Multiple sequence alignment - TraesCS5D01G018700

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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 TraesCS5D01G018700 chr5D 100.000 2611 0 0 1 2611 11010123 11007513 0.000000e+00 4822
1 TraesCS5D01G018700 chr5A 89.389 1621 75 41 988 2561 9337415 9335845 0.000000e+00 1951
2 TraesCS5D01G018700 chr5A 84.156 385 44 13 7 385 558226900 558226527 8.890000e-95 357
3 TraesCS5D01G018700 chr5A 81.924 343 25 18 574 904 9337767 9337450 3.330000e-64 255
4 TraesCS5D01G018700 chr7B 86.515 749 74 16 830 1563 73233500 73234236 0.000000e+00 798
5 TraesCS5D01G018700 chr7B 86.497 748 76 14 830 1563 73311235 73311971 0.000000e+00 798
6 TraesCS5D01G018700 chr7B 87.297 677 72 6 888 1563 73334807 73335470 0.000000e+00 761
7 TraesCS5D01G018700 chr7B 85.106 658 76 12 944 1596 73289381 73290021 0.000000e+00 652
8 TraesCS5D01G018700 chr7B 84.237 590 68 17 830 1412 73329113 73329684 3.800000e-153 551
9 TraesCS5D01G018700 chr7B 85.751 386 36 10 830 1201 73216528 73216908 8.760000e-105 390
10 TraesCS5D01G018700 chr7B 84.977 213 23 6 334 545 75586912 75586708 9.470000e-50 207
11 TraesCS5D01G018700 chr7A 86.216 740 83 9 830 1563 118578405 118579131 0.000000e+00 784
12 TraesCS5D01G018700 chr7A 83.429 350 48 7 17 360 2418524 2418179 1.510000e-82 316
13 TraesCS5D01G018700 chr7A 80.186 323 31 18 225 545 602102135 602102426 7.320000e-51 211
14 TraesCS5D01G018700 chr7A 82.710 214 28 7 333 545 462990303 462990508 5.740000e-42 182
15 TraesCS5D01G018700 chr7D 85.471 764 84 17 809 1563 113721100 113721845 0.000000e+00 771
16 TraesCS5D01G018700 chr7D 84.805 770 91 15 804 1563 113718591 113719344 0.000000e+00 750
17 TraesCS5D01G018700 chr7D 84.857 733 83 17 836 1563 113714633 113715342 0.000000e+00 713
18 TraesCS5D01G018700 chr7D 82.124 386 51 14 17 388 232492073 232491692 5.420000e-82 315
19 TraesCS5D01G018700 chr7D 78.520 419 46 16 135 545 622279832 622279450 4.340000e-58 235
20 TraesCS5D01G018700 chr7D 84.977 213 16 10 334 545 4714737 4714540 4.410000e-48 202
21 TraesCS5D01G018700 chr2D 80.106 568 48 24 6 545 143311151 143311681 1.910000e-96 363
22 TraesCS5D01G018700 chr2D 81.003 379 56 12 7 376 391809433 391809804 1.180000e-73 287
23 TraesCS5D01G018700 chr2D 79.518 415 45 18 135 545 565159173 565158795 2.580000e-65 259
24 TraesCS5D01G018700 chr2D 79.661 295 30 12 225 496 636210701 636210988 4.440000e-43 185
25 TraesCS5D01G018700 chr2D 84.971 173 20 4 322 493 4278328 4278495 1.240000e-38 171
26 TraesCS5D01G018700 chr4D 83.590 390 52 11 802 1190 329000831 329000453 3.200000e-94 355
27 TraesCS5D01G018700 chr4D 83.287 359 39 12 15 360 307806928 307806578 7.020000e-81 311
28 TraesCS5D01G018700 chr4D 84.541 207 25 5 340 545 484922694 484922494 5.700000e-47 198
29 TraesCS5D01G018700 chr2A 82.152 381 55 9 11 385 624964189 624963816 5.420000e-82 315
30 TraesCS5D01G018700 chr2A 82.698 341 50 6 44 376 554426472 554426811 7.070000e-76 294
31 TraesCS5D01G018700 chr2A 78.889 180 29 3 311 490 23482213 23482383 2.120000e-21 113
32 TraesCS5D01G018700 chr3A 82.337 368 48 14 17 373 31733835 31734196 1.170000e-78 303
33 TraesCS5D01G018700 chr6D 82.336 351 52 5 44 385 446917848 446917499 1.960000e-76 296
34 TraesCS5D01G018700 chr3B 87.793 213 19 6 334 545 128657785 128657579 2.600000e-60 243
35 TraesCS5D01G018700 chr5B 84.103 195 21 3 308 502 459553519 459553335 2.060000e-41 180
36 TraesCS5D01G018700 chr4A 81.421 183 21 9 322 502 671939704 671939533 1.260000e-28 137


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 TraesCS5D01G018700 chr5D 11007513 11010123 2610 True 4822.000000 4822 100.000000 1 2611 1 chr5D.!!$R1 2610
1 TraesCS5D01G018700 chr5A 9335845 9337767 1922 True 1103.000000 1951 85.656500 574 2561 2 chr5A.!!$R2 1987
2 TraesCS5D01G018700 chr7B 73233500 73234236 736 False 798.000000 798 86.515000 830 1563 1 chr7B.!!$F2 733
3 TraesCS5D01G018700 chr7B 73311235 73311971 736 False 798.000000 798 86.497000 830 1563 1 chr7B.!!$F4 733
