Multiple sequence alignment - TraesCS5B01G180700

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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 TraesCS5B01G180700 chr5B 100.000 2516 0 0 1 2516 328232566 328235081 0.000000e+00 4647.0
1 TraesCS5B01G180700 chr5B 100.000 592 0 0 2744 3335 328235309 328235900 0.000000e+00 1094.0
2 TraesCS5B01G180700 chr5B 84.932 511 67 8 2768 3274 570959764 570959260 2.970000e-140 508.0
3 TraesCS5B01G180700 chr5B 97.436 39 0 1 886 923 328233392 328233430 7.720000e-07 65.8
4 TraesCS5B01G180700 chr5B 97.436 39 0 1 827 865 328233451 328233488 7.720000e-07 65.8
5 TraesCS5B01G180700 chr5A 93.259 1617 101 6 867 2481 382291426 382293036 0.000000e+00 2375.0
6 TraesCS5B01G180700 chr5A 83.554 529 62 14 2805 3331 102996083 102996588 3.890000e-129 472.0
7 TraesCS5B01G180700 chr5A 86.792 106 13 1 434 539 382291175 382291279 2.100000e-22 117.0
8 TraesCS5B01G180700 chr5A 98.113 53 1 0 762 814 382291353 382291405 3.540000e-15 93.5
9 TraesCS5B01G180700 chr5D 92.716 1620 100 8 867 2481 288817862 288819468 0.000000e+00 2322.0
10 TraesCS5B01G180700 chr5D 87.984 1548 160 16 864 2400 289007996 289009528 0.000000e+00 1805.0
11 TraesCS5B01G180700 chr5D 87.291 598 54 14 2744 3335 289031395 289031976 0.000000e+00 664.0
12 TraesCS5B01G180700 chr5D 84.512 594 78 11 2744 3333 309798719 309798136 2.890000e-160 575.0
13 TraesCS5B01G180700 chr5D 93.851 309 14 1 6 314 288815091 288815394 8.430000e-126 460.0
14 TraesCS5B01G180700 chr5D 79.766 598 82 23 2744 3335 35221371 35220807 6.700000e-107 398.0
15 TraesCS5B01G180700 chr5D 94.000 250 8 4 565 814 288817597 288817839 4.060000e-99 372.0
16 TraesCS5B01G180700 chr5D 93.396 106 7 0 2411 2516 289031132 289031237 1.240000e-34 158.0
17 TraesCS5B01G180700 chr5D 85.484 124 12 5 695 814 289007870 289007991 1.260000e-24 124.0
18 TraesCS5B01G180700 chr5D 91.358 81 7 0 2411 2491 289021984 289022064 9.780000e-21 111.0
19 TraesCS5B01G180700 chr5D 97.368 38 1 0 2474 2511 70206208 70206171 7.720000e-07 65.8
20 TraesCS5B01G180700 chr5D 100.000 33 0 0 2479 2511 69938040 69938072 9.990000e-06 62.1
21 TraesCS5B01G180700 chr5D 94.286 35 2 0 2481 2515 106450311 106450277 2.000000e-03 54.7
22 TraesCS5B01G180700 chr3D 81.236 1343 215 27 1036 2355 610800310 610801638 0.000000e+00 1050.0
23 TraesCS5B01G180700 chr3B 80.551 1342 226 24 1036 2355 828417050 828418378 0.000000e+00 1000.0
24 TraesCS5B01G180700 chr3B 80.716 1089 181 20 1283 2355 828768060 828766985 0.000000e+00 821.0
25 TraesCS5B01G180700 chr3B 77.143 595 108 21 2744 3325 750459204 750458625 1.490000e-83 320.0
26 TraesCS5B01G180700 chr3B 100.000 36 0 0 2476 2511 41483172 41483137 2.150000e-07 67.6
27 TraesCS5B01G180700 chr3A 78.975 1346 207 35 1029 2332 745508847 745510158 0.000000e+00 848.0
28 TraesCS5B01G180700 chr7A 85.167 600 74 11 2744 3335 442904826 442905418 4.760000e-168 601.0
29 TraesCS5B01G180700 chr7B 84.919 557 67 16 2785 3335 689981992 689981447 6.290000e-152 547.0
30 TraesCS5B01G180700 chr7B 78.261 621 91 24 2744 3334 735522261 735521655 3.160000e-95 359.0
31 TraesCS5B01G180700 chr2A 82.521 595 93 8 2745 3335 19162212 19162799 2.290000e-141 512.0
32 TraesCS5B01G180700 chr6D 83.298 467 69 7 2789 3253 2194154 2194613 3.980000e-114 422.0
33 TraesCS5B01G180700 chr6B 80.769 442 70 14 2744 3181 664170885 664170455 6.900000e-87 331.0
34 TraesCS5B01G180700 chr6A 77.488 613 83 29 2744 3335 571187701 571187123 1.930000e-82 316.0
35 TraesCS5B01G180700 chr1D 100.000 37 0 0 2478 2514 70590084 70590048 5.970000e-08 69.4
36 TraesCS5B01G180700 chr4D 97.368 38 1 0 2479 2516 449190518 449190555 7.720000e-07 65.8
37 TraesCS5B01G180700 chr4D 97.368 38 1 0 2479 2516 449190966 449191003 7.720000e-07 65.8
38 TraesCS5B01G180700 chr4D 97.368 38 1 0 2479 2516 449191127 449191164 7.720000e-07 65.8


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 TraesCS5B01G180700 chr5B 328232566 328235900 3334 False 1468.150000 4647 98.718000 1 3335 4 chr5B.!!$F1 3334
