Multiple sequence alignment - TraesCS4A01G403800

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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 TraesCS4A01G403800 chr4A 100.000 3263 0 0 1 3263 677732741 677729479 0.000000e+00 6026.0
1 TraesCS4A01G403800 chr4A 87.500 872 88 12 1420 2271 677735635 677736505 0.000000e+00 987.0
2 TraesCS4A01G403800 chr4A 82.185 421 36 21 2679 3070 677736959 677737369 3.140000e-85 326.0
3 TraesCS4A01G403800 chr4A 90.598 117 10 1 3148 3263 677737478 677737594 1.570000e-33 154.0
4 TraesCS4A01G403800 chr7B 94.902 1726 70 9 658 2383 2333864 2335571 0.000000e+00 2684.0
5 TraesCS4A01G403800 chr7B 89.796 1029 87 10 1298 2314 2329366 2328344 0.000000e+00 1303.0
6 TraesCS4A01G403800 chr7B 93.825 583 19 4 2516 3081 2338223 2338805 0.000000e+00 861.0
7 TraesCS4A01G403800 chr7B 81.598 413 52 15 2678 3072 1700111 1700517 1.460000e-83 320.0
8 TraesCS4A01G403800 chr7B 93.782 193 8 4 2293 2485 2337958 2338146 1.480000e-73 287.0
9 TraesCS4A01G403800 chr7B 78.821 458 50 24 2311 2746 2328310 2327878 6.940000e-67 265.0
10 TraesCS4A01G403800 chr7B 91.979 187 11 1 3077 3263 2343885 2344067 3.230000e-65 259.0
11 TraesCS4A01G403800 chr7B 93.333 165 10 1 112 276 2333708 2333871 3.250000e-60 243.0
12 TraesCS4A01G403800 chr7B 88.442 199 19 3 2765 2960 2327721 2327524 1.510000e-58 237.0
13 TraesCS4A01G403800 chr7B 96.032 126 5 0 1 126 2333419 2333544 4.270000e-49 206.0
14 TraesCS4A01G403800 chr7B 86.111 180 24 1 85 263 748331366 748331187 3.320000e-45 193.0
15 TraesCS4A01G403800 chr7B 86.034 179 19 6 82 257 339619285 339619460 1.550000e-43 187.0
16 TraesCS4A01G403800 chr7A 90.517 1297 93 8 1033 2314 64210825 64209544 0.000000e+00 1687.0
17 TraesCS4A01G403800 chr7A 81.003 758 74 31 571 1284 64256345 64257076 3.700000e-149 538.0
18 TraesCS4A01G403800 chr7A 77.011 1044 120 54 2310 3263 64209508 64208495 3.780000e-134 488.0
19 TraesCS4A01G403800 chr7A 82.174 460 51 20 2517 2960 64255207 64254763 1.850000e-97 366.0
20 TraesCS4A01G403800 chr7A 80.550 473 62 18 2627 3073 64308862 64309330 1.450000e-88 337.0
21 TraesCS4A01G403800 chr7A 91.111 135 12 0 1144 1278 64217960 64217826 2.000000e-42 183.0
22 TraesCS4A01G403800 chr7A 87.059 85 8 2 300 383 17602560 17602478 3.470000e-15 93.5
23 TraesCS4A01G403800 chr6D 87.397 1452 138 29 955 2381 62425355 62423924 0.000000e+00 1626.0
24 TraesCS4A01G403800 chr6D 87.311 1387 148 15 948 2311 62325549 62324168 0.000000e+00 1561.0
25 TraesCS4A01G403800 chr6D 85.556 180 25 1 85 263 454064414 454064235 1.550000e-43 187.0
26 TraesCS4A01G403800 chr6B 87.608 1388 146 15 948 2314 135996717 135995335 0.000000e+00 1587.0
27 TraesCS4A01G403800 chr6B 87.593 1346 139 16 992 2317 136101405 136100068 0.000000e+00 1535.0
28 TraesCS4A01G403800 chr6B 79.817 109 15 5 3125 3231 316549125 316549228 4.520000e-09 73.1
29 TraesCS4A01G403800 chr6A 87.845 1341 135 15 964 2283 79703897 79702564 0.000000e+00 1548.0
30 TraesCS4A01G403800 chr6A 85.165 182 25 2 83 263 591940579 591940399 5.560000e-43 185.0
31 TraesCS4A01G403800 chr7D 86.188 181 22 3 85 263 632121086 632120907 3.320000e-45 193.0
32 TraesCS4A01G403800 chr5D 85.246 183 26 1 82 263 28992302 28992484 1.550000e-43 187.0
33 TraesCS4A01G403800 chr3B 85.246 183 26 1 82 263 463483893 463484075 1.550000e-43 187.0
34 TraesCS4A01G403800 chr3D 85.326 184 22 5 82 263 452655170 452654990 5.560000e-43 185.0
35 TraesCS4A01G403800 chr3A 82.796 93 13 3 295 384 719817883 719817791 2.700000e-11 80.5
36 TraesCS4A01G403800 chr4B 100.000 28 0 0 453 480 111779631 111779604 6.000000e-03 52.8


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 TraesCS4A01G403800 chr4A 677729479 677732741 3262 True 6026.000000 6026 100.000000 1 3263 1 chr4A.!!$R1 3262
1 TraesCS4A01G403800 chr4A 677735635 677737594 1959 False 489.000000 987 86.761000 1420 3263 3 chr4A.!!$F1 1843
2 TraesCS4A01G403800 chr7B 2333419 2338805 5386 False 856.200000 2684 94.374800 1 3081 5 chr7B.!!$F4 3080
