Multiple sequence alignment - TraesCS3D01G186900

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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 TraesCS3D01G186900 chr3D 100.000 2261 0 0 1 2261 173595317 173597577 0.000000e+00 4176
1 TraesCS3D01G186900 chr3D 91.200 250 19 1 1 247 101851856 101852105 1.000000e-88 337
2 TraesCS3D01G186900 chr3D 90.514 253 19 3 1 248 276436483 276436735 1.670000e-86 329
3 TraesCS3D01G186900 chr3D 90.438 251 19 4 1 248 156996785 156996537 2.170000e-85 326
4 TraesCS3D01G186900 chr3B 90.360 1805 85 30 403 2141 252343173 252344954 0.000000e+00 2287
5 TraesCS3D01G186900 chr3B 98.361 122 2 0 2140 2261 252345116 252345237 4.890000e-52 215
6 TraesCS3D01G186900 chr3A 91.455 1498 75 20 403 1874 211953366 211954836 0.000000e+00 2008
7 TraesCS3D01G186900 chr3A 90.873 252 19 2 1 249 488093669 488093419 3.600000e-88 335
8 TraesCS3D01G186900 chr3A 93.277 119 7 1 2143 2261 211955732 211955849 8.300000e-40 174
9 TraesCS3D01G186900 chr2A 92.520 254 15 2 1 250 207773577 207773324 5.940000e-96 361
10 TraesCS3D01G186900 chr2A 90.079 252 17 6 1 248 207773861 207773614 1.010000e-83 320
11 TraesCS3D01G186900 chr1D 90.476 252 19 3 1 248 214501394 214501644 6.020000e-86 327
12 TraesCS3D01G186900 chr7A 89.883 257 20 4 1 252 201212006 201212261 2.170000e-85 326
13 TraesCS3D01G186900 chr5A 90.476 252 16 6 1 248 88054457 88054210 2.170000e-85 326


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 TraesCS3D01G186900 chr3D 173595317 173597577 2260 False 4176.0 4176 100.0000 1 2261 1 chr3D.!!$F2 2260
1 TraesCS3D01G186900 chr3B 252343173 252345237 2064 False 1251.0 2287 94.3605 403 2261 2 chr3B.!!$F1 1858
2 TraesCS3D01G186900 chr3A 211953366 211955849 2483 False 1091.0 2008 92.3660 403 2261 2 chr3A.!!$F1 1858
3 TraesCS3D01G186900 chr2A 207773324 207773861 537 True 340.5 361 91.2995 1 250 2 chr2A.!!$R1 249

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
335 624 0.0293 TTGCTCTCGTGCTTGCAAAC 59.971 50.0 0.0 0.0 41.58 2.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1295 1637 0.236711 CTCGGCAAGCAAACACAGAG 59.763 55.0 0.0 0.0 0.0 3.35 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
52 337 4.130286 AGAGAGATCGGTTGATTTGGAC 57.870 45.455 0.00 0.00 34.09 4.02
143 429 6.544564 AGAGAAAAATAAACCAACGTGGAGAA 59.455 34.615 10.46 0.00 40.96 2.87
203 489 3.593442 AAGATTGAAAGTGGTGGGACA 57.407 42.857 0.00 0.00 0.00 4.02
214 500 4.290942 AGTGGTGGGACAAAAATAAACCA 58.709 39.130 0.00 0.00 44.16 3.67
231 520 3.703001 ACCATACTCAACCAACTCAGG 57.297 47.619 0.00 0.00 0.00 3.86
250 539 6.663093 ACTCAGGCATTAGGAGTAGAGATATG 59.337 42.308 0.00 0.00 39.95 1.78
251 540 6.794534 TCAGGCATTAGGAGTAGAGATATGA 58.205 40.000 0.00 0.00 0.00 2.15
252 541 7.241628 TCAGGCATTAGGAGTAGAGATATGAA 58.758 38.462 0.00 0.00 0.00 2.57
253 542 7.898100 TCAGGCATTAGGAGTAGAGATATGAAT 59.102 37.037 0.00 0.00 0.00 2.57
254 543 8.196771 CAGGCATTAGGAGTAGAGATATGAATC 58.803 40.741 0.00 0.00 0.00 2.52
255 544 7.898100 AGGCATTAGGAGTAGAGATATGAATCA 59.102 37.037 0.00 0.00 34.28 2.57
256 545 8.535335 GGCATTAGGAGTAGAGATATGAATCAA 58.465 37.037 0.00 0.00 34.28 2.57
257 546 9.364989 GCATTAGGAGTAGAGATATGAATCAAC 57.635 37.037 0.00 0.00 34.28 3.18
260 549 7.537596 AGGAGTAGAGATATGAATCAACAGG 57.462 40.000 0.00 0.00 34.28 4.00
261 550 7.301420 AGGAGTAGAGATATGAATCAACAGGA 58.699 38.462 0.00 0.00 34.28 3.86
262 551 7.451255 AGGAGTAGAGATATGAATCAACAGGAG 59.549 40.741 0.00 0.00 34.28 3.69
263 552 7.450014 GGAGTAGAGATATGAATCAACAGGAGA 59.550 40.741 0.00 0.00 34.28 3.71
264 553 8.408043 AGTAGAGATATGAATCAACAGGAGAG 57.592 38.462 0.00 0.00 34.28 3.20
265 554 6.100404 AGAGATATGAATCAACAGGAGAGC 57.900 41.667 0.00 0.00 34.28 4.09
266 555 5.840149 AGAGATATGAATCAACAGGAGAGCT 59.160 40.000 0.00 0.00 34.28 4.09
267 556 5.856156 AGATATGAATCAACAGGAGAGCTG 58.144 41.667 0.00 0.00 34.28 4.24
268 557 2.775911 TGAATCAACAGGAGAGCTGG 57.224 50.000 0.00 0.00 0.00 4.85
