Multiple sequence alignment - TraesCS3A01G003200

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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 TraesCS3A01G003200 chr3A 100.000 2414 0 0 1 2414 1779402 1781815 0.000000e+00 4458.0
1 TraesCS3A01G003200 chr3A 80.863 742 104 21 971 1684 1789558 1790289 1.260000e-152 549.0
2 TraesCS3A01G003200 chr3A 75.923 731 130 24 858 1560 1769448 1770160 1.380000e-87 333.0
3 TraesCS3A01G003200 chr3A 77.542 236 43 8 1007 1238 1859292 1859521 1.510000e-27 134.0
4 TraesCS3A01G003200 chr3A 84.314 102 11 4 176 275 42197633 42197731 7.100000e-16 95.3
5 TraesCS3A01G003200 chr3B 83.076 1684 168 55 173 1822 4460202 4458602 0.000000e+00 1423.0
6 TraesCS3A01G003200 chr3B 81.368 848 125 20 858 1684 4434248 4433413 0.000000e+00 660.0
7 TraesCS3A01G003200 chr3B 80.341 763 115 21 850 1602 4469435 4468698 1.630000e-151 545.0
8 TraesCS3A01G003200 chr3B 86.164 159 17 4 1 157 4460402 4460247 1.480000e-37 167.0
9 TraesCS3A01G003200 chr3B 79.468 263 32 10 883 1133 4476146 4475894 1.480000e-37 167.0
10 TraesCS3A01G003200 chr3D 88.783 1052 91 9 849 1873 2256796 2255745 0.000000e+00 1264.0
11 TraesCS3A01G003200 chr3D 90.892 538 44 3 1880 2414 2255481 2254946 0.000000e+00 717.0
12 TraesCS3A01G003200 chr3D 82.235 850 115 23 858 1684 2243495 2242659 0.000000e+00 701.0
13 TraesCS3A01G003200 chr3D 79.504 927 136 28 949 1840 2239563 2238656 5.710000e-171 610.0
14 TraesCS3A01G003200 chr3D 77.453 581 105 16 922 1488 2201888 2201320 8.320000e-85 324.0
15 TraesCS3A01G003200 chr3D 77.011 522 89 16 927 1432 2259194 2258688 1.100000e-68 270.0
16 TraesCS3A01G003200 chr3D 78.367 245 43 7 1007 1247 2201195 2200957 1.500000e-32 150.0
17 TraesCS3A01G003200 chr7B 75.087 289 64 7 179 463 477778061 477777777 7.010000e-26 128.0
18 TraesCS3A01G003200 chr6D 82.353 136 21 3 179 313 62207866 62207733 5.450000e-22 115.0
19 TraesCS3A01G003200 chr5B 78.616 159 32 2 231 388 677530930 677530773 1.180000e-18 104.0
20 TraesCS3A01G003200 chr5B 76.023 171 41 0 175 345 662643891 662643721 3.310000e-14 89.8
21 TraesCS3A01G003200 chr7D 91.837 49 4 0 423 471 611981875 611981923 4.310000e-08 69.4


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 TraesCS3A01G003200 chr3A 1779402 1781815 2413 False 4458.000000 4458 100.0000 1 2414 1 chr3A.!!$F2 2413
1 TraesCS3A01G003200 chr3A 1789558 1790289 731 False 549.000000 549 80.8630 971 1684 1 chr3A.!!$F3 713
2 TraesCS3A01G003200 chr3A 1769448 1770160 712 False 333.000000 333 75.9230 858 1560 1 chr3A.!!$F1 702
3 TraesCS3A01G003200 chr3B 4458602 4460402 1800 True 795.000000 1423 84.6200 1 1822 2 chr3B.!!$R4 1821
4 TraesCS3A01G003200 chr3B 4433413 4434248 835 True 660.000000 660 81.3680 858 1684 1 chr3B.!!$R1 826
5 TraesCS3A01G003200 chr3B 4468698 4469435 737 True 545.000000 545 80.3410 850 1602 1 chr3B.!!$R2 752
6 TraesCS3A01G003200 chr3D 2254946 2259194 4248 True 750.333333 1264 85.5620 849 2414 3 chr3D.!!$R3 1565
7 TraesCS3A01G003200 chr3D 2238656 2243495 4839 True 655.500000 701 80.8695 858 1840 2 chr3D.!!$R2 982
8 TraesCS3A01G003200 chr3D 2200957 2201888 931 True 237.000000 324 77.9100 922 1488 2 chr3D.!!$R1 566

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
596 639 0.034059 AAGGGCACAAGACAGACGAG 59.966 55.0 0.0 0.0 0.0 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1493 3984 0.24912 CAGAACCAGGTCACGGCATA 59.751 55.0 0.0 0.0 0.0 3.14 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
32 33 7.629157 TGTTCAAGATAGTCCATGGAATTGTA 58.371 34.615 21.50 8.33 0.00 2.41
39 40 5.999205 AGTCCATGGAATTGTATTTTGCA 57.001 34.783 18.20 0.00 0.00 4.08
41 42 5.105228 AGTCCATGGAATTGTATTTTGCAGG 60.105 40.000 18.20 0.00 0.00 4.85
43 44 5.662208 TCCATGGAATTGTATTTTGCAGGAT 59.338 36.000 13.46 0.00 29.22 3.24
44 45 6.156602 TCCATGGAATTGTATTTTGCAGGATT 59.843 34.615 13.46 0.00 29.22 3.01
45 46 6.824704 CCATGGAATTGTATTTTGCAGGATTT 59.175 34.615 5.56 0.00 29.22 2.17
81 82 6.139048 TCATCATTTGTCATGGCAATACAG 57.861 37.500 14.57 4.52 0.00 2.74
