Multiple sequence alignment - TraesCS3D01G206700

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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 TraesCS3D01G206700 chr3D 100.000 3711 0 0 2142 5852 270160714 270157004 0.000000e+00 6854.0
1 TraesCS3D01G206700 chr3D 100.000 1657 0 0 1 1657 270162855 270161199 0.000000e+00 3061.0
2 TraesCS3D01G206700 chr3A 96.035 3682 90 17 2173 5831 351127667 351124019 0.000000e+00 5939.0
3 TraesCS3D01G206700 chr3A 96.947 950 26 3 709 1657 351129251 351128304 0.000000e+00 1591.0
4 TraesCS3D01G206700 chr3A 90.698 129 8 3 589 716 351129628 351129503 1.010000e-37 169.0
5 TraesCS3D01G206700 chr3B 97.559 3155 55 5 2142 5295 337176337 337173204 0.000000e+00 5380.0
6 TraesCS3D01G206700 chr3B 96.648 1044 28 5 617 1657 337177471 337176432 0.000000e+00 1727.0
7 TraesCS3D01G206700 chr3B 93.474 521 21 5 5324 5831 337173203 337172683 0.000000e+00 761.0
8 TraesCS3D01G206700 chr3B 93.038 316 22 0 3 318 337177882 337177567 4.130000e-126 462.0
9 TraesCS3D01G206700 chr3B 81.046 153 28 1 360 512 284677604 284677755 2.860000e-23 121.0
10 TraesCS3D01G206700 chr4A 84.091 308 41 7 3 306 659021033 659020730 2.060000e-74 291.0
11 TraesCS3D01G206700 chr7D 81.169 308 52 6 3 306 568245537 568245232 5.860000e-60 243.0
12 TraesCS3D01G206700 chr7A 81.107 307 54 4 3 306 83015374 83015679 5.860000e-60 243.0
13 TraesCS3D01G206700 chr4B 83.333 264 38 4 16 273 414241279 414241016 7.580000e-59 239.0
14 TraesCS3D01G206700 chr6A 80.519 308 55 5 2 306 603000061 603000366 1.270000e-56 231.0
15 TraesCS3D01G206700 chr4D 80.519 308 54 6 3 306 425220149 425219844 1.270000e-56 231.0
16 TraesCS3D01G206700 chr2B 82.642 265 42 4 16 277 771323551 771323814 1.270000e-56 231.0
17 TraesCS3D01G206700 chr2B 80.769 130 16 7 385 512 738413172 738413050 6.240000e-15 93.5
18 TraesCS3D01G206700 chr1B 79.935 309 55 7 3 306 133131268 133131574 2.750000e-53 220.0
19 TraesCS3D01G206700 chr1D 88.312 154 17 1 359 512 203317775 203317927 3.600000e-42 183.0
20 TraesCS3D01G206700 chrUn 85.185 162 21 3 352 512 348118794 348118953 4.690000e-36 163.0
21 TraesCS3D01G206700 chr5B 79.755 163 29 4 351 511 606823937 606823777 1.330000e-21 115.0
22 TraesCS3D01G206700 chr2A 84.545 110 16 1 351 460 724375408 724375516 2.230000e-19 108.0


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 TraesCS3D01G206700 chr3D 270157004 270162855 5851 True 4957.500000 6854 100.00000 1 5852 2 chr3D.!!$R1 5851
1 TraesCS3D01G206700 chr3A 351124019 351129628 5609 True 2566.333333 5939 94.56000 589 5831 3 chr3A.!!$R1 5242
2 TraesCS3D01G206700 chr3B 337172683 337177882 5199 True 2082.500000 5380 95.17975 3 5831 4 chr3B.!!$R1 5828

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
187 188 0.033109 GGAGAAATTGGGTCCCCCTG 60.033 60.000 5.13 0.0 45.70 4.45 F
340 391 0.186386 TTTTCTTTTGAGGGGGCGGA 59.814 50.000 0.00 0.0 0.00 5.54 F
1230 1542 0.249398 CCGTACAACCCCTCTTCCTG 59.751 60.000 0.00 0.0 0.00 3.86 F
1236 1548 0.332972 AACCCCTCTTCCTGATTGCC 59.667 55.000 0.00 0.0 0.00 4.52 F
1596 1911 3.689649 ACGCATCAAGATCTGGGTTTAAC 59.310 43.478 0.00 0.0 35.28 2.01 F
2810 3262 0.037590 TTGGATCAAACAGGACCCCG 59.962 55.000 0.00 0.0 0.00 5.73 F
3540 3992 0.534412 TGCCACACCAGGTTTTGTTG 59.466 50.000 0.00 0.0 0.00 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1596 1911 3.902261 TTGCACAAGTCAGCATAACAG 57.098 42.857 0.00 0.0 40.94 3.16 R
2423 2875 7.119262 CGAACATACTTTCCTTCATTGTAGGTT 59.881 37.037 8.94 0.0 39.62 3.50 R
2762 3214 1.867233 CTCATACGCCGGAATCCTTTG 59.133 52.381 5.05 0.0 0.00 2.77 R
2810 3262 2.945668 ACCAGCACTTGACTTCTGTTTC 59.054 45.455 0.00 0.0 0.00 2.78 R
3826 4282 0.445043 CACGATCCATGTGTGTGCAG 59.555 55.000 0.00 0.0 32.68 4.41 R
3961 4417 1.131883 CATGTTGCAGCTTACTGGAGC 59.868 52.381 1.17 0.0 45.77 4.70 R