269 558 1.339438 TGAATCAACAGGAGAGCTGGC 60.339 52.381 0.00 0.00 0.00 4.85
270 559 0.990374 AATCAACAGGAGAGCTGGCT 59.010 50.000 0.00 0.00 0.00 4.75
271 560 0.990374 ATCAACAGGAGAGCTGGCTT 59.010 50.000 0.00 0.00 0.00 4.35
272 561 0.322975 TCAACAGGAGAGCTGGCTTC 59.677 55.000 0.00 0.00 0.00 3.86
273 562 0.324285 CAACAGGAGAGCTGGCTTCT 59.676 55.000 0.00 0.00 0.00 2.85
274 563 1.552337 CAACAGGAGAGCTGGCTTCTA 59.448 52.381 0.00 0.00 0.00 2.10
275 564 1.190643 ACAGGAGAGCTGGCTTCTAC 58.809 55.000 0.00 0.00 0.00 2.59
276 565 0.463620 CAGGAGAGCTGGCTTCTACC 59.536 60.000 0.00 0.00 0.00 3.18
277 566 0.338120 AGGAGAGCTGGCTTCTACCT 59.662 55.000 0.00 1.55 0.00 3.08
278 567 0.750249 GGAGAGCTGGCTTCTACCTC 59.250 60.000 0.00 0.00 0.00 3.85
279 568 0.750249 GAGAGCTGGCTTCTACCTCC 59.250 60.000 0.00 0.00 0.00 4.30
280 569 1.040339 AGAGCTGGCTTCTACCTCCG 61.040 60.000 0.00 0.00 0.00 4.63
281 570 1.000486 AGCTGGCTTCTACCTCCGA 60.000 57.895 0.00 0.00 0.00 4.55
282 571 0.397816 AGCTGGCTTCTACCTCCGAT 60.398 55.000 0.00 0.00 0.00 4.18
283 572 0.466124 GCTGGCTTCTACCTCCGATT 59.534 55.000 0.00 0.00 0.00 3.34
284 573 1.134371 GCTGGCTTCTACCTCCGATTT 60.134 52.381 0.00 0.00 0.00 2.17
285 574 2.102588 GCTGGCTTCTACCTCCGATTTA 59.897 50.000 0.00 0.00 0.00 1.40
286 575 3.244249 GCTGGCTTCTACCTCCGATTTAT 60.244 47.826 0.00 0.00 0.00 1.40
287 576 4.310769 CTGGCTTCTACCTCCGATTTATG 58.689 47.826 0.00 0.00 0.00 1.90
288 577 3.071023 TGGCTTCTACCTCCGATTTATGG 59.929 47.826 0.00 0.00 0.00 2.74
289 578 3.071167 GGCTTCTACCTCCGATTTATGGT 59.929 47.826 0.00 0.00 36.66 3.55
290 579 4.058817 GCTTCTACCTCCGATTTATGGTG 58.941 47.826 0.00 0.00 34.33 4.17
291 580 4.632153 CTTCTACCTCCGATTTATGGTGG 58.368 47.826 0.00 0.00 44.08 4.61
295 584 3.560636 CCTCCGATTTATGGTGGTTCT 57.439 47.619 0.00 0.00 35.79 3.01
296 585 3.886123 CCTCCGATTTATGGTGGTTCTT 58.114 45.455 0.00 0.00 35.79 2.52
297 586 4.270008 CCTCCGATTTATGGTGGTTCTTT 58.730 43.478 0.00 0.00 35.79 2.52
298 587 4.335594 CCTCCGATTTATGGTGGTTCTTTC 59.664 45.833 0.00 0.00 35.79 2.62
299 588 4.266714 TCCGATTTATGGTGGTTCTTTCC 58.733 43.478 0.00 0.00 0.00 3.13
300 589 4.018779 TCCGATTTATGGTGGTTCTTTCCT 60.019 41.667 0.00 0.00 0.00 3.36
301 590 4.335594 CCGATTTATGGTGGTTCTTTCCTC 59.664 45.833 0.00 0.00 0.00 3.71
302 591 5.186198 CGATTTATGGTGGTTCTTTCCTCT 58.814 41.667 0.00 0.00 0.00 3.69
303 592 5.648092 CGATTTATGGTGGTTCTTTCCTCTT 59.352 40.000 0.00 0.00 0.00 2.85
304 593 6.183360 CGATTTATGGTGGTTCTTTCCTCTTC 60.183 42.308 0.00 0.00 0.00 2.87
305 594 5.843019 TTATGGTGGTTCTTTCCTCTTCT 57.157 39.130 0.00 0.00 0.00 2.85
306 595 4.731313 ATGGTGGTTCTTTCCTCTTCTT 57.269 40.909 0.00 0.00 0.00 2.52
307 596 4.519906 TGGTGGTTCTTTCCTCTTCTTT 57.480 40.909 0.00 0.00 0.00 2.52
308 597 4.867086 TGGTGGTTCTTTCCTCTTCTTTT 58.133 39.130 0.00 0.00 0.00 2.27
309 598 4.887655 TGGTGGTTCTTTCCTCTTCTTTTC 59.112 41.667 0.00 0.00 0.00 2.29
310 599 4.023963 GGTGGTTCTTTCCTCTTCTTTTCG 60.024 45.833 0.00 0.00 0.00 3.46
311 600 4.814771 GTGGTTCTTTCCTCTTCTTTTCGA 59.185 41.667 0.00 0.00 0.00 3.71
312 601 4.814771 TGGTTCTTTCCTCTTCTTTTCGAC 59.185 41.667 0.00 0.00 0.00 4.20
313 602 4.213694 GGTTCTTTCCTCTTCTTTTCGACC 59.786 45.833 0.00 0.00 0.00 4.79
314 603 4.004196 TCTTTCCTCTTCTTTTCGACCC 57.996 45.455 0.00 0.00 0.00 4.46
315 604 2.853235 TTCCTCTTCTTTTCGACCCC 57.147 50.000 0.00 0.00 0.00 4.95
316 605 2.025636 TCCTCTTCTTTTCGACCCCT 57.974 50.000 0.00 0.00 0.00 4.79
317 606 2.335933 TCCTCTTCTTTTCGACCCCTT 58.664 47.619 0.00 0.00 0.00 3.95
318 607 2.038557 TCCTCTTCTTTTCGACCCCTTG 59.961 50.000 0.00 0.00 0.00 3.61
319 608 1.807142 CTCTTCTTTTCGACCCCTTGC 59.193 52.381 0.00 0.00 0.00 4.01
320 609 1.420138 TCTTCTTTTCGACCCCTTGCT 59.580 47.619 0.00 0.00 0.00 3.91
321 610 1.807142 CTTCTTTTCGACCCCTTGCTC 59.193 52.381 0.00 0.00 0.00 4.26
322 611 1.056660 TCTTTTCGACCCCTTGCTCT 58.943 50.000 0.00 0.00 0.00 4.09