88 89 4.002982 TGTCATGGCAATACAGAGAACAC 58.997 43.478 0.00 0.00 0.00 3.32
91 92 3.500448 TGGCAATACAGAGAACACCAA 57.500 42.857 0.00 0.00 0.00 3.67
96 97 5.472137 GGCAATACAGAGAACACCAAAAGTA 59.528 40.000 0.00 0.00 0.00 2.24
97 98 6.016610 GGCAATACAGAGAACACCAAAAGTAA 60.017 38.462 0.00 0.00 0.00 2.24
134 135 4.597004 AGGTTCGTAGACCATCTAGTGAA 58.403 43.478 7.82 0.00 34.32 3.18
146 147 7.119846 AGACCATCTAGTGAAAAATACAAGCAC 59.880 37.037 0.00 0.00 0.00 4.40
153 154 3.888323 TGAAAAATACAAGCACTGGAGCA 59.112 39.130 0.00 0.00 36.85 4.26
156 157 3.923017 AATACAAGCACTGGAGCAAAC 57.077 42.857 0.00 0.00 36.85 2.93
160 161 0.465460 AAGCACTGGAGCAAACCGAA 60.465 50.000 0.00 0.00 36.85 4.30
177 208 1.722464 CGAAGGCGTGTCGACAAATTA 59.278 47.619 21.95 0.00 41.02 1.40
216 247 1.609783 GTCATGCTAAGGCCCCACT 59.390 57.895 0.00 0.00 37.74 4.00
221 252 0.042731 TGCTAAGGCCCCACTAGACT 59.957 55.000 0.00 0.00 37.74 3.24
228 259 0.747852 GCCCCACTAGACTAGCAGAC 59.252 60.000 9.52 0.00 0.00 3.51
229 260 1.025812 CCCCACTAGACTAGCAGACG 58.974 60.000 9.52 0.00 0.00 4.18
239 270 3.948473 AGACTAGCAGACGAGAATAGCAA 59.052 43.478 0.00 0.00 0.00 3.91
243 274 0.924090 CAGACGAGAATAGCAACCGC 59.076 55.000 0.00 0.00 38.99 5.68
244 275 0.179108 AGACGAGAATAGCAACCGCC 60.179 55.000 0.00 0.00 39.83 6.13
245 276 0.459585 GACGAGAATAGCAACCGCCA 60.460 55.000 0.00 0.00 39.83 5.69
261 292 1.857217 CGCCATCGATGAAGAGAAGTG 59.143 52.381 26.86 10.49 38.10 3.16
304 335 4.552355 TGTACACACATGAGTAAAGACGG 58.448 43.478 0.00 0.00 0.00 4.79
307 338 2.661675 CACACATGAGTAAAGACGGACG 59.338 50.000 0.00 0.00 0.00 4.79
312 343 3.549299 TGAGTAAAGACGGACGAAGAC 57.451 47.619 0.00 0.00 0.00 3.01
315 346 1.984297 GTAAAGACGGACGAAGACTGC 59.016 52.381 0.00 0.00 30.18 4.40
316 347 0.387929 AAAGACGGACGAAGACTGCA 59.612 50.000 0.00 0.00 30.18 4.41
341 372 2.330216 AGGGGATCCGATAAAGACCAG 58.670 52.381 5.45 0.00 38.33 4.00
344 375 2.548920 GGGATCCGATAAAGACCAGCAG 60.549 54.545 5.45 0.00 0.00 4.24
369 400 3.638627 ACTGAATCATGTGAGATCCGCTA 59.361 43.478 0.00 0.00 0.00 4.26
375 406 1.300481 TGTGAGATCCGCTAGAGACG 58.700 55.000 0.00 0.00 0.00 4.18
398 429 1.284982 CTCCACACGCTCTTCAACGG 61.285 60.000 0.00 0.00 0.00 4.44
399 430 1.594293 CCACACGCTCTTCAACGGT 60.594 57.895 0.00 0.00 0.00 4.83
400 431 1.564622 CACACGCTCTTCAACGGTG 59.435 57.895 0.00 0.00 0.00 4.94
401 432 1.143183 ACACGCTCTTCAACGGTGT 59.857 52.632 0.00 0.00 0.00 4.16
402 433 0.461339 ACACGCTCTTCAACGGTGTT 60.461 50.000 0.00 0.00 0.00 3.32
407 440 3.192001 ACGCTCTTCAACGGTGTTAGATA 59.808 43.478 0.00 0.00 0.00 1.98
429 462 2.642254 CGCCTGTGGACGGGTTAGA 61.642 63.158 6.51 0.00 44.34 2.10
434 467 2.681064 TGGACGGGTTAGACGGGG 60.681 66.667 0.00 0.00 35.23 5.73
437 470 1.379044 GACGGGTTAGACGGGGAGA 60.379 63.158 0.00 0.00 35.23 3.71
439 472 0.325016 ACGGGTTAGACGGGGAGAAT 60.325 55.000 0.00 0.00 35.23 2.40
440 473 0.828677 CGGGTTAGACGGGGAGAATT 59.171 55.000 0.00 0.00 0.00 2.17
441 474 1.208776 CGGGTTAGACGGGGAGAATTT 59.791 52.381 0.00 0.00 0.00 1.82
442 475 2.355412 CGGGTTAGACGGGGAGAATTTT 60.355 50.000 0.00 0.00 0.00 1.82
444 477 4.443881 CGGGTTAGACGGGGAGAATTTTAT 60.444 45.833 0.00 0.00 0.00 1.40
445 478 5.443283 GGGTTAGACGGGGAGAATTTTATT 58.557 41.667 0.00 0.00 0.00 1.40
446 479 5.889853 GGGTTAGACGGGGAGAATTTTATTT 59.110 40.000 0.00 0.00 0.00 1.40
447 480 6.039047 GGGTTAGACGGGGAGAATTTTATTTC 59.961 42.308 0.00 0.00 0.00 2.17
448 481 6.600427 GGTTAGACGGGGAGAATTTTATTTCA 59.400 38.462 0.00 0.00 0.00 2.69
449 482 7.284716 GGTTAGACGGGGAGAATTTTATTTCAT 59.715 37.037 0.00 0.00 0.00 2.57
450 483 6.944234 AGACGGGGAGAATTTTATTTCATC 57.056 37.500 0.00 0.00 0.00 2.92
451 484 6.663734 AGACGGGGAGAATTTTATTTCATCT 58.336 36.000 0.00 0.00 0.00 2.90
452 485 7.119387 AGACGGGGAGAATTTTATTTCATCTT 58.881 34.615 0.00 0.00 0.00 2.40
453 486 7.283354 AGACGGGGAGAATTTTATTTCATCTTC 59.717 37.037 0.00 0.00 0.00 2.87
454 487 6.889722 ACGGGGAGAATTTTATTTCATCTTCA 59.110 34.615 0.00 0.00 0.00 3.02
