Multiple sequence alignment - TraesCS4D01G234200

Loading Multiple Alignment...

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 TraesCS4D01G234200 chr4D 100.000 3225 0 0 1 3225 394380420 394377196 0.000000e+00 5956.0
1 TraesCS4D01G234200 chr4D 83.333 198 29 4 1319 1514 394361889 394362084 2.560000e-41 180.0
2 TraesCS4D01G234200 chr4D 87.324 71 7 2 1170 1239 81666285 81666216 2.670000e-11 80.5
3 TraesCS4D01G234200 chr4A 93.468 1975 85 22 739 2688 75843621 75841666 0.000000e+00 2892.0
4 TraesCS4D01G234200 chr4A 96.416 279 7 2 2686 2962 75841595 75841318 1.050000e-124 457.0
5 TraesCS4D01G234200 chr4A 87.136 412 41 4 1 405 75844152 75843746 1.050000e-124 457.0
6 TraesCS4D01G234200 chr4A 94.776 268 9 2 2955 3220 75841284 75841020 2.320000e-111 412.0
7 TraesCS4D01G234200 chr4A 83.838 198 28 4 1319 1514 75466027 75466222 5.490000e-43 185.0
8 TraesCS4D01G234200 chr4A 83.221 149 17 6 557 700 75843758 75843613 2.610000e-26 130.0
9 TraesCS4D01G234200 chr4A 89.362 94 10 0 1 94 75915450 75915357 5.650000e-23 119.0
10 TraesCS4D01G234200 chr4B 94.001 1717 68 12 1260 2962 484105697 484104002 0.000000e+00 2567.0
11 TraesCS4D01G234200 chr4B 91.558 616 27 12 678 1268 484106336 484105721 0.000000e+00 826.0
12 TraesCS4D01G234200 chr4B 88.642 405 22 6 1 405 484107665 484107285 3.770000e-129 472.0
13 TraesCS4D01G234200 chr4B 97.417 271 7 0 2955 3225 484103968 484103698 2.270000e-126 462.0
14 TraesCS4D01G234200 chr4B 94.355 124 5 2 557 680 484107297 484107176 4.250000e-44 189.0
15 TraesCS4D01G234200 chr4B 85.987 157 22 0 402 558 168990930 168991086 5.530000e-38 169.0
16 TraesCS4D01G234200 chr3B 89.032 155 15 1 404 558 549703256 549703104 1.180000e-44 191.0
17 TraesCS4D01G234200 chr6B 87.975 158 19 0 402 559 55695807 55695964 1.530000e-43 187.0
18 TraesCS4D01G234200 chr3D 86.928 153 20 0 406 558 17657929 17658081 4.280000e-39 172.0
19 TraesCS4D01G234200 chr3D 89.362 47 5 0 39 85 607499009 607499055 3.470000e-05 60.2
20 TraesCS4D01G234200 chr7D 82.353 204 28 7 1315 1514 535967325 535967524 1.540000e-38 171.0
21 TraesCS4D01G234200 chr7D 83.594 128 19 2 1365 1491 478576070 478576196 5.650000e-23 119.0
22 TraesCS4D01G234200 chr7D 92.857 42 3 0 1200 1241 479626272 479626231 9.660000e-06 62.1
23 TraesCS4D01G234200 chr7B 82.353 204 28 7 1315 1514 578438822 578439021 1.540000e-38 171.0
24 TraesCS4D01G234200 chr7A 81.863 204 29 7 1315 1514 617385976 617385777 7.160000e-37 165.0
25 TraesCS4D01G234200 chr7A 91.489 47 4 0 1195 1241 515199550 515199596 7.470000e-07 65.8
26 TraesCS4D01G234200 chr1D 79.803 203 35 5 1315 1514 467611815 467611616 3.350000e-30 143.0
27 TraesCS4D01G234200 chr2D 84.034 119 19 0 438 556 622319793 622319911 7.310000e-22 115.0
28 TraesCS4D01G234200 chr2D 84.211 76 10 2 1155 1229 450918256 450918330 4.460000e-09 73.1
29 TraesCS4D01G234200 chr5D 82.883 111 17 2 405 514 455756066 455755957 7.360000e-17 99.0
30 TraesCS4D01G234200 chr2B 85.526 76 9 2 1155 1229 531053163 531053237 9.590000e-11 78.7
31 TraesCS4D01G234200 chr2A 84.211 76 10 2 1155 1229 598642446 598642372 4.460000e-09 73.1
32 TraesCS4D01G234200 chr5B 100.000 32 0 0 1202 1233 428963176 428963145 3.470000e-05 60.2


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 TraesCS4D01G234200 chr4D 394377196 394380420 3224 True 5956.0 5956 100.0000 1 3225 1 chr4D.!!$R2 3224
1 TraesCS4D01G234200 chr4A 75841020 75844152 3132 True 869.6 2892 91.0034 1 3220 5 chr4A.!!$R2 3219
2 TraesCS4D01G234200 chr4B 484103698 484107665 3967 True 903.2 2567 93.1946 1 3225 5 chr4B.!!$R1 3224

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
558 566 0.025513 CATACGCAGAGCAGTTTCGC 59.974 55.0 0.0 0.0 0.00 4.70 F
559 567 0.389817 ATACGCAGAGCAGTTTCGCA 60.390 50.0 0.0 0.0 0.00 5.10 F
560 568 0.389817 TACGCAGAGCAGTTTCGCAT 60.390 50.0 0.0 0.0 0.00 4.73 F
1763 2679 0.321919 AGTACACGACTGGAGCGGTA 60.322 55.0 0.0 0.0 36.87 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1745 2661 0.179179 GTACCGCTCCAGTCGTGTAC 60.179 60.000 0.0 0.0 31.74 2.90 R