323 612 1.002087 TCTTTTCGACCCCTTGCTCTC 59.998 52.381 0.00 0.00 0.00 3.20
324 613 0.320421 TTTTCGACCCCTTGCTCTCG 60.320 55.000 0.00 0.00 0.00 4.04
325 614 1.469335 TTTCGACCCCTTGCTCTCGT 61.469 55.000 0.00 0.00 0.00 4.18
326 615 2.125912 CGACCCCTTGCTCTCGTG 60.126 66.667 0.00 0.00 0.00 4.35
327 616 2.435059 GACCCCTTGCTCTCGTGC 60.435 66.667 0.00 0.00 0.00 5.34
328 617 2.925170 ACCCCTTGCTCTCGTGCT 60.925 61.111 0.00 0.00 0.00 4.40
329 618 2.348998 CCCCTTGCTCTCGTGCTT 59.651 61.111 0.00 0.00 0.00 3.91
330 619 2.037136 CCCCTTGCTCTCGTGCTTG 61.037 63.158 0.00 0.00 0.00 4.01
331 620 2.684843 CCCTTGCTCTCGTGCTTGC 61.685 63.158 0.00 0.00 0.00 4.01
332 621 1.962822 CCTTGCTCTCGTGCTTGCA 60.963 57.895 0.00 0.00 0.00 4.08
333 622 1.509644 CCTTGCTCTCGTGCTTGCAA 61.510 55.000 0.00 0.00 42.16 4.08
334 623 0.308684 CTTGCTCTCGTGCTTGCAAA 59.691 50.000 0.00 0.00 43.45 3.68
335 624 0.029300 TTGCTCTCGTGCTTGCAAAC 59.971 50.000 0.00 0.00 41.58 2.93
336 625 1.081840 GCTCTCGTGCTTGCAAACC 60.082 57.895 0.00 0.00 0.00 3.27
337 626 1.205064 CTCTCGTGCTTGCAAACCG 59.795 57.895 0.00 3.09 0.00 4.44
338 627 1.221466 CTCTCGTGCTTGCAAACCGA 61.221 55.000 0.00 7.54 0.00 4.69
339 628 0.602638 TCTCGTGCTTGCAAACCGAT 60.603 50.000 13.11 0.00 0.00 4.18
340 629 1.075542 CTCGTGCTTGCAAACCGATA 58.924 50.000 13.11 0.00 0.00 2.92
341 630 1.665679 CTCGTGCTTGCAAACCGATAT 59.334 47.619 13.11 0.00 0.00 1.63
342 631 2.080693 TCGTGCTTGCAAACCGATATT 58.919 42.857 0.00 0.00 0.00 1.28
343 632 2.095213 TCGTGCTTGCAAACCGATATTC 59.905 45.455 0.00 0.00 0.00 1.75
344 633 2.159585 CGTGCTTGCAAACCGATATTCA 60.160 45.455 0.00 0.00 0.00 2.57
345 634 3.171277 GTGCTTGCAAACCGATATTCAC 58.829 45.455 0.00 0.00 0.00 3.18
346 635 3.081061 TGCTTGCAAACCGATATTCACT 58.919 40.909 0.00 0.00 0.00 3.41
347 636 3.505680 TGCTTGCAAACCGATATTCACTT 59.494 39.130 0.00 0.00 0.00 3.16
348 637 3.853671 GCTTGCAAACCGATATTCACTTG 59.146 43.478 0.00 0.00 0.00 3.16
349 638 4.615912 GCTTGCAAACCGATATTCACTTGT 60.616 41.667 0.00 0.00 0.00 3.16
350 639 5.446143 TTGCAAACCGATATTCACTTGTT 57.554 34.783 0.00 0.00 0.00 2.83
351 640 5.041951 TGCAAACCGATATTCACTTGTTC 57.958 39.130 0.00 0.00 0.00 3.18
352 641 4.517075 TGCAAACCGATATTCACTTGTTCA 59.483 37.500 0.00 0.00 0.00 3.18
353 642 5.009110 TGCAAACCGATATTCACTTGTTCAA 59.991 36.000 0.00 0.00 0.00 2.69
354 643 5.342259 GCAAACCGATATTCACTTGTTCAAC 59.658 40.000 0.00 0.00 0.00 3.18
355 644 5.622770 AACCGATATTCACTTGTTCAACC 57.377 39.130 0.00 0.00 0.00 3.77
356 645 4.906618 ACCGATATTCACTTGTTCAACCT 58.093 39.130 0.00 0.00 0.00 3.50
357 646 4.695455 ACCGATATTCACTTGTTCAACCTG 59.305 41.667 0.00 0.00 0.00 4.00
358 647 4.935205 CCGATATTCACTTGTTCAACCTGA 59.065 41.667 0.00 0.00 0.00 3.86
359 648 5.411361 CCGATATTCACTTGTTCAACCTGAA 59.589 40.000 0.00 0.00 33.32 3.02
371 660 4.705110 TCAACCTGAACTTGAGGAATCA 57.295 40.909 0.64 0.00 34.37 2.57
372 661 4.389374 TCAACCTGAACTTGAGGAATCAC 58.611 43.478 0.64 0.00 34.37 3.06
373 662 4.103153 TCAACCTGAACTTGAGGAATCACT 59.897 41.667 0.64 0.00 34.37 3.41
374 663 4.713792 ACCTGAACTTGAGGAATCACTT 57.286 40.909 0.64 0.00 34.37 3.16
375 664 4.646572 ACCTGAACTTGAGGAATCACTTC 58.353 43.478 0.64 0.00 34.37 3.01
376 665 3.681897 CCTGAACTTGAGGAATCACTTCG 59.318 47.826 0.00 0.00 31.48 3.79
377 666 3.067106 TGAACTTGAGGAATCACTTCGC 58.933 45.455 0.00 0.00 31.75 4.70
378 667 3.244215 TGAACTTGAGGAATCACTTCGCT 60.244 43.478 0.00 0.00 31.75 4.93
379 668 2.966050 ACTTGAGGAATCACTTCGCTC 58.034 47.619 0.00 0.00 33.13 5.03
380 669 2.300152 ACTTGAGGAATCACTTCGCTCA 59.700 45.455 0.00 0.00 37.13 4.26
381 670 2.370281 TGAGGAATCACTTCGCTCAC 57.630 50.000 0.00 0.00 35.54 3.51
382 671 1.618343 TGAGGAATCACTTCGCTCACA 59.382 47.619 0.00 0.00 35.54 3.58
383 672 2.234661 TGAGGAATCACTTCGCTCACAT 59.765 45.455 0.00 0.00 35.54 3.21
384 673 2.606725 GAGGAATCACTTCGCTCACATG 59.393 50.000 0.00 0.00 32.94 3.21
385 674 1.667724 GGAATCACTTCGCTCACATGG 59.332 52.381 0.00 0.00 31.75 3.66
