Multiple sequence alignment - TraesCS5B01G197800

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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 TraesCS5B01G197800 chr5B 100.000 4238 0 0 1 4238 356719932 356715695 0.000000e+00 7827.0
1 TraesCS5B01G197800 chr5A 95.842 2814 102 7 946 3750 404230607 404227800 0.000000e+00 4534.0
2 TraesCS5B01G197800 chr5A 94.758 496 19 4 3743 4238 404227612 404227124 0.000000e+00 765.0
3 TraesCS5B01G197800 chr5A 85.430 453 26 12 2 424 404231439 404230997 6.510000e-118 435.0
4 TraesCS5B01G197800 chr5A 84.104 346 42 9 3893 4237 664818426 664818093 5.290000e-84 322.0
5 TraesCS5B01G197800 chr5A 86.624 157 13 5 654 810 404230909 404230761 2.620000e-37 167.0
6 TraesCS5B01G197800 chr5A 85.714 63 7 2 3032 3093 136618385 136618446 9.840000e-07 65.8
7 TraesCS5B01G197800 chr5D 94.722 2785 90 25 1118 3887 310696788 310694046 0.000000e+00 4276.0
8 TraesCS5B01G197800 chr5D 86.602 515 24 12 5 492 310698071 310697575 1.040000e-145 527.0
9 TraesCS5B01G197800 chr5D 86.147 462 23 15 580 1005 310697548 310697092 1.070000e-125 460.0
10 TraesCS5B01G197800 chr3B 85.950 2000 266 12 1188 3175 689420448 689418452 0.000000e+00 2122.0
11 TraesCS5B01G197800 chr3A 86.000 2000 259 17 1191 3175 657615624 657613631 0.000000e+00 2122.0
12 TraesCS5B01G197800 chr3D 85.408 2049 265 23 1152 3175 522950517 522948478 0.000000e+00 2097.0
13 TraesCS5B01G197800 chr7B 77.657 1289 236 31 1927 3171 3087848 3086568 0.000000e+00 737.0
14 TraesCS5B01G197800 chr1D 87.032 347 32 8 3893 4237 162051977 162052312 3.090000e-101 379.0
15 TraesCS5B01G197800 chr1B 86.455 347 34 9 3893 4237 240503583 240503248 6.690000e-98 368.0
16 TraesCS5B01G197800 chr1A 87.227 321 30 8 3893 4213 222368480 222368171 5.210000e-94 355.0
17 TraesCS5B01G197800 chr4B 83.954 349 44 12 3893 4237 616314880 616314540 1.470000e-84 324.0
18 TraesCS5B01G197800 chr2D 82.421 347 44 11 3893 4236 599920652 599920984 1.930000e-73 287.0
19 TraesCS5B01G197800 chr4D 81.924 343 42 11 3891 4229 4126341 4126667 5.400000e-69 272.0
20 TraesCS5B01G197800 chr7D 81.214 346 50 12 3893 4236 95694147 95693815 9.040000e-67 265.0


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 TraesCS5B01G197800 chr5B 356715695 356719932 4237 True 7827.000000 7827 100.0000 1 4238 1 chr5B.!!$R1 4237
1 TraesCS5B01G197800 chr5A 404227124 404231439 4315 True 1475.250000 4534 90.6635 2 4238 4 chr5A.!!$R2 4236
2 TraesCS5B01G197800 chr5D 310694046 310698071 4025 True 1754.333333 4276 89.1570 5 3887 3 chr5D.!!$R1 3882
3 TraesCS5B01G197800 chr3B 689418452 689420448 1996 True 2122.000000 2122 85.9500 1188 3175 1 chr3B.!!$R1 1987
4 TraesCS5B01G197800 chr3A 657613631 657615624 1993 True 2122.000000 2122 86.0000 1191 3175 1 chr3A.!!$R1 1984
5 TraesCS5B01G197800 chr3D 522948478 522950517 2039 True 2097.000000 2097 85.4080 1152 3175 1 chr3D.!!$R1 2023
6 TraesCS5B01G197800 chr7B 3086568 3087848 1280 True 737.000000 737 77.6570 1927 3171 1 chr7B.!!$R1 1244

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
372 410 0.035056 AGCATAGCACACTTGGGGAC 60.035 55.000 0.00 0.0 0.00 4.46 F
429 521 0.035630 ACATCAGCTTCCAGTGAGCC 60.036 55.000 0.38 0.0 41.03 4.70 F
525 617 0.108019 GGGTGGTTCTTCTCCGTGTT 59.892 55.000 0.00 0.0 0.00 3.32 F
1058 1220 0.319555 CGCTTCGTCTCCTCCAAACA 60.320 55.000 0.00 0.0 0.00 2.83 F
1076 1238 0.893270 CACCCATTCAACCTCGCCAA 60.893 55.000 0.00 0.0 0.00 4.52 F
2742 3129 1.067212 GACACACACCTCGTCTCTGTT 59.933 52.381 0.00 0.0 0.00 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2280 2660 0.443869 CCTTCAAGAACCGATGCACG 59.556 55.000 0.00 0.00 42.18 5.34 R
2517 2897 0.107017 CAACCATGGAGTAGGCCTGG 60.107 60.000 21.47 9.76 34.43 4.45 R
2586 2966 3.779759 CTTCCAGAGATCGAAAGTCCTG 58.220 50.000 0.00 0.00 0.00 3.86 R
2721 3108 0.668535 CAGAGACGAGGTGTGTGTCA 59.331 55.000 0.00 0.00 35.09 3.58 R
