Multiple sequence alignment - TraesCS7D01G516100

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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 TraesCS7D01G516100 chr7D 100.000 3482 0 0 1 3482 615940998 615944479 0.000000e+00 6431.0
1 TraesCS7D01G516100 chr7D 88.328 1525 129 34 1054 2551 616009637 616008135 0.000000e+00 1784.0
2 TraesCS7D01G516100 chr7D 85.804 479 36 11 3036 3482 568652195 568652673 2.430000e-131 479.0
3 TraesCS7D01G516100 chr7D 82.842 373 35 9 2944 3288 266255867 266256238 1.210000e-79 307.0
4 TraesCS7D01G516100 chr7A 94.273 2200 74 29 716 2891 708707921 708710092 0.000000e+00 3317.0
5 TraesCS7D01G516100 chr7A 89.872 1481 100 22 1057 2500 708785011 708783544 0.000000e+00 1858.0
6 TraesCS7D01G516100 chr7A 78.161 174 34 4 1403 1574 125479294 125479465 1.320000e-19 108.0
7 TraesCS7D01G516100 chr7A 96.667 60 0 2 2888 2946 708710110 708710168 7.950000e-17 99.0
8 TraesCS7D01G516100 chr7B 93.290 2161 105 24 755 2893 709047685 709049827 0.000000e+00 3151.0
9 TraesCS7D01G516100 chr7B 88.889 1476 122 28 1054 2502 709095351 709093891 0.000000e+00 1779.0
10 TraesCS7D01G516100 chr7B 91.051 257 19 2 3036 3288 584019903 584019647 9.250000e-91 344.0
11 TraesCS7D01G516100 chr7B 79.143 537 69 18 3 535 709046818 709047315 7.200000e-87 331.0
12 TraesCS7D01G516100 chr7B 86.275 255 29 4 3036 3285 9003171 9002918 4.430000e-69 272.0
13 TraesCS7D01G516100 chr2A 90.810 457 29 7 3037 3482 338515505 338515959 1.790000e-167 599.0
14 TraesCS7D01G516100 chr2A 87.292 480 27 5 3036 3482 659634311 659633833 5.150000e-143 518.0
15 TraesCS7D01G516100 chr2A 97.368 38 1 0 626 663 8371314 8371277 8.070000e-07 65.8
16 TraesCS7D01G516100 chr4A 90.372 457 33 5 3036 3482 522146333 522145878 1.080000e-164 590.0
17 TraesCS7D01G516100 chr5B 85.095 577 44 10 2944 3482 400542434 400543006 5.080000e-153 551.0
18 TraesCS7D01G516100 chr5B 86.820 478 30 8 3036 3482 584135424 584135899 1.440000e-138 503.0
19 TraesCS7D01G516100 chr5B 82.471 599 43 27 2944 3482 697023187 697022591 5.260000e-128 468.0
20 TraesCS7D01G516100 chr5B 86.364 352 34 9 2946 3288 17581694 17582040 4.240000e-99 372.0
21 TraesCS7D01G516100 chr5B 90.099 101 7 2 2944 3042 276158873 276158774 1.010000e-25 128.0
22 TraesCS7D01G516100 chr5B 91.489 47 4 0 2385 2431 486897299 486897345 8.070000e-07 65.8
23 TraesCS7D01G516100 chr5B 94.872 39 2 0 564 602 310211554 310211592 1.040000e-05 62.1
24 TraesCS7D01G516100 chr2D 87.657 478 26 16 3038 3482 590329636 590329159 3.080000e-145 525.0
25 TraesCS7D01G516100 chr2D 80.169 590 50 28 2944 3482 8419182 8418609 2.540000e-101 379.0
26 TraesCS7D01G516100 chr2D 83.573 347 36 14 2944 3271 498263017 498263361 4.370000e-79 305.0
27 TraesCS7D01G516100 chr2D 83.276 293 18 9 2944 3208 370634990 370634701 1.250000e-59 241.0
28 TraesCS7D01G516100 chr3B 87.417 453 46 6 3038 3482 44850423 44849974 8.620000e-141 510.0
29 TraesCS7D01G516100 chr3B 87.090 457 48 5 3037 3482 691352272 691352728 1.120000e-139 507.0
30 TraesCS7D01G516100 chr3D 83.193 595 38 16 2944 3482 597311038 597310450 4.040000e-134 488.0
31 TraesCS7D01G516100 chr3D 82.521 595 46 15 2944 3482 446355374 446355966 1.460000e-128 470.0
32 TraesCS7D01G516100 chr3D 85.376 465 47 14 3036 3482 66732757 66733218 2.450000e-126 462.0
33 TraesCS7D01G516100 chr1B 85.060 502 40 10 2944 3411 669910657 669910157 2.430000e-131 479.0
34 TraesCS7D01G516100 chr5D 85.593 472 34 17 3043 3482 542723020 542722551 6.810000e-127 464.0
35 TraesCS7D01G516100 chr5D 83.964 449 46 15 3036 3461 219467444 219467889 1.160000e-109 407.0
36 TraesCS7D01G516100 chr5D 83.284 335 34 15 2958 3288 380519692 380519376 4.400000e-74 289.0
37 TraesCS7D01G516100 chr5D 95.652 46 2 0 619 664 321613791 321613836 1.340000e-09 75.0
38 TraesCS7D01G516100 chr5D 93.617 47 3 0 2385 2431 406199405 406199451 1.730000e-08 71.3
39 TraesCS7D01G516100 chr5D 80.000 105 14 2 567 664 467427661 467427557 1.730000e-08 71.3
40 TraesCS7D01G516100 chr5D 94.872 39 2 0 564 602 149765341 149765303 1.040000e-05 62.1
41 TraesCS7D01G516100 chr4B 85.900 461 30 16 3053 3482 534981275 534981731 3.170000e-125 459.0
42 TraesCS7D01G516100 chr4B 85.654 237 30 2 3052 3285 638594992 638594757 2.680000e-61 246.0
43 TraesCS7D01G516100 chr6A 81.588 592 41 21 2944 3482 571902697 571903273 8.930000e-116 427.0
44 TraesCS7D01G516100 chr6A 78.947 114 13 6 564 666 614017656 614017543 2.240000e-07 67.6
45 TraesCS7D01G516100 chr6D 84.367 371 29 12 2944 3288 411996666 411996299 1.550000e-88 337.0