386 675 2.621338 GAATCACTTCGCTCACATGGA 58.379 47.619 0.00 0.00 0.00 3.41
387 676 2.768253 ATCACTTCGCTCACATGGAA 57.232 45.000 0.00 0.00 0.00 3.53
388 677 2.084610 TCACTTCGCTCACATGGAAG 57.915 50.000 0.00 2.34 42.16 3.46
389 678 1.081892 CACTTCGCTCACATGGAAGG 58.918 55.000 11.71 0.56 41.06 3.46
390 679 0.674895 ACTTCGCTCACATGGAAGGC 60.675 55.000 11.71 3.67 41.06 4.35
391 680 0.674581 CTTCGCTCACATGGAAGGCA 60.675 55.000 0.00 0.00 34.85 4.75
392 681 0.250684 TTCGCTCACATGGAAGGCAA 60.251 50.000 0.00 0.00 0.00 4.52
393 682 0.250684 TCGCTCACATGGAAGGCAAA 60.251 50.000 0.00 0.00 0.00 3.68
394 683 0.109597 CGCTCACATGGAAGGCAAAC 60.110 55.000 0.00 0.00 0.00 2.93
395 684 0.109597 GCTCACATGGAAGGCAAACG 60.110 55.000 0.00 0.00 0.00 3.60
396 685 1.522668 CTCACATGGAAGGCAAACGA 58.477 50.000 0.00 0.00 0.00 3.85
397 686 1.466167 CTCACATGGAAGGCAAACGAG 59.534 52.381 0.00 0.00 0.00 4.18
398 687 1.202758 TCACATGGAAGGCAAACGAGT 60.203 47.619 0.00 0.00 0.00 4.18
399 688 1.069022 CACATGGAAGGCAAACGAGTG 60.069 52.381 0.00 0.00 0.00 3.51
400 689 1.202758 ACATGGAAGGCAAACGAGTGA 60.203 47.619 0.00 0.00 0.00 3.41
401 690 1.466167 CATGGAAGGCAAACGAGTGAG 59.534 52.381 0.00 0.00 0.00 3.51
402 691 0.756294 TGGAAGGCAAACGAGTGAGA 59.244 50.000 0.00 0.00 0.00 3.27
403 692 1.347707 TGGAAGGCAAACGAGTGAGAT 59.652 47.619 0.00 0.00 0.00 2.75
404 693 2.565391 TGGAAGGCAAACGAGTGAGATA 59.435 45.455 0.00 0.00 0.00 1.98
405 694 3.197766 TGGAAGGCAAACGAGTGAGATAT 59.802 43.478 0.00 0.00 0.00 1.63
406 695 3.804873 GGAAGGCAAACGAGTGAGATATC 59.195 47.826 0.00 0.00 0.00 1.63
407 696 4.442192 GGAAGGCAAACGAGTGAGATATCT 60.442 45.833 4.47 4.47 0.00 1.98
408 697 4.052159 AGGCAAACGAGTGAGATATCTG 57.948 45.455 10.74 0.00 0.00 2.90
432 721 2.433664 CGGGTTAGCCACGTGGAC 60.434 66.667 38.30 26.95 37.39 4.02
437 726 1.609580 GGTTAGCCACGTGGACAATGA 60.610 52.381 38.30 13.74 37.39 2.57
441 730 1.336755 AGCCACGTGGACAATGAAAAC 59.663 47.619 38.30 15.70 37.39 2.43
444 733 2.287547 CCACGTGGACAATGAAAACTGG 60.288 50.000 31.31 0.00 37.39 4.00
555 844 1.270518 ACACACACAGGATCAGCTGAC 60.271 52.381 20.97 12.88 0.00 3.51
587 897 2.319136 TCACCACGGCATAATACCAC 57.681 50.000 0.00 0.00 0.00 4.16
592 902 1.601903 CACGGCATAATACCACGCATT 59.398 47.619 0.00 0.00 0.00 3.56
637 950 2.171870 AGAGAAAAACCACGTCTCCCAA 59.828 45.455 0.00 0.00 38.89 4.12
638 951 2.548480 GAGAAAAACCACGTCTCCCAAG 59.452 50.000 0.00 0.00 33.16 3.61
663 979 5.799681 AAACAAAATGGCAAGTTGACAAG 57.200 34.783 17.03 8.75 39.86 3.16
858 1180 2.934553 GCGTATAAAGACCACACCCTTC 59.065 50.000 0.00 0.00 0.00 3.46
881 1203 1.227999 TTAGCCGCAGCGCCATAATC 61.228 55.000 10.07 0.00 46.67 1.75
982 1309 0.535102 CAACGCCCAACAGAGAGGTT 60.535 55.000 0.00 0.00 0.00 3.50
985 1312 0.320374 CGCCCAACAGAGAGGTTGTA 59.680 55.000 5.45 0.00 45.16 2.41
1106 1439 4.020617 CAGCCTGCGGGAGTTCCA 62.021 66.667 18.31 0.00 37.91 3.53
1190 1526 0.467804 GAGGTGAAGGATGAGGAGCC 59.532 60.000 0.00 0.00 0.00 4.70
1191 1527 1.144936 GGTGAAGGATGAGGAGCCG 59.855 63.158 0.00 0.00 30.49 5.52
1192 1528 1.617947 GGTGAAGGATGAGGAGCCGT 61.618 60.000 0.00 0.00 30.49 5.68
1295 1637 2.435059 GCTGACTCGGGAGGTTGC 60.435 66.667 0.00 0.00 0.00 4.17
1305 1664 0.954452 GGGAGGTTGCTCTGTGTTTG 59.046 55.000 0.00 0.00 0.00 2.93
1306 1665 0.312102 GGAGGTTGCTCTGTGTTTGC 59.688 55.000 0.00 0.00 0.00 3.68
1331 1690 2.478709 CCGAGGACGAAGAAGAGATGTG 60.479 54.545 0.00 0.00 42.66 3.21
1337 1696 3.854666 ACGAAGAAGAGATGTGATGTGG 58.145 45.455 0.00 0.00 0.00 4.17
1418 1777 3.551846 TGTTCTCCCTGTGTTCCTTTTC 58.448 45.455 0.00 0.00 0.00 2.29
1432 1791 3.378339 TCCTTTTCGTCTCGTGACTTTC 58.622 45.455 15.02 0.00 40.86 2.62
1437 1809 3.984508 TCGTCTCGTGACTTTCTCTTT 57.015 42.857 15.02 0.00 40.86 2.52
1450 1822 3.893753 TTCTCTTTGGGGATTCAACCA 57.106 42.857 0.00 0.00 34.29 3.67
1469 1841 7.970102 TCAACCATCTGATCAGATCATAATCA 58.030 34.615 31.15 12.28 45.78 2.57