1746 2662 0.606130 TGTACCGCTCCAGTCGTGTA 60.606 55.000 0.0 0.0 0.00 2.90 R
2138 3057 2.292267 GTTGCCCATCTTGATCATCGT 58.708 47.619 0.0 0.0 0.00 3.73 R
2988 4052 1.959282 CTTGCACTTCTTTTGCCTCCT 59.041 47.619 0.0 0.0 39.39 3.69 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
24 25 1.672363 CAGAAGCTTGTGTGTGCTCAA 59.328 47.619 15.22 0.00 38.75 3.02
28 29 1.605710 AGCTTGTGTGTGCTCAATGTC 59.394 47.619 0.00 0.00 33.90 3.06
37 38 4.821260 TGTGTGCTCAATGTCTTTGTATGT 59.179 37.500 0.00 0.00 36.65 2.29
73 74 7.831753 TCATTTTGAGTAAATAAAATCCGCCA 58.168 30.769 0.00 0.00 35.07 5.69
81 82 7.590279 AGTAAATAAAATCCGCCATTTATCGG 58.410 34.615 0.00 0.00 46.52 4.18
91 92 4.584394 CGCCATTTATCGGAAAGTACAAC 58.416 43.478 0.00 0.00 0.00 3.32
100 101 5.427036 TCGGAAAGTACAACCATTTGTTC 57.573 39.130 0.00 0.00 43.89 3.18
130 131 1.676746 CACTAACTCGATCCTCGGGA 58.323 55.000 3.01 0.00 44.60 5.14
132 133 2.033550 CACTAACTCGATCCTCGGGAAG 59.966 54.545 3.01 3.16 44.60 3.46
149 150 3.670377 GGTTTCCCAGCACACGGC 61.670 66.667 0.00 0.00 45.30 5.68
405 413 1.675310 CCAGCCGCATCCTCAACAA 60.675 57.895 0.00 0.00 0.00 2.83
406 414 1.503542 CAGCCGCATCCTCAACAAC 59.496 57.895 0.00 0.00 0.00 3.32
407 415 1.675641 AGCCGCATCCTCAACAACC 60.676 57.895 0.00 0.00 0.00 3.77
408 416 1.675641 GCCGCATCCTCAACAACCT 60.676 57.895 0.00 0.00 0.00 3.50
409 417 1.244019 GCCGCATCCTCAACAACCTT 61.244 55.000 0.00 0.00 0.00 3.50
410 418 0.523072 CCGCATCCTCAACAACCTTG 59.477 55.000 0.00 0.00 0.00 3.61
411 419 0.109597 CGCATCCTCAACAACCTTGC 60.110 55.000 0.00 0.00 0.00 4.01
412 420 1.251251 GCATCCTCAACAACCTTGCT 58.749 50.000 0.00 0.00 0.00 3.91
413 421 2.436417 GCATCCTCAACAACCTTGCTA 58.564 47.619 0.00 0.00 0.00 3.49
414 422 3.019564 GCATCCTCAACAACCTTGCTAT 58.980 45.455 0.00 0.00 0.00 2.97
415 423 4.199310 GCATCCTCAACAACCTTGCTATA 58.801 43.478 0.00 0.00 0.00 1.31
416 424 4.035675 GCATCCTCAACAACCTTGCTATAC 59.964 45.833 0.00 0.00 0.00 1.47
417 425 3.857052 TCCTCAACAACCTTGCTATACG 58.143 45.455 0.00 0.00 0.00 3.06
418 426 3.259876 TCCTCAACAACCTTGCTATACGT 59.740 43.478 0.00 0.00 0.00 3.57
419 427 4.463539 TCCTCAACAACCTTGCTATACGTA 59.536 41.667 0.00 0.00 0.00 3.57
420 428 4.565564 CCTCAACAACCTTGCTATACGTAC 59.434 45.833 0.00 0.00 0.00 3.67
421 429 4.168014 TCAACAACCTTGCTATACGTACG 58.832 43.478 15.01 15.01 0.00 3.67
422 430 4.082841 TCAACAACCTTGCTATACGTACGA 60.083 41.667 24.41 6.04 0.00 3.43
423 431 3.762779 ACAACCTTGCTATACGTACGAC 58.237 45.455 24.41 6.19 0.00 4.34
424 432 3.191162 ACAACCTTGCTATACGTACGACA 59.809 43.478 24.41 9.64 0.00 4.35
425 433 3.687572 ACCTTGCTATACGTACGACAG 57.312 47.619 24.41 15.60 0.00 3.51
426 434 3.273434 ACCTTGCTATACGTACGACAGA 58.727 45.455 24.41 5.53 0.00 3.41
427 435 3.691118 ACCTTGCTATACGTACGACAGAA 59.309 43.478 24.41 7.18 0.00 3.02
428 436 4.337555 ACCTTGCTATACGTACGACAGAAT 59.662 41.667 24.41 9.29 0.00 2.40
429 437 5.528690 ACCTTGCTATACGTACGACAGAATA 59.471 40.000 24.41 2.50 0.00 1.75
430 438 5.850128 CCTTGCTATACGTACGACAGAATAC 59.150 44.000 24.41 3.95 0.00 1.89
431 439 5.348418 TGCTATACGTACGACAGAATACC 57.652 43.478 24.41 4.04 0.00 2.73
432 440 5.059161 TGCTATACGTACGACAGAATACCT 58.941 41.667 24.41 0.00 0.00 3.08
446 454 6.422776 CAGAATACCTGTCCAACATTGTAC 57.577 41.667 0.00 0.00 38.10 2.90
447 455 5.063438 CAGAATACCTGTCCAACATTGTACG 59.937 44.000 0.00 0.00 38.10 3.67
448 456 4.811969 ATACCTGTCCAACATTGTACGA 57.188 40.909 0.00 0.00 0.00 3.43
449 457 3.695830 ACCTGTCCAACATTGTACGAT 57.304 42.857 0.00 0.00 0.00 3.73
450 458 4.015872 ACCTGTCCAACATTGTACGATT 57.984 40.909 0.00 0.00 0.00 3.34
451 459 5.155278 ACCTGTCCAACATTGTACGATTA 57.845 39.130 0.00 0.00 0.00 1.75
452 460 5.553123 ACCTGTCCAACATTGTACGATTAA 58.447 37.500 0.00 0.00 0.00 1.40
453 461 5.998981 ACCTGTCCAACATTGTACGATTAAA 59.001 36.000 0.00 0.00 0.00 1.52
454 462 6.148811 ACCTGTCCAACATTGTACGATTAAAG 59.851 38.462 0.00 0.00 0.00 1.85