3 TraesCS4A01G403800 chr7B 2327524 2329366 1842 True 601.666667 1303 85.686333 1298 2960 3 chr7B.!!$R2 1662
4 TraesCS4A01G403800 chr7A 64208495 64210825 2330 True 1087.500000 1687 83.764000 1033 3263 2 chr7A.!!$R4 2230
5 TraesCS4A01G403800 chr7A 64256345 64257076 731 False 538.000000 538 81.003000 571 1284 1 chr7A.!!$F1 713
6 TraesCS4A01G403800 chr6D 62423924 62425355 1431 True 1626.000000 1626 87.397000 955 2381 1 chr6D.!!$R2 1426
7 TraesCS4A01G403800 chr6D 62324168 62325549 1381 True 1561.000000 1561 87.311000 948 2311 1 chr6D.!!$R1 1363
8 TraesCS4A01G403800 chr6B 135995335 135996717 1382 True 1587.000000 1587 87.608000 948 2314 1 chr6B.!!$R1 1366
9 TraesCS4A01G403800 chr6B 136100068 136101405 1337 True 1535.000000 1535 87.593000 992 2317 1 chr6B.!!$R2 1325
10 TraesCS4A01G403800 chr6A 79702564 79703897 1333 True 1548.000000 1548 87.845000 964 2283 1 chr6A.!!$R1 1319

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
300 479 0.037303 AGTCATTGCTGGGTGGTCTG 59.963 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
2263 2553 0.178987 AGTGAGTCAGAGTCGGTGGT 60.179 55.0 0.0 0.0 0.0 4.16 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
63 64 0.811281 GTCTTTGCTTGGGCGCTTAT 59.189 50.000 7.64 0.00 42.25 1.73
80 81 4.627467 CGCTTATAGATTTGATCCTTCCGG 59.373 45.833 0.00 0.00 0.00 5.14
86 87 4.518249 AGATTTGATCCTTCCGGTCTTTC 58.482 43.478 0.00 0.00 0.00 2.62
119 120 3.198068 TCTCTTCATTGGCGATAGTTGC 58.802 45.455 0.00 0.00 39.35 4.17
131 310 4.174009 GCGATAGTTGCTGTTCTAGTTCA 58.826 43.478 0.00 0.00 39.35 3.18
142 321 5.680151 GCTGTTCTAGTTCACTGGTCCTATC 60.680 48.000 0.00 0.00 0.00 2.08
165 344 1.941325 CCTTAGCACGATGACTTCCC 58.059 55.000 0.00 0.00 0.00 3.97
167 346 2.271800 CTTAGCACGATGACTTCCCAC 58.728 52.381 0.00 0.00 0.00 4.61
177 356 4.201930 CGATGACTTCCCACTGTCTACTAC 60.202 50.000 0.00 0.00 34.57 2.73
180 359 5.084519 TGACTTCCCACTGTCTACTACAAT 58.915 41.667 0.00 0.00 37.74 2.71
199 378 0.321298 TAAGGTTTGTCCGGCTCTGC 60.321 55.000 0.00 0.00 41.99 4.26
263 442 2.626743 AGTGTTGGTAGTCGTTGCTAGT 59.373 45.455 0.00 0.00 0.00 2.57
292 471 7.769272 TTTTTGAAAAAGTAGTCATTGCTGG 57.231 32.000 0.00 0.00 0.00 4.85
293 472 5.452078 TTGAAAAAGTAGTCATTGCTGGG 57.548 39.130 0.00 0.00 0.00 4.45
294 473 4.469657 TGAAAAAGTAGTCATTGCTGGGT 58.530 39.130 0.00 0.00 0.00 4.51
295 474 4.278170 TGAAAAAGTAGTCATTGCTGGGTG 59.722 41.667 0.00 0.00 0.00 4.61
296 475 2.496899 AAGTAGTCATTGCTGGGTGG 57.503 50.000 0.00 0.00 0.00 4.61
297 476 1.362224 AGTAGTCATTGCTGGGTGGT 58.638 50.000 0.00 0.00 0.00 4.16
298 477 1.279271 AGTAGTCATTGCTGGGTGGTC 59.721 52.381 0.00 0.00 0.00 4.02
299 478 1.279271 GTAGTCATTGCTGGGTGGTCT 59.721 52.381 0.00 0.00 0.00 3.85
300 479 0.037303 AGTCATTGCTGGGTGGTCTG 59.963 55.000 0.00 0.00 0.00 3.51
301 480 0.962356 GTCATTGCTGGGTGGTCTGG 60.962 60.000 0.00 0.00 0.00 3.86
302 481 1.075482 CATTGCTGGGTGGTCTGGT 59.925 57.895 0.00 0.00 0.00 4.00
303 482 0.540365 CATTGCTGGGTGGTCTGGTT 60.540 55.000 0.00 0.00 0.00 3.67
304 483 0.540365 ATTGCTGGGTGGTCTGGTTG 60.540 55.000 0.00 0.00 0.00 3.77
305 484 1.932156 TTGCTGGGTGGTCTGGTTGT 61.932 55.000 0.00 0.00 0.00 3.32
306 485 1.057275 TGCTGGGTGGTCTGGTTGTA 61.057 55.000 0.00 0.00 0.00 2.41
307 486 0.109723 GCTGGGTGGTCTGGTTGTAA 59.890 55.000 0.00 0.00 0.00 2.41
308 487 1.892209 CTGGGTGGTCTGGTTGTAAC 58.108 55.000 0.00 0.00 0.00 2.50
309 488 1.420138 CTGGGTGGTCTGGTTGTAACT 59.580 52.381 0.00 0.00 0.00 2.24
310 489 1.847737 TGGGTGGTCTGGTTGTAACTT 59.152 47.619 0.00 0.00 0.00 2.66
311 490 2.242708 TGGGTGGTCTGGTTGTAACTTT 59.757 45.455 0.00 0.00 0.00 2.66
312 491 3.458857 TGGGTGGTCTGGTTGTAACTTTA 59.541 43.478 0.00 0.00 0.00 1.85
313 492 4.105057 TGGGTGGTCTGGTTGTAACTTTAT 59.895 41.667 0.00 0.00 0.00 1.40
314 493 5.074804 GGGTGGTCTGGTTGTAACTTTATT 58.925 41.667 0.00 0.00 0.00 1.40
315 494 6.183361 TGGGTGGTCTGGTTGTAACTTTATTA 60.183 38.462 0.00 0.00 0.00 0.98
316 495 6.149973 GGGTGGTCTGGTTGTAACTTTATTAC 59.850 42.308 0.00 0.00 0.00 1.89
317 496 6.149973 GGTGGTCTGGTTGTAACTTTATTACC 59.850 42.308 0.00 0.00 0.00 2.85