5444 5903 1.003233 GGCCTCCAAGGAGTGTGAC 60.003 63.158 14.65 0.0 37.67 3.67 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
21 22 4.712051 AATTGCTCCATCTATACTGGCA 57.288 40.909 0.00 0.00 33.56 4.92
93 94 3.056304 GCTGATGGAGCTACTCGAATTC 58.944 50.000 0.00 0.00 45.21 2.17
105 106 0.389817 TCGAATTCCACTGAGGTGCG 60.390 55.000 0.00 0.00 41.75 5.34
135 136 4.527509 TGTTTTGTTTTCAAGAGGCACA 57.472 36.364 0.00 0.00 41.09 4.57
155 156 3.195661 CATAAGGTCCTCCGTTGCTAAC 58.804 50.000 0.00 0.00 39.05 2.34
171 172 6.237942 CGTTGCTAACAAGAATAGACATGGAG 60.238 42.308 0.00 0.00 36.16 3.86
178 179 7.636150 ACAAGAATAGACATGGAGAAATTGG 57.364 36.000 0.00 0.00 0.00 3.16
180 181 6.332976 AGAATAGACATGGAGAAATTGGGT 57.667 37.500 0.00 0.00 0.00 4.51
187 188 0.033109 GGAGAAATTGGGTCCCCCTG 60.033 60.000 5.13 0.00 45.70 4.45
214 215 2.028876 CCCCGTGGATGGTTAAATTCC 58.971 52.381 0.00 0.00 0.00 3.01
229 230 0.609131 ATTCCTCCAACTTGCCACCG 60.609 55.000 0.00 0.00 0.00 4.94
230 231 1.990160 TTCCTCCAACTTGCCACCGT 61.990 55.000 0.00 0.00 0.00 4.83
241 242 1.320507 TGCCACCGTTAAAAAGGACC 58.679 50.000 1.51 0.00 0.00 4.46
243 244 0.876399 CCACCGTTAAAAAGGACCGG 59.124 55.000 0.00 0.00 44.06 5.28
245 246 2.220313 CACCGTTAAAAAGGACCGGAA 58.780 47.619 9.46 0.00 41.08 4.30
261 262 7.170277 AGGACCGGAATTTTTACTTAGCTTAA 58.830 34.615 9.46 0.00 0.00 1.85
291 292 6.900194 TCATAATTAGAGAAACCCAAGGAGG 58.100 40.000 0.00 0.00 37.03 4.30
330 381 5.107220 CCTTAAGCAGCTGCATTTTCTTTTG 60.107 40.000 38.24 17.69 45.16 2.44
331 382 3.738830 AGCAGCTGCATTTTCTTTTGA 57.261 38.095 38.24 0.00 45.16 2.69
332 383 3.650139 AGCAGCTGCATTTTCTTTTGAG 58.350 40.909 38.24 0.00 45.16 3.02
337 388 1.347378 TGCATTTTCTTTTGAGGGGGC 59.653 47.619 0.00 0.00 0.00 5.80
338 389 1.672737 GCATTTTCTTTTGAGGGGGCG 60.673 52.381 0.00 0.00 0.00 6.13
340 391 0.186386 TTTTCTTTTGAGGGGGCGGA 59.814 50.000 0.00 0.00 0.00 5.54
361 412 4.482431 GGGGGCCTTAGACTCTGT 57.518 61.111 0.84 0.00 0.00 3.41
363 414 1.121378 GGGGGCCTTAGACTCTGTAC 58.879 60.000 0.84 0.00 0.00 2.90
368 419 3.198872 GGCCTTAGACTCTGTACAATGC 58.801 50.000 0.00 0.00 0.00 3.56
369 420 3.369471 GGCCTTAGACTCTGTACAATGCA 60.369 47.826 0.00 0.00 0.00 3.96
370 421 4.253685 GCCTTAGACTCTGTACAATGCAA 58.746 43.478 0.00 0.00 0.00 4.08
372 423 4.872691 CCTTAGACTCTGTACAATGCAAGG 59.127 45.833 0.00 2.04 0.00 3.61
373 424 5.482908 CTTAGACTCTGTACAATGCAAGGT 58.517 41.667 0.00 0.00 0.00 3.50
374 425 3.668447 AGACTCTGTACAATGCAAGGTG 58.332 45.455 0.00 0.00 0.00 4.00
384 435 2.658422 GCAAGGTGCATGGGGTTG 59.342 61.111 0.00 0.00 44.26 3.77
385 436 2.946346 GCAAGGTGCATGGGGTTGG 61.946 63.158 0.00 0.00 44.26 3.77
386 437 1.533753 CAAGGTGCATGGGGTTGGT 60.534 57.895 0.00 0.00 0.00 3.67
387 438 1.533753 AAGGTGCATGGGGTTGGTG 60.534 57.895 0.00 0.00 0.00 4.17
388 439 3.694538 GGTGCATGGGGTTGGTGC 61.695 66.667 0.00 0.00 39.26 5.01
389 440 2.601367 GTGCATGGGGTTGGTGCT 60.601 61.111 0.00 0.00 39.52 4.40
390 441 2.200930 TGCATGGGGTTGGTGCTT 59.799 55.556 0.00 0.00 39.52 3.91
391 442 0.897863 GTGCATGGGGTTGGTGCTTA 60.898 55.000 0.00 0.00 39.52 3.09
392 443 0.611618 TGCATGGGGTTGGTGCTTAG 60.612 55.000 0.00 0.00 39.52 2.18
393 444 0.323360 GCATGGGGTTGGTGCTTAGA 60.323 55.000 0.00 0.00 36.02 2.10
394 445 1.755179 CATGGGGTTGGTGCTTAGAG 58.245 55.000 0.00 0.00 0.00 2.43
395 446 1.281867 CATGGGGTTGGTGCTTAGAGA 59.718 52.381 0.00 0.00 0.00 3.10
396 447 1.440618 TGGGGTTGGTGCTTAGAGAA 58.559 50.000 0.00 0.00 0.00 2.87
397 448 1.777878 TGGGGTTGGTGCTTAGAGAAA 59.222 47.619 0.00 0.00 0.00 2.52
398 449 2.378547 TGGGGTTGGTGCTTAGAGAAAT 59.621 45.455 0.00 0.00 0.00 2.17
399 450 3.589735 TGGGGTTGGTGCTTAGAGAAATA 59.410 43.478 0.00 0.00 0.00 1.40
400 451 4.043561 TGGGGTTGGTGCTTAGAGAAATAA 59.956 41.667 0.00 0.00 0.00 1.40
401 452 5.014202 GGGGTTGGTGCTTAGAGAAATAAA 58.986 41.667 0.00 0.00 0.00 1.40
402 453 5.656859 GGGGTTGGTGCTTAGAGAAATAAAT 59.343 40.000 0.00 0.00 0.00 1.40
