00 0.00 0.00 4.51
417 444 1.413812 CTGCTTTTCTTGCCTTGGGTT 59.586 47.619 0.00 0.00 0.00 4.11
418 445 1.836802 TGCTTTTCTTGCCTTGGGTTT 59.163 42.857 0.00 0.00 0.00 3.27
419 446 2.212652 GCTTTTCTTGCCTTGGGTTTG 58.787 47.619 0.00 0.00 0.00 2.93
420 447 2.419990 GCTTTTCTTGCCTTGGGTTTGT 60.420 45.455 0.00 0.00 0.00 2.83
421 448 3.181470 GCTTTTCTTGCCTTGGGTTTGTA 60.181 43.478 0.00 0.00 0.00 2.41
422 449 4.503123 GCTTTTCTTGCCTTGGGTTTGTAT 60.503 41.667 0.00 0.00 0.00 2.29
423 450 5.279256 GCTTTTCTTGCCTTGGGTTTGTATA 60.279 40.000 0.00 0.00 0.00 1.47
424 451 5.975693 TTTCTTGCCTTGGGTTTGTATAG 57.024 39.130 0.00 0.00 0.00 1.31
425 452 4.650972 TCTTGCCTTGGGTTTGTATAGT 57.349 40.909 0.00 0.00 0.00 2.12
426 453 4.993028 TCTTGCCTTGGGTTTGTATAGTT 58.007 39.130 0.00 0.00 0.00 2.24
427 454 5.390387 TCTTGCCTTGGGTTTGTATAGTTT 58.610 37.500 0.00 0.00 0.00 2.66
428 455 5.836358 TCTTGCCTTGGGTTTGTATAGTTTT 59.164 36.000 0.00 0.00 0.00 2.43
429 456 5.461032 TGCCTTGGGTTTGTATAGTTTTG 57.539 39.130 0.00 0.00 0.00 2.44
430 457 4.896482 TGCCTTGGGTTTGTATAGTTTTGT 59.104 37.500 0.00 0.00 0.00 2.83
431 458 5.010213 TGCCTTGGGTTTGTATAGTTTTGTC 59.990 40.000 0.00 0.00 0.00 3.18
432 459 5.566032 GCCTTGGGTTTGTATAGTTTTGTCC 60.566 44.000 0.00 0.00 0.00 4.02
433 460 5.773176 CCTTGGGTTTGTATAGTTTTGTCCT 59.227 40.000 0.00 0.00 0.00 3.85
434 461 6.266786 CCTTGGGTTTGTATAGTTTTGTCCTT 59.733 38.462 0.00 0.00 0.00 3.36
435 462 6.642707 TGGGTTTGTATAGTTTTGTCCTTG 57.357 37.500 0.00 0.00 0.00 3.61
436 463 6.366340 TGGGTTTGTATAGTTTTGTCCTTGA 58.634 36.000 0.00 0.00 0.00 3.02
437 464 7.007723 TGGGTTTGTATAGTTTTGTCCTTGAT 58.992 34.615 0.00 0.00 0.00 2.57
438 465 8.164733 TGGGTTTGTATAGTTTTGTCCTTGATA 58.835 33.333 0.00 0.00 0.00 2.15
439 466 9.185680 GGGTTTGTATAGTTTTGTCCTTGATAT 57.814 33.333 0.00 0.00 0.00 1.63
443 470 8.958119 TGTATAGTTTTGTCCTTGATATCCAC 57.042 34.615 0.00 0.00 0.00 4.02
449 476 4.386867 TGTCCTTGATATCCACGAGTTC 57.613 45.455 0.00 0.00 0.00 3.01
451 478 4.142160 TGTCCTTGATATCCACGAGTTCTG 60.142 45.833 0.00 0.00 0.00 3.02
501 540 4.562082 TGGTACTCATACGACCAAAACAG 58.438 43.478 0.00 0.00 40.29 3.16
511 550 3.250040 ACGACCAAAACAGACATTGTAGC 59.750 43.478 0.00 0.00 39.73 3.58
515 554 5.381757 ACCAAAACAGACATTGTAGCCTAA 58.618 37.500 0.00 0.00 39.73 2.69
516 555 6.010219 ACCAAAACAGACATTGTAGCCTAAT 58.990 36.000 0.00 0.00 39.73 1.73
517 556 6.151144 ACCAAAACAGACATTGTAGCCTAATC 59.849 38.462 0.00 0.00 39.73 1.75
518 557 6.250819 CAAAACAGACATTGTAGCCTAATCG 58.749 40.000 0.00 0.00 39.73 3.34
519 558 3.458189 ACAGACATTGTAGCCTAATCGC 58.542 45.455 0.00 0.00 38.56 4.58
520 559 3.118775 ACAGACATTGTAGCCTAATCGCA 60.119 43.478 0.00 0.00 38.56 5.10
564 821 5.783100 ATTTATTTTGCAAAGATGTGGCG 57.217 34.783 12.41 0.00 0.00 5.69
565 822 4.511617 TTATTTTGCAAAGATGTGGCGA 57.488 36.364 12.41 0.00 0.00 5.54
566 823 3.598019 ATTTTGCAAAGATGTGGCGAT 57.402 38.095 12.41 0.00 0.00 4.58
567 824 2.634982 TTTGCAAAGATGTGGCGATC 57.365 45.000 8.05 0.00 0.00 3.69
568 825 1.825090 TTGCAAAGATGTGGCGATCT 58.175 45.000 0.00 0.00 33.91 2.75
581 838 0.462581 GCGATCTCATGGACCAAGCA 60.463 55.000 0.00 0.00 0.00 3.91