2757 3144 2.393768 CGCCAGCATCTCAAACGCT 61.394 57.895 0.00 0.00 36.10 5.07 R
3891 4497 0.459489 ATTTATGCCCGCGTTGCAAT 59.541 45.000 21.89 10.35 42.92 3.56 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
80 81 4.662145 AGACAAACTTTTCTCAAGTTGCG 58.338 39.130 0.00 0.00 40.10 4.85
85 86 2.933906 ACTTTTCTCAAGTTGCGACGAA 59.066 40.909 0.00 0.00 0.00 3.85
180 192 2.034939 GCCATCGCCATGATTCATTTCA 59.965 45.455 0.00 0.00 34.13 2.69
210 222 0.612229 TGCTCTCCCAAGCTTCTCTG 59.388 55.000 0.00 0.00 42.94 3.35
211 223 0.107752 GCTCTCCCAAGCTTCTCTGG 60.108 60.000 0.00 0.00 39.27 3.86
212 224 1.566211 CTCTCCCAAGCTTCTCTGGA 58.434 55.000 3.60 3.90 0.00 3.86
213 225 1.905215 CTCTCCCAAGCTTCTCTGGAA 59.095 52.381 3.60 0.00 0.00 3.53
241 253 0.531974 ACACGTTTCGGTGATGCTGT 60.532 50.000 0.00 0.00 40.38 4.40
257 285 2.671963 GTGGTGAACCTTCCCGGC 60.672 66.667 0.00 0.00 36.82 6.13
276 304 0.109132 CGGGACAAATGCTTGCTTCC 60.109 55.000 0.00 0.00 35.84 3.46
287 315 3.240134 TTGCTTCCCGCGCTCTTCT 62.240 57.895 5.56 0.00 43.27 2.85
288 316 2.435059 GCTTCCCGCGCTCTTCTT 60.435 61.111 5.56 0.00 0.00 2.52
372 410 0.035056 AGCATAGCACACTTGGGGAC 60.035 55.000 0.00 0.00 0.00 4.46
408 446 5.057149 GGAAACGCAACTACTCCATCATAT 58.943 41.667 0.00 0.00 0.00 1.78
424 516 5.306394 CATCATATCACATCAGCTTCCAGT 58.694 41.667 0.00 0.00 0.00 4.00
425 517 4.700700 TCATATCACATCAGCTTCCAGTG 58.299 43.478 0.00 0.00 0.00 3.66
426 518 4.406649 TCATATCACATCAGCTTCCAGTGA 59.593 41.667 9.61 9.61 42.62 3.41
427 519 2.756840 TCACATCAGCTTCCAGTGAG 57.243 50.000 0.00 0.00 34.59 3.51
429 521 0.035630 ACATCAGCTTCCAGTGAGCC 60.036 55.000 0.38 0.00 41.03 4.70
430 522 0.747283 CATCAGCTTCCAGTGAGCCC 60.747 60.000 0.38 0.00 41.03 5.19
432 524 4.400961 AGCTTCCAGTGAGCCCGC 62.401 66.667 0.38 0.00 41.03 6.13
434 526 4.020617 CTTCCAGTGAGCCCGCCA 62.021 66.667 0.00 0.00 0.00 5.69
435 527 3.329889 TTCCAGTGAGCCCGCCAT 61.330 61.111 0.00 0.00 0.00 4.40
436 528 3.329542 TTCCAGTGAGCCCGCCATC 62.330 63.158 0.00 0.00 0.00 3.51
437 529 4.100084 CCAGTGAGCCCGCCATCA 62.100 66.667 0.00 0.00 0.00 3.07
438 530 2.046023 CAGTGAGCCCGCCATCAA 60.046 61.111 0.00 0.00 0.00 2.57
439 531 1.675310 CAGTGAGCCCGCCATCAAA 60.675 57.895 0.00 0.00 0.00 2.69
440 532 1.675641 AGTGAGCCCGCCATCAAAC 60.676 57.895 0.00 0.00 0.00 2.93
441 533 2.361104 TGAGCCCGCCATCAAACC 60.361 61.111 0.00 0.00 0.00 3.27
442 534 2.361104 GAGCCCGCCATCAAACCA 60.361 61.111 0.00 0.00 0.00 3.67
443 535 2.361610 AGCCCGCCATCAAACCAG 60.362 61.111 0.00 0.00 0.00 4.00
444 536 4.133796 GCCCGCCATCAAACCAGC 62.134 66.667 0.00 0.00 0.00 4.85
445 537 2.361610 CCCGCCATCAAACCAGCT 60.362 61.111 0.00 0.00 0.00 4.24
446 538 2.409870 CCCGCCATCAAACCAGCTC 61.410 63.158 0.00 0.00 0.00 4.09
447 539 1.675310 CCGCCATCAAACCAGCTCA 60.675 57.895 0.00 0.00 0.00 4.26
448 540 1.503542 CGCCATCAAACCAGCTCAC 59.496 57.895 0.00 0.00 0.00 3.51
449 541 1.503542 GCCATCAAACCAGCTCACG 59.496 57.895 0.00 0.00 0.00 4.35
450 542 1.237285 GCCATCAAACCAGCTCACGT 61.237 55.000 0.00 0.00 0.00 4.49
451 543 0.798776 CCATCAAACCAGCTCACGTC 59.201 55.000 0.00 0.00 0.00 4.34
452 544 1.511850 CATCAAACCAGCTCACGTCA 58.488 50.000 0.00 0.00 0.00 4.35
453 545 1.872952 CATCAAACCAGCTCACGTCAA 59.127 47.619 0.00 0.00 0.00 3.18
454 546 2.031258 TCAAACCAGCTCACGTCAAA 57.969 45.000 0.00 0.00 0.00 2.69
455 547 1.939934 TCAAACCAGCTCACGTCAAAG 59.060 47.619 0.00 0.00 0.00 2.77
456 548 1.670811 CAAACCAGCTCACGTCAAAGT 59.329 47.619 0.00 0.00 0.00 2.66
457 549 1.583054 AACCAGCTCACGTCAAAGTC 58.417 50.000 0.00 0.00 0.00 3.01
458 550 0.597637 ACCAGCTCACGTCAAAGTCG 60.598 55.000 0.00 0.00 0.00 4.18
459 551 1.284982 CCAGCTCACGTCAAAGTCGG 61.285 60.000 0.00 0.00 0.00 4.79
460 552 1.006102 AGCTCACGTCAAAGTCGGG 60.006 57.895 0.00 0.00 0.00 5.14
461 553 2.668280 GCTCACGTCAAAGTCGGGC 61.668 63.158 0.00 0.00 0.00 6.13
