Multiple sequence alignment - TraesCS5B01G443100

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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 TraesCS5B01G443100 chr5B 100.000 2507 0 0 1 2507 616159257 616161763 0.000000e+00 4630
1 TraesCS5B01G443100 chr5B 97.463 1734 38 3 778 2507 616027046 616025315 0.000000e+00 2953
2 TraesCS5B01G443100 chr5B 98.309 1360 23 0 1148 2507 616105894 616107253 0.000000e+00 2385
3 TraesCS5B01G443100 chr5B 91.548 1621 97 21 697 2306 616310288 616311879 0.000000e+00 2198
4 TraesCS5B01G443100 chr5B 91.487 1621 98 21 697 2306 616321924 616323515 0.000000e+00 2193
5 TraesCS5B01G443100 chr5B 91.184 1622 101 23 697 2306 616276360 616277951 0.000000e+00 2165
6 TraesCS5B01G443100 chr5B 91.184 1622 100 24 697 2306 616245675 616247265 0.000000e+00 2163
7 TraesCS5B01G443100 chr5B 96.154 1144 35 5 1371 2507 615964791 615963650 0.000000e+00 1860
8 TraesCS5B01G443100 chr5B 91.242 628 44 10 1681 2306 616266412 616267030 0.000000e+00 845
9 TraesCS5B01G443100 chr5B 90.924 628 45 11 1681 2306 616300329 616300946 0.000000e+00 833
10 TraesCS5B01G443100 chr5B 90.865 624 42 12 1685 2306 616224079 616224689 0.000000e+00 822
11 TraesCS5B01G443100 chr5B 96.992 399 12 0 1 399 616103573 616103971 0.000000e+00 671
12 TraesCS5B01G443100 chr5B 96.742 399 12 1 1 399 615965636 615965239 0.000000e+00 664
13 TraesCS5B01G443100 chr5B 92.806 417 26 3 1 413 616265022 616265438 3.570000e-168 601
14 TraesCS5B01G443100 chr5B 92.530 415 27 3 3 413 616275945 616276359 2.150000e-165 592
15 TraesCS5B01G443100 chr5B 92.530 415 27 3 3 413 616309873 616310287 2.150000e-165 592
16 TraesCS5B01G443100 chr5B 92.530 415 27 3 3 413 616321509 616321923 2.150000e-165 592
17 TraesCS5B01G443100 chr5B 92.530 415 26 4 3 413 616245261 616245674 7.720000e-165 590
18 TraesCS5B01G443100 chr5B 88.732 426 40 8 1681 2103 615951742 615952162 4.780000e-142 514
19 TraesCS5B01G443100 chr5B 94.595 296 13 3 394 687 349672059 349672353 2.940000e-124 455
20 TraesCS5B01G443100 chr5D 92.511 1629 101 15 689 2306 497103657 497105275 0.000000e+00 2313
21 TraesCS5B01G443100 chrUn 92.593 1620 100 14 701 2309 68274357 68272747 0.000000e+00 2309
22 TraesCS5B01G443100 chrUn 92.517 1617 101 14 701 2306 302517263 302518870 0.000000e+00 2298
23 TraesCS5B01G443100 chrUn 89.435 1647 131 28 689 2309 335556052 335554423 0.000000e+00 2037
24 TraesCS5B01G443100 chrUn 89.120 1636 134 28 701 2306 345125407 345127028 0.000000e+00 1995
25 TraesCS5B01G443100 chrUn 97.229 794 22 0 689 1482 310278026 310277233 0.000000e+00 1345
26 TraesCS5B01G443100 chrUn 91.924 421 28 6 3 420 335556467 335556050 3.590000e-163 584
27 TraesCS5B01G443100 chrUn 91.924 421 28 6 3 420 417158210 417158627 3.590000e-163 584
28 TraesCS5B01G443100 chr5A 90.098 1626 126 22 689 2306 621443988 621445586 0.000000e+00 2078
29 TraesCS5B01G443100 chr5A 90.160 1250 89 20 689 1931 621448391 621449613 0.000000e+00 1596
30 TraesCS5B01G443100 chr7B 97.143 280 8 0 412 691 689668119 689667840 8.120000e-130 473
31 TraesCS5B01G443100 chr7B 97.112 277 8 0 411 687 435788253 435788529 3.780000e-128 468
32 TraesCS5B01G443100 chr7B 96.441 281 10 0 412 692 182715338 182715618 4.880000e-127 464
33 TraesCS5B01G443100 chr7B 96.429 280 10 0 411 690 246484165 246483886 1.760000e-126 462
34 TraesCS5B01G443100 chr7B 93.035 201 14 0 2307 2507 312451758 312451958 6.780000e-76 294
35 TraesCS5B01G443100 chr2B 97.464 276 7 0 412 687 642953260 642953535 2.920000e-129 472
36 TraesCS5B01G443100 chr1B 96.797 281 9 0 412 692 660674446 660674726 1.050000e-128 470
37 TraesCS5B01G443100 chr1B 92.929 198 14 0 2310 2507 202151112 202150915 3.160000e-74 289
38 TraesCS5B01G443100 chr1B 92.929 198 14 0 2310 2507 382916964 382916767 3.160000e-74 289
39 TraesCS5B01G443100 chr6A 97.445 274 7 0 414 687 373134765 373134492 3.780000e-128 468
40 TraesCS5B01G443100 chr3A 97.112 277 8 0 411 687 374342128 374342404 3.780000e-128 468
41 TraesCS5B01G443100 chr4B 93.035 201 14 0 2307 2507 323275957 323276157 6.780000e-76 294
42 TraesCS5B01G443100 chr4D 92.929 198 14 0 2310 2507 23585778 23585581 3.160000e-74 289
43 TraesCS5B01G443100 chr3B 90.952 210 18 1 2299 2507 610258997 610258788 5.280000e-72 281


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 TraesCS5B01G443100 chr5B 616159257 616161763 2506 False 4630.0 4630 100.0000 1 2507 1 chr5B.!!$F3 2506
1 TraesCS5B01G443100 chr5B 616025315 616027046 1731 True 2953.0 2953 97.4630 778 2507 1 chr5B.!!$R1 1729
