Multiple sequence alignment - TraesCS3B01G572800

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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 TraesCS3B01G572800 chr3B 100.000 2046 0 0 592 2637 803584140 803582095 0.000000e+00 3779
1 TraesCS3B01G572800 chr3B 100.000 559 0 0 1 559 803584731 803584173 0.000000e+00 1033
2 TraesCS3B01G572800 chr3B 86.800 500 37 19 1 475 112910113 112910608 5.000000e-147 531
3 TraesCS3B01G572800 chr3B 99.115 226 2 0 2412 2637 393331655 393331880 8.790000e-110 407
4 TraesCS3B01G572800 chr3B 99.091 220 2 0 340 559 803584140 803583921 1.900000e-106 396
5 TraesCS3B01G572800 chr4B 97.614 1551 35 2 592 2141 49106265 49107814 0.000000e+00 2658
6 TraesCS3B01G572800 chr4B 97.538 731 15 1 1910 2637 49107701 49108431 0.000000e+00 1247
7 TraesCS3B01G572800 chr4B 97.674 559 13 0 1 559 49105926 49106484 0.000000e+00 961
8 TraesCS3B01G572800 chr2B 97.706 1526 34 1 617 2141 45596604 45598129 0.000000e+00 2623
9 TraesCS3B01G572800 chr2B 96.090 1560 51 1 592 2141 717652643 717654202 0.000000e+00 2534
10 TraesCS3B01G572800 chr2B 96.829 1482 47 0 660 2141 153865762 153867243 0.000000e+00 2477
11 TraesCS3B01G572800 chr2B 89.387 1404 93 31 595 1945 29753971 29752571 0.000000e+00 1716
12 TraesCS3B01G572800 chr2B 96.730 734 18 2 1910 2637 45598134 45598867 0.000000e+00 1218
13 TraesCS3B01G572800 chr2B 96.282 511 14 1 1910 2415 717654089 717654599 0.000000e+00 833
14 TraesCS3B01G572800 chr2B 94.716 511 21 4 1 505 45596300 45596810 0.000000e+00 789
15 TraesCS3B01G572800 chr2B 93.377 302 14 3 253 548 717652586 717652887 2.410000e-120 442
16 TraesCS3B01G572800 chr2B 99.115 226 2 0 2412 2637 153867636 153867861 8.790000e-110 407
17 TraesCS3B01G572800 chr2B 99.115 226 2 0 2412 2637 717654623 717654848 8.790000e-110 407
18 TraesCS3B01G572800 chr2B 89.873 316 23 5 253 559 717652547 717652862 5.290000e-107 398
19 TraesCS3B01G572800 chr2B 98.230 226 4 0 2412 2637 178345171 178344946 1.900000e-106 396
20 TraesCS3B01G572800 chr2B 92.045 176 8 4 253 422 798601606 798601781 2.620000e-60 243
21 TraesCS3B01G572800 chr7B 96.282 1533 47 1 617 2139 235457478 235455946 0.000000e+00 2507
22 TraesCS3B01G572800 chr7B 94.173 1373 44 23 592 1945 713543539 713542184 0.000000e+00 2060
23 TraesCS3B01G572800 chr7B 97.446 509 10 1 1910 2415 130335997 130336505 0.000000e+00 865
24 TraesCS3B01G572800 chr7B 96.311 515 13 1 1910 2418 235456057 235455543 0.000000e+00 841
25 TraesCS3B01G572800 chr7B 97.713 481 11 0 1 481 713544043 713543563 0.000000e+00 828
26 TraesCS3B01G572800 chr7B 99.115 226 2 0 2412 2637 130336529 130336754 8.790000e-110 407
27 TraesCS3B01G572800 chr7B 99.115 226 2 0 2412 2637 335929686 335929911 8.790000e-110 407
28 TraesCS3B01G572800 chr7B 99.091 220 2 0 340 559 713543539 713543320 1.900000e-106 396
29 TraesCS3B01G572800 chr1B 95.769 1560 56 1 592 2141 550439507 550437948 0.000000e+00 2507
30 TraesCS3B01G572800 chr1B 98.043 511 8 1 1910 2418 550438061 550437551 0.000000e+00 887
31 TraesCS3B01G572800 chr1B 91.722 302 19 3 253 548 550439564 550439263 5.250000e-112 414
32 TraesCS3B01G572800 chr1B 88.291 316 28 5 253 559 550439603 550439288 1.150000e-98 370
33 TraesCS3B01G572800 chr5B 96.026 1535 50 2 617 2141 530940215 530938682 0.000000e+00 2486
34 TraesCS3B01G572800 chr5B 88.952 1412 98 31 592 1949 428831852 428833259 0.000000e+00 1690
35 TraesCS3B01G572800 chr5B 88.889 1377 96 30 592 1914 428826401 428827774 0.000000e+00 1642
36 TraesCS3B01G572800 chr5B 95.308 682 17 4 1748 2415 658085883 658086563 0.000000e+00 1068
37 TraesCS3B01G572800 chr5B 96.282 511 17 1 1910 2418 530938795 530938285 0.000000e+00 837
38 TraesCS3B01G572800 chr5B 91.084 572 34 14 1 559 464634349 464634916 0.000000e+00 758
39 TraesCS3B01G572800 chr5B 87.476 527 41 20 1 507 426533066 426533587 3.780000e-163 584
40 TraesCS3B01G572800 chr5B 99.115 226 2 0 2412 2637 658086587 658086812 8.790000e-110 407
41 TraesCS3B01G572800 chr5B 83.553 152 16 8 1795 1942 578835700 578835554 1.650000e-27 134
42 TraesCS3B01G572800 chr6B 93.295 1566 61 16 592 2141 661052200 661053737 0.000000e+00 2270
43 TraesCS3B01G572800 chr6B 91.159 690 45 6 1738 2415 694765290 694765975 0.000000e+00 922
44 TraesCS3B01G572800 chr4A 91.084 572 34 15 1 559 712877721 712878288 0.000000e+00 758