585 842 0.674581 TCTCATGGACCAAGCAAGCG 60.675 55.000 0.00 0.00 0.00 4.68
603 860 0.729478 CGAAGCACACACGAGACGAT 60.729 55.000 0.00 0.00 0.00 3.73
604 861 1.465187 CGAAGCACACACGAGACGATA 60.465 52.381 0.00 0.00 0.00 2.92
605 862 1.912110 GAAGCACACACGAGACGATAC 59.088 52.381 0.00 0.00 0.00 2.24
606 863 0.179197 AGCACACACGAGACGATACG 60.179 55.000 0.00 0.00 0.00 3.06
607 864 1.132199 GCACACACGAGACGATACGG 61.132 60.000 0.00 0.00 0.00 4.02
665 924 3.411351 CCGCACCGAGTTCCAACG 61.411 66.667 0.00 0.00 0.00 4.10
666 925 4.072088 CGCACCGAGTTCCAACGC 62.072 66.667 0.00 0.00 0.00 4.84
866 3888 7.589587 TCGCCATTATTTAGCAATTCATTTACG 59.410 33.333 0.00 0.00 0.00 3.18
868 3890 7.116233 GCCATTATTTAGCAATTCATTTACGGG 59.884 37.037 0.00 0.00 0.00 5.28
873 3895 3.784338 AGCAATTCATTTACGGGCAATG 58.216 40.909 0.00 0.00 33.55 2.82
912 3949 1.810532 CTGGTGGTAGCGAGGAGAC 59.189 63.158 0.00 0.00 0.00 3.36
959 4002 0.029035 CAGCTCATCATTTGCTCGCC 59.971 55.000 0.00 0.00 34.51 5.54
986 4036 2.766313 CTGCCCTATTTATAGCGCACA 58.234 47.619 11.47 0.00 38.75 4.57
1027 4083 2.499289 AGACCAGACCAGATCATCACAC 59.501 50.000 0.00 0.00 0.00 3.82
1036 4102 1.918262 AGATCATCACACCACCACCAT 59.082 47.619 0.00 0.00 0.00 3.55
1037 4103 2.092753 AGATCATCACACCACCACCATC 60.093 50.000 0.00 0.00 0.00 3.51
1038 4104 1.361204 TCATCACACCACCACCATCT 58.639 50.000 0.00 0.00 0.00 2.90
1039 4105 1.278985 TCATCACACCACCACCATCTC 59.721 52.381 0.00 0.00 0.00 2.75
1040 4106 0.620556 ATCACACCACCACCATCTCC 59.379 55.000 0.00 0.00 0.00 3.71
1041 4107 0.766288 TCACACCACCACCATCTCCA 60.766 55.000 0.00 0.00 0.00 3.86
1048 4114 2.268920 CACCATCTCCACCACCGG 59.731 66.667 0.00 0.00 0.00 5.28
1072 4138 3.227276 CCATCGTCCTCCCTCCCG 61.227 72.222 0.00 0.00 0.00 5.14
1102 4175 4.008933 CCCAGATCGGATCGGGCC 62.009 72.222 25.95 0.00 42.40 5.80
1216 4289 2.923035 CGTCCTCCACCACCACCT 60.923 66.667 0.00 0.00 0.00 4.00
1230 4303 2.204705 ACCTCCTCCTCCTCCCCT 60.205 66.667 0.00 0.00 0.00 4.79
1299 4408 2.975536 TACGGGCTGCACCAGTAC 59.024 61.111 11.97 0.00 46.01 2.73
1553 4692 1.290955 CGCTCAACCCCGTAAGTCA 59.709 57.895 0.00 0.00 0.00 3.41
1555 4694 1.653151 GCTCAACCCCGTAAGTCATC 58.347 55.000 0.00 0.00 0.00 2.92
1557 4696 2.420129 GCTCAACCCCGTAAGTCATCAT 60.420 50.000 0.00 0.00 0.00 2.45
1560 4699 1.129058 ACCCCGTAAGTCATCATCCC 58.871 55.000 0.00 0.00 0.00 3.85
1561 4700 1.344087 ACCCCGTAAGTCATCATCCCT 60.344 52.381 0.00 0.00 0.00 4.20
1562 4701 1.768870 CCCCGTAAGTCATCATCCCTT 59.231 52.381 0.00 0.00 0.00 3.95
1563 4702 2.224305 CCCCGTAAGTCATCATCCCTTC 60.224 54.545 0.00 0.00 0.00 3.46
1564 4703 2.545952 CCCGTAAGTCATCATCCCTTCG 60.546 54.545 0.00 0.00 0.00 3.79
1565 4704 2.128035 CGTAAGTCATCATCCCTTCGC 58.872 52.381 0.00 0.00 0.00 4.70
1624 4796 2.162208 CCAAGTGTTCGTCCATGGATTG 59.838 50.000 19.62 15.58 0.00 2.67
1659 4836 3.096852 TGAGCTGACCGAGATTTCCTTA 58.903 45.455 0.00 0.00 0.00 2.69
2243 5435 4.286320 ATCAGGCGGCGGTCGATC 62.286 66.667 6.02 0.00 42.43 3.69
2279 5472 3.581024 TCAATTGGCAAATCAGTCAGC 57.419 42.857 3.01 0.00 0.00 4.26