455 463 6.370442 CCTGTCCAACATTGTACGATTAAAGA 59.630 38.462 0.00 0.00 0.00 2.52
456 464 7.065803 CCTGTCCAACATTGTACGATTAAAGAT 59.934 37.037 0.00 0.00 0.00 2.40
457 465 9.093970 CTGTCCAACATTGTACGATTAAAGATA 57.906 33.333 0.00 0.00 0.00 1.98
458 466 9.438228 TGTCCAACATTGTACGATTAAAGATAA 57.562 29.630 0.00 0.00 0.00 1.75
482 490 6.509418 TTGTAGATAACTCAATTTGTGGGC 57.491 37.500 3.74 0.00 0.00 5.36
483 491 4.947388 TGTAGATAACTCAATTTGTGGGCC 59.053 41.667 0.00 0.00 0.00 5.80
484 492 4.046286 AGATAACTCAATTTGTGGGCCA 57.954 40.909 0.00 0.00 0.00 5.36
485 493 4.613437 AGATAACTCAATTTGTGGGCCAT 58.387 39.130 10.70 0.00 0.00 4.40
486 494 5.765510 AGATAACTCAATTTGTGGGCCATA 58.234 37.500 10.70 3.21 0.00 2.74
487 495 5.829924 AGATAACTCAATTTGTGGGCCATAG 59.170 40.000 10.70 0.00 0.00 2.23
488 496 2.102578 ACTCAATTTGTGGGCCATAGC 58.897 47.619 10.70 0.00 38.76 2.97
489 497 2.101783 CTCAATTTGTGGGCCATAGCA 58.898 47.619 10.70 0.00 42.56 3.49
490 498 2.696707 CTCAATTTGTGGGCCATAGCAT 59.303 45.455 10.70 0.00 42.56 3.79
491 499 3.106054 TCAATTTGTGGGCCATAGCATT 58.894 40.909 10.70 6.73 42.56 3.56
492 500 3.518705 TCAATTTGTGGGCCATAGCATTT 59.481 39.130 10.70 0.00 42.56 2.32
493 501 4.713814 TCAATTTGTGGGCCATAGCATTTA 59.286 37.500 10.70 0.00 42.56 1.40
494 502 4.942761 ATTTGTGGGCCATAGCATTTAG 57.057 40.909 10.70 0.00 42.56 1.85
495 503 3.660970 TTGTGGGCCATAGCATTTAGA 57.339 42.857 10.70 0.00 42.56 2.10
496 504 3.213206 TGTGGGCCATAGCATTTAGAG 57.787 47.619 10.70 0.00 42.56 2.43
497 505 2.777114 TGTGGGCCATAGCATTTAGAGA 59.223 45.455 10.70 0.00 42.56 3.10
498 506 3.395607 TGTGGGCCATAGCATTTAGAGAT 59.604 43.478 10.70 0.00 42.56 2.75
499 507 3.755378 GTGGGCCATAGCATTTAGAGATG 59.245 47.826 10.70 0.00 42.56 2.90
500 508 3.652387 TGGGCCATAGCATTTAGAGATGA 59.348 43.478 0.00 0.00 42.56 2.92
501 509 4.290459 TGGGCCATAGCATTTAGAGATGAT 59.710 41.667 0.00 0.00 42.56 2.45
502 510 5.488561 TGGGCCATAGCATTTAGAGATGATA 59.511 40.000 0.00 0.00 42.56 2.15
503 511 6.159222 TGGGCCATAGCATTTAGAGATGATAT 59.841 38.462 0.00 0.00 38.71 1.63
505 513 6.017275 GGCCATAGCATTTAGAGATGATATGC 60.017 42.308 14.38 10.88 46.94 3.14
506 514 6.766944 GCCATAGCATTTAGAGATGATATGCT 59.233 38.462 14.38 11.94 46.94 3.79
507 515 7.041916 GCCATAGCATTTAGAGATGATATGCTC 60.042 40.741 14.38 7.35 46.46 4.26
508 516 8.205512 CCATAGCATTTAGAGATGATATGCTCT 58.794 37.037 14.38 0.00 46.46 4.09
509 517 9.251792 CATAGCATTTAGAGATGATATGCTCTC 57.748 37.037 10.76 3.60 46.46 3.20
510 518 7.484993 AGCATTTAGAGATGATATGCTCTCT 57.515 36.000 14.82 14.82 46.46 3.10
511 519 7.909518 AGCATTTAGAGATGATATGCTCTCTT 58.090 34.615 15.39 0.60 46.46 2.85
512 520 7.820386 AGCATTTAGAGATGATATGCTCTCTTG 59.180 37.037 15.39 10.73 46.46 3.02
513 521 7.603404 GCATTTAGAGATGATATGCTCTCTTGT 59.397 37.037 15.39 4.13 44.51 3.16
514 522 8.927721 CATTTAGAGATGATATGCTCTCTTGTG 58.072 37.037 15.39 10.12 44.51 3.33
515 523 7.830099 TTAGAGATGATATGCTCTCTTGTGA 57.170 36.000 15.39 0.32 44.51 3.58
516 524 6.921486 AGAGATGATATGCTCTCTTGTGAT 57.079 37.500 7.53 0.00 44.51 3.06
517 525 9.525826 TTAGAGATGATATGCTCTCTTGTGATA 57.474 33.333 15.39 0.00 44.51 2.15
518 526 7.829725 AGAGATGATATGCTCTCTTGTGATAC 58.170 38.462 7.53 0.00 44.51 2.24
519 527 7.670979 AGAGATGATATGCTCTCTTGTGATACT 59.329 37.037 7.53 0.00 44.51 2.12
520 528 7.604549 AGATGATATGCTCTCTTGTGATACTG 58.395 38.462 0.00 0.00 0.00 2.74
521 529 6.094193 TGATATGCTCTCTTGTGATACTGG 57.906 41.667 0.00 0.00 0.00 4.00
522 530 5.835280 TGATATGCTCTCTTGTGATACTGGA 59.165 40.000 0.00 0.00 0.00 3.86
523 531 3.876274 TGCTCTCTTGTGATACTGGAC 57.124 47.619 0.00 0.00 0.00 4.02
524 532 2.164422 TGCTCTCTTGTGATACTGGACG 59.836 50.000 0.00 0.00 0.00 4.79
525 533 2.480416 GCTCTCTTGTGATACTGGACGG 60.480 54.545 0.00 0.00 0.00 4.79
526 534 3.017442 CTCTCTTGTGATACTGGACGGA 58.983 50.000 0.00 0.00 0.00 4.69
527 535 2.753452 TCTCTTGTGATACTGGACGGAC 59.247 50.000 0.00 0.00 0.00 4.79
528 536 1.471287 TCTTGTGATACTGGACGGACG 59.529 52.381 0.00 0.00 0.00 4.79