46 TraesCS7D01G516100 chr6D 78.322 572 73 30 2944 3482 292730631 292730078 4.340000e-84 322.0
47 TraesCS7D01G516100 chr6D 78.179 582 64 30 2944 3464 12830397 12829818 2.610000e-81 313.0
48 TraesCS7D01G516100 chr5A 82.353 102 14 4 564 663 513435149 513435248 6.190000e-13 86.1
49 TraesCS7D01G516100 chr5A 93.878 49 3 0 620 668 51793107 51793059 1.340000e-09 75.0
50 TraesCS7D01G516100 chr2B 82.143 112 8 5 564 663 11984154 11984265 6.190000e-13 86.1
51 TraesCS7D01G516100 chr1A 78.846 104 18 2 564 663 441756815 441756918 2.240000e-07 67.6
52 TraesCS7D01G516100 chr1A 91.489 47 4 0 612 658 589856244 589856198 8.070000e-07 65.8
53 TraesCS7D01G516100 chr1A 100.000 29 0 0 564 592 548792709 548792737 2.000000e-03 54.7
54 TraesCS7D01G516100 chr6B 89.362 47 3 2 564 608 508812846 508812800 1.350000e-04 58.4
55 TraesCS7D01G516100 chr4D 90.476 42 3 1 564 604 487652563 487652522 2.000000e-03 54.7


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 TraesCS7D01G516100 chr7D 615940998 615944479 3481 False 6431 6431 100.0000 1 3482 1 chr7D.!!$F3 3481
1 TraesCS7D01G516100 chr7D 616008135 616009637 1502 True 1784 1784 88.3280 1054 2551 1 chr7D.!!$R1 1497
2 TraesCS7D01G516100 chr7A 708783544 708785011 1467 True 1858 1858 89.8720 1057 2500 1 chr7A.!!$R1 1443
3 TraesCS7D01G516100 chr7A 708707921 708710168 2247 False 1708 3317 95.4700 716 2946 2 chr7A.!!$F2 2230
4 TraesCS7D01G516100 chr7B 709093891 709095351 1460 True 1779 1779 88.8890 1054 2502 1 chr7B.!!$R3 1448
5 TraesCS7D01G516100 chr7B 709046818 709049827 3009 False 1741 3151 86.2165 3 2893 2 chr7B.!!$F1 2890
6 TraesCS7D01G516100 chr5B 400542434 400543006 572 False 551 551 85.0950 2944 3482 1 chr5B.!!$F3 538
7 TraesCS7D01G516100 chr5B 697022591 697023187 596 True 468 468 82.4710 2944 3482 1 chr5B.!!$R2 538
8 TraesCS7D01G516100 chr2D 8418609 8419182 573 True 379 379 80.1690 2944 3482 1 chr2D.!!$R1 538
9 TraesCS7D01G516100 chr3D 597310450 597311038 588 True 488 488 83.1930 2944 3482 1 chr3D.!!$R1 538
10 TraesCS7D01G516100 chr3D 446355374 446355966 592 False 470 470 82.5210 2944 3482 1 chr3D.!!$F2 538
11 TraesCS7D01G516100 chr1B 669910157 669910657 500 True 479 479 85.0600 2944 3411 1 chr1B.!!$R1 467
12 TraesCS7D01G516100 chr6A 571902697 571903273 576 False 427 427 81.5880 2944 3482 1 chr6A.!!$F1 538
13 TraesCS7D01G516100 chr6D 292730078 292730631 553 True 322 322 78.3220 2944 3482 1 chr6D.!!$R2 538
14 TraesCS7D01G516100 chr6D 12829818 12830397 579 True 313 313 78.1790 2944 3464 1 chr6D.!!$R1 520

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
702 713 0.036388 TGAGGATTTGGCGTCAGGAC 60.036 55.0 0.0 0.0 0.0 3.85 F
769 1082 0.102481 AACGCTAGACATGGCCGTAG 59.898 55.0 0.0 0.0 0.0 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2238 2608 1.517832 CACCTCGATCTTTCCGGCT 59.482 57.895 0.0 0.0 0.0 5.52 R
2715 3098 1.609072 GAACACAAGCCCCAAAGTCTC 59.391 52.381 0.0 0.0 0.0 3.36 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
27 28 3.319198 GGAAGAGTCCCGCCACCA 61.319 66.667 0.00 0.00 38.08 4.17
28 29 2.670148 GGAAGAGTCCCGCCACCAT 61.670 63.158 0.00 0.00 38.08 3.55
29 30 1.450312 GAAGAGTCCCGCCACCATG 60.450 63.158 0.00 0.00 0.00 3.66
85 86 4.393778 GACGGTGAGGGAGGGGGA 62.394 72.222 0.00 0.00 0.00 4.81
87 88 4.075793 CGGTGAGGGAGGGGGAGA 62.076 72.222 0.00 0.00 0.00 3.71
89 90 2.041405 GTGAGGGAGGGGGAGAGG 60.041 72.222 0.00 0.00 0.00 3.69
90 91 2.540910 TGAGGGAGGGGGAGAGGT 60.541 66.667 0.00 0.00 0.00 3.85
92 93 3.700350 AGGGAGGGGGAGAGGTGG 61.700 72.222 0.00 0.00 0.00 4.61
93 94 4.825679 GGGAGGGGGAGAGGTGGG 62.826 77.778 0.00 0.00 0.00 4.61
123 127 4.681978 GGTGAGCTCGGGTTGCGT 62.682 66.667 9.64 0.00 35.28 5.24
187 191 8.099537 CCTGCCTATGTGATGAACTTTCTATAT 58.900 37.037 0.00 0.00 0.00 0.86
209 213 6.721571 ATACATTACGGTCTTCAAACTGTG 57.278 37.500 0.00 0.00 39.12 3.66
211 215 1.873698 TACGGTCTTCAAACTGTGCC 58.126 50.000 0.00 0.00 39.12 5.01
212 216 0.818040 ACGGTCTTCAAACTGTGCCC 60.818 55.000 0.00 0.00 37.37 5.36
218 222 1.610522 CTTCAAACTGTGCCCAAGGAG 59.389 52.381 0.00 0.00 0.00 3.69
231 235 2.356227 CCCAAGGAGAGGTAAAAGAGCC 60.356 54.545 0.00 0.00 0.00 4.70
234 238 2.753247 AGGAGAGGTAAAAGAGCCGAT 58.247 47.619 0.00 0.00 0.00 4.18
237 241 4.342665 AGGAGAGGTAAAAGAGCCGATAAG 59.657 45.833 0.00 0.00 0.00 1.73
241 245 4.781934 AGGTAAAAGAGCCGATAAGCAAT 58.218 39.130 0.00 0.00 34.23 3.56
251 255 3.635331 CCGATAAGCAATGCCATCAAAG 58.365 45.455 14.97 2.89 0.00 2.77