4 TraesCS5D01G018700 chr7B 73334807 73335470 663 False 761.000000 761 87.297000 888 1563 1 chr7B.!!$F6 675
5 TraesCS5D01G018700 chr7B 73289381 73290021 640 False 652.000000 652 85.106000 944 1596 1 chr7B.!!$F3 652
6 TraesCS5D01G018700 chr7B 73329113 73329684 571 False 551.000000 551 84.237000 830 1412 1 chr7B.!!$F5 582
7 TraesCS5D01G018700 chr7A 118578405 118579131 726 False 784.000000 784 86.216000 830 1563 1 chr7A.!!$F1 733
8 TraesCS5D01G018700 chr7D 113714633 113721845 7212 False 744.666667 771 85.044333 804 1563 3 chr7D.!!$F1 759
9 TraesCS5D01G018700 chr2D 143311151 143311681 530 False 363.000000 363 80.106000 6 545 1 chr2D.!!$F2 539

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
560 646 0.027455 TTTTGACGCTGTTGACGCTG 59.973 50.0 0.0 0.0 0.0 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2136 8769 0.108329 AATGTACTTCACCGGCCTCG 60.108 55.0 0.0 0.0 0.0 4.63 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
86 87 1.067060 GAGAGGCACGGTTTTGCTTTT 59.933 47.619 0.00 0.00 42.56 2.27
100 101 1.493311 CTTTTGCGAGAGTCACGGC 59.507 57.895 11.95 5.00 0.00 5.68
131 132 3.409851 GGAAACGGAGAAAAACGTGTT 57.590 42.857 0.00 0.00 43.31 3.32
132 133 3.761657 GGAAACGGAGAAAAACGTGTTT 58.238 40.909 2.60 2.60 43.31 2.83
133 134 4.168014 GGAAACGGAGAAAAACGTGTTTT 58.832 39.130 4.94 6.66 43.31 2.43
134 135 5.331098 GGAAACGGAGAAAAACGTGTTTTA 58.669 37.500 4.94 0.00 43.31 1.52
135 136 5.972973 GGAAACGGAGAAAAACGTGTTTTAT 59.027 36.000 4.94 4.23 43.31 1.40
136 137 6.075257 GGAAACGGAGAAAAACGTGTTTTATG 60.075 38.462 4.94 0.00 43.31 1.90
137 138 5.488645 ACGGAGAAAAACGTGTTTTATGT 57.511 34.783 4.94 0.00 41.45 2.29
138 139 5.882553 ACGGAGAAAAACGTGTTTTATGTT 58.117 33.333 4.94 0.00 41.45 2.71
147 148 5.935448 ACGTGTTTTATGTTTTTGTTCGG 57.065 34.783 0.00 0.00 0.00 4.30
148 149 4.265792 ACGTGTTTTATGTTTTTGTTCGGC 59.734 37.500 0.00 0.00 0.00 5.54
149 150 4.602092 CGTGTTTTATGTTTTTGTTCGGCG 60.602 41.667 0.00 0.00 0.00 6.46
150 151 4.499758 GTGTTTTATGTTTTTGTTCGGCGA 59.500 37.500 4.99 4.99 0.00 5.54
151 152 4.735822 TGTTTTATGTTTTTGTTCGGCGAG 59.264 37.500 10.46 0.00 0.00 5.03
152 153 4.815040 TTTATGTTTTTGTTCGGCGAGA 57.185 36.364 10.46 0.00 0.00 4.04
153 154 2.969443 ATGTTTTTGTTCGGCGAGAG 57.031 45.000 10.46 0.00 0.00 3.20
154 155 0.941542 TGTTTTTGTTCGGCGAGAGG 59.058 50.000 10.46 0.00 0.00 3.69
164 165 2.556287 GCGAGAGGCACGGTTTTG 59.444 61.111 0.00 0.00 42.87 2.44
165 166 2.556287 CGAGAGGCACGGTTTTGC 59.444 61.111 0.00 0.00 42.18 3.68
166 167 1.961277 CGAGAGGCACGGTTTTGCT 60.961 57.895 0.00 0.00 42.56 3.91
167 168 1.869690 GAGAGGCACGGTTTTGCTC 59.130 57.895 0.00 0.00 42.56 4.26
168 169 0.603975 GAGAGGCACGGTTTTGCTCT 60.604 55.000 0.00 0.00 42.56 4.09
169 170 0.603975 AGAGGCACGGTTTTGCTCTC 60.604 55.000 0.00 1.94 42.56 3.20
170 171 1.901650 GAGGCACGGTTTTGCTCTCG 61.902 60.000 0.00 0.00 42.56 4.04
171 172 2.127232 GCACGGTTTTGCTCTCGC 60.127 61.111 0.00 0.00 39.59 5.03
172 173 2.170985 CACGGTTTTGCTCTCGCG 59.829 61.111 0.00 0.00 39.65 5.87
173 174 2.028484 ACGGTTTTGCTCTCGCGA 59.972 55.556 9.26 9.26 39.65 5.87
174 175 2.022129 ACGGTTTTGCTCTCGCGAG 61.022 57.895 30.03 30.03 39.65 5.03
175 176 1.733041 CGGTTTTGCTCTCGCGAGA 60.733 57.895 34.65 34.65 39.74 4.04
204 205 2.993545 CGTGCATCTCGGAAACAAAAA 58.006 42.857 0.00 0.00 0.00 1.94
206 207 3.303725 CGTGCATCTCGGAAACAAAAAGA 60.304 43.478 0.00 0.00 0.00 2.52
208 209 5.040635 GTGCATCTCGGAAACAAAAAGAAA 58.959 37.500 0.00 0.00 0.00 2.52
210 211 6.861055 GTGCATCTCGGAAACAAAAAGAAATA 59.139 34.615 0.00 0.00 0.00 1.40
211 212 6.861055 TGCATCTCGGAAACAAAAAGAAATAC 59.139 34.615 0.00 0.00 0.00 1.89
212 213 6.861055 GCATCTCGGAAACAAAAAGAAATACA 59.139 34.615 0.00 0.00 0.00 2.29
214 215 8.853345 CATCTCGGAAACAAAAAGAAATACATG 58.147 33.333 0.00 0.00 0.00 3.21
215 216 6.861055 TCTCGGAAACAAAAAGAAATACATGC 59.139 34.615 0.00 0.00 0.00 4.06
216 217 6.744112 TCGGAAACAAAAAGAAATACATGCT 58.256 32.000 0.00 0.00 0.00 3.79
217 218 7.206687 TCGGAAACAAAAAGAAATACATGCTT 58.793 30.769 0.00 0.00 0.00 3.91