2326 5519 4.290942 TGGTTTGGTTTGGTTTGGATAGT 58.709 39.130 0.00 0.00 0.00 2.12
2376 5575 4.143052 CGATGGTTTGGTTTCGGTTAGTAC 60.143 45.833 0.00 0.00 0.00 2.73
2377 5576 3.129871 TGGTTTGGTTTCGGTTAGTACG 58.870 45.455 0.00 0.00 0.00 3.67
2378 5577 3.130633 GGTTTGGTTTCGGTTAGTACGT 58.869 45.455 0.00 0.00 0.00 3.57
2380 5579 4.385748 GGTTTGGTTTCGGTTAGTACGTAG 59.614 45.833 0.00 0.00 0.00 3.51
2382 5581 5.950758 TTGGTTTCGGTTAGTACGTAGTA 57.049 39.130 6.02 6.02 45.11 1.82
2400 5599 5.852755 CGTAGTAATTTTCGGTTTGGGTTTC 59.147 40.000 0.00 0.00 0.00 2.78
2403 5602 4.330944 AATTTTCGGTTTGGGTTTCCTC 57.669 40.909 0.00 0.00 0.00 3.71
2406 5605 2.265589 TCGGTTTGGGTTTCCTCTTC 57.734 50.000 0.00 0.00 0.00 2.87
2411 5611 4.142026 CGGTTTGGGTTTCCTCTTCTTTTT 60.142 41.667 0.00 0.00 0.00 1.94
2459 5659 3.269310 CGACGACGAACAAAACAGAAAG 58.731 45.455 0.00 0.00 42.66 2.62
2460 5660 3.000476 CGACGACGAACAAAACAGAAAGA 60.000 43.478 0.00 0.00 42.66 2.52
2461 5661 4.491280 CGACGACGAACAAAACAGAAAGAA 60.491 41.667 0.00 0.00 42.66 2.52
2462 5662 5.285798 ACGACGAACAAAACAGAAAGAAA 57.714 34.783 0.00 0.00 0.00 2.52
2584 5789 2.178912 TTTGTACTACTGCTGCCACC 57.821 50.000 0.00 0.00 0.00 4.61
2610 5815 6.891361 ACCACTAATTCATGATTGGTTGATGA 59.109 34.615 0.00 0.00 37.34 2.92
2677 5888 9.959749 CTCTTCTCCAACAAGAGTATACTATTC 57.040 37.037 9.79 0.00 41.37 1.75
2697 5908 1.472376 CGGAGCCATGTCCTTCTCTTC 60.472 57.143 1.26 0.00 34.00 2.87
2698 5909 1.472376 GGAGCCATGTCCTTCTCTTCG 60.472 57.143 0.00 0.00 33.30 3.79
2703 5917 4.080863 AGCCATGTCCTTCTCTTCGTAATT 60.081 41.667 0.00 0.00 0.00 1.40
2706 5920 6.315393 GCCATGTCCTTCTCTTCGTAATTTTA 59.685 38.462 0.00 0.00 0.00 1.52
2712 5926 9.152595 GTCCTTCTCTTCGTAATTTTATCAACT 57.847 33.333 0.00 0.00 0.00 3.16
2734 5962 9.885743 CAACTATTTTGCGATAAAAAGCATAAC 57.114 29.630 2.78 0.00 43.42 1.89
2742 5970 4.904154 CGATAAAAAGCATAACTAAGCGCC 59.096 41.667 2.29 0.00 35.48 6.53
2747 5975 1.341531 AGCATAACTAAGCGCCTCGAT 59.658 47.619 2.29 0.00 35.48 3.59
2753 5981 0.103208 CTAAGCGCCTCGATGAACCT 59.897 55.000 2.29 0.00 0.00 3.50
2764 5992 4.118410 CTCGATGAACCTGATCTCCTTTG 58.882 47.826 0.00 0.00 0.00 2.77
2771 5999 5.763204 TGAACCTGATCTCCTTTGTGTTTAC 59.237 40.000 0.00 0.00 0.00 2.01
2772 6000 5.304686 ACCTGATCTCCTTTGTGTTTACA 57.695 39.130 0.00 0.00 34.31 2.41
2773 6001 5.063880 ACCTGATCTCCTTTGTGTTTACAC 58.936 41.667 6.07 6.07 46.59 2.90
2882 6145 4.904251 ACTAGCCTACCACTCATGATGAAT 59.096 41.667 0.00 0.00 0.00 2.57
2955 6219 6.069440 CCCACCCACACCTCATTATCATATAT 60.069 42.308 0.00 0.00 0.00 0.86
2957 6221 7.890127 CCACCCACACCTCATTATCATATATTT 59.110 37.037 0.00 0.00 0.00 1.40
2958 6222 9.958180 CACCCACACCTCATTATCATATATTTA 57.042 33.333 0.00 0.00 0.00 1.40
2959 6223 9.959721 ACCCACACCTCATTATCATATATTTAC 57.040 33.333 0.00 0.00 0.00 2.01
3005 6269 0.447011 GTGTCTACGACGAGACCTGG 59.553 60.000 18.43 0.00 44.49 4.45
3035 6299 1.148759 GCGCCTCGGAGAAGCTTTAG 61.149 60.000 6.58 0.00 42.75 1.85
3038 6302 1.471851 GCCTCGGAGAAGCTTTAGTCC 60.472 57.143 6.58 6.89 41.48 3.85
3138 6408 1.601419 CCACCTGCAATCCAGCTTGG 61.601 60.000 0.00 0.00 40.36 3.61