1 TraesCS5B01G180700 chr5B 570959260 570959764 504 True 508.000000 508 84.932000 2768 3274 1 chr5B.!!$R1 506
2 TraesCS5B01G180700 chr5A 382291175 382293036 1861 False 861.833333 2375 92.721333 434 2481 3 chr5A.!!$F2 2047
3 TraesCS5B01G180700 chr5A 102996083 102996588 505 False 472.000000 472 83.554000 2805 3331 1 chr5A.!!$F1 526
4 TraesCS5B01G180700 chr5D 288815091 288819468 4377 False 1051.333333 2322 93.522333 6 2481 3 chr5D.!!$F3 2475
5 TraesCS5B01G180700 chr5D 289007870 289009528 1658 False 964.500000 1805 86.734000 695 2400 2 chr5D.!!$F4 1705
6 TraesCS5B01G180700 chr5D 309798136 309798719 583 True 575.000000 575 84.512000 2744 3333 1 chr5D.!!$R4 589
7 TraesCS5B01G180700 chr5D 289031132 289031976 844 False 411.000000 664 90.343500 2411 3335 2 chr5D.!!$F5 924
8 TraesCS5B01G180700 chr5D 35220807 35221371 564 True 398.000000 398 79.766000 2744 3335 1 chr5D.!!$R1 591
9 TraesCS5B01G180700 chr3D 610800310 610801638 1328 False 1050.000000 1050 81.236000 1036 2355 1 chr3D.!!$F1 1319
10 TraesCS5B01G180700 chr3B 828417050 828418378 1328 False 1000.000000 1000 80.551000 1036 2355 1 chr3B.!!$F1 1319
11 TraesCS5B01G180700 chr3B 828766985 828768060 1075 True 821.000000 821 80.716000 1283 2355 1 chr3B.!!$R3 1072
12 TraesCS5B01G180700 chr3B 750458625 750459204 579 True 320.000000 320 77.143000 2744 3325 1 chr3B.!!$R2 581
13 TraesCS5B01G180700 chr3A 745508847 745510158 1311 False 848.000000 848 78.975000 1029 2332 1 chr3A.!!$F1 1303
14 TraesCS5B01G180700 chr7A 442904826 442905418 592 False 601.000000 601 85.167000 2744 3335 1 chr7A.!!$F1 591
15 TraesCS5B01G180700 chr7B 689981447 689981992 545 True 547.000000 547 84.919000 2785 3335 1 chr7B.!!$R1 550
16 TraesCS5B01G180700 chr7B 735521655 735522261 606 True 359.000000 359 78.261000 2744 3334 1 chr7B.!!$R2 590
17 TraesCS5B01G180700 chr2A 19162212 19162799 587 False 512.000000 512 82.521000 2745 3335 1 chr2A.!!$F1 590
18 TraesCS5B01G180700 chr6A 571187123 571187701 578 True 316.000000 316 77.488000 2744 3335 1 chr6A.!!$R1 591

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
359 360 0.304705 GCATGATTCTTACGCACCCG 59.695 55.0 0.0 0.0 41.14 5.28 F
822 2808 0.620030 AGCCAGCATGTCACCATACA 59.380 50.0 0.0 0.0 0.00 2.29 F
856 2842 0.806868 GTACACCACCGTCATCTCGA 59.193 55.0 0.0 0.0 0.00 4.04 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1791 3828 0.098728 GGGAAAATGATGCACGACCG 59.901 55.0 0.00 0.0 0.00 4.79 R
1970 4013 0.672401 GATTCGAAGGTTGTCGCCCA 60.672 55.0 3.35 0.0 40.88 5.36 R
2462 4516 0.970640 TCCCACGCTTAAGTGCAGTA 59.029 50.0 15.92 0.0 40.59 2.74 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 3.935828 GAGCAAAATAGTCCTCACACCTC 59.064 47.826 0.00 0.00 0.00 3.85
46 47 1.961394 ACACCTCGTTTGCTAGAGACA 59.039 47.619 0.00 0.00 36.65 3.41
79 80 3.119029 CCGTCAAATCAAGGCAAATCCAT 60.119 43.478 0.00 0.00 37.29 3.41
83 84 4.097741 TCAAATCAAGGCAAATCCATACGG 59.902 41.667 0.00 0.00 37.29 4.02
151 152 8.696374 ACTCGTGAATTTAGAAAGAGATATGGA 58.304 33.333 0.00 0.00 0.00 3.41
171 172 3.915010 GCGATGTGCGTGCAAAAA 58.085 50.000 0.00 0.00 43.41 1.94
172 173 2.433637 GCGATGTGCGTGCAAAAAT 58.566 47.368 0.00 0.00 43.41 1.82
174 175 1.201693 GCGATGTGCGTGCAAAAATTC 60.202 47.619 0.00 0.00 43.41 2.17
175 176 2.049959 CGATGTGCGTGCAAAAATTCA 58.950 42.857 0.00 0.00 34.64 2.57
176 177 2.662637 CGATGTGCGTGCAAAAATTCAT 59.337 40.909 0.00 0.00 34.64 2.57
177 178 3.480665 CGATGTGCGTGCAAAAATTCATG 60.481 43.478 0.00 0.00 34.64 3.07
178 179 2.133553 TGTGCGTGCAAAAATTCATGG 58.866 42.857 0.00 0.00 0.00 3.66
245 246 5.685954 GGCCGTGAAAGAAACTAAAGAAAAG 59.314 40.000 0.00 0.00 0.00 2.27
277 278 6.816140 TGGATCCAGTTTTGTTTTGTTTCTTC 59.184 34.615 11.44 0.00 0.00 2.87
283 284 5.572896 AGTTTTGTTTTGTTTCTTCGAGCTG 59.427 36.000 0.00 0.00 0.00 4.24
305 306 4.854399 GTTTGAATGTTCGAACACCATGA 58.146 39.130 31.87 19.28 46.24 3.07
306 307 5.277825 GTTTGAATGTTCGAACACCATGAA 58.722 37.500 31.87 19.85 46.24 2.57
307 308 5.506686 TTGAATGTTCGAACACCATGAAA 57.493 34.783 31.87 17.17 42.51 2.69
308 309 5.506686 TGAATGTTCGAACACCATGAAAA 57.493 34.783 31.87 7.39 42.51 2.29