403 454 6.831868 GGGGTTGGTGCTTAGAGAAATAAATA 59.168 38.462 0.00 0.00 0.00 1.40
404 455 7.201794 GGGGTTGGTGCTTAGAGAAATAAATAC 60.202 40.741 0.00 0.00 0.00 1.89
405 456 7.338449 GGGTTGGTGCTTAGAGAAATAAATACA 59.662 37.037 0.00 0.00 0.00 2.29
406 457 8.736244 GGTTGGTGCTTAGAGAAATAAATACAA 58.264 33.333 0.00 0.00 0.00 2.41
427 478 6.555315 ACAATTTTTCTCTAATCATCGGTGC 58.445 36.000 0.00 0.00 0.00 5.01
428 479 6.375455 ACAATTTTTCTCTAATCATCGGTGCT 59.625 34.615 0.00 0.00 0.00 4.40
429 480 7.094205 ACAATTTTTCTCTAATCATCGGTGCTT 60.094 33.333 0.00 0.00 0.00 3.91
430 481 8.397906 CAATTTTTCTCTAATCATCGGTGCTTA 58.602 33.333 0.00 0.00 0.00 3.09
431 482 8.682936 ATTTTTCTCTAATCATCGGTGCTTAT 57.317 30.769 0.00 0.00 0.00 1.73
432 483 8.506168 TTTTTCTCTAATCATCGGTGCTTATT 57.494 30.769 0.00 0.00 0.00 1.40
433 484 8.506168 TTTTCTCTAATCATCGGTGCTTATTT 57.494 30.769 0.00 0.00 0.00 1.40
434 485 7.482654 TTCTCTAATCATCGGTGCTTATTTG 57.517 36.000 0.00 0.00 0.00 2.32
435 486 6.582636 TCTCTAATCATCGGTGCTTATTTGT 58.417 36.000 0.00 0.00 0.00 2.83
436 487 7.722363 TCTCTAATCATCGGTGCTTATTTGTA 58.278 34.615 0.00 0.00 0.00 2.41
437 488 7.867909 TCTCTAATCATCGGTGCTTATTTGTAG 59.132 37.037 0.00 0.00 0.00 2.74
438 489 7.722363 TCTAATCATCGGTGCTTATTTGTAGA 58.278 34.615 0.00 0.00 0.00 2.59
439 490 6.851222 AATCATCGGTGCTTATTTGTAGAG 57.149 37.500 0.00 0.00 0.00 2.43
440 491 4.693283 TCATCGGTGCTTATTTGTAGAGG 58.307 43.478 0.00 0.00 0.00 3.69
441 492 3.536956 TCGGTGCTTATTTGTAGAGGG 57.463 47.619 0.00 0.00 0.00 4.30
442 493 2.835764 TCGGTGCTTATTTGTAGAGGGT 59.164 45.455 0.00 0.00 0.00 4.34
443 494 4.025360 TCGGTGCTTATTTGTAGAGGGTA 58.975 43.478 0.00 0.00 0.00 3.69
444 495 4.098960 TCGGTGCTTATTTGTAGAGGGTAG 59.901 45.833 0.00 0.00 0.00 3.18
445 496 4.098960 CGGTGCTTATTTGTAGAGGGTAGA 59.901 45.833 0.00 0.00 0.00 2.59
446 497 5.358090 GGTGCTTATTTGTAGAGGGTAGAC 58.642 45.833 0.00 0.00 0.00 2.59
447 498 5.041940 GTGCTTATTTGTAGAGGGTAGACG 58.958 45.833 0.00 0.00 0.00 4.18
448 499 4.708421 TGCTTATTTGTAGAGGGTAGACGT 59.292 41.667 0.00 0.00 0.00 4.34
449 500 5.186409 TGCTTATTTGTAGAGGGTAGACGTT 59.814 40.000 0.00 0.00 0.00 3.99
450 501 6.104665 GCTTATTTGTAGAGGGTAGACGTTT 58.895 40.000 0.00 0.00 0.00 3.60
451 502 7.093814 TGCTTATTTGTAGAGGGTAGACGTTTA 60.094 37.037 0.00 0.00 0.00 2.01
452 503 7.761249 GCTTATTTGTAGAGGGTAGACGTTTAA 59.239 37.037 0.00 0.00 0.00 1.52
453 504 9.813446 CTTATTTGTAGAGGGTAGACGTTTAAT 57.187 33.333 0.00 0.00 0.00 1.40
457 508 9.643693 TTTGTAGAGGGTAGACGTTTAATTAAG 57.356 33.333 0.00 0.00 0.00 1.85
458 509 7.260603 TGTAGAGGGTAGACGTTTAATTAAGC 58.739 38.462 2.18 2.18 0.00 3.09
459 510 5.346522 AGAGGGTAGACGTTTAATTAAGCG 58.653 41.667 26.48 26.48 43.91 4.68
538 589 8.989653 TTTTTGAAAGATCGGTTTGTTTTACT 57.010 26.923 0.00 0.00 0.00 2.24
541 592 9.724839 TTTGAAAGATCGGTTTGTTTTACTAAG 57.275 29.630 0.00 0.00 0.00 2.18
542 593 7.357303 TGAAAGATCGGTTTGTTTTACTAAGC 58.643 34.615 0.00 0.00 0.00 3.09
543 594 6.870971 AAGATCGGTTTGTTTTACTAAGCA 57.129 33.333 0.00 0.00 32.41 3.91
544 595 7.448748 AAGATCGGTTTGTTTTACTAAGCAT 57.551 32.000 0.00 0.00 32.41 3.79
545 596 7.073342 AGATCGGTTTGTTTTACTAAGCATC 57.927 36.000 0.00 0.00 32.41 3.91
546 597 6.879458 AGATCGGTTTGTTTTACTAAGCATCT 59.121 34.615 0.00 0.00 32.41 2.90
547 598 6.870971 TCGGTTTGTTTTACTAAGCATCTT 57.129 33.333 0.00 0.00 32.41 2.40
548 599 7.266922 TCGGTTTGTTTTACTAAGCATCTTT 57.733 32.000 0.00 0.00 32.41 2.52
549 600 7.136119 TCGGTTTGTTTTACTAAGCATCTTTG 58.864 34.615 0.00 0.00 32.41 2.77
550 601 6.915843 CGGTTTGTTTTACTAAGCATCTTTGT 59.084 34.615 0.00 0.13 32.41 2.83
551 602 8.071368 CGGTTTGTTTTACTAAGCATCTTTGTA 58.929 33.333 0.00 0.00 32.41 2.41
552 603 9.738832 GGTTTGTTTTACTAAGCATCTTTGTAA 57.261 29.630 8.68 8.68 32.97 2.41
561 612 8.045176 ACTAAGCATCTTTGTAAACATCTTCC 57.955 34.615 0.00 0.00 0.00 3.46