1587 1959 2.417719 GCGGATAATGACAGTCCATCC 58.582 52.381 12.82 12.82 33.28 3.51
1623 1997 0.668706 CACCTTCTCTGCGTGGACTG 60.669 60.000 0.00 0.00 0.00 3.51
1635 2009 1.400142 CGTGGACTGCAGAAAACAACA 59.600 47.619 23.35 5.24 0.00 3.33
1644 2018 3.862267 TGCAGAAAACAACACATTTTCCG 59.138 39.130 6.59 0.00 43.92 4.30
1659 2033 6.305399 CACATTTTCCGTATACAAACTTGCAG 59.695 38.462 3.32 0.00 0.00 4.41
1664 2038 3.370978 CCGTATACAAACTTGCAGTCCAG 59.629 47.826 3.32 0.00 0.00 3.86
1854 2230 0.560688 ATGGGTGGTGGGTTGTCTTT 59.439 50.000 0.00 0.00 0.00 2.52
1890 2736 0.520404 GCATATCTGCCATTCCTGCG 59.480 55.000 0.00 0.00 42.88 5.18
2104 2958 6.966632 CCCACAACGATTGTTCATATTACAAG 59.033 38.462 0.00 0.00 43.23 3.16
2111 2965 4.209307 TGTTCATATTACAAGCCCGACA 57.791 40.909 0.00 0.00 0.00 4.35
2132 2986 4.520492 ACAGTGATTTCCCTACAAAGCAAG 59.480 41.667 0.00 0.00 33.63 4.01
2198 3273 5.552178 ACAGTAACAGTTTCTCCTTGGATC 58.448 41.667 0.00 0.00 0.00 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 326 8.887036 AACTTTCCTAATTTGTCCAAATCAAC 57.113 30.769 5.77 0.00 39.88 3.18
52 337 7.429636 TCACGGACTAAACTTTCCTAATTTG 57.570 36.000 0.00 0.00 0.00 2.32
83 368 3.611766 AGCAGCACTTTCCTAACGTAT 57.388 42.857 0.00 0.00 0.00 3.06
120 405 6.702716 TTCTCCACGTTGGTTTATTTTTCT 57.297 33.333 0.00 0.00 39.03 2.52
121 406 6.364976 CCATTCTCCACGTTGGTTTATTTTTC 59.635 38.462 0.00 0.00 39.03 2.29
136 422 0.035056 CTCCCACCACCATTCTCCAC 60.035 60.000 0.00 0.00 0.00 4.02
143 429 2.214057 ATCTCCCCTCCCACCACCAT 62.214 60.000 0.00 0.00 0.00 3.55
184 470 3.593442 TTGTCCCACCACTTTCAATCT 57.407 42.857 0.00 0.00 0.00 2.40
186 472 5.628797 ATTTTTGTCCCACCACTTTCAAT 57.371 34.783 0.00 0.00 0.00 2.57
203 489 8.919145 TGAGTTGGTTGAGTATGGTTTATTTTT 58.081 29.630 0.00 0.00 0.00 1.94
214 500 4.307032 AATGCCTGAGTTGGTTGAGTAT 57.693 40.909 0.00 0.00 0.00 2.12
231 520 9.364989 GTTGATTCATATCTCTACTCCTAATGC 57.635 37.037 0.00 0.00 0.00 3.56
250 539 1.065564 AGCCAGCTCTCCTGTTGATTC 60.066 52.381 0.00 0.00 40.06 2.52
251 540 0.990374 AGCCAGCTCTCCTGTTGATT 59.010 50.000 0.00 0.00 40.06 2.57
252 541 0.990374 AAGCCAGCTCTCCTGTTGAT 59.010 50.000 0.00 0.00 40.06 2.57
253 542 0.322975 GAAGCCAGCTCTCCTGTTGA 59.677 55.000 0.00 0.00 40.06 3.18
254 543 0.324285 AGAAGCCAGCTCTCCTGTTG 59.676 55.000 0.00 0.00 40.06 3.33
255 544 1.552792 GTAGAAGCCAGCTCTCCTGTT 59.447 52.381 0.00 0.00 40.06 3.16
256 545 1.190643 GTAGAAGCCAGCTCTCCTGT 58.809 55.000 0.00 0.00 40.06 4.00
257 546 0.463620 GGTAGAAGCCAGCTCTCCTG 59.536 60.000 0.00 0.00 41.41 3.86
258 547 0.338120 AGGTAGAAGCCAGCTCTCCT 59.662 55.000 0.00 0.00 0.00 3.69
259 548 0.750249 GAGGTAGAAGCCAGCTCTCC 59.250 60.000 0.00 0.00 37.51 3.71
260 549 0.750249 GGAGGTAGAAGCCAGCTCTC 59.250 60.000 0.00 0.00 39.82 3.20
261 550 1.040339 CGGAGGTAGAAGCCAGCTCT 61.040 60.000 0.00 0.00 39.82 4.09
262 551 1.038130 TCGGAGGTAGAAGCCAGCTC 61.038 60.000 0.00 0.00 39.31 4.09
263 552 0.397816 ATCGGAGGTAGAAGCCAGCT 60.398 55.000 0.00 0.00 0.00 4.24
264 553 0.466124 AATCGGAGGTAGAAGCCAGC 59.534 55.000 0.00 0.00 0.00 4.85
265 554 2.990066 AAATCGGAGGTAGAAGCCAG 57.010 50.000 0.00 0.00 0.00 4.85
266 555 3.071023 CCATAAATCGGAGGTAGAAGCCA 59.929 47.826 0.00 0.00 0.00 4.75
267 556 3.071167 ACCATAAATCGGAGGTAGAAGCC 59.929 47.826 0.00 0.00 31.32 4.35
268 557 4.058817 CACCATAAATCGGAGGTAGAAGC 58.941 47.826 0.00 0.00 32.01 3.86
269 558 4.101119 ACCACCATAAATCGGAGGTAGAAG 59.899 45.833 0.00 0.00 44.63 2.85
270 559 4.035112 ACCACCATAAATCGGAGGTAGAA 58.965 43.478 0.00 0.00 44.63 2.10
271 560 3.649843 ACCACCATAAATCGGAGGTAGA 58.350 45.455 0.00 0.00 44.63 2.59
272 561 4.101119 AGAACCACCATAAATCGGAGGTAG 59.899 45.833 0.00 0.00 45.58 3.18
273 562 4.035112 AGAACCACCATAAATCGGAGGTA 58.965 43.478 0.00 0.00 45.58 3.08
275 564 3.560636 AGAACCACCATAAATCGGAGG 57.439 47.619 0.00 0.00 39.93 4.30
276 565 4.335594 GGAAAGAACCACCATAAATCGGAG 59.664 45.833 0.00 0.00 0.00 4.63
277 566 4.018779 AGGAAAGAACCACCATAAATCGGA 60.019 41.667 0.00 0.00 0.00 4.55