257 261 4.339872 AGCAATGCCATCAAAGAAACAA 57.660 36.364 0.00 0.00 0.00 2.83
258 262 4.060205 AGCAATGCCATCAAAGAAACAAC 58.940 39.130 0.00 0.00 0.00 3.32
259 263 3.808726 GCAATGCCATCAAAGAAACAACA 59.191 39.130 0.00 0.00 0.00 3.33
273 277 5.180271 AGAAACAACAAACAGGTCGAAGTA 58.820 37.500 0.00 0.00 0.00 2.24
291 295 5.405873 CGAAGTAGACCAGGAAACTTTCTTC 59.594 44.000 0.00 6.93 40.21 2.87
301 305 3.067601 GGAAACTTTCTTCCTTGCCGAAA 59.932 43.478 1.57 0.00 41.56 3.46
328 338 8.961634 AGATCTTTACCTTTTCTTTGATTAGCC 58.038 33.333 0.00 0.00 0.00 3.93
329 339 8.650143 ATCTTTACCTTTTCTTTGATTAGCCA 57.350 30.769 0.00 0.00 0.00 4.75
330 340 8.650143 TCTTTACCTTTTCTTTGATTAGCCAT 57.350 30.769 0.00 0.00 0.00 4.40
331 341 8.739972 TCTTTACCTTTTCTTTGATTAGCCATC 58.260 33.333 0.00 0.00 0.00 3.51
332 342 8.650143 TTTACCTTTTCTTTGATTAGCCATCT 57.350 30.769 0.00 0.00 32.34 2.90
333 343 9.747898 TTTACCTTTTCTTTGATTAGCCATCTA 57.252 29.630 0.00 0.00 32.34 1.98
334 344 9.920946 TTACCTTTTCTTTGATTAGCCATCTAT 57.079 29.630 0.00 0.00 32.34 1.98
335 345 8.230472 ACCTTTTCTTTGATTAGCCATCTATG 57.770 34.615 0.00 0.00 32.34 2.23
336 346 7.144000 CCTTTTCTTTGATTAGCCATCTATGC 58.856 38.462 0.00 0.00 32.34 3.14
337 347 7.201848 CCTTTTCTTTGATTAGCCATCTATGCA 60.202 37.037 0.00 0.00 32.34 3.96
338 348 7.828508 TTTCTTTGATTAGCCATCTATGCAT 57.171 32.000 3.79 3.79 32.34 3.96
339 349 8.922931 TTTCTTTGATTAGCCATCTATGCATA 57.077 30.769 6.20 6.20 32.34 3.14
340 350 8.557592 TTCTTTGATTAGCCATCTATGCATAG 57.442 34.615 25.13 25.13 32.34 2.23
341 351 7.108194 TCTTTGATTAGCCATCTATGCATAGG 58.892 38.462 29.02 17.83 32.34 2.57
342 352 6.625532 TTGATTAGCCATCTATGCATAGGA 57.374 37.500 29.02 17.96 32.34 2.94
343 353 5.982356 TGATTAGCCATCTATGCATAGGAC 58.018 41.667 29.02 17.39 32.34 3.85
344 354 5.723405 TGATTAGCCATCTATGCATAGGACT 59.277 40.000 29.02 22.11 32.34 3.85
345 355 5.667539 TTAGCCATCTATGCATAGGACTC 57.332 43.478 29.02 17.47 0.00 3.36
346 356 2.836981 AGCCATCTATGCATAGGACTCC 59.163 50.000 29.02 15.81 0.00 3.85
356 366 2.682594 CATAGGACTCCATGTCTCCCA 58.317 52.381 0.00 0.00 44.74 4.37
378 389 8.004801 TCCCACTTAGATGATCTGTATACTTCA 58.995 37.037 4.96 5.46 0.00 3.02
384 395 7.976135 AGATGATCTGTATACTTCATTTGCC 57.024 36.000 13.89 5.71 0.00 4.52
389 400 6.048732 TCTGTATACTTCATTTGCCACTCA 57.951 37.500 4.17 0.00 0.00 3.41
395 406 7.798596 ATACTTCATTTGCCACTCATTCTAG 57.201 36.000 0.00 0.00 0.00 2.43
403 414 2.097142 GCCACTCATTCTAGCAGCTTTG 59.903 50.000 0.00 0.00 0.00 2.77
406 417 3.063725 CACTCATTCTAGCAGCTTTGCTC 59.936 47.826 0.00 0.00 45.00 4.26
411 422 0.747283 CTAGCAGCTTTGCTCCCAGG 60.747 60.000 0.00 0.00 45.00 4.45
416 427 0.700564 AGCTTTGCTCCCAGGATCAA 59.299 50.000 0.00 0.00 30.62 2.57
418 429 1.887956 GCTTTGCTCCCAGGATCAACA 60.888 52.381 2.50 0.00 31.20 3.33
419 430 1.815003 CTTTGCTCCCAGGATCAACAC 59.185 52.381 2.50 0.00 31.20 3.32
420 431 0.038166 TTGCTCCCAGGATCAACACC 59.962 55.000 0.00 0.00 0.00 4.16
421 432 0.842030 TGCTCCCAGGATCAACACCT 60.842 55.000 0.00 0.00 38.40 4.00
422 433 0.107459 GCTCCCAGGATCAACACCTC 60.107 60.000 0.00 0.00 35.35 3.85
423 434 1.577736 CTCCCAGGATCAACACCTCT 58.422 55.000 0.00 0.00 35.35 3.69
424 435 1.912043 CTCCCAGGATCAACACCTCTT 59.088 52.381 0.00 0.00 35.35 2.85
425 436 2.307098 CTCCCAGGATCAACACCTCTTT 59.693 50.000 0.00 0.00 35.35 2.52
426 437 3.519510 CTCCCAGGATCAACACCTCTTTA 59.480 47.826 0.00 0.00 35.35 1.85
427 438 3.263425 TCCCAGGATCAACACCTCTTTAC 59.737 47.826 0.00 0.00 35.35 2.01
428 439 3.264450 CCCAGGATCAACACCTCTTTACT 59.736 47.826 0.00 0.00 35.35 2.24
429 440 4.263506 CCCAGGATCAACACCTCTTTACTT 60.264 45.833 0.00 0.00 35.35 2.24
430 441 5.316987 CCAGGATCAACACCTCTTTACTTT 58.683 41.667 0.00 0.00 35.35 2.66
431 442 5.770162 CCAGGATCAACACCTCTTTACTTTT 59.230 40.000 0.00 0.00 35.35 2.27
432 443 6.294176 CCAGGATCAACACCTCTTTACTTTTG 60.294 42.308 0.00 0.00 35.35 2.44
454 465 6.024552 TGACCTTTATCTGCAAAATGGAAC 57.975 37.500 12.36 8.06 0.00 3.62
487 498 4.436317 CGGCAAATGATCCAAAAGCAAATG 60.436 41.667 0.00 0.00 0.00 2.32
489 500 5.181622 GGCAAATGATCCAAAAGCAAATGAA 59.818 36.000 0.00 0.00 0.00 2.57
541 552 8.331730 ACAAAATGTTGGATAAGTACACCTAC 57.668 34.615 0.00 1.41 39.22 3.18
542 553 7.940137 ACAAAATGTTGGATAAGTACACCTACA 59.060 33.333 0.00 13.77 41.61 2.74
543 554 7.916914 AAATGTTGGATAAGTACACCTACAC 57.083 36.000 13.71 4.64 40.66 2.90
544 555 5.410355 TGTTGGATAAGTACACCTACACC 57.590 43.478 0.00 0.00 35.38 4.16
545 556 4.839550 TGTTGGATAAGTACACCTACACCA 59.160 41.667 0.00 0.00 35.38 4.17