2 TraesCS5B01G443100 chr5B 616103573 616107253 3680 False 1528.0 2385 97.6505 1 2507 2 chr5B.!!$F6 2506
3 TraesCS5B01G443100 chr5B 616309873 616311879 2006 False 1395.0 2198 92.0390 3 2306 2 chr5B.!!$F10 2303
4 TraesCS5B01G443100 chr5B 616321509 616323515 2006 False 1392.5 2193 92.0085 3 2306 2 chr5B.!!$F11 2303
5 TraesCS5B01G443100 chr5B 616275945 616277951 2006 False 1378.5 2165 91.8570 3 2306 2 chr5B.!!$F9 2303
6 TraesCS5B01G443100 chr5B 616245261 616247265 2004 False 1376.5 2163 91.8570 3 2306 2 chr5B.!!$F7 2303
7 TraesCS5B01G443100 chr5B 615963650 615965636 1986 True 1262.0 1860 96.4480 1 2507 2 chr5B.!!$R2 2506
8 TraesCS5B01G443100 chr5B 616300329 616300946 617 False 833.0 833 90.9240 1681 2306 1 chr5B.!!$F5 625
9 TraesCS5B01G443100 chr5B 616224079 616224689 610 False 822.0 822 90.8650 1685 2306 1 chr5B.!!$F4 621
10 TraesCS5B01G443100 chr5B 616265022 616267030 2008 False 723.0 845 92.0240 1 2306 2 chr5B.!!$F8 2305
11 TraesCS5B01G443100 chr5D 497103657 497105275 1618 False 2313.0 2313 92.5110 689 2306 1 chr5D.!!$F1 1617
12 TraesCS5B01G443100 chrUn 68272747 68274357 1610 True 2309.0 2309 92.5930 701 2309 1 chrUn.!!$R1 1608
13 TraesCS5B01G443100 chrUn 302517263 302518870 1607 False 2298.0 2298 92.5170 701 2306 1 chrUn.!!$F1 1605
14 TraesCS5B01G443100 chrUn 345125407 345127028 1621 False 1995.0 1995 89.1200 701 2306 1 chrUn.!!$F2 1605
15 TraesCS5B01G443100 chrUn 310277233 310278026 793 True 1345.0 1345 97.2290 689 1482 1 chrUn.!!$R2 793
16 TraesCS5B01G443100 chrUn 335554423 335556467 2044 True 1310.5 2037 90.6795 3 2309 2 chrUn.!!$R3 2306
17 TraesCS5B01G443100 chr5A 621443988 621449613 5625 False 1837.0 2078 90.1290 689 2306 2 chr5A.!!$F1 1617

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
687 693 0.983378 ACTCCCACTATGACCAGCCC 60.983 60.0 0.0 0.0 0.0 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2314 3892 0.258774 AAAGGGTCGCATATTGGGCT 59.741 50.0 0.0 0.0 0.0 5.19 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
68 70 1.632164 CATGGGAGAGGGGTAGGGA 59.368 63.158 0.00 0.00 0.00 4.20
71 73 2.615773 GGAGAGGGGTAGGGAGGG 59.384 72.222 0.00 0.00 0.00 4.30
416 422 7.446625 ACAATGAAGATGATGGAGTTATTAGGC 59.553 37.037 0.00 0.00 0.00 3.93
417 423 6.753913 TGAAGATGATGGAGTTATTAGGCT 57.246 37.500 0.00 0.00 0.00 4.58
418 424 7.855784 TGAAGATGATGGAGTTATTAGGCTA 57.144 36.000 0.00 0.00 0.00 3.93
421 427 7.475137 AGATGATGGAGTTATTAGGCTAGTC 57.525 40.000 0.00 0.00 0.00 2.59
422 428 7.013220 AGATGATGGAGTTATTAGGCTAGTCA 58.987 38.462 0.00 0.00 0.00 3.41
423 429 7.677745 AGATGATGGAGTTATTAGGCTAGTCAT 59.322 37.037 0.00 0.00 0.00 3.06
424 430 8.901472 ATGATGGAGTTATTAGGCTAGTCATA 57.099 34.615 0.00 0.00 0.00 2.15
425 431 8.354711 TGATGGAGTTATTAGGCTAGTCATAG 57.645 38.462 0.00 0.00 0.00 2.23
426 432 7.950684 TGATGGAGTTATTAGGCTAGTCATAGT 59.049 37.037 0.00 0.00 0.00 2.12
427 433 7.526142 TGGAGTTATTAGGCTAGTCATAGTG 57.474 40.000 0.00 0.00 0.00 2.74
428 434 6.493802 TGGAGTTATTAGGCTAGTCATAGTGG 59.506 42.308 0.00 0.00 0.00 4.00
429 435 6.071278 GGAGTTATTAGGCTAGTCATAGTGGG 60.071 46.154 0.00 0.00 0.00 4.61
430 436 5.780793 AGTTATTAGGCTAGTCATAGTGGGG 59.219 44.000 0.00 0.00 0.00 4.96
431 437 3.985553 TTAGGCTAGTCATAGTGGGGA 57.014 47.619 0.00 0.00 0.00 4.81
432 438 2.390225 AGGCTAGTCATAGTGGGGAG 57.610 55.000 0.00 0.00 0.00 4.30
433 439 1.576272 AGGCTAGTCATAGTGGGGAGT 59.424 52.381 0.00 0.00 0.00 3.85
434 440 2.789992 AGGCTAGTCATAGTGGGGAGTA 59.210 50.000 0.00 0.00 0.00 2.59
435 441 3.206866 AGGCTAGTCATAGTGGGGAGTAA 59.793 47.826 0.00 0.00 0.00 2.24
436 442 3.321396 GGCTAGTCATAGTGGGGAGTAAC 59.679 52.174 0.00 0.00 0.00 2.50
437 443 4.216708 GCTAGTCATAGTGGGGAGTAACT 58.783 47.826 0.00 0.00 0.00 2.24
438 444 4.650131 GCTAGTCATAGTGGGGAGTAACTT 59.350 45.833 0.00 0.00 0.00 2.66
439 445 5.832060 GCTAGTCATAGTGGGGAGTAACTTA 59.168 44.000 0.00 0.00 0.00 2.24
440 446 6.016108 GCTAGTCATAGTGGGGAGTAACTTAG 60.016 46.154 0.00 0.00 0.00 2.18
441 447 6.088541 AGTCATAGTGGGGAGTAACTTAGA 57.911 41.667 0.00 0.00 0.00 2.10
442 448 5.892686 AGTCATAGTGGGGAGTAACTTAGAC 59.107 44.000 0.00 0.00 33.07 2.59
443 449 5.892686 GTCATAGTGGGGAGTAACTTAGACT 59.107 44.000 0.00 0.00 31.58 3.24
444 450 7.059156 GTCATAGTGGGGAGTAACTTAGACTA 58.941 42.308 0.00 0.00 31.58 2.59
445 451 7.229106 GTCATAGTGGGGAGTAACTTAGACTAG 59.771 44.444 0.00 0.00 31.58 2.57
446 452 5.533333 AGTGGGGAGTAACTTAGACTAGT 57.467 43.478 0.00 0.00 0.00 2.57