562 613 6.899393 AAGCATCTTTGTAAACATCTTCCA 57.101 33.333 0.00 0.00 0.00 3.53
563 614 7.472334 AAGCATCTTTGTAAACATCTTCCAT 57.528 32.000 0.00 0.00 0.00 3.41
564 615 7.472334 AGCATCTTTGTAAACATCTTCCATT 57.528 32.000 0.00 0.00 0.00 3.16
565 616 8.579850 AGCATCTTTGTAAACATCTTCCATTA 57.420 30.769 0.00 0.00 0.00 1.90
566 617 9.193806 AGCATCTTTGTAAACATCTTCCATTAT 57.806 29.630 0.00 0.00 0.00 1.28
574 625 9.391006 TGTAAACATCTTCCATTATACAAGACC 57.609 33.333 0.00 0.00 0.00 3.85
575 626 9.614792 GTAAACATCTTCCATTATACAAGACCT 57.385 33.333 0.00 0.00 0.00 3.85
579 630 9.838339 ACATCTTCCATTATACAAGACCTTAAG 57.162 33.333 0.00 0.00 0.00 1.85
580 631 8.778358 CATCTTCCATTATACAAGACCTTAAGC 58.222 37.037 0.00 0.00 0.00 3.09
581 632 7.857456 TCTTCCATTATACAAGACCTTAAGCA 58.143 34.615 0.00 0.00 0.00 3.91
582 633 8.325787 TCTTCCATTATACAAGACCTTAAGCAA 58.674 33.333 0.00 0.00 0.00 3.91
583 634 9.125026 CTTCCATTATACAAGACCTTAAGCAAT 57.875 33.333 0.00 0.00 0.00 3.56
584 635 9.474313 TTCCATTATACAAGACCTTAAGCAATT 57.526 29.630 0.00 0.00 0.00 2.32
585 636 8.902806 TCCATTATACAAGACCTTAAGCAATTG 58.097 33.333 0.00 0.00 0.00 2.32
586 637 8.686334 CCATTATACAAGACCTTAAGCAATTGT 58.314 33.333 16.56 16.56 35.28 2.71
598 649 6.040842 CCTTAAGCAATTGTATAAGCACCCAT 59.959 38.462 18.99 0.00 0.00 4.00
600 651 4.535781 AGCAATTGTATAAGCACCCATCA 58.464 39.130 7.40 0.00 0.00 3.07
601 652 5.142639 AGCAATTGTATAAGCACCCATCAT 58.857 37.500 7.40 0.00 0.00 2.45
602 653 5.599656 AGCAATTGTATAAGCACCCATCATT 59.400 36.000 7.40 0.00 0.00 2.57
620 671 8.906867 CCCATCATTATTATACAAGGCCTAATG 58.093 37.037 5.16 10.10 0.00 1.90
621 672 8.906867 CCATCATTATTATACAAGGCCTAATGG 58.093 37.037 5.16 0.00 30.97 3.16
622 673 9.685276 CATCATTATTATACAAGGCCTAATGGA 57.315 33.333 5.16 0.00 34.57 3.41
646 697 1.597461 GTTGCGGTTAGGAGAGGCT 59.403 57.895 0.00 0.00 0.00 4.58
716 1027 2.686246 TACACGTAACCCCCACCCCA 62.686 60.000 0.00 0.00 0.00 4.96
822 1133 4.008933 ACCTCCACGGAGCAGCAC 62.009 66.667 7.64 0.00 40.69 4.40
971 1283 2.731571 GGGGCAGCTCATGGTCGTA 61.732 63.158 0.00 0.00 0.00 3.43
1230 1542 0.249398 CCGTACAACCCCTCTTCCTG 59.751 60.000 0.00 0.00 0.00 3.86
1236 1548 0.332972 AACCCCTCTTCCTGATTGCC 59.667 55.000 0.00 0.00 0.00 4.52
1407 1719 5.023452 TCTGCTGTTCTTTCTACCCATAGA 58.977 41.667 0.00 0.00 35.53 1.98
1408 1720 5.127845 TCTGCTGTTCTTTCTACCCATAGAG 59.872 44.000 0.00 0.00 38.69 2.43
1409 1721 4.777896 TGCTGTTCTTTCTACCCATAGAGT 59.222 41.667 0.00 0.00 38.69 3.24
1486 1801 9.555727 GGTACATCCTTGCACTATCTATTTTTA 57.444 33.333 0.00 0.00 0.00 1.52
1507 1822 6.783892 TTACATTGCAAAAATCTTGGAAGC 57.216 33.333 1.71 0.00 33.41 3.86
1596 1911 3.689649 ACGCATCAAGATCTGGGTTTAAC 59.310 43.478 0.00 0.00 35.28 2.01
2238 2690 7.543756 TGCACTTATAATTCCCTTTTGCTAAC 58.456 34.615 0.00 0.00 0.00 2.34
2423 2875 3.972227 GCTCGCCAGCAAAAGAGA 58.028 55.556 0.00 0.00 46.06 3.10
2762 3214 5.695851 ACAAATTTGAGGATGACACAGTC 57.304 39.130 24.64 0.00 0.00 3.51
2810 3262 0.037590 TTGGATCAAACAGGACCCCG 59.962 55.000 0.00 0.00 0.00 5.73
3223 3675 4.341235 AGATGCCTTATGTACTAGTCGCAA 59.659 41.667 0.00 0.00 0.00 4.85
3307 3759 1.766496 TGATGGCTGCTCTGATGATGA 59.234 47.619 0.00 0.00 0.00 2.92
3308 3760 2.372172 TGATGGCTGCTCTGATGATGAT 59.628 45.455 0.00 0.00 0.00 2.45
3309 3761 2.256117 TGGCTGCTCTGATGATGATG 57.744 50.000 0.00 0.00 0.00 3.07
3396 3848 4.149598 ACCGCTTCCTTAATTCCACTTTT 58.850 39.130 0.00 0.00 0.00 2.27
3540 3992 0.534412 TGCCACACCAGGTTTTGTTG 59.466 50.000 0.00 0.00 0.00 3.33
3586 4038 4.219725 TGATCAAGTCGACCATGTGTTAGA 59.780 41.667 13.01 0.54 0.00 2.10
3961 4417 7.979444 TCCAAGAAGAAAAACATACAGGTAG 57.021 36.000 0.00 0.00 0.00 3.18
4135 4591 2.184830 CCAGATGATGGTGCTGGCG 61.185 63.158 0.00 0.00 44.91 5.69
4528 4984 3.135712 TCTGGCAAAGAACAGTCTTACCA 59.864 43.478 9.53 9.53 43.59 3.25