45 TraesCS3B01G572800 chr6A 87.500 568 49 16 1 548 592020418 592019853 1.030000e-178 636
46 TraesCS3B01G572800 chr5A 87.977 524 37 16 1 505 288268846 288268330 1.750000e-166 595


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 TraesCS3B01G572800 chr3B 803582095 803584731 2636 True 1736.000000 3779 99.697000 1 2637 3 chr3B.!!$R1 2636
1 TraesCS3B01G572800 chr4B 49105926 49108431 2505 False 1622.000000 2658 97.608667 1 2637 3 chr4B.!!$F1 2636
2 TraesCS3B01G572800 chr2B 29752571 29753971 1400 True 1716.000000 1716 89.387000 595 1945 1 chr2B.!!$R1 1350
3 TraesCS3B01G572800 chr2B 45596300 45598867 2567 False 1543.333333 2623 96.384000 1 2637 3 chr2B.!!$F2 2636
4 TraesCS3B01G572800 chr2B 153865762 153867861 2099 False 1442.000000 2477 97.972000 660 2637 2 chr2B.!!$F3 1977
5 TraesCS3B01G572800 chr2B 717652547 717654848 2301 False 922.800000 2534 94.947400 253 2637 5 chr2B.!!$F4 2384
6 TraesCS3B01G572800 chr7B 235455543 235457478 1935 True 1674.000000 2507 96.296500 617 2418 2 chr7B.!!$R1 1801
7 TraesCS3B01G572800 chr7B 713542184 713544043 1859 True 1094.666667 2060 96.992333 1 1945 3 chr7B.!!$R2 1944
8 TraesCS3B01G572800 chr7B 130335997 130336754 757 False 636.000000 865 98.280500 1910 2637 2 chr7B.!!$F2 727
9 TraesCS3B01G572800 chr1B 550437551 550439603 2052 True 1044.500000 2507 93.456250 253 2418 4 chr1B.!!$R1 2165
10 TraesCS3B01G572800 chr5B 428831852 428833259 1407 False 1690.000000 1690 88.952000 592 1949 1 chr5B.!!$F3 1357
11 TraesCS3B01G572800 chr5B 530938285 530940215 1930 True 1661.500000 2486 96.154000 617 2418 2 chr5B.!!$R2 1801
12 TraesCS3B01G572800 chr5B 428826401 428827774 1373 False 1642.000000 1642 88.889000 592 1914 1 chr5B.!!$F2 1322
13 TraesCS3B01G572800 chr5B 464634349 464634916 567 False 758.000000 758 91.084000 1 559 1 chr5B.!!$F4 558
14 TraesCS3B01G572800 chr5B 658085883 658086812 929 False 737.500000 1068 97.211500 1748 2637 2 chr5B.!!$F5 889
15 TraesCS3B01G572800 chr5B 426533066 426533587 521 False 584.000000 584 87.476000 1 507 1 chr5B.!!$F1 506
16 TraesCS3B01G572800 chr6B 661052200 661053737 1537 False 2270.000000 2270 93.295000 592 2141 1 chr6B.!!$F1 1549
17 TraesCS3B01G572800 chr6B 694765290 694765975 685 False 922.000000 922 91.159000 1738 2415 1 chr6B.!!$F2 677
18 TraesCS3B01G572800 chr4A 712877721 712878288 567 False 758.000000 758 91.084000 1 559 1 chr4A.!!$F1 558
19 TraesCS3B01G572800 chr6A 592019853 592020418 565 True 636.000000 636 87.500000 1 548 1 chr6A.!!$R1 547
20 TraesCS3B01G572800 chr5A 288268330 288268846 516 True 595.000000 595 87.977000 1 505 1 chr5A.!!$R1 504

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
360 430 0.034380 CTAGAGGTGGTGGTCGAGGA 60.034 60.0 0.0 0.0 0.0 3.71 F
612 742 0.034380 CTAGAGGTGGTGGTCGAGGA 60.034 60.0 0.0 0.0 0.0 3.71 F
613 743 0.323178 TAGAGGTGGTGGTCGAGGAC 60.323 60.0 0.0 0.0 0.0 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1426 1917 0.106619 AGGACTCCTCGAATAGGCGT 60.107 55.000 0.0 0.0 46.29 5.68 R
1465 1958 1.587043 CCTCCTTCTCACGACGCTCA 61.587 60.000 0.0 0.0 0.00 4.26 R
2498 3373 2.230660 GCTAAGCACCCACTGAGTTTT 58.769 47.619 0.0 0.0 0.00 2.43 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
93 94 3.943269 AGGGGTGATATGGATGACCTA 57.057 47.619 0.00 0.00 39.21 3.08
106 107 4.141018 TGGATGACCTAGCTGGATACACTA 60.141 45.833 0.00 0.00 38.40 2.74
320 390 2.166664 GGAGTACAAGTGCTAGAGGTGG 59.833 54.545 0.00 0.00 0.00 4.61
321 391 2.826725 GAGTACAAGTGCTAGAGGTGGT 59.173 50.000 0.00 0.00 0.00 4.16
322 392 2.563179 AGTACAAGTGCTAGAGGTGGTG 59.437 50.000 0.00 0.00 0.00 4.17
323 393 0.687354 ACAAGTGCTAGAGGTGGTGG 59.313 55.000 0.00 0.00 0.00 4.61
324 394 0.687354 CAAGTGCTAGAGGTGGTGGT 59.313 55.000 0.00 0.00 0.00 4.16
325 395 0.977395 AAGTGCTAGAGGTGGTGGTC 59.023 55.000 0.00 0.00 0.00 4.02
326 396 0.178932 AGTGCTAGAGGTGGTGGTCA 60.179 55.000 0.00 0.00 0.00 4.02
327 397 0.685097 GTGCTAGAGGTGGTGGTCAA 59.315 55.000 0.00 0.00 0.00 3.18
328 398 0.976641 TGCTAGAGGTGGTGGTCAAG 59.023 55.000 0.00 0.00 0.00 3.02
329 399 0.391793 GCTAGAGGTGGTGGTCAAGC 60.392 60.000 0.00 0.00 0.00 4.01
330 400 1.270907 CTAGAGGTGGTGGTCAAGCT 58.729 55.000 0.00 0.00 0.00 3.74
331 401 2.457598 CTAGAGGTGGTGGTCAAGCTA 58.542 52.381 0.00 0.00 0.00 3.32