462 554 1.300620 CTCACGTCAAAGTCGGGCA 60.301 57.895 0.00 0.00 0.00 5.36
463 555 1.284982 CTCACGTCAAAGTCGGGCAG 61.285 60.000 0.00 0.00 0.00 4.85
464 556 2.030562 ACGTCAAAGTCGGGCAGG 59.969 61.111 0.00 0.00 0.00 4.85
465 557 2.742372 CGTCAAAGTCGGGCAGGG 60.742 66.667 0.00 0.00 0.00 4.45
466 558 2.359975 GTCAAAGTCGGGCAGGGG 60.360 66.667 0.00 0.00 0.00 4.79
467 559 3.646715 TCAAAGTCGGGCAGGGGG 61.647 66.667 0.00 0.00 0.00 5.40
482 574 4.754667 GGGCGTCCGTCCAGGTTC 62.755 72.222 5.28 0.00 40.19 3.62
483 575 3.692406 GGCGTCCGTCCAGGTTCT 61.692 66.667 0.00 0.00 41.99 3.01
484 576 2.432628 GCGTCCGTCCAGGTTCTG 60.433 66.667 0.00 0.00 41.99 3.02
489 581 2.100916 CGTCCGTCCAGGTTCTGATAAT 59.899 50.000 0.00 0.00 41.99 1.28
504 596 7.012044 GGTTCTGATAATAAGGTACGTGCATTT 59.988 37.037 9.18 3.45 0.00 2.32
506 598 8.812147 TCTGATAATAAGGTACGTGCATTTAG 57.188 34.615 9.18 0.00 0.00 1.85
507 599 7.870954 TCTGATAATAAGGTACGTGCATTTAGG 59.129 37.037 9.18 0.00 0.00 2.69
508 600 6.932400 TGATAATAAGGTACGTGCATTTAGGG 59.068 38.462 9.18 0.00 0.00 3.53
509 601 4.765813 ATAAGGTACGTGCATTTAGGGT 57.234 40.909 9.18 0.00 0.00 4.34
513 605 2.429478 GTACGTGCATTTAGGGTGGTT 58.571 47.619 0.00 0.00 0.00 3.67
514 606 1.530323 ACGTGCATTTAGGGTGGTTC 58.470 50.000 0.00 0.00 0.00 3.62
515 607 1.073284 ACGTGCATTTAGGGTGGTTCT 59.927 47.619 0.00 0.00 0.00 3.01
516 608 2.159382 CGTGCATTTAGGGTGGTTCTT 58.841 47.619 0.00 0.00 0.00 2.52
517 609 2.161609 CGTGCATTTAGGGTGGTTCTTC 59.838 50.000 0.00 0.00 0.00 2.87
518 610 3.421844 GTGCATTTAGGGTGGTTCTTCT 58.578 45.455 0.00 0.00 0.00 2.85
519 611 3.440522 GTGCATTTAGGGTGGTTCTTCTC 59.559 47.826 0.00 0.00 0.00 2.87
520 612 3.017442 GCATTTAGGGTGGTTCTTCTCC 58.983 50.000 0.00 0.00 0.00 3.71
521 613 3.270877 CATTTAGGGTGGTTCTTCTCCG 58.729 50.000 0.00 0.00 0.00 4.63
522 614 2.019807 TTAGGGTGGTTCTTCTCCGT 57.980 50.000 0.00 0.00 0.00 4.69
523 615 1.263356 TAGGGTGGTTCTTCTCCGTG 58.737 55.000 0.00 0.00 0.00 4.94
524 616 0.763223 AGGGTGGTTCTTCTCCGTGT 60.763 55.000 0.00 0.00 0.00 4.49
525 617 0.108019 GGGTGGTTCTTCTCCGTGTT 59.892 55.000 0.00 0.00 0.00 3.32
526 618 1.509703 GGTGGTTCTTCTCCGTGTTC 58.490 55.000 0.00 0.00 0.00 3.18
527 619 1.070289 GGTGGTTCTTCTCCGTGTTCT 59.930 52.381 0.00 0.00 0.00 3.01
528 620 2.484947 GGTGGTTCTTCTCCGTGTTCTT 60.485 50.000 0.00 0.00 0.00 2.52
529 621 3.243975 GGTGGTTCTTCTCCGTGTTCTTA 60.244 47.826 0.00 0.00 0.00 2.10
530 622 4.562963 GGTGGTTCTTCTCCGTGTTCTTAT 60.563 45.833 0.00 0.00 0.00 1.73
531 623 4.626172 GTGGTTCTTCTCCGTGTTCTTATC 59.374 45.833 0.00 0.00 0.00 1.75
532 624 4.182339 GGTTCTTCTCCGTGTTCTTATCC 58.818 47.826 0.00 0.00 0.00 2.59
533 625 4.182339 GTTCTTCTCCGTGTTCTTATCCC 58.818 47.826 0.00 0.00 0.00 3.85
534 626 2.764572 TCTTCTCCGTGTTCTTATCCCC 59.235 50.000 0.00 0.00 0.00 4.81
535 627 2.241281 TCTCCGTGTTCTTATCCCCA 57.759 50.000 0.00 0.00 0.00 4.96
536 628 2.542550 TCTCCGTGTTCTTATCCCCAA 58.457 47.619 0.00 0.00 0.00 4.12
537 629 2.907696 TCTCCGTGTTCTTATCCCCAAA 59.092 45.455 0.00 0.00 0.00 3.28
538 630 3.055385 TCTCCGTGTTCTTATCCCCAAAG 60.055 47.826 0.00 0.00 0.00 2.77
539 631 2.640826 TCCGTGTTCTTATCCCCAAAGT 59.359 45.455 0.00 0.00 0.00 2.66
540 632 3.839490 TCCGTGTTCTTATCCCCAAAGTA 59.161 43.478 0.00 0.00 0.00 2.24
541 633 3.937079 CCGTGTTCTTATCCCCAAAGTAC 59.063 47.826 0.00 0.00 0.00 2.73
542 634 3.615496 CGTGTTCTTATCCCCAAAGTACG 59.385 47.826 0.00 0.00 29.65 3.67
543 635 3.937079 GTGTTCTTATCCCCAAAGTACGG 59.063 47.826 0.00 0.00 29.65 4.02
544 636 3.839490 TGTTCTTATCCCCAAAGTACGGA 59.161 43.478 0.00 0.00 29.65 4.69
545 637 4.286549 TGTTCTTATCCCCAAAGTACGGAA 59.713 41.667 0.00 0.00 29.65 4.30
546 638 5.045432 TGTTCTTATCCCCAAAGTACGGAAT 60.045 40.000 0.00 0.00 29.65 3.01
547 639 6.156602 TGTTCTTATCCCCAAAGTACGGAATA 59.843 38.462 0.00 0.00 29.65 1.75
548 640 6.415206 TCTTATCCCCAAAGTACGGAATAG 57.585 41.667 0.00 0.00 0.00 1.73