309 310 6.083098 TGAATGTTCGAACACCATGAAAAT 57.917 33.333 31.87 11.13 42.51 1.82
310 311 6.511416 TGAATGTTCGAACACCATGAAAATT 58.489 32.000 31.87 18.74 42.51 1.82
311 312 6.983307 TGAATGTTCGAACACCATGAAAATTT 59.017 30.769 31.87 18.04 42.51 1.82
312 313 6.768029 ATGTTCGAACACCATGAAAATTTG 57.232 33.333 31.87 0.00 42.51 2.32
313 314 4.505922 TGTTCGAACACCATGAAAATTTGC 59.494 37.500 26.53 0.00 33.17 3.68
314 315 4.313277 TCGAACACCATGAAAATTTGCA 57.687 36.364 0.07 0.07 0.00 4.08
315 316 4.297510 TCGAACACCATGAAAATTTGCAG 58.702 39.130 4.87 0.00 0.00 4.41
316 317 3.429543 CGAACACCATGAAAATTTGCAGG 59.570 43.478 4.87 4.28 0.00 4.85
317 318 3.405823 ACACCATGAAAATTTGCAGGG 57.594 42.857 25.20 25.20 41.45 4.45
319 320 3.405823 ACCATGAAAATTTGCAGGGTG 57.594 42.857 30.22 12.22 46.26 4.61
320 321 2.705127 ACCATGAAAATTTGCAGGGTGT 59.295 40.909 30.22 10.57 46.26 4.16
321 322 3.136260 ACCATGAAAATTTGCAGGGTGTT 59.864 39.130 30.22 9.86 46.26 3.32
322 323 4.136051 CCATGAAAATTTGCAGGGTGTTT 58.864 39.130 19.92 0.00 31.70 2.83
323 324 4.023878 CCATGAAAATTTGCAGGGTGTTTG 60.024 41.667 19.92 4.44 31.70 2.93
324 325 4.478206 TGAAAATTTGCAGGGTGTTTGA 57.522 36.364 0.00 0.00 0.00 2.69
325 326 4.836825 TGAAAATTTGCAGGGTGTTTGAA 58.163 34.783 0.00 0.00 0.00 2.69
326 327 4.633565 TGAAAATTTGCAGGGTGTTTGAAC 59.366 37.500 0.00 0.00 0.00 3.18
327 328 3.902881 AATTTGCAGGGTGTTTGAACA 57.097 38.095 0.00 0.00 36.38 3.18
342 343 5.645067 TGTTTGAACACCATGAAAATTTGCA 59.355 32.000 0.07 0.07 33.17 4.08
347 348 6.711194 TGAACACCATGAAAATTTGCATGATT 59.289 30.769 32.45 23.90 43.43 2.57
351 352 8.095792 ACACCATGAAAATTTGCATGATTCTTA 58.904 29.630 32.45 0.00 43.43 2.10
359 360 0.304705 GCATGATTCTTACGCACCCG 59.695 55.000 0.00 0.00 41.14 5.28
371 384 1.091771 CGCACCCGAGCATCTTCATT 61.092 55.000 0.00 0.00 36.29 2.57
384 397 8.113062 CGAGCATCTTCATTAGTTTCTTTACTG 58.887 37.037 0.00 0.00 0.00 2.74
386 399 9.944376 AGCATCTTCATTAGTTTCTTTACTGTA 57.056 29.630 0.00 0.00 0.00 2.74
387 400 9.974750 GCATCTTCATTAGTTTCTTTACTGTAC 57.025 33.333 0.00 0.00 0.00 2.90
407 420 9.148879 ACTGTACATCTAAATAATAGGAGCTGT 57.851 33.333 0.00 0.00 0.00 4.40
408 421 9.988815 CTGTACATCTAAATAATAGGAGCTGTT 57.011 33.333 0.00 0.00 0.00 3.16
410 423 9.982651 GTACATCTAAATAATAGGAGCTGTTCA 57.017 33.333 0.00 0.00 0.00 3.18
417 430 7.814264 AATAATAGGAGCTGTTCATTTCTGG 57.186 36.000 0.00 0.00 0.00 3.86
418 431 4.851639 ATAGGAGCTGTTCATTTCTGGT 57.148 40.909 0.00 0.00 0.00 4.00
422 435 3.760684 GGAGCTGTTCATTTCTGGTCATT 59.239 43.478 0.00 0.00 34.57 2.57
423 436 4.142513 GGAGCTGTTCATTTCTGGTCATTC 60.143 45.833 0.00 0.00 34.57 2.67
424 437 4.401022 AGCTGTTCATTTCTGGTCATTCA 58.599 39.130 0.00 0.00 0.00 2.57
425 438 4.828939 AGCTGTTCATTTCTGGTCATTCAA 59.171 37.500 0.00 0.00 0.00 2.69
426 439 4.919754 GCTGTTCATTTCTGGTCATTCAAC 59.080 41.667 0.00 0.00 0.00 3.18
427 440 5.107109 TGTTCATTTCTGGTCATTCAACG 57.893 39.130 0.00 0.00 0.00 4.10
430 443 3.751175 TCATTTCTGGTCATTCAACGGAC 59.249 43.478 0.00 0.00 0.00 4.79
431 444 3.485463 TTTCTGGTCATTCAACGGACT 57.515 42.857 0.00 0.00 34.49 3.85
432 445 4.610605 TTTCTGGTCATTCAACGGACTA 57.389 40.909 0.00 0.00 34.49 2.59
435 448 4.023980 TCTGGTCATTCAACGGACTAGAT 58.976 43.478 0.00 0.00 43.75 1.98
440 453 5.282510 GTCATTCAACGGACTAGATCGAAT 58.717 41.667 14.22 3.62 0.00 3.34
447 460 6.094464 TCAACGGACTAGATCGAATGTTAGAA 59.906 38.462 14.22 0.00 0.00 2.10
457 758 2.433436 GAATGTTAGAAGGGTGCCGTT 58.567 47.619 0.00 0.00 0.00 4.44
458 759 2.579410 ATGTTAGAAGGGTGCCGTTT 57.421 45.000 0.00 0.00 0.00 3.60
471 772 1.081509 CCGTTTGATGGCAACCACG 60.082 57.895 8.91 8.91 37.75 4.94
522 1782 9.869757 AAAATGACAAAATTACCCAGCTAATAC 57.130 29.630 0.00 0.00 0.00 1.89
539 1799 6.699204 AGCTAATACACAACTGAGATGATTCG 59.301 38.462 0.00 0.00 0.00 3.34
540 1800 5.725110 AATACACAACTGAGATGATTCGC 57.275 39.130 0.00 0.00 0.00 4.70
545 1805 4.032217 CACAACTGAGATGATTCGCACTAC 59.968 45.833 0.00 0.00 0.00 2.73
548 1808 2.786027 CTGAGATGATTCGCACTACACG 59.214 50.000 0.00 0.00 0.00 4.49