278 567 4.270008 AGGAAAGAACCACCATAAATCGG 58.730 43.478 0.00 0.00 0.00 4.18
279 568 5.186198 AGAGGAAAGAACCACCATAAATCG 58.814 41.667 0.00 0.00 0.00 3.34
280 569 6.887002 AGAAGAGGAAAGAACCACCATAAATC 59.113 38.462 0.00 0.00 0.00 2.17
281 570 6.794534 AGAAGAGGAAAGAACCACCATAAAT 58.205 36.000 0.00 0.00 0.00 1.40
282 571 6.200878 AGAAGAGGAAAGAACCACCATAAA 57.799 37.500 0.00 0.00 0.00 1.40
283 572 5.843019 AGAAGAGGAAAGAACCACCATAA 57.157 39.130 0.00 0.00 0.00 1.90
284 573 5.843019 AAGAAGAGGAAAGAACCACCATA 57.157 39.130 0.00 0.00 0.00 2.74
285 574 4.731313 AAGAAGAGGAAAGAACCACCAT 57.269 40.909 0.00 0.00 0.00 3.55
286 575 4.519906 AAAGAAGAGGAAAGAACCACCA 57.480 40.909 0.00 0.00 0.00 4.17
287 576 4.023963 CGAAAAGAAGAGGAAAGAACCACC 60.024 45.833 0.00 0.00 0.00 4.61
288 577 4.814771 TCGAAAAGAAGAGGAAAGAACCAC 59.185 41.667 0.00 0.00 0.00 4.16
289 578 4.814771 GTCGAAAAGAAGAGGAAAGAACCA 59.185 41.667 0.00 0.00 0.00 3.67
290 579 4.213694 GGTCGAAAAGAAGAGGAAAGAACC 59.786 45.833 0.00 0.00 0.00 3.62
291 580 4.213694 GGGTCGAAAAGAAGAGGAAAGAAC 59.786 45.833 0.00 0.00 0.00 3.01
292 581 4.386711 GGGTCGAAAAGAAGAGGAAAGAA 58.613 43.478 0.00 0.00 0.00 2.52
293 582 3.244457 GGGGTCGAAAAGAAGAGGAAAGA 60.244 47.826 0.00 0.00 0.00 2.52
294 583 3.075148 GGGGTCGAAAAGAAGAGGAAAG 58.925 50.000 0.00 0.00 0.00 2.62
295 584 2.709397 AGGGGTCGAAAAGAAGAGGAAA 59.291 45.455 0.00 0.00 0.00 3.13
296 585 2.335933 AGGGGTCGAAAAGAAGAGGAA 58.664 47.619 0.00 0.00 0.00 3.36
297 586 2.025636 AGGGGTCGAAAAGAAGAGGA 57.974 50.000 0.00 0.00 0.00 3.71
298 587 2.427506 CAAGGGGTCGAAAAGAAGAGG 58.572 52.381 0.00 0.00 0.00 3.69
299 588 1.807142 GCAAGGGGTCGAAAAGAAGAG 59.193 52.381 0.00 0.00 0.00 2.85
300 589 1.420138 AGCAAGGGGTCGAAAAGAAGA 59.580 47.619 0.00 0.00 0.00 2.87
301 590 1.807142 GAGCAAGGGGTCGAAAAGAAG 59.193 52.381 0.00 0.00 0.00 2.85
302 591 1.420138 AGAGCAAGGGGTCGAAAAGAA 59.580 47.619 0.00 0.00 46.06 2.52
303 592 1.002087 GAGAGCAAGGGGTCGAAAAGA 59.998 52.381 0.00 0.00 46.06 2.52
304 593 1.443802 GAGAGCAAGGGGTCGAAAAG 58.556 55.000 0.00 0.00 46.06 2.27
305 594 0.320421 CGAGAGCAAGGGGTCGAAAA 60.320 55.000 0.00 0.00 46.06 2.29
306 595 1.292223 CGAGAGCAAGGGGTCGAAA 59.708 57.895 0.00 0.00 46.06 3.46
307 596 1.906824 ACGAGAGCAAGGGGTCGAA 60.907 57.895 0.00 0.00 46.06 3.71
308 597 2.282958 ACGAGAGCAAGGGGTCGA 60.283 61.111 0.00 0.00 46.06 4.20
309 598 2.125912 CACGAGAGCAAGGGGTCG 60.126 66.667 0.00 0.00 46.06 4.79
310 599 2.435059 GCACGAGAGCAAGGGGTC 60.435 66.667 0.00 0.00 41.86 4.46
311 600 2.520536 AAGCACGAGAGCAAGGGGT 61.521 57.895 0.00 0.00 36.85 4.95
312 601 2.037136 CAAGCACGAGAGCAAGGGG 61.037 63.158 0.00 0.00 36.85 4.79
313 602 2.684843 GCAAGCACGAGAGCAAGGG 61.685 63.158 0.00 0.00 36.85 3.95
314 603 1.509644 TTGCAAGCACGAGAGCAAGG 61.510 55.000 0.00 0.00 41.55 3.61
315 604 0.308684 TTTGCAAGCACGAGAGCAAG 59.691 50.000 0.00 0.00 46.24 4.01
316 605 0.029300 GTTTGCAAGCACGAGAGCAA 59.971 50.000 8.58 0.00 44.36 3.91
317 606 1.648720 GTTTGCAAGCACGAGAGCA 59.351 52.632 8.58 0.00 36.85 4.26
318 607 1.081840 GGTTTGCAAGCACGAGAGC 60.082 57.895 15.54 0.00 0.00 4.09
319 608 1.205064 CGGTTTGCAAGCACGAGAG 59.795 57.895 15.54 0.00 0.00 3.20
320 609 0.602638 ATCGGTTTGCAAGCACGAGA 60.603 50.000 23.03 14.19 36.97 4.04
321 610 1.075542 TATCGGTTTGCAAGCACGAG 58.924 50.000 23.03 10.41 36.97 4.18
322 611 1.732941 ATATCGGTTTGCAAGCACGA 58.267 45.000 21.79 21.79 38.00 4.35
323 612 2.159585 TGAATATCGGTTTGCAAGCACG 60.160 45.455 15.54 15.04 0.00 5.34
324 613 3.119849 AGTGAATATCGGTTTGCAAGCAC 60.120 43.478 15.54 4.10 0.00 4.40
325 614 3.081061 AGTGAATATCGGTTTGCAAGCA 58.919 40.909 15.54 0.00 0.00 3.91
326 615 3.764885 AGTGAATATCGGTTTGCAAGC 57.235 42.857 4.46 4.46 0.00 4.01
327 616 5.046910 ACAAGTGAATATCGGTTTGCAAG 57.953 39.130 0.00 0.00 0.00 4.01
328 617 5.009110 TGAACAAGTGAATATCGGTTTGCAA 59.991 36.000 0.00 0.00 0.00 4.08