549 641 5.901276 TCTTATCCCCAAAGTACGGAATAGT 59.099 40.000 0.00 0.00 0.00 2.12
550 642 7.068702 TCTTATCCCCAAAGTACGGAATAGTA 58.931 38.462 0.00 0.00 0.00 1.82
551 643 5.541953 ATCCCCAAAGTACGGAATAGTAC 57.458 43.478 0.00 0.00 45.31 2.73
552 644 3.706086 TCCCCAAAGTACGGAATAGTACC 59.294 47.826 3.95 0.00 45.91 3.34
553 645 3.451902 CCCCAAAGTACGGAATAGTACCA 59.548 47.826 3.95 0.00 45.91 3.25
554 646 4.102054 CCCCAAAGTACGGAATAGTACCAT 59.898 45.833 3.95 0.00 45.91 3.55
555 647 5.305128 CCCCAAAGTACGGAATAGTACCATA 59.695 44.000 3.95 0.00 45.91 2.74
556 648 6.013984 CCCCAAAGTACGGAATAGTACCATAT 60.014 42.308 3.95 0.00 45.91 1.78
557 649 7.178983 CCCCAAAGTACGGAATAGTACCATATA 59.821 40.741 3.95 0.00 45.91 0.86
558 650 8.755977 CCCAAAGTACGGAATAGTACCATATAT 58.244 37.037 3.95 0.00 45.91 0.86
559 651 9.582431 CCAAAGTACGGAATAGTACCATATATG 57.418 37.037 5.68 5.68 45.91 1.78
587 679 9.801873 ATATGCATAACCAAACAAGTTGTTATC 57.198 29.630 21.14 6.38 40.14 1.75
589 681 6.017026 TGCATAACCAAACAAGTTGTTATCGA 60.017 34.615 21.14 7.12 40.14 3.59
597 689 5.473796 ACAAGTTGTTATCGACGTTTTGT 57.526 34.783 1.64 0.00 33.46 2.83
625 718 4.759183 GCAATGCCAATTGGTAAAGGAAAA 59.241 37.500 25.19 1.61 42.98 2.29
626 719 5.415389 GCAATGCCAATTGGTAAAGGAAAAT 59.585 36.000 25.19 0.65 42.98 1.82
742 835 0.391263 GGTGTCGGGTCAATCTCACC 60.391 60.000 0.00 0.00 38.47 4.02
747 840 1.275291 TCGGGTCAATCTCACCTTCAC 59.725 52.381 0.00 0.00 33.96 3.18
832 940 8.226448 CACAAACTAAAGTCTTCTTCTATGCAG 58.774 37.037 0.00 0.00 32.90 4.41
834 942 8.439286 CAAACTAAAGTCTTCTTCTATGCAGAC 58.561 37.037 0.00 0.00 36.66 3.51
889 1002 3.061848 CGCCAGCCCGGACAAAAT 61.062 61.111 0.73 0.00 36.56 1.82
891 1004 1.671166 GCCAGCCCGGACAAAATTT 59.329 52.632 0.73 0.00 36.56 1.82
892 1005 0.892063 GCCAGCCCGGACAAAATTTA 59.108 50.000 0.73 0.00 36.56 1.40
893 1006 1.480545 GCCAGCCCGGACAAAATTTAT 59.519 47.619 0.73 0.00 36.56 1.40
894 1007 2.093711 GCCAGCCCGGACAAAATTTATT 60.094 45.455 0.73 0.00 36.56 1.40
895 1008 3.618752 GCCAGCCCGGACAAAATTTATTT 60.619 43.478 0.73 0.00 36.56 1.40
898 1019 6.166982 CCAGCCCGGACAAAATTTATTTTTA 58.833 36.000 0.73 0.00 35.78 1.52
900 1024 7.982354 CCAGCCCGGACAAAATTTATTTTTATA 59.018 33.333 0.73 0.00 35.78 0.98
901 1025 8.813282 CAGCCCGGACAAAATTTATTTTTATAC 58.187 33.333 0.73 0.00 37.86 1.47
928 1052 5.869649 AAAAACAGCCTGGAAAATACAGT 57.130 34.783 0.00 0.00 34.16 3.55
930 1054 5.959618 AAACAGCCTGGAAAATACAGTAC 57.040 39.130 0.00 0.00 34.16 2.73
931 1055 3.951663 ACAGCCTGGAAAATACAGTACC 58.048 45.455 0.00 0.00 34.16 3.34
933 1057 4.018415 ACAGCCTGGAAAATACAGTACCAT 60.018 41.667 0.00 0.00 34.16 3.55
935 1059 5.418840 CAGCCTGGAAAATACAGTACCATTT 59.581 40.000 0.00 0.00 34.16 2.32
936 1060 6.016555 AGCCTGGAAAATACAGTACCATTTT 58.983 36.000 0.00 9.12 37.12 1.82
1007 1169 4.508128 GGACTCGGCGATGCGGAA 62.508 66.667 11.27 0.00 37.43 4.30
1017 1179 1.002366 CGATGCGGAAGTGGAAGAAG 58.998 55.000 0.00 0.00 0.00 2.85
1018 1180 1.404181 CGATGCGGAAGTGGAAGAAGA 60.404 52.381 0.00 0.00 0.00 2.87
1033 1195 2.417558 GAAGAAGCTGGGCCACACCT 62.418 60.000 0.00 0.00 39.10 4.00
1042 1204 4.021925 GCCACACCTTCTCCCGCT 62.022 66.667 0.00 0.00 0.00 5.52
1058 1220 0.319555 CGCTTCGTCTCCTCCAAACA 60.320 55.000 0.00 0.00 0.00 2.83
1074 1236 0.893727 AACACCCATTCAACCTCGCC 60.894 55.000 0.00 0.00 0.00 5.54
1076 1238 0.893270 CACCCATTCAACCTCGCCAA 60.893 55.000 0.00 0.00 0.00 4.52
1530 1898 2.701780 CGACCTCTCCGTCACCCTG 61.702 68.421 0.00 0.00 32.74 4.45
2517 2897 1.354368 TGGGGAAGGAAGTTCATGTCC 59.646 52.381 5.01 7.58 36.82 4.02
2622 3002 1.379576 GAAGCTGCATTCCTGGGCT 60.380 57.895 1.02 0.00 34.52 5.19
2721 3108 2.114616 CTCCTTGGACTGAGCTATGGT 58.885 52.381 0.00 0.00 0.00 3.55
2742 3129 1.067212 GACACACACCTCGTCTCTGTT 59.933 52.381 0.00 0.00 0.00 3.16
3256 3661 2.076863 GATGGCGCTGAGTACAAGTTT 58.923 47.619 7.64 0.00 0.00 2.66
3318 3723 0.243636 CAAGTGAAAATGCCCGGGTC 59.756 55.000 24.63 15.35 0.00 4.46