455 488 7.396055 ACGGGGAGAATTTTATTTCATCTTCAA 59.604 33.333 0.00 0.00 0.00 2.69
456 489 7.917505 CGGGGAGAATTTTATTTCATCTTCAAG 59.082 37.037 0.00 0.00 0.00 3.02
457 490 8.200120 GGGGAGAATTTTATTTCATCTTCAAGG 58.800 37.037 0.00 0.00 0.00 3.61
458 491 8.971073 GGGAGAATTTTATTTCATCTTCAAGGA 58.029 33.333 0.00 0.00 0.00 3.36
460 493 9.513727 GAGAATTTTATTTCATCTTCAAGGAGC 57.486 33.333 0.00 0.00 0.00 4.70
461 494 8.473219 AGAATTTTATTTCATCTTCAAGGAGCC 58.527 33.333 0.00 0.00 0.00 4.70
462 495 5.818136 TTTATTTCATCTTCAAGGAGCCG 57.182 39.130 0.00 0.00 0.00 5.52
463 496 1.453155 TTTCATCTTCAAGGAGCCGC 58.547 50.000 0.00 0.00 0.00 6.53
464 497 0.615331 TTCATCTTCAAGGAGCCGCT 59.385 50.000 0.00 0.00 0.00 5.52
465 498 0.107993 TCATCTTCAAGGAGCCGCTG 60.108 55.000 0.00 0.00 0.00 5.18
472 505 3.984193 AAGGAGCCGCTGCCATCAC 62.984 63.158 8.47 0.00 38.69 3.06
484 517 1.421268 TGCCATCACACCTTTCTGAGT 59.579 47.619 0.00 0.00 0.00 3.41
495 528 6.263168 CACACCTTTCTGAGTAGGACAAAAAT 59.737 38.462 13.02 0.00 35.45 1.82
509 542 3.992427 GACAAAAATCCTACTCGAACGGT 59.008 43.478 0.00 0.00 0.00 4.83
510 543 5.138125 ACAAAAATCCTACTCGAACGGTA 57.862 39.130 0.00 0.00 0.00 4.02
511 544 5.540911 ACAAAAATCCTACTCGAACGGTAA 58.459 37.500 0.00 0.00 0.00 2.85
514 547 6.716898 AAAATCCTACTCGAACGGTAAAAG 57.283 37.500 0.00 0.00 0.00 2.27
519 552 6.279882 TCCTACTCGAACGGTAAAAGAAAAA 58.720 36.000 0.00 0.00 0.00 1.94
540 583 6.510879 AAAACATCTAAAAATCCGTCTCCC 57.489 37.500 0.00 0.00 0.00 4.30
541 584 3.793559 ACATCTAAAAATCCGTCTCCCG 58.206 45.455 0.00 0.00 0.00 5.14
559 602 2.045536 GCAAGGGCTGAGGTCCAG 60.046 66.667 0.00 0.00 45.67 3.86
571 614 4.129737 GTCCAGCGCGCCTCTGTA 62.130 66.667 30.33 3.16 0.00 2.74
572 615 3.826754 TCCAGCGCGCCTCTGTAG 61.827 66.667 30.33 8.09 0.00 2.74
579 622 0.872021 CGCGCCTCTGTAGCCTTAAG 60.872 60.000 0.00 0.00 0.00 1.85
580 623 0.530870 GCGCCTCTGTAGCCTTAAGG 60.531 60.000 17.81 17.81 38.53 2.69
581 624 0.105039 CGCCTCTGTAGCCTTAAGGG 59.895 60.000 23.06 6.02 35.18 3.95
596 639 0.034059 AAGGGCACAAGACAGACGAG 59.966 55.000 0.00 0.00 0.00 4.18
599 642 2.375766 GCACAAGACAGACGAGGCG 61.376 63.158 0.00 0.00 0.00 5.52
603 646 1.604023 AAGACAGACGAGGCGGACT 60.604 57.895 0.00 0.00 0.00 3.85
617 660 3.005539 GACTGGCAGGGGAGCTGA 61.006 66.667 20.34 0.00 34.17 4.26
618 661 3.322318 GACTGGCAGGGGAGCTGAC 62.322 68.421 20.34 0.00 34.17 3.51
648 691 1.429148 CGAAACCATAGCCGCCTGTC 61.429 60.000 0.00 0.00 0.00 3.51
649 692 1.077716 AAACCATAGCCGCCTGTCC 60.078 57.895 0.00 0.00 0.00 4.02
698 741 2.981859 AAAGACCGATAACAGCCGAT 57.018 45.000 0.00 0.00 0.00 4.18
714 757 1.280982 CGATCCATTGACAGTCCACG 58.719 55.000 0.00 0.00 0.00 4.94
726 769 4.154015 TGACAGTCCACGCAATTAATGAAG 59.846 41.667 0.00 0.00 0.00 3.02
751 794 4.982295 GGTGAAGCCAACTTGTAACATTTC 59.018 41.667 0.00 0.00 35.82 2.17
755 798 8.082242 GTGAAGCCAACTTGTAACATTTCTTAT 58.918 33.333 0.00 0.00 35.82 1.73
756 799 8.637986 TGAAGCCAACTTGTAACATTTCTTATT 58.362 29.630 0.00 0.00 35.82 1.40
759 802 8.244113 AGCCAACTTGTAACATTTCTTATTAGC 58.756 33.333 0.00 0.00 0.00 3.09
760 803 7.218204 GCCAACTTGTAACATTTCTTATTAGCG 59.782 37.037 0.00 0.00 0.00 4.26
761 804 8.447833 CCAACTTGTAACATTTCTTATTAGCGA 58.552 33.333 0.00 0.00 0.00 4.93
762 805 9.820229 CAACTTGTAACATTTCTTATTAGCGAA 57.180 29.630 0.00 0.00 0.00 4.70
786 829 7.524717 AAAAATTGTACTAACATGGAGCAGT 57.475 32.000 0.00 0.00 34.97 4.40
795 838 9.158233 GTACTAACATGGAGCAGTTTACATTAA 57.842 33.333 0.00 0.00 0.00 1.40
796 839 8.807948 ACTAACATGGAGCAGTTTACATTAAT 57.192 30.769 0.00 0.00 0.00 1.40
797 840 9.243105 ACTAACATGGAGCAGTTTACATTAATT 57.757 29.630 0.00 0.00 0.00 1.40
800 843 9.461312 AACATGGAGCAGTTTACATTAATTAGA 57.539 29.630 0.00 0.00 0.00 2.10
823 866 8.967664 AGATCTACGTACTCAAGTTTAGATCT 57.032 34.615 20.13 20.13 40.70 2.75
826 869 9.835389 ATCTACGTACTCAAGTTTAGATCTACT 57.165 33.333 0.67 0.00 0.00 2.57
827 870 9.311916 TCTACGTACTCAAGTTTAGATCTACTC 57.688 37.037 0.67 0.00 0.00 2.59
828 871 7.319142 ACGTACTCAAGTTTAGATCTACTCC 57.681 40.000 0.67 0.00 0.00 3.85