546 557 5.307456 TGTTGGATAAGTACACCTACACCAA 59.693 40.000 0.00 0.00 35.38 3.67
547 558 5.670792 TGGATAAGTACACCTACACCAAG 57.329 43.478 0.00 0.00 0.00 3.61
548 559 5.088730 TGGATAAGTACACCTACACCAAGT 58.911 41.667 0.00 0.00 0.00 3.16
549 560 6.255287 TGGATAAGTACACCTACACCAAGTA 58.745 40.000 0.00 0.00 0.00 2.24
550 561 6.899075 TGGATAAGTACACCTACACCAAGTAT 59.101 38.462 0.00 0.00 30.93 2.12
551 562 7.400915 TGGATAAGTACACCTACACCAAGTATT 59.599 37.037 0.00 0.00 30.93 1.89
552 563 8.917088 GGATAAGTACACCTACACCAAGTATTA 58.083 37.037 0.00 0.00 30.93 0.98
555 566 7.966339 AGTACACCTACACCAAGTATTATGA 57.034 36.000 0.00 0.00 30.93 2.15
556 567 8.370266 AGTACACCTACACCAAGTATTATGAA 57.630 34.615 0.00 0.00 30.93 2.57
557 568 8.475639 AGTACACCTACACCAAGTATTATGAAG 58.524 37.037 0.00 0.00 30.93 3.02
558 569 6.650120 ACACCTACACCAAGTATTATGAAGG 58.350 40.000 0.00 0.00 30.93 3.46
559 570 6.055588 CACCTACACCAAGTATTATGAAGGG 58.944 44.000 0.00 0.00 30.93 3.95
560 571 5.729718 ACCTACACCAAGTATTATGAAGGGT 59.270 40.000 0.00 0.00 30.93 4.34
565 576 7.553881 CACCAAGTATTATGAAGGGTGTAAG 57.446 40.000 0.00 0.00 39.48 2.34
566 577 7.110155 CACCAAGTATTATGAAGGGTGTAAGT 58.890 38.462 0.00 0.00 39.48 2.24
567 578 7.280205 CACCAAGTATTATGAAGGGTGTAAGTC 59.720 40.741 0.00 0.00 39.48 3.01
568 579 7.182206 ACCAAGTATTATGAAGGGTGTAAGTCT 59.818 37.037 0.00 0.00 0.00 3.24
569 580 8.047310 CCAAGTATTATGAAGGGTGTAAGTCTT 58.953 37.037 0.00 0.00 0.00 3.01
572 583 9.490083 AGTATTATGAAGGGTGTAAGTCTTAGT 57.510 33.333 0.00 0.00 0.00 2.24
573 584 9.747293 GTATTATGAAGGGTGTAAGTCTTAGTC 57.253 37.037 0.00 0.00 0.00 2.59
574 585 7.786046 TTATGAAGGGTGTAAGTCTTAGTCA 57.214 36.000 0.00 0.00 0.00 3.41
575 586 6.681729 ATGAAGGGTGTAAGTCTTAGTCAA 57.318 37.500 0.00 0.00 0.00 3.18
576 587 6.097915 TGAAGGGTGTAAGTCTTAGTCAAG 57.902 41.667 0.00 0.00 0.00 3.02
577 588 5.601313 TGAAGGGTGTAAGTCTTAGTCAAGT 59.399 40.000 0.00 0.00 33.20 3.16
578 589 5.470047 AGGGTGTAAGTCTTAGTCAAGTG 57.530 43.478 0.00 0.00 33.20 3.16
579 590 5.145564 AGGGTGTAAGTCTTAGTCAAGTGA 58.854 41.667 0.00 0.00 33.20 3.41
580 591 5.010820 AGGGTGTAAGTCTTAGTCAAGTGAC 59.989 44.000 3.12 3.12 45.08 3.67
597 608 9.803315 GTCAAGTGACATAACATGTAATAGAGA 57.197 33.333 0.00 0.00 45.03 3.10
641 652 8.744008 ACGAATATTAATGTAAGATCTCACGG 57.256 34.615 0.00 0.00 0.00 4.94
642 653 8.573885 ACGAATATTAATGTAAGATCTCACGGA 58.426 33.333 0.00 0.00 0.00 4.69
643 654 9.574458 CGAATATTAATGTAAGATCTCACGGAT 57.426 33.333 0.00 0.00 37.37 4.18
652 663 8.421673 TGTAAGATCTCACGGATATAGTATCG 57.578 38.462 0.00 0.00 34.33 2.92
653 664 8.255905 TGTAAGATCTCACGGATATAGTATCGA 58.744 37.037 0.00 0.00 34.33 3.59
654 665 7.542534 AAGATCTCACGGATATAGTATCGAC 57.457 40.000 0.00 0.00 34.33 4.20
655 666 6.880484 AGATCTCACGGATATAGTATCGACT 58.120 40.000 0.00 0.00 35.77 4.18
656 667 6.759356 AGATCTCACGGATATAGTATCGACTG 59.241 42.308 0.00 0.00 34.33 3.51
657 668 6.034161 TCTCACGGATATAGTATCGACTGA 57.966 41.667 0.00 0.00 36.28 3.41
658 669 6.461640 TCTCACGGATATAGTATCGACTGAA 58.538 40.000 0.00 0.00 36.28 3.02
659 670 6.932960 TCTCACGGATATAGTATCGACTGAAA 59.067 38.462 0.00 0.00 36.28 2.69
660 671 6.895898 TCACGGATATAGTATCGACTGAAAC 58.104 40.000 0.00 0.00 36.28 2.78
661 672 6.709397 TCACGGATATAGTATCGACTGAAACT 59.291 38.462 0.00 0.00 36.28 2.66
662 673 7.228108 TCACGGATATAGTATCGACTGAAACTT 59.772 37.037 0.00 0.00 36.28 2.66
663 674 8.501580 CACGGATATAGTATCGACTGAAACTTA 58.498 37.037 0.00 0.00 36.28 2.24
664 675 9.228949 ACGGATATAGTATCGACTGAAACTTAT 57.771 33.333 0.00 0.00 36.28 1.73
665 676 9.705471 CGGATATAGTATCGACTGAAACTTATC 57.295 37.037 0.00 0.00 36.28 1.75
666 677 9.705471 GGATATAGTATCGACTGAAACTTATCG 57.295 37.037 0.00 0.00 36.28 2.92
669 680 6.922247 AGTATCGACTGAAACTTATCGAGA 57.078 37.500 1.51 0.00 45.83 4.04
670 681 6.956393 GTATCGACTGAAACTTATCGAGAC 57.044 41.667 4.75 4.75 45.83 3.36
671 682 5.821516 ATCGACTGAAACTTATCGAGACT 57.178 39.130 1.51 0.00 45.83 3.24
672 683 4.971008 TCGACTGAAACTTATCGAGACTG 58.029 43.478 0.00 0.00 38.59 3.51
675 686 6.030849 CGACTGAAACTTATCGAGACTGATT 58.969 40.000 0.00 0.00 36.70 2.57
680 691 8.858003 TGAAACTTATCGAGACTGATTATGAC 57.142 34.615 0.00 0.00 0.00 3.06
695 706 4.898829 TTATGACAATGAGGATTTGGCG 57.101 40.909 0.00 0.00 34.70 5.69
696 707 2.198827 TGACAATGAGGATTTGGCGT 57.801 45.000 0.00 0.00 34.70 5.68
697 708 2.083774 TGACAATGAGGATTTGGCGTC 58.916 47.619 0.00 0.00 34.70 5.19
699 710 2.086869 ACAATGAGGATTTGGCGTCAG 58.913 47.619 0.00 0.00 36.29 3.51