318 497 6.938596 GTGGTCTGGTTGTAACTTTATTACCT 59.061 38.462 0.00 0.00 0.00 3.08
319 498 7.118825 GTGGTCTGGTTGTAACTTTATTACCTC 59.881 40.741 0.00 0.00 0.00 3.85
320 499 6.596888 GGTCTGGTTGTAACTTTATTACCTCC 59.403 42.308 0.00 0.00 0.00 4.30
321 500 6.312180 GTCTGGTTGTAACTTTATTACCTCCG 59.688 42.308 0.00 0.00 0.00 4.63
322 501 5.490159 TGGTTGTAACTTTATTACCTCCGG 58.510 41.667 0.00 0.00 0.00 5.14
323 502 5.012975 TGGTTGTAACTTTATTACCTCCGGT 59.987 40.000 0.00 0.00 40.16 5.28
324 503 5.352293 GGTTGTAACTTTATTACCTCCGGTG 59.648 44.000 0.00 0.00 36.19 4.94
325 504 5.743636 TGTAACTTTATTACCTCCGGTGT 57.256 39.130 0.00 2.58 36.19 4.16
326 505 6.112927 TGTAACTTTATTACCTCCGGTGTT 57.887 37.500 0.00 0.00 36.19 3.32
327 506 6.165577 TGTAACTTTATTACCTCCGGTGTTC 58.834 40.000 0.00 0.00 36.19 3.18
328 507 5.494390 AACTTTATTACCTCCGGTGTTCT 57.506 39.130 0.00 0.00 36.19 3.01
329 508 5.494390 ACTTTATTACCTCCGGTGTTCTT 57.506 39.130 0.00 0.00 36.19 2.52
330 509 5.485620 ACTTTATTACCTCCGGTGTTCTTC 58.514 41.667 0.00 0.00 36.19 2.87
331 510 2.667473 ATTACCTCCGGTGTTCTTCG 57.333 50.000 0.00 0.00 36.19 3.79
332 511 1.331214 TTACCTCCGGTGTTCTTCGT 58.669 50.000 0.00 0.00 36.19 3.85
333 512 2.198827 TACCTCCGGTGTTCTTCGTA 57.801 50.000 0.00 0.00 36.19 3.43
334 513 0.600057 ACCTCCGGTGTTCTTCGTAC 59.400 55.000 0.00 0.00 32.98 3.67
335 514 0.599558 CCTCCGGTGTTCTTCGTACA 59.400 55.000 0.00 0.00 0.00 2.90
336 515 1.000060 CCTCCGGTGTTCTTCGTACAA 60.000 52.381 0.00 0.00 0.00 2.41
337 516 2.056577 CTCCGGTGTTCTTCGTACAAC 58.943 52.381 0.00 0.00 0.00 3.32
338 517 1.142474 CCGGTGTTCTTCGTACAACC 58.858 55.000 0.00 0.00 29.28 3.77
339 518 1.538634 CCGGTGTTCTTCGTACAACCA 60.539 52.381 0.00 0.00 29.28 3.67
340 519 2.409975 CGGTGTTCTTCGTACAACCAT 58.590 47.619 0.00 0.00 29.28 3.55
341 520 2.156891 CGGTGTTCTTCGTACAACCATG 59.843 50.000 0.00 0.00 29.28 3.66
342 521 2.095919 GGTGTTCTTCGTACAACCATGC 60.096 50.000 0.00 0.00 0.00 4.06
343 522 2.806244 GTGTTCTTCGTACAACCATGCT 59.194 45.455 0.00 0.00 0.00 3.79
344 523 3.250040 GTGTTCTTCGTACAACCATGCTT 59.750 43.478 0.00 0.00 0.00 3.91
345 524 4.449743 GTGTTCTTCGTACAACCATGCTTA 59.550 41.667 0.00 0.00 0.00 3.09
346 525 5.049954 GTGTTCTTCGTACAACCATGCTTAA 60.050 40.000 0.00 0.00 0.00 1.85
347 526 5.527951 TGTTCTTCGTACAACCATGCTTAAA 59.472 36.000 0.00 0.00 0.00 1.52
348 527 5.856126 TCTTCGTACAACCATGCTTAAAG 57.144 39.130 0.00 0.00 0.00 1.85
349 528 5.543714 TCTTCGTACAACCATGCTTAAAGA 58.456 37.500 0.00 0.00 0.00 2.52
350 529 6.170506 TCTTCGTACAACCATGCTTAAAGAT 58.829 36.000 0.00 0.00 0.00 2.40
351 530 5.794687 TCGTACAACCATGCTTAAAGATG 57.205 39.130 0.00 0.00 0.00 2.90
352 531 5.483811 TCGTACAACCATGCTTAAAGATGA 58.516 37.500 0.00 0.00 0.00 2.92
353 532 5.935206 TCGTACAACCATGCTTAAAGATGAA 59.065 36.000 0.00 0.00 0.00 2.57
354 533 6.597672 TCGTACAACCATGCTTAAAGATGAAT 59.402 34.615 0.00 0.00 0.00 2.57
355 534 7.766738 TCGTACAACCATGCTTAAAGATGAATA 59.233 33.333 0.00 0.00 0.00 1.75
356 535 8.064222 CGTACAACCATGCTTAAAGATGAATAG 58.936 37.037 0.00 0.00 0.00 1.73
357 536 9.109393 GTACAACCATGCTTAAAGATGAATAGA 57.891 33.333 0.00 0.00 0.00 1.98
358 537 8.757982 ACAACCATGCTTAAAGATGAATAGAT 57.242 30.769 0.00 0.00 0.00 1.98
359 538 9.193806 ACAACCATGCTTAAAGATGAATAGATT 57.806 29.630 0.00 0.00 0.00 2.40
360 539 9.459640 CAACCATGCTTAAAGATGAATAGATTG 57.540 33.333 0.00 0.00 0.00 2.67
361 540 8.985315 ACCATGCTTAAAGATGAATAGATTGA 57.015 30.769 0.00 0.00 0.00 2.57
362 541 9.412460 ACCATGCTTAAAGATGAATAGATTGAA 57.588 29.630 0.00 0.00 0.00 2.69
374 553 8.847444 ATGAATAGATTGAAAATTTCTCGTGC 57.153 30.769 7.29 0.00 0.00 5.34
375 554 7.815641 TGAATAGATTGAAAATTTCTCGTGCA 58.184 30.769 7.29 0.00 0.00 4.57
376 555 8.296000 TGAATAGATTGAAAATTTCTCGTGCAA 58.704 29.630 7.29 0.00 0.00 4.08
377 556 9.128107 GAATAGATTGAAAATTTCTCGTGCAAA 57.872 29.630 7.29 0.00 0.00 3.68
378 557 9.474920 AATAGATTGAAAATTTCTCGTGCAAAA 57.525 25.926 7.29 0.00 0.00 2.44
379 558 7.769272 AGATTGAAAATTTCTCGTGCAAAAA 57.231 28.000 7.29 0.00 0.00 1.94