218 219 7.708752 TCGGAAACAAAAAGAAATACATGCTTT 59.291 29.630 0.00 0.00 33.59 3.51
219 220 8.003784 CGGAAACAAAAAGAAATACATGCTTTC 58.996 33.333 11.54 11.54 31.91 2.62
220 221 9.045223 GGAAACAAAAAGAAATACATGCTTTCT 57.955 29.630 14.86 14.86 43.10 2.52
221 222 9.853921 GAAACAAAAAGAAATACATGCTTTCTG 57.146 29.630 19.17 12.53 41.01 3.02
267 273 1.761449 TGTGCTTTTGTGAGAGGCAA 58.239 45.000 0.00 0.00 34.65 4.52
286 292 2.677979 GGCCGTGCCTCTCGAAAAC 61.678 63.158 7.58 0.00 46.69 2.43
287 293 1.959226 GCCGTGCCTCTCGAAAACA 60.959 57.895 0.00 0.00 0.00 2.83
289 295 0.319555 CCGTGCCTCTCGAAAACAGA 60.320 55.000 0.00 0.00 0.00 3.41
331 341 0.250234 TTCCTTCCACGAGAGGCATG 59.750 55.000 0.00 0.00 0.00 4.06
338 348 0.109597 CACGAGAGGCATGGTTTTGC 60.110 55.000 0.00 0.00 42.01 3.68
342 352 3.406682 GAGGCATGGTTTTGCTTCG 57.593 52.632 0.00 0.00 38.68 3.79
360 370 2.260434 GCGAGAGGCACGGTTGTA 59.740 61.111 0.00 0.00 42.87 2.41
365 375 2.352030 CGAGAGGCACGGTTGTACTTTA 60.352 50.000 0.00 0.00 0.00 1.85
366 376 3.251571 GAGAGGCACGGTTGTACTTTAG 58.748 50.000 0.00 0.00 0.00 1.85
419 505 2.027625 GTCGTGCCTCTGGGAAACG 61.028 63.158 0.00 0.00 42.03 3.60
420 506 2.204461 TCGTGCCTCTGGGAAACGA 61.204 57.895 8.55 8.55 44.80 3.85
446 532 7.604714 AAAAATAACGCGTTTTCTCTTCTTC 57.395 32.000 31.50 0.00 0.00 2.87
472 558 4.421479 CTTCCGCGAGAGGCACGT 62.421 66.667 8.23 0.00 43.84 4.49
481 567 1.660333 CGAGAGGCACGTTTTTGCTTC 60.660 52.381 0.28 0.28 46.31 3.86
545 631 1.150827 GTACTCCCGGTTCGGTTTTG 58.849 55.000 0.00 0.00 46.80 2.44
546 632 1.047002 TACTCCCGGTTCGGTTTTGA 58.953 50.000 0.00 0.00 46.80 2.69
547 633 0.533531 ACTCCCGGTTCGGTTTTGAC 60.534 55.000 0.00 0.00 46.80 3.18
548 634 1.562575 CTCCCGGTTCGGTTTTGACG 61.563 60.000 0.00 0.00 46.80 4.35
549 635 2.250190 CCGGTTCGGTTTTGACGC 59.750 61.111 0.00 0.00 42.73 5.19
550 636 2.248835 CCGGTTCGGTTTTGACGCT 61.249 57.895 0.00 0.00 42.73 5.07
551 637 1.083015 CGGTTCGGTTTTGACGCTG 60.083 57.895 0.00 0.00 0.00 5.18
552 638 1.768112 CGGTTCGGTTTTGACGCTGT 61.768 55.000 0.00 0.00 0.00 4.40
553 639 0.379316 GGTTCGGTTTTGACGCTGTT 59.621 50.000 0.00 0.00 0.00 3.16
554 640 1.462791 GTTCGGTTTTGACGCTGTTG 58.537 50.000 0.00 0.00 0.00 3.33
555 641 1.062880 GTTCGGTTTTGACGCTGTTGA 59.937 47.619 0.00 0.00 0.00 3.18
556 642 0.653636 TCGGTTTTGACGCTGTTGAC 59.346 50.000 0.00 0.00 0.00 3.18
557 643 0.653323 CGGTTTTGACGCTGTTGACG 60.653 55.000 0.00 0.00 0.00 4.35
558 644 0.928451 GGTTTTGACGCTGTTGACGC 60.928 55.000 0.00 0.00 0.00 5.19
559 645 0.027586 GTTTTGACGCTGTTGACGCT 59.972 50.000 0.00 0.00 0.00 5.07
560 646 0.027455 TTTTGACGCTGTTGACGCTG 59.973 50.000 0.00 0.00 0.00 5.18
561 647 1.087202 TTTGACGCTGTTGACGCTGT 61.087 50.000 0.00 0.00 0.00 4.40
562 648 1.087202 TTGACGCTGTTGACGCTGTT 61.087 50.000 0.00 0.00 0.00 3.16
563 649 1.083401 GACGCTGTTGACGCTGTTG 60.083 57.895 0.00 0.00 0.00 3.33
564 650 1.487452 GACGCTGTTGACGCTGTTGA 61.487 55.000 0.00 0.00 0.00 3.18
565 651 1.083401 CGCTGTTGACGCTGTTGAC 60.083 57.895 0.00 0.00 0.00 3.18
566 652 1.083401 GCTGTTGACGCTGTTGACG 60.083 57.895 0.00 0.00 0.00 4.35
567 653 1.564622 CTGTTGACGCTGTTGACGG 59.435 57.895 0.00 0.00 34.00 4.79
568 654 1.151777 CTGTTGACGCTGTTGACGGT 61.152 55.000 0.00 0.00 34.00 4.83
569 655 1.149361 TGTTGACGCTGTTGACGGTC 61.149 55.000 0.00 0.00 34.00 4.79
570 656 1.593209 TTGACGCTGTTGACGGTCC 60.593 57.895 5.55 0.00 34.00 4.46
571 657 2.737376 GACGCTGTTGACGGTCCC 60.737 66.667 5.55 0.00 34.00 4.46
572 658 3.222354 GACGCTGTTGACGGTCCCT 62.222 63.158 5.55 0.00 34.00 4.20
600 686 2.440065 GCCGTGCATGGGATGGAA 60.440 61.111 26.22 0.00 30.45 3.53
601 687 2.774799 GCCGTGCATGGGATGGAAC 61.775 63.158 26.22 3.88 30.45 3.62
640 731 4.623595 GTGACTCGTCTCAAGATTTCCTTC 59.376 45.833 0.00 0.00 31.42 3.46
672 763 2.441375 TGGGTAATAATGCAGCTGGCTA 59.559 45.455 17.12 0.00 45.15 3.93
684 775 1.765314 AGCTGGCTAATCACACCTAGG 59.235 52.381 7.41 7.41 0.00 3.02
704 800 4.704965 AGGACTAGAATAATTTCCCACGC 58.295 43.478 0.00 0.00 31.84 5.34
708 804 5.930135 ACTAGAATAATTTCCCACGCAGAT 58.070 37.500 0.00 0.00 31.84 2.90