529 537 1.471287 CTTGTGATACTGGACGGACGA 59.529 52.381 0.00 0.00 0.00 4.20
530 538 1.758936 TGTGATACTGGACGGACGAT 58.241 50.000 0.00 0.00 0.00 3.73
531 539 2.921821 TGTGATACTGGACGGACGATA 58.078 47.619 0.00 0.00 0.00 2.92
532 540 3.281158 TGTGATACTGGACGGACGATAA 58.719 45.455 0.00 0.00 0.00 1.75
533 541 3.695556 TGTGATACTGGACGGACGATAAA 59.304 43.478 0.00 0.00 0.00 1.40
534 542 4.158209 TGTGATACTGGACGGACGATAAAA 59.842 41.667 0.00 0.00 0.00 1.52
535 543 4.501921 GTGATACTGGACGGACGATAAAAC 59.498 45.833 0.00 0.00 0.00 2.43
536 544 2.375173 ACTGGACGGACGATAAAACC 57.625 50.000 0.00 0.00 0.00 3.27
537 545 1.619827 ACTGGACGGACGATAAAACCA 59.380 47.619 0.00 0.00 0.00 3.67
538 546 2.235402 ACTGGACGGACGATAAAACCAT 59.765 45.455 0.00 0.00 0.00 3.55
539 547 2.864343 CTGGACGGACGATAAAACCATC 59.136 50.000 0.00 0.00 0.00 3.51
540 548 2.234168 TGGACGGACGATAAAACCATCA 59.766 45.455 0.00 0.00 0.00 3.07
541 549 3.118555 TGGACGGACGATAAAACCATCAT 60.119 43.478 0.00 0.00 0.00 2.45
542 550 4.099727 TGGACGGACGATAAAACCATCATA 59.900 41.667 0.00 0.00 0.00 2.15
543 551 4.446719 GGACGGACGATAAAACCATCATAC 59.553 45.833 0.00 0.00 0.00 2.39
544 552 4.046462 ACGGACGATAAAACCATCATACG 58.954 43.478 0.00 0.00 0.00 3.06
545 553 3.121126 CGGACGATAAAACCATCATACGC 60.121 47.826 0.00 0.00 0.00 4.42
546 554 3.805422 GGACGATAAAACCATCATACGCA 59.195 43.478 0.00 0.00 0.00 5.24
547 555 4.084537 GGACGATAAAACCATCATACGCAG 60.085 45.833 0.00 0.00 0.00 5.18
548 556 4.689071 ACGATAAAACCATCATACGCAGA 58.311 39.130 0.00 0.00 0.00 4.26
549 557 4.745125 ACGATAAAACCATCATACGCAGAG 59.255 41.667 0.00 0.00 0.00 3.35
550 558 4.376413 CGATAAAACCATCATACGCAGAGC 60.376 45.833 0.00 0.00 0.00 4.09
551 559 2.401583 AAACCATCATACGCAGAGCA 57.598 45.000 0.00 0.00 0.00 4.26
552 560 1.945387 AACCATCATACGCAGAGCAG 58.055 50.000 0.00 0.00 0.00 4.24
553 561 0.826715 ACCATCATACGCAGAGCAGT 59.173 50.000 0.00 0.00 0.00 4.40
554 562 1.208052 ACCATCATACGCAGAGCAGTT 59.792 47.619 0.00 0.00 0.00 3.16
555 563 2.283298 CCATCATACGCAGAGCAGTTT 58.717 47.619 0.00 0.00 0.00 2.66
556 564 2.286294 CCATCATACGCAGAGCAGTTTC 59.714 50.000 0.00 0.00 0.00 2.78
557 565 1.629013 TCATACGCAGAGCAGTTTCG 58.371 50.000 0.00 0.00 0.00 3.46
558 566 0.025513 CATACGCAGAGCAGTTTCGC 59.974 55.000 0.00 0.00 0.00 4.70
559 567 0.389817 ATACGCAGAGCAGTTTCGCA 60.390 50.000 0.00 0.00 0.00 5.10
560 568 0.389817 TACGCAGAGCAGTTTCGCAT 60.390 50.000 0.00 0.00 0.00 4.73
561 569 1.059994 CGCAGAGCAGTTTCGCATC 59.940 57.895 0.00 0.00 0.00 3.91
562 570 1.427020 GCAGAGCAGTTTCGCATCC 59.573 57.895 0.00 0.00 0.00 3.51
563 571 1.023513 GCAGAGCAGTTTCGCATCCT 61.024 55.000 0.00 0.00 0.00 3.24
564 572 1.005340 CAGAGCAGTTTCGCATCCTC 58.995 55.000 0.00 0.00 0.00 3.71
565 573 0.610174 AGAGCAGTTTCGCATCCTCA 59.390 50.000 0.00 0.00 0.00 3.86
566 574 1.002430 AGAGCAGTTTCGCATCCTCAA 59.998 47.619 0.00 0.00 0.00 3.02
567 575 1.129437 GAGCAGTTTCGCATCCTCAAC 59.871 52.381 0.00 0.00 0.00 3.18
568 576 0.874390 GCAGTTTCGCATCCTCAACA 59.126 50.000 0.00 0.00 0.00 3.33
597 605 0.669625 ACTCCTACACGCGCCTTTTC 60.670 55.000 5.73 0.00 0.00 2.29
598 606 1.683790 CTCCTACACGCGCCTTTTCG 61.684 60.000 5.73 0.00 0.00 3.46
600 608 1.286354 CCTACACGCGCCTTTTCGAA 61.286 55.000 5.73 0.00 0.00 3.71
601 609 0.719465 CTACACGCGCCTTTTCGAAT 59.281 50.000 5.73 0.00 0.00 3.34
602 610 1.921887 CTACACGCGCCTTTTCGAATA 59.078 47.619 5.73 0.00 0.00 1.75
603 611 1.365699 ACACGCGCCTTTTCGAATAT 58.634 45.000 5.73 0.00 0.00 1.28
604 612 2.542597 ACACGCGCCTTTTCGAATATA 58.457 42.857 5.73 0.00 0.00 0.86
605 613 2.283351 ACACGCGCCTTTTCGAATATAC 59.717 45.455 5.73 0.00 0.00 1.47
606 614 1.862827 ACGCGCCTTTTCGAATATACC 59.137 47.619 5.73 0.00 0.00 2.73
607 615 1.193874 CGCGCCTTTTCGAATATACCC 59.806 52.381 0.00 0.00 0.00 3.69
613 621 5.505159 CGCCTTTTCGAATATACCCCTTTTC 60.505 44.000 0.00 0.00 0.00 2.29
725 1584 3.566523 CCGCCTCTGTATATCTCGAAAC 58.433 50.000 0.00 0.00 0.00 2.78
729 1588 4.614078 GCCTCTGTATATCTCGAAACCTCG 60.614 50.000 0.00 0.00 46.87 4.63