404 583 7.611213 AAAAAGTACGACCCAATGATTAGAG 57.389 36.000 0.00 0.00 0.00 2.43
405 584 4.939052 AGTACGACCCAATGATTAGAGG 57.061 45.455 0.00 0.00 0.00 3.69
406 585 3.641906 AGTACGACCCAATGATTAGAGGG 59.358 47.826 0.00 0.00 46.96 4.30
414 593 5.965922 CCCAATGATTAGAGGGTTTTGAAC 58.034 41.667 0.00 0.00 36.52 3.18
415 594 5.716703 CCCAATGATTAGAGGGTTTTGAACT 59.283 40.000 0.00 0.00 36.52 3.01
416 595 6.889722 CCCAATGATTAGAGGGTTTTGAACTA 59.110 38.462 0.00 0.00 36.52 2.24
417 596 7.561356 CCCAATGATTAGAGGGTTTTGAACTAT 59.439 37.037 0.00 0.00 36.52 2.12
418 597 8.971073 CCAATGATTAGAGGGTTTTGAACTATT 58.029 33.333 0.00 0.00 0.00 1.73
420 599 7.843490 TGATTAGAGGGTTTTGAACTATTCG 57.157 36.000 0.00 0.00 0.00 3.34
421 600 6.315393 TGATTAGAGGGTTTTGAACTATTCGC 59.685 38.462 0.00 0.00 0.00 4.70
422 601 4.287766 AGAGGGTTTTGAACTATTCGCT 57.712 40.909 0.00 0.00 0.00 4.93
423 602 4.652822 AGAGGGTTTTGAACTATTCGCTT 58.347 39.130 0.00 0.00 0.00 4.68
424 603 5.070685 AGAGGGTTTTGAACTATTCGCTTT 58.929 37.500 0.00 0.00 0.00 3.51
425 604 5.048713 AGAGGGTTTTGAACTATTCGCTTTG 60.049 40.000 0.00 0.00 0.00 2.77
426 605 4.583073 AGGGTTTTGAACTATTCGCTTTGT 59.417 37.500 0.00 0.00 0.00 2.83
427 606 5.068591 AGGGTTTTGAACTATTCGCTTTGTT 59.931 36.000 0.00 0.00 0.00 2.83
428 607 5.751509 GGGTTTTGAACTATTCGCTTTGTTT 59.248 36.000 0.00 0.00 0.00 2.83
429 608 6.074516 GGGTTTTGAACTATTCGCTTTGTTTC 60.075 38.462 0.00 0.00 0.00 2.78
430 609 6.474102 GGTTTTGAACTATTCGCTTTGTTTCA 59.526 34.615 0.00 0.00 0.00 2.69
431 610 7.009723 GGTTTTGAACTATTCGCTTTGTTTCAA 59.990 33.333 0.00 0.00 0.00 2.69
432 611 8.376942 GTTTTGAACTATTCGCTTTGTTTCAAA 58.623 29.630 0.00 0.00 0.00 2.69
433 612 8.467402 TTTGAACTATTCGCTTTGTTTCAAAA 57.533 26.923 0.00 0.00 0.00 2.44
434 613 8.641499 TTGAACTATTCGCTTTGTTTCAAAAT 57.359 26.923 0.00 0.00 0.00 1.82
435 614 9.737427 TTGAACTATTCGCTTTGTTTCAAAATA 57.263 25.926 0.00 0.00 0.00 1.40
436 615 9.906660 TGAACTATTCGCTTTGTTTCAAAATAT 57.093 25.926 0.00 0.00 0.00 1.28
465 644 9.566432 AAAGTCTTAGATTGTTTGATCAAGTCT 57.434 29.630 8.41 12.51 0.00 3.24
504 683 9.745880 ATCGATATTCATAACACGAACTTAGTT 57.254 29.630 0.00 0.00 33.77 2.24
505 684 9.577110 TCGATATTCATAACACGAACTTAGTTT 57.423 29.630 0.00 0.00 0.00 2.66
647 829 3.228453 AGTTTGACTAGACGAACTGGGA 58.772 45.455 22.09 0.00 41.29 4.37
666 848 6.014584 ACTGGGACTTCAAATATTTTGGAACC 60.015 38.462 0.00 0.64 0.00 3.62
787 978 0.400213 ACCACAATTCTCGGCAAGGA 59.600 50.000 0.00 0.00 0.00 3.36
796 987 1.073125 TCTCGGCAAGGAAATTGACCA 59.927 47.619 5.02 0.00 44.92 4.02
805 1014 2.884639 AGGAAATTGACCAAGACCAACG 59.115 45.455 5.02 0.00 0.00 4.10
880 1089 0.739813 CCAACTTCGTCGGTCCATCC 60.740 60.000 0.00 0.00 0.00 3.51
881 1090 0.246635 CAACTTCGTCGGTCCATCCT 59.753 55.000 0.00 0.00 0.00 3.24
882 1091 0.531200 AACTTCGTCGGTCCATCCTC 59.469 55.000 0.00 0.00 0.00 3.71
883 1092 1.321074 ACTTCGTCGGTCCATCCTCC 61.321 60.000 0.00 0.00 0.00 4.30
884 1093 1.304630 TTCGTCGGTCCATCCTCCA 60.305 57.895 0.00 0.00 0.00 3.86
885 1094 0.686441 TTCGTCGGTCCATCCTCCAT 60.686 55.000 0.00 0.00 0.00 3.41
886 1095 1.107538 TCGTCGGTCCATCCTCCATC 61.108 60.000 0.00 0.00 0.00 3.51
1407 1666 4.393155 ATGGTCGCGCTCAAGGCA 62.393 61.111 5.56 0.00 41.91 4.75
1845 2128 1.911766 GGAGTTCCTGACGGTGGGA 60.912 63.158 0.00 0.00 0.00 4.37
1854 2137 1.122632 TGACGGTGGGAAAGCTGGTA 61.123 55.000 0.00 0.00 0.00 3.25
2013 2296 0.740868 CGGTGAACACGATGGAGCAT 60.741 55.000 0.00 0.00 0.00 3.79
2034 2317 2.517414 GGGCAGATGGGCATGCTA 59.483 61.111 18.92 7.69 45.66 3.49
2263 2553 1.619827 TCGCCGGGAAACTCTTCTAAA 59.380 47.619 2.18 0.00 0.00 1.85
2274 5036 3.498334 ACTCTTCTAAACCACCGACTCT 58.502 45.455 0.00 0.00 0.00 3.24
2275 5037 3.256136 ACTCTTCTAAACCACCGACTCTG 59.744 47.826 0.00 0.00 0.00 3.35
2283 5052 0.962489 CCACCGACTCTGACTCACTT 59.038 55.000 0.00 0.00 0.00 3.16
2284 5053 1.341531 CCACCGACTCTGACTCACTTT 59.658 52.381 0.00 0.00 0.00 2.66
2285 5054 2.557056 CCACCGACTCTGACTCACTTTA 59.443 50.000 0.00 0.00 0.00 1.85
2286 5055 3.366476 CCACCGACTCTGACTCACTTTAG 60.366 52.174 0.00 0.00 0.00 1.85