700 711 1.402968 CAATGAGGATTTGGCGTCAGG 59.597 52.381 0.00 0.00 36.29 3.86
701 712 0.911769 ATGAGGATTTGGCGTCAGGA 59.088 50.000 0.00 0.00 36.29 3.86
702 713 0.036388 TGAGGATTTGGCGTCAGGAC 60.036 55.000 0.00 0.00 0.00 3.85
727 1040 4.436584 CGAGAAAACAGGATGCAAGATCAC 60.437 45.833 0.00 0.00 42.53 3.06
737 1050 4.808364 GGATGCAAGATCACAAGAGAGTAC 59.192 45.833 0.00 0.00 0.00 2.73
738 1051 4.871933 TGCAAGATCACAAGAGAGTACA 57.128 40.909 0.00 0.00 0.00 2.90
742 1055 5.121454 GCAAGATCACAAGAGAGTACAAAGG 59.879 44.000 0.00 0.00 0.00 3.11
747 1060 5.844004 TCACAAGAGAGTACAAAGGTCTTC 58.156 41.667 0.00 0.00 0.00 2.87
753 1066 2.132762 AGTACAAAGGTCTTCGCAACG 58.867 47.619 0.00 0.00 0.00 4.10
769 1082 0.102481 AACGCTAGACATGGCCGTAG 59.898 55.000 0.00 0.00 0.00 3.51
808 1121 3.888934 ACCGTTTACTGTACACTACGTG 58.111 45.455 0.00 0.00 39.75 4.49
869 1182 2.604373 GCACACGCAAATGCAAAGTCTA 60.604 45.455 6.18 0.00 41.65 2.59
872 1185 3.501828 ACACGCAAATGCAAAGTCTATCA 59.498 39.130 6.18 0.00 42.21 2.15
883 1196 2.776312 AGTCTATCATACGTGTGCGG 57.224 50.000 7.52 0.53 43.45 5.69
977 1290 4.101448 ACGCCACCAGCTCCATCC 62.101 66.667 0.00 0.00 40.39 3.51
982 1295 1.150081 CACCAGCTCCATCCCCATC 59.850 63.158 0.00 0.00 0.00 3.51
983 1296 1.308128 ACCAGCTCCATCCCCATCA 60.308 57.895 0.00 0.00 0.00 3.07
984 1297 1.150081 CCAGCTCCATCCCCATCAC 59.850 63.158 0.00 0.00 0.00 3.06
985 1298 1.150081 CAGCTCCATCCCCATCACC 59.850 63.158 0.00 0.00 0.00 4.02
986 1299 1.005289 AGCTCCATCCCCATCACCT 59.995 57.895 0.00 0.00 0.00 4.00
987 1300 1.150081 GCTCCATCCCCATCACCTG 59.850 63.158 0.00 0.00 0.00 4.00
1245 1567 1.219393 GACGGGCTCCTTCTTCCTG 59.781 63.158 0.00 0.00 0.00 3.86
1410 1735 2.365237 GGCTCCGGGGAGTACCTT 60.365 66.667 4.80 0.00 43.70 3.50
1464 1789 0.540923 TCCGCATGATCATGGACACA 59.459 50.000 31.62 7.30 39.16 3.72
1731 2068 0.105964 CCTTCACCGTCAACCTCACA 59.894 55.000 0.00 0.00 0.00 3.58
1905 2254 1.680522 CCTACTGCCTCGTGGAGCAT 61.681 60.000 7.92 0.00 38.56 3.79
2035 2390 1.203187 ACTACCTCCAGCTCAAGTCCA 60.203 52.381 0.00 0.00 0.00 4.02
2079 2434 0.252284 ACATCTCCTCCGACACCCTT 60.252 55.000 0.00 0.00 0.00 3.95
2238 2608 1.007038 GTGCTACAACGTGTCCGGA 60.007 57.895 0.00 0.00 38.78 5.14
2421 2791 0.179045 AGCAGCAGAACTTCCACGTT 60.179 50.000 0.00 0.00 0.00 3.99
2615 2993 4.624015 ACTGTATTGGAAGAACGAACGAA 58.376 39.130 0.14 0.00 0.00 3.85
2745 3128 3.527533 GGGCTTGTGTTCATATGTACGA 58.472 45.455 7.82 3.52 0.00 3.43
2757 3140 5.137551 TCATATGTACGACTCCAGATGGAA 58.862 41.667 2.65 0.00 44.91 3.53
2794 3195 7.243487 GTGCTCATTTTCGTCTTAAATGATCA 58.757 34.615 10.40 0.00 45.68 2.92
2923 3345 0.248866 CAAAGCAAGGGAACGCGTTT 60.249 50.000 27.32 7.50 0.00 3.60
2942 3364 2.969806 GCGTGCTTGCTGCTGCTTA 61.970 57.895 17.00 4.15 43.37 3.09
2952 3374 2.295885 GCTGCTGCTTATCCAACAGAT 58.704 47.619 8.53 0.00 32.12 2.90
3078 3531 1.867373 CGCCGTTTATTTGCTGCGG 60.867 57.895 0.00 0.00 44.60 5.69
3082 3535 1.211709 GTTTATTTGCTGCGGCCGT 59.788 52.632 28.70 7.28 37.74 5.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.840722 GGACTCTTCCCTCCCACCAA 60.841 60.000 0.00 0.00 35.57 3.67
1 2 1.229529 GGACTCTTCCCTCCCACCA 60.230 63.158 0.00 0.00 35.57 4.17
52 53 4.467084 TCGCCATGGAACGCCTCC 62.467 66.667 18.40 0.00 45.64 4.30
63 64 3.461773 CTCCCTCACCGTCGCCAT 61.462 66.667 0.00 0.00 0.00 4.40
73 74 2.540910 ACCTCTCCCCCTCCCTCA 60.541 66.667 0.00 0.00 0.00 3.86
108 109 4.373116 GGACGCAACCCGAGCTCA 62.373 66.667 15.40 0.00 41.02 4.26
158 162 0.918258 TTCATCACATAGGCAGGCCA 59.082 50.000 13.63 0.00 38.92 5.36
161 165 4.521146 AGAAAGTTCATCACATAGGCAGG 58.479 43.478 0.00 0.00 0.00 4.85
163 167 9.929180 GTATATAGAAAGTTCATCACATAGGCA 57.071 33.333 0.00 0.00 0.00 4.75
187 191 4.449743 GCACAGTTTGAAGACCGTAATGTA 59.550 41.667 0.00 0.00 0.00 2.29
188 192 3.250040 GCACAGTTTGAAGACCGTAATGT 59.750 43.478 0.00 0.00 0.00 2.71
195 199 1.338020 CTTGGGCACAGTTTGAAGACC 59.662 52.381 0.00 0.00 0.00 3.85
196 200 1.338020 CCTTGGGCACAGTTTGAAGAC 59.662 52.381 0.00 0.00 0.00 3.01
201 205 1.242076 CTCTCCTTGGGCACAGTTTG 58.758 55.000 0.00 0.00 0.00 2.93
205 209 0.984230 TTACCTCTCCTTGGGCACAG 59.016 55.000 0.00 0.00 0.00 3.66
209 213 2.941860 GCTCTTTTACCTCTCCTTGGGC 60.942 54.545 0.00 0.00 0.00 5.36
211 215 2.678190 CGGCTCTTTTACCTCTCCTTGG 60.678 54.545 0.00 0.00 0.00 3.61
212 216 2.233922 TCGGCTCTTTTACCTCTCCTTG 59.766 50.000 0.00 0.00 0.00 3.61
218 222 3.793559 TGCTTATCGGCTCTTTTACCTC 58.206 45.455 0.00 0.00 0.00 3.85
231 235 4.556942 TCTTTGATGGCATTGCTTATCG 57.443 40.909 8.82 2.13 0.00 2.92