559 1819 2.159421 CGCACTACACGGTCTCAGTTAT 60.159 50.000 0.00 0.00 0.00 1.89
560 1820 3.064408 CGCACTACACGGTCTCAGTTATA 59.936 47.826 0.00 0.00 0.00 0.98
566 2548 9.217278 CACTACACGGTCTCAGTTATAGTATAT 57.783 37.037 0.00 0.00 0.00 0.86
584 2566 9.745018 ATAGTATATGATGTGCCATAAAAAGCT 57.255 29.630 0.00 0.00 33.28 3.74
585 2567 8.103948 AGTATATGATGTGCCATAAAAAGCTC 57.896 34.615 0.00 0.00 33.28 4.09
586 2568 4.660789 ATGATGTGCCATAAAAAGCTCC 57.339 40.909 0.00 0.00 0.00 4.70
587 2569 3.429492 TGATGTGCCATAAAAAGCTCCA 58.571 40.909 0.00 0.00 0.00 3.86
588 2570 3.831333 TGATGTGCCATAAAAAGCTCCAA 59.169 39.130 0.00 0.00 0.00 3.53
589 2571 4.282957 TGATGTGCCATAAAAAGCTCCAAA 59.717 37.500 0.00 0.00 0.00 3.28
632 2614 8.739039 TGGGATTAATTTACTGTTGATTGACTG 58.261 33.333 0.00 0.00 0.00 3.51
674 2656 6.199154 CAGACATGAATTACGGTAGTCACATC 59.801 42.308 0.00 6.84 0.00 3.06
709 2691 7.910162 TGTTTGAACTTTGAAATCTTCTTCGAG 59.090 33.333 0.00 0.00 0.00 4.04
776 2762 1.019673 ATGCTAATCCAACTGCAGCG 58.980 50.000 15.27 5.03 38.87 5.18
817 2803 1.080298 GCAAAGCCAGCATGTCACC 60.080 57.895 0.00 0.00 0.00 4.02
819 2805 0.892755 CAAAGCCAGCATGTCACCAT 59.107 50.000 0.00 0.00 0.00 3.55
820 2806 2.093890 CAAAGCCAGCATGTCACCATA 58.906 47.619 0.00 0.00 0.00 2.74
822 2808 0.620030 AGCCAGCATGTCACCATACA 59.380 50.000 0.00 0.00 0.00 2.29
824 2810 1.402968 GCCAGCATGTCACCATACAAG 59.597 52.381 0.00 0.00 32.02 3.16
828 2814 4.252878 CAGCATGTCACCATACAAGTACA 58.747 43.478 0.00 0.00 32.02 2.90
829 2815 4.093408 CAGCATGTCACCATACAAGTACAC 59.907 45.833 0.00 0.00 32.02 2.90
830 2816 3.374058 GCATGTCACCATACAAGTACACC 59.626 47.826 0.00 0.00 32.02 4.16
833 2819 6.345298 CATGTCACCATACAAGTACACCATA 58.655 40.000 0.00 0.00 32.02 2.74
835 2821 5.246429 TGTCACCATACAAGTACACCATACA 59.754 40.000 0.00 0.00 0.00 2.29
836 2822 6.167685 GTCACCATACAAGTACACCATACAA 58.832 40.000 0.00 0.00 0.00 2.41
837 2823 6.312918 GTCACCATACAAGTACACCATACAAG 59.687 42.308 0.00 0.00 0.00 3.16
838 2824 6.014070 TCACCATACAAGTACACCATACAAGT 60.014 38.462 0.00 0.00 0.00 3.16
839 2825 7.178805 TCACCATACAAGTACACCATACAAGTA 59.821 37.037 0.00 0.00 0.00 2.24
840 2826 7.277098 CACCATACAAGTACACCATACAAGTAC 59.723 40.741 0.00 0.00 38.65 2.73
841 2827 7.038870 ACCATACAAGTACACCATACAAGTACA 60.039 37.037 0.00 0.00 40.32 2.90
842 2828 7.277098 CCATACAAGTACACCATACAAGTACAC 59.723 40.741 0.00 0.00 40.32 2.90
843 2829 5.544650 ACAAGTACACCATACAAGTACACC 58.455 41.667 0.00 0.00 40.32 4.16
844 2830 5.070714 ACAAGTACACCATACAAGTACACCA 59.929 40.000 0.00 0.00 40.32 4.17
845 2831 5.143376 AGTACACCATACAAGTACACCAC 57.857 43.478 0.00 0.00 40.32 4.16
846 2832 3.412237 ACACCATACAAGTACACCACC 57.588 47.619 0.00 0.00 0.00 4.61
847 2833 2.289195 ACACCATACAAGTACACCACCG 60.289 50.000 0.00 0.00 0.00 4.94
848 2834 1.972795 ACCATACAAGTACACCACCGT 59.027 47.619 0.00 0.00 0.00 4.83
849 2835 2.028748 ACCATACAAGTACACCACCGTC 60.029 50.000 0.00 0.00 0.00 4.79
850 2836 2.028839 CCATACAAGTACACCACCGTCA 60.029 50.000 0.00 0.00 0.00 4.35
851 2837 3.369052 CCATACAAGTACACCACCGTCAT 60.369 47.826 0.00 0.00 0.00 3.06
852 2838 2.450609 ACAAGTACACCACCGTCATC 57.549 50.000 0.00 0.00 0.00 2.92
853 2839 1.968493 ACAAGTACACCACCGTCATCT 59.032 47.619 0.00 0.00 0.00 2.90
854 2840 2.029290 ACAAGTACACCACCGTCATCTC 60.029 50.000 0.00 0.00 0.00 2.75
855 2841 0.809385 AGTACACCACCGTCATCTCG 59.191 55.000 0.00 0.00 0.00 4.04
856 2842 0.806868 GTACACCACCGTCATCTCGA 59.193 55.000 0.00 0.00 0.00 4.04
857 2843 0.806868 TACACCACCGTCATCTCGAC 59.193 55.000 0.00 0.00 41.62 4.20
858 2844 1.153823 CACCACCGTCATCTCGACC 60.154 63.158 0.00 0.00 42.07 4.79
859 2845 1.605451 ACCACCGTCATCTCGACCA 60.605 57.895 0.00 0.00 42.07 4.02
860 2846 0.970937 ACCACCGTCATCTCGACCAT 60.971 55.000 0.00 0.00 42.07 3.55
861 2847 1.029681 CCACCGTCATCTCGACCATA 58.970 55.000 0.00 0.00 42.07 2.74
862 2848 1.269102 CCACCGTCATCTCGACCATAC 60.269 57.143 0.00 0.00 42.07 2.39
863 2849 1.404035 CACCGTCATCTCGACCATACA 59.596 52.381 0.00 0.00 42.07 2.29
864 2850 2.097036 ACCGTCATCTCGACCATACAA 58.903 47.619 0.00 0.00 42.07 2.41