829 872 6.318396 ACGTACTCAAGTTTAGATCTACTCCC 59.682 42.308 0.67 0.00 0.00 4.30
830 873 6.543100 CGTACTCAAGTTTAGATCTACTCCCT 59.457 42.308 0.67 0.00 0.00 4.20
831 874 7.254863 CGTACTCAAGTTTAGATCTACTCCCTC 60.255 44.444 0.67 0.00 0.00 4.30
832 875 5.894964 ACTCAAGTTTAGATCTACTCCCTCC 59.105 44.000 0.67 0.00 0.00 4.30
833 876 4.888239 TCAAGTTTAGATCTACTCCCTCCG 59.112 45.833 0.67 0.00 0.00 4.63
834 877 4.523168 AGTTTAGATCTACTCCCTCCGT 57.477 45.455 0.67 0.00 0.00 4.69
835 878 4.463070 AGTTTAGATCTACTCCCTCCGTC 58.537 47.826 0.67 0.00 0.00 4.79
836 879 3.505480 TTAGATCTACTCCCTCCGTCC 57.495 52.381 0.67 0.00 0.00 4.79
837 880 0.108963 AGATCTACTCCCTCCGTCCG 59.891 60.000 0.00 0.00 0.00 4.79
838 881 0.890090 GATCTACTCCCTCCGTCCGG 60.890 65.000 0.00 0.00 0.00 5.14
839 882 1.643475 ATCTACTCCCTCCGTCCGGT 61.643 60.000 0.00 0.00 36.47 5.28
840 883 2.044650 TACTCCCTCCGTCCGGTG 60.045 66.667 0.00 3.10 36.47 4.94
841 884 2.547640 CTACTCCCTCCGTCCGGTGA 62.548 65.000 0.00 0.00 36.47 4.02
842 885 2.826777 TACTCCCTCCGTCCGGTGAC 62.827 65.000 0.00 0.00 38.18 3.67
843 886 4.289101 TCCCTCCGTCCGGTGACA 62.289 66.667 0.00 0.00 41.85 3.58
844 887 3.075005 CCCTCCGTCCGGTGACAT 61.075 66.667 0.00 0.00 41.85 3.06
845 888 2.494918 CCTCCGTCCGGTGACATC 59.505 66.667 0.00 0.00 41.85 3.06
846 889 2.348104 CCTCCGTCCGGTGACATCA 61.348 63.158 0.00 0.00 41.85 3.07
847 890 1.589630 CTCCGTCCGGTGACATCAA 59.410 57.895 0.00 0.00 41.85 2.57
947 3386 6.865834 ATTCACATCTCTTACCTTGAGACT 57.134 37.500 0.00 0.00 42.46 3.24
1069 3539 1.208165 GGTCATGTCTTCCCTGGGGT 61.208 60.000 14.00 0.00 36.47 4.95
1081 3551 2.122989 TGGGGTATCCGAGGCCTC 60.123 66.667 23.79 23.79 38.76 4.70
1099 3573 0.173481 TCTATGCAGCGACTGTGACC 59.827 55.000 8.32 0.00 33.43 4.02
1109 3583 2.672651 CTGTGACCCGCAATGCCA 60.673 61.111 0.00 0.00 0.00 4.92
1205 3679 2.096713 GCTGCCGTAGAAATATCTTGCG 60.097 50.000 0.00 0.00 37.10 4.85
1214 3688 1.683943 AATATCTTGCGGCAGTGCAT 58.316 45.000 18.61 2.85 45.78 3.96
1268 3742 1.024046 TGCACTTGTGACTGCAACGT 61.024 50.000 4.79 0.00 40.45 3.99
1426 3905 4.348168 ACCATGCCTAGGTAGGAATAACAG 59.652 45.833 13.53 0.00 46.63 3.16
1493 3984 4.092383 GTGGTCGTGCGTAGATTTTTGTAT 59.908 41.667 0.00 0.00 0.00 2.29
1514 4005 1.116536 TGCCGTGACCTGGTTCTGTA 61.117 55.000 0.00 0.00 0.00 2.74
1577 4073 3.730061 CGTTTCAGCTGAGGATTTGCATC 60.730 47.826 17.43 0.00 0.00 3.91
1660 4170 5.153513 CGGTGTGAAATTATGGTTGTTCAG 58.846 41.667 0.00 0.00 30.94 3.02
1692 8075 3.209410 CCATAGAGCTTGTCCATCCAAC 58.791 50.000 0.00 0.00 0.00 3.77
1700 8083 3.004106 GCTTGTCCATCCAACTATGCATC 59.996 47.826 0.19 0.00 0.00 3.91
1720 8103 2.124903 CTGTGCGTCGTTGTAGACTTT 58.875 47.619 0.00 0.00 38.90 2.66
1721 8104 3.003585 TCTGTGCGTCGTTGTAGACTTTA 59.996 43.478 0.00 0.00 38.90 1.85
1731 8114 7.008086 CGTCGTTGTAGACTTTAAGTATCCAAG 59.992 40.741 0.00 0.00 38.90 3.61
1789 8172 6.423905 CCGTTTACTCTCTTTCATTGTTGAGA 59.576 38.462 0.00 0.00 34.80 3.27
1852 8236 4.247267 AGAATGCTTTCAACCACACATG 57.753 40.909 14.15 0.00 34.08 3.21
1853 8237 3.638160 AGAATGCTTTCAACCACACATGT 59.362 39.130 14.15 0.00 34.08 3.21
1902 8543 2.421424 GGATTAGCCACTTCAACAGCAG 59.579 50.000 0.00 0.00 36.34 4.24
1925 8566 0.445436 GCTTGTGCTCGAACATCCTG 59.555 55.000 0.00 0.00 36.03 3.86
1958 8599 4.096682 AGCGATGTGTACTCTCTCTTTACC 59.903 45.833 0.00 0.00 0.00 2.85
1963 8604 7.012515 CGATGTGTACTCTCTCTTTACCTGTAT 59.987 40.741 0.00 0.00 0.00 2.29
1967 8608 7.122353 GTGTACTCTCTCTTTACCTGTATTCCA 59.878 40.741 0.00 0.00 0.00 3.53
2001 8642 7.373617 TGGATATTCTACTCCATGTTAAGCA 57.626 36.000 0.00 0.00 36.63 3.91
2002 8643 7.801104 TGGATATTCTACTCCATGTTAAGCAA 58.199 34.615 0.00 0.00 36.63 3.91
2010 8651 4.393062 ACTCCATGTTAAGCAACGATTCAG 59.607 41.667 0.00 0.00 37.48 3.02
2011 8652 4.323417 TCCATGTTAAGCAACGATTCAGT 58.677 39.130 0.00 0.00 37.48 3.41
2019 8660 8.346300 TGTTAAGCAACGATTCAGTTCAATTTA 58.654 29.630 0.00 0.00 37.48 1.40
2049 8690 9.270640 AGATTAATCTGCTGCTATCTAGTTTTG 57.729 33.333 17.26 0.00 35.42 2.44