332 402 1.270907 AGAGGTGGTGGTCAAGCTAG 58.729 55.000 0.00 0.00 0.00 3.42
333 403 0.391793 GAGGTGGTGGTCAAGCTAGC 60.392 60.000 6.62 6.62 0.00 3.42
334 404 1.127567 AGGTGGTGGTCAAGCTAGCA 61.128 55.000 18.83 0.00 33.68 3.49
335 405 2.544726 GTGGTGGTCAAGCTAGCAC 58.455 57.895 18.83 9.82 46.59 4.40
339 409 1.884235 GTGGTCAAGCTAGCACAAGT 58.116 50.000 18.83 0.00 45.11 3.16
340 410 1.532868 GTGGTCAAGCTAGCACAAGTG 59.467 52.381 18.83 6.76 45.11 3.16
352 422 1.800805 CACAAGTGCTAGAGGTGGTG 58.199 55.000 0.00 0.00 0.00 4.17
353 423 0.687354 ACAAGTGCTAGAGGTGGTGG 59.313 55.000 0.00 0.00 0.00 4.61
354 424 0.687354 CAAGTGCTAGAGGTGGTGGT 59.313 55.000 0.00 0.00 0.00 4.16
355 425 0.977395 AAGTGCTAGAGGTGGTGGTC 59.023 55.000 0.00 0.00 0.00 4.02
356 426 1.215647 GTGCTAGAGGTGGTGGTCG 59.784 63.158 0.00 0.00 0.00 4.79
357 427 1.076014 TGCTAGAGGTGGTGGTCGA 59.924 57.895 0.00 0.00 0.00 4.20
358 428 0.965866 TGCTAGAGGTGGTGGTCGAG 60.966 60.000 0.00 0.00 0.00 4.04
359 429 1.668101 GCTAGAGGTGGTGGTCGAGG 61.668 65.000 0.00 0.00 0.00 4.63
360 430 0.034380 CTAGAGGTGGTGGTCGAGGA 60.034 60.000 0.00 0.00 0.00 3.71
361 431 0.406750 TAGAGGTGGTGGTCGAGGAA 59.593 55.000 0.00 0.00 0.00 3.36
362 432 0.900647 AGAGGTGGTGGTCGAGGAAG 60.901 60.000 0.00 0.00 0.00 3.46
363 433 2.047179 GGTGGTGGTCGAGGAAGC 60.047 66.667 0.00 0.00 0.00 3.86
364 434 2.741092 GTGGTGGTCGAGGAAGCA 59.259 61.111 0.00 0.00 0.00 3.91
365 435 1.668151 GTGGTGGTCGAGGAAGCAC 60.668 63.158 8.07 8.07 44.83 4.40
366 436 2.137528 TGGTGGTCGAGGAAGCACA 61.138 57.895 8.29 0.00 46.81 4.57
367 437 1.070786 GGTGGTCGAGGAAGCACAA 59.929 57.895 8.29 0.00 46.81 3.33
368 438 0.951040 GGTGGTCGAGGAAGCACAAG 60.951 60.000 8.29 0.00 46.81 3.16
369 439 0.249911 GTGGTCGAGGAAGCACAAGT 60.250 55.000 1.66 0.00 44.90 3.16
370 440 0.249868 TGGTCGAGGAAGCACAAGTG 60.250 55.000 0.00 0.00 0.00 3.16
381 451 3.706055 CACAAGTGCTAGTGGTGGT 57.294 52.632 0.00 0.00 32.24 4.16
382 452 1.229428 CACAAGTGCTAGTGGTGGTG 58.771 55.000 0.00 0.00 32.24 4.17
383 453 0.108585 ACAAGTGCTAGTGGTGGTGG 59.891 55.000 0.00 0.00 0.00 4.61
384 454 0.108585 CAAGTGCTAGTGGTGGTGGT 59.891 55.000 0.00 0.00 0.00 4.16
385 455 0.396811 AAGTGCTAGTGGTGGTGGTC 59.603 55.000 0.00 0.00 0.00 4.02
386 456 1.374252 GTGCTAGTGGTGGTGGTCG 60.374 63.158 0.00 0.00 0.00 4.79
387 457 1.532078 TGCTAGTGGTGGTGGTCGA 60.532 57.895 0.00 0.00 0.00 4.20
388 458 1.215647 GCTAGTGGTGGTGGTCGAG 59.784 63.158 0.00 0.00 0.00 4.04
389 459 1.890894 CTAGTGGTGGTGGTCGAGG 59.109 63.158 0.00 0.00 0.00 4.63
390 460 0.898789 CTAGTGGTGGTGGTCGAGGT 60.899 60.000 0.00 0.00 0.00 3.85
391 461 0.405198 TAGTGGTGGTGGTCGAGGTA 59.595 55.000 0.00 0.00 0.00 3.08
392 462 0.898789 AGTGGTGGTGGTCGAGGTAG 60.899 60.000 0.00 0.00 0.00 3.18
393 463 2.280552 TGGTGGTGGTCGAGGTAGC 61.281 63.158 0.00 0.00 0.00 3.58
394 464 2.280552 GGTGGTGGTCGAGGTAGCA 61.281 63.158 0.00 0.00 0.00 3.49
395 465 1.080025 GTGGTGGTCGAGGTAGCAC 60.080 63.158 9.20 9.20 45.05 4.40
398 468 3.123674 GTGGTCGAGGTAGCACAAG 57.876 57.895 0.00 0.00 45.11 3.16
399 469 0.317479 GTGGTCGAGGTAGCACAAGT 59.683 55.000 0.00 0.00 45.11 3.16
400 470 0.317160 TGGTCGAGGTAGCACAAGTG 59.683 55.000 0.00 0.00 0.00 3.16
412 482 1.800805 CACAAGTGCTAGAGGTGGTG 58.199 55.000 0.00 0.00 0.00 4.17
413 483 0.687354 ACAAGTGCTAGAGGTGGTGG 59.313 55.000 0.00 0.00 0.00 4.61
414 484 0.687354 CAAGTGCTAGAGGTGGTGGT 59.313 55.000 0.00 0.00 0.00 4.16
415 485 0.977395 AAGTGCTAGAGGTGGTGGTC 59.023 55.000 0.00 0.00 0.00 4.02
416 486 1.215647 GTGCTAGAGGTGGTGGTCG 59.784 63.158 0.00 0.00 0.00 4.79
417 487 1.076014 TGCTAGAGGTGGTGGTCGA 59.924 57.895 0.00 0.00 0.00 4.20
418 488 0.965866 TGCTAGAGGTGGTGGTCGAG 60.966 60.000 0.00 0.00 0.00 4.04
419 489 1.668101 GCTAGAGGTGGTGGTCGAGG 61.668 65.000 0.00 0.00 0.00 4.63
420 490 0.034380 CTAGAGGTGGTGGTCGAGGA 60.034 60.000 0.00 0.00 0.00 3.71
421 491 0.406750 TAGAGGTGGTGGTCGAGGAA 59.593 55.000 0.00 0.00 0.00 3.36
422 492 0.900647 AGAGGTGGTGGTCGAGGAAG 60.901 60.000 0.00 0.00 0.00 3.46
423 493 2.047179 GGTGGTGGTCGAGGAAGC 60.047 66.667 0.00 0.00 0.00 3.86
424 494 2.741092 GTGGTGGTCGAGGAAGCA 59.259 61.111 0.00 0.00 0.00 3.91
425 495 1.668151 GTGGTGGTCGAGGAAGCAC 60.668 63.158 8.07 8.07 44.83 4.40
426 496 2.137528 TGGTGGTCGAGGAAGCACA 61.138 57.895 8.29 0.00 46.81 4.57