447 453 5.262804 AGTGGGGAGTAACTTAGACTAGTG 58.737 45.833 0.00 0.00 0.00 2.74
448 454 5.015515 GTGGGGAGTAACTTAGACTAGTGT 58.984 45.833 0.00 0.00 0.00 3.55
449 455 5.125257 GTGGGGAGTAACTTAGACTAGTGTC 59.875 48.000 0.00 0.00 43.22 3.67
450 456 5.222192 TGGGGAGTAACTTAGACTAGTGTCA 60.222 44.000 0.00 0.00 45.20 3.58
451 457 5.892686 GGGGAGTAACTTAGACTAGTGTCAT 59.107 44.000 0.00 0.00 45.20 3.06
452 458 6.183360 GGGGAGTAACTTAGACTAGTGTCATG 60.183 46.154 0.00 0.00 45.20 3.07
453 459 6.267070 GGAGTAACTTAGACTAGTGTCATGC 58.733 44.000 0.00 0.00 45.20 4.06
454 460 6.127703 GGAGTAACTTAGACTAGTGTCATGCA 60.128 42.308 0.00 0.00 45.20 3.96
455 461 7.411486 AGTAACTTAGACTAGTGTCATGCAT 57.589 36.000 0.00 0.00 45.20 3.96
456 462 8.521170 AGTAACTTAGACTAGTGTCATGCATA 57.479 34.615 0.00 0.00 45.20 3.14
457 463 9.137459 AGTAACTTAGACTAGTGTCATGCATAT 57.863 33.333 0.00 0.00 45.20 1.78
458 464 9.186323 GTAACTTAGACTAGTGTCATGCATATG 57.814 37.037 0.00 0.00 45.20 1.78
459 465 7.588497 ACTTAGACTAGTGTCATGCATATGA 57.412 36.000 6.97 0.00 45.20 2.15
472 478 6.643388 TCATGCATATGACACTAGTCTTTGT 58.357 36.000 6.97 0.00 45.20 2.83
473 479 7.105588 TCATGCATATGACACTAGTCTTTGTT 58.894 34.615 6.97 0.00 45.20 2.83
474 480 8.257306 TCATGCATATGACACTAGTCTTTGTTA 58.743 33.333 6.97 0.00 45.20 2.41
475 481 7.827819 TGCATATGACACTAGTCTTTGTTAC 57.172 36.000 6.97 0.00 45.20 2.50
476 482 7.611770 TGCATATGACACTAGTCTTTGTTACT 58.388 34.615 6.97 0.00 45.20 2.24
477 483 8.745590 TGCATATGACACTAGTCTTTGTTACTA 58.254 33.333 6.97 0.00 45.20 1.82
478 484 9.751542 GCATATGACACTAGTCTTTGTTACTAT 57.248 33.333 6.97 0.00 45.20 2.12
483 489 9.074576 TGACACTAGTCTTTGTTACTATCTTCA 57.925 33.333 0.00 0.00 45.20 3.02
489 495 8.934507 AGTCTTTGTTACTATCTTCATAGTGC 57.065 34.615 5.12 0.14 44.33 4.40
490 496 8.531982 AGTCTTTGTTACTATCTTCATAGTGCA 58.468 33.333 5.12 0.00 44.33 4.57
491 497 9.151471 GTCTTTGTTACTATCTTCATAGTGCAA 57.849 33.333 5.12 7.17 44.33 4.08
492 498 9.719355 TCTTTGTTACTATCTTCATAGTGCAAA 57.281 29.630 16.75 16.75 44.33 3.68
493 499 9.979270 CTTTGTTACTATCTTCATAGTGCAAAG 57.021 33.333 22.36 22.36 46.53 2.77
494 500 9.502091 TTTGTTACTATCTTCATAGTGCAAAGT 57.498 29.630 15.24 0.00 44.33 2.66
503 509 8.840833 TCTTCATAGTGCAAAGTAACATACAA 57.159 30.769 0.00 0.00 0.00 2.41
504 510 8.935844 TCTTCATAGTGCAAAGTAACATACAAG 58.064 33.333 0.00 0.00 0.00 3.16
505 511 8.615878 TTCATAGTGCAAAGTAACATACAAGT 57.384 30.769 0.00 0.00 0.00 3.16
506 512 9.713713 TTCATAGTGCAAAGTAACATACAAGTA 57.286 29.630 0.00 0.00 0.00 2.24
507 513 9.366216 TCATAGTGCAAAGTAACATACAAGTAG 57.634 33.333 0.00 0.00 0.00 2.57
508 514 9.151471 CATAGTGCAAAGTAACATACAAGTAGT 57.849 33.333 0.00 0.00 0.00 2.73
511 517 9.367444 AGTGCAAAGTAACATACAAGTAGTATC 57.633 33.333 0.00 0.00 41.47 2.24
512 518 9.146984 GTGCAAAGTAACATACAAGTAGTATCA 57.853 33.333 0.00 0.00 41.47 2.15
513 519 9.884636 TGCAAAGTAACATACAAGTAGTATCAT 57.115 29.630 0.00 0.00 41.47 2.45
556 562 7.775120 ACATTATAGACTCATTTTGCTTTGGG 58.225 34.615 0.00 0.00 0.00 4.12
557 563 7.397192 ACATTATAGACTCATTTTGCTTTGGGT 59.603 33.333 0.00 0.00 0.00 4.51
558 564 7.775053 TTATAGACTCATTTTGCTTTGGGTT 57.225 32.000 0.00 0.00 0.00 4.11
559 565 4.326504 AGACTCATTTTGCTTTGGGTTG 57.673 40.909 0.00 0.00 0.00 3.77
560 566 2.802247 GACTCATTTTGCTTTGGGTTGC 59.198 45.455 0.00 0.00 0.00 4.17
561 567 1.794116 CTCATTTTGCTTTGGGTTGCG 59.206 47.619 0.00 0.00 0.00 4.85
562 568 1.137872 TCATTTTGCTTTGGGTTGCGT 59.862 42.857 0.00 0.00 0.00 5.24
563 569 1.939255 CATTTTGCTTTGGGTTGCGTT 59.061 42.857 0.00 0.00 0.00 4.84
564 570 2.961526 TTTTGCTTTGGGTTGCGTTA 57.038 40.000 0.00 0.00 0.00 3.18
565 571 3.460857 TTTTGCTTTGGGTTGCGTTAT 57.539 38.095 0.00 0.00 0.00 1.89
566 572 2.430546 TTGCTTTGGGTTGCGTTATG 57.569 45.000 0.00 0.00 0.00 1.90
567 573 1.323412 TGCTTTGGGTTGCGTTATGT 58.677 45.000 0.00 0.00 0.00 2.29
568 574 1.683917 TGCTTTGGGTTGCGTTATGTT 59.316 42.857 0.00 0.00 0.00 2.71
569 575 2.885266 TGCTTTGGGTTGCGTTATGTTA 59.115 40.909 0.00 0.00 0.00 2.41
570 576 3.239254 GCTTTGGGTTGCGTTATGTTAC 58.761 45.455 0.00 0.00 0.00 2.50
571 577 3.304794 GCTTTGGGTTGCGTTATGTTACA 60.305 43.478 0.00 0.00 0.00 2.41
572 578 4.472286 CTTTGGGTTGCGTTATGTTACAG 58.528 43.478 0.00 0.00 0.00 2.74
573 579 3.128852 TGGGTTGCGTTATGTTACAGT 57.871 42.857 0.00 0.00 0.00 3.55
574 580 4.268797 TGGGTTGCGTTATGTTACAGTA 57.731 40.909 0.00 0.00 0.00 2.74
575 581 4.639334 TGGGTTGCGTTATGTTACAGTAA 58.361 39.130 0.00 0.00 0.00 2.24
576 582 4.451774 TGGGTTGCGTTATGTTACAGTAAC 59.548 41.667 15.58 15.58 39.11 2.50