2290 5059 4.216687 CCGACTCTGACTCACTTTAGACTT 59.783 45.833 0.00 0.00 0.00 3.01
2304 5088 7.666388 TCACTTTAGACTTTAGAGTAGCTGACT 59.334 37.037 0.00 0.00 42.90 3.41
2315 5140 6.147864 AGAGTAGCTGACTGATGAATTCTC 57.852 41.667 7.05 2.78 39.06 2.87
2445 5280 6.278363 GGACCGAGACTACAATTTTAGCATA 58.722 40.000 0.00 0.00 0.00 3.14
2455 5290 2.348411 TTTTAGCATAGCCTGGCCTC 57.652 50.000 16.57 1.87 0.00 4.70
2475 5310 0.687354 ACTGACAAAGATGCGGTCCT 59.313 50.000 0.00 0.00 0.00 3.85
2490 5343 1.511305 TCCTCGCGGACAAGATCAC 59.489 57.895 6.13 0.00 33.30 3.06
2492 5345 0.389817 CCTCGCGGACAAGATCACAA 60.390 55.000 6.13 0.00 0.00 3.33
2494 5347 0.601057 TCGCGGACAAGATCACAAGA 59.399 50.000 6.13 0.00 0.00 3.02
2495 5348 1.000394 TCGCGGACAAGATCACAAGAA 60.000 47.619 6.13 0.00 0.00 2.52
2496 5349 2.002586 CGCGGACAAGATCACAAGAAT 58.997 47.619 0.00 0.00 0.00 2.40
2508 5367 1.745087 CACAAGAATATGGGCGTGCTT 59.255 47.619 0.00 0.00 0.00 3.91
2510 5369 3.002656 CACAAGAATATGGGCGTGCTTAG 59.997 47.826 0.00 0.00 0.00 2.18
2513 5372 2.170607 AGAATATGGGCGTGCTTAGTGT 59.829 45.455 0.00 0.00 0.00 3.55
2514 5373 3.386726 AGAATATGGGCGTGCTTAGTGTA 59.613 43.478 0.00 0.00 0.00 2.90
2515 5374 3.830744 ATATGGGCGTGCTTAGTGTAA 57.169 42.857 0.00 0.00 0.00 2.41
2593 5475 3.080641 CTGAGCCACCCACCATCA 58.919 61.111 0.00 0.00 0.00 3.07
2798 5871 7.069331 ACACTAGCAAAGAGTGATAATAGCTCT 59.931 37.037 9.64 0.00 46.01 4.09
2912 5989 2.440539 ATATTCTACGGCCAGCTTCG 57.559 50.000 2.24 0.00 0.00 3.79
2925 6012 5.452777 GGCCAGCTTCGATGAATAATAAAC 58.547 41.667 0.00 0.00 0.00 2.01
2926 6021 5.452777 GCCAGCTTCGATGAATAATAAACC 58.547 41.667 1.89 0.00 0.00 3.27
3023 6128 2.662156 GGAATTGTTCAGAGTCGTCGAC 59.338 50.000 17.70 17.70 0.00 4.20
3087 6219 1.145738 ACATTCAGGTGCCACTTCCTT 59.854 47.619 0.00 0.00 30.91 3.36
3101 6233 0.175760 TTCCTTCGATTCCAGCCTCG 59.824 55.000 0.00 0.00 36.25 4.63
3104 6236 0.741326 CTTCGATTCCAGCCTCGAGA 59.259 55.000 15.71 0.00 43.94 4.04
3105 6237 1.339610 CTTCGATTCCAGCCTCGAGAT 59.660 52.381 15.71 0.00 43.94 2.75
3118 6259 4.022068 AGCCTCGAGATTCAGATTCAGATC 60.022 45.833 15.71 0.00 0.00 2.75
3123 6264 4.501058 CGAGATTCAGATTCAGATCCTGCA 60.501 45.833 0.00 0.00 32.44 4.41
3129 6270 4.638865 TCAGATTCAGATCCTGCATGTTTG 59.361 41.667 0.00 0.00 32.44 2.93
3134 6275 9.922397 AGATTCAGATCCTGCATGTTTGGACAT 62.922 40.741 5.79 0.00 38.79 3.06
3138 6279 5.895534 AGATCCTGCATGTTTGGACATAATT 59.104 36.000 5.79 0.00 44.55 1.40
3140 6281 7.560991 AGATCCTGCATGTTTGGACATAATTAA 59.439 33.333 5.79 0.00 44.55 1.40
3141 6282 6.862209 TCCTGCATGTTTGGACATAATTAAC 58.138 36.000 0.00 0.00 44.55 2.01
3142 6283 6.435591 TCCTGCATGTTTGGACATAATTAACA 59.564 34.615 0.00 0.00 44.55 2.41
3143 6284 7.039434 TCCTGCATGTTTGGACATAATTAACAA 60.039 33.333 0.00 0.00 44.55 2.83
3144 6285 7.063308 CCTGCATGTTTGGACATAATTAACAAC 59.937 37.037 0.00 0.00 44.55 3.32
3145 6286 7.436933 TGCATGTTTGGACATAATTAACAACA 58.563 30.769 0.00 0.00 44.55 3.33
3147 6288 8.594687 GCATGTTTGGACATAATTAACAACATC 58.405 33.333 0.00 0.00 44.55 3.06
3148 6289 8.797215 CATGTTTGGACATAATTAACAACATCG 58.203 33.333 0.00 0.00 44.55 3.84
3149 6290 7.309177 TGTTTGGACATAATTAACAACATCGG 58.691 34.615 0.00 0.00 0.00 4.18
3150 6291 7.040340 TGTTTGGACATAATTAACAACATCGGT 60.040 33.333 0.00 0.00 0.00 4.69
3199 6340 3.002246 TCAGTTTTGTAGCGAAACAGCAG 59.998 43.478 12.72 0.00 39.46 4.24
3208 6349 1.333619 GCGAAACAGCAGAGGAAAACA 59.666 47.619 0.00 0.00 37.05 2.83
3224 6365 8.699130 AGAGGAAAACAAAGATTTGAACAGAAT 58.301 29.630 12.07 0.00 40.55 2.40
3237 6378 0.670546 ACAGAATGGGTTCGCTCGTG 60.671 55.000 0.00 0.00 43.62 4.35
3242 6383 1.816863 ATGGGTTCGCTCGTGTGAGT 61.817 55.000 0.63 0.00 44.48 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
80 81 6.038825 TGAAGAGAGTCATAGATCGGAAAGAC 59.961 42.308 0.00 0.00 0.00 3.01
86 87 5.468592 CCAATGAAGAGAGTCATAGATCGG 58.531 45.833 0.00 0.00 37.25 4.18
94 95 3.701542 ACTATCGCCAATGAAGAGAGTCA 59.298 43.478 0.00 0.00 31.73 3.41
119 120 5.449314 CGATAGGACCAGTGAACTAGAACAG 60.449 48.000 0.00 0.00 0.00 3.16