865 2851 2.099263 ACCGTCATCTCGACCATACAAG 59.901 50.000 0.00 0.00 42.07 3.16
995 2982 2.541999 GCTCTTGATCGACTAACTCCCG 60.542 54.545 0.00 0.00 0.00 5.14
1123 3113 3.005261 CCTCAAGATCATCCTCCTGTACG 59.995 52.174 0.00 0.00 0.00 3.67
1234 3224 2.621445 ATTCCCGCCACCAATCCCA 61.621 57.895 0.00 0.00 0.00 4.37
1269 3259 1.673920 GGCCATTACCATAACCACACG 59.326 52.381 0.00 0.00 0.00 4.49
1435 3431 1.000955 TCGTCAAGAAGAAGACTGGGC 59.999 52.381 0.00 0.00 32.68 5.36
1455 3454 4.379243 AGACACCGCTGCTTCCCG 62.379 66.667 0.00 0.00 0.00 5.14
1470 3469 1.212934 TCCCGGACCTCCTAGTCTGT 61.213 60.000 0.73 0.00 40.87 3.41
1565 3574 1.265095 CCTTGATATGCATGGTCGCAC 59.735 52.381 10.16 0.00 46.56 5.34
1626 3635 6.949352 ATGTCAAGTTTCAGAGTGATTTGT 57.051 33.333 0.00 0.00 0.00 2.83
1639 3648 4.256920 AGTGATTTGTGTGCTCTACCATC 58.743 43.478 0.00 0.00 0.00 3.51
1647 3662 3.062639 GTGTGCTCTACCATCAATTCACG 59.937 47.826 0.00 0.00 0.00 4.35
1657 3672 3.326588 CCATCAATTCACGGGGGTATCTA 59.673 47.826 0.00 0.00 0.00 1.98
1665 3680 4.147321 TCACGGGGGTATCTAGTAACATC 58.853 47.826 0.00 0.00 0.00 3.06
1672 3697 4.586001 GGGTATCTAGTAACATCGGGACAA 59.414 45.833 0.00 0.00 0.00 3.18
1716 3741 2.203788 TGGAGGAGGAAGCGTGGT 60.204 61.111 0.00 0.00 0.00 4.16
1791 3828 3.547613 GCGTGGAATCTCTGCATTTCATC 60.548 47.826 0.00 0.00 0.00 2.92
1863 3900 7.769044 TCCTCTTTGCTAGCTTATAATTTTCGT 59.231 33.333 17.23 0.00 0.00 3.85
1969 4012 1.219646 GGTGCATGTTGTTTGCTTGG 58.780 50.000 0.00 0.00 40.77 3.61
1970 4013 1.473080 GGTGCATGTTGTTTGCTTGGT 60.473 47.619 0.00 0.00 40.77 3.67
1986 4029 2.029964 GTGGGCGACAACCTTCGA 59.970 61.111 0.00 0.00 41.78 3.71
2013 4056 1.000607 GCGGCAAGGACATACGATAGA 60.001 52.381 0.00 0.00 41.38 1.98
2082 4125 2.674380 CTGGCAGGGCACAAGGAC 60.674 66.667 6.61 0.00 0.00 3.85
2145 4188 5.227569 TGAGCTCTATTGTGTTTTCTCCA 57.772 39.130 16.19 0.00 0.00 3.86
2210 4253 4.578928 GGAGGTGGCGAAATACAAATACAT 59.421 41.667 0.00 0.00 0.00 2.29
2264 4311 0.543749 GAGCTTCCATGGCTACCTGT 59.456 55.000 6.96 0.00 40.40 4.00
2271 4318 0.811616 CATGGCTACCTGTCCTTCGC 60.812 60.000 0.00 0.00 0.00 4.70
2302 4355 0.250597 GCGTTGTACAAGAAGGGGGT 60.251 55.000 8.98 0.00 0.00 4.95
2419 4472 5.245531 CACATGTATAGGTGTGACCACTTT 58.754 41.667 0.00 0.00 46.58 2.66
2444 4498 2.543653 CGGGAAAAACAGCACCTTCTTG 60.544 50.000 0.00 0.00 0.00 3.02
2462 4516 5.948742 TCTTGTTTTGAGTTGGGGAAAAT 57.051 34.783 0.00 0.00 0.00 1.82
2786 4841 9.034544 CCAACAAGGTTGAGATTTTAGAAAAAG 57.965 33.333 10.48 0.00 0.00 2.27
2787 4842 9.586435 CAACAAGGTTGAGATTTTAGAAAAAGT 57.414 29.630 3.05 0.00 0.00 2.66
2909 4971 8.730970 TTTGTAATCCGAATTTAGAAAAACCG 57.269 30.769 0.00 0.00 0.00 4.44
2959 5025 6.629101 GTTTTCTAAAACGTGCGCAATTTTA 58.371 32.000 26.70 26.70 38.89 1.52
2960 5026 6.427300 TTTCTAAAACGTGCGCAATTTTAG 57.573 33.333 35.37 35.37 42.99 1.85
2964 5030 3.357166 AACGTGCGCAATTTTAGGAAA 57.643 38.095 14.00 0.00 0.00 3.13
2965 5031 3.357166 ACGTGCGCAATTTTAGGAAAA 57.643 38.095 14.00 0.00 34.41 2.29
2966 5032 3.707793 ACGTGCGCAATTTTAGGAAAAA 58.292 36.364 14.00 0.00 38.87 1.94
3042 5112 8.876275 TTTCTGGAATTCTTGAACATTTCTTG 57.124 30.769 5.23 0.00 0.00 3.02
3043 5113 7.822161 TCTGGAATTCTTGAACATTTCTTGA 57.178 32.000 5.23 0.00 0.00 3.02
3044 5114 8.236585 TCTGGAATTCTTGAACATTTCTTGAA 57.763 30.769 5.23 0.00 0.00 2.69
3045 5115 8.355169 TCTGGAATTCTTGAACATTTCTTGAAG 58.645 33.333 5.23 0.00 0.00 3.02
3046 5116 6.925165 TGGAATTCTTGAACATTTCTTGAAGC 59.075 34.615 5.23 0.00 0.00 3.86
3047 5117 6.925165 GGAATTCTTGAACATTTCTTGAAGCA 59.075 34.615 5.23 0.00 0.00 3.91
3048 5118 7.601508 GGAATTCTTGAACATTTCTTGAAGCAT 59.398 33.333 5.23 0.00 0.00 3.79
3049 5119 7.884816 ATTCTTGAACATTTCTTGAAGCATG 57.115 32.000 3.50 3.50 0.00 4.06
3050 5120 6.638096 TCTTGAACATTTCTTGAAGCATGA 57.362 33.333 10.12 0.00 0.00 3.07
3051 5121 7.041635 TCTTGAACATTTCTTGAAGCATGAA 57.958 32.000 10.12 0.00 0.00 2.57
3052 5122 6.919662 TCTTGAACATTTCTTGAAGCATGAAC 59.080 34.615 10.12 5.43 29.46 3.18
3053 5123 6.146601 TGAACATTTCTTGAAGCATGAACA 57.853 33.333 10.12 7.25 29.46 3.18