3395 3800 8.234887 TGTACTTTAAACATCAGTACATCACG 57.765 34.615 11.37 0.00 45.07 4.35
3403 3808 5.478407 ACATCAGTACATCACGAATTCACA 58.522 37.500 6.22 0.00 0.00 3.58
3417 3822 7.119116 TCACGAATTCACAATGTTATAGTGCTT 59.881 33.333 6.22 0.00 33.44 3.91
3419 3824 7.962918 ACGAATTCACAATGTTATAGTGCTTTC 59.037 33.333 6.22 0.00 33.44 2.62
3420 3825 8.177663 CGAATTCACAATGTTATAGTGCTTTCT 58.822 33.333 6.22 0.00 33.44 2.52
3460 3868 3.411446 TGGTGTCACAGTCAATTCATCC 58.589 45.455 5.12 0.00 0.00 3.51
3486 3894 6.695713 GGAGGTTACATTGTGTTCAAAAGTTC 59.304 38.462 0.00 0.00 37.11 3.01
3492 3900 6.463360 ACATTGTGTTCAAAAGTTCCAGTTT 58.537 32.000 0.00 0.00 37.11 2.66
3493 3901 7.607250 ACATTGTGTTCAAAAGTTCCAGTTTA 58.393 30.769 0.00 0.00 37.11 2.01
3494 3902 7.544217 ACATTGTGTTCAAAAGTTCCAGTTTAC 59.456 33.333 0.00 0.00 37.11 2.01
3560 3968 7.284489 GGTGTTGCATTTCTGGGTATAATAGAA 59.716 37.037 0.00 0.00 0.00 2.10
3643 4051 6.456795 TGTTGTTTTGTTGGTCACATGATA 57.543 33.333 0.00 0.00 34.43 2.15
3859 4465 0.669318 TAAACGCCACTTCAGCTCCG 60.669 55.000 0.00 0.00 0.00 4.63
3891 4497 0.041535 ATCCCATGCCTTTTGCTCCA 59.958 50.000 0.00 0.00 42.00 3.86
3922 4528 4.034048 GCGGGCATAAATATATTCTCGTGG 59.966 45.833 0.00 0.00 32.18 4.94
3943 4549 2.162208 GTGCAACATCAATCATGTCCGT 59.838 45.455 0.00 0.00 45.77 4.69
4017 4623 2.112998 TGATTTGAGTACGGGTAGGGG 58.887 52.381 0.00 0.00 0.00 4.79
4030 4636 1.076513 GGTAGGGGAAGGCAAGGAAAA 59.923 52.381 0.00 0.00 0.00 2.29
4041 4647 7.446931 GGGAAGGCAAGGAAAATTTTGATTTAA 59.553 33.333 8.47 0.00 0.00 1.52
4048 4654 9.076781 CAAGGAAAATTTTGATTTAATTGGGGT 57.923 29.630 8.47 0.00 0.00 4.95
4067 4673 7.142995 TGGGGTTTTTGGTAAGATTTGATTT 57.857 32.000 0.00 0.00 0.00 2.17
4069 4675 7.147479 TGGGGTTTTTGGTAAGATTTGATTTGA 60.147 33.333 0.00 0.00 0.00 2.69
4070 4676 7.882791 GGGGTTTTTGGTAAGATTTGATTTGAT 59.117 33.333 0.00 0.00 0.00 2.57
4071 4677 9.283768 GGGTTTTTGGTAAGATTTGATTTGATT 57.716 29.630 0.00 0.00 0.00 2.57
4100 4706 2.581246 GGGTAGGGGAAGACAAGGAAAT 59.419 50.000 0.00 0.00 0.00 2.17
4110 4716 7.039011 GGGGAAGACAAGGAAATTTCTAATTGT 60.039 37.037 24.10 24.10 33.97 2.71
4115 4721 8.912988 AGACAAGGAAATTTCTAATTGTGTTGA 58.087 29.630 26.67 0.00 32.61 3.18
4117 4723 8.912988 ACAAGGAAATTTCTAATTGTGTTGAGA 58.087 29.630 23.64 0.00 31.88 3.27
4182 4788 1.154197 GGCGTGGTTCTGGAAAGTAC 58.846 55.000 0.00 0.00 0.00 2.73
4183 4789 1.154197 GCGTGGTTCTGGAAAGTACC 58.846 55.000 0.00 0.00 0.00 3.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
80 81 3.374745 TGGTGTTCGTTACTTCTTCGTC 58.625 45.455 0.00 0.00 0.00 4.20
85 86 2.476821 CCGTTGGTGTTCGTTACTTCT 58.523 47.619 0.00 0.00 0.00 2.85
180 192 1.428912 TGGGAGAGCAAGGAACCAAAT 59.571 47.619 0.00 0.00 0.00 2.32
210 222 2.032290 CGAAACGTGTTTCCTTCCTTCC 60.032 50.000 17.27 0.00 44.43 3.46
211 223 2.032290 CCGAAACGTGTTTCCTTCCTTC 60.032 50.000 17.27 0.00 44.43 3.46
212 224 1.944709 CCGAAACGTGTTTCCTTCCTT 59.055 47.619 17.27 0.00 44.43 3.36
213 225 1.134310 ACCGAAACGTGTTTCCTTCCT 60.134 47.619 17.27 0.00 44.43 3.36
241 253 4.323477 CGCCGGGAAGGTTCACCA 62.323 66.667 2.18 0.00 43.70 4.17
257 285 0.109132 GGAAGCAAGCATTTGTCCCG 60.109 55.000 0.00 0.00 36.65 5.14
276 304 0.667487 TGAGTTGAAGAAGAGCGCGG 60.667 55.000 8.83 0.00 0.00 6.46
284 312 7.255242 GGTGATTGATTGAGTTGAGTTGAAGAA 60.255 37.037 0.00 0.00 0.00 2.52
287 315 6.016860 CAGGTGATTGATTGAGTTGAGTTGAA 60.017 38.462 0.00 0.00 0.00 2.69
288 316 5.471116 CAGGTGATTGATTGAGTTGAGTTGA 59.529 40.000 0.00 0.00 0.00 3.18
338 370 6.998074 TGTGCTATGCTATTATTGTTAGCCTT 59.002 34.615 0.66 0.00 41.10 4.35
346 378 5.048504 CCCCAAGTGTGCTATGCTATTATTG 60.049 44.000 0.00 0.00 0.00 1.90
408 446 1.338484 GCTCACTGGAAGCTGATGTGA 60.338 52.381 10.31 10.31 37.60 3.58
424 516 2.361104 GGTTTGATGGCGGGCTCA 60.361 61.111 2.38 1.45 0.00 4.26
425 517 2.361104 TGGTTTGATGGCGGGCTC 60.361 61.111 2.38 0.00 0.00 4.70