600 606 8.732746 ACATATTATGTTACTCCAAACACCTC 57.267 34.615 3.40 0.00 41.63 3.85
601 607 8.548877 ACATATTATGTTACTCCAAACACCTCT 58.451 33.333 3.40 0.00 41.63 3.69
602 608 9.396022 CATATTATGTTACTCCAAACACCTCTT 57.604 33.333 0.00 0.00 41.89 2.85
603 609 9.975218 ATATTATGTTACTCCAAACACCTCTTT 57.025 29.630 0.00 0.00 41.89 2.52
604 610 7.739498 TTATGTTACTCCAAACACCTCTTTC 57.261 36.000 0.00 0.00 41.89 2.62
605 611 4.457466 TGTTACTCCAAACACCTCTTTCC 58.543 43.478 0.00 0.00 34.50 3.13
606 612 4.165372 TGTTACTCCAAACACCTCTTTCCT 59.835 41.667 0.00 0.00 34.50 3.36
607 613 3.493767 ACTCCAAACACCTCTTTCCTC 57.506 47.619 0.00 0.00 0.00 3.71
608 614 2.777692 ACTCCAAACACCTCTTTCCTCA 59.222 45.455 0.00 0.00 0.00 3.86
609 615 3.395941 ACTCCAAACACCTCTTTCCTCAT 59.604 43.478 0.00 0.00 0.00 2.90
610 616 4.141158 ACTCCAAACACCTCTTTCCTCATT 60.141 41.667 0.00 0.00 0.00 2.57
611 617 5.073144 ACTCCAAACACCTCTTTCCTCATTA 59.927 40.000 0.00 0.00 0.00 1.90
612 618 5.947663 TCCAAACACCTCTTTCCTCATTAA 58.052 37.500 0.00 0.00 0.00 1.40
613 619 5.768164 TCCAAACACCTCTTTCCTCATTAAC 59.232 40.000 0.00 0.00 0.00 2.01
614 620 5.770162 CCAAACACCTCTTTCCTCATTAACT 59.230 40.000 0.00 0.00 0.00 2.24
615 621 6.072452 CCAAACACCTCTTTCCTCATTAACTC 60.072 42.308 0.00 0.00 0.00 3.01
616 622 6.441088 AACACCTCTTTCCTCATTAACTCT 57.559 37.500 0.00 0.00 0.00 3.24
617 623 7.554959 AACACCTCTTTCCTCATTAACTCTA 57.445 36.000 0.00 0.00 0.00 2.43
618 624 7.741554 ACACCTCTTTCCTCATTAACTCTAT 57.258 36.000 0.00 0.00 0.00 1.98
619 625 7.560368 ACACCTCTTTCCTCATTAACTCTATG 58.440 38.462 0.00 0.00 0.00 2.23
620 626 6.481644 CACCTCTTTCCTCATTAACTCTATGC 59.518 42.308 0.00 0.00 0.00 3.14
621 627 5.994668 CCTCTTTCCTCATTAACTCTATGCC 59.005 44.000 0.00 0.00 0.00 4.40
622 628 6.408548 CCTCTTTCCTCATTAACTCTATGCCA 60.409 42.308 0.00 0.00 0.00 4.92
623 629 6.349300 TCTTTCCTCATTAACTCTATGCCAC 58.651 40.000 0.00 0.00 0.00 5.01
624 630 5.692115 TTCCTCATTAACTCTATGCCACA 57.308 39.130 0.00 0.00 0.00 4.17
625 631 5.894298 TCCTCATTAACTCTATGCCACAT 57.106 39.130 0.00 0.00 0.00 3.21
626 632 6.994421 TCCTCATTAACTCTATGCCACATA 57.006 37.500 0.00 0.00 0.00 2.29
627 633 7.373617 TCCTCATTAACTCTATGCCACATAA 57.626 36.000 0.00 0.00 0.00 1.90
628 634 7.977818 TCCTCATTAACTCTATGCCACATAAT 58.022 34.615 0.00 0.00 0.00 1.28
629 635 8.097038 TCCTCATTAACTCTATGCCACATAATC 58.903 37.037 0.00 0.00 0.00 1.75
630 636 7.879677 CCTCATTAACTCTATGCCACATAATCA 59.120 37.037 0.00 0.00 0.00 2.57
631 637 9.276590 CTCATTAACTCTATGCCACATAATCAA 57.723 33.333 0.00 0.00 0.00 2.57
632 638 9.625747 TCATTAACTCTATGCCACATAATCAAA 57.374 29.630 0.00 0.00 0.00 2.69
633 639 9.669353 CATTAACTCTATGCCACATAATCAAAC 57.331 33.333 0.00 0.00 0.00 2.93
634 640 8.800370 TTAACTCTATGCCACATAATCAAACA 57.200 30.769 0.00 0.00 0.00 2.83
635 641 7.886629 AACTCTATGCCACATAATCAAACAT 57.113 32.000 0.00 0.00 0.00 2.71
636 642 7.268199 ACTCTATGCCACATAATCAAACATG 57.732 36.000 0.00 0.00 0.00 3.21
637 643 6.830324 ACTCTATGCCACATAATCAAACATGT 59.170 34.615 0.00 0.00 35.79 3.21
638 644 7.012704 ACTCTATGCCACATAATCAAACATGTC 59.987 37.037 0.00 0.00 33.12 3.06
639 645 7.056006 TCTATGCCACATAATCAAACATGTCT 58.944 34.615 0.00 0.00 33.12 3.41
640 646 5.981088 TGCCACATAATCAAACATGTCTT 57.019 34.783 0.00 0.00 33.12 3.01
641 647 5.712004 TGCCACATAATCAAACATGTCTTG 58.288 37.500 0.00 6.62 33.12 3.02
642 648 5.476254 TGCCACATAATCAAACATGTCTTGA 59.524 36.000 19.03 19.03 37.22 3.02
643 649 6.015603 TGCCACATAATCAAACATGTCTTGAA 60.016 34.615 20.00 10.48 36.43 2.69
644 650 6.867816 GCCACATAATCAAACATGTCTTGAAA 59.132 34.615 20.00 14.39 36.43 2.69
645 651 7.546667 GCCACATAATCAAACATGTCTTGAAAT 59.453 33.333 20.00 15.44 36.43 2.17
646 652 8.865978 CCACATAATCAAACATGTCTTGAAATG 58.134 33.333 24.64 24.64 36.43 2.32
647 653 8.377681 CACATAATCAAACATGTCTTGAAATGC 58.622 33.333 25.27 0.00 36.43 3.56
648 654 7.274033 ACATAATCAAACATGTCTTGAAATGCG 59.726 33.333 25.27 17.24 36.43 4.73
649 655 3.307674 TCAAACATGTCTTGAAATGCGC 58.692 40.909 16.20 0.00 29.93 6.09
650 656 3.004629 TCAAACATGTCTTGAAATGCGCT 59.995 39.130 9.73 0.00 29.93 5.92
651 657 4.215185 TCAAACATGTCTTGAAATGCGCTA 59.785 37.500 9.73 0.00 29.93 4.26
652 658 4.970662 AACATGTCTTGAAATGCGCTAT 57.029 36.364 9.73 0.00 0.00 2.97
653 659 4.282950 ACATGTCTTGAAATGCGCTATG 57.717 40.909 9.73 0.76 0.00 2.23
654 660 3.691118 ACATGTCTTGAAATGCGCTATGT 59.309 39.130 9.73 0.00 0.00 2.29
655 661 4.156556 ACATGTCTTGAAATGCGCTATGTT 59.843 37.500 9.73 0.00 0.00 2.71