719 815 2.741985 CGCAGATCGTGGTGCCAA 60.742 61.111 0.00 0.00 36.24 4.52
720 816 2.108514 CGCAGATCGTGGTGCCAAT 61.109 57.895 0.00 0.00 36.24 3.16
721 817 1.647545 CGCAGATCGTGGTGCCAATT 61.648 55.000 0.00 0.00 36.24 2.32
722 818 0.179156 GCAGATCGTGGTGCCAATTG 60.179 55.000 0.00 0.00 33.29 2.32
723 819 0.179156 CAGATCGTGGTGCCAATTGC 60.179 55.000 0.00 0.00 41.77 3.56
724 820 1.139520 GATCGTGGTGCCAATTGCC 59.860 57.895 0.00 0.00 40.16 4.52
725 821 2.283472 GATCGTGGTGCCAATTGCCC 62.283 60.000 0.00 0.00 40.16 5.36
726 822 4.418401 CGTGGTGCCAATTGCCCG 62.418 66.667 0.00 0.00 40.16 6.13
739 835 4.136796 CAATTGCCCGATTGGATAGAGAA 58.863 43.478 0.00 0.00 37.49 2.87
746 842 4.512944 CCCGATTGGATAGAGAACACATTG 59.487 45.833 0.00 0.00 37.49 2.82
759 855 3.624326 ACACATTGTTCCACATTGACG 57.376 42.857 5.92 0.00 34.56 4.35
767 863 1.509787 CCACATTGACGAAAGCGCG 60.510 57.895 0.00 0.00 42.48 6.86
768 864 1.491127 CACATTGACGAAAGCGCGA 59.509 52.632 12.10 0.00 42.48 5.87
769 865 0.517132 CACATTGACGAAAGCGCGAG 60.517 55.000 12.10 0.00 42.48 5.03
783 879 1.869690 GCGAGCTTTCAGACCCAAC 59.130 57.895 0.00 0.00 0.00 3.77
785 881 1.593196 CGAGCTTTCAGACCCAACAA 58.407 50.000 0.00 0.00 0.00 2.83
787 883 2.095567 CGAGCTTTCAGACCCAACAATG 60.096 50.000 0.00 0.00 0.00 2.82
788 884 3.149196 GAGCTTTCAGACCCAACAATGA 58.851 45.455 0.00 0.00 0.00 2.57
791 887 3.068024 GCTTTCAGACCCAACAATGAACA 59.932 43.478 0.00 0.00 31.72 3.18
792 888 4.794003 GCTTTCAGACCCAACAATGAACAG 60.794 45.833 0.00 0.00 31.72 3.16
793 889 2.229792 TCAGACCCAACAATGAACAGC 58.770 47.619 0.00 0.00 0.00 4.40
794 890 1.270550 CAGACCCAACAATGAACAGCC 59.729 52.381 0.00 0.00 0.00 4.85
795 891 1.145738 AGACCCAACAATGAACAGCCT 59.854 47.619 0.00 0.00 0.00 4.58
796 892 2.375174 AGACCCAACAATGAACAGCCTA 59.625 45.455 0.00 0.00 0.00 3.93
797 893 2.749621 GACCCAACAATGAACAGCCTAG 59.250 50.000 0.00 0.00 0.00 3.02
798 894 2.108250 ACCCAACAATGAACAGCCTAGT 59.892 45.455 0.00 0.00 0.00 2.57
799 895 2.749621 CCCAACAATGAACAGCCTAGTC 59.250 50.000 0.00 0.00 0.00 2.59
800 896 2.749621 CCAACAATGAACAGCCTAGTCC 59.250 50.000 0.00 0.00 0.00 3.85
801 897 3.411446 CAACAATGAACAGCCTAGTCCA 58.589 45.455 0.00 0.00 0.00 4.02
802 898 3.059352 ACAATGAACAGCCTAGTCCAC 57.941 47.619 0.00 0.00 0.00 4.02
834 930 2.743718 CGTCACCAGGCTCCAGTT 59.256 61.111 0.00 0.00 0.00 3.16
873 972 1.686741 GGTCAAGTTTCACCAACCCCA 60.687 52.381 0.00 0.00 35.77 4.96
890 989 1.069358 CCCAGCTCTCGAACCCTTATC 59.931 57.143 0.00 0.00 0.00 1.75
901 1000 3.728268 CGAACCCTTATCTATAGCGCTCG 60.728 52.174 16.34 3.66 0.00 5.03
919 1018 1.134877 TCGCTTCTGCTCTCCATGAAG 60.135 52.381 0.00 0.00 38.96 3.02
946 1045 1.872197 GCCCTGCGCCATTACAACAA 61.872 55.000 4.18 0.00 0.00 2.83
947 1046 0.109319 CCCTGCGCCATTACAACAAC 60.109 55.000 4.18 0.00 0.00 3.32
948 1047 0.595588 CCTGCGCCATTACAACAACA 59.404 50.000 4.18 0.00 0.00 3.33
949 1048 1.401409 CCTGCGCCATTACAACAACAG 60.401 52.381 4.18 0.00 0.00 3.16
973 1080 1.816835 CAGCTCACATCATTTGCACCT 59.183 47.619 0.00 0.00 0.00 4.00
985 1092 2.672996 GCACCTGCACCGGTTGAT 60.673 61.111 2.97 0.00 41.59 2.57
986 1093 2.690778 GCACCTGCACCGGTTGATC 61.691 63.158 2.97 0.00 41.59 2.92
988 1095 0.677731 CACCTGCACCGGTTGATCAT 60.678 55.000 2.97 0.00 34.29 2.45
990 1097 0.392863 CCTGCACCGGTTGATCATCA 60.393 55.000 2.97 0.00 0.00 3.07
1043 5149 3.200887 ATGAGATCGAGTCGCCGGC 62.201 63.158 19.07 19.07 0.00 6.13
1158 7765 3.459063 GGAGAAGGCGGCGTAGGT 61.459 66.667 9.37 0.00 0.00 3.08
1405 8012 0.320683 TCGCACATCAAGGTGGAGTG 60.321 55.000 0.00 0.00 39.19 3.51
1451 8059 4.092968 GTGAAGGTGGAATCGACATACAAC 59.907 45.833 0.00 0.00 0.00 3.32
1569 8177 1.084289 GGATGCCTACAACGACCAAC 58.916 55.000 0.00 0.00 0.00 3.77
1638 8246 6.041751 TCCCTAGCTAGTTGTCTAATAAAGCC 59.958 42.308 19.31 0.00 0.00 4.35
1654 8263 2.045926 CCGCTCCAACCCTCAAGG 60.046 66.667 0.00 0.00 43.78 3.61
1666 8275 1.081892 CCTCAAGGAGTGACGCAATG 58.918 55.000 0.00 0.00 37.39 2.82
1670 8279 3.411446 TCAAGGAGTGACGCAATGATTT 58.589 40.909 0.00 0.00 0.00 2.17