427 497 1.070786 GGTGGTCGAGGAAGCACAA 59.929 57.895 8.29 0.00 46.81 3.33
428 498 0.951040 GGTGGTCGAGGAAGCACAAG 60.951 60.000 8.29 0.00 46.81 3.16
429 499 0.249911 GTGGTCGAGGAAGCACAAGT 60.250 55.000 1.66 0.00 44.90 3.16
430 500 0.249868 TGGTCGAGGAAGCACAAGTG 60.250 55.000 0.00 0.00 0.00 3.16
476 606 1.215647 GTGCTAGAGGTGGTGGTCG 59.784 63.158 0.00 0.00 0.00 4.79
477 607 1.076014 TGCTAGAGGTGGTGGTCGA 59.924 57.895 0.00 0.00 0.00 4.20
478 608 0.965866 TGCTAGAGGTGGTGGTCGAG 60.966 60.000 0.00 0.00 0.00 4.04
479 609 1.810532 CTAGAGGTGGTGGTCGAGC 59.189 63.158 7.89 7.89 0.00 5.03
480 610 0.681564 CTAGAGGTGGTGGTCGAGCT 60.682 60.000 16.64 0.00 33.17 4.09
481 611 0.622136 TAGAGGTGGTGGTCGAGCTA 59.378 55.000 16.64 0.00 30.83 3.32
482 612 0.966370 AGAGGTGGTGGTCGAGCTAC 60.966 60.000 16.64 11.75 30.83 3.58
490 620 2.093306 TGGTCGAGCTACCACAAATG 57.907 50.000 16.64 0.00 44.68 2.32
491 621 0.727398 GGTCGAGCTACCACAAATGC 59.273 55.000 7.51 0.00 39.50 3.56
492 622 1.676014 GGTCGAGCTACCACAAATGCT 60.676 52.381 7.51 0.00 39.50 3.79
493 623 2.418197 GGTCGAGCTACCACAAATGCTA 60.418 50.000 7.51 0.00 39.50 3.49
494 624 2.860735 GTCGAGCTACCACAAATGCTAG 59.139 50.000 0.00 0.00 35.76 3.42
495 625 2.758423 TCGAGCTACCACAAATGCTAGA 59.242 45.455 0.00 0.00 35.76 2.43
496 626 3.119291 CGAGCTACCACAAATGCTAGAG 58.881 50.000 0.00 0.00 35.76 2.43
497 627 3.462021 GAGCTACCACAAATGCTAGAGG 58.538 50.000 0.00 0.00 35.76 3.69
498 628 2.840651 AGCTACCACAAATGCTAGAGGT 59.159 45.455 0.00 0.00 33.64 3.85
499 629 2.939103 GCTACCACAAATGCTAGAGGTG 59.061 50.000 0.00 0.00 0.00 4.00
501 631 2.496899 CCACAAATGCTAGAGGTGGT 57.503 50.000 0.00 0.00 43.08 4.16
502 632 2.086869 CCACAAATGCTAGAGGTGGTG 58.913 52.381 0.00 0.00 43.08 4.17
503 633 2.086869 CACAAATGCTAGAGGTGGTGG 58.913 52.381 0.00 0.00 0.00 4.61
504 634 1.705186 ACAAATGCTAGAGGTGGTGGT 59.295 47.619 0.00 0.00 0.00 4.16
505 635 2.290323 ACAAATGCTAGAGGTGGTGGTC 60.290 50.000 0.00 0.00 0.00 4.02
506 636 0.537188 AATGCTAGAGGTGGTGGTCG 59.463 55.000 0.00 0.00 0.00 4.79
507 637 0.324368 ATGCTAGAGGTGGTGGTCGA 60.324 55.000 0.00 0.00 0.00 4.20
508 638 0.965866 TGCTAGAGGTGGTGGTCGAG 60.966 60.000 0.00 0.00 0.00 4.04
509 639 1.810532 CTAGAGGTGGTGGTCGAGC 59.189 63.158 7.89 7.89 0.00 5.03
510 640 0.965866 CTAGAGGTGGTGGTCGAGCA 60.966 60.000 14.39 14.39 0.00 4.26
511 641 0.965866 TAGAGGTGGTGGTCGAGCAG 60.966 60.000 19.24 0.00 30.97 4.24
512 642 3.302347 GAGGTGGTGGTCGAGCAGG 62.302 68.421 19.24 0.00 30.97 4.85
514 644 4.314440 GTGGTGGTCGAGCAGGCA 62.314 66.667 19.24 0.00 30.97 4.75
515 645 4.314440 TGGTGGTCGAGCAGGCAC 62.314 66.667 19.24 5.94 0.00 5.01
516 646 4.314440 GGTGGTCGAGCAGGCACA 62.314 66.667 19.24 0.00 0.00 4.57
517 647 2.280797 GTGGTCGAGCAGGCACAA 60.281 61.111 19.24 0.00 0.00 3.33
518 648 2.031012 TGGTCGAGCAGGCACAAG 59.969 61.111 14.39 0.00 0.00 3.16
519 649 2.031163 GGTCGAGCAGGCACAAGT 59.969 61.111 10.30 0.00 0.00 3.16
520 650 2.320587 GGTCGAGCAGGCACAAGTG 61.321 63.158 10.30 0.00 0.00 3.16
532 662 1.800805 CACAAGTGCTAGAGGTGGTG 58.199 55.000 0.00 0.00 0.00 4.17
533 663 0.687354 ACAAGTGCTAGAGGTGGTGG 59.313 55.000 0.00 0.00 0.00 4.61
534 664 0.687354 CAAGTGCTAGAGGTGGTGGT 59.313 55.000 0.00 0.00 0.00 4.16
535 665 0.687354 AAGTGCTAGAGGTGGTGGTG 59.313 55.000 0.00 0.00 0.00 4.17
536 666 1.194781 AGTGCTAGAGGTGGTGGTGG 61.195 60.000 0.00 0.00 0.00 4.61
537 667 1.152118 TGCTAGAGGTGGTGGTGGT 60.152 57.895 0.00 0.00 0.00 4.16
538 668 1.192146 TGCTAGAGGTGGTGGTGGTC 61.192 60.000 0.00 0.00 0.00 4.02
539 669 1.890894 CTAGAGGTGGTGGTGGTCG 59.109 63.158 0.00 0.00 0.00 4.79
540 670 1.605058 CTAGAGGTGGTGGTGGTCGG 61.605 65.000 0.00 0.00 0.00 4.79
541 671 2.084089 TAGAGGTGGTGGTGGTCGGA 62.084 60.000 0.00 0.00 0.00 4.55
542 672 2.923035 AGGTGGTGGTGGTCGGAG 60.923 66.667 0.00 0.00 0.00 4.63
543 673 2.920912 GGTGGTGGTGGTCGGAGA 60.921 66.667 0.00 0.00 0.00 3.71
544 674 2.657237 GTGGTGGTGGTCGGAGAG 59.343 66.667 0.00 0.00 36.95 3.20
545 675 2.603473 TGGTGGTGGTCGGAGAGG 60.603 66.667 0.00 0.00 36.95 3.69
546 676 2.283676 GGTGGTGGTCGGAGAGGA 60.284 66.667 0.00 0.00 36.95 3.71
547 677 1.911766 GGTGGTGGTCGGAGAGGAA 60.912 63.158 0.00 0.00 36.95 3.36
548 678 1.592223 GTGGTGGTCGGAGAGGAAG 59.408 63.158 0.00 0.00 36.95 3.46