3148 6418 1.965930 CCAGCTTGGTTAGTGCGCA 60.966 57.895 5.66 5.66 31.35 6.09
3156 6426 0.676782 GGTTAGTGCGCATTGGACCT 60.677 55.000 23.72 14.72 40.31 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 4.346127 TCATCATGGAGGATCTTGTTCGAT 59.654 41.667 0.00 0.00 33.73 3.59
34 35 1.066787 GGTTACTCTGTGTGCCTCCTC 60.067 57.143 0.00 0.00 0.00 3.71
50 51 4.331968 AGCAGAATTTTCGTCATGGGTTA 58.668 39.130 0.00 0.00 0.00 2.85
70 72 4.381566 CGCCACAAGTACAAAATTTGTAGC 59.618 41.667 17.79 14.77 45.99 3.58
71 73 5.398122 CACGCCACAAGTACAAAATTTGTAG 59.602 40.000 17.79 9.80 45.99 2.74
72 74 5.274718 CACGCCACAAGTACAAAATTTGTA 58.725 37.500 13.93 13.93 43.27 2.41
74 76 3.060607 GCACGCCACAAGTACAAAATTTG 60.061 43.478 3.89 3.89 0.00 2.32
77 79 1.678627 TGCACGCCACAAGTACAAAAT 59.321 42.857 0.00 0.00 0.00 1.82
80 82 0.871722 GATGCACGCCACAAGTACAA 59.128 50.000 0.00 0.00 0.00 2.41
99 101 5.681105 CCTCATGTTACAACAAGTGAAAACG 59.319 40.000 0.00 0.00 43.03 3.60
115 125 4.709886 GGGGCAAATACTAAACCTCATGTT 59.290 41.667 0.00 0.00 39.43 2.71
116 126 4.017499 AGGGGCAAATACTAAACCTCATGT 60.017 41.667 0.00 0.00 0.00 3.21
132 142 2.615391 TCGGATATGTCATAGGGGCAA 58.385 47.619 0.00 0.00 0.00 4.52
149 159 2.322355 ACATTGAAGCCTGAGATCGG 57.678 50.000 0.00 0.00 0.00 4.18
150 160 4.313277 TCTACATTGAAGCCTGAGATCG 57.687 45.455 0.00 0.00 0.00 3.69
156 166 5.006386 ACCTCTTTTCTACATTGAAGCCTG 58.994 41.667 0.00 0.00 0.00 4.85
157 167 5.248380 ACCTCTTTTCTACATTGAAGCCT 57.752 39.130 0.00 0.00 0.00 4.58
158 168 6.174049 ACTACCTCTTTTCTACATTGAAGCC 58.826 40.000 0.00 0.00 0.00 4.35
161 171 8.836413 CAACAACTACCTCTTTTCTACATTGAA 58.164 33.333 0.00 0.00 0.00 2.69
209 236 6.322456 TGTGAAATACCAATCCAACAGTTTGA 59.678 34.615 0.00 0.00 34.24 2.69
214 241 7.153985 ACAAATGTGAAATACCAATCCAACAG 58.846 34.615 0.00 0.00 0.00 3.16
273 300 7.935338 AAAATAACAAACTTCATGCACTCTG 57.065 32.000 0.00 0.00 0.00 3.35
278 305 8.812329 GTGTTGTAAAATAACAAACTTCATGCA 58.188 29.630 0.00 0.00 40.85 3.96
279 306 8.272866 GGTGTTGTAAAATAACAAACTTCATGC 58.727 33.333 0.00 0.00 40.85 4.06
283 310 8.920509 ACTGGTGTTGTAAAATAACAAACTTC 57.079 30.769 0.00 0.00 40.85 3.01
294 321 5.654650 AGTTTGGATGACTGGTGTTGTAAAA 59.345 36.000 0.00 0.00 0.00 1.52
296 323 4.787551 AGTTTGGATGACTGGTGTTGTAA 58.212 39.130 0.00 0.00 0.00 2.41
297 324 4.431416 AGTTTGGATGACTGGTGTTGTA 57.569 40.909 0.00 0.00 0.00 2.41
299 326 3.631686 TCAAGTTTGGATGACTGGTGTTG 59.368 43.478 0.00 0.00 0.00 3.33
300 327 3.897239 TCAAGTTTGGATGACTGGTGTT 58.103 40.909 0.00 0.00 0.00 3.32
301 328 3.576078 TCAAGTTTGGATGACTGGTGT 57.424 42.857 0.00 0.00 0.00 4.16
302 329 4.136796 TCTTCAAGTTTGGATGACTGGTG 58.863 43.478 0.00 0.00 0.00 4.17
303 330 4.141390 ACTCTTCAAGTTTGGATGACTGGT 60.141 41.667 0.00 0.00 33.03 4.00
304 331 4.392940 ACTCTTCAAGTTTGGATGACTGG 58.607 43.478 0.00 0.00 33.03 4.00
305 332 7.012327 TGTTAACTCTTCAAGTTTGGATGACTG 59.988 37.037 7.22 0.00 46.26 3.51
306 333 7.054124 TGTTAACTCTTCAAGTTTGGATGACT 58.946 34.615 7.22 0.00 46.26 3.41
307 334 7.259290 TGTTAACTCTTCAAGTTTGGATGAC 57.741 36.000 7.22 0.00 46.26 3.06
308 335 7.502226 ACATGTTAACTCTTCAAGTTTGGATGA 59.498 33.333 7.22 0.00 46.26 2.92