656 662 5.353956 ACATGTCTTGAAATGCGCTATGTTA 59.646 36.000 9.73 0.00 0.00 2.41
657 663 5.216566 TGTCTTGAAATGCGCTATGTTAC 57.783 39.130 9.73 0.00 0.00 2.50
658 664 4.935205 TGTCTTGAAATGCGCTATGTTACT 59.065 37.500 9.73 0.00 0.00 2.24
659 665 5.411361 TGTCTTGAAATGCGCTATGTTACTT 59.589 36.000 9.73 0.00 0.00 2.24
660 666 5.734498 GTCTTGAAATGCGCTATGTTACTTG 59.266 40.000 9.73 0.00 0.00 3.16
661 667 4.014847 TGAAATGCGCTATGTTACTTGC 57.985 40.909 9.73 0.00 0.00 4.01
662 668 3.689161 TGAAATGCGCTATGTTACTTGCT 59.311 39.130 9.73 0.00 0.00 3.91
663 669 4.873259 TGAAATGCGCTATGTTACTTGCTA 59.127 37.500 9.73 0.00 0.00 3.49
664 670 5.352846 TGAAATGCGCTATGTTACTTGCTAA 59.647 36.000 9.73 0.00 0.00 3.09
665 671 5.409643 AATGCGCTATGTTACTTGCTAAG 57.590 39.130 9.73 0.00 0.00 2.18
666 672 3.857052 TGCGCTATGTTACTTGCTAAGT 58.143 40.909 9.73 6.74 45.40 2.24
667 673 4.250464 TGCGCTATGTTACTTGCTAAGTT 58.750 39.130 9.73 0.00 42.81 2.66
668 674 5.412640 TGCGCTATGTTACTTGCTAAGTTA 58.587 37.500 9.73 0.00 42.81 2.24
669 675 5.290158 TGCGCTATGTTACTTGCTAAGTTAC 59.710 40.000 9.73 8.42 42.81 2.50
670 676 5.519206 GCGCTATGTTACTTGCTAAGTTACT 59.481 40.000 0.00 0.00 40.62 2.24
671 677 6.291690 GCGCTATGTTACTTGCTAAGTTACTC 60.292 42.308 0.00 5.69 40.62 2.59
672 678 6.198591 CGCTATGTTACTTGCTAAGTTACTCC 59.801 42.308 14.64 5.01 40.62 3.85
673 679 6.479331 GCTATGTTACTTGCTAAGTTACTCCC 59.521 42.308 14.64 3.51 40.62 4.30
674 680 5.811796 TGTTACTTGCTAAGTTACTCCCA 57.188 39.130 14.64 0.00 40.62 4.37
675 681 5.544650 TGTTACTTGCTAAGTTACTCCCAC 58.455 41.667 14.64 0.00 40.62 4.61
676 682 5.306160 TGTTACTTGCTAAGTTACTCCCACT 59.694 40.000 14.64 0.00 40.62 4.00
677 683 6.494491 TGTTACTTGCTAAGTTACTCCCACTA 59.506 38.462 14.64 0.00 40.62 2.74
678 684 7.179694 TGTTACTTGCTAAGTTACTCCCACTAT 59.820 37.037 14.64 0.00 40.62 2.12
679 685 5.978814 ACTTGCTAAGTTACTCCCACTATG 58.021 41.667 0.00 0.00 39.04 2.23
680 686 5.720041 ACTTGCTAAGTTACTCCCACTATGA 59.280 40.000 0.00 0.00 39.04 2.15
681 687 5.593679 TGCTAAGTTACTCCCACTATGAC 57.406 43.478 0.00 0.00 0.00 3.06
682 688 4.404715 TGCTAAGTTACTCCCACTATGACC 59.595 45.833 0.00 0.00 0.00 4.02
683 689 4.404715 GCTAAGTTACTCCCACTATGACCA 59.595 45.833 0.00 0.00 0.00 4.02
684 690 5.452077 GCTAAGTTACTCCCACTATGACCAG 60.452 48.000 0.00 0.00 0.00 4.00
685 691 2.766828 AGTTACTCCCACTATGACCAGC 59.233 50.000 0.00 0.00 0.00 4.85
686 692 1.789523 TACTCCCACTATGACCAGCC 58.210 55.000 0.00 0.00 0.00 4.85
687 693 0.983378 ACTCCCACTATGACCAGCCC 60.983 60.000 0.00 0.00 0.00 5.19
985 995 8.814038 ATACATCTTCCTTGATTAGTTTTGCT 57.186 30.769 0.00 0.00 0.00 3.91
1097 1108 2.432628 GCAGGACTTCGTGGACGG 60.433 66.667 0.00 0.00 40.29 4.79
1921 3473 3.278668 AACGGAGTAATCTCGAGAGGA 57.721 47.619 21.52 8.13 45.00 3.71
2042 3598 1.271597 CCTCCAAGGTTTCACTCCTGG 60.272 57.143 0.00 0.00 35.27 4.45
2080 3650 2.431430 CGTGCAAGCTCGCTCTCA 60.431 61.111 0.00 0.00 0.00 3.27
2097 3667 2.567169 TCTCAACCAGTGGTCGATCATT 59.433 45.455 17.06 0.00 33.12 2.57
2314 3892 1.003580 GGAGGAAGGATGCACTGTCAA 59.996 52.381 0.00 0.00 0.00 3.18
2332 3910 0.258774 AAGCCCAATATGCGACCCTT 59.741 50.000 0.00 0.00 0.00 3.95
2339 3917 4.398319 CCAATATGCGACCCTTTCCTAAT 58.602 43.478 0.00 0.00 0.00 1.73
2366 3944 1.557832 CGAAGGTCCCACCAAGGATAA 59.442 52.381 0.00 0.00 41.95 1.75
2384 3962 5.822519 AGGATAAAAGCGCATATTGAAGACA 59.177 36.000 11.47 0.00 0.00 3.41
2412 3990 5.939447 TGCAAGGTGGATATCATTACATCA 58.061 37.500 4.83 0.00 0.00 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
45 46 0.768221 TACCCCTCTCCCATGCATCC 60.768 60.000 0.00 0.00 0.00 3.51
68 70 2.335316 TGCAACTTTCGTAACACCCT 57.665 45.000 0.00 0.00 0.00 4.34
71 73 3.972502 GTGGATTGCAACTTTCGTAACAC 59.027 43.478 0.00 0.00 0.00 3.32
137 139 4.328440 GGCGACAATATATGAGCAGCTAAG 59.672 45.833 0.00 0.00 37.73 2.18
182 185 3.962063 TCTAATACTATGTGCCGGTTGGA 59.038 43.478 1.90 0.00 37.49 3.53
416 422 7.229106 GTCTAAGTTACTCCCCACTATGACTAG 59.771 44.444 0.00 0.00 0.00 2.57
417 423 7.059156 GTCTAAGTTACTCCCCACTATGACTA 58.941 42.308 0.00 0.00 0.00 2.59
418 424 5.892686 GTCTAAGTTACTCCCCACTATGACT 59.107 44.000 0.00 0.00 0.00 3.41
421 427 7.013464 CACTAGTCTAAGTTACTCCCCACTATG 59.987 44.444 0.00 0.00 0.00 2.23
422 428 7.061688 CACTAGTCTAAGTTACTCCCCACTAT 58.938 42.308 0.00 0.00 0.00 2.12
423 429 6.012157 ACACTAGTCTAAGTTACTCCCCACTA 60.012 42.308 0.00 0.00 0.00 2.74
424 430 5.222296 ACACTAGTCTAAGTTACTCCCCACT 60.222 44.000 0.00 0.00 0.00 4.00