2068 8709 3.819564 TGTACAGACAGCCATGGATAC 57.180 47.619 18.40 7.12 0.00 2.24
2098 8739 5.359009 CCTCATAACTCGTTAGGGACTGTAA 59.641 44.000 2.19 0.00 41.52 2.41
2111 8752 3.383825 GGGACTGTAAGGTGATGTCGTAT 59.616 47.826 0.00 0.00 39.30 3.06
2115 8756 4.041740 TGTAAGGTGATGTCGTATCTGC 57.958 45.455 4.56 0.00 0.00 4.26
2210 8851 8.856490 ATGTTTTAACTTTGATGTTCTCACAC 57.144 30.769 0.00 0.00 35.03 3.82
2212 8853 7.753132 TGTTTTAACTTTGATGTTCTCACACAC 59.247 33.333 0.00 0.00 35.03 3.82
2219 8860 0.973632 TGTTCTCACACACCGGCTAT 59.026 50.000 0.00 0.00 0.00 2.97
2222 8863 0.817654 TCTCACACACCGGCTATCAG 59.182 55.000 0.00 0.00 0.00 2.90
2250 8891 1.673665 CCTCCACCTGCAGTGCTTC 60.674 63.158 17.60 0.00 45.83 3.86
2265 8906 1.881973 TGCTTCACTGGCATTGAGAAC 59.118 47.619 7.62 2.91 34.56 3.01
2272 8913 0.874390 TGGCATTGAGAACGAAGTGC 59.126 50.000 0.00 0.00 45.00 4.40
2273 8914 0.169009 GGCATTGAGAACGAAGTGCC 59.831 55.000 0.00 0.00 45.00 5.01
2276 8917 2.146342 CATTGAGAACGAAGTGCCTGT 58.854 47.619 0.00 0.00 45.00 4.00
2278 8919 3.678056 TTGAGAACGAAGTGCCTGTAT 57.322 42.857 0.00 0.00 45.00 2.29
2280 8921 2.826128 TGAGAACGAAGTGCCTGTATCT 59.174 45.455 0.00 0.00 45.00 1.98
2282 8923 4.246458 GAGAACGAAGTGCCTGTATCTTT 58.754 43.478 0.00 0.00 45.00 2.52
2283 8924 4.642429 AGAACGAAGTGCCTGTATCTTTT 58.358 39.130 0.00 0.00 45.00 2.27
2284 8925 5.063880 AGAACGAAGTGCCTGTATCTTTTT 58.936 37.500 0.00 0.00 45.00 1.94
2328 8970 2.037251 TGGCTAGGACAGTTGAGTTCAC 59.963 50.000 0.00 0.00 0.00 3.18
2343 8985 9.683069 AGTTGAGTTCACATTTCATATTTGTTC 57.317 29.630 0.00 0.00 0.00 3.18
2373 9015 8.402798 TGGAAGTTAAGATATTTGCAGTTGAA 57.597 30.769 0.00 0.00 0.00 2.69
2386 9028 2.226674 GCAGTTGAAAGTAGGCTTGGTC 59.773 50.000 0.00 0.00 34.71 4.02
2408 9050 6.531948 GGTCGGCATATGTGATAGATTTAGTC 59.468 42.308 4.29 0.00 0.00 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 50 7.285858 TGCCATGACAAATGATGAATAGATCAA 59.714 33.333 0.00 0.00 42.54 2.57
50 51 6.773685 TGCCATGACAAATGATGAATAGATCA 59.226 34.615 0.00 0.00 43.67 2.92
51 52 7.210718 TGCCATGACAAATGATGAATAGATC 57.789 36.000 0.00 0.00 0.00 2.75
58 59 5.887035 TCTGTATTGCCATGACAAATGATGA 59.113 36.000 0.00 0.00 32.27 2.92
65 66 4.455533 GTGTTCTCTGTATTGCCATGACAA 59.544 41.667 0.00 0.00 0.00 3.18
73 74 5.438761 ACTTTTGGTGTTCTCTGTATTGC 57.561 39.130 0.00 0.00 0.00 3.56
111 112 4.197750 TCACTAGATGGTCTACGAACCTC 58.802 47.826 0.00 0.00 40.20 3.85
116 117 8.058667 TGTATTTTTCACTAGATGGTCTACGA 57.941 34.615 0.00 0.00 0.00 3.43
134 135 4.501400 GGTTTGCTCCAGTGCTTGTATTTT 60.501 41.667 0.00 0.00 0.00 1.82
146 147 2.680913 CGCCTTCGGTTTGCTCCAG 61.681 63.158 0.00 0.00 0.00 3.86
153 154 1.952635 GTCGACACGCCTTCGGTTT 60.953 57.895 11.55 0.00 40.69 3.27
156 157 1.289109 ATTTGTCGACACGCCTTCGG 61.289 55.000 19.90 0.00 40.69 4.30
160 161 4.119442 ACTATAATTTGTCGACACGCCT 57.881 40.909 19.90 5.81 0.00 5.52
162 163 6.988109 ATCTACTATAATTTGTCGACACGC 57.012 37.500 19.90 0.00 0.00 5.34
163 164 9.315680 GACTATCTACTATAATTTGTCGACACG 57.684 37.037 19.90 3.51 0.00 4.49
164 165 9.315680 CGACTATCTACTATAATTTGTCGACAC 57.684 37.037 19.90 0.00 44.72 3.67
165 166 9.264719 TCGACTATCTACTATAATTTGTCGACA 57.735 33.333 15.76 15.76 45.24 4.35
196 227 1.992834 TGGGGCCTTAGCATGACGA 60.993 57.895 0.84 0.00 42.56 4.20
199 230 1.131638 CTAGTGGGGCCTTAGCATGA 58.868 55.000 0.84 0.00 42.56 3.07
201 232 1.132500 GTCTAGTGGGGCCTTAGCAT 58.868 55.000 0.84 0.00 42.56 3.79
204 235 1.964933 GCTAGTCTAGTGGGGCCTTAG 59.035 57.143 0.84 3.73 0.00 2.18
205 236 1.289830 TGCTAGTCTAGTGGGGCCTTA 59.710 52.381 0.84 0.00 0.00 2.69
208 239 0.397254 TCTGCTAGTCTAGTGGGGCC 60.397 60.000 8.68 0.00 0.00 5.80
216 247 4.704965 TGCTATTCTCGTCTGCTAGTCTA 58.295 43.478 0.00 0.00 0.00 2.59
221 252 2.223502 CGGTTGCTATTCTCGTCTGCTA 60.224 50.000 0.00 0.00 0.00 3.49
228 259 0.861837 GATGGCGGTTGCTATTCTCG 59.138 55.000 0.00 0.00 43.04 4.04
229 260 0.861837 CGATGGCGGTTGCTATTCTC 59.138 55.000 0.00 0.00 43.04 2.87