309 336 7.651808 ACATGTTAACTCTTCAAGTTTGGATG 58.348 34.615 7.22 0.00 46.26 3.51
310 337 7.823745 ACATGTTAACTCTTCAAGTTTGGAT 57.176 32.000 7.22 0.00 46.26 3.41
320 347 6.647067 AGCTGAGTACAACATGTTAACTCTTC 59.353 38.462 32.32 26.55 36.51 2.87
329 356 3.657634 CTGACAGCTGAGTACAACATGT 58.342 45.455 23.35 0.00 0.00 3.21
371 398 7.483691 GTGGACGTTGTTGAATTCCATTTATAC 59.516 37.037 2.27 0.00 38.60 1.47
390 417 0.663153 GCAAGAAAAGCAGTGGACGT 59.337 50.000 0.00 0.00 0.00 4.34
391 418 0.040067 GGCAAGAAAAGCAGTGGACG 60.040 55.000 0.00 0.00 0.00 4.79
392 419 1.322442 AGGCAAGAAAAGCAGTGGAC 58.678 50.000 0.00 0.00 0.00 4.02
394 421 1.269936 CCAAGGCAAGAAAAGCAGTGG 60.270 52.381 0.00 0.00 33.15 4.00
395 422 1.269936 CCCAAGGCAAGAAAAGCAGTG 60.270 52.381 0.00 0.00 0.00 3.66
396 423 1.043022 CCCAAGGCAAGAAAAGCAGT 58.957 50.000 0.00 0.00 0.00 4.40
397 424 1.043022 ACCCAAGGCAAGAAAAGCAG 58.957 50.000 0.00 0.00 0.00 4.24
412 439 6.366340 TCAAGGACAAAACTATACAAACCCA 58.634 36.000 0.00 0.00 0.00 4.51
416 443 9.967451 TGGATATCAAGGACAAAACTATACAAA 57.033 29.630 4.83 0.00 0.00 2.83
417 444 9.391006 GTGGATATCAAGGACAAAACTATACAA 57.609 33.333 4.83 0.00 0.00 2.41
418 445 7.709182 CGTGGATATCAAGGACAAAACTATACA 59.291 37.037 4.83 0.00 0.00 2.29
419 446 7.924412 TCGTGGATATCAAGGACAAAACTATAC 59.076 37.037 4.83 0.00 0.00 1.47
420 447 8.014070 TCGTGGATATCAAGGACAAAACTATA 57.986 34.615 4.83 0.00 0.00 1.31
421 448 6.884832 TCGTGGATATCAAGGACAAAACTAT 58.115 36.000 4.83 0.00 0.00 2.12
422 449 6.070995 ACTCGTGGATATCAAGGACAAAACTA 60.071 38.462 4.83 0.00 0.00 2.24
423 450 5.160607 TCGTGGATATCAAGGACAAAACT 57.839 39.130 4.83 0.00 0.00 2.66
424 451 4.935808 ACTCGTGGATATCAAGGACAAAAC 59.064 41.667 4.83 0.00 0.00 2.43
425 452 5.160607 ACTCGTGGATATCAAGGACAAAA 57.839 39.130 4.83 0.00 0.00 2.44
426 453 4.819105 ACTCGTGGATATCAAGGACAAA 57.181 40.909 4.83 0.00 0.00 2.83
427 454 4.466370 AGAACTCGTGGATATCAAGGACAA 59.534 41.667 4.83 0.00 0.00 3.18
428 455 4.023980 AGAACTCGTGGATATCAAGGACA 58.976 43.478 4.83 0.00 0.00 4.02
429 456 4.098044 TCAGAACTCGTGGATATCAAGGAC 59.902 45.833 4.83 0.00 0.00 3.85
430 457 4.278310 TCAGAACTCGTGGATATCAAGGA 58.722 43.478 4.83 3.60 0.00 3.36
431 458 4.655762 TCAGAACTCGTGGATATCAAGG 57.344 45.455 4.83 0.00 0.00 3.61
432 459 5.836347 TCATCAGAACTCGTGGATATCAAG 58.164 41.667 4.83 0.00 0.00 3.02
433 460 5.852282 TCATCAGAACTCGTGGATATCAA 57.148 39.130 4.83 0.00 0.00 2.57
434 461 5.302823 ACATCATCAGAACTCGTGGATATCA 59.697 40.000 4.83 0.00 0.00 2.15
435 462 5.777802 ACATCATCAGAACTCGTGGATATC 58.222 41.667 0.00 0.00 0.00 1.63
436 463 5.798125 ACATCATCAGAACTCGTGGATAT 57.202 39.130 0.00 0.00 0.00 1.63
437 464 5.598416 AACATCATCAGAACTCGTGGATA 57.402 39.130 0.00 0.00 0.00 2.59
438 465 4.478206 AACATCATCAGAACTCGTGGAT 57.522 40.909 0.00 0.00 0.00 3.41
439 466 3.961480 AACATCATCAGAACTCGTGGA 57.039 42.857 0.00 0.00 0.00 4.02
443 470 4.408993 TGCAAAACATCATCAGAACTCG 57.591 40.909 0.00 0.00 0.00 4.18
449 476 6.088483 GTGTGTATGTTGCAAAACATCATCAG 59.912 38.462 7.29 0.00 42.01 2.90
451 478 6.088483 CAGTGTGTATGTTGCAAAACATCATC 59.912 38.462 7.29 1.97 42.01 2.92