751 1610 2.256117 AGTCAAGACCCTTTCAACCG 57.744 50.000 0.00 0.00 0.00 4.44
824 1688 1.213926 ACTCATCATTCCAGGAAGCCC 59.786 52.381 8.20 0.00 0.00 5.19
887 1751 1.135859 GCTCCAAGAATCACAAGCACG 60.136 52.381 0.00 0.00 0.00 5.34
941 1810 2.470286 CGACCGAGCAAGCGAAAC 59.530 61.111 0.00 0.00 0.00 2.78
942 1811 2.022129 CGACCGAGCAAGCGAAACT 61.022 57.895 0.00 0.00 0.00 2.66
1018 1895 2.356818 GATGGCGTCTCCTTCTCCCG 62.357 65.000 0.00 0.00 36.40 5.14
1019 1896 4.516195 GGCGTCTCCTTCTCCCGC 62.516 72.222 0.00 0.00 43.35 6.13
1164 2041 4.899239 CGCGTCATCCAGGAGGCC 62.899 72.222 0.00 0.00 43.72 5.19
1594 2510 3.636231 CCGCTGACAACCTCCCCA 61.636 66.667 0.00 0.00 0.00 4.96
1687 2603 1.457346 CCTCCAAGGTACTACGACGT 58.543 55.000 5.52 5.52 38.49 4.34
1718 2634 1.126488 GATCCACCATCAGCTCCTCA 58.874 55.000 0.00 0.00 0.00 3.86
1724 2640 2.040939 ACCATCAGCTCCTCAGATCAG 58.959 52.381 0.00 0.00 0.00 2.90
1726 2642 2.901192 CCATCAGCTCCTCAGATCAGAT 59.099 50.000 0.00 0.00 0.00 2.90
1727 2643 4.087907 CCATCAGCTCCTCAGATCAGATA 58.912 47.826 0.00 0.00 0.00 1.98
1763 2679 0.321919 AGTACACGACTGGAGCGGTA 60.322 55.000 0.00 0.00 36.87 4.02
1900 2816 2.440796 CTGGACGGGGCGTACCTA 60.441 66.667 0.00 0.00 40.39 3.08
2232 3151 0.035317 AACAGAAGCTGATCGCACCA 59.965 50.000 11.20 0.00 42.61 4.17
2466 3398 4.764823 TGAAACCCGCTCAAAGACAATAAT 59.235 37.500 0.00 0.00 0.00 1.28
2496 3428 4.278669 CCTAGGATGTGCATACGAACTACT 59.721 45.833 1.05 0.00 0.00 2.57
2508 3440 3.000727 ACGAACTACTTGCCAGCAATAC 58.999 45.455 5.38 0.00 35.20 1.89
2516 3448 5.385509 ACTTGCCAGCAATACGTTATTTT 57.614 34.783 5.38 0.00 35.20 1.82
2628 3576 8.523915 TCATGTTTCTAATGGCTGATAACATT 57.476 30.769 0.00 0.00 40.21 2.71
2632 3580 8.461222 TGTTTCTAATGGCTGATAACATTTCAG 58.539 33.333 0.00 0.00 42.83 3.02
2641 3589 6.437928 GCTGATAACATTTCAGTTGTCACAA 58.562 36.000 2.77 0.00 42.28 3.33
2642 3590 6.917477 GCTGATAACATTTCAGTTGTCACAAA 59.083 34.615 0.00 0.00 42.28 2.83
2643 3591 7.434897 GCTGATAACATTTCAGTTGTCACAAAA 59.565 33.333 0.00 0.00 42.28 2.44
2683 3631 7.106439 AGGTGACAGATGACAACTCTAATAG 57.894 40.000 0.00 0.00 32.61 1.73
2747 3770 8.567948 GTTCAATTGTTGGTCTAGAAAGATTCA 58.432 33.333 5.13 0.00 33.30 2.57
2801 3825 8.650490 TCCAAAAAGAAAATGCTAAATTCTCCT 58.350 29.630 0.00 0.00 32.45 3.69
2920 3944 2.097629 TGTCTCCGCTTCTACAGATTCG 59.902 50.000 0.00 0.00 0.00 3.34
2923 3947 1.822990 TCCGCTTCTACAGATTCGGTT 59.177 47.619 15.01 0.00 39.06 4.44
2943 3967 6.483974 TCGGTTACTTAACATGACAACACAAT 59.516 34.615 0.00 0.00 37.92 2.71
2988 4052 2.124085 CTAGGTGGGGGTGGTGGA 59.876 66.667 0.00 0.00 0.00 4.02
3131 4195 6.531240 GGTCATATTCGCATGTTCACATTTTT 59.469 34.615 0.00 0.00 33.61 1.94
3195 4261 1.327303 GAACATGGAAAGGCACACCA 58.673 50.000 0.00 0.00 39.06 4.17
3208 4274 5.138125 AGGCACACCAAATTATCAAACTG 57.862 39.130 0.00 0.00 39.06 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 9.283768 TGAAACATCAAGTACATACAAAGACAT 57.716 29.630 0.00 0.00 0.00 3.06
70 71 4.396790 TGGTTGTACTTTCCGATAAATGGC 59.603 41.667 0.00 0.00 0.00 4.40
73 74 8.117813 ACAAATGGTTGTACTTTCCGATAAAT 57.882 30.769 0.00 0.00 46.33 1.40
91 92 2.296752 TGCAGGTGTGATGAACAAATGG 59.703 45.455 0.00 0.00 41.57 3.16
100 101 1.995484 CGAGTTAGTGCAGGTGTGATG 59.005 52.381 0.00 0.00 0.00 3.07
149 150 2.621338 TCAAAGTGAAGCTAGCCATCG 58.379 47.619 12.13 0.00 0.00 3.84
181 182 4.654091 CAAGGAGAACTTTGCAGGAAAA 57.346 40.909 0.00 0.00 37.29 2.29
304 305 4.770795 AGTCTATGGGAGTGAATTTTCCG 58.229 43.478 0.31 0.00 34.17 4.30
405 413 3.273434 TCTGTCGTACGTATAGCAAGGT 58.727 45.455 16.05 0.00 0.00 3.50
406 414 3.957671 TCTGTCGTACGTATAGCAAGG 57.042 47.619 16.05 0.00 0.00 3.61
407 415 5.850128 GGTATTCTGTCGTACGTATAGCAAG 59.150 44.000 16.05 4.07 0.00 4.01
408 416 5.528690 AGGTATTCTGTCGTACGTATAGCAA 59.471 40.000 16.05 8.64 0.00 3.91
409 417 5.049886 CAGGTATTCTGTCGTACGTATAGCA 60.050 44.000 16.05 7.04 38.64 3.49
410 418 5.380651 CAGGTATTCTGTCGTACGTATAGC 58.619 45.833 16.05 14.09 38.64 2.97