549 679 2.283529 TGGTGGTCGGAGAGGAAGC 61.284 63.158 0.00 0.00 36.95 3.86
550 680 2.283529 GGTGGTCGGAGAGGAAGCA 61.284 63.158 0.00 0.00 36.95 3.91
551 681 1.079750 GTGGTCGGAGAGGAAGCAC 60.080 63.158 0.00 0.00 36.95 4.40
552 682 1.533033 TGGTCGGAGAGGAAGCACA 60.533 57.895 0.00 0.00 36.95 4.57
553 683 1.118965 TGGTCGGAGAGGAAGCACAA 61.119 55.000 0.00 0.00 36.95 3.33
554 684 0.390472 GGTCGGAGAGGAAGCACAAG 60.390 60.000 0.00 0.00 36.95 3.16
555 685 0.318762 GTCGGAGAGGAAGCACAAGT 59.681 55.000 0.00 0.00 36.95 3.16
556 686 0.318441 TCGGAGAGGAAGCACAAGTG 59.682 55.000 0.00 0.00 0.00 3.16
608 738 3.694746 TGCTAGAGGTGGTGGTCG 58.305 61.111 0.00 0.00 0.00 4.79
609 739 1.076014 TGCTAGAGGTGGTGGTCGA 59.924 57.895 0.00 0.00 0.00 4.20
610 740 0.965866 TGCTAGAGGTGGTGGTCGAG 60.966 60.000 0.00 0.00 0.00 4.04
611 741 1.668101 GCTAGAGGTGGTGGTCGAGG 61.668 65.000 0.00 0.00 0.00 4.63
612 742 0.034380 CTAGAGGTGGTGGTCGAGGA 60.034 60.000 0.00 0.00 0.00 3.71
613 743 0.323178 TAGAGGTGGTGGTCGAGGAC 60.323 60.000 0.00 0.00 0.00 3.85
614 744 2.989824 AGGTGGTGGTCGAGGACG 60.990 66.667 0.00 0.00 41.26 4.79
615 745 4.736896 GGTGGTGGTCGAGGACGC 62.737 72.222 0.00 0.00 39.58 5.19
1109 1599 4.445448 GGATAAGGAGAAGGATGTGCACAT 60.445 45.833 31.82 31.82 39.70 3.21
1426 1917 1.404986 CGAGATTGGTTACGGAGGCAA 60.405 52.381 0.00 0.00 0.00 4.52
1465 1958 4.778143 GCACGGGGATTGGAGCGT 62.778 66.667 0.00 0.00 0.00 5.07
2134 2969 2.045926 AGACGCCAAGGTCCATGC 60.046 61.111 0.00 0.00 37.66 4.06
2481 3356 6.342111 AGGTTAGCTACTAAGAGATTTGTGC 58.658 40.000 0.00 0.00 0.00 4.57
2498 3373 2.232696 TGTGCGTTGTAGATGGCTAAGA 59.767 45.455 0.00 0.00 0.00 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
93 94 4.080919 TGTTTCATGCTAGTGTATCCAGCT 60.081 41.667 0.00 0.00 36.26 4.24
106 107 3.367292 CCGCTACCAAATTGTTTCATGCT 60.367 43.478 0.00 0.00 0.00 3.79
256 257 0.737715 GCACTTGTGCTCCCTCTACG 60.738 60.000 17.36 0.00 0.00 3.51
320 390 1.532868 CACTTGTGCTAGCTTGACCAC 59.467 52.381 17.23 4.92 0.00 4.16
321 391 1.882912 CACTTGTGCTAGCTTGACCA 58.117 50.000 17.23 2.09 0.00 4.02
322 392 0.519077 GCACTTGTGCTAGCTTGACC 59.481 55.000 17.23 0.00 0.00 4.02
323 393 1.517242 AGCACTTGTGCTAGCTTGAC 58.483 50.000 24.50 6.50 44.28 3.18
330 400 1.550524 CCACCTCTAGCACTTGTGCTA 59.449 52.381 27.11 27.11 44.28 3.49
332 402 0.035458 ACCACCTCTAGCACTTGTGC 59.965 55.000 16.98 16.98 0.00 4.57
333 403 1.609061 CCACCACCTCTAGCACTTGTG 60.609 57.143 0.00 0.00 0.00 3.33
334 404 0.687354 CCACCACCTCTAGCACTTGT 59.313 55.000 0.00 0.00 0.00 3.16
335 405 0.687354 ACCACCACCTCTAGCACTTG 59.313 55.000 0.00 0.00 0.00 3.16
336 406 0.977395 GACCACCACCTCTAGCACTT 59.023 55.000 0.00 0.00 0.00 3.16
337 407 1.251527 CGACCACCACCTCTAGCACT 61.252 60.000 0.00 0.00 0.00 4.40
338 408 1.215647 CGACCACCACCTCTAGCAC 59.784 63.158 0.00 0.00 0.00 4.40
339 409 0.965866 CTCGACCACCACCTCTAGCA 60.966 60.000 0.00 0.00 0.00 3.49
340 410 1.668101 CCTCGACCACCACCTCTAGC 61.668 65.000 0.00 0.00 0.00 3.42
341 411 0.034380 TCCTCGACCACCACCTCTAG 60.034 60.000 0.00 0.00 0.00 2.43
342 412 0.406750 TTCCTCGACCACCACCTCTA 59.593 55.000 0.00 0.00 0.00 2.43
343 413 0.900647 CTTCCTCGACCACCACCTCT 60.901 60.000 0.00 0.00 0.00 3.69
344 414 1.592223 CTTCCTCGACCACCACCTC 59.408 63.158 0.00 0.00 0.00 3.85
345 415 2.584391 GCTTCCTCGACCACCACCT 61.584 63.158 0.00 0.00 0.00 4.00
346 416 2.047179 GCTTCCTCGACCACCACC 60.047 66.667 0.00 0.00 0.00 4.61
347 417 1.668151 GTGCTTCCTCGACCACCAC 60.668 63.158 0.00 0.00 0.00 4.16
348 418 1.691195 TTGTGCTTCCTCGACCACCA 61.691 55.000 0.00 0.00 0.00 4.17
349 419 0.951040 CTTGTGCTTCCTCGACCACC 60.951 60.000 0.00 0.00 0.00 4.61
350 420 0.249911 ACTTGTGCTTCCTCGACCAC 60.250 55.000 0.00 0.00 0.00 4.16
351 421 0.249868 CACTTGTGCTTCCTCGACCA 60.250 55.000 0.00 0.00 0.00 4.02
352 422 1.569479 GCACTTGTGCTTCCTCGACC 61.569 60.000 17.36 0.00 0.00 4.79
353 423 0.601311 AGCACTTGTGCTTCCTCGAC 60.601 55.000 20.95 0.00 43.52 4.20
354 424 0.966179 TAGCACTTGTGCTTCCTCGA 59.034 50.000 29.37 10.97 43.52 4.04
355 425 1.337260 ACTAGCACTTGTGCTTCCTCG 60.337 52.381 29.37 16.38 43.52 4.63
356 426 2.072298 CACTAGCACTTGTGCTTCCTC 58.928 52.381 29.37 0.08 43.52 3.71
357 427 1.271054 CCACTAGCACTTGTGCTTCCT 60.271 52.381 29.37 11.29 43.52 3.36
358 428 1.160137 CCACTAGCACTTGTGCTTCC 58.840 55.000 29.37 1.14 43.52 3.46