480 507 4.624452 GTCTGTTTTGGTCGTATGAGTACC 59.376 45.833 0.00 0.00 0.00 3.34
481 508 5.224888 TGTCTGTTTTGGTCGTATGAGTAC 58.775 41.667 0.00 0.00 0.00 2.73
484 523 5.179368 ACAATGTCTGTTTTGGTCGTATGAG 59.821 40.000 0.00 0.00 32.99 2.90
486 525 5.356882 ACAATGTCTGTTTTGGTCGTATG 57.643 39.130 0.00 0.00 32.99 2.39
490 529 3.364964 GGCTACAATGTCTGTTTTGGTCG 60.365 47.826 0.00 0.00 39.64 4.79
493 532 5.957842 TTAGGCTACAATGTCTGTTTTGG 57.042 39.130 0.00 0.00 39.64 3.28
501 540 3.303395 GCTTGCGATTAGGCTACAATGTC 60.303 47.826 0.00 0.00 0.00 3.06
538 795 8.389603 CGCCACATCTTTGCAAAATAAATAAAT 58.610 29.630 13.84 0.00 0.00 1.40
539 796 7.600375 TCGCCACATCTTTGCAAAATAAATAAA 59.400 29.630 13.84 0.00 0.00 1.40
540 797 7.093354 TCGCCACATCTTTGCAAAATAAATAA 58.907 30.769 13.84 0.00 0.00 1.40
541 798 6.625362 TCGCCACATCTTTGCAAAATAAATA 58.375 32.000 13.84 0.00 0.00 1.40
543 800 4.876125 TCGCCACATCTTTGCAAAATAAA 58.124 34.783 13.84 0.00 0.00 1.40
544 801 4.511617 TCGCCACATCTTTGCAAAATAA 57.488 36.364 13.84 2.22 0.00 1.40
547 804 2.557924 AGATCGCCACATCTTTGCAAAA 59.442 40.909 13.84 5.01 27.71 2.44
549 806 1.739466 GAGATCGCCACATCTTTGCAA 59.261 47.619 0.00 0.00 32.94 4.08
550 807 1.338960 TGAGATCGCCACATCTTTGCA 60.339 47.619 0.00 0.00 32.94 4.08
551 808 1.372582 TGAGATCGCCACATCTTTGC 58.627 50.000 0.00 0.00 32.94 3.68
552 809 2.289820 CCATGAGATCGCCACATCTTTG 59.710 50.000 0.00 0.00 32.94 2.77
556 813 1.506493 GTCCATGAGATCGCCACATC 58.494 55.000 0.00 0.00 0.00 3.06
564 821 1.674962 GCTTGCTTGGTCCATGAGATC 59.325 52.381 8.93 0.00 0.00 2.75
565 822 1.760192 GCTTGCTTGGTCCATGAGAT 58.240 50.000 8.93 0.00 0.00 2.75
566 823 0.674581 CGCTTGCTTGGTCCATGAGA 60.675 55.000 8.93 0.00 0.00 3.27
567 824 0.674581 TCGCTTGCTTGGTCCATGAG 60.675 55.000 8.93 0.00 0.00 2.90
568 825 0.250684 TTCGCTTGCTTGGTCCATGA 60.251 50.000 8.93 0.00 0.00 3.07
581 838 1.067416 TCTCGTGTGTGCTTCGCTT 59.933 52.632 0.00 0.00 0.00 4.68
585 842 1.912110 GTATCGTCTCGTGTGTGCTTC 59.088 52.381 0.00 0.00 0.00 3.86
673 932 2.742372 CCGTGTGGCTGGCTGTAC 60.742 66.667 2.00 0.00 0.00 2.90
718 994 2.509561 GAGCCGAGCCGTTTCCTC 60.510 66.667 0.00 0.00 0.00 3.71
743 1043 4.452733 GCCTTGACCCGGTCCGAG 62.453 72.222 14.39 12.17 0.00 4.63
745 1045 4.452733 GAGCCTTGACCCGGTCCG 62.453 72.222 15.24 3.60 0.00 4.79
746 1046 3.316573 CTGAGCCTTGACCCGGTCC 62.317 68.421 15.24 0.00 0.00 4.46
747 1047 1.617947 ATCTGAGCCTTGACCCGGTC 61.618 60.000 10.96 10.96 0.00 4.79
809 1115 4.214383 CTTGCGCGCCACTCGATG 62.214 66.667 30.77 7.01 41.67 3.84
866 3888 7.712205 GGCATCCAATTATTATATTCATTGCCC 59.288 37.037 0.00 0.00 0.00 5.36
868 3890 7.043192 GCGGCATCCAATTATTATATTCATTGC 60.043 37.037 0.00 0.00 0.00 3.56
873 3895 6.095440 ACCAGCGGCATCCAATTATTATATTC 59.905 38.462 1.45 0.00 0.00 1.75
912 3949 1.460305 ATGGGGGAGGTGGATCTCG 60.460 63.158 0.00 0.00 34.74 4.04
959 4002 0.693049 ATAAATAGGGCAGCGGAGGG 59.307 55.000 0.00 0.00 0.00 4.30
1027 4083 1.002134 GTGGTGGAGATGGTGGTGG 60.002 63.158 0.00 0.00 0.00 4.61
1036 4102 4.954118 AGTGCCCGGTGGTGGAGA 62.954 66.667 0.00 0.00 0.00 3.71