425 431 5.015515 ACACTAGTCTAAGTTACTCCCCAC 58.984 45.833 0.00 0.00 0.00 4.61
426 432 5.222192 TGACACTAGTCTAAGTTACTCCCCA 60.222 44.000 0.00 0.00 45.20 4.96
427 433 5.259632 TGACACTAGTCTAAGTTACTCCCC 58.740 45.833 0.00 0.00 45.20 4.81
428 434 6.680872 GCATGACACTAGTCTAAGTTACTCCC 60.681 46.154 0.00 0.00 45.20 4.30
429 435 6.127703 TGCATGACACTAGTCTAAGTTACTCC 60.128 42.308 0.00 0.00 45.20 3.85
430 436 6.853720 TGCATGACACTAGTCTAAGTTACTC 58.146 40.000 0.00 0.00 45.20 2.59
431 437 6.835819 TGCATGACACTAGTCTAAGTTACT 57.164 37.500 0.00 0.00 45.20 2.24
432 438 9.186323 CATATGCATGACACTAGTCTAAGTTAC 57.814 37.037 10.16 0.00 45.20 2.50
433 439 9.131791 TCATATGCATGACACTAGTCTAAGTTA 57.868 33.333 10.16 0.00 45.20 2.24
434 440 8.011844 TCATATGCATGACACTAGTCTAAGTT 57.988 34.615 10.16 0.00 45.20 2.66
435 441 7.588497 TCATATGCATGACACTAGTCTAAGT 57.412 36.000 10.16 0.00 45.20 2.24
448 454 6.643388 ACAAAGACTAGTGTCATATGCATGA 58.357 36.000 10.16 0.00 45.20 3.07
449 455 6.915544 ACAAAGACTAGTGTCATATGCATG 57.084 37.500 10.16 0.00 45.20 4.06
450 456 8.260818 AGTAACAAAGACTAGTGTCATATGCAT 58.739 33.333 3.79 3.79 45.20 3.96
451 457 7.611770 AGTAACAAAGACTAGTGTCATATGCA 58.388 34.615 0.00 0.00 45.20 3.96
452 458 9.751542 ATAGTAACAAAGACTAGTGTCATATGC 57.248 33.333 0.00 0.00 45.20 3.14
457 463 9.074576 TGAAGATAGTAACAAAGACTAGTGTCA 57.925 33.333 0.00 0.00 45.20 3.58
464 470 8.531982 TGCACTATGAAGATAGTAACAAAGACT 58.468 33.333 0.00 0.00 42.55 3.24
465 471 8.703604 TGCACTATGAAGATAGTAACAAAGAC 57.296 34.615 0.00 0.00 42.55 3.01
466 472 9.719355 TTTGCACTATGAAGATAGTAACAAAGA 57.281 29.630 13.39 1.33 42.55 2.52
467 473 9.979270 CTTTGCACTATGAAGATAGTAACAAAG 57.021 33.333 21.11 21.11 46.53 2.77
468 474 9.502091 ACTTTGCACTATGAAGATAGTAACAAA 57.498 29.630 15.10 15.10 42.55 2.83
477 483 9.448438 TTGTATGTTACTTTGCACTATGAAGAT 57.552 29.630 2.16 0.00 0.00 2.40
478 484 8.840833 TTGTATGTTACTTTGCACTATGAAGA 57.159 30.769 2.16 0.00 0.00 2.87
479 485 8.721478 ACTTGTATGTTACTTTGCACTATGAAG 58.279 33.333 0.00 0.00 0.00 3.02
480 486 8.615878 ACTTGTATGTTACTTTGCACTATGAA 57.384 30.769 0.00 0.00 0.00 2.57
481 487 9.366216 CTACTTGTATGTTACTTTGCACTATGA 57.634 33.333 0.00 0.00 0.00 2.15
482 488 9.151471 ACTACTTGTATGTTACTTTGCACTATG 57.849 33.333 0.00 0.00 0.00 2.23
485 491 9.367444 GATACTACTTGTATGTTACTTTGCACT 57.633 33.333 0.00 0.00 41.55 4.40
486 492 9.146984 TGATACTACTTGTATGTTACTTTGCAC 57.853 33.333 0.00 0.00 41.55 4.57
487 493 9.884636 ATGATACTACTTGTATGTTACTTTGCA 57.115 29.630 0.00 0.00 41.55 4.08
530 536 8.902806 CCCAAAGCAAAATGAGTCTATAATGTA 58.097 33.333 0.00 0.00 0.00 2.29
531 537 7.397192 ACCCAAAGCAAAATGAGTCTATAATGT 59.603 33.333 0.00 0.00 0.00 2.71
532 538 7.775120 ACCCAAAGCAAAATGAGTCTATAATG 58.225 34.615 0.00 0.00 0.00 1.90
533 539 7.961326 ACCCAAAGCAAAATGAGTCTATAAT 57.039 32.000 0.00 0.00 0.00 1.28
534 540 7.601856 CAACCCAAAGCAAAATGAGTCTATAA 58.398 34.615 0.00 0.00 0.00 0.98
535 541 6.350110 GCAACCCAAAGCAAAATGAGTCTATA 60.350 38.462 0.00 0.00 0.00 1.31
536 542 5.567423 GCAACCCAAAGCAAAATGAGTCTAT 60.567 40.000 0.00 0.00 0.00 1.98
537 543 4.261994 GCAACCCAAAGCAAAATGAGTCTA 60.262 41.667 0.00 0.00 0.00 2.59
538 544 3.493176 GCAACCCAAAGCAAAATGAGTCT 60.493 43.478 0.00 0.00 0.00 3.24
539 545 2.802247 GCAACCCAAAGCAAAATGAGTC 59.198 45.455 0.00 0.00 0.00 3.36
540 546 2.802774 CGCAACCCAAAGCAAAATGAGT 60.803 45.455 0.00 0.00 0.00 3.41
541 547 1.794116 CGCAACCCAAAGCAAAATGAG 59.206 47.619 0.00 0.00 0.00 2.90
542 548 1.137872 ACGCAACCCAAAGCAAAATGA 59.862 42.857 0.00 0.00 0.00 2.57
543 549 1.580815 ACGCAACCCAAAGCAAAATG 58.419 45.000 0.00 0.00 0.00 2.32
544 550 2.323968 AACGCAACCCAAAGCAAAAT 57.676 40.000 0.00 0.00 0.00 1.82
545 551 2.961526 TAACGCAACCCAAAGCAAAA 57.038 40.000 0.00 0.00 0.00 2.44
546 552 2.101582 ACATAACGCAACCCAAAGCAAA 59.898 40.909 0.00 0.00 0.00 3.68
547 553 1.683917 ACATAACGCAACCCAAAGCAA 59.316 42.857 0.00 0.00 0.00 3.91
548 554 1.323412 ACATAACGCAACCCAAAGCA 58.677 45.000 0.00 0.00 0.00 3.91
549 555 2.432206 AACATAACGCAACCCAAAGC 57.568 45.000 0.00 0.00 0.00 3.51
550 556 4.023536 ACTGTAACATAACGCAACCCAAAG 60.024 41.667 0.00 0.00 0.00 2.77
551 557 3.884091 ACTGTAACATAACGCAACCCAAA 59.116 39.130 0.00 0.00 0.00 3.28
552 558 3.478509 ACTGTAACATAACGCAACCCAA 58.521 40.909 0.00 0.00 0.00 4.12
553 559 3.128852 ACTGTAACATAACGCAACCCA 57.871 42.857 0.00 0.00 0.00 4.51
554 560 4.451774 TGTTACTGTAACATAACGCAACCC 59.548 41.667 25.14 0.13 43.23 4.11
555 561 5.594724 TGTTACTGTAACATAACGCAACC 57.405 39.130 25.14 0.31 43.23 3.77