142 321 1.883084 GTCATCGTGCTAAGGCCCG 60.883 63.158 0.00 0.00 40.49 6.13
165 344 7.331193 GGACAAACCTTATTGTAGTAGACAGTG 59.669 40.741 0.00 0.00 43.31 3.66
167 346 6.530534 CGGACAAACCTTATTGTAGTAGACAG 59.469 42.308 0.00 0.00 43.31 3.51
177 356 2.420022 CAGAGCCGGACAAACCTTATTG 59.580 50.000 5.05 0.00 36.31 1.90
180 359 0.321298 GCAGAGCCGGACAAACCTTA 60.321 55.000 5.05 0.00 36.31 2.69
199 378 1.006805 GTCATCGCCCATCTCTCGG 60.007 63.158 0.00 0.00 0.00 4.63
272 451 4.278170 CACCCAGCAATGACTACTTTTTCA 59.722 41.667 0.00 0.00 0.00 2.69
273 452 4.321230 CCACCCAGCAATGACTACTTTTTC 60.321 45.833 0.00 0.00 0.00 2.29
274 453 3.573967 CCACCCAGCAATGACTACTTTTT 59.426 43.478 0.00 0.00 0.00 1.94
275 454 3.157087 CCACCCAGCAATGACTACTTTT 58.843 45.455 0.00 0.00 0.00 2.27
276 455 2.108250 ACCACCCAGCAATGACTACTTT 59.892 45.455 0.00 0.00 0.00 2.66
277 456 1.705186 ACCACCCAGCAATGACTACTT 59.295 47.619 0.00 0.00 0.00 2.24
278 457 1.279271 GACCACCCAGCAATGACTACT 59.721 52.381 0.00 0.00 0.00 2.57
279 458 1.279271 AGACCACCCAGCAATGACTAC 59.721 52.381 0.00 0.00 0.00 2.73
280 459 1.278985 CAGACCACCCAGCAATGACTA 59.721 52.381 0.00 0.00 0.00 2.59
281 460 0.037303 CAGACCACCCAGCAATGACT 59.963 55.000 0.00 0.00 0.00 3.41
282 461 0.962356 CCAGACCACCCAGCAATGAC 60.962 60.000 0.00 0.00 0.00 3.06
283 462 1.379916 CCAGACCACCCAGCAATGA 59.620 57.895 0.00 0.00 0.00 2.57
284 463 0.540365 AACCAGACCACCCAGCAATG 60.540 55.000 0.00 0.00 0.00 2.82
285 464 0.540365 CAACCAGACCACCCAGCAAT 60.540 55.000 0.00 0.00 0.00 3.56
286 465 1.152777 CAACCAGACCACCCAGCAA 60.153 57.895 0.00 0.00 0.00 3.91
287 466 1.057275 TACAACCAGACCACCCAGCA 61.057 55.000 0.00 0.00 0.00 4.41
288 467 0.109723 TTACAACCAGACCACCCAGC 59.890 55.000 0.00 0.00 0.00 4.85
289 468 1.420138 AGTTACAACCAGACCACCCAG 59.580 52.381 0.00 0.00 0.00 4.45
290 469 1.513858 AGTTACAACCAGACCACCCA 58.486 50.000 0.00 0.00 0.00 4.51
291 470 2.651382 AAGTTACAACCAGACCACCC 57.349 50.000 0.00 0.00 0.00 4.61
292 471 6.149973 GGTAATAAAGTTACAACCAGACCACC 59.850 42.308 1.03 0.00 0.00 4.61
293 472 6.938596 AGGTAATAAAGTTACAACCAGACCAC 59.061 38.462 6.48 0.00 0.00 4.16
294 473 7.081857 AGGTAATAAAGTTACAACCAGACCA 57.918 36.000 6.48 0.00 0.00 4.02
295 474 6.596888 GGAGGTAATAAAGTTACAACCAGACC 59.403 42.308 6.48 0.00 0.00 3.85
296 475 6.312180 CGGAGGTAATAAAGTTACAACCAGAC 59.688 42.308 6.48 0.00 0.00 3.51
297 476 6.400568 CGGAGGTAATAAAGTTACAACCAGA 58.599 40.000 6.48 0.00 0.00 3.86
298 477 6.657836 CGGAGGTAATAAAGTTACAACCAG 57.342 41.667 6.48 0.00 0.00 4.00
317 496 2.056577 GTTGTACGAAGAACACCGGAG 58.943 52.381 9.46 1.26 0.00 4.63
318 497 1.269726 GGTTGTACGAAGAACACCGGA 60.270 52.381 9.46 0.00 30.58 5.14
319 498 1.142474 GGTTGTACGAAGAACACCGG 58.858 55.000 0.00 0.00 30.58 5.28
320 499 1.855513 TGGTTGTACGAAGAACACCG 58.144 50.000 0.00 0.00 30.58 4.94
321 500 2.095919 GCATGGTTGTACGAAGAACACC 60.096 50.000 0.00 0.00 30.58 4.16
322 501 2.806244 AGCATGGTTGTACGAAGAACAC 59.194 45.455 0.00 0.00 30.58 3.32
323 502 3.120321 AGCATGGTTGTACGAAGAACA 57.880 42.857 0.00 0.00 30.58 3.18
324 503 5.600908 TTAAGCATGGTTGTACGAAGAAC 57.399 39.130 20.13 0.00 0.00 3.01
325 504 5.992829 TCTTTAAGCATGGTTGTACGAAGAA 59.007 36.000 20.13 0.84 0.00 2.52
326 505 5.543714 TCTTTAAGCATGGTTGTACGAAGA 58.456 37.500 20.13 15.85 0.00 2.87
327 506 5.856126 TCTTTAAGCATGGTTGTACGAAG 57.144 39.130 20.13 14.16 0.00 3.79
328 507 5.935206 TCATCTTTAAGCATGGTTGTACGAA 59.065 36.000 20.13 3.07 0.00 3.85
329 508 5.483811 TCATCTTTAAGCATGGTTGTACGA 58.516 37.500 20.13 10.92 0.00 3.43
330 509 5.794687 TCATCTTTAAGCATGGTTGTACG 57.205 39.130 20.13 6.14 0.00 3.67
331 510 9.109393 TCTATTCATCTTTAAGCATGGTTGTAC 57.891 33.333 20.13 0.00 0.00 2.90
332 511 9.851686 ATCTATTCATCTTTAAGCATGGTTGTA 57.148 29.630 20.13 5.36 0.00 2.41
333 512 8.757982 ATCTATTCATCTTTAAGCATGGTTGT 57.242 30.769 20.13 0.00 0.00 3.32
334 513 9.459640 CAATCTATTCATCTTTAAGCATGGTTG 57.540 33.333 20.13 3.79 0.00 3.77
335 514 9.412460 TCAATCTATTCATCTTTAAGCATGGTT 57.588 29.630 15.47 15.47 0.00 3.67