239 270 0.824109 TTCTCTTCATCGATGGCGGT 59.176 50.000 24.61 0.00 38.28 5.68
243 274 5.506686 TCTACACTTCTCTTCATCGATGG 57.493 43.478 24.61 10.27 0.00 3.51
244 275 4.975502 GCTCTACACTTCTCTTCATCGATG 59.024 45.833 19.61 19.61 0.00 3.84
245 276 4.260990 CGCTCTACACTTCTCTTCATCGAT 60.261 45.833 0.00 0.00 0.00 3.59
289 320 3.504906 TCTTCGTCCGTCTTTACTCATGT 59.495 43.478 0.00 0.00 0.00 3.21
302 333 0.389817 TTGGATGCAGTCTTCGTCCG 60.390 55.000 6.30 0.00 41.42 4.79
304 335 1.363744 CCTTGGATGCAGTCTTCGTC 58.636 55.000 0.00 0.00 0.00 4.20
307 338 0.620556 TCCCCTTGGATGCAGTCTTC 59.379 55.000 0.00 0.00 35.03 2.87
329 360 2.926200 CAGTCACTGCTGGTCTTTATCG 59.074 50.000 0.00 0.00 33.11 2.92
333 364 3.181451 TGATTCAGTCACTGCTGGTCTTT 60.181 43.478 0.00 0.00 37.12 2.52
341 372 3.593096 TCTCACATGATTCAGTCACTGC 58.407 45.455 0.00 0.00 40.28 4.40
344 375 3.801050 CGGATCTCACATGATTCAGTCAC 59.199 47.826 0.00 0.00 40.28 3.67
369 400 2.336478 CGTGTGGAGGAGCGTCTCT 61.336 63.158 8.77 0.00 34.39 3.10
375 406 1.446966 GAAGAGCGTGTGGAGGAGC 60.447 63.158 0.00 0.00 0.00 4.70
399 430 1.206132 CCACAGGCGGTGTATCTAACA 59.794 52.381 16.41 0.00 46.44 2.41
400 431 1.479323 TCCACAGGCGGTGTATCTAAC 59.521 52.381 16.41 0.00 46.44 2.34
401 432 1.479323 GTCCACAGGCGGTGTATCTAA 59.521 52.381 16.41 0.00 46.44 2.10
402 433 1.108776 GTCCACAGGCGGTGTATCTA 58.891 55.000 16.41 0.00 46.44 1.98
412 445 1.079336 GTCTAACCCGTCCACAGGC 60.079 63.158 0.00 0.00 0.00 4.85
416 449 2.575461 CCCGTCTAACCCGTCCAC 59.425 66.667 0.00 0.00 0.00 4.02
417 450 2.681064 CCCCGTCTAACCCGTCCA 60.681 66.667 0.00 0.00 0.00 4.02
418 451 2.362889 TCCCCGTCTAACCCGTCC 60.363 66.667 0.00 0.00 0.00 4.79
420 453 0.325016 ATTCTCCCCGTCTAACCCGT 60.325 55.000 0.00 0.00 0.00 5.28
429 462 6.889722 TGAAGATGAAATAAAATTCTCCCCGT 59.110 34.615 0.00 0.00 0.00 5.28
434 467 9.513727 GCTCCTTGAAGATGAAATAAAATTCTC 57.486 33.333 0.00 0.00 0.00 2.87
437 470 7.260603 CGGCTCCTTGAAGATGAAATAAAATT 58.739 34.615 0.00 0.00 0.00 1.82
439 472 5.393027 GCGGCTCCTTGAAGATGAAATAAAA 60.393 40.000 0.00 0.00 0.00 1.52
440 473 4.096382 GCGGCTCCTTGAAGATGAAATAAA 59.904 41.667 0.00 0.00 0.00 1.40
441 474 3.627577 GCGGCTCCTTGAAGATGAAATAA 59.372 43.478 0.00 0.00 0.00 1.40
442 475 3.118261 AGCGGCTCCTTGAAGATGAAATA 60.118 43.478 0.00 0.00 0.00 1.40
444 477 1.003580 AGCGGCTCCTTGAAGATGAAA 59.996 47.619 0.00 0.00 0.00 2.69
445 478 0.615331 AGCGGCTCCTTGAAGATGAA 59.385 50.000 0.00 0.00 0.00 2.57
446 479 0.107993 CAGCGGCTCCTTGAAGATGA 60.108 55.000 0.00 0.00 0.00 2.92
447 480 1.712977 GCAGCGGCTCCTTGAAGATG 61.713 60.000 0.00 0.00 36.96 2.90
448 481 1.451028 GCAGCGGCTCCTTGAAGAT 60.451 57.895 0.00 0.00 36.96 2.40
449 482 2.046892 GCAGCGGCTCCTTGAAGA 60.047 61.111 0.00 0.00 36.96 2.87
450 483 3.130160 GGCAGCGGCTCCTTGAAG 61.130 66.667 9.17 0.00 40.87 3.02
451 484 3.272364 ATGGCAGCGGCTCCTTGAA 62.272 57.895 9.17 1.14 40.87 2.69
452 485 3.687321 GATGGCAGCGGCTCCTTGA 62.687 63.158 9.17 1.42 40.87 3.02
453 486 3.207669 GATGGCAGCGGCTCCTTG 61.208 66.667 9.17 2.00 40.87 3.61
454 487 3.720601 TGATGGCAGCGGCTCCTT 61.721 61.111 9.17 11.40 40.87 3.36
455 488 4.479993 GTGATGGCAGCGGCTCCT 62.480 66.667 9.17 0.00 40.87 3.69
456 489 4.783621 TGTGATGGCAGCGGCTCC 62.784 66.667 9.17 5.50 40.87 4.70
457 490 3.503363 GTGTGATGGCAGCGGCTC 61.503 66.667 9.17 0.00 40.87 4.70
460 493 1.926511 GAAAGGTGTGATGGCAGCGG 61.927 60.000 0.00 0.00 41.28 5.52
461 494 0.957395 AGAAAGGTGTGATGGCAGCG 60.957 55.000 0.00 0.00 41.28 5.18
462 495 0.524862 CAGAAAGGTGTGATGGCAGC 59.475 55.000 0.00 0.00 37.16 5.25
463 496 2.082231 CTCAGAAAGGTGTGATGGCAG 58.918 52.381 0.00 0.00 0.00 4.85
464 497 1.421268 ACTCAGAAAGGTGTGATGGCA 59.579 47.619 0.00 0.00 0.00 4.92
465 498 2.191128 ACTCAGAAAGGTGTGATGGC 57.809 50.000 0.00 0.00 0.00 4.40
472 505 6.072452 GGATTTTTGTCCTACTCAGAAAGGTG 60.072 42.308 0.00 0.00 35.32 4.00
484 517 5.404946 CGTTCGAGTAGGATTTTTGTCCTA 58.595 41.667 0.00 0.00 46.70 2.94
495 528 5.452078 TTTCTTTTACCGTTCGAGTAGGA 57.548 39.130 9.42 0.00 0.00 2.94