3054 5124 6.571605 TGAACATTTCTTGAAGCATGAACAA 58.428 32.000 10.12 0.00 29.46 2.83
3055 5125 7.211573 TGAACATTTCTTGAAGCATGAACAAT 58.788 30.769 10.12 0.00 29.46 2.71
3056 5126 7.711772 TGAACATTTCTTGAAGCATGAACAATT 59.288 29.630 10.12 0.00 29.46 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.510685 TGAGGACTATTTTGCTCTATGAGGTAT 59.489 37.037 0.00 0.00 35.11 2.73
1 2 6.839134 TGAGGACTATTTTGCTCTATGAGGTA 59.161 38.462 0.00 0.00 35.11 3.08
2 3 5.663106 TGAGGACTATTTTGCTCTATGAGGT 59.337 40.000 0.00 0.00 35.11 3.85
3 4 5.988561 GTGAGGACTATTTTGCTCTATGAGG 59.011 44.000 0.00 0.00 35.11 3.86
4 5 6.478344 GTGTGAGGACTATTTTGCTCTATGAG 59.522 42.308 0.00 0.00 35.11 2.90
32 33 0.388649 AGCCGTGTCTCTAGCAAACG 60.389 55.000 0.00 0.00 0.00 3.60
79 80 2.492088 CAACTCATCTCTGTGTCCCGTA 59.508 50.000 0.00 0.00 0.00 4.02
83 84 2.300152 TGACCAACTCATCTCTGTGTCC 59.700 50.000 0.00 0.00 0.00 4.02
87 88 2.614259 ACCTGACCAACTCATCTCTGT 58.386 47.619 0.00 0.00 0.00 3.41
139 140 4.375272 CACATCGCACTCCATATCTCTTT 58.625 43.478 0.00 0.00 0.00 2.52
145 146 0.104855 ACGCACATCGCACTCCATAT 59.895 50.000 0.00 0.00 42.60 1.78
151 152 2.057654 TTTTGCACGCACATCGCACT 62.058 50.000 0.00 0.00 42.60 4.40
171 172 5.279607 CCTTGAATGTCCAAACACCATGAAT 60.280 40.000 0.00 0.00 38.48 2.57
172 173 4.039004 CCTTGAATGTCCAAACACCATGAA 59.961 41.667 0.00 0.00 38.48 2.57
174 175 3.573538 TCCTTGAATGTCCAAACACCATG 59.426 43.478 0.00 0.00 38.48 3.66
175 176 3.828451 CTCCTTGAATGTCCAAACACCAT 59.172 43.478 0.00 0.00 38.48 3.55
176 177 3.221771 CTCCTTGAATGTCCAAACACCA 58.778 45.455 0.00 0.00 38.48 4.17
177 178 2.558359 CCTCCTTGAATGTCCAAACACC 59.442 50.000 0.00 0.00 38.48 4.16
178 179 3.222603 ACCTCCTTGAATGTCCAAACAC 58.777 45.455 0.00 0.00 38.48 3.32
245 246 9.271828 ACAAAACAAAACTGGATCCAAATATTC 57.728 29.630 17.00 0.00 0.00 1.75
277 278 3.218398 GTTCGAACATTCAAACAGCTCG 58.782 45.455 23.12 0.00 0.00 5.03
283 284 4.854399 TCATGGTGTTCGAACATTCAAAC 58.146 39.130 31.81 18.23 41.59 2.93
301 302 4.815308 TCAAACACCCTGCAAATTTTCATG 59.185 37.500 0.00 0.00 0.00 3.07
302 303 5.033589 TCAAACACCCTGCAAATTTTCAT 57.966 34.783 0.00 0.00 0.00 2.57
303 304 4.478206 TCAAACACCCTGCAAATTTTCA 57.522 36.364 0.00 0.00 0.00 2.69
304 305 4.633565 TGTTCAAACACCCTGCAAATTTTC 59.366 37.500 0.00 0.00 33.17 2.29
305 306 4.583871 TGTTCAAACACCCTGCAAATTTT 58.416 34.783 0.00 0.00 33.17 1.82
306 307 4.213564 TGTTCAAACACCCTGCAAATTT 57.786 36.364 0.00 0.00 33.17 1.82
307 308 3.902881 TGTTCAAACACCCTGCAAATT 57.097 38.095 0.00 0.00 33.17 1.82
318 319 5.645067 TGCAAATTTTCATGGTGTTCAAACA 59.355 32.000 0.00 0.00 36.38 2.83
319 320 6.116680 TGCAAATTTTCATGGTGTTCAAAC 57.883 33.333 0.00 0.00 0.00 2.93
320 321 6.541278 TCATGCAAATTTTCATGGTGTTCAAA 59.459 30.769 24.39 5.91 40.20 2.69
321 322 6.053650 TCATGCAAATTTTCATGGTGTTCAA 58.946 32.000 24.39 6.52 40.20 2.69
322 323 5.608449 TCATGCAAATTTTCATGGTGTTCA 58.392 33.333 24.39 7.11 40.20 3.18
323 324 6.730960 ATCATGCAAATTTTCATGGTGTTC 57.269 33.333 24.39 0.00 40.20 3.18
324 325 6.938030 AGAATCATGCAAATTTTCATGGTGTT 59.062 30.769 24.39 17.96 40.20 3.32
325 326 6.469410 AGAATCATGCAAATTTTCATGGTGT 58.531 32.000 24.39 13.48 40.20 4.16
326 327 6.978343 AGAATCATGCAAATTTTCATGGTG 57.022 33.333 24.39 7.15 40.20 4.17
327 328 7.276218 CGTAAGAATCATGCAAATTTTCATGGT 59.724 33.333 24.39 18.09 39.34 3.55
328 329 7.614908 CGTAAGAATCATGCAAATTTTCATGG 58.385 34.615 24.39 10.85 39.34 3.66
329 330 7.114920 GCGTAAGAATCATGCAAATTTTCATG 58.885 34.615 20.62 20.62 39.86 3.07
334 335 4.864247 GGTGCGTAAGAATCATGCAAATTT 59.136 37.500 0.00 0.00 39.51 1.82
342 343 1.806623 GCTCGGGTGCGTAAGAATCAT 60.807 52.381 0.00 0.00 43.02 2.45
347 348 1.141019 GATGCTCGGGTGCGTAAGA 59.859 57.895 0.00 0.00 43.02 2.10
351 352 2.125512 GAAGATGCTCGGGTGCGT 60.126 61.111 0.00 0.00 35.36 5.24
359 360 8.940952 ACAGTAAAGAAACTAATGAAGATGCTC 58.059 33.333 0.00 0.00 0.00 4.26
384 397 9.982651 TGAACAGCTCCTATTATTTAGATGTAC 57.017 33.333 0.00 0.00 37.59 2.90
391 404 9.342308 CCAGAAATGAACAGCTCCTATTATTTA 57.658 33.333 0.00 0.00 0.00 1.40