4632 5088 4.696479 AAAGGTCTCGGAGCATGATATT 57.304 40.909 0.00 0.00 31.89 1.28
4726 5182 0.108424 CAGCAGCCGTAGAGAAAGCT 60.108 55.000 0.00 0.00 35.52 3.74
4896 5354 2.235016 AGAGAGCCTCCGATCATACAC 58.765 52.381 0.00 0.00 0.00 2.90
4992 5450 8.978874 ATTATGTGCTTGTAATCCATAAGTGA 57.021 30.769 0.00 0.00 33.08 3.41
4993 5451 8.978874 TTATGTGCTTGTAATCCATAAGTGAT 57.021 30.769 0.00 0.00 0.00 3.06
5113 5571 3.317430 GCAGGGAAGGAAATAAGCAGATG 59.683 47.826 0.00 0.00 0.00 2.90
5144 5602 4.695455 TCTTTTCGCTGATAGAAAACCTGG 59.305 41.667 0.00 0.00 41.10 4.45
5259 5717 2.578981 GCTACGACGAACTCCGGC 60.579 66.667 0.00 0.00 44.56 6.13
5339 5797 1.464734 CCTAGAGCAAGTCCTCGTGA 58.535 55.000 0.00 0.00 36.95 4.35
5389 5848 0.814010 GGATCGCGGCTACCACAAAT 60.814 55.000 6.13 0.00 0.00 2.32
5415 5874 1.481428 CCCATATGTCGGAGAGGAGGT 60.481 57.143 1.24 0.00 36.95 3.85
5438 5897 3.003113 GCCGAGGCCGAACTACAGT 62.003 63.158 1.97 0.00 38.22 3.55
5444 5903 1.067776 AGGCCGAACTACAGTTTCTCG 60.068 52.381 0.00 0.00 38.56 4.04
5653 6122 2.283529 ACCTCGCCGTGGATCAACT 61.284 57.895 12.80 0.00 0.00 3.16
5701 6170 3.245948 CTTGCTGTGCACCGCTGTC 62.246 63.158 29.55 5.82 38.71 3.51
5752 6221 2.928396 AGCCGTTGTAGCACCCCT 60.928 61.111 0.00 0.00 0.00 4.79
5754 6223 2.125673 CCGTTGTAGCACCCCTCG 60.126 66.667 0.00 0.00 0.00 4.63
5757 6230 2.606519 TTGTAGCACCCCTCGCCT 60.607 61.111 0.00 0.00 0.00 5.52
5797 6271 3.878519 GCTCGCTACCTCGCTCGT 61.879 66.667 0.00 0.00 0.00 4.18
5818 6292 4.552365 CCGCCTCCATGCCGACAT 62.552 66.667 0.00 0.00 36.79 3.06
5831 6305 1.878102 GCCGACATGCCTATTACCTGG 60.878 57.143 0.00 0.00 0.00 4.45
5832 6306 1.416401 CCGACATGCCTATTACCTGGT 59.584 52.381 4.05 4.05 0.00 4.00
5833 6307 2.158813 CCGACATGCCTATTACCTGGTT 60.159 50.000 3.84 0.00 0.00 3.67
5834 6308 2.872245 CGACATGCCTATTACCTGGTTG 59.128 50.000 3.84 0.00 0.00 3.77
5835 6309 3.214328 GACATGCCTATTACCTGGTTGG 58.786 50.000 3.84 4.13 42.93 3.77
5836 6310 1.956477 CATGCCTATTACCTGGTTGGC 59.044 52.381 19.09 19.09 40.22 4.52
5837 6311 1.295020 TGCCTATTACCTGGTTGGCT 58.705 50.000 23.23 5.35 40.82 4.75
5838 6312 1.638589 TGCCTATTACCTGGTTGGCTT 59.361 47.619 23.23 4.10 40.82 4.35
5839 6313 2.298610 GCCTATTACCTGGTTGGCTTC 58.701 52.381 18.81 0.00 40.22 3.86
5840 6314 2.092375 GCCTATTACCTGGTTGGCTTCT 60.092 50.000 18.81 0.00 40.22 2.85
5841 6315 3.624959 GCCTATTACCTGGTTGGCTTCTT 60.625 47.826 18.81 0.00 40.22 2.52
5842 6316 4.600062 CCTATTACCTGGTTGGCTTCTTT 58.400 43.478 3.84 0.00 40.22 2.52
5843 6317 4.640647 CCTATTACCTGGTTGGCTTCTTTC 59.359 45.833 3.84 0.00 40.22 2.62
5844 6318 3.586470 TTACCTGGTTGGCTTCTTTCA 57.414 42.857 3.84 0.00 40.22 2.69
5845 6319 1.692411 ACCTGGTTGGCTTCTTTCAC 58.308 50.000 0.00 0.00 40.22 3.18
5846 6320 0.961753 CCTGGTTGGCTTCTTTCACC 59.038 55.000 0.00 0.00 0.00 4.02
5847 6321 1.691196 CTGGTTGGCTTCTTTCACCA 58.309 50.000 0.00 0.00 0.00 4.17
5848 6322 1.338020 CTGGTTGGCTTCTTTCACCAC 59.662 52.381 0.00 0.00 31.83 4.16
5849 6323 0.310854 GGTTGGCTTCTTTCACCACG 59.689 55.000 0.00 0.00 31.83 4.94
5850 6324 0.317854 GTTGGCTTCTTTCACCACGC 60.318 55.000 0.00 0.00 31.83 5.34
5851 6325 1.452145 TTGGCTTCTTTCACCACGCC 61.452 55.000 0.00 0.00 38.01 5.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.712051 TGCCAGTATAGATGGAGCAATT 57.288 40.909 7.91 0.00 40.51 2.32
1 2 4.923516 ATGCCAGTATAGATGGAGCAAT 57.076 40.909 7.91 0.00 40.51 3.56
5 6 5.219343 TGTCAATGCCAGTATAGATGGAG 57.781 43.478 7.91 0.00 40.51 3.86
13 14 4.400251 CCTGATGTTTGTCAATGCCAGTAT 59.600 41.667 0.00 0.00 0.00 2.12
21 22 5.533903 GGATGATAGCCTGATGTTTGTCAAT 59.466 40.000 0.00 0.00 0.00 2.57
93 94 1.293924 GAATCATCGCACCTCAGTGG 58.706 55.000 0.00 0.00 44.69 4.00
105 106 8.706035 CCTCTTGAAAACAAAACATGAATCATC 58.294 33.333 0.00 0.00 0.00 2.92
135 136 2.835764 TGTTAGCAACGGAGGACCTTAT 59.164 45.455 0.00 0.00 0.00 1.73
155 156 6.604795 ACCCAATTTCTCCATGTCTATTCTTG 59.395 38.462 0.00 0.00 0.00 3.02