519 552 4.189231 CGGGAGACGGATTTTTAGATGTT 58.811 43.478 0.00 0.00 39.42 2.71
520 553 3.793559 CGGGAGACGGATTTTTAGATGT 58.206 45.455 0.00 0.00 39.42 3.06
539 582 4.785453 GACCTCAGCCCTTGCCGG 62.785 72.222 0.00 0.00 38.69 6.13
540 583 4.785453 GGACCTCAGCCCTTGCCG 62.785 72.222 0.00 0.00 38.69 5.69
541 584 3.635268 CTGGACCTCAGCCCTTGCC 62.635 68.421 0.00 0.00 38.69 4.52
579 622 1.374758 CCTCGTCTGTCTTGTGCCC 60.375 63.158 0.00 0.00 0.00 5.36
580 623 2.029844 GCCTCGTCTGTCTTGTGCC 61.030 63.158 0.00 0.00 0.00 5.01
581 624 2.375766 CGCCTCGTCTGTCTTGTGC 61.376 63.158 0.00 0.00 0.00 4.57
585 628 1.604023 AGTCCGCCTCGTCTGTCTT 60.604 57.895 0.00 0.00 0.00 3.01
586 629 2.034376 AGTCCGCCTCGTCTGTCT 59.966 61.111 0.00 0.00 0.00 3.41
588 631 3.374402 CCAGTCCGCCTCGTCTGT 61.374 66.667 0.00 0.00 0.00 3.41
589 632 4.803426 GCCAGTCCGCCTCGTCTG 62.803 72.222 0.00 0.00 0.00 3.51
599 642 4.106925 CAGCTCCCCTGCCAGTCC 62.107 72.222 0.00 0.00 34.21 3.85
615 658 2.204461 TTTCGTCTGCCTCCCGTCA 61.204 57.895 0.00 0.00 0.00 4.35
617 660 2.342648 GTTTCGTCTGCCTCCCGT 59.657 61.111 0.00 0.00 0.00 5.28
618 661 2.434359 GGTTTCGTCTGCCTCCCG 60.434 66.667 0.00 0.00 0.00 5.14
629 672 1.429148 GACAGGCGGCTATGGTTTCG 61.429 60.000 12.74 0.00 0.00 3.46
648 691 1.069227 CGTGGAAGAAAAGAAAGGCGG 60.069 52.381 0.00 0.00 0.00 6.13
649 692 1.069227 CCGTGGAAGAAAAGAAAGGCG 60.069 52.381 0.00 0.00 0.00 5.52
681 724 0.674534 GGATCGGCTGTTATCGGTCT 59.325 55.000 0.00 0.00 36.80 3.85
682 725 0.387929 TGGATCGGCTGTTATCGGTC 59.612 55.000 0.00 0.00 35.95 4.79
698 741 0.107643 TTGCGTGGACTGTCAATGGA 59.892 50.000 10.38 1.91 0.00 3.41
714 757 4.158394 TGGCTTCACCTCTTCATTAATTGC 59.842 41.667 0.00 0.00 40.22 3.56
726 769 3.211045 TGTTACAAGTTGGCTTCACCTC 58.789 45.455 7.96 0.00 40.22 3.85
762 805 7.524717 ACTGCTCCATGTTAGTACAATTTTT 57.475 32.000 0.00 0.00 37.91 1.94
763 806 7.524717 AACTGCTCCATGTTAGTACAATTTT 57.475 32.000 0.00 0.00 37.91 1.82
764 807 7.524717 AAACTGCTCCATGTTAGTACAATTT 57.475 32.000 0.00 0.00 37.91 1.82
765 808 7.663905 TGTAAACTGCTCCATGTTAGTACAATT 59.336 33.333 0.00 0.00 37.91 2.32
766 809 7.165485 TGTAAACTGCTCCATGTTAGTACAAT 58.835 34.615 0.00 0.00 37.91 2.71
767 810 6.526526 TGTAAACTGCTCCATGTTAGTACAA 58.473 36.000 0.00 0.00 37.91 2.41
768 811 6.104146 TGTAAACTGCTCCATGTTAGTACA 57.896 37.500 0.00 0.00 38.95 2.90
769 812 7.611213 AATGTAAACTGCTCCATGTTAGTAC 57.389 36.000 0.00 0.00 0.00 2.73
770 813 9.899661 ATTAATGTAAACTGCTCCATGTTAGTA 57.100 29.630 0.00 0.00 0.00 1.82
771 814 8.807948 ATTAATGTAAACTGCTCCATGTTAGT 57.192 30.769 0.00 0.00 0.00 2.24
798 841 8.967664 AGATCTAAACTTGAGTACGTAGATCT 57.032 34.615 21.64 21.64 42.05 2.75
800 843 9.835389 AGTAGATCTAAACTTGAGTACGTAGAT 57.165 33.333 3.40 9.75 33.33 1.98
816 859 2.224475 CGGACGGAGGGAGTAGATCTAA 60.224 54.545 3.40 0.00 0.00 2.10
819 862 0.890090 CCGGACGGAGGGAGTAGATC 60.890 65.000 4.40 0.00 37.50 2.75
820 863 1.150992 CCGGACGGAGGGAGTAGAT 59.849 63.158 4.40 0.00 37.50 1.98
821 864 2.304056 ACCGGACGGAGGGAGTAGA 61.304 63.158 18.80 0.00 38.96 2.59
822 865 2.119655 CACCGGACGGAGGGAGTAG 61.120 68.421 18.80 0.00 38.96 2.57
823 866 2.044650 CACCGGACGGAGGGAGTA 60.045 66.667 18.80 0.00 38.96 2.59
824 867 3.975591 TCACCGGACGGAGGGAGT 61.976 66.667 18.80 0.00 38.96 3.85
825 868 3.450115 GTCACCGGACGGAGGGAG 61.450 72.222 18.80 2.08 38.96 4.30
831 874 5.534563 ACATACTTGATGTCACCGGACGG 62.535 52.174 9.46 9.56 46.33 4.79
832 875 2.416836 ACATACTTGATGTCACCGGACG 60.417 50.000 9.46 0.00 46.33 4.79
833 876 3.247006 ACATACTTGATGTCACCGGAC 57.753 47.619 9.46 0.00 46.33 4.79
834 877 4.679639 GCTTACATACTTGATGTCACCGGA 60.680 45.833 9.46 0.00 46.33 5.14
835 878 3.555956 GCTTACATACTTGATGTCACCGG 59.444 47.826 0.00 0.00 46.33 5.28
836 879 4.433615 AGCTTACATACTTGATGTCACCG 58.566 43.478 0.00 0.00 46.33 4.94
837 880 5.419542 TGAGCTTACATACTTGATGTCACC 58.580 41.667 0.00 0.00 46.33 4.02
838 881 6.591834 AGTTGAGCTTACATACTTGATGTCAC 59.408 38.462 0.00 0.00 46.33 3.67
839 882 6.591448 CAGTTGAGCTTACATACTTGATGTCA 59.409 38.462 0.00 0.00 46.33 3.58