423 431 5.063438 CGTACAATGTTGGACAGGTATTCTG 59.937 44.000 8.69 0.00 42.24 3.02
424 432 5.046878 TCGTACAATGTTGGACAGGTATTCT 60.047 40.000 8.69 0.00 42.24 2.40
425 433 5.172934 TCGTACAATGTTGGACAGGTATTC 58.827 41.667 8.69 0.00 42.24 1.75
426 434 5.155278 TCGTACAATGTTGGACAGGTATT 57.845 39.130 8.69 0.00 42.24 1.89
427 435 4.811969 TCGTACAATGTTGGACAGGTAT 57.188 40.909 8.69 0.00 42.24 2.73
428 436 4.811969 ATCGTACAATGTTGGACAGGTA 57.188 40.909 8.69 0.00 42.24 3.08
429 437 3.695830 ATCGTACAATGTTGGACAGGT 57.304 42.857 8.69 0.00 42.24 4.00
430 438 6.370442 TCTTTAATCGTACAATGTTGGACAGG 59.630 38.462 8.69 0.00 42.24 4.00
431 439 7.359262 TCTTTAATCGTACAATGTTGGACAG 57.641 36.000 8.69 2.18 42.24 3.51
432 440 7.915293 ATCTTTAATCGTACAATGTTGGACA 57.085 32.000 8.69 0.00 42.24 4.02
456 464 8.682710 GCCCACAAATTGAGTTATCTACAATTA 58.317 33.333 0.00 0.00 41.36 1.40
457 465 7.363793 GGCCCACAAATTGAGTTATCTACAATT 60.364 37.037 0.00 0.00 43.14 2.32
458 466 6.096846 GGCCCACAAATTGAGTTATCTACAAT 59.903 38.462 0.00 0.00 36.07 2.71
459 467 5.417580 GGCCCACAAATTGAGTTATCTACAA 59.582 40.000 0.00 0.00 0.00 2.41
460 468 4.947388 GGCCCACAAATTGAGTTATCTACA 59.053 41.667 0.00 0.00 0.00 2.74
461 469 4.947388 TGGCCCACAAATTGAGTTATCTAC 59.053 41.667 0.00 0.00 0.00 2.59
462 470 5.186256 TGGCCCACAAATTGAGTTATCTA 57.814 39.130 0.00 0.00 0.00 1.98
463 471 4.046286 TGGCCCACAAATTGAGTTATCT 57.954 40.909 0.00 0.00 0.00 1.98
464 472 5.507985 GCTATGGCCCACAAATTGAGTTATC 60.508 44.000 0.00 0.00 0.00 1.75
465 473 4.342092 GCTATGGCCCACAAATTGAGTTAT 59.658 41.667 0.00 0.00 0.00 1.89
466 474 3.699038 GCTATGGCCCACAAATTGAGTTA 59.301 43.478 0.00 0.00 0.00 2.24
467 475 2.497273 GCTATGGCCCACAAATTGAGTT 59.503 45.455 0.00 0.00 0.00 3.01
468 476 2.102578 GCTATGGCCCACAAATTGAGT 58.897 47.619 0.00 0.00 0.00 3.41
469 477 2.101783 TGCTATGGCCCACAAATTGAG 58.898 47.619 0.00 0.00 37.74 3.02
470 478 2.228545 TGCTATGGCCCACAAATTGA 57.771 45.000 0.00 0.00 37.74 2.57
471 479 3.547054 AATGCTATGGCCCACAAATTG 57.453 42.857 0.00 0.00 37.74 2.32
472 480 4.961730 TCTAAATGCTATGGCCCACAAATT 59.038 37.500 0.00 0.00 37.74 1.82
473 481 4.545678 TCTAAATGCTATGGCCCACAAAT 58.454 39.130 0.00 0.00 37.74 2.32
474 482 3.953612 CTCTAAATGCTATGGCCCACAAA 59.046 43.478 0.00 0.00 37.74 2.83
475 483 3.201930 TCTCTAAATGCTATGGCCCACAA 59.798 43.478 0.00 0.00 37.74 3.33
476 484 2.777114 TCTCTAAATGCTATGGCCCACA 59.223 45.455 0.00 0.00 37.74 4.17
477 485 3.492102 TCTCTAAATGCTATGGCCCAC 57.508 47.619 0.00 0.00 37.74 4.61
478 486 3.652387 TCATCTCTAAATGCTATGGCCCA 59.348 43.478 0.00 0.00 37.74 5.36
479 487 4.292186 TCATCTCTAAATGCTATGGCCC 57.708 45.455 0.00 0.00 37.74 5.80
480 488 6.017275 GCATATCATCTCTAAATGCTATGGCC 60.017 42.308 0.00 0.00 39.80 5.36
481 489 6.957150 GCATATCATCTCTAAATGCTATGGC 58.043 40.000 0.00 0.00 39.80 4.40
494 502 7.756272 CAGTATCACAAGAGAGCATATCATCTC 59.244 40.741 5.81 5.81 41.90 2.75
495 503 7.309928 CCAGTATCACAAGAGAGCATATCATCT 60.310 40.741 0.00 0.00 0.00 2.90
496 504 6.812656 CCAGTATCACAAGAGAGCATATCATC 59.187 42.308 0.00 0.00 0.00 2.92
497 505 6.496218 TCCAGTATCACAAGAGAGCATATCAT 59.504 38.462 0.00 0.00 0.00 2.45
498 506 5.835280 TCCAGTATCACAAGAGAGCATATCA 59.165 40.000 0.00 0.00 0.00 2.15
499 507 6.155827 GTCCAGTATCACAAGAGAGCATATC 58.844 44.000 0.00 0.00 0.00 1.63
500 508 5.278709 CGTCCAGTATCACAAGAGAGCATAT 60.279 44.000 0.00 0.00 0.00 1.78
501 509 4.036852 CGTCCAGTATCACAAGAGAGCATA 59.963 45.833 0.00 0.00 0.00 3.14
502 510 3.181482 CGTCCAGTATCACAAGAGAGCAT 60.181 47.826 0.00 0.00 0.00 3.79
503 511 2.164422 CGTCCAGTATCACAAGAGAGCA 59.836 50.000 0.00 0.00 0.00 4.26
504 512 2.480416 CCGTCCAGTATCACAAGAGAGC 60.480 54.545 0.00 0.00 0.00 4.09
505 513 3.017442 TCCGTCCAGTATCACAAGAGAG 58.983 50.000 0.00 0.00 0.00 3.20
506 514 2.753452 GTCCGTCCAGTATCACAAGAGA 59.247 50.000 0.00 0.00 0.00 3.10
507 515 2.478031 CGTCCGTCCAGTATCACAAGAG 60.478 54.545 0.00 0.00 0.00 2.85
508 516 1.471287 CGTCCGTCCAGTATCACAAGA 59.529 52.381 0.00 0.00 0.00 3.02