180 181 4.492303 GGGGATCCGACAGGGGGA 62.492 72.222 5.45 0.00 38.33 4.81
214 215 1.600023 TTAACGGTGGCAAGTTGGAG 58.400 50.000 16.71 0.00 0.00 3.86
229 230 8.876275 AAGTAAAAATTCCGGTCCTTTTTAAC 57.124 30.769 21.50 17.47 36.58 2.01
241 242 8.674607 AGGATGTTAAGCTAAGTAAAAATTCCG 58.325 33.333 0.00 0.00 0.00 4.30
261 262 7.451731 TGGGTTTCTCTAATTATGAGGATGT 57.548 36.000 10.26 0.00 32.78 3.06
291 292 2.507407 TAAGGAGATGGGGTTTGCAC 57.493 50.000 0.00 0.00 0.00 4.57
355 406 2.154462 GCACCTTGCATTGTACAGAGT 58.846 47.619 0.00 0.00 44.26 3.24
356 407 2.907910 GCACCTTGCATTGTACAGAG 57.092 50.000 0.00 0.00 44.26 3.35
368 419 1.533753 ACCAACCCCATGCACCTTG 60.534 57.895 0.00 0.00 0.00 3.61
369 420 1.533753 CACCAACCCCATGCACCTT 60.534 57.895 0.00 0.00 0.00 3.50
370 421 2.118076 CACCAACCCCATGCACCT 59.882 61.111 0.00 0.00 0.00 4.00
372 423 0.897863 TAAGCACCAACCCCATGCAC 60.898 55.000 0.00 0.00 41.97 4.57
373 424 0.611618 CTAAGCACCAACCCCATGCA 60.612 55.000 0.00 0.00 41.97 3.96
374 425 0.323360 TCTAAGCACCAACCCCATGC 60.323 55.000 0.00 0.00 39.74 4.06
376 427 1.668826 TCTCTAAGCACCAACCCCAT 58.331 50.000 0.00 0.00 0.00 4.00
378 429 2.579410 TTTCTCTAAGCACCAACCCC 57.421 50.000 0.00 0.00 0.00 4.95
380 431 8.276252 TGTATTTATTTCTCTAAGCACCAACC 57.724 34.615 0.00 0.00 0.00 3.77
401 452 8.345565 GCACCGATGATTAGAGAAAAATTGTAT 58.654 33.333 0.00 0.00 0.00 2.29
402 453 7.552687 AGCACCGATGATTAGAGAAAAATTGTA 59.447 33.333 0.00 0.00 0.00 2.41
403 454 6.375455 AGCACCGATGATTAGAGAAAAATTGT 59.625 34.615 0.00 0.00 0.00 2.71
404 455 6.789262 AGCACCGATGATTAGAGAAAAATTG 58.211 36.000 0.00 0.00 0.00 2.32
405 456 7.396540 AAGCACCGATGATTAGAGAAAAATT 57.603 32.000 0.00 0.00 31.02 1.82
406 457 8.682936 ATAAGCACCGATGATTAGAGAAAAAT 57.317 30.769 0.00 0.00 39.92 1.82
407 458 8.506168 AATAAGCACCGATGATTAGAGAAAAA 57.494 30.769 0.00 0.00 39.92 1.94
408 459 8.397906 CAAATAAGCACCGATGATTAGAGAAAA 58.602 33.333 0.00 0.00 39.92 2.29
409 460 7.552687 ACAAATAAGCACCGATGATTAGAGAAA 59.447 33.333 0.00 0.00 39.92 2.52
410 461 7.047891 ACAAATAAGCACCGATGATTAGAGAA 58.952 34.615 0.00 0.00 39.92 2.87
411 462 6.582636 ACAAATAAGCACCGATGATTAGAGA 58.417 36.000 0.00 0.00 39.92 3.10
412 463 6.851222 ACAAATAAGCACCGATGATTAGAG 57.149 37.500 0.00 0.00 39.92 2.43
413 464 7.722363 TCTACAAATAAGCACCGATGATTAGA 58.278 34.615 0.00 0.00 39.92 2.10
414 465 7.116948 CCTCTACAAATAAGCACCGATGATTAG 59.883 40.741 0.00 0.00 39.92 1.73
415 466 6.929049 CCTCTACAAATAAGCACCGATGATTA 59.071 38.462 0.00 0.00 40.79 1.75
416 467 5.760253 CCTCTACAAATAAGCACCGATGATT 59.240 40.000 0.00 0.00 38.26 2.57
417 468 5.300752 CCTCTACAAATAAGCACCGATGAT 58.699 41.667 0.00 0.00 0.00 2.45
418 469 4.442893 CCCTCTACAAATAAGCACCGATGA 60.443 45.833 0.00 0.00 0.00 2.92
419 470 3.809832 CCCTCTACAAATAAGCACCGATG 59.190 47.826 0.00 0.00 0.00 3.84
420 471 3.454812 ACCCTCTACAAATAAGCACCGAT 59.545 43.478 0.00 0.00 0.00 4.18
421 472 2.835764 ACCCTCTACAAATAAGCACCGA 59.164 45.455 0.00 0.00 0.00 4.69
422 473 3.261981 ACCCTCTACAAATAAGCACCG 57.738 47.619 0.00 0.00 0.00 4.94
423 474 5.358090 GTCTACCCTCTACAAATAAGCACC 58.642 45.833 0.00 0.00 0.00 5.01
424 475 5.041940 CGTCTACCCTCTACAAATAAGCAC 58.958 45.833 0.00 0.00 0.00 4.40
425 476 4.708421 ACGTCTACCCTCTACAAATAAGCA 59.292 41.667 0.00 0.00 0.00 3.91
426 477 5.259832 ACGTCTACCCTCTACAAATAAGC 57.740 43.478 0.00 0.00 0.00 3.09
427 478 9.813446 ATTAAACGTCTACCCTCTACAAATAAG 57.187 33.333 0.00 0.00 0.00 1.73
431 482 9.643693 CTTAATTAAACGTCTACCCTCTACAAA 57.356 33.333 0.00 0.00 0.00 2.83
432 483 7.761249 GCTTAATTAAACGTCTACCCTCTACAA 59.239 37.037 0.00 0.00 0.00 2.41
433 484 7.260603 GCTTAATTAAACGTCTACCCTCTACA 58.739 38.462 0.00 0.00 0.00 2.74
434 485 6.416161 CGCTTAATTAAACGTCTACCCTCTAC 59.584 42.308 11.87 0.00 0.00 2.59
435 486 6.095440 ACGCTTAATTAAACGTCTACCCTCTA 59.905 38.462 18.34 0.00 32.37 2.43