359 429 1.532868 CACCACTAGCACTTGTGCTTC 59.467 52.381 29.37 1.49 43.52 3.86
360 430 1.597742 CACCACTAGCACTTGTGCTT 58.402 50.000 29.37 13.03 43.52 3.91
362 432 0.535102 ACCACCACTAGCACTTGTGC 60.535 55.000 16.98 16.98 35.51 4.57
363 433 1.229428 CACCACCACTAGCACTTGTG 58.771 55.000 5.41 5.41 36.36 3.33
364 434 0.108585 CCACCACCACTAGCACTTGT 59.891 55.000 0.00 0.00 0.00 3.16
365 435 0.108585 ACCACCACCACTAGCACTTG 59.891 55.000 0.00 0.00 0.00 3.16
366 436 0.396811 GACCACCACCACTAGCACTT 59.603 55.000 0.00 0.00 0.00 3.16
367 437 1.816863 CGACCACCACCACTAGCACT 61.817 60.000 0.00 0.00 0.00 4.40
368 438 1.374252 CGACCACCACCACTAGCAC 60.374 63.158 0.00 0.00 0.00 4.40
369 439 1.532078 TCGACCACCACCACTAGCA 60.532 57.895 0.00 0.00 0.00 3.49
370 440 1.215647 CTCGACCACCACCACTAGC 59.784 63.158 0.00 0.00 0.00 3.42
371 441 0.898789 ACCTCGACCACCACCACTAG 60.899 60.000 0.00 0.00 0.00 2.57
372 442 0.405198 TACCTCGACCACCACCACTA 59.595 55.000 0.00 0.00 0.00 2.74
373 443 0.898789 CTACCTCGACCACCACCACT 60.899 60.000 0.00 0.00 0.00 4.00
374 444 1.590147 CTACCTCGACCACCACCAC 59.410 63.158 0.00 0.00 0.00 4.16
375 445 2.280552 GCTACCTCGACCACCACCA 61.281 63.158 0.00 0.00 0.00 4.17
376 446 2.280552 TGCTACCTCGACCACCACC 61.281 63.158 0.00 0.00 0.00 4.61
377 447 1.080025 GTGCTACCTCGACCACCAC 60.080 63.158 0.00 0.00 0.00 4.16
378 448 1.116536 TTGTGCTACCTCGACCACCA 61.117 55.000 0.00 0.00 0.00 4.17
379 449 0.389948 CTTGTGCTACCTCGACCACC 60.390 60.000 0.00 0.00 0.00 4.61
380 450 0.317479 ACTTGTGCTACCTCGACCAC 59.683 55.000 0.00 0.00 0.00 4.16
381 451 0.317160 CACTTGTGCTACCTCGACCA 59.683 55.000 0.00 0.00 0.00 4.02
382 452 1.014564 GCACTTGTGCTACCTCGACC 61.015 60.000 17.36 0.00 0.00 4.79
383 453 0.038159 AGCACTTGTGCTACCTCGAC 60.038 55.000 24.50 0.00 44.28 4.20
384 454 1.472878 CTAGCACTTGTGCTACCTCGA 59.527 52.381 25.81 11.29 44.28 4.04
385 455 1.472878 TCTAGCACTTGTGCTACCTCG 59.527 52.381 25.81 18.03 44.28 4.63
386 456 2.159170 CCTCTAGCACTTGTGCTACCTC 60.159 54.545 25.81 0.00 44.28 3.85
387 457 1.827969 CCTCTAGCACTTGTGCTACCT 59.172 52.381 25.81 10.18 44.28 3.08
388 458 1.550976 ACCTCTAGCACTTGTGCTACC 59.449 52.381 25.81 0.41 44.28 3.18
389 459 2.611518 CACCTCTAGCACTTGTGCTAC 58.388 52.381 25.81 0.74 44.28 3.58
390 460 1.550524 CCACCTCTAGCACTTGTGCTA 59.449 52.381 27.11 27.11 44.28 3.49
392 462 0.035458 ACCACCTCTAGCACTTGTGC 59.965 55.000 16.98 16.98 0.00 4.57
393 463 1.609061 CCACCACCTCTAGCACTTGTG 60.609 57.143 0.00 0.00 0.00 3.33
394 464 0.687354 CCACCACCTCTAGCACTTGT 59.313 55.000 0.00 0.00 0.00 3.16
395 465 0.687354 ACCACCACCTCTAGCACTTG 59.313 55.000 0.00 0.00 0.00 3.16
396 466 0.977395 GACCACCACCTCTAGCACTT 59.023 55.000 0.00 0.00 0.00 3.16
397 467 1.251527 CGACCACCACCTCTAGCACT 61.252 60.000 0.00 0.00 0.00 4.40
398 468 1.215647 CGACCACCACCTCTAGCAC 59.784 63.158 0.00 0.00 0.00 4.40
399 469 0.965866 CTCGACCACCACCTCTAGCA 60.966 60.000 0.00 0.00 0.00 3.49
400 470 1.668101 CCTCGACCACCACCTCTAGC 61.668 65.000 0.00 0.00 0.00 3.42
401 471 0.034380 TCCTCGACCACCACCTCTAG 60.034 60.000 0.00 0.00 0.00 2.43
402 472 0.406750 TTCCTCGACCACCACCTCTA 59.593 55.000 0.00 0.00 0.00 2.43
403 473 0.900647 CTTCCTCGACCACCACCTCT 60.901 60.000 0.00 0.00 0.00 3.69
404 474 1.592223 CTTCCTCGACCACCACCTC 59.408 63.158 0.00 0.00 0.00 3.85
405 475 2.584391 GCTTCCTCGACCACCACCT 61.584 63.158 0.00 0.00 0.00 4.00
406 476 2.047179 GCTTCCTCGACCACCACC 60.047 66.667 0.00 0.00 0.00 4.61
407 477 1.668151 GTGCTTCCTCGACCACCAC 60.668 63.158 0.00 0.00 0.00 4.16
408 478 1.691195 TTGTGCTTCCTCGACCACCA 61.691 55.000 0.00 0.00 0.00 4.17
409 479 0.951040 CTTGTGCTTCCTCGACCACC 60.951 60.000 0.00 0.00 0.00 4.61
410 480 0.249911 ACTTGTGCTTCCTCGACCAC 60.250 55.000 0.00 0.00 0.00 4.16
411 481 0.249868 CACTTGTGCTTCCTCGACCA 60.250 55.000 0.00 0.00 0.00 4.02
412 482 1.569479 GCACTTGTGCTTCCTCGACC 61.569 60.000 17.36 0.00 0.00 4.79
413 483 0.601311 AGCACTTGTGCTTCCTCGAC 60.601 55.000 20.95 0.00 43.52 4.20
414 484 0.966179 TAGCACTTGTGCTTCCTCGA 59.034 50.000 29.37 10.97 43.52 4.04
415 485 1.337260 ACTAGCACTTGTGCTTCCTCG 60.337 52.381 29.37 16.38 43.52 4.63
416 486 2.072298 CACTAGCACTTGTGCTTCCTC 58.928 52.381 29.37 0.08 43.52 3.71
417 487 1.271054 CCACTAGCACTTGTGCTTCCT 60.271 52.381 29.37 11.29 43.52 3.36