576 582 8.964476 AGAGGTGTTTGGAGTAACATAATATG 57.036 34.615 0.00 0.00 39.93 1.78
577 583 9.975218 AAAGAGGTGTTTGGAGTAACATAATAT 57.025 29.630 0.00 0.00 39.93 1.28
578 584 9.444600 GAAAGAGGTGTTTGGAGTAACATAATA 57.555 33.333 0.00 0.00 39.93 0.98
579 585 7.393515 GGAAAGAGGTGTTTGGAGTAACATAAT 59.606 37.037 0.00 0.00 39.93 1.28
580 586 6.713450 GGAAAGAGGTGTTTGGAGTAACATAA 59.287 38.462 0.00 0.00 39.93 1.90
581 587 6.043938 AGGAAAGAGGTGTTTGGAGTAACATA 59.956 38.462 0.00 0.00 39.93 2.29
582 588 5.070685 GGAAAGAGGTGTTTGGAGTAACAT 58.929 41.667 0.00 0.00 39.93 2.71
583 589 4.165372 AGGAAAGAGGTGTTTGGAGTAACA 59.835 41.667 0.00 0.00 35.75 2.41
584 590 4.715713 AGGAAAGAGGTGTTTGGAGTAAC 58.284 43.478 0.00 0.00 0.00 2.50
585 591 4.410883 TGAGGAAAGAGGTGTTTGGAGTAA 59.589 41.667 0.00 0.00 0.00 2.24
586 592 3.971305 TGAGGAAAGAGGTGTTTGGAGTA 59.029 43.478 0.00 0.00 0.00 2.59
587 593 2.777692 TGAGGAAAGAGGTGTTTGGAGT 59.222 45.455 0.00 0.00 0.00 3.85
588 594 3.492102 TGAGGAAAGAGGTGTTTGGAG 57.508 47.619 0.00 0.00 0.00 3.86
589 595 4.453480 AATGAGGAAAGAGGTGTTTGGA 57.547 40.909 0.00 0.00 0.00 3.53
590 596 5.770162 AGTTAATGAGGAAAGAGGTGTTTGG 59.230 40.000 0.00 0.00 0.00 3.28
591 597 6.712547 AGAGTTAATGAGGAAAGAGGTGTTTG 59.287 38.462 0.00 0.00 0.00 2.93
592 598 6.842676 AGAGTTAATGAGGAAAGAGGTGTTT 58.157 36.000 0.00 0.00 0.00 2.83
593 599 6.441088 AGAGTTAATGAGGAAAGAGGTGTT 57.559 37.500 0.00 0.00 0.00 3.32
594 600 7.560368 CATAGAGTTAATGAGGAAAGAGGTGT 58.440 38.462 0.00 0.00 0.00 4.16
595 601 6.481644 GCATAGAGTTAATGAGGAAAGAGGTG 59.518 42.308 0.00 0.00 0.00 4.00
596 602 6.408662 GGCATAGAGTTAATGAGGAAAGAGGT 60.409 42.308 0.00 0.00 0.00 3.85
597 603 5.994668 GGCATAGAGTTAATGAGGAAAGAGG 59.005 44.000 0.00 0.00 0.00 3.69
598 604 6.481644 GTGGCATAGAGTTAATGAGGAAAGAG 59.518 42.308 0.00 0.00 0.00 2.85
599 605 6.070251 TGTGGCATAGAGTTAATGAGGAAAGA 60.070 38.462 0.00 0.00 0.00 2.52
600 606 6.115446 TGTGGCATAGAGTTAATGAGGAAAG 58.885 40.000 0.00 0.00 0.00 2.62
601 607 6.061022 TGTGGCATAGAGTTAATGAGGAAA 57.939 37.500 0.00 0.00 0.00 3.13
602 608 5.692115 TGTGGCATAGAGTTAATGAGGAA 57.308 39.130 0.00 0.00 0.00 3.36
603 609 5.894298 ATGTGGCATAGAGTTAATGAGGA 57.106 39.130 0.00 0.00 0.00 3.71
604 610 7.879677 TGATTATGTGGCATAGAGTTAATGAGG 59.120 37.037 0.00 0.00 0.00 3.86
605 611 8.837788 TGATTATGTGGCATAGAGTTAATGAG 57.162 34.615 0.00 0.00 0.00 2.90
606 612 9.625747 TTTGATTATGTGGCATAGAGTTAATGA 57.374 29.630 0.00 0.00 0.00 2.57
607 613 9.669353 GTTTGATTATGTGGCATAGAGTTAATG 57.331 33.333 0.00 0.00 0.00 1.90
608 614 9.407380 TGTTTGATTATGTGGCATAGAGTTAAT 57.593 29.630 0.00 0.00 0.00 1.40
609 615 8.800370 TGTTTGATTATGTGGCATAGAGTTAA 57.200 30.769 0.00 0.00 0.00 2.01
610 616 8.839343 CATGTTTGATTATGTGGCATAGAGTTA 58.161 33.333 0.00 0.00 0.00 2.24
611 617 7.340232 ACATGTTTGATTATGTGGCATAGAGTT 59.660 33.333 0.00 0.00 36.26 3.01
612 618 6.830324 ACATGTTTGATTATGTGGCATAGAGT 59.170 34.615 0.00 0.00 36.26 3.24
613 619 7.228108 AGACATGTTTGATTATGTGGCATAGAG 59.772 37.037 0.00 0.00 37.63 2.43
614 620 7.056006 AGACATGTTTGATTATGTGGCATAGA 58.944 34.615 0.00 0.00 37.63 1.98
615 621 7.268199 AGACATGTTTGATTATGTGGCATAG 57.732 36.000 0.00 0.00 37.63 2.23
616 622 7.338957 TCAAGACATGTTTGATTATGTGGCATA 59.661 33.333 15.17 0.00 37.63 3.14
617 623 6.153170 TCAAGACATGTTTGATTATGTGGCAT 59.847 34.615 15.17 0.00 37.63 4.40
618 624 5.476254 TCAAGACATGTTTGATTATGTGGCA 59.524 36.000 15.17 0.00 37.63 4.92
619 625 5.953183 TCAAGACATGTTTGATTATGTGGC 58.047 37.500 15.17 0.00 37.63 5.01
620 626 8.865978 CATTTCAAGACATGTTTGATTATGTGG 58.134 33.333 18.05 6.54 37.63 4.17
621 627 8.377681 GCATTTCAAGACATGTTTGATTATGTG 58.622 33.333 24.06 18.06 37.63 3.21
622 628 7.274033 CGCATTTCAAGACATGTTTGATTATGT 59.726 33.333 24.06 0.00 40.04 2.29
623 629 7.606131 CGCATTTCAAGACATGTTTGATTATG 58.394 34.615 22.17 22.17 34.76 1.90
624 630 6.254157 GCGCATTTCAAGACATGTTTGATTAT 59.746 34.615 18.05 13.62 34.76 1.28
625 631 5.572511 GCGCATTTCAAGACATGTTTGATTA 59.427 36.000 18.05 12.50 34.76 1.75
626 632 4.386652 GCGCATTTCAAGACATGTTTGATT 59.613 37.500 18.05 10.30 34.76 2.57
627 633 3.922240 GCGCATTTCAAGACATGTTTGAT 59.078 39.130 18.05 7.32 34.76 2.57
628 634 3.004629 AGCGCATTTCAAGACATGTTTGA 59.995 39.130 11.47 15.17 33.00 2.69
629 635 3.311106 AGCGCATTTCAAGACATGTTTG 58.689 40.909 11.47 7.08 0.00 2.93
630 636 3.648339 AGCGCATTTCAAGACATGTTT 57.352 38.095 11.47 0.00 0.00 2.83
631 637 4.156556 ACATAGCGCATTTCAAGACATGTT 59.843 37.500 11.47 0.00 0.00 2.71