436 487 5.105595 ACGCTTAATTAAACGTCTACCCTCT 60.106 40.000 18.34 0.00 32.37 3.69
437 488 5.105063 ACGCTTAATTAAACGTCTACCCTC 58.895 41.667 18.34 0.00 32.37 4.30
438 489 5.077134 ACGCTTAATTAAACGTCTACCCT 57.923 39.130 18.34 0.00 32.37 4.34
439 490 6.476706 ACATACGCTTAATTAAACGTCTACCC 59.523 38.462 25.18 0.00 39.78 3.69
440 491 7.306225 GGACATACGCTTAATTAAACGTCTACC 60.306 40.741 25.18 19.75 39.78 3.18
441 492 7.433425 AGGACATACGCTTAATTAAACGTCTAC 59.567 37.037 25.18 16.17 39.78 2.59
442 493 7.483307 AGGACATACGCTTAATTAAACGTCTA 58.517 34.615 25.18 12.92 39.78 2.59
443 494 6.335777 AGGACATACGCTTAATTAAACGTCT 58.664 36.000 25.18 15.70 39.78 4.18
444 495 6.579491 AGGACATACGCTTAATTAAACGTC 57.421 37.500 25.18 13.67 39.78 4.34
445 496 9.748708 TTATAGGACATACGCTTAATTAAACGT 57.251 29.630 24.90 24.90 42.22 3.99
513 564 8.989653 AGTAAAACAAACCGATCTTTCAAAAA 57.010 26.923 0.00 0.00 0.00 1.94
515 566 9.724839 CTTAGTAAAACAAACCGATCTTTCAAA 57.275 29.630 0.00 0.00 0.00 2.69
516 567 7.858879 GCTTAGTAAAACAAACCGATCTTTCAA 59.141 33.333 0.00 0.00 0.00 2.69
517 568 7.012515 TGCTTAGTAAAACAAACCGATCTTTCA 59.987 33.333 0.00 0.00 0.00 2.69
518 569 7.357303 TGCTTAGTAAAACAAACCGATCTTTC 58.643 34.615 0.00 0.00 0.00 2.62
519 570 7.266922 TGCTTAGTAAAACAAACCGATCTTT 57.733 32.000 0.00 0.00 0.00 2.52
520 571 6.870971 TGCTTAGTAAAACAAACCGATCTT 57.129 33.333 0.00 0.00 0.00 2.40
521 572 6.879458 AGATGCTTAGTAAAACAAACCGATCT 59.121 34.615 0.00 0.00 0.00 2.75
522 573 7.073342 AGATGCTTAGTAAAACAAACCGATC 57.927 36.000 0.00 0.00 0.00 3.69
523 574 7.448748 AAGATGCTTAGTAAAACAAACCGAT 57.551 32.000 0.00 0.00 0.00 4.18
524 575 6.870971 AAGATGCTTAGTAAAACAAACCGA 57.129 33.333 0.00 0.00 0.00 4.69
525 576 6.915843 ACAAAGATGCTTAGTAAAACAAACCG 59.084 34.615 0.00 0.00 0.00 4.44
526 577 9.738832 TTACAAAGATGCTTAGTAAAACAAACC 57.261 29.630 0.00 0.00 0.00 3.27
535 586 9.162764 GGAAGATGTTTACAAAGATGCTTAGTA 57.837 33.333 0.00 0.00 0.00 1.82
536 587 7.665559 TGGAAGATGTTTACAAAGATGCTTAGT 59.334 33.333 0.00 0.00 0.00 2.24
537 588 8.044060 TGGAAGATGTTTACAAAGATGCTTAG 57.956 34.615 0.00 0.00 0.00 2.18
538 589 7.994425 TGGAAGATGTTTACAAAGATGCTTA 57.006 32.000 0.00 0.00 0.00 3.09
539 590 6.899393 TGGAAGATGTTTACAAAGATGCTT 57.101 33.333 0.00 0.00 0.00 3.91
540 591 7.472334 AATGGAAGATGTTTACAAAGATGCT 57.528 32.000 0.00 0.00 0.00 3.79
548 599 9.391006 GGTCTTGTATAATGGAAGATGTTTACA 57.609 33.333 0.00 0.00 0.00 2.41
549 600 9.614792 AGGTCTTGTATAATGGAAGATGTTTAC 57.385 33.333 0.00 0.00 0.00 2.01
553 604 9.838339 CTTAAGGTCTTGTATAATGGAAGATGT 57.162 33.333 0.00 0.00 0.00 3.06
554 605 8.778358 GCTTAAGGTCTTGTATAATGGAAGATG 58.222 37.037 4.29 0.00 0.00 2.90
555 606 8.494433 TGCTTAAGGTCTTGTATAATGGAAGAT 58.506 33.333 4.29 0.00 0.00 2.40
556 607 7.857456 TGCTTAAGGTCTTGTATAATGGAAGA 58.143 34.615 4.29 0.00 0.00 2.87
557 608 8.506168 TTGCTTAAGGTCTTGTATAATGGAAG 57.494 34.615 4.29 0.00 0.00 3.46
558 609 9.474313 AATTGCTTAAGGTCTTGTATAATGGAA 57.526 29.630 4.29 0.00 0.00 3.53
559 610 8.902806 CAATTGCTTAAGGTCTTGTATAATGGA 58.097 33.333 4.29 0.00 0.00 3.41
560 611 8.686334 ACAATTGCTTAAGGTCTTGTATAATGG 58.314 33.333 5.05 0.00 0.00 3.16
566 617 8.889717 GCTTATACAATTGCTTAAGGTCTTGTA 58.110 33.333 20.82 1.94 34.63 2.41
567 618 7.393234 TGCTTATACAATTGCTTAAGGTCTTGT 59.607 33.333 20.82 0.00 0.00 3.16
568 619 7.698130 GTGCTTATACAATTGCTTAAGGTCTTG 59.302 37.037 20.82 5.04 0.00 3.02
569 620 7.148069 GGTGCTTATACAATTGCTTAAGGTCTT 60.148 37.037 20.82 0.00 0.00 3.01
570 621 6.318900 GGTGCTTATACAATTGCTTAAGGTCT 59.681 38.462 20.82 0.00 0.00 3.85
571 622 6.459710 GGGTGCTTATACAATTGCTTAAGGTC 60.460 42.308 20.82 11.33 0.00 3.85
572 623 5.359860 GGGTGCTTATACAATTGCTTAAGGT 59.640 40.000 20.82 0.00 0.00 3.50
573 624 5.359576 TGGGTGCTTATACAATTGCTTAAGG 59.640 40.000 20.82 9.61 0.00 2.69