1037 4103 4.704833 CAGTGCCCGGTGGTGGAG 62.705 72.222 0.00 0.00 0.00 3.86
1102 4175 4.674904 CGATCTCTCTCCGGCGCG 62.675 72.222 0.00 0.00 0.00 6.86
1103 4176 3.280634 TCGATCTCTCTCCGGCGC 61.281 66.667 0.00 0.00 0.00 6.53
1104 4177 2.634777 GTCGATCTCTCTCCGGCG 59.365 66.667 0.00 0.00 0.00 6.46
1105 4178 1.231958 ATCGTCGATCTCTCTCCGGC 61.232 60.000 0.75 0.00 0.00 6.13
1107 4180 0.110419 GCATCGTCGATCTCTCTCCG 60.110 60.000 4.34 0.00 0.00 4.63
1108 4181 0.947960 TGCATCGTCGATCTCTCTCC 59.052 55.000 4.34 0.00 0.00 3.71
1109 4182 2.225255 TGATGCATCGTCGATCTCTCTC 59.775 50.000 21.34 0.00 0.00 3.20
1110 4183 2.031245 GTGATGCATCGTCGATCTCTCT 60.031 50.000 21.34 0.00 0.00 3.10
1111 4184 2.315011 GTGATGCATCGTCGATCTCTC 58.685 52.381 21.34 2.95 0.00 3.20
1216 4289 4.095400 GGCAGGGGAGGAGGAGGA 62.095 72.222 0.00 0.00 0.00 3.71
1270 4367 4.189188 CCCGTACGACTCCTGCGG 62.189 72.222 18.76 2.32 41.82 5.69
1553 4692 1.338136 AAGGACGGCGAAGGGATGAT 61.338 55.000 16.62 0.00 0.00 2.45
1555 4694 1.521681 GAAGGACGGCGAAGGGATG 60.522 63.158 16.62 0.00 0.00 3.51
1557 4696 2.283676 AGAAGGACGGCGAAGGGA 60.284 61.111 16.62 0.00 0.00 4.20
1560 4699 2.202623 CGGAGAAGGACGGCGAAG 60.203 66.667 16.62 0.00 0.00 3.79
1561 4700 3.755628 CCGGAGAAGGACGGCGAA 61.756 66.667 16.62 0.00 43.96 4.70
1624 4796 2.543383 CTCAATGCGATCGCGAGC 59.457 61.111 32.64 15.67 45.51 5.03
1659 4836 1.338973 CTTCTGCAAACACACAGCCAT 59.661 47.619 0.00 0.00 33.80 4.40
1820 5003 2.359230 AGCCGCTTGTTCTGCTCC 60.359 61.111 0.00 0.00 0.00 4.70
2048 5240 0.538287 GGAAGAACTGGCAGTGGCTT 60.538 55.000 26.44 26.44 40.87 4.35
2144 5336 1.135431 CAGAAGAGCTCTCTGGTGACG 60.135 57.143 24.27 7.82 40.36 4.35
2200 5392 2.029290 TCTCCTAATTAATCGCCTCGGC 60.029 50.000 0.00 0.00 37.85 5.54
2201 5393 3.936372 TCTCCTAATTAATCGCCTCGG 57.064 47.619 0.00 0.00 0.00 4.63
2203 5395 7.604164 TGATCAAATCTCCTAATTAATCGCCTC 59.396 37.037 0.00 0.00 0.00 4.70
2211 5403 5.551233 CCGCCTGATCAAATCTCCTAATTA 58.449 41.667 0.00 0.00 0.00 1.40
2243 5435 5.581605 CCAATTGATTACTTGATTGACCCG 58.418 41.667 7.12 0.00 32.61 5.28
2292 5485 6.889177 ACCAAACCAAACCAAATCAAATCTTT 59.111 30.769 0.00 0.00 0.00 2.52
2326 5519 2.551032 TCGCTAGCGCTGCTAATTACTA 59.449 45.455 31.82 7.25 40.82 1.82
2376 5575 5.361135 AACCCAAACCGAAAATTACTACG 57.639 39.130 0.00 0.00 0.00 3.51
2377 5576 6.016024 AGGAAACCCAAACCGAAAATTACTAC 60.016 38.462 0.00 0.00 0.00 2.73
2378 5577 6.069994 AGGAAACCCAAACCGAAAATTACTA 58.930 36.000 0.00 0.00 0.00 1.82
2380 5579 5.010314 AGAGGAAACCCAAACCGAAAATTAC 59.990 40.000 0.00 0.00 0.00 1.89
2381 5580 5.141910 AGAGGAAACCCAAACCGAAAATTA 58.858 37.500 0.00 0.00 0.00 1.40
2382 5581 3.964688 AGAGGAAACCCAAACCGAAAATT 59.035 39.130 0.00 0.00 0.00 1.82
2383 5582 3.572642 AGAGGAAACCCAAACCGAAAAT 58.427 40.909 0.00 0.00 0.00 1.82
2384 5583 3.021177 AGAGGAAACCCAAACCGAAAA 57.979 42.857 0.00 0.00 0.00 2.29
2385 5584 2.740506 AGAGGAAACCCAAACCGAAA 57.259 45.000 0.00 0.00 0.00 3.46
2428 5628 0.454957 TTCGTCGTCGGTTCGATTCC 60.455 55.000 1.55 0.00 41.78 3.01
2437 5637 1.202203 TCTGTTTTGTTCGTCGTCGG 58.798 50.000 1.55 0.00 37.69 4.79