392 405 7.836183 ACCAGAAATGAACAGCTCCTATTATTT 59.164 33.333 0.00 0.00 0.00 1.40
395 408 6.070251 TGACCAGAAATGAACAGCTCCTATTA 60.070 38.462 0.00 0.00 0.00 0.98
397 410 4.225942 TGACCAGAAATGAACAGCTCCTAT 59.774 41.667 0.00 0.00 0.00 2.57
398 411 3.582647 TGACCAGAAATGAACAGCTCCTA 59.417 43.478 0.00 0.00 0.00 2.94
403 416 4.771590 TGAATGACCAGAAATGAACAGC 57.228 40.909 0.00 0.00 0.00 4.40
404 417 5.149273 CGTTGAATGACCAGAAATGAACAG 58.851 41.667 0.00 0.00 0.00 3.16
406 419 4.215399 TCCGTTGAATGACCAGAAATGAAC 59.785 41.667 0.00 0.00 0.00 3.18
407 420 4.215399 GTCCGTTGAATGACCAGAAATGAA 59.785 41.667 0.00 0.00 0.00 2.57
408 421 3.751175 GTCCGTTGAATGACCAGAAATGA 59.249 43.478 0.00 0.00 0.00 2.57
410 423 4.021102 AGTCCGTTGAATGACCAGAAAT 57.979 40.909 0.00 0.00 31.76 2.17
411 424 3.485463 AGTCCGTTGAATGACCAGAAA 57.515 42.857 0.00 0.00 31.76 2.52
412 425 3.830178 TCTAGTCCGTTGAATGACCAGAA 59.170 43.478 0.00 0.00 28.49 3.02
413 426 3.427573 TCTAGTCCGTTGAATGACCAGA 58.572 45.455 0.00 0.00 31.76 3.86
416 429 3.066342 TCGATCTAGTCCGTTGAATGACC 59.934 47.826 6.46 0.00 31.76 4.02
417 430 4.288670 TCGATCTAGTCCGTTGAATGAC 57.711 45.455 6.46 0.00 0.00 3.06
418 431 4.976224 TTCGATCTAGTCCGTTGAATGA 57.024 40.909 0.00 0.00 0.00 2.57
422 435 4.713824 AACATTCGATCTAGTCCGTTGA 57.286 40.909 13.61 0.00 0.00 3.18
423 436 5.817988 TCTAACATTCGATCTAGTCCGTTG 58.182 41.667 0.00 7.88 0.00 4.10
424 437 6.446781 TTCTAACATTCGATCTAGTCCGTT 57.553 37.500 0.00 0.00 0.00 4.44
425 438 5.008811 CCTTCTAACATTCGATCTAGTCCGT 59.991 44.000 0.00 0.00 0.00 4.69
426 439 5.453648 CCTTCTAACATTCGATCTAGTCCG 58.546 45.833 0.00 0.00 0.00 4.79
427 440 5.302313 ACCCTTCTAACATTCGATCTAGTCC 59.698 44.000 0.00 0.00 0.00 3.85
430 443 4.985409 GCACCCTTCTAACATTCGATCTAG 59.015 45.833 0.00 0.00 0.00 2.43
431 444 4.202223 GGCACCCTTCTAACATTCGATCTA 60.202 45.833 0.00 0.00 0.00 1.98
432 445 3.432326 GGCACCCTTCTAACATTCGATCT 60.432 47.826 0.00 0.00 0.00 2.75
435 448 1.404986 CGGCACCCTTCTAACATTCGA 60.405 52.381 0.00 0.00 0.00 3.71
440 453 1.141254 TCAAACGGCACCCTTCTAACA 59.859 47.619 0.00 0.00 0.00 2.41
457 758 1.303236 CCCTCGTGGTTGCCATCAA 60.303 57.895 2.33 0.00 35.28 2.57
458 759 1.561769 ATCCCTCGTGGTTGCCATCA 61.562 55.000 2.33 0.00 35.28 3.07
467 768 5.408356 CGTAATTTATAGGATCCCTCGTGG 58.592 45.833 8.55 0.00 34.61 4.94
471 772 7.001099 TGTTCCGTAATTTATAGGATCCCTC 57.999 40.000 8.55 0.00 34.61 4.30
521 1709 2.738846 GTGCGAATCATCTCAGTTGTGT 59.261 45.455 0.00 0.00 0.00 3.72
522 1782 2.998670 AGTGCGAATCATCTCAGTTGTG 59.001 45.455 0.00 0.00 0.00 3.33
539 1799 3.505464 ATAACTGAGACCGTGTAGTGC 57.495 47.619 0.00 0.00 0.00 4.40
540 1800 5.814764 ACTATAACTGAGACCGTGTAGTG 57.185 43.478 0.00 0.00 0.00 2.74
545 1805 8.731605 ACATCATATACTATAACTGAGACCGTG 58.268 37.037 0.00 0.00 0.00 4.94
548 1808 7.976734 GGCACATCATATACTATAACTGAGACC 59.023 40.741 0.00 0.00 0.00 3.85
618 2600 4.001652 CTCATCTGCAGTCAATCAACAGT 58.998 43.478 14.67 0.00 0.00 3.55
632 2614 0.319727 CTGATCTCGGGCTCATCTGC 60.320 60.000 0.00 0.00 0.00 4.26
674 2656 5.508124 TCAAAGTTCAAACAAACAAAGCG 57.492 34.783 0.00 0.00 0.00 4.68
709 2691 0.882927 TGCACGTTACTCTGCCCAAC 60.883 55.000 0.00 0.00 31.97 3.77
814 2800 6.170506 ACTTGTATGGTGTACTTGTATGGTG 58.829 40.000 0.00 0.00 0.00 4.17
817 2803 7.277098 GGTGTACTTGTATGGTGTACTTGTATG 59.723 40.741 0.00 0.00 37.85 2.39
819 2805 6.267242 TGGTGTACTTGTATGGTGTACTTGTA 59.733 38.462 0.00 0.00 37.85 2.41
820 2806 5.070714 TGGTGTACTTGTATGGTGTACTTGT 59.929 40.000 0.00 0.00 37.85 3.16
822 2808 5.511888 GGTGGTGTACTTGTATGGTGTACTT 60.512 44.000 0.00 0.00 37.85 2.24
824 2810 4.248058 GGTGGTGTACTTGTATGGTGTAC 58.752 47.826 0.00 0.00 37.60 2.90
828 2814 1.972795 ACGGTGGTGTACTTGTATGGT 59.027 47.619 0.00 0.00 0.00 3.55
829 2815 2.028839 TGACGGTGGTGTACTTGTATGG 60.029 50.000 0.00 0.00 0.00 2.74
830 2816 3.306917 TGACGGTGGTGTACTTGTATG 57.693 47.619 0.00 0.00 0.00 2.39
833 2819 1.968493 AGATGACGGTGGTGTACTTGT 59.032 47.619 0.00 0.00 0.00 3.16
835 2821 1.201647 CGAGATGACGGTGGTGTACTT 59.798 52.381 0.00 0.00 0.00 2.24