1671 8280 4.574892 TCAAGGAGTGACGCAATGATTTA 58.425 39.130 0.00 0.00 0.00 1.40
1672 8281 5.185454 TCAAGGAGTGACGCAATGATTTAT 58.815 37.500 0.00 0.00 0.00 1.40
1673 8282 5.294306 TCAAGGAGTGACGCAATGATTTATC 59.706 40.000 0.00 0.00 0.00 1.75
1674 8283 5.028549 AGGAGTGACGCAATGATTTATCT 57.971 39.130 0.00 0.00 0.00 1.98
1675 8284 4.813161 AGGAGTGACGCAATGATTTATCTG 59.187 41.667 0.00 0.00 0.00 2.90
1676 8285 4.024556 GGAGTGACGCAATGATTTATCTGG 60.025 45.833 0.00 0.00 0.00 3.86
1677 8286 4.517285 AGTGACGCAATGATTTATCTGGT 58.483 39.130 0.00 0.00 0.00 4.00
1678 8287 4.943705 AGTGACGCAATGATTTATCTGGTT 59.056 37.500 0.00 0.00 0.00 3.67
1679 8288 6.112734 AGTGACGCAATGATTTATCTGGTTA 58.887 36.000 0.00 0.00 0.00 2.85
1680 8289 6.767902 AGTGACGCAATGATTTATCTGGTTAT 59.232 34.615 0.00 0.00 0.00 1.89
1681 8290 6.852853 GTGACGCAATGATTTATCTGGTTATG 59.147 38.462 0.00 0.00 0.00 1.90
1688 8297 8.301720 CAATGATTTATCTGGTTATGGTGATGG 58.698 37.037 0.00 0.00 0.00 3.51
1744 8353 4.402793 ACTCATAGCACGTATGTTCTCCTT 59.597 41.667 0.00 0.00 39.80 3.36
1754 8363 7.310664 CACGTATGTTCTCCTTTACTACTTGA 58.689 38.462 0.00 0.00 0.00 3.02
1769 8381 9.909644 TTTACTACTTGAACTACACATCTCTTC 57.090 33.333 0.00 0.00 0.00 2.87
1783 8395 8.463930 ACACATCTCTTCCATTTTCTAACAAA 57.536 30.769 0.00 0.00 0.00 2.83
1821 8433 3.588955 TGTCTAGCACACATGACACATC 58.411 45.455 0.00 0.00 34.94 3.06
1822 8434 3.006752 TGTCTAGCACACATGACACATCA 59.993 43.478 0.00 0.00 39.83 3.07
1826 8438 3.682696 AGCACACATGACACATCAGAAT 58.317 40.909 0.00 0.00 38.57 2.40
1870 8503 7.439356 GCAGTAGTATATGCAGTCAAATCAGAA 59.561 37.037 0.00 0.00 42.11 3.02
1886 8519 1.007502 GAATTGCCACTTGCGTGCA 60.008 52.632 0.00 0.00 45.60 4.57
1900 8533 1.840630 CGTGCACGCCATTGACTTCA 61.841 55.000 28.16 0.00 0.00 3.02
1911 8544 1.259142 TTGACTTCATCCCGGGCGTA 61.259 55.000 18.49 0.00 0.00 4.42
1912 8545 1.046472 TGACTTCATCCCGGGCGTAT 61.046 55.000 18.49 0.01 0.00 3.06
1913 8546 0.106149 GACTTCATCCCGGGCGTATT 59.894 55.000 18.49 0.00 0.00 1.89
1914 8547 0.179056 ACTTCATCCCGGGCGTATTG 60.179 55.000 18.49 8.23 0.00 1.90
1951 8584 0.179108 GGACCTCTTCCCGATTGACG 60.179 60.000 0.00 0.00 38.70 4.35
2112 8745 2.167693 CCTCCACCTGCAACGACTATAA 59.832 50.000 0.00 0.00 0.00 0.98
2210 8845 8.565896 ACATGCTTTACAATTTCTGAGATACA 57.434 30.769 0.00 0.00 0.00 2.29
2212 8847 9.447040 CATGCTTTACAATTTCTGAGATACATG 57.553 33.333 0.00 0.00 0.00 3.21
2467 9103 6.695292 AAGCATGTTTAGCATTTTTCGAAG 57.305 33.333 0.00 0.00 35.19 3.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 2.249844 GTGACTCTCACGGGGAAAAA 57.750 50.000 0.00 0.00 37.67 1.94
42 43 2.210116 GAAGCAAAACCGTGACTCTCA 58.790 47.619 0.00 0.00 0.00 3.27
65 66 1.507141 AAGCAAAACCGTGCCTCTCG 61.507 55.000 0.00 0.00 46.14 4.04
76 77 2.783832 GTGACTCTCGCAAAAGCAAAAC 59.216 45.455 0.00 0.00 0.00 2.43
117 118 8.436970 ACAAAAACATAAAACACGTTTTTCTCC 58.563 29.630 12.73 0.00 45.07 3.71
118 119 9.800299 AACAAAAACATAAAACACGTTTTTCTC 57.200 25.926 12.73 0.00 45.07 2.87
119 120 9.800299 GAACAAAAACATAAAACACGTTTTTCT 57.200 25.926 12.73 0.00 45.07 2.52
120 121 8.759508 CGAACAAAAACATAAAACACGTTTTTC 58.240 29.630 12.73 0.99 45.07 2.29
122 123 7.228150 CCGAACAAAAACATAAAACACGTTTT 58.772 30.769 12.20 12.20 42.91 2.43
123 124 6.670214 GCCGAACAAAAACATAAAACACGTTT 60.670 34.615 0.00 0.00 34.42 3.60
124 125 5.220247 GCCGAACAAAAACATAAAACACGTT 60.220 36.000 0.00 0.00 0.00 3.99
125 126 4.265792 GCCGAACAAAAACATAAAACACGT 59.734 37.500 0.00 0.00 0.00 4.49
126 127 4.602092 CGCCGAACAAAAACATAAAACACG 60.602 41.667 0.00 0.00 0.00 4.49
127 128 4.499758 TCGCCGAACAAAAACATAAAACAC 59.500 37.500 0.00 0.00 0.00 3.32
128 129 4.669318 TCGCCGAACAAAAACATAAAACA 58.331 34.783 0.00 0.00 0.00 2.83
129 130 4.971220 TCTCGCCGAACAAAAACATAAAAC 59.029 37.500 0.00 0.00 0.00 2.43
130 131 5.171147 TCTCGCCGAACAAAAACATAAAA 57.829 34.783 0.00 0.00 0.00 1.52
131 132 4.319911 CCTCTCGCCGAACAAAAACATAAA 60.320 41.667 0.00 0.00 0.00 1.40
132 133 3.187637 CCTCTCGCCGAACAAAAACATAA 59.812 43.478 0.00 0.00 0.00 1.90