840 883 6.036517 CCAGTTGAGCTTACATACTTGATGTC 59.963 42.308 0.00 0.00 46.33 3.06
842 885 6.108687 TCCAGTTGAGCTTACATACTTGATG 58.891 40.000 0.00 0.00 41.79 3.07
843 886 6.299805 TCCAGTTGAGCTTACATACTTGAT 57.700 37.500 0.00 0.00 0.00 2.57
844 887 5.738619 TCCAGTTGAGCTTACATACTTGA 57.261 39.130 0.00 0.00 0.00 3.02
845 888 5.163814 GCTTCCAGTTGAGCTTACATACTTG 60.164 44.000 0.00 0.00 0.00 3.16
846 889 4.938226 GCTTCCAGTTGAGCTTACATACTT 59.062 41.667 0.00 0.00 0.00 2.24
847 890 4.223923 AGCTTCCAGTTGAGCTTACATACT 59.776 41.667 0.00 0.00 33.34 2.12
855 898 1.274712 AGCTAGCTTCCAGTTGAGCT 58.725 50.000 12.68 0.00 40.96 4.09
888 3313 2.398252 ATATGATGGAGCGGCTGATG 57.602 50.000 7.50 0.00 0.00 3.07
947 3386 6.721318 AGGTAAATATGTGGAGCAAGAGAAA 58.279 36.000 0.00 0.00 0.00 2.52
1069 3539 1.550327 CTGCATAGAGGCCTCGGATA 58.450 55.000 26.95 14.62 34.09 2.59
1081 3551 0.807667 GGGTCACAGTCGCTGCATAG 60.808 60.000 0.00 0.00 34.37 2.23
1113 3587 2.031163 ACCTCAGCGGTGCAGTTC 59.969 61.111 10.38 0.00 46.80 3.01
1205 3679 0.320946 ACCATTTGCAATGCACTGCC 60.321 50.000 18.72 0.00 41.90 4.85
1214 3688 2.164827 CTGCAGCAGATACCATTTGCAA 59.835 45.455 18.42 0.00 40.56 4.08
1268 3742 2.649190 TGCAACCACTTTCAGCTACAA 58.351 42.857 0.00 0.00 0.00 2.41
1343 3817 1.109323 ACAGGTGGGAAAGCACTTGC 61.109 55.000 0.00 0.00 42.49 4.01
1345 3819 3.306472 TTTACAGGTGGGAAAGCACTT 57.694 42.857 0.00 0.00 0.00 3.16
1426 3905 2.213499 CAAGGCACCAGATCGATTACC 58.787 52.381 0.00 0.00 0.00 2.85
1493 3984 0.249120 CAGAACCAGGTCACGGCATA 59.751 55.000 0.00 0.00 0.00 3.14
1514 4005 0.622665 CTTTCCTCCTGTGCCATCCT 59.377 55.000 0.00 0.00 0.00 3.24
1613 4121 6.195244 CGTGTCAACTCTGTGAAATTTCTTTG 59.805 38.462 18.64 11.48 0.00 2.77
1628 4136 3.963383 AATTTCACACCGTGTCAACTC 57.037 42.857 0.00 0.00 34.79 3.01
1660 4170 1.134670 AGCTCTATGGCGAAGGAACAC 60.135 52.381 0.00 0.00 37.29 3.32
1700 8083 1.767289 AAGTCTACAACGACGCACAG 58.233 50.000 0.00 0.00 38.90 3.66
1739 8122 0.448990 CGAAGGCACACATCACCATG 59.551 55.000 0.00 0.00 35.92 3.66
1902 8543 0.588252 ATGTTCGAGCACAAGCACAC 59.412 50.000 3.33 0.00 45.49 3.82
1913 8554 5.006165 GCTAAAGATGTTCAGGATGTTCGAG 59.994 44.000 0.00 0.00 37.40 4.04
1985 8626 5.580691 TGAATCGTTGCTTAACATGGAGTAG 59.419 40.000 0.00 0.00 0.00 2.57
1999 8640 8.227791 TCTAACTAAATTGAACTGAATCGTTGC 58.772 33.333 0.00 0.00 0.00 4.17
2019 8660 9.308000 ACTAGATAGCAGCAGATTAATCTAACT 57.692 33.333 17.53 14.55 34.85 2.24
2034 8675 6.254589 GCTGTCTGTACAAAACTAGATAGCAG 59.745 42.308 18.27 7.78 42.74 4.24
2049 8690 2.700897 AGGTATCCATGGCTGTCTGTAC 59.299 50.000 6.96 1.50 0.00 2.90
2068 8709 4.262079 CCCTAACGAGTTATGAGGCTAAGG 60.262 50.000 0.00 0.00 0.00 2.69
2098 8739 2.961741 AGATGCAGATACGACATCACCT 59.038 45.455 5.15 0.00 42.12 4.00
2111 8752 6.017109 GTGGTCTTTCAAAAGTAAGATGCAGA 60.017 38.462 0.00 0.00 37.31 4.26
2115 8756 7.874940 TGATGTGGTCTTTCAAAAGTAAGATG 58.125 34.615 2.63 0.00 37.31 2.90
2198 8839 0.320771 AGCCGGTGTGTGAGAACATC 60.321 55.000 1.90 0.00 31.49 3.06
2210 8851 2.213499 GATGAAACCTGATAGCCGGTG 58.787 52.381 1.90 0.00 32.86 4.94
2212 8853 2.213499 GTGATGAAACCTGATAGCCGG 58.787 52.381 0.00 0.00 0.00 6.13
2222 8863 1.826385 CAGGTGGAGGTGATGAAACC 58.174 55.000 0.00 0.00 40.85 3.27
2250 8891 2.096069 CACTTCGTTCTCAATGCCAGTG 60.096 50.000 0.00 0.00 0.00 3.66
2258 8899 3.258372 AGATACAGGCACTTCGTTCTCAA 59.742 43.478 0.00 0.00 34.60 3.02
2300 8942 3.826157 TCAACTGTCCTAGCCAAAAATGG 59.174 43.478 0.00 0.00 0.00 3.16
2301 8943 4.520492 ACTCAACTGTCCTAGCCAAAAATG 59.480 41.667 0.00 0.00 0.00 2.32
2328 8970 5.960113 TCCAACCCGAACAAATATGAAATG 58.040 37.500 0.00 0.00 0.00 2.32
2343 8985 5.124776 TGCAAATATCTTAACTTCCAACCCG 59.875 40.000 0.00 0.00 0.00 5.28
2373 9015 1.200519 TATGCCGACCAAGCCTACTT 58.799 50.000 0.00 0.00 36.19 2.24
2386 9028 6.322491 TCGACTAAATCTATCACATATGCCG 58.678 40.000 1.58 0.00 0.00 5.69


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

AutoCloner maintained by Alex Coulton.