836 2822 0.809385 CGAGATGACGGTGGTGTACT 59.191 55.000 0.00 0.00 0.00 2.73
837 2823 0.806868 TCGAGATGACGGTGGTGTAC 59.193 55.000 0.00 0.00 0.00 2.90
838 2824 0.806868 GTCGAGATGACGGTGGTGTA 59.193 55.000 0.00 0.00 37.96 2.90
839 2825 1.585006 GTCGAGATGACGGTGGTGT 59.415 57.895 0.00 0.00 37.96 4.16
840 2826 4.478195 GTCGAGATGACGGTGGTG 57.522 61.111 0.00 0.00 37.96 4.17
864 2850 9.407380 TGGTGTGATGCTTGATTATTTATTACT 57.593 29.630 0.00 0.00 0.00 2.24
995 2982 1.821136 CTTTCTCTTTGGCCATGGGAC 59.179 52.381 15.13 0.00 0.00 4.46
1123 3113 4.083862 GTGGGGCGAGGTGAGGAC 62.084 72.222 0.00 0.00 0.00 3.85
1180 3170 1.525197 GTGTCTTTCAACGACGATGCA 59.475 47.619 0.00 0.00 34.17 3.96
1234 3224 0.111061 TGGCCTGCAACAAGAGATGT 59.889 50.000 3.32 0.00 46.82 3.06
1269 3259 2.438434 CGGCCATTGACAGGGGAC 60.438 66.667 2.24 0.00 0.00 4.46
1455 3454 1.107945 GCTCACAGACTAGGAGGTCC 58.892 60.000 0.00 0.00 36.95 4.46
1565 3574 2.290134 CCATCCCATGTGATAGCTCCTG 60.290 54.545 0.00 0.00 0.00 3.86
1626 3635 3.261580 CGTGAATTGATGGTAGAGCACA 58.738 45.455 0.00 0.00 0.00 4.57
1639 3648 5.163385 TGTTACTAGATACCCCCGTGAATTG 60.163 44.000 0.00 0.00 0.00 2.32
1647 3662 2.830321 CCCGATGTTACTAGATACCCCC 59.170 54.545 0.00 0.00 0.00 5.40
1657 3672 2.290071 CCTTGGTTGTCCCGATGTTACT 60.290 50.000 0.00 0.00 35.15 2.24
1665 3680 1.971695 GAAGGCCTTGGTTGTCCCG 60.972 63.158 26.25 0.00 35.15 5.14
1672 3697 1.597027 CGAACACGAAGGCCTTGGT 60.597 57.895 25.85 25.85 31.62 3.67
1716 3741 3.535629 CTGCTGCCTGACGGACCAA 62.536 63.158 0.00 0.00 0.00 3.67
1791 3828 0.098728 GGGAAAATGATGCACGACCG 59.901 55.000 0.00 0.00 0.00 4.79
1863 3900 5.123227 ACGATCTCAAACTCTTTTGACCAA 58.877 37.500 0.00 0.00 45.08 3.67
1969 4012 0.953960 ATTCGAAGGTTGTCGCCCAC 60.954 55.000 3.35 0.00 40.88 4.61
1970 4013 0.672401 GATTCGAAGGTTGTCGCCCA 60.672 55.000 3.35 0.00 40.88 5.36
1986 4029 1.549203 ATGTCCTTGCCGCAAAGATT 58.451 45.000 7.66 0.00 0.00 2.40
2013 4056 1.071471 CTGAAGCACCCAGTCGGTT 59.929 57.895 0.00 0.00 45.36 4.44
2082 4125 1.091771 TAGACCCGCGGAAGTAGTCG 61.092 60.000 30.73 9.82 33.66 4.18
2145 4188 2.100128 ATAGCCATGTCTCCTCTGCT 57.900 50.000 0.00 0.00 0.00 4.24
2210 4253 3.313249 CACACTTGCAGAAGAATGTGTCA 59.687 43.478 0.00 0.00 36.65 3.58
2264 4311 1.075542 CACAATACAAGCGCGAAGGA 58.924 50.000 12.10 0.00 0.00 3.36
2302 4355 3.558931 AATATCAGAACATCGGCCACA 57.441 42.857 2.24 0.00 0.00 4.17
2355 4408 8.183536 TGCTATCGCAAATTTATATAGGCAATG 58.816 33.333 12.17 0.00 44.62 2.82
2356 4409 8.279970 TGCTATCGCAAATTTATATAGGCAAT 57.720 30.769 12.17 0.00 44.62 3.56
2375 4428 8.800972 CATGTGTAAACATTTTGTGATGCTATC 58.199 33.333 0.00 0.00 0.00 2.08
2394 4447 5.333299 GTGGTCACACCTATACATGTGTA 57.667 43.478 9.11 5.23 43.52 2.90
2419 4472 2.104170 AGGTGCTGTTTTTCCCGAAAA 58.896 42.857 0.00 0.00 38.40 2.29
2426 4479 5.637387 TCAAAACAAGAAGGTGCTGTTTTTC 59.363 36.000 8.91 0.00 39.65 2.29
2444 4498 4.988540 GCAGTATTTTCCCCAACTCAAAAC 59.011 41.667 0.00 0.00 0.00 2.43
2462 4516 0.970640 TCCCACGCTTAAGTGCAGTA 59.029 50.000 15.92 0.00 40.59 2.74
2754 4808 2.733956 TCTCAACCTTGTTGGCTGTTT 58.266 42.857 7.08 0.00 40.22 2.83
2817 4874 9.771915 GTAAATATTTGTGGCATTTCAAATTGG 57.228 29.630 16.57 0.00 42.06 3.16
2870 4930 8.291888 TCGGATTACAAAAATTGTTCACATTG 57.708 30.769 0.54 0.00 42.22 2.82
3039 5109 7.703298 TTCAGAAAATTGTTCATGCTTCAAG 57.297 32.000 0.00 0.00 0.00 3.02
3040 5110 8.665643 ATTTCAGAAAATTGTTCATGCTTCAA 57.334 26.923 0.00 0.00 30.79 2.69
3041 5111 8.665643 AATTTCAGAAAATTGTTCATGCTTCA 57.334 26.923 0.00 0.00 42.21 3.02
3053 5123 9.333724 AGAATTTGCTCACAATTTCAGAAAATT 57.666 25.926 0.00 6.49 43.65 1.82
3054 5124 8.770828 CAGAATTTGCTCACAATTTCAGAAAAT 58.229 29.630 0.00 0.00 43.65 1.82
3055 5125 7.225145 CCAGAATTTGCTCACAATTTCAGAAAA 59.775 33.333 0.00 0.00 43.65 2.29
3056 5126 6.702723 CCAGAATTTGCTCACAATTTCAGAAA 59.297 34.615 13.01 0.00 43.65 2.52
3078 5167 9.918630 AATTTCAAAATATGTTCTCAGTTCCAG 57.081 29.630 0.00 0.00 0.00 3.86
3226 5385 9.226606 TGTCCGTGTTTTAGAAGATATTCATTT 57.773 29.630 2.42 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.