336 515 8.985315 TCAATCTATTCATCTTTAAGCATGGT 57.015 30.769 0.00 0.00 0.00 3.55
348 527 8.951969 GCACGAGAAATTTTCAATCTATTCATC 58.048 33.333 11.53 0.00 0.00 2.92
349 528 8.461222 TGCACGAGAAATTTTCAATCTATTCAT 58.539 29.630 11.53 0.00 0.00 2.57
350 529 7.815641 TGCACGAGAAATTTTCAATCTATTCA 58.184 30.769 11.53 0.00 0.00 2.57
351 530 8.673626 TTGCACGAGAAATTTTCAATCTATTC 57.326 30.769 11.53 0.00 0.00 1.75
352 531 9.474920 TTTTGCACGAGAAATTTTCAATCTATT 57.525 25.926 11.53 0.00 0.00 1.73
353 532 9.474920 TTTTTGCACGAGAAATTTTCAATCTAT 57.525 25.926 11.53 0.00 0.00 1.98
354 533 8.864069 TTTTTGCACGAGAAATTTTCAATCTA 57.136 26.923 11.53 0.00 0.00 1.98
355 534 7.769272 TTTTTGCACGAGAAATTTTCAATCT 57.231 28.000 11.53 0.00 0.00 2.40
380 559 6.598064 CCTCTAATCATTGGGTCGTACTTTTT 59.402 38.462 0.00 0.00 0.00 1.94
381 560 6.113411 CCTCTAATCATTGGGTCGTACTTTT 58.887 40.000 0.00 0.00 0.00 2.27
382 561 5.396436 CCCTCTAATCATTGGGTCGTACTTT 60.396 44.000 0.00 0.00 35.13 2.66
383 562 4.101119 CCCTCTAATCATTGGGTCGTACTT 59.899 45.833 0.00 0.00 35.13 2.24
384 563 3.641906 CCCTCTAATCATTGGGTCGTACT 59.358 47.826 0.00 0.00 35.13 2.73
385 564 3.991367 CCCTCTAATCATTGGGTCGTAC 58.009 50.000 0.00 0.00 35.13 3.67
391 570 5.716703 AGTTCAAAACCCTCTAATCATTGGG 59.283 40.000 0.00 0.00 44.89 4.12
392 571 6.840780 AGTTCAAAACCCTCTAATCATTGG 57.159 37.500 0.00 0.00 0.00 3.16
394 573 8.893727 CGAATAGTTCAAAACCCTCTAATCATT 58.106 33.333 0.00 0.00 0.00 2.57
395 574 7.012421 GCGAATAGTTCAAAACCCTCTAATCAT 59.988 37.037 0.00 0.00 0.00 2.45
396 575 6.315393 GCGAATAGTTCAAAACCCTCTAATCA 59.685 38.462 0.00 0.00 0.00 2.57
397 576 6.539103 AGCGAATAGTTCAAAACCCTCTAATC 59.461 38.462 0.00 0.00 0.00 1.75
398 577 6.415573 AGCGAATAGTTCAAAACCCTCTAAT 58.584 36.000 0.00 0.00 0.00 1.73
399 578 5.801380 AGCGAATAGTTCAAAACCCTCTAA 58.199 37.500 0.00 0.00 0.00 2.10
400 579 5.416271 AGCGAATAGTTCAAAACCCTCTA 57.584 39.130 0.00 0.00 0.00 2.43
401 580 4.287766 AGCGAATAGTTCAAAACCCTCT 57.712 40.909 0.00 0.00 0.00 3.69
402 581 5.154222 CAAAGCGAATAGTTCAAAACCCTC 58.846 41.667 0.00 0.00 0.00 4.30
403 582 4.583073 ACAAAGCGAATAGTTCAAAACCCT 59.417 37.500 0.00 0.00 0.00 4.34
404 583 4.866921 ACAAAGCGAATAGTTCAAAACCC 58.133 39.130 0.00 0.00 0.00 4.11
405 584 6.474102 TGAAACAAAGCGAATAGTTCAAAACC 59.526 34.615 0.00 0.00 0.00 3.27
406 585 7.444558 TGAAACAAAGCGAATAGTTCAAAAC 57.555 32.000 0.00 0.00 0.00 2.43
407 586 8.467402 TTTGAAACAAAGCGAATAGTTCAAAA 57.533 26.923 11.95 0.00 0.00 2.44
408 587 8.467402 TTTTGAAACAAAGCGAATAGTTCAAA 57.533 26.923 10.91 10.91 0.00 2.69
409 588 8.641499 ATTTTGAAACAAAGCGAATAGTTCAA 57.359 26.923 0.00 0.00 0.00 2.69
410 589 9.906660 ATATTTTGAAACAAAGCGAATAGTTCA 57.093 25.926 0.00 0.00 0.00 3.18
439 618 9.566432 AGACTTGATCAAACAATCTAAGACTTT 57.434 29.630 9.88 0.00 0.00 2.66
478 657 9.745880 AACTAAGTTCGTGTTATGAATATCGAT 57.254 29.630 2.16 2.16 0.00 3.59
479 658 9.577110 AAACTAAGTTCGTGTTATGAATATCGA 57.423 29.630 0.00 0.00 0.00 3.59
569 748 9.554724 GCGATGAAGTTTGATCAAGTTATAAAA 57.445 29.630 8.41 0.00 0.00 1.52
622 804 5.296035 CCCAGTTCGTCTAGTCAAACTTTTT 59.704 40.000 0.00 0.00 29.78 1.94
627 809 3.005578 AGTCCCAGTTCGTCTAGTCAAAC 59.994 47.826 0.00 0.00 0.00 2.93
666 848 9.760660 GCAGTTTGACAAAGTAGTATCTATTTG 57.239 33.333 7.93 0.00 38.35 2.32
674 856 5.865085 AGATGGCAGTTTGACAAAGTAGTA 58.135 37.500 7.93 0.00 39.86 1.82
675 857 4.718961 AGATGGCAGTTTGACAAAGTAGT 58.281 39.130 7.93 0.00 39.86 2.73
676 858 4.999950 AGAGATGGCAGTTTGACAAAGTAG 59.000 41.667 7.93 4.79 39.86 2.57
787 978 2.028130 TGCGTTGGTCTTGGTCAATTT 58.972 42.857 0.00 0.00 0.00 1.82
805 1014 1.002033 GATGGATTTGACCGAGCATGC 60.002 52.381 10.51 10.51 0.00 4.06
843 1052 4.411212 AGTTGGTTATTTATAGGTCGGGCT 59.589 41.667 0.00 0.00 0.00 5.19
880 1089 1.072159 GGGGATGGAAGCGATGGAG 59.928 63.158 0.00 0.00 0.00 3.86
881 1090 1.278302 TTGGGGATGGAAGCGATGGA 61.278 55.000 0.00 0.00 0.00 3.41
882 1091 1.103398 GTTGGGGATGGAAGCGATGG 61.103 60.000 0.00 0.00 0.00 3.51
883 1092 1.103398 GGTTGGGGATGGAAGCGATG 61.103 60.000 0.00 0.00 0.00 3.84