426 518 2.361610 CTGGTTTGATGGCGGGCT 60.362 61.111 2.38 0.00 0.00 5.19
427 519 4.133796 GCTGGTTTGATGGCGGGC 62.134 66.667 0.00 0.00 0.00 6.13
429 521 1.675310 TGAGCTGGTTTGATGGCGG 60.675 57.895 0.00 0.00 0.00 6.13
430 522 1.503542 GTGAGCTGGTTTGATGGCG 59.496 57.895 0.00 0.00 0.00 5.69
432 524 0.798776 GACGTGAGCTGGTTTGATGG 59.201 55.000 0.00 0.00 0.00 3.51
433 525 1.511850 TGACGTGAGCTGGTTTGATG 58.488 50.000 0.00 0.00 0.00 3.07
434 526 2.254546 TTGACGTGAGCTGGTTTGAT 57.745 45.000 0.00 0.00 0.00 2.57
435 527 1.939934 CTTTGACGTGAGCTGGTTTGA 59.060 47.619 0.00 0.00 0.00 2.69
436 528 1.670811 ACTTTGACGTGAGCTGGTTTG 59.329 47.619 0.00 0.00 0.00 2.93
437 529 1.940613 GACTTTGACGTGAGCTGGTTT 59.059 47.619 0.00 0.00 0.00 3.27
438 530 1.583054 GACTTTGACGTGAGCTGGTT 58.417 50.000 0.00 0.00 0.00 3.67
439 531 0.597637 CGACTTTGACGTGAGCTGGT 60.598 55.000 0.00 0.00 0.00 4.00
440 532 1.284982 CCGACTTTGACGTGAGCTGG 61.285 60.000 0.00 0.00 0.00 4.85
441 533 1.284982 CCCGACTTTGACGTGAGCTG 61.285 60.000 0.00 0.00 0.00 4.24
442 534 1.006102 CCCGACTTTGACGTGAGCT 60.006 57.895 0.00 0.00 0.00 4.09
443 535 2.668280 GCCCGACTTTGACGTGAGC 61.668 63.158 0.00 0.00 0.00 4.26
444 536 1.284982 CTGCCCGACTTTGACGTGAG 61.285 60.000 0.00 0.00 0.00 3.51
445 537 1.300620 CTGCCCGACTTTGACGTGA 60.301 57.895 0.00 0.00 0.00 4.35
446 538 2.317609 CCTGCCCGACTTTGACGTG 61.318 63.158 0.00 0.00 0.00 4.49
447 539 2.030562 CCTGCCCGACTTTGACGT 59.969 61.111 0.00 0.00 0.00 4.34
448 540 2.742372 CCCTGCCCGACTTTGACG 60.742 66.667 0.00 0.00 0.00 4.35
449 541 2.359975 CCCCTGCCCGACTTTGAC 60.360 66.667 0.00 0.00 0.00 3.18
450 542 3.646715 CCCCCTGCCCGACTTTGA 61.647 66.667 0.00 0.00 0.00 2.69
465 557 4.754667 GAACCTGGACGGACGCCC 62.755 72.222 0.00 0.00 36.31 6.13
466 558 3.692406 AGAACCTGGACGGACGCC 61.692 66.667 0.00 0.00 36.31 5.68
467 559 2.227089 ATCAGAACCTGGACGGACGC 62.227 60.000 0.00 0.00 36.31 5.19
468 560 1.100510 TATCAGAACCTGGACGGACG 58.899 55.000 0.00 0.00 36.31 4.79
469 561 3.821421 ATTATCAGAACCTGGACGGAC 57.179 47.619 0.00 0.00 36.31 4.79
470 562 4.344102 CCTTATTATCAGAACCTGGACGGA 59.656 45.833 0.00 0.75 36.31 4.69
471 563 4.101119 ACCTTATTATCAGAACCTGGACGG 59.899 45.833 0.00 0.00 39.35 4.79
472 564 5.277857 ACCTTATTATCAGAACCTGGACG 57.722 43.478 0.00 0.00 31.51 4.79
473 565 6.183360 ACGTACCTTATTATCAGAACCTGGAC 60.183 42.308 0.00 0.00 31.51 4.02
474 566 5.895534 ACGTACCTTATTATCAGAACCTGGA 59.104 40.000 0.00 0.00 31.51 3.86
475 567 5.983720 CACGTACCTTATTATCAGAACCTGG 59.016 44.000 0.00 0.00 31.51 4.45
476 568 5.462398 GCACGTACCTTATTATCAGAACCTG 59.538 44.000 0.00 0.00 0.00 4.00
477 569 5.128171 TGCACGTACCTTATTATCAGAACCT 59.872 40.000 0.00 0.00 0.00 3.50
478 570 5.353938 TGCACGTACCTTATTATCAGAACC 58.646 41.667 0.00 0.00 0.00 3.62
479 571 7.478520 AATGCACGTACCTTATTATCAGAAC 57.521 36.000 0.00 0.00 0.00 3.01
480 572 9.256477 CTAAATGCACGTACCTTATTATCAGAA 57.744 33.333 0.00 0.00 0.00 3.02
481 573 7.870954 CCTAAATGCACGTACCTTATTATCAGA 59.129 37.037 0.00 0.00 0.00 3.27
482 574 7.117812 CCCTAAATGCACGTACCTTATTATCAG 59.882 40.741 0.00 0.00 0.00 2.90
483 575 6.932400 CCCTAAATGCACGTACCTTATTATCA 59.068 38.462 0.00 0.00 0.00 2.15
484 576 6.932960 ACCCTAAATGCACGTACCTTATTATC 59.067 38.462 0.00 0.00 0.00 1.75
489 581 3.369681 CCACCCTAAATGCACGTACCTTA 60.370 47.826 0.00 0.00 0.00 2.69
504 596 1.263356 CACGGAGAAGAACCACCCTA 58.737 55.000 0.00 0.00 0.00 3.53
506 598 0.108019 AACACGGAGAAGAACCACCC 59.892 55.000 0.00 0.00 0.00 4.61
507 599 1.070289 AGAACACGGAGAAGAACCACC 59.930 52.381 0.00 0.00 0.00 4.61
508 600 2.528041 AGAACACGGAGAAGAACCAC 57.472 50.000 0.00 0.00 0.00 4.16
509 601 4.322499 GGATAAGAACACGGAGAAGAACCA 60.322 45.833 0.00 0.00 0.00 3.67
513 605 2.764572 GGGGATAAGAACACGGAGAAGA 59.235 50.000 0.00 0.00 0.00 2.87
514 606 2.500098 TGGGGATAAGAACACGGAGAAG 59.500 50.000 0.00 0.00 0.00 2.85