509 517 1.471287 TCGTCCGTCCAGTATCACAAG 59.529 52.381 0.00 0.00 0.00 3.16
510 518 1.536940 TCGTCCGTCCAGTATCACAA 58.463 50.000 0.00 0.00 0.00 3.33
511 519 1.758936 ATCGTCCGTCCAGTATCACA 58.241 50.000 0.00 0.00 0.00 3.58
512 520 3.976793 TTATCGTCCGTCCAGTATCAC 57.023 47.619 0.00 0.00 0.00 3.06
513 521 4.440525 GGTTTTATCGTCCGTCCAGTATCA 60.441 45.833 0.00 0.00 0.00 2.15
514 522 4.047142 GGTTTTATCGTCCGTCCAGTATC 58.953 47.826 0.00 0.00 0.00 2.24
515 523 3.448301 TGGTTTTATCGTCCGTCCAGTAT 59.552 43.478 0.00 0.00 0.00 2.12
516 524 2.824936 TGGTTTTATCGTCCGTCCAGTA 59.175 45.455 0.00 0.00 0.00 2.74
517 525 1.619827 TGGTTTTATCGTCCGTCCAGT 59.380 47.619 0.00 0.00 0.00 4.00
518 526 2.373540 TGGTTTTATCGTCCGTCCAG 57.626 50.000 0.00 0.00 0.00 3.86
519 527 2.234168 TGATGGTTTTATCGTCCGTCCA 59.766 45.455 0.00 0.00 36.69 4.02
520 528 2.896168 TGATGGTTTTATCGTCCGTCC 58.104 47.619 0.00 0.00 36.69 4.79
521 529 4.147653 CGTATGATGGTTTTATCGTCCGTC 59.852 45.833 0.00 0.00 37.66 4.79
522 530 4.046462 CGTATGATGGTTTTATCGTCCGT 58.954 43.478 0.00 0.00 0.00 4.69
523 531 3.121126 GCGTATGATGGTTTTATCGTCCG 60.121 47.826 0.00 0.00 31.21 4.79
524 532 3.805422 TGCGTATGATGGTTTTATCGTCC 59.195 43.478 0.00 0.00 0.00 4.79
525 533 4.743151 TCTGCGTATGATGGTTTTATCGTC 59.257 41.667 0.00 0.00 0.00 4.20
526 534 4.689071 TCTGCGTATGATGGTTTTATCGT 58.311 39.130 0.00 0.00 0.00 3.73
527 535 4.376413 GCTCTGCGTATGATGGTTTTATCG 60.376 45.833 0.00 0.00 0.00 2.92
528 536 4.511454 TGCTCTGCGTATGATGGTTTTATC 59.489 41.667 0.00 0.00 0.00 1.75
529 537 4.450976 TGCTCTGCGTATGATGGTTTTAT 58.549 39.130 0.00 0.00 0.00 1.40
530 538 3.867857 TGCTCTGCGTATGATGGTTTTA 58.132 40.909 0.00 0.00 0.00 1.52
531 539 2.679837 CTGCTCTGCGTATGATGGTTTT 59.320 45.455 0.00 0.00 0.00 2.43
532 540 2.283298 CTGCTCTGCGTATGATGGTTT 58.717 47.619 0.00 0.00 0.00 3.27
533 541 1.208052 ACTGCTCTGCGTATGATGGTT 59.792 47.619 0.00 0.00 0.00 3.67
534 542 0.826715 ACTGCTCTGCGTATGATGGT 59.173 50.000 0.00 0.00 0.00 3.55
535 543 1.945387 AACTGCTCTGCGTATGATGG 58.055 50.000 0.00 0.00 0.00 3.51
536 544 2.034254 CGAAACTGCTCTGCGTATGATG 60.034 50.000 0.00 0.00 0.00 3.07
537 545 2.196749 CGAAACTGCTCTGCGTATGAT 58.803 47.619 0.00 0.00 0.00 2.45
538 546 1.629013 CGAAACTGCTCTGCGTATGA 58.371 50.000 0.00 0.00 0.00 2.15
539 547 0.025513 GCGAAACTGCTCTGCGTATG 59.974 55.000 0.00 0.00 0.00 2.39
540 548 0.389817 TGCGAAACTGCTCTGCGTAT 60.390 50.000 0.00 0.00 35.36 3.06
541 549 0.389817 ATGCGAAACTGCTCTGCGTA 60.390 50.000 0.00 0.00 35.36 4.42
542 550 1.630244 GATGCGAAACTGCTCTGCGT 61.630 55.000 0.00 0.00 35.36 5.24
543 551 1.059994 GATGCGAAACTGCTCTGCG 59.940 57.895 0.00 0.00 35.36 5.18
544 552 1.023513 AGGATGCGAAACTGCTCTGC 61.024 55.000 0.00 0.00 35.36 4.26
545 553 1.005340 GAGGATGCGAAACTGCTCTG 58.995 55.000 0.00 0.00 35.36 3.35
546 554 0.610174 TGAGGATGCGAAACTGCTCT 59.390 50.000 0.00 0.00 35.36 4.09
547 555 1.129437 GTTGAGGATGCGAAACTGCTC 59.871 52.381 0.00 0.00 35.36 4.26
548 556 1.160137 GTTGAGGATGCGAAACTGCT 58.840 50.000 0.00 0.00 35.36 4.24
549 557 0.874390 TGTTGAGGATGCGAAACTGC 59.126 50.000 6.62 0.00 0.00 4.40
550 558 6.603237 TTATATGTTGAGGATGCGAAACTG 57.397 37.500 6.62 0.00 0.00 3.16
551 559 6.238103 CGTTTATATGTTGAGGATGCGAAACT 60.238 38.462 6.62 0.00 0.00 2.66
552 560 5.901884 CGTTTATATGTTGAGGATGCGAAAC 59.098 40.000 0.00 0.00 0.00 2.78
553 561 5.583061 ACGTTTATATGTTGAGGATGCGAAA 59.417 36.000 0.00 0.00 0.00 3.46
554 562 5.113383 ACGTTTATATGTTGAGGATGCGAA 58.887 37.500 0.00 0.00 0.00 4.70
555 563 4.689071 ACGTTTATATGTTGAGGATGCGA 58.311 39.130 0.00 0.00 0.00 5.10
556 564 5.690409 AGTACGTTTATATGTTGAGGATGCG 59.310 40.000 0.00 0.00 0.00 4.73
557 565 6.145696 GGAGTACGTTTATATGTTGAGGATGC 59.854 42.308 0.00 0.00 0.00 3.91
558 566 7.434492 AGGAGTACGTTTATATGTTGAGGATG 58.566 38.462 0.00 0.00 0.00 3.51
559 567 7.598759 AGGAGTACGTTTATATGTTGAGGAT 57.401 36.000 0.00 0.00 0.00 3.24
560 568 7.557358 TGTAGGAGTACGTTTATATGTTGAGGA 59.443 37.037 0.00 0.00 30.95 3.71