418 488 1.160137 CCACTAGCACTTGTGCTTCC 58.840 55.000 29.37 1.14 43.52 3.46
419 489 1.532868 CACCACTAGCACTTGTGCTTC 59.467 52.381 29.37 1.49 43.52 3.86
420 490 1.597742 CACCACTAGCACTTGTGCTT 58.402 50.000 29.37 13.03 43.52 3.91
422 492 0.535102 ACCACCACTAGCACTTGTGC 60.535 55.000 16.98 16.98 35.51 4.57
423 493 1.229428 CACCACCACTAGCACTTGTG 58.771 55.000 5.41 5.41 36.36 3.33
424 494 0.108585 CCACCACCACTAGCACTTGT 59.891 55.000 0.00 0.00 0.00 3.16
425 495 0.108585 ACCACCACCACTAGCACTTG 59.891 55.000 0.00 0.00 0.00 3.16
426 496 0.396811 GACCACCACCACTAGCACTT 59.603 55.000 0.00 0.00 0.00 3.16
427 497 1.816863 CGACCACCACCACTAGCACT 61.817 60.000 0.00 0.00 0.00 4.40
428 498 1.374252 CGACCACCACCACTAGCAC 60.374 63.158 0.00 0.00 0.00 4.40
429 499 1.532078 TCGACCACCACCACTAGCA 60.532 57.895 0.00 0.00 0.00 3.49
430 500 1.215647 CTCGACCACCACCACTAGC 59.784 63.158 0.00 0.00 0.00 3.42
431 501 1.215647 GCTCGACCACCACCACTAG 59.784 63.158 0.00 0.00 0.00 2.57
432 502 0.038599 TAGCTCGACCACCACCACTA 59.961 55.000 0.00 0.00 0.00 2.74
433 503 1.228769 TAGCTCGACCACCACCACT 60.229 57.895 0.00 0.00 0.00 4.00
434 504 1.215647 CTAGCTCGACCACCACCAC 59.784 63.158 0.00 0.00 0.00 4.16
435 505 2.646175 GCTAGCTCGACCACCACCA 61.646 63.158 7.70 0.00 0.00 4.17
476 606 3.118592 ACCTCTAGCATTTGTGGTAGCTC 60.119 47.826 9.19 0.00 39.11 4.09
477 607 2.840651 ACCTCTAGCATTTGTGGTAGCT 59.159 45.455 9.19 0.00 39.11 3.32
478 608 2.939103 CACCTCTAGCATTTGTGGTAGC 59.061 50.000 9.19 0.00 39.11 3.58
479 609 3.535561 CCACCTCTAGCATTTGTGGTAG 58.464 50.000 8.02 8.02 41.20 3.18
480 610 3.627395 CCACCTCTAGCATTTGTGGTA 57.373 47.619 0.00 0.00 41.20 3.25
481 611 2.496899 CCACCTCTAGCATTTGTGGT 57.503 50.000 0.00 0.00 41.20 4.16
483 613 2.086869 CCACCACCTCTAGCATTTGTG 58.913 52.381 0.00 0.00 0.00 3.33
484 614 1.705186 ACCACCACCTCTAGCATTTGT 59.295 47.619 0.00 0.00 0.00 2.83
485 615 2.359900 GACCACCACCTCTAGCATTTG 58.640 52.381 0.00 0.00 0.00 2.32
486 616 1.066143 CGACCACCACCTCTAGCATTT 60.066 52.381 0.00 0.00 0.00 2.32
487 617 0.537188 CGACCACCACCTCTAGCATT 59.463 55.000 0.00 0.00 0.00 3.56
488 618 0.324368 TCGACCACCACCTCTAGCAT 60.324 55.000 0.00 0.00 0.00 3.79
489 619 0.965866 CTCGACCACCACCTCTAGCA 60.966 60.000 0.00 0.00 0.00 3.49
490 620 1.810532 CTCGACCACCACCTCTAGC 59.189 63.158 0.00 0.00 0.00 3.42
491 621 0.965866 TGCTCGACCACCACCTCTAG 60.966 60.000 0.00 0.00 0.00 2.43
492 622 0.965866 CTGCTCGACCACCACCTCTA 60.966 60.000 0.00 0.00 0.00 2.43
493 623 2.203640 TGCTCGACCACCACCTCT 60.204 61.111 0.00 0.00 0.00 3.69
494 624 2.262915 CTGCTCGACCACCACCTC 59.737 66.667 0.00 0.00 0.00 3.85
495 625 3.314331 CCTGCTCGACCACCACCT 61.314 66.667 0.00 0.00 0.00 4.00
497 627 4.314440 TGCCTGCTCGACCACCAC 62.314 66.667 0.00 0.00 0.00 4.16
498 628 4.314440 GTGCCTGCTCGACCACCA 62.314 66.667 0.00 0.00 0.00 4.17
499 629 3.825160 TTGTGCCTGCTCGACCACC 62.825 63.158 0.00 0.00 0.00 4.61
500 630 2.280797 TTGTGCCTGCTCGACCAC 60.281 61.111 0.00 0.00 0.00 4.16
501 631 2.031012 CTTGTGCCTGCTCGACCA 59.969 61.111 0.00 0.00 0.00 4.02
502 632 2.031163 ACTTGTGCCTGCTCGACC 59.969 61.111 0.00 0.00 0.00 4.79
503 633 2.959357 GCACTTGTGCCTGCTCGAC 61.959 63.158 14.17 0.00 0.00 4.20
504 634 1.815817 TAGCACTTGTGCCTGCTCGA 61.816 55.000 20.39 0.00 42.86 4.04
505 635 1.357258 CTAGCACTTGTGCCTGCTCG 61.357 60.000 20.39 1.66 42.86 5.03
506 636 0.036952 TCTAGCACTTGTGCCTGCTC 60.037 55.000 20.39 0.00 42.86 4.26
507 637 0.036577 CTCTAGCACTTGTGCCTGCT 60.037 55.000 20.39 6.33 45.76 4.24
508 638 1.023513 CCTCTAGCACTTGTGCCTGC 61.024 60.000 20.39 0.00 34.90 4.85
509 639 0.322975 ACCTCTAGCACTTGTGCCTG 59.677 55.000 20.39 13.89 34.90 4.85
510 640 0.322975 CACCTCTAGCACTTGTGCCT 59.677 55.000 20.39 11.33 34.90 4.75
511 641 0.674895 CCACCTCTAGCACTTGTGCC 60.675 60.000 20.39 4.86 34.90 5.01
512 642 0.035458 ACCACCTCTAGCACTTGTGC 59.965 55.000 16.98 16.98 0.00 4.57
513 643 1.609061 CCACCACCTCTAGCACTTGTG 60.609 57.143 0.00 0.00 0.00 3.33
514 644 0.687354 CCACCACCTCTAGCACTTGT 59.313 55.000 0.00 0.00 0.00 3.16
515 645 0.687354 ACCACCACCTCTAGCACTTG 59.313 55.000 0.00 0.00 0.00 3.16
516 646 0.687354 CACCACCACCTCTAGCACTT 59.313 55.000 0.00 0.00 0.00 3.16
517 647 1.194781 CCACCACCACCTCTAGCACT 61.195 60.000 0.00 0.00 0.00 4.40
518 648 1.296715 CCACCACCACCTCTAGCAC 59.703 63.158 0.00 0.00 0.00 4.40