133 134 2.739913 CCTCTCGCCGAACAAAAACATA 59.260 45.455 0.00 0.00 0.00 2.29
134 135 1.535462 CCTCTCGCCGAACAAAAACAT 59.465 47.619 0.00 0.00 0.00 2.71
135 136 0.941542 CCTCTCGCCGAACAAAAACA 59.058 50.000 0.00 0.00 0.00 2.83
136 137 0.385598 GCCTCTCGCCGAACAAAAAC 60.386 55.000 0.00 0.00 0.00 2.43
137 138 0.816018 TGCCTCTCGCCGAACAAAAA 60.816 50.000 0.00 0.00 36.24 1.94
138 139 1.227704 TGCCTCTCGCCGAACAAAA 60.228 52.632 0.00 0.00 36.24 2.44
139 140 1.959226 GTGCCTCTCGCCGAACAAA 60.959 57.895 0.00 0.00 36.24 2.83
140 141 2.357034 GTGCCTCTCGCCGAACAA 60.357 61.111 0.00 0.00 36.24 2.83
141 142 4.717629 CGTGCCTCTCGCCGAACA 62.718 66.667 0.00 0.00 36.24 3.18
146 147 2.668550 AAAACCGTGCCTCTCGCC 60.669 61.111 0.00 0.00 36.24 5.54
147 148 2.556287 CAAAACCGTGCCTCTCGC 59.444 61.111 0.00 0.00 38.31 5.03
148 149 1.901650 GAGCAAAACCGTGCCTCTCG 61.902 60.000 0.00 0.00 46.14 4.04
149 150 0.603975 AGAGCAAAACCGTGCCTCTC 60.604 55.000 0.00 0.00 46.14 3.20
150 151 0.603975 GAGAGCAAAACCGTGCCTCT 60.604 55.000 7.82 0.00 46.14 3.69
151 152 1.869690 GAGAGCAAAACCGTGCCTC 59.130 57.895 0.00 0.00 46.14 4.70
152 153 1.961277 CGAGAGCAAAACCGTGCCT 60.961 57.895 0.00 0.00 46.14 4.75
153 154 2.556287 CGAGAGCAAAACCGTGCC 59.444 61.111 0.00 0.00 46.14 5.01
184 185 2.679355 TTTTGTTTCCGAGATGCACG 57.321 45.000 0.00 0.00 0.00 5.34
185 186 4.223320 TCTTTTTGTTTCCGAGATGCAC 57.777 40.909 0.00 0.00 0.00 4.57
186 187 4.909696 TTCTTTTTGTTTCCGAGATGCA 57.090 36.364 0.00 0.00 0.00 3.96
187 188 6.861055 TGTATTTCTTTTTGTTTCCGAGATGC 59.139 34.615 0.00 0.00 0.00 3.91
188 189 8.853345 CATGTATTTCTTTTTGTTTCCGAGATG 58.147 33.333 0.00 0.00 0.00 2.90
189 190 7.542130 GCATGTATTTCTTTTTGTTTCCGAGAT 59.458 33.333 0.00 0.00 0.00 2.75
190 191 6.861055 GCATGTATTTCTTTTTGTTTCCGAGA 59.139 34.615 0.00 0.00 0.00 4.04
191 192 6.863126 AGCATGTATTTCTTTTTGTTTCCGAG 59.137 34.615 0.00 0.00 0.00 4.63
192 193 6.744112 AGCATGTATTTCTTTTTGTTTCCGA 58.256 32.000 0.00 0.00 0.00 4.55
193 194 7.406799 AAGCATGTATTTCTTTTTGTTTCCG 57.593 32.000 0.00 0.00 0.00 4.30
320 330 2.257353 GCAAAACCATGCCTCTCGT 58.743 52.632 0.00 0.00 40.49 4.18
331 341 1.497722 CTCTCGCCGAAGCAAAACC 59.502 57.895 0.00 0.00 39.83 3.27
342 352 3.291101 TACAACCGTGCCTCTCGCC 62.291 63.158 0.00 0.00 36.24 5.54
355 365 2.955614 TGCCTCTCGCTAAAGTACAAC 58.044 47.619 0.00 0.00 38.78 3.32
360 370 0.905357 ACCATGCCTCTCGCTAAAGT 59.095 50.000 0.00 0.00 38.78 2.66
365 375 1.376424 CACAACCATGCCTCTCGCT 60.376 57.895 0.00 0.00 38.78 4.93
366 376 3.044059 GCACAACCATGCCTCTCGC 62.044 63.158 0.00 0.00 39.86 5.03
427 513 5.978934 AAAGAAGAAGAGAAAACGCGTTA 57.021 34.783 26.87 0.00 0.00 3.18
540 626 0.027586 AGCGTCAACAGCGTCAAAAC 59.972 50.000 0.00 0.00 40.04 2.43
545 631 1.083401 CAACAGCGTCAACAGCGTC 60.083 57.895 0.00 0.00 40.04 5.19
546 632 1.520564 TCAACAGCGTCAACAGCGT 60.521 52.632 0.00 0.00 40.04 5.07
547 633 1.083401 GTCAACAGCGTCAACAGCG 60.083 57.895 0.00 0.00 40.04 5.18
548 634 1.083401 CGTCAACAGCGTCAACAGC 60.083 57.895 0.00 0.00 0.00 4.40
549 635 1.151777 ACCGTCAACAGCGTCAACAG 61.152 55.000 0.00 0.00 0.00 3.16
550 636 1.149361 GACCGTCAACAGCGTCAACA 61.149 55.000 0.00 0.00 0.00 3.33
551 637 1.563173 GACCGTCAACAGCGTCAAC 59.437 57.895 0.00 0.00 0.00 3.18
552 638 1.593209 GGACCGTCAACAGCGTCAA 60.593 57.895 0.00 0.00 0.00 3.18
553 639 2.028484 GGACCGTCAACAGCGTCA 59.972 61.111 0.00 0.00 0.00 4.35
554 640 2.710724 AAGGGACCGTCAACAGCGTC 62.711 60.000 0.00 0.00 0.00 5.19
555 641 2.803817 AAGGGACCGTCAACAGCGT 61.804 57.895 0.00 0.00 0.00 5.07
556 642 2.030562 AAGGGACCGTCAACAGCG 59.969 61.111 0.00 0.00 0.00 5.18
557 643 1.966451 CCAAGGGACCGTCAACAGC 60.966 63.158 0.00 0.00 0.00 4.40
558 644 1.302511 CCCAAGGGACCGTCAACAG 60.303 63.158 0.00 0.00 37.50 3.16
559 645 1.766864 TCCCAAGGGACCGTCAACA 60.767 57.895 3.04 0.00 39.76 3.33
560 646 3.153825 TCCCAAGGGACCGTCAAC 58.846 61.111 3.04 0.00 39.76 3.18
569 655 4.856801 CGGCCGTGATCCCAAGGG 62.857 72.222 19.50 0.00 41.44 3.95
570 656 4.096003 ACGGCCGTGATCCCAAGG 62.096 66.667 33.75 0.00 43.56 3.61