561 569 7.646922 GTGTAGGAGTACGTTTATATGTTGAGG 59.353 40.741 0.00 0.00 30.95 3.86
562 570 7.375280 CGTGTAGGAGTACGTTTATATGTTGAG 59.625 40.741 0.00 0.00 35.70 3.02
563 571 7.188834 CGTGTAGGAGTACGTTTATATGTTGA 58.811 38.462 0.00 0.00 35.70 3.18
564 572 6.075205 GCGTGTAGGAGTACGTTTATATGTTG 60.075 42.308 0.00 0.00 41.98 3.33
565 573 5.973565 GCGTGTAGGAGTACGTTTATATGTT 59.026 40.000 0.00 0.00 41.98 2.71
566 574 5.514279 GCGTGTAGGAGTACGTTTATATGT 58.486 41.667 0.00 0.00 41.98 2.29
567 575 4.610122 CGCGTGTAGGAGTACGTTTATATG 59.390 45.833 0.00 0.00 41.98 1.78
568 576 4.776743 CGCGTGTAGGAGTACGTTTATAT 58.223 43.478 0.00 0.00 41.98 0.86
725 1584 1.558233 AAGGGTCTTGACTACCGAGG 58.442 55.000 0.61 0.00 37.93 4.63
729 1588 3.409570 GGTTGAAAGGGTCTTGACTACC 58.590 50.000 0.61 0.00 36.19 3.18
751 1610 1.604604 TCTGGTAGTTTTGGCACTGC 58.395 50.000 0.00 0.00 0.00 4.40
792 1656 1.323271 TGATGAGTGGACTCGCTCCC 61.323 60.000 2.43 0.00 46.84 4.30
824 1688 0.032952 TTATAGCAAGGCTACCGCGG 59.967 55.000 26.86 26.86 44.24 6.46
829 1693 3.315418 GCGGTACTTATAGCAAGGCTAC 58.685 50.000 0.00 0.00 44.24 3.58
834 1698 2.503920 ACGGCGGTACTTATAGCAAG 57.496 50.000 13.24 0.00 0.00 4.01
887 1751 1.008329 GTTGCTGATCTGCTCTGCTC 58.992 55.000 23.02 6.00 46.04 4.26
941 1810 7.710766 TCAATCAATTCGATCTTGATCTCAG 57.289 36.000 18.63 11.92 41.33 3.35
942 1811 8.148999 AGATCAATCAATTCGATCTTGATCTCA 58.851 33.333 20.23 11.92 46.52 3.27
1193 2070 4.680537 ACTGGAGGCGGACGAGGT 62.681 66.667 0.00 0.00 0.00 3.85
1581 2497 3.256960 GGGCTGGGGAGGTTGTCA 61.257 66.667 0.00 0.00 0.00 3.58
1611 2527 2.745515 ACTTCTGCCTAAGGACGTTC 57.254 50.000 0.00 0.00 0.00 3.95
1644 2560 1.730593 CGAAATCGGTGTCGTCGAGC 61.731 60.000 0.00 0.00 40.09 5.03
1687 2603 5.215845 TGATGGTGGATCAGTAATGGAGTA 58.784 41.667 0.00 0.00 36.06 2.59
1726 2642 8.306761 TCGTGTACTAACATATAGAGACCGATA 58.693 37.037 0.00 0.00 38.08 2.92
1727 2643 7.117523 GTCGTGTACTAACATATAGAGACCGAT 59.882 40.741 0.00 0.00 38.08 4.18
1745 2661 0.179179 GTACCGCTCCAGTCGTGTAC 60.179 60.000 0.00 0.00 31.74 2.90
1746 2662 0.606130 TGTACCGCTCCAGTCGTGTA 60.606 55.000 0.00 0.00 0.00 2.90
1763 2679 2.313234 CGAGACGTACGTGTCATTTGT 58.687 47.619 35.26 7.67 41.41 2.83
2138 3057 2.292267 GTTGCCCATCTTGATCATCGT 58.708 47.619 0.00 0.00 0.00 3.73
2173 3092 3.023735 ACCTCCCCCATGCTTCCC 61.024 66.667 0.00 0.00 0.00 3.97
2232 3151 3.509575 TCCTTTGAACAACAAACAGCACT 59.490 39.130 0.00 0.00 42.57 4.40
2308 3239 3.997021 ACATGAACTCTTCAACGACCATC 59.003 43.478 0.00 0.00 43.95 3.51
2342 3273 5.468409 TCAGAACATTTTGAGACGCATTACA 59.532 36.000 0.00 0.00 0.00 2.41
2347 3278 6.552859 TTATTCAGAACATTTTGAGACGCA 57.447 33.333 0.00 0.00 0.00 5.24
2355 3286 8.650490 AGTTGGGACATTTATTCAGAACATTTT 58.350 29.630 0.00 0.00 39.30 1.82
2466 3398 4.037565 CGTATGCACATCCTAGGTGACTAA 59.962 45.833 9.08 0.00 43.83 2.24
2496 3428 5.047660 AGGAAAAATAACGTATTGCTGGCAA 60.048 36.000 10.48 10.48 40.47 4.52
2508 3440 7.277981 TCTCTTGCTTAGCTAGGAAAAATAACG 59.722 37.037 14.90 0.00 33.45 3.18
2516 3448 5.246203 TGAGTTTCTCTTGCTTAGCTAGGAA 59.754 40.000 14.90 13.44 32.69 3.36
2557 3505 3.323403 AGCTAGGGTATGAGCTCAACATC 59.677 47.826 22.50 11.87 46.08 3.06
2559 3507 2.752030 AGCTAGGGTATGAGCTCAACA 58.248 47.619 22.50 9.03 46.08 3.33
2661 3609 6.568869 AGCTATTAGAGTTGTCATCTGTCAC 58.431 40.000 0.00 0.00 0.00 3.67
2683 3631 9.273016 TGGTATAATTTCTGCTCTTTATGTAGC 57.727 33.333 0.00 0.00 39.25 3.58
2747 3770 2.742053 GCTCCATGTAAATGTGTGTCGT 59.258 45.455 0.00 0.00 0.00 4.34
2801 3825 6.638610 TCTTTGCTTGGAATGTTTTTCTTCA 58.361 32.000 0.00 0.00 0.00 3.02
2920 3944 6.861055 CCATTGTGTTGTCATGTTAAGTAACC 59.139 38.462 0.00 0.00 35.37 2.85
2923 3947 5.532779 TGCCATTGTGTTGTCATGTTAAGTA 59.467 36.000 0.00 0.00 0.00 2.24
2988 4052 1.959282 CTTGCACTTCTTTTGCCTCCT 59.041 47.619 0.00 0.00 39.39 3.69
3195 4261 8.783093 TCGAGTTGTCATTCAGTTTGATAATTT 58.217 29.630 0.00 0.00 0.00 1.82


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

AutoCloner maintained by Alex Coulton.