234 238 5.465532 TGTTTCTTTGATGGCATTGCTTA 57.534 34.783 8.82 0.00 0.00 3.09
237 241 3.808726 TGTTGTTTCTTTGATGGCATTGC 59.191 39.130 0.00 0.00 0.00 3.56
241 245 4.825422 TGTTTGTTGTTTCTTTGATGGCA 58.175 34.783 0.00 0.00 0.00 4.92
251 255 4.351131 ACTTCGACCTGTTTGTTGTTTC 57.649 40.909 0.00 0.00 0.00 2.78
280 284 3.982576 TTCGGCAAGGAAGAAAGTTTC 57.017 42.857 7.57 7.57 0.00 2.78
291 295 4.010349 AGGTAAAGATCTTTTCGGCAAGG 58.990 43.478 25.02 0.00 34.23 3.61
320 330 5.723405 AGTCCTATGCATAGATGGCTAATCA 59.277 40.000 31.14 0.00 37.81 2.57
321 331 6.232581 AGTCCTATGCATAGATGGCTAATC 57.767 41.667 31.14 12.00 35.29 1.75
322 332 5.130145 GGAGTCCTATGCATAGATGGCTAAT 59.870 44.000 31.14 10.90 32.05 1.73
323 333 4.467795 GGAGTCCTATGCATAGATGGCTAA 59.532 45.833 31.14 7.83 32.05 3.09
324 334 4.026744 GGAGTCCTATGCATAGATGGCTA 58.973 47.826 31.14 9.36 32.05 3.93
325 335 2.836981 GGAGTCCTATGCATAGATGGCT 59.163 50.000 31.14 22.52 32.05 4.75
326 336 2.568956 TGGAGTCCTATGCATAGATGGC 59.431 50.000 31.14 18.55 32.05 4.40
327 337 4.224594 ACATGGAGTCCTATGCATAGATGG 59.775 45.833 31.14 17.94 32.05 3.51
328 338 5.417754 ACATGGAGTCCTATGCATAGATG 57.582 43.478 31.14 25.20 32.05 2.90
329 339 5.674052 GACATGGAGTCCTATGCATAGAT 57.326 43.478 31.14 18.01 41.56 1.98
342 352 3.474798 TCTAAGTGGGAGACATGGAGT 57.525 47.619 0.00 0.00 0.00 3.85
343 353 3.963374 TCATCTAAGTGGGAGACATGGAG 59.037 47.826 0.00 0.00 0.00 3.86
344 354 3.994317 TCATCTAAGTGGGAGACATGGA 58.006 45.455 0.00 0.00 0.00 3.41
345 355 4.592351 AGATCATCTAAGTGGGAGACATGG 59.408 45.833 0.00 0.00 0.00 3.66
346 356 5.070180 ACAGATCATCTAAGTGGGAGACATG 59.930 44.000 0.00 0.00 0.00 3.21
378 389 2.686915 GCTGCTAGAATGAGTGGCAAAT 59.313 45.455 0.00 0.00 32.43 2.32
384 395 3.402058 GCAAAGCTGCTAGAATGAGTG 57.598 47.619 0.90 0.00 45.74 3.51
403 414 0.107459 GAGGTGTTGATCCTGGGAGC 60.107 60.000 0.00 0.00 35.20 4.70
406 417 2.887151 AAAGAGGTGTTGATCCTGGG 57.113 50.000 0.00 0.00 35.20 4.45
411 422 6.486993 AGGTCAAAAGTAAAGAGGTGTTGATC 59.513 38.462 0.00 0.00 0.00 2.92
416 427 8.218488 AGATAAAGGTCAAAAGTAAAGAGGTGT 58.782 33.333 0.00 0.00 0.00 4.16
418 429 7.175119 GCAGATAAAGGTCAAAAGTAAAGAGGT 59.825 37.037 0.00 0.00 0.00 3.85
419 430 7.174946 TGCAGATAAAGGTCAAAAGTAAAGAGG 59.825 37.037 0.00 0.00 0.00 3.69
420 431 8.099364 TGCAGATAAAGGTCAAAAGTAAAGAG 57.901 34.615 0.00 0.00 0.00 2.85
421 432 8.458573 TTGCAGATAAAGGTCAAAAGTAAAGA 57.541 30.769 0.00 0.00 0.00 2.52
422 433 9.528018 TTTTGCAGATAAAGGTCAAAAGTAAAG 57.472 29.630 0.00 0.00 33.39 1.85
424 435 9.474920 CATTTTGCAGATAAAGGTCAAAAGTAA 57.525 29.630 0.00 0.00 39.16 2.24
425 436 8.087750 CCATTTTGCAGATAAAGGTCAAAAGTA 58.912 33.333 0.00 0.00 39.16 2.24
426 437 6.930722 CCATTTTGCAGATAAAGGTCAAAAGT 59.069 34.615 0.00 0.00 39.16 2.66
427 438 7.153985 TCCATTTTGCAGATAAAGGTCAAAAG 58.846 34.615 0.00 0.00 39.16 2.27
428 439 7.060383 TCCATTTTGCAGATAAAGGTCAAAA 57.940 32.000 0.00 0.00 39.80 2.44
429 440 6.662865 TCCATTTTGCAGATAAAGGTCAAA 57.337 33.333 0.00 0.00 0.00 2.69
430 441 6.267471 AGTTCCATTTTGCAGATAAAGGTCAA 59.733 34.615 0.00 0.00 0.00 3.18
431 442 5.774690 AGTTCCATTTTGCAGATAAAGGTCA 59.225 36.000 0.00 0.00 0.00 4.02
432 443 6.071952 TCAGTTCCATTTTGCAGATAAAGGTC 60.072 38.462 0.00 0.00 0.00 3.85
454 465 3.497640 GGATCATTTGCCGAAGAGATCAG 59.502 47.826 10.39 0.00 35.80 2.90
519 530 6.882678 GGTGTAGGTGTACTTATCCAACATTT 59.117 38.462 0.00 0.00 0.00 2.32
530 541 8.370266 TCATAATACTTGGTGTAGGTGTACTT 57.630 34.615 0.00 0.00 34.24 2.24
534 545 6.352737 CCCTTCATAATACTTGGTGTAGGTGT 60.353 42.308 0.00 0.00 34.24 4.16
535 546 6.055588 CCCTTCATAATACTTGGTGTAGGTG 58.944 44.000 0.00 0.00 34.24 4.00
536 547 5.729718 ACCCTTCATAATACTTGGTGTAGGT 59.270 40.000 0.00 0.00 34.24 3.08
537 548 6.055588 CACCCTTCATAATACTTGGTGTAGG 58.944 44.000 0.00 0.00 37.57 3.18
541 552 7.110155 ACTTACACCCTTCATAATACTTGGTG 58.890 38.462 0.00 0.00 45.57 4.17
542 553 7.182206 AGACTTACACCCTTCATAATACTTGGT 59.818 37.037 0.00 0.00 0.00 3.67
543 554 7.565680 AGACTTACACCCTTCATAATACTTGG 58.434 38.462 0.00 0.00 0.00 3.61
546 557 9.490083 ACTAAGACTTACACCCTTCATAATACT 57.510 33.333 0.00 0.00 0.00 2.12
547 558 9.747293 GACTAAGACTTACACCCTTCATAATAC 57.253 37.037 0.00 0.00 0.00 1.89
548 559 9.483489 TGACTAAGACTTACACCCTTCATAATA 57.517 33.333 0.00 0.00 0.00 0.98
549 560 8.375493 TGACTAAGACTTACACCCTTCATAAT 57.625 34.615 0.00 0.00 0.00 1.28
550 561 7.786046 TGACTAAGACTTACACCCTTCATAA 57.214 36.000 0.00 0.00 0.00 1.90