515 607 2.542550 TGGGGATAAGAACACGGAGAA 58.457 47.619 0.00 0.00 0.00 2.87
516 608 2.241281 TGGGGATAAGAACACGGAGA 57.759 50.000 0.00 0.00 0.00 3.71
517 609 3.270877 CTTTGGGGATAAGAACACGGAG 58.729 50.000 0.00 0.00 0.00 4.63
518 610 2.640826 ACTTTGGGGATAAGAACACGGA 59.359 45.455 0.00 0.00 0.00 4.69
519 611 3.067684 ACTTTGGGGATAAGAACACGG 57.932 47.619 0.00 0.00 0.00 4.94
520 612 3.615496 CGTACTTTGGGGATAAGAACACG 59.385 47.826 0.00 0.00 0.00 4.49
521 613 3.937079 CCGTACTTTGGGGATAAGAACAC 59.063 47.826 0.00 0.00 0.00 3.32
522 614 3.839490 TCCGTACTTTGGGGATAAGAACA 59.161 43.478 0.00 0.00 0.00 3.18
523 615 4.476628 TCCGTACTTTGGGGATAAGAAC 57.523 45.455 0.00 0.00 0.00 3.01
524 616 5.703730 ATTCCGTACTTTGGGGATAAGAA 57.296 39.130 0.00 0.00 0.00 2.52
525 617 5.901276 ACTATTCCGTACTTTGGGGATAAGA 59.099 40.000 0.00 0.00 0.00 2.10
526 618 6.170846 ACTATTCCGTACTTTGGGGATAAG 57.829 41.667 0.00 0.00 0.00 1.73
527 619 6.041979 GGTACTATTCCGTACTTTGGGGATAA 59.958 42.308 0.00 0.00 39.67 1.75
528 620 5.539955 GGTACTATTCCGTACTTTGGGGATA 59.460 44.000 0.00 0.00 39.67 2.59
529 621 4.346127 GGTACTATTCCGTACTTTGGGGAT 59.654 45.833 0.00 0.00 39.67 3.85
530 622 3.706086 GGTACTATTCCGTACTTTGGGGA 59.294 47.826 0.00 0.00 39.67 4.81
531 623 3.451902 TGGTACTATTCCGTACTTTGGGG 59.548 47.826 0.00 0.00 39.67 4.96
532 624 4.741321 TGGTACTATTCCGTACTTTGGG 57.259 45.455 0.00 0.00 39.67 4.12
533 625 9.582431 CATATATGGTACTATTCCGTACTTTGG 57.418 37.037 4.68 0.00 39.67 3.28
557 649 8.748412 ACAACTTGTTTGGTTATGCATATACAT 58.252 29.630 7.36 0.00 39.84 2.29
558 650 8.116651 ACAACTTGTTTGGTTATGCATATACA 57.883 30.769 7.36 6.98 39.84 2.29
559 651 8.980143 AACAACTTGTTTGGTTATGCATATAC 57.020 30.769 7.36 8.59 37.26 1.47
561 653 9.801873 GATAACAACTTGTTTGGTTATGCATAT 57.198 29.630 12.35 0.00 41.45 1.78
562 654 7.965655 CGATAACAACTTGTTTGGTTATGCATA 59.034 33.333 12.35 1.16 41.45 3.14
563 655 6.806249 CGATAACAACTTGTTTGGTTATGCAT 59.194 34.615 12.35 3.79 41.45 3.96
564 656 6.017026 TCGATAACAACTTGTTTGGTTATGCA 60.017 34.615 12.35 0.00 41.45 3.96
565 657 6.304683 GTCGATAACAACTTGTTTGGTTATGC 59.695 38.462 12.35 0.04 41.45 3.14
566 658 6.518395 CGTCGATAACAACTTGTTTGGTTATG 59.482 38.462 12.35 0.00 41.45 1.90
567 659 6.203338 ACGTCGATAACAACTTGTTTGGTTAT 59.797 34.615 12.35 4.31 41.45 1.89
568 660 5.523188 ACGTCGATAACAACTTGTTTGGTTA 59.477 36.000 12.35 0.00 41.45 2.85
569 661 4.333372 ACGTCGATAACAACTTGTTTGGTT 59.667 37.500 12.35 0.00 41.45 3.67
570 662 3.872771 ACGTCGATAACAACTTGTTTGGT 59.127 39.130 12.35 0.32 41.45 3.67
571 663 4.461992 ACGTCGATAACAACTTGTTTGG 57.538 40.909 12.35 3.34 41.45 3.28
572 664 6.249682 ACAAAACGTCGATAACAACTTGTTTG 59.750 34.615 12.35 3.80 41.45 2.93
573 665 6.316319 ACAAAACGTCGATAACAACTTGTTT 58.684 32.000 12.35 1.47 41.45 2.83
574 666 5.871539 ACAAAACGTCGATAACAACTTGTT 58.128 33.333 11.82 11.82 43.88 2.83
575 667 5.473796 ACAAAACGTCGATAACAACTTGT 57.526 34.783 0.00 0.00 0.00 3.16
576 668 9.246423 CTTATACAAAACGTCGATAACAACTTG 57.754 33.333 0.00 0.00 0.00 3.16
577 669 7.953710 GCTTATACAAAACGTCGATAACAACTT 59.046 33.333 0.00 0.00 0.00 2.66
578 670 7.116662 TGCTTATACAAAACGTCGATAACAACT 59.883 33.333 0.00 0.00 0.00 3.16
579 671 7.228840 TGCTTATACAAAACGTCGATAACAAC 58.771 34.615 0.00 0.00 0.00 3.32
585 677 5.263185 GCATTGCTTATACAAAACGTCGAT 58.737 37.500 0.00 0.00 32.27 3.59
587 679 3.783943 GGCATTGCTTATACAAAACGTCG 59.216 43.478 8.82 0.00 32.27 5.12
589 681 4.775058 TGGCATTGCTTATACAAAACGT 57.225 36.364 8.82 0.00 32.27 3.99
597 689 6.609212 TCCTTTACCAATTGGCATTGCTTATA 59.391 34.615 24.79 2.97 38.88 0.98
652 745 3.530260 GCGGCATGAACATGGGGG 61.530 66.667 15.15 0.00 39.16 5.40
747 840 1.279527 TTCCTGCGCGTAGACAAACG 61.280 55.000 26.43 7.67 45.58 3.60
811 904 7.233389 TGTCTGCATAGAAGAAGACTTTAGT 57.767 36.000 3.94 0.00 39.80 2.24
873 986 0.892063 TAAATTTTGTCCGGGCTGGC 59.108 50.000 7.97 3.47 37.80 4.85