600 686 0.817634 CACACACCGTTGACCCATGT 60.818 55.000 0.00 0.00 0.00 3.21
601 687 0.533978 TCACACACCGTTGACCCATG 60.534 55.000 0.00 0.00 0.00 3.66
602 688 0.534203 GTCACACACCGTTGACCCAT 60.534 55.000 0.00 0.00 0.00 4.00
603 689 1.153329 GTCACACACCGTTGACCCA 60.153 57.895 0.00 0.00 0.00 4.51
604 690 0.878961 GAGTCACACACCGTTGACCC 60.879 60.000 0.00 0.00 32.18 4.46
605 691 1.213094 CGAGTCACACACCGTTGACC 61.213 60.000 0.00 0.00 32.18 4.02
606 692 0.526954 ACGAGTCACACACCGTTGAC 60.527 55.000 0.00 0.00 30.50 3.18
608 694 0.248907 AGACGAGTCACACACCGTTG 60.249 55.000 5.99 0.00 33.62 4.10
656 747 4.037208 GTGTGATTAGCCAGCTGCATTATT 59.963 41.667 8.66 0.00 44.83 1.40
657 748 3.567164 GTGTGATTAGCCAGCTGCATTAT 59.433 43.478 8.66 0.00 44.83 1.28
658 749 2.945008 GTGTGATTAGCCAGCTGCATTA 59.055 45.455 8.66 0.00 44.83 1.90
659 750 1.747355 GTGTGATTAGCCAGCTGCATT 59.253 47.619 8.66 0.00 44.83 3.56
684 775 5.357257 TCTGCGTGGGAAATTATTCTAGTC 58.643 41.667 0.00 0.00 35.79 2.59
704 800 0.179156 GCAATTGGCACCACGATCTG 60.179 55.000 7.72 0.00 43.97 2.90
719 815 3.136443 TGTTCTCTATCCAATCGGGCAAT 59.864 43.478 0.00 0.00 36.21 3.56
720 816 2.503765 TGTTCTCTATCCAATCGGGCAA 59.496 45.455 0.00 0.00 36.21 4.52
721 817 2.115427 TGTTCTCTATCCAATCGGGCA 58.885 47.619 0.00 0.00 36.21 5.36
722 818 2.158957 TGTGTTCTCTATCCAATCGGGC 60.159 50.000 0.00 0.00 36.21 6.13
723 819 3.819564 TGTGTTCTCTATCCAATCGGG 57.180 47.619 0.00 0.00 38.37 5.14
724 820 5.118990 ACAATGTGTTCTCTATCCAATCGG 58.881 41.667 0.00 0.00 0.00 4.18
725 821 6.668541 AACAATGTGTTCTCTATCCAATCG 57.331 37.500 0.00 0.00 35.27 3.34
746 842 1.950472 CGCTTTCGTCAATGTGGAAC 58.050 50.000 0.00 0.00 37.35 3.62
767 863 3.149196 TCATTGTTGGGTCTGAAAGCTC 58.851 45.455 0.00 0.00 0.00 4.09
768 864 3.228188 TCATTGTTGGGTCTGAAAGCT 57.772 42.857 0.00 0.00 0.00 3.74
769 865 3.068024 TGTTCATTGTTGGGTCTGAAAGC 59.932 43.478 0.00 0.00 30.06 3.51
771 867 3.068024 GCTGTTCATTGTTGGGTCTGAAA 59.932 43.478 0.00 0.00 30.06 2.69
772 868 2.622942 GCTGTTCATTGTTGGGTCTGAA 59.377 45.455 0.00 0.00 0.00 3.02
774 870 1.270550 GGCTGTTCATTGTTGGGTCTG 59.729 52.381 0.00 0.00 0.00 3.51
775 871 1.145738 AGGCTGTTCATTGTTGGGTCT 59.854 47.619 0.00 0.00 0.00 3.85
776 872 1.620822 AGGCTGTTCATTGTTGGGTC 58.379 50.000 0.00 0.00 0.00 4.46
778 874 2.749621 GACTAGGCTGTTCATTGTTGGG 59.250 50.000 0.00 0.00 0.00 4.12
779 875 2.749621 GGACTAGGCTGTTCATTGTTGG 59.250 50.000 0.00 0.00 0.00 3.77
780 876 3.189287 GTGGACTAGGCTGTTCATTGTTG 59.811 47.826 0.00 0.00 0.00 3.33
783 879 2.359900 GGTGGACTAGGCTGTTCATTG 58.640 52.381 0.00 0.00 0.00 2.82
785 881 0.912486 GGGTGGACTAGGCTGTTCAT 59.088 55.000 0.00 0.00 0.00 2.57
787 883 0.250513 CAGGGTGGACTAGGCTGTTC 59.749 60.000 0.00 0.00 0.00 3.18
788 884 1.201429 CCAGGGTGGACTAGGCTGTT 61.201 60.000 0.00 0.00 40.96 3.16
791 887 2.689034 GCCAGGGTGGACTAGGCT 60.689 66.667 0.00 0.00 40.96 4.58
792 888 1.853250 AAAGCCAGGGTGGACTAGGC 61.853 60.000 0.00 0.00 40.96 3.93
793 889 0.035056 CAAAGCCAGGGTGGACTAGG 60.035 60.000 0.00 0.00 40.96 3.02
794 890 0.035056 CCAAAGCCAGGGTGGACTAG 60.035 60.000 0.00 0.00 40.96 2.57
795 891 2.074967 CCAAAGCCAGGGTGGACTA 58.925 57.895 0.00 0.00 40.96 2.59
796 892 2.846532 CCAAAGCCAGGGTGGACT 59.153 61.111 0.00 0.00 40.96 3.85
797 893 2.991540 GCCAAAGCCAGGGTGGAC 60.992 66.667 0.00 0.00 40.96 4.02
798 894 4.659172 CGCCAAAGCCAGGGTGGA 62.659 66.667 0.00 0.00 40.96 4.02
820 916 0.604780 CAGTGAACTGGAGCCTGGTG 60.605 60.000 2.35 0.00 40.20 4.17
834 930 1.257750 CGGATGGGTCTGGTCAGTGA 61.258 60.000 0.00 0.00 0.00 3.41
860 959 0.110486 GAGAGCTGGGGTTGGTGAAA 59.890 55.000 0.00 0.00 0.00 2.69
873 972 4.703093 GCTATAGATAAGGGTTCGAGAGCT 59.297 45.833 3.21 0.00 32.51 4.09
949 1048 1.734707 GCAAATGATGTGAGCTGTGGC 60.735 52.381 0.00 0.00 39.06 5.01
973 1080 2.016318 GAATGATGATCAACCGGTGCA 58.984 47.619 8.52 4.84 0.00 4.57
976 1083 3.273434 CTGTGAATGATGATCAACCGGT 58.727 45.455 0.00 0.00 0.00 5.28
977 1084 2.032550 GCTGTGAATGATGATCAACCGG 59.967 50.000 0.00 0.00 0.00 5.28
978 1085 2.679336 TGCTGTGAATGATGATCAACCG 59.321 45.455 0.00 0.00 0.00 4.44