632 638 3.691118 ACATAGCGCATTTCAAGACATGT 59.309 39.130 11.47 0.00 0.00 3.21
633 639 4.282950 ACATAGCGCATTTCAAGACATG 57.717 40.909 11.47 0.00 0.00 3.21
634 640 4.970662 AACATAGCGCATTTCAAGACAT 57.029 36.364 11.47 0.00 0.00 3.06
635 641 4.935205 AGTAACATAGCGCATTTCAAGACA 59.065 37.500 11.47 0.00 0.00 3.41
636 642 5.470845 AGTAACATAGCGCATTTCAAGAC 57.529 39.130 11.47 0.00 0.00 3.01
637 643 5.673568 GCAAGTAACATAGCGCATTTCAAGA 60.674 40.000 11.47 0.00 0.00 3.02
638 644 4.496895 GCAAGTAACATAGCGCATTTCAAG 59.503 41.667 11.47 0.00 0.00 3.02
639 645 4.155826 AGCAAGTAACATAGCGCATTTCAA 59.844 37.500 11.47 0.00 0.00 2.69
640 646 3.689161 AGCAAGTAACATAGCGCATTTCA 59.311 39.130 11.47 0.00 0.00 2.69
641 647 4.278678 AGCAAGTAACATAGCGCATTTC 57.721 40.909 11.47 0.00 0.00 2.17
642 648 5.354234 ACTTAGCAAGTAACATAGCGCATTT 59.646 36.000 11.47 0.00 40.69 2.32
643 649 4.876107 ACTTAGCAAGTAACATAGCGCATT 59.124 37.500 11.47 0.20 40.69 3.56
644 650 4.442706 ACTTAGCAAGTAACATAGCGCAT 58.557 39.130 11.47 0.00 40.69 4.73
645 651 3.857052 ACTTAGCAAGTAACATAGCGCA 58.143 40.909 11.47 0.00 40.69 6.09
646 652 4.859629 AACTTAGCAAGTAACATAGCGC 57.140 40.909 0.00 0.00 41.91 5.92
647 653 6.198591 GGAGTAACTTAGCAAGTAACATAGCG 59.801 42.308 2.60 0.00 41.91 4.26
648 654 6.479331 GGGAGTAACTTAGCAAGTAACATAGC 59.521 42.308 2.60 0.00 41.91 2.97
649 655 7.491696 GTGGGAGTAACTTAGCAAGTAACATAG 59.508 40.741 2.60 0.00 41.91 2.23
650 656 7.179694 AGTGGGAGTAACTTAGCAAGTAACATA 59.820 37.037 2.60 0.00 41.91 2.29
651 657 6.013639 AGTGGGAGTAACTTAGCAAGTAACAT 60.014 38.462 2.60 0.00 41.91 2.71
652 658 5.306160 AGTGGGAGTAACTTAGCAAGTAACA 59.694 40.000 2.60 0.00 41.91 2.41
653 659 5.791666 AGTGGGAGTAACTTAGCAAGTAAC 58.208 41.667 2.60 0.00 41.91 2.50
654 660 7.398047 TCATAGTGGGAGTAACTTAGCAAGTAA 59.602 37.037 2.60 0.00 41.91 2.24
655 661 6.893554 TCATAGTGGGAGTAACTTAGCAAGTA 59.106 38.462 2.60 0.00 41.91 2.24
656 662 5.720041 TCATAGTGGGAGTAACTTAGCAAGT 59.280 40.000 0.00 0.00 45.46 3.16
657 663 6.043411 GTCATAGTGGGAGTAACTTAGCAAG 58.957 44.000 0.00 0.00 0.00 4.01
658 664 5.105064 GGTCATAGTGGGAGTAACTTAGCAA 60.105 44.000 0.00 0.00 0.00 3.91
659 665 4.404715 GGTCATAGTGGGAGTAACTTAGCA 59.595 45.833 0.00 0.00 0.00 3.49
660 666 4.404715 TGGTCATAGTGGGAGTAACTTAGC 59.595 45.833 0.00 0.00 0.00 3.09
661 667 5.452077 GCTGGTCATAGTGGGAGTAACTTAG 60.452 48.000 0.00 0.00 0.00 2.18
662 668 4.404715 GCTGGTCATAGTGGGAGTAACTTA 59.595 45.833 0.00 0.00 0.00 2.24
663 669 3.197983 GCTGGTCATAGTGGGAGTAACTT 59.802 47.826 0.00 0.00 0.00 2.66
664 670 2.766828 GCTGGTCATAGTGGGAGTAACT 59.233 50.000 0.00 0.00 0.00 2.24
665 671 2.158943 GGCTGGTCATAGTGGGAGTAAC 60.159 54.545 0.00 0.00 0.00 2.50
666 672 2.116238 GGCTGGTCATAGTGGGAGTAA 58.884 52.381 0.00 0.00 0.00 2.24
667 673 1.691482 GGGCTGGTCATAGTGGGAGTA 60.691 57.143 0.00 0.00 0.00 2.59
668 674 0.983378 GGGCTGGTCATAGTGGGAGT 60.983 60.000 0.00 0.00 0.00 3.85
669 675 0.692419 AGGGCTGGTCATAGTGGGAG 60.692 60.000 0.00 0.00 0.00 4.30
670 676 0.639943 TAGGGCTGGTCATAGTGGGA 59.360 55.000 0.00 0.00 0.00 4.37
671 677 1.051812 CTAGGGCTGGTCATAGTGGG 58.948 60.000 0.00 0.00 0.00 4.61
672 678 1.051812 CCTAGGGCTGGTCATAGTGG 58.948 60.000 0.00 0.00 0.00 4.00
673 679 1.794714 ACCTAGGGCTGGTCATAGTG 58.205 55.000 14.81 0.00 31.03 2.74
674 680 2.158295 CCTACCTAGGGCTGGTCATAGT 60.158 54.545 14.81 0.00 39.86 2.12
675 681 2.530701 CCTACCTAGGGCTGGTCATAG 58.469 57.143 14.81 2.82 39.86 2.23
676 682 2.696526 CCTACCTAGGGCTGGTCATA 57.303 55.000 14.81 0.00 39.86 2.15
677 683 3.560226 CCTACCTAGGGCTGGTCAT 57.440 57.895 14.81 0.00 39.86 3.06
686 692 3.475899 CGTGGCACGAACCTACCTAGG 62.476 61.905 34.85 7.41 46.05 3.02
687 693 0.179145 CGTGGCACGAACCTACCTAG 60.179 60.000 34.85 0.00 46.05 3.02
1921 3473 1.584380 AAGAACGAGACCTAGCGCGT 61.584 55.000 8.43 0.00 45.91 6.01
2042 3598 4.436998 CCACGACCGGAGCTGGAC 62.437 72.222 9.46 0.00 0.00 4.02
2080 3650 1.351017 ACCAATGATCGACCACTGGTT 59.649 47.619 7.20 0.00 35.25 3.67
2097 3667 2.342279 CAAGCGAGTCCGGAACCA 59.658 61.111 5.23 0.00 36.06 3.67
2124 3694 3.429547 GGTCAGATCTACTGCATTCACGT 60.430 47.826 0.00 0.00 45.38 4.49
2314 3892 0.258774 AAAGGGTCGCATATTGGGCT 59.741 50.000 0.00 0.00 0.00 5.19
2339 3917 1.477685 GGTGGGACCTTCGAGTTCCA 61.478 60.000 0.65 0.65 43.55 3.53
2366 3944 4.697352 AGAAGTGTCTTCAATATGCGCTTT 59.303 37.500 9.73 0.00 31.19 3.51
2384 3962 4.785346 ATGATATCCACCTTGCAGAAGT 57.215 40.909 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.