329 618 4.517075 TGAACAAGTGAATATCGGTTTGCA 59.483 37.500 0.00 0.00 0.00 4.08
330 619 5.041951 TGAACAAGTGAATATCGGTTTGC 57.958 39.130 0.00 0.00 0.00 3.68
331 620 5.856455 GGTTGAACAAGTGAATATCGGTTTG 59.144 40.000 0.00 0.00 0.00 2.93
332 621 5.768164 AGGTTGAACAAGTGAATATCGGTTT 59.232 36.000 0.00 0.00 0.00 3.27
333 622 5.181245 CAGGTTGAACAAGTGAATATCGGTT 59.819 40.000 0.00 0.00 0.00 4.44
334 623 4.695455 CAGGTTGAACAAGTGAATATCGGT 59.305 41.667 0.00 0.00 0.00 4.69
335 624 4.935205 TCAGGTTGAACAAGTGAATATCGG 59.065 41.667 0.00 0.00 0.00 4.18
336 625 6.480524 TTCAGGTTGAACAAGTGAATATCG 57.519 37.500 0.00 0.00 30.26 2.92
349 638 4.821805 GTGATTCCTCAAGTTCAGGTTGAA 59.178 41.667 0.00 0.00 33.56 2.69
350 639 4.103153 AGTGATTCCTCAAGTTCAGGTTGA 59.897 41.667 0.00 0.00 31.85 3.18
351 640 4.392940 AGTGATTCCTCAAGTTCAGGTTG 58.607 43.478 0.00 0.00 31.85 3.77
352 641 4.713792 AGTGATTCCTCAAGTTCAGGTT 57.286 40.909 0.00 0.00 31.85 3.50
353 642 4.646572 GAAGTGATTCCTCAAGTTCAGGT 58.353 43.478 0.00 0.00 31.85 4.00
354 643 3.681897 CGAAGTGATTCCTCAAGTTCAGG 59.318 47.826 0.00 0.00 31.85 3.86
355 644 3.124297 GCGAAGTGATTCCTCAAGTTCAG 59.876 47.826 0.00 0.00 31.85 3.02
356 645 3.067106 GCGAAGTGATTCCTCAAGTTCA 58.933 45.455 0.00 0.00 31.85 3.18
357 646 3.330267 AGCGAAGTGATTCCTCAAGTTC 58.670 45.455 0.00 0.00 31.85 3.01
358 647 3.244215 TGAGCGAAGTGATTCCTCAAGTT 60.244 43.478 0.00 0.00 31.85 2.66
359 648 2.300152 TGAGCGAAGTGATTCCTCAAGT 59.700 45.455 0.00 0.00 31.85 3.16
360 649 2.670414 GTGAGCGAAGTGATTCCTCAAG 59.330 50.000 9.33 0.00 33.38 3.02
361 650 2.037121 TGTGAGCGAAGTGATTCCTCAA 59.963 45.455 9.33 2.01 33.38 3.02
362 651 1.618343 TGTGAGCGAAGTGATTCCTCA 59.382 47.619 0.00 5.58 0.00 3.86
363 652 2.370281 TGTGAGCGAAGTGATTCCTC 57.630 50.000 0.00 0.00 0.00 3.71
364 653 2.625737 CATGTGAGCGAAGTGATTCCT 58.374 47.619 0.00 0.00 0.00 3.36
365 654 1.667724 CCATGTGAGCGAAGTGATTCC 59.332 52.381 0.00 0.00 0.00 3.01
366 655 2.621338 TCCATGTGAGCGAAGTGATTC 58.379 47.619 0.00 0.00 0.00 2.52
367 656 2.768253 TCCATGTGAGCGAAGTGATT 57.232 45.000 0.00 0.00 0.00 2.57
368 657 2.625737 CTTCCATGTGAGCGAAGTGAT 58.374 47.619 0.00 0.00 0.00 3.06
369 658 1.338105 CCTTCCATGTGAGCGAAGTGA 60.338 52.381 7.57 0.00 32.77 3.41
370 659 1.081892 CCTTCCATGTGAGCGAAGTG 58.918 55.000 7.57 0.00 32.77 3.16
371 660 0.674895 GCCTTCCATGTGAGCGAAGT 60.675 55.000 7.57 0.00 32.77 3.01
372 661 0.674581 TGCCTTCCATGTGAGCGAAG 60.675 55.000 0.00 0.00 34.13 3.79
373 662 0.250684 TTGCCTTCCATGTGAGCGAA 60.251 50.000 0.00 0.00 0.00 4.70
374 663 0.250684 TTTGCCTTCCATGTGAGCGA 60.251 50.000 0.00 0.00 0.00 4.93
375 664 0.109597 GTTTGCCTTCCATGTGAGCG 60.110 55.000 0.00 0.00 0.00 5.03
376 665 0.109597 CGTTTGCCTTCCATGTGAGC 60.110 55.000 0.00 0.00 0.00 4.26
377 666 1.466167 CTCGTTTGCCTTCCATGTGAG 59.534 52.381 0.00 0.00 0.00 3.51
378 667 1.202758 ACTCGTTTGCCTTCCATGTGA 60.203 47.619 0.00 0.00 0.00 3.58
379 668 1.069022 CACTCGTTTGCCTTCCATGTG 60.069 52.381 0.00 0.00 0.00 3.21
380 669 1.202758 TCACTCGTTTGCCTTCCATGT 60.203 47.619 0.00 0.00 0.00 3.21
381 670 1.466167 CTCACTCGTTTGCCTTCCATG 59.534 52.381 0.00 0.00 0.00 3.66
382 671 1.347707 TCTCACTCGTTTGCCTTCCAT 59.652 47.619 0.00 0.00 0.00 3.41
383 672 0.756294 TCTCACTCGTTTGCCTTCCA 59.244 50.000 0.00 0.00 0.00 3.53
384 673 2.100605 ATCTCACTCGTTTGCCTTCC 57.899 50.000 0.00 0.00 0.00 3.46
385 674 4.505922 CAGATATCTCACTCGTTTGCCTTC 59.494 45.833 1.03 0.00 0.00 3.46
386 675 4.081420 ACAGATATCTCACTCGTTTGCCTT 60.081 41.667 1.03 0.00 0.00 4.35
387 676 3.449018 ACAGATATCTCACTCGTTTGCCT 59.551 43.478 1.03 0.00 0.00 4.75
388 677 3.786635 ACAGATATCTCACTCGTTTGCC 58.213 45.455 1.03 0.00 0.00 4.52
389 678 7.115095 GGTAATACAGATATCTCACTCGTTTGC 59.885 40.741 1.03 0.20 0.00 3.68
390 679 7.323895 CGGTAATACAGATATCTCACTCGTTTG 59.676 40.741 1.03 0.00 0.00 2.93
391 680 7.361127 CGGTAATACAGATATCTCACTCGTTT 58.639 38.462 1.03 0.00 0.00 3.60
392 681 6.072618 CCGGTAATACAGATATCTCACTCGTT 60.073 42.308 1.03 0.00 0.00 3.85