980 1087 5.041287 CCATTGCTGTGAATGATGATCAAC 58.959 41.667 0.00 0.00 35.65 3.18
982 1089 3.067601 GCCATTGCTGTGAATGATGATCA 59.932 43.478 0.00 0.00 35.65 2.92
985 1092 1.752498 GGCCATTGCTGTGAATGATGA 59.248 47.619 0.00 0.00 35.65 2.92
986 1093 1.754803 AGGCCATTGCTGTGAATGATG 59.245 47.619 5.01 0.00 35.65 3.07
988 1095 1.466856 GAGGCCATTGCTGTGAATGA 58.533 50.000 5.01 0.00 35.65 2.57
990 1097 0.040058 TGGAGGCCATTGCTGTGAAT 59.960 50.000 5.01 0.00 37.74 2.57
1023 1135 1.649267 CGGCGACTCGATCTCATGA 59.351 57.895 0.00 0.00 0.00 3.07
1069 5175 2.046892 GTGCCAGTCCATGACGCT 60.047 61.111 0.00 0.00 37.67 5.07
1133 7740 1.374947 CCGCCTTCTCCCTCAACAA 59.625 57.895 0.00 0.00 0.00 2.83
1158 7765 0.679505 AGTTGAACTGCCTGACGCTA 59.320 50.000 0.00 0.00 38.78 4.26
1473 8081 1.476471 GGCCTTGGTGATCTCATCCTG 60.476 57.143 0.00 0.00 0.00 3.86
1524 8132 0.889306 GCGATAAGGTAGGCCTCGAT 59.111 55.000 9.68 0.00 46.33 3.59
1525 8133 1.177256 GGCGATAAGGTAGGCCTCGA 61.177 60.000 9.68 0.00 46.33 4.04
1616 8224 5.402867 GCGGCTTTATTAGACAACTAGCTAG 59.597 44.000 19.44 19.44 0.00 3.42
1617 8225 5.068723 AGCGGCTTTATTAGACAACTAGCTA 59.931 40.000 0.00 0.00 0.00 3.32
1618 8226 4.120589 GCGGCTTTATTAGACAACTAGCT 58.879 43.478 0.00 0.00 0.00 3.32
1619 8227 4.120589 AGCGGCTTTATTAGACAACTAGC 58.879 43.478 0.00 0.00 0.00 3.42
1638 8246 1.078848 CTCCTTGAGGGTTGGAGCG 60.079 63.158 0.00 0.00 40.52 5.03
1654 8263 4.572389 ACCAGATAAATCATTGCGTCACTC 59.428 41.667 0.00 0.00 0.00 3.51
1666 8275 7.823745 AACCATCACCATAACCAGATAAATC 57.176 36.000 0.00 0.00 0.00 2.17
1670 8279 6.605594 GGAAAAACCATCACCATAACCAGATA 59.394 38.462 0.00 0.00 38.79 1.98
1671 8280 5.422012 GGAAAAACCATCACCATAACCAGAT 59.578 40.000 0.00 0.00 38.79 2.90
1672 8281 4.770010 GGAAAAACCATCACCATAACCAGA 59.230 41.667 0.00 0.00 38.79 3.86
1673 8282 4.526262 TGGAAAAACCATCACCATAACCAG 59.474 41.667 0.00 0.00 44.64 4.00
1674 8283 4.483950 TGGAAAAACCATCACCATAACCA 58.516 39.130 0.00 0.00 44.64 3.67
1697 8306 5.532406 TCCCTGAATATAAGCAGACAATTGC 59.468 40.000 5.05 0.00 44.41 3.56
1705 8314 6.105333 GCTATGAGTCCCTGAATATAAGCAG 58.895 44.000 0.00 0.00 0.00 4.24
1744 8353 8.521176 GGAAGAGATGTGTAGTTCAAGTAGTAA 58.479 37.037 0.00 0.00 0.00 2.24
1754 8363 9.220767 GTTAGAAAATGGAAGAGATGTGTAGTT 57.779 33.333 0.00 0.00 0.00 2.24
1821 8433 2.328819 AGCAGGCTAGAGCAATTCTG 57.671 50.000 3.54 2.80 44.36 3.02
1822 8434 2.223923 CGTAGCAGGCTAGAGCAATTCT 60.224 50.000 0.32 0.00 44.36 2.40
1826 8438 1.816537 CCGTAGCAGGCTAGAGCAA 59.183 57.895 0.32 0.00 44.36 3.91
1886 8519 0.744414 CGGGATGAAGTCAATGGCGT 60.744 55.000 0.00 0.00 0.00 5.68
1900 8533 1.292223 CGATCAATACGCCCGGGAT 59.708 57.895 29.31 14.70 0.00 3.85
1911 8544 1.935873 CGGACATGAGCAACGATCAAT 59.064 47.619 0.00 0.00 29.85 2.57
1912 8545 1.358877 CGGACATGAGCAACGATCAA 58.641 50.000 0.00 0.00 29.85 2.57
1913 8546 0.460109 CCGGACATGAGCAACGATCA 60.460 55.000 0.00 0.00 30.86 2.92
1914 8547 1.154205 CCCGGACATGAGCAACGATC 61.154 60.000 0.73 0.00 0.00 3.69
1944 8577 1.359459 GGCACGGGAAGTCGTCAATC 61.359 60.000 0.00 0.00 41.86 2.67
2016 8649 4.007644 TGGTCGACTGGCTGCAGG 62.008 66.667 17.12 0.73 0.00 4.85
2130 8763 3.851845 TTCACCGGCCTCGTCAACG 62.852 63.158 0.00 0.00 41.45 4.10
2131 8764 2.027625 CTTCACCGGCCTCGTCAAC 61.028 63.158 0.00 0.00 33.95 3.18
2132 8765 1.180456 TACTTCACCGGCCTCGTCAA 61.180 55.000 0.00 0.00 33.95 3.18
2133 8766 1.604308 TACTTCACCGGCCTCGTCA 60.604 57.895 0.00 0.00 33.95 4.35
2134 8767 1.153881 GTACTTCACCGGCCTCGTC 60.154 63.158 0.00 0.00 33.95 4.20
2135 8768 1.255667 ATGTACTTCACCGGCCTCGT 61.256 55.000 0.00 0.00 33.95 4.18
2136 8769 0.108329 AATGTACTTCACCGGCCTCG 60.108 55.000 0.00 0.00 0.00 4.63
2137 8770 2.109425 AAATGTACTTCACCGGCCTC 57.891 50.000 0.00 0.00 0.00 4.70
2446 9082 5.629020 TGTCTTCGAAAAATGCTAAACATGC 59.371 36.000 0.00 0.00 39.60 4.06
2455 9091 9.669353 AATGTATATCATGTCTTCGAAAAATGC 57.331 29.630 0.00 0.00 36.81 3.56


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

AutoCloner maintained by Alex Coulton.