519 649 1.152118 ACCACCACCACCTCTAGCA 60.152 57.895 0.00 0.00 0.00 3.49
520 650 1.597461 GACCACCACCACCTCTAGC 59.403 63.158 0.00 0.00 0.00 3.42
521 651 1.605058 CCGACCACCACCACCTCTAG 61.605 65.000 0.00 0.00 0.00 2.43
522 652 1.608336 CCGACCACCACCACCTCTA 60.608 63.158 0.00 0.00 0.00 2.43
523 653 2.923035 CCGACCACCACCACCTCT 60.923 66.667 0.00 0.00 0.00 3.69
524 654 2.920912 TCCGACCACCACCACCTC 60.921 66.667 0.00 0.00 0.00 3.85
525 655 2.923035 CTCCGACCACCACCACCT 60.923 66.667 0.00 0.00 0.00 4.00
526 656 2.920912 TCTCCGACCACCACCACC 60.921 66.667 0.00 0.00 0.00 4.61
527 657 2.657237 CTCTCCGACCACCACCAC 59.343 66.667 0.00 0.00 0.00 4.16
528 658 2.603473 CCTCTCCGACCACCACCA 60.603 66.667 0.00 0.00 0.00 4.17
529 659 1.889530 CTTCCTCTCCGACCACCACC 61.890 65.000 0.00 0.00 0.00 4.61
530 660 1.592223 CTTCCTCTCCGACCACCAC 59.408 63.158 0.00 0.00 0.00 4.16
531 661 2.283529 GCTTCCTCTCCGACCACCA 61.284 63.158 0.00 0.00 0.00 4.17
532 662 2.283529 TGCTTCCTCTCCGACCACC 61.284 63.158 0.00 0.00 0.00 4.61
533 663 1.079750 GTGCTTCCTCTCCGACCAC 60.080 63.158 0.00 0.00 0.00 4.16
534 664 1.118965 TTGTGCTTCCTCTCCGACCA 61.119 55.000 0.00 0.00 0.00 4.02
535 665 0.390472 CTTGTGCTTCCTCTCCGACC 60.390 60.000 0.00 0.00 0.00 4.79
536 666 0.318762 ACTTGTGCTTCCTCTCCGAC 59.681 55.000 0.00 0.00 0.00 4.79
537 667 0.318441 CACTTGTGCTTCCTCTCCGA 59.682 55.000 0.00 0.00 0.00 4.55
538 668 1.294659 GCACTTGTGCTTCCTCTCCG 61.295 60.000 17.36 0.00 0.00 4.63
539 669 0.036022 AGCACTTGTGCTTCCTCTCC 59.964 55.000 20.95 0.00 43.52 3.71
540 670 3.621953 AGCACTTGTGCTTCCTCTC 57.378 52.632 20.95 0.00 43.52 3.20
591 721 0.965866 CTCGACCACCACCTCTAGCA 60.966 60.000 0.00 0.00 0.00 3.49
592 722 1.668101 CCTCGACCACCACCTCTAGC 61.668 65.000 0.00 0.00 0.00 3.42
593 723 0.034380 TCCTCGACCACCACCTCTAG 60.034 60.000 0.00 0.00 0.00 2.43
594 724 0.323178 GTCCTCGACCACCACCTCTA 60.323 60.000 0.00 0.00 0.00 2.43
595 725 1.606889 GTCCTCGACCACCACCTCT 60.607 63.158 0.00 0.00 0.00 3.69
596 726 2.971452 GTCCTCGACCACCACCTC 59.029 66.667 0.00 0.00 0.00 3.85
597 727 2.989824 CGTCCTCGACCACCACCT 60.990 66.667 0.00 0.00 39.71 4.00
598 728 4.736896 GCGTCCTCGACCACCACC 62.737 72.222 0.00 0.00 39.71 4.61
599 729 3.986006 TGCGTCCTCGACCACCAC 61.986 66.667 0.00 0.00 39.71 4.16
600 730 3.986006 GTGCGTCCTCGACCACCA 61.986 66.667 0.00 0.00 39.71 4.17
601 731 3.509137 TTGTGCGTCCTCGACCACC 62.509 63.158 9.44 0.00 39.71 4.61
602 732 2.022129 CTTGTGCGTCCTCGACCAC 61.022 63.158 6.50 6.50 39.71 4.16
603 733 2.338620 CTTGTGCGTCCTCGACCA 59.661 61.111 0.00 0.00 39.71 4.02
604 734 2.022129 CACTTGTGCGTCCTCGACC 61.022 63.158 0.00 0.00 39.71 4.79
605 735 2.658707 GCACTTGTGCGTCCTCGAC 61.659 63.158 10.06 0.00 39.71 4.20
606 736 1.520600 TAGCACTTGTGCGTCCTCGA 61.521 55.000 18.32 0.00 40.27 4.04
607 737 1.073216 CTAGCACTTGTGCGTCCTCG 61.073 60.000 18.32 3.22 40.27 4.63
608 738 0.038159 ACTAGCACTTGTGCGTCCTC 60.038 55.000 18.32 0.00 40.27 3.71
609 739 0.319900 CACTAGCACTTGTGCGTCCT 60.320 55.000 18.32 5.44 40.27 3.85
610 740 1.291877 CCACTAGCACTTGTGCGTCC 61.292 60.000 18.32 0.00 40.27 4.79
611 741 0.600255 ACCACTAGCACTTGTGCGTC 60.600 55.000 18.32 0.00 40.27 5.19
612 742 0.880278 CACCACTAGCACTTGTGCGT 60.880 55.000 18.32 9.73 40.27 5.24
613 743 1.568612 CCACCACTAGCACTTGTGCG 61.569 60.000 18.32 9.14 40.27 5.34
614 744 0.535102 ACCACCACTAGCACTTGTGC 60.535 55.000 16.98 16.98 35.51 4.57
615 745 1.229428 CACCACCACTAGCACTTGTG 58.771 55.000 5.41 5.41 36.36 3.33
627 757 2.646175 GCTAGCTCGACCACCACCA 61.646 63.158 7.70 0.00 0.00 4.17
1089 1579 4.141711 GGTATGTGCACATCCTTCTCCTTA 60.142 45.833 34.54 11.46 37.76 2.69
1426 1917 0.106619 AGGACTCCTCGAATAGGCGT 60.107 55.000 0.00 0.00 46.29 5.68
1465 1958 1.587043 CCTCCTTCTCACGACGCTCA 61.587 60.000 0.00 0.00 0.00 4.26
1628 2121 6.037281 GCCTTTCCATTTGTCTACTAAGTAGC 59.963 42.308 0.00 0.00 36.22 3.58
1634 2127 4.585879 GGTGCCTTTCCATTTGTCTACTA 58.414 43.478 0.00 0.00 0.00 1.82
1725 2220 7.251994 AGTCTCGAATGACATAAGTAGTTCAC 58.748 38.462 7.47 0.00 39.27 3.18
2481 3356 5.637810 TGAGTTTTCTTAGCCATCTACAACG 59.362 40.000 0.00 0.00 0.00 4.10
2498 3373 2.230660 GCTAAGCACCCACTGAGTTTT 58.769 47.619 0.00 0.00 0.00 2.43


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

AutoCloner maintained by Alex Coulton.