393 682 5.411977 CCGGTAATACAGATATCTCACTCGT 59.588 44.000 1.03 0.00 0.00 4.18
394 683 5.163744 CCCGGTAATACAGATATCTCACTCG 60.164 48.000 1.03 1.47 0.00 4.18
395 684 5.711036 ACCCGGTAATACAGATATCTCACTC 59.289 44.000 1.03 0.00 0.00 3.51
396 685 5.642165 ACCCGGTAATACAGATATCTCACT 58.358 41.667 1.03 0.00 0.00 3.41
397 686 5.979288 ACCCGGTAATACAGATATCTCAC 57.021 43.478 1.03 0.00 0.00 3.51
398 687 6.152323 GCTAACCCGGTAATACAGATATCTCA 59.848 42.308 1.03 0.00 0.00 3.27
399 688 6.405619 GGCTAACCCGGTAATACAGATATCTC 60.406 46.154 1.03 0.00 0.00 2.75
400 689 5.421374 GGCTAACCCGGTAATACAGATATCT 59.579 44.000 0.00 0.00 0.00 1.98
401 690 5.186409 TGGCTAACCCGGTAATACAGATATC 59.814 44.000 0.00 0.00 35.87 1.63
402 691 5.046807 GTGGCTAACCCGGTAATACAGATAT 60.047 44.000 0.00 0.00 35.87 1.63
403 692 4.281688 GTGGCTAACCCGGTAATACAGATA 59.718 45.833 0.00 0.00 35.87 1.98
404 693 3.070590 GTGGCTAACCCGGTAATACAGAT 59.929 47.826 0.00 0.00 35.87 2.90
405 694 2.431782 GTGGCTAACCCGGTAATACAGA 59.568 50.000 0.00 0.00 35.87 3.41
406 695 2.800629 CGTGGCTAACCCGGTAATACAG 60.801 54.545 0.00 0.00 35.87 2.74
407 696 1.136695 CGTGGCTAACCCGGTAATACA 59.863 52.381 0.00 0.00 35.87 2.29
408 697 1.136891 ACGTGGCTAACCCGGTAATAC 59.863 52.381 0.00 0.00 34.91 1.89
444 733 3.307339 CCTGATGGATAGAAAGGCTAGGC 60.307 52.174 8.55 8.55 34.57 3.93
555 844 4.530857 GGTGATGGCTCGGACGGG 62.531 72.222 0.00 0.00 0.00 5.28
637 950 5.936956 TGTCAACTTGCCATTTTGTTTTTCT 59.063 32.000 0.00 0.00 0.00 2.52
638 951 6.175712 TGTCAACTTGCCATTTTGTTTTTC 57.824 33.333 0.00 0.00 0.00 2.29
663 979 2.983592 CGGCCCCTTGTGTTGTCC 60.984 66.667 0.00 0.00 0.00 4.02
728 1044 2.822701 TAGGAAGCGAGCGAGCGA 60.823 61.111 1.41 0.00 43.00 4.93
729 1045 2.652496 GTAGGAAGCGAGCGAGCG 60.652 66.667 0.00 0.00 43.00 5.03
730 1046 2.278923 GGTAGGAAGCGAGCGAGC 60.279 66.667 0.00 0.00 37.41 5.03
731 1047 0.108804 TTTGGTAGGAAGCGAGCGAG 60.109 55.000 0.00 0.00 0.00 5.03
839 1159 3.522343 AGGGAAGGGTGTGGTCTTTATAC 59.478 47.826 0.00 0.00 0.00 1.47
982 1309 1.212688 CATCCTCCCAATGGCACTACA 59.787 52.381 0.00 0.00 0.00 2.74
985 1312 1.616921 CCATCCTCCCAATGGCACT 59.383 57.895 0.00 0.00 37.46 4.40
1175 1511 1.667154 CGACGGCTCCTCATCCTTCA 61.667 60.000 0.00 0.00 0.00 3.02
1190 1526 2.798262 GGTCCAACGACGACGACG 60.798 66.667 17.60 17.60 40.17 5.12
1191 1527 1.728426 CAGGTCCAACGACGACGAC 60.728 63.158 15.32 1.03 40.17 4.34
1192 1528 2.640989 CAGGTCCAACGACGACGA 59.359 61.111 15.32 0.00 40.17 4.20
1295 1637 0.236711 CTCGGCAAGCAAACACAGAG 59.763 55.000 0.00 0.00 0.00 3.35
1305 1664 1.355066 CTTCTTCGTCCTCGGCAAGC 61.355 60.000 0.00 0.00 37.69 4.01
1306 1665 0.243907 TCTTCTTCGTCCTCGGCAAG 59.756 55.000 0.00 0.00 37.69 4.01
1331 1690 0.321653 AGGCAACGAGGAACCACATC 60.322 55.000 0.00 0.00 46.39 3.06
1432 1791 3.698040 CAGATGGTTGAATCCCCAAAGAG 59.302 47.826 0.00 0.00 33.66 2.85
1437 1809 2.851821 TGATCAGATGGTTGAATCCCCA 59.148 45.455 0.00 0.00 34.66 4.96
1495 1867 2.575532 ACCCGGTCGATTATTACGAGA 58.424 47.619 0.00 0.00 40.37 4.04
1546 1918 3.493503 GCCCGATTACGAGAACCATTTAG 59.506 47.826 0.00 0.00 42.66 1.85
1623 1997 4.436365 CGGAAAATGTGTTGTTTTCTGC 57.564 40.909 10.14 0.00 41.97 4.26
1635 2009 6.320494 TGCAAGTTTGTATACGGAAAATGT 57.680 33.333 0.00 0.00 0.00 2.71
1659 2033 4.399004 ACAGCAATATCTCAGACTGGAC 57.601 45.455 1.81 0.00 0.00 4.02
1664 2038 7.038659 AGTTCAGTTACAGCAATATCTCAGAC 58.961 38.462 0.00 0.00 0.00 3.51
1715 2091 0.752054 CCTTGCAAGGCCAAGACAAA 59.248 50.000 31.70 0.00 43.79 2.83
1854 2230 6.870439 CAGATATGCTTGGAATCGAACTATCA 59.130 38.462 0.00 0.00 0.00 2.15
2104 2958 0.539986 TAGGGAAATCACTGTCGGGC 59.460 55.000 0.00 0.00 0.00 6.13
2111 2965 3.507622 GCTTGCTTTGTAGGGAAATCACT 59.492 43.478 0.00 0.00 0.00 3.41
2198 3273 1.656095 GACGCAAATCGGAGAGTGAAG 59.344 52.381 0.00 0.00 43.63 3.02


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

AutoCloner maintained by Alex Coulton.