551 562 7.453752 ACTTGACTAAGACTTACACCCTTCATA 59.546 37.037 0.00 0.00 37.36 2.15
552 563 6.270231 ACTTGACTAAGACTTACACCCTTCAT 59.730 38.462 0.00 0.00 37.36 2.57
553 564 5.601313 ACTTGACTAAGACTTACACCCTTCA 59.399 40.000 0.00 0.00 37.36 3.02
554 565 5.927115 CACTTGACTAAGACTTACACCCTTC 59.073 44.000 0.00 0.00 37.36 3.46
555 566 5.601313 TCACTTGACTAAGACTTACACCCTT 59.399 40.000 0.00 0.00 37.36 3.95
556 567 5.010820 GTCACTTGACTAAGACTTACACCCT 59.989 44.000 1.92 0.00 41.65 4.34
557 568 5.221382 TGTCACTTGACTAAGACTTACACCC 60.221 44.000 10.63 0.00 44.99 4.61
558 569 5.839621 TGTCACTTGACTAAGACTTACACC 58.160 41.667 10.63 0.00 44.99 4.16
559 570 8.913656 GTTATGTCACTTGACTAAGACTTACAC 58.086 37.037 10.63 0.00 44.99 2.90
560 571 8.635328 TGTTATGTCACTTGACTAAGACTTACA 58.365 33.333 10.63 2.16 44.99 2.41
561 572 9.640963 ATGTTATGTCACTTGACTAAGACTTAC 57.359 33.333 10.63 0.00 44.99 2.34
562 573 9.639601 CATGTTATGTCACTTGACTAAGACTTA 57.360 33.333 10.63 0.00 44.99 2.24
563 574 8.150945 ACATGTTATGTCACTTGACTAAGACTT 58.849 33.333 10.63 0.00 44.99 3.01
564 575 7.671302 ACATGTTATGTCACTTGACTAAGACT 58.329 34.615 10.63 0.00 44.99 3.24
565 576 7.891183 ACATGTTATGTCACTTGACTAAGAC 57.109 36.000 10.63 5.26 44.99 3.01
570 581 9.809096 CTCTATTACATGTTATGTCACTTGACT 57.191 33.333 2.30 0.00 43.67 3.41
571 582 9.803315 TCTCTATTACATGTTATGTCACTTGAC 57.197 33.333 2.30 2.19 43.67 3.18
615 626 9.836076 CCGTGAGATCTTACATTAATATTCGTA 57.164 33.333 16.95 0.00 0.00 3.43
616 627 8.573885 TCCGTGAGATCTTACATTAATATTCGT 58.426 33.333 16.95 0.00 0.00 3.85
617 628 8.965986 TCCGTGAGATCTTACATTAATATTCG 57.034 34.615 16.95 0.01 0.00 3.34
626 637 9.047371 CGATACTATATCCGTGAGATCTTACAT 57.953 37.037 16.95 7.00 36.33 2.29
627 638 8.255905 TCGATACTATATCCGTGAGATCTTACA 58.744 37.037 16.95 0.00 36.33 2.41
628 639 8.542132 GTCGATACTATATCCGTGAGATCTTAC 58.458 40.741 7.56 7.56 36.33 2.34
629 640 8.476447 AGTCGATACTATATCCGTGAGATCTTA 58.524 37.037 0.00 0.00 33.25 2.10
630 641 7.279090 CAGTCGATACTATATCCGTGAGATCTT 59.721 40.741 0.00 0.00 33.53 2.40
631 642 6.759356 CAGTCGATACTATATCCGTGAGATCT 59.241 42.308 0.00 0.00 33.53 2.75
632 643 6.757478 TCAGTCGATACTATATCCGTGAGATC 59.243 42.308 0.00 0.00 33.53 2.75
633 644 6.641474 TCAGTCGATACTATATCCGTGAGAT 58.359 40.000 0.00 0.00 35.04 2.75
634 645 6.034161 TCAGTCGATACTATATCCGTGAGA 57.966 41.667 0.00 0.00 33.48 3.27
635 646 6.723131 TTCAGTCGATACTATATCCGTGAG 57.277 41.667 0.00 0.00 33.48 3.51
636 647 6.709397 AGTTTCAGTCGATACTATATCCGTGA 59.291 38.462 0.00 0.00 32.38 4.35
637 648 6.900189 AGTTTCAGTCGATACTATATCCGTG 58.100 40.000 0.00 0.00 32.38 4.94
638 649 7.507733 AAGTTTCAGTCGATACTATATCCGT 57.492 36.000 0.00 0.00 32.92 4.69
639 650 9.705471 GATAAGTTTCAGTCGATACTATATCCG 57.295 37.037 0.00 0.00 32.92 4.18
640 651 9.705471 CGATAAGTTTCAGTCGATACTATATCC 57.295 37.037 0.00 0.00 32.92 2.59
643 654 9.702494 TCTCGATAAGTTTCAGTCGATACTATA 57.298 33.333 0.00 0.00 41.58 1.31
644 655 8.497554 GTCTCGATAAGTTTCAGTCGATACTAT 58.502 37.037 0.00 0.00 41.58 2.12
645 656 7.710044 AGTCTCGATAAGTTTCAGTCGATACTA 59.290 37.037 11.27 0.00 43.77 1.82
646 657 6.539464 AGTCTCGATAAGTTTCAGTCGATACT 59.461 38.462 8.28 8.28 42.10 2.12
647 658 6.629649 CAGTCTCGATAAGTTTCAGTCGATAC 59.370 42.308 0.00 0.00 41.58 2.24
648 659 6.537660 TCAGTCTCGATAAGTTTCAGTCGATA 59.462 38.462 0.00 0.00 41.58 2.92
649 660 5.354513 TCAGTCTCGATAAGTTTCAGTCGAT 59.645 40.000 0.00 0.00 41.58 3.59
650 661 4.694037 TCAGTCTCGATAAGTTTCAGTCGA 59.306 41.667 0.00 0.00 40.38 4.20
651 662 4.971008 TCAGTCTCGATAAGTTTCAGTCG 58.029 43.478 0.00 0.00 35.55 4.18
652 663 8.963130 CATAATCAGTCTCGATAAGTTTCAGTC 58.037 37.037 0.00 0.00 0.00 3.51
653 664 8.687242 TCATAATCAGTCTCGATAAGTTTCAGT 58.313 33.333 0.00 0.00 0.00 3.41
654 665 8.963130 GTCATAATCAGTCTCGATAAGTTTCAG 58.037 37.037 0.00 0.00 0.00 3.02
655 666 8.466798 TGTCATAATCAGTCTCGATAAGTTTCA 58.533 33.333 0.00 0.00 0.00 2.69
656 667 8.858003 TGTCATAATCAGTCTCGATAAGTTTC 57.142 34.615 0.00 0.00 0.00 2.78
657 668 9.823647 ATTGTCATAATCAGTCTCGATAAGTTT 57.176 29.630 0.00 0.00 0.00 2.66
658 669 9.254133 CATTGTCATAATCAGTCTCGATAAGTT 57.746 33.333 0.00 0.00 0.00 2.66
659 670 8.633561 TCATTGTCATAATCAGTCTCGATAAGT 58.366 33.333 0.00 0.00 0.00 2.24
660 671 9.127006 CTCATTGTCATAATCAGTCTCGATAAG 57.873 37.037 0.00 0.00 0.00 1.73
661 672 8.084684 CCTCATTGTCATAATCAGTCTCGATAA 58.915 37.037 0.00 0.00 0.00 1.75
662 673 7.448469 TCCTCATTGTCATAATCAGTCTCGATA 59.552 37.037 0.00 0.00 0.00 2.92
663 674 6.266330 TCCTCATTGTCATAATCAGTCTCGAT 59.734 38.462 0.00 0.00 0.00 3.59