574 625 6.449635 TGGGTGCTTATACAATTGCTTAAG 57.550 37.500 17.52 17.52 0.00 1.85
575 626 6.605194 TGATGGGTGCTTATACAATTGCTTAA 59.395 34.615 5.05 3.13 0.00 1.85
576 627 6.125719 TGATGGGTGCTTATACAATTGCTTA 58.874 36.000 5.05 0.00 0.00 3.09
577 628 4.955450 TGATGGGTGCTTATACAATTGCTT 59.045 37.500 5.05 0.00 0.00 3.91
578 629 4.535781 TGATGGGTGCTTATACAATTGCT 58.464 39.130 5.05 0.00 0.00 3.91
579 630 4.916983 TGATGGGTGCTTATACAATTGC 57.083 40.909 5.05 0.00 0.00 3.56
587 638 9.466497 CCTTGTATAATAATGATGGGTGCTTAT 57.534 33.333 0.00 0.00 0.00 1.73
598 649 8.890472 ACTCCATTAGGCCTTGTATAATAATGA 58.110 33.333 12.58 1.20 34.19 2.57
600 651 9.117223 AGACTCCATTAGGCCTTGTATAATAAT 57.883 33.333 12.58 0.00 31.00 1.28
601 652 8.506196 AGACTCCATTAGGCCTTGTATAATAA 57.494 34.615 12.58 0.00 31.00 1.40
602 653 7.093902 CGAGACTCCATTAGGCCTTGTATAATA 60.094 40.741 12.58 0.00 31.00 0.98
612 663 1.941325 CAACGAGACTCCATTAGGCC 58.059 55.000 0.00 0.00 31.00 5.19
620 671 0.458025 CCTAACCGCAACGAGACTCC 60.458 60.000 0.00 0.00 0.00 3.85
621 672 0.524862 TCCTAACCGCAACGAGACTC 59.475 55.000 0.00 0.00 0.00 3.36
622 673 0.526662 CTCCTAACCGCAACGAGACT 59.473 55.000 0.00 0.00 0.00 3.24
716 1027 2.632634 GGGGAAGAGGAAGAAGGGGTAT 60.633 54.545 0.00 0.00 0.00 2.73
1230 1542 5.240403 ACAAGAAAGAAACAGAGAGGCAATC 59.760 40.000 0.00 0.00 0.00 2.67
1236 1548 5.747951 AAGCACAAGAAAGAAACAGAGAG 57.252 39.130 0.00 0.00 0.00 3.20
1486 1801 4.067192 GGCTTCCAAGATTTTTGCAATGT 58.933 39.130 0.00 0.00 0.00 2.71
1503 1818 7.001073 ACCTAATTGATCCTTCTAATGGCTTC 58.999 38.462 0.00 0.00 0.00 3.86
1507 1822 7.282585 TGTCACCTAATTGATCCTTCTAATGG 58.717 38.462 0.00 0.00 0.00 3.16
1596 1911 3.902261 TTGCACAAGTCAGCATAACAG 57.098 42.857 0.00 0.00 40.94 3.16
2423 2875 7.119262 CGAACATACTTTCCTTCATTGTAGGTT 59.881 37.037 8.94 0.00 39.62 3.50
2762 3214 1.867233 CTCATACGCCGGAATCCTTTG 59.133 52.381 5.05 0.00 0.00 2.77
2810 3262 2.945668 ACCAGCACTTGACTTCTGTTTC 59.054 45.455 0.00 0.00 0.00 2.78
3826 4282 0.445043 CACGATCCATGTGTGTGCAG 59.555 55.000 0.00 0.00 32.68 4.41
3961 4417 1.131883 CATGTTGCAGCTTACTGGAGC 59.868 52.381 1.17 0.00 45.77 4.70
4135 4591 7.384932 GCTTTCATAATATTGTTGCCCCATAAC 59.615 37.037 0.00 0.00 0.00 1.89
4528 4984 3.244249 ACTTCGCTCCTCTTTAGCAAGTT 60.244 43.478 0.00 0.00 37.71 2.66
4576 5032 7.599998 ACCAAGTTTTGATTTAGATGAATGTGC 59.400 33.333 0.00 0.00 0.00 4.57
4632 5088 2.908015 GGCCGCCAGGACTTATCA 59.092 61.111 3.91 0.00 44.23 2.15
4827 5283 4.157472 CAGCTAGTGTTCTCTGATCTCACA 59.843 45.833 0.00 0.00 0.00 3.58
4992 5450 5.650703 GTGGGTAAGTAACAATTGCCTACAT 59.349 40.000 16.51 9.83 41.44 2.29
4993 5451 5.005094 GTGGGTAAGTAACAATTGCCTACA 58.995 41.667 16.51 0.00 41.44 2.74
5124 5582 2.747446 GCCAGGTTTTCTATCAGCGAAA 59.253 45.455 0.00 0.00 0.00 3.46
5144 5602 5.335661 CCACCAATCTAAACCAAGTTACTGC 60.336 44.000 0.00 0.00 0.00 4.40
5259 5717 2.821366 GTCACCGATGGGCAGCTG 60.821 66.667 10.11 10.11 36.48 4.24
5438 5897 2.035961 CTCCAAGGAGTGTGACGAGAAA 59.964 50.000 7.98 0.00 37.47 2.52
5444 5903 1.003233 GGCCTCCAAGGAGTGTGAC 60.003 63.158 14.65 0.00 37.67 3.67
5467 5926 2.277591 TGCTCCAATGTTGCCCTGC 61.278 57.895 0.00 0.00 0.00 4.85
5633 6102 2.279810 TTGATCCACGGCGAGGTGA 61.280 57.895 22.43 5.19 40.38 4.02
5653 6122 2.134287 GCGATGAGCTCCCCACCTA 61.134 63.158 12.15 0.00 44.04 3.08
5701 6170 3.243569 CCCTAATGTTCTCCTACTGCTCG 60.244 52.174 0.00 0.00 0.00 5.03
5818 6292 1.295020 AGCCAACCAGGTAATAGGCA 58.705 50.000 21.10 0.00 44.34 4.75
5831 6305 0.317854 GCGTGGTGAAAGAAGCCAAC 60.318 55.000 0.00 0.00 33.66 3.77
5832 6306 1.452145 GGCGTGGTGAAAGAAGCCAA 61.452 55.000 0.00 0.00 43.65 4.52
5833 6307 1.896660 GGCGTGGTGAAAGAAGCCA 60.897 57.895 0.00 0.00 43.65 4.75
5834 6308 2.954611 GGCGTGGTGAAAGAAGCC 59.045 61.111 0.00 0.00 37.61 4.35


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

AutoCloner maintained by Alex Coulton.