2459 5659 8.617290 TTTGTTCCTCCTTACTAATCTGTTTC 57.383 34.615 0.00 0.00 0.00 2.78
2460 5660 9.014297 CATTTGTTCCTCCTTACTAATCTGTTT 57.986 33.333 0.00 0.00 0.00 2.83
2461 5661 7.611855 CCATTTGTTCCTCCTTACTAATCTGTT 59.388 37.037 0.00 0.00 0.00 3.16
2462 5662 7.112779 CCATTTGTTCCTCCTTACTAATCTGT 58.887 38.462 0.00 0.00 0.00 3.41
2584 5789 6.513806 TCAACCAATCATGAATTAGTGGTG 57.486 37.500 15.09 11.04 0.00 4.17
2629 5834 6.598457 AGAGTGGAGAATGTGAATGAAAGATG 59.402 38.462 0.00 0.00 0.00 2.90
2630 5835 6.719301 AGAGTGGAGAATGTGAATGAAAGAT 58.281 36.000 0.00 0.00 0.00 2.40
2670 5881 2.958818 AGGACATGGCTCCGAATAGTA 58.041 47.619 0.00 0.00 35.20 1.82
2671 5882 1.794714 AGGACATGGCTCCGAATAGT 58.205 50.000 0.00 0.00 35.20 2.12
2672 5883 2.366916 AGAAGGACATGGCTCCGAATAG 59.633 50.000 0.00 0.00 35.20 1.73
2677 5888 0.539051 AAGAGAAGGACATGGCTCCG 59.461 55.000 0.00 0.00 35.20 4.63
2706 5920 8.931385 ATGCTTTTTATCGCAAAATAGTTGAT 57.069 26.923 0.00 0.00 39.89 2.57
2713 5927 8.807581 GCTTAGTTATGCTTTTTATCGCAAAAT 58.192 29.630 0.00 0.00 39.89 1.82
2734 5962 0.103208 AGGTTCATCGAGGCGCTTAG 59.897 55.000 7.64 0.00 0.00 2.18
2736 5964 1.448540 CAGGTTCATCGAGGCGCTT 60.449 57.895 7.64 0.00 0.00 4.68
2742 5970 4.118410 CAAAGGAGATCAGGTTCATCGAG 58.882 47.826 0.00 0.00 0.00 4.04
2747 5975 4.437682 AACACAAAGGAGATCAGGTTCA 57.562 40.909 0.00 0.00 0.00 3.18
2810 6073 2.702592 TCGAACCAGGTCACTGTTTT 57.297 45.000 0.00 0.00 43.36 2.43
2814 6077 2.833794 TCTTTTCGAACCAGGTCACTG 58.166 47.619 0.00 0.00 44.51 3.66
2819 6082 3.223674 ACCATTCTTTTCGAACCAGGT 57.776 42.857 0.00 0.00 33.72 4.00
2854 6117 5.622180 TCATGAGTGGTAGGCTAGTAGTAG 58.378 45.833 0.00 0.00 0.00 2.57
2855 6118 5.641789 TCATGAGTGGTAGGCTAGTAGTA 57.358 43.478 0.00 0.00 0.00 1.82
2856 6119 4.521536 TCATGAGTGGTAGGCTAGTAGT 57.478 45.455 0.00 0.00 0.00 2.73
2857 6120 5.073428 TCATCATGAGTGGTAGGCTAGTAG 58.927 45.833 0.09 0.00 0.00 2.57
2869 6132 6.560711 TCAGATGCAAAATTCATCATGAGTG 58.439 36.000 0.09 0.21 41.98 3.51
2904 6167 4.378910 GCTTTCGCTTAAACAAGTTGCTAC 59.621 41.667 1.81 0.00 0.00 3.58
2955 6219 5.122519 TGTCTGTCTCAACATGCTTGTAAA 58.877 37.500 5.56 0.00 34.06 2.01
2957 6221 4.335400 TGTCTGTCTCAACATGCTTGTA 57.665 40.909 5.56 0.00 34.06 2.41
2958 6222 3.198409 TGTCTGTCTCAACATGCTTGT 57.802 42.857 0.00 0.00 37.82 3.16
2959 6223 3.304257 GGTTGTCTGTCTCAACATGCTTG 60.304 47.826 10.21 0.00 44.53 4.01
2962 6226 1.195448 CGGTTGTCTGTCTCAACATGC 59.805 52.381 10.21 0.00 44.53 4.06
2963 6227 2.221749 CACGGTTGTCTGTCTCAACATG 59.778 50.000 10.21 0.00 44.53 3.21
2964 6228 2.483876 CACGGTTGTCTGTCTCAACAT 58.516 47.619 10.21 0.00 44.53 2.71
2966 6230 0.582005 GCACGGTTGTCTGTCTCAAC 59.418 55.000 0.00 0.00 42.76 3.18
2969 6233 1.299926 ACGCACGGTTGTCTGTCTC 60.300 57.895 0.00 0.00 0.00 3.36
3035 6299 5.391629 CGGACTAGTTAATTGGCTTTTGGAC 60.392 44.000 0.00 0.00 0.00 4.02
3038 6302 4.083003 TGCGGACTAGTTAATTGGCTTTTG 60.083 41.667 0.00 0.00 0.00 2.44
3138 6408 0.727398 GAGGTCCAATGCGCACTAAC 59.273 55.000 14.90 8.98 0.00 2.34


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

AutoCloner maintained by Alex Coulton.