926 1050 5.909477 TGATCCGTCGAATAAAATGGTACT 58.091 37.500 0.00 0.00 0.00 2.73
927 1051 5.981315 TCTGATCCGTCGAATAAAATGGTAC 59.019 40.000 0.00 0.00 0.00 3.34
928 1052 6.151663 TCTGATCCGTCGAATAAAATGGTA 57.848 37.500 0.00 0.00 0.00 3.25
930 1054 5.696270 TGATCTGATCCGTCGAATAAAATGG 59.304 40.000 14.71 0.00 0.00 3.16
931 1055 6.769608 TGATCTGATCCGTCGAATAAAATG 57.230 37.500 14.71 0.00 0.00 2.32
933 1057 5.234329 GCTTGATCTGATCCGTCGAATAAAA 59.766 40.000 14.71 0.00 0.00 1.52
935 1059 4.299155 GCTTGATCTGATCCGTCGAATAA 58.701 43.478 14.71 0.00 0.00 1.40
936 1060 3.305403 GGCTTGATCTGATCCGTCGAATA 60.305 47.826 14.71 0.00 0.00 1.75
1007 1169 0.037447 GCCCAGCTTCTTCTTCCACT 59.963 55.000 0.00 0.00 0.00 4.00
1033 1195 1.304217 AGGAGACGAAGCGGGAGAA 60.304 57.895 0.00 0.00 0.00 2.87
1042 1204 0.395312 GGGTGTTTGGAGGAGACGAA 59.605 55.000 0.00 0.00 0.00 3.85
1058 1220 0.609131 CTTGGCGAGGTTGAATGGGT 60.609 55.000 0.00 0.00 0.00 4.51
1116 1469 1.815421 GTGAGATGAATGCGGCGGT 60.815 57.895 9.78 0.00 0.00 5.68
1530 1898 3.066233 GAGCGACGGGGAGAAGTCC 62.066 68.421 0.00 0.00 43.05 3.85
1692 2060 2.401766 GGTCTGGCCGCTGTTCATG 61.402 63.158 0.00 0.00 0.00 3.07
1738 2106 4.385405 GCTGGACTGCGACAGGCT 62.385 66.667 11.63 0.00 39.87 4.58
2280 2660 0.443869 CCTTCAAGAACCGATGCACG 59.556 55.000 0.00 0.00 42.18 5.34
2517 2897 0.107017 CAACCATGGAGTAGGCCTGG 60.107 60.000 21.47 9.76 34.43 4.45
2586 2966 3.779759 CTTCCAGAGATCGAAAGTCCTG 58.220 50.000 0.00 0.00 0.00 3.86
2622 3002 1.241990 CGAACTCCGTCAGTCCTCCA 61.242 60.000 0.00 0.00 32.30 3.86
2643 3030 3.626996 CTCCTGGTTGCGCCCATCA 62.627 63.158 4.18 0.00 36.04 3.07
2721 3108 0.668535 CAGAGACGAGGTGTGTGTCA 59.331 55.000 0.00 0.00 35.09 3.58
2757 3144 2.393768 CGCCAGCATCTCAAACGCT 61.394 57.895 0.00 0.00 36.10 5.07
3256 3661 1.229951 AGCATTCCACCTCCCCAGA 60.230 57.895 0.00 0.00 0.00 3.86
3395 3800 9.846248 AAGAAAGCACTATAACATTGTGAATTC 57.154 29.630 0.00 0.00 38.08 2.17
3460 3868 4.822036 TTTGAACACAATGTAACCTCCG 57.178 40.909 0.00 0.00 0.00 4.63
3492 3900 6.042777 GCATAGATTGAACACAGCAGTAGTA 58.957 40.000 0.00 0.00 0.00 1.82
3493 3901 4.872691 GCATAGATTGAACACAGCAGTAGT 59.127 41.667 0.00 0.00 0.00 2.73
3494 3902 5.114780 AGCATAGATTGAACACAGCAGTAG 58.885 41.667 0.00 0.00 0.00 2.57
3560 3968 3.273434 CGGTTGTCTGATGTGGAATCAT 58.727 45.455 0.00 0.00 0.00 2.45
3643 4051 3.254903 GGCTTCCTTTGTTTATCGGTTGT 59.745 43.478 0.00 0.00 0.00 3.32
3819 4424 7.693951 CGTTTATCCAATTACTCTTTCAAGCTG 59.306 37.037 0.00 0.00 0.00 4.24
3859 4465 3.192466 GCATGGGATTTTGCTGATCAAC 58.808 45.455 0.00 0.00 35.95 3.18
3891 4497 0.459489 ATTTATGCCCGCGTTGCAAT 59.541 45.000 21.89 10.35 42.92 3.56
3900 4506 5.063438 CACCACGAGAATATATTTATGCCCG 59.937 44.000 0.00 1.14 0.00 6.13
3922 4528 2.162208 ACGGACATGATTGATGTTGCAC 59.838 45.455 0.00 0.00 45.90 4.57
3943 4549 8.141909 CGGTGAATGTAACCTATTCTAGATTGA 58.858 37.037 0.00 0.00 35.94 2.57
3998 4604 2.391678 TCCCCTACCCGTACTCAAATC 58.608 52.381 0.00 0.00 0.00 2.17
4030 4636 8.774546 ACCAAAAACCCCAATTAAATCAAAAT 57.225 26.923 0.00 0.00 0.00 1.82
4041 4647 6.755542 TCAAATCTTACCAAAAACCCCAAT 57.244 33.333 0.00 0.00 0.00 3.16
4067 4673 3.961239 TCCCCTACCCATATCCAAATCA 58.039 45.455 0.00 0.00 0.00 2.57
4069 4675 4.354087 GTCTTCCCCTACCCATATCCAAAT 59.646 45.833 0.00 0.00 0.00 2.32
4070 4676 3.720002 GTCTTCCCCTACCCATATCCAAA 59.280 47.826 0.00 0.00 0.00 3.28
4071 4677 3.311778 TGTCTTCCCCTACCCATATCCAA 60.312 47.826 0.00 0.00 0.00 3.53
4072 4678 2.251605 TGTCTTCCCCTACCCATATCCA 59.748 50.000 0.00 0.00 0.00 3.41
4073 4679 2.986050 TGTCTTCCCCTACCCATATCC 58.014 52.381 0.00 0.00 0.00 2.59
4074 4680 3.328050 CCTTGTCTTCCCCTACCCATATC 59.672 52.174 0.00 0.00 0.00 1.63
4075 4681 3.050564 TCCTTGTCTTCCCCTACCCATAT 60.051 47.826 0.00 0.00 0.00 1.78


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

AutoCloner maintained by Alex Coulton.