884 1093 1.227383 GGTTGGGGATGGAAGCGAT 59.773 57.895 0.00 0.00 0.00 4.58
885 1094 0.619255 TAGGTTGGGGATGGAAGCGA 60.619 55.000 0.00 0.00 0.00 4.93
886 1095 0.254747 TTAGGTTGGGGATGGAAGCG 59.745 55.000 0.00 0.00 0.00 4.68
1129 1361 1.503542 CGGTGTGAATGCCAGAAGC 59.496 57.895 0.00 0.00 44.14 3.86
1638 1903 1.646189 GGAACTTCTCGAGCATGTCC 58.354 55.000 7.81 8.32 0.00 4.02
1640 1905 0.250513 GGGGAACTTCTCGAGCATGT 59.749 55.000 7.81 3.22 0.00 3.21
1854 2137 1.780919 AGGCCCTTGTTTAGGTTGAGT 59.219 47.619 0.00 0.00 43.07 3.41
1924 2207 3.983494 CTCGCCGGAGCCGATGAT 61.983 66.667 5.05 0.00 42.83 2.45
2089 2372 2.178890 GCTCGCTGAGATTGGCCTG 61.179 63.158 3.32 0.00 0.00 4.85
2237 2527 1.374343 GAGTTTCCCGGCGAATTCCC 61.374 60.000 9.30 1.46 0.00 3.97
2263 2553 0.178987 AGTGAGTCAGAGTCGGTGGT 60.179 55.000 0.00 0.00 0.00 4.16
2274 5036 7.666388 AGCTACTCTAAAGTCTAAAGTGAGTCA 59.334 37.037 0.00 0.00 36.92 3.41
2275 5037 7.966204 CAGCTACTCTAAAGTCTAAAGTGAGTC 59.034 40.741 0.00 0.00 36.92 3.36
2283 5052 7.829706 TCATCAGTCAGCTACTCTAAAGTCTAA 59.170 37.037 0.00 0.00 35.76 2.10
2284 5053 7.339482 TCATCAGTCAGCTACTCTAAAGTCTA 58.661 38.462 0.00 0.00 35.76 2.59
2285 5054 6.184068 TCATCAGTCAGCTACTCTAAAGTCT 58.816 40.000 0.00 0.00 35.76 3.24
2286 5055 6.443934 TCATCAGTCAGCTACTCTAAAGTC 57.556 41.667 0.00 0.00 35.76 3.01
2290 5059 7.559533 AGAGAATTCATCAGTCAGCTACTCTAA 59.440 37.037 8.44 0.00 35.76 2.10
2315 5140 8.836413 TGTGATTTCAGTTTCTACCTTTACAAG 58.164 33.333 0.00 0.00 0.00 3.16
2445 5280 1.708993 TTTGTCAGTGAGGCCAGGCT 61.709 55.000 12.43 1.67 0.00 4.58
2455 5290 0.798776 GGACCGCATCTTTGTCAGTG 59.201 55.000 0.00 0.00 0.00 3.66
2475 5310 0.601057 TCTTGTGATCTTGTCCGCGA 59.399 50.000 8.23 0.00 0.00 5.87
2487 5340 1.065491 AGCACGCCCATATTCTTGTGA 60.065 47.619 0.00 0.00 0.00 3.58
2490 5343 3.002656 CACTAAGCACGCCCATATTCTTG 59.997 47.826 0.00 0.00 0.00 3.02
2492 5345 2.170607 ACACTAAGCACGCCCATATTCT 59.829 45.455 0.00 0.00 0.00 2.40
2494 5347 2.710096 ACACTAAGCACGCCCATATT 57.290 45.000 0.00 0.00 0.00 1.28
2495 5348 3.830744 TTACACTAAGCACGCCCATAT 57.169 42.857 0.00 0.00 0.00 1.78
2496 5349 3.264104 GTTTACACTAAGCACGCCCATA 58.736 45.455 0.00 0.00 0.00 2.74
2593 5475 3.118408 TGAACAGGAACAAGCTAGTGTGT 60.118 43.478 0.00 0.00 0.00 3.72
2639 5534 3.445687 AGGCGTATGCACCGACGA 61.446 61.111 18.71 0.00 45.35 4.20
2755 5815 7.568349 TGCTAGTGTCCTGATCAGAATTATTT 58.432 34.615 24.62 5.92 0.00 1.40
2761 5821 4.528206 TCTTTGCTAGTGTCCTGATCAGAA 59.472 41.667 24.62 0.00 0.00 3.02
2798 5871 9.587772 GTTACAATAGCAGAGAATTAGTTCAGA 57.412 33.333 0.44 0.00 36.79 3.27
3023 6128 2.754472 TGAATTGATCCTGCCGTATCG 58.246 47.619 0.00 0.00 0.00 2.92
3087 6219 1.338337 GAATCTCGAGGCTGGAATCGA 59.662 52.381 13.56 0.00 45.06 3.59
3101 6233 4.958509 TGCAGGATCTGAATCTGAATCTC 58.041 43.478 12.70 0.00 32.44 2.75
3104 6236 5.050126 ACATGCAGGATCTGAATCTGAAT 57.950 39.130 4.84 6.55 32.44 2.57
3105 6237 4.498894 ACATGCAGGATCTGAATCTGAA 57.501 40.909 4.84 4.74 32.44 3.02
3118 6259 6.629128 TGTTAATTATGTCCAAACATGCAGG 58.371 36.000 0.00 0.00 45.72 4.85
3142 6283 1.818674 GCCTGAAATCCAACCGATGTT 59.181 47.619 0.00 0.00 34.14 2.71
3143 6284 1.271871 TGCCTGAAATCCAACCGATGT 60.272 47.619 0.00 0.00 0.00 3.06
3144 6285 1.462616 TGCCTGAAATCCAACCGATG 58.537 50.000 0.00 0.00 0.00 3.84
3145 6286 2.442236 ATGCCTGAAATCCAACCGAT 57.558 45.000 0.00 0.00 0.00 4.18
3147 6288 2.230992 TGAAATGCCTGAAATCCAACCG 59.769 45.455 0.00 0.00 0.00 4.44
3148 6289 3.959535 TGAAATGCCTGAAATCCAACC 57.040 42.857 0.00 0.00 0.00 3.77
3149 6290 5.075858 TGATGAAATGCCTGAAATCCAAC 57.924 39.130 0.00 0.00 0.00 3.77
3150 6291 5.395879 CCATGATGAAATGCCTGAAATCCAA 60.396 40.000 0.00 0.00 0.00 3.53
3199 6340 8.758715 CATTCTGTTCAAATCTTTGTTTTCCTC 58.241 33.333 2.82 0.00 39.18 3.71
3208 6349 5.772521 CGAACCCATTCTGTTCAAATCTTT 58.227 37.500 0.00 0.00 41.70 2.52
3224 6365 1.174078 TACTCACACGAGCGAACCCA 61.174 55.000 0.00 0.00 43.66 4.51


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

AutoCloner maintained by Alex Coulton.