664 675 5.594317 TCCTCATTGTCATAATCAGTCTCGA 59.406 40.000 0.00 0.00 0.00 4.04
665 676 5.836347 TCCTCATTGTCATAATCAGTCTCG 58.164 41.667 0.00 0.00 0.00 4.04
666 677 8.557864 CAAATCCTCATTGTCATAATCAGTCTC 58.442 37.037 0.00 0.00 0.00 3.36
667 678 7.501559 CCAAATCCTCATTGTCATAATCAGTCT 59.498 37.037 0.00 0.00 0.00 3.24
668 679 7.646314 CCAAATCCTCATTGTCATAATCAGTC 58.354 38.462 0.00 0.00 0.00 3.51
669 680 6.040166 GCCAAATCCTCATTGTCATAATCAGT 59.960 38.462 0.00 0.00 0.00 3.41
670 681 6.444633 GCCAAATCCTCATTGTCATAATCAG 58.555 40.000 0.00 0.00 0.00 2.90
671 682 5.008911 CGCCAAATCCTCATTGTCATAATCA 59.991 40.000 0.00 0.00 0.00 2.57
672 683 5.009010 ACGCCAAATCCTCATTGTCATAATC 59.991 40.000 0.00 0.00 0.00 1.75
675 686 3.876914 GACGCCAAATCCTCATTGTCATA 59.123 43.478 0.00 0.00 0.00 2.15
680 691 1.402968 CCTGACGCCAAATCCTCATTG 59.597 52.381 0.00 0.00 0.00 2.82
695 706 0.784778 CTGTTTTCTCGCGTCCTGAC 59.215 55.000 5.77 1.77 0.00 3.51
696 707 0.319555 CCTGTTTTCTCGCGTCCTGA 60.320 55.000 5.77 0.00 0.00 3.86
697 708 0.319555 TCCTGTTTTCTCGCGTCCTG 60.320 55.000 5.77 0.00 0.00 3.86
699 710 0.721718 CATCCTGTTTTCTCGCGTCC 59.278 55.000 5.77 0.00 0.00 4.79
700 711 0.095417 GCATCCTGTTTTCTCGCGTC 59.905 55.000 5.77 0.00 0.00 5.19
701 712 0.602638 TGCATCCTGTTTTCTCGCGT 60.603 50.000 5.77 0.00 0.00 6.01
702 713 0.516877 TTGCATCCTGTTTTCTCGCG 59.483 50.000 0.00 0.00 0.00 5.87
703 714 1.806542 TCTTGCATCCTGTTTTCTCGC 59.193 47.619 0.00 0.00 0.00 5.03
704 715 3.686241 TGATCTTGCATCCTGTTTTCTCG 59.314 43.478 0.00 0.00 0.00 4.04
705 716 4.456911 TGTGATCTTGCATCCTGTTTTCTC 59.543 41.667 0.00 0.00 0.00 2.87
706 717 4.401022 TGTGATCTTGCATCCTGTTTTCT 58.599 39.130 0.00 0.00 0.00 2.52
707 718 4.771590 TGTGATCTTGCATCCTGTTTTC 57.228 40.909 0.00 0.00 0.00 2.29
708 719 4.828939 TCTTGTGATCTTGCATCCTGTTTT 59.171 37.500 0.00 0.00 0.00 2.43
709 720 4.401022 TCTTGTGATCTTGCATCCTGTTT 58.599 39.130 0.00 0.00 0.00 2.83
712 723 3.870274 TCTCTTGTGATCTTGCATCCTG 58.130 45.455 0.00 0.00 0.00 3.86
727 1040 3.675698 GCGAAGACCTTTGTACTCTCTTG 59.324 47.826 0.00 0.00 0.00 3.02
737 1050 1.126846 CTAGCGTTGCGAAGACCTTTG 59.873 52.381 0.00 0.00 0.00 2.77
738 1051 1.000506 TCTAGCGTTGCGAAGACCTTT 59.999 47.619 0.00 0.00 0.00 3.11
742 1055 1.321743 CATGTCTAGCGTTGCGAAGAC 59.678 52.381 15.77 15.77 42.46 3.01
747 1060 2.703409 GCCATGTCTAGCGTTGCG 59.297 61.111 0.00 0.00 0.00 4.85
753 1066 2.596904 TTTCTACGGCCATGTCTAGC 57.403 50.000 2.24 0.00 0.00 3.42
769 1082 2.598205 CGGTCGAGTCAAACGGTTTTTC 60.598 50.000 2.79 1.97 0.00 2.29
808 1121 1.340017 TGACCTGGCAAATAGTGGAGC 60.340 52.381 0.00 0.00 0.00 4.70
858 1171 4.271049 GCACACGTATGATAGACTTTGCAT 59.729 41.667 0.00 0.00 0.00 3.96
869 1182 0.459585 GTGGACCGCACACGTATGAT 60.460 55.000 0.00 0.00 37.70 2.45
872 1185 1.080093 CAGTGGACCGCACACGTAT 60.080 57.895 7.99 0.00 43.41 3.06
977 1290 2.273449 GTGGAGGCAGGTGATGGG 59.727 66.667 0.00 0.00 0.00 4.00
982 1295 2.282462 GGTTGGTGGAGGCAGGTG 60.282 66.667 0.00 0.00 0.00 4.00
983 1296 2.162906 ATGGTTGGTGGAGGCAGGT 61.163 57.895 0.00 0.00 0.00 4.00
984 1297 1.679977 CATGGTTGGTGGAGGCAGG 60.680 63.158 0.00 0.00 0.00 4.85
985 1298 1.679977 CCATGGTTGGTGGAGGCAG 60.680 63.158 2.57 0.00 39.12 4.85
986 1299 2.440147 CCATGGTTGGTGGAGGCA 59.560 61.111 2.57 0.00 39.12 4.75
987 1300 3.070576 GCCATGGTTGGTGGAGGC 61.071 66.667 14.67 0.00 45.57 4.70
1245 1567 1.153804 GTCTTTCTCGGCCGACTCC 60.154 63.158 27.28 5.21 0.00 3.85
1248 1570 3.179939 GCGTCTTTCTCGGCCGAC 61.180 66.667 27.28 13.52 0.00 4.79
1464 1789 2.345244 CAGTTGAGGTCGCTGCCT 59.655 61.111 0.00 0.00 42.53 4.75
2238 2608 1.517832 CACCTCGATCTTTCCGGCT 59.482 57.895 0.00 0.00 0.00 5.52
2421 2791 2.113433 GCGCTCCAGGTCGTAGAGA 61.113 63.158 0.00 0.00 36.95 3.10
2615 2993 1.847737 TCTACACCCAACCCACTTTGT 59.152 47.619 0.00 0.00 0.00 2.83
2715 3098 1.609072 GAACACAAGCCCCAAAGTCTC 59.391 52.381 0.00 0.00 0.00 3.36
2726 3109 4.267928 GGAGTCGTACATATGAACACAAGC 59.732 45.833 10.38 0.00 0.00 4.01
2745 3128 2.194859 ACAGAGCATTCCATCTGGAGT 58.805 47.619 7.09 0.00 45.86 3.85
2757 3140 2.211250 ATGAGCACCAAACAGAGCAT 57.789 45.000 0.00 0.00 0.00 3.79
2846 3247 4.511826 GGACGACTCAAAAGACATTTCTGT 59.488 41.667 0.00 0.00 38.67 3.41
2942 3364 5.348724 CGCTTATATAACGCATCTGTTGGAT 59.651 40.000 13.67 0.00 33.32 3.41
3163 3622 1.447140 CGGTCGCCGGATGAAAAGA 60.447 57.895 5.05 0.00 44.15 2.52


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

AutoCloner maintained by Alex Coulton.