Multiple sequence alignment - TraesCS2A01G532200

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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 TraesCS2A01G532200 chr2A 100.000 2258 0 0 1 2258 748697132 748699389 0.000000e+00 4170.0
1 TraesCS2A01G532200 chr2A 84.429 578 56 16 733 1276 748558017 748558594 2.550000e-149 538.0
2 TraesCS2A01G532200 chr2A 82.095 592 75 22 700 1276 748688222 748688797 5.640000e-131 477.0
3 TraesCS2A01G532200 chr2A 83.094 556 61 16 731 1258 748775743 748776293 2.030000e-130 475.0
4 TraesCS2A01G532200 chr2A 82.783 424 49 17 1001 1408 748685250 748685665 7.670000e-95 357.0
5 TraesCS2A01G532200 chr2A 85.124 121 15 1 779 896 748822715 748822835 1.100000e-23 121.0
6 TraesCS2A01G532200 chr2A 82.963 135 18 3 749 880 748198510 748198642 1.420000e-22 117.0
7 TraesCS2A01G532200 chr2A 90.164 61 3 3 1354 1414 748535330 748535387 2.400000e-10 76.8
8 TraesCS2A01G532200 chr2A 86.441 59 3 5 1351 1407 748558632 748558687 2.420000e-05 60.2
9 TraesCS2A01G532200 chr5D 88.772 668 46 7 1620 2258 299971855 299972522 0.000000e+00 791.0
10 TraesCS2A01G532200 chr5D 88.606 667 47 10 1620 2258 503340091 503339426 0.000000e+00 784.0
11 TraesCS2A01G532200 chr5D 88.323 668 49 7 1620 2258 6252623 6253290 0.000000e+00 774.0
12 TraesCS2A01G532200 chr5D 88.288 666 50 8 1620 2258 503314152 503313488 0.000000e+00 773.0
13 TraesCS2A01G532200 chr3A 88.772 668 46 7 1620 2258 105556304 105556971 0.000000e+00 791.0
14 TraesCS2A01G532200 chr3B 88.623 668 47 7 1620 2258 101925529 101924862 0.000000e+00 785.0
15 TraesCS2A01G532200 chr7B 88.490 669 47 8 1620 2258 662754381 662755049 0.000000e+00 782.0
16 TraesCS2A01G532200 chrUn 88.306 667 49 8 1620 2258 261568042 261568707 0.000000e+00 773.0
17 TraesCS2A01G532200 chr1B 88.174 668 50 8 1620 2258 633717624 633716957 0.000000e+00 769.0
18 TraesCS2A01G532200 chr5B 88.042 669 50 11 1620 2258 57514471 57515139 0.000000e+00 765.0
19 TraesCS2A01G532200 chr1A 88.193 559 37 7 1622 2151 554482662 554482104 6.800000e-180 640.0
20 TraesCS2A01G532200 chr2D 84.530 627 63 19 700 1303 618060416 618061031 6.950000e-165 590.0
21 TraesCS2A01G532200 chr2D 90.998 411 36 1 1556 1965 618074906 618075316 9.110000e-154 553.0
22 TraesCS2A01G532200 chr2D 83.268 508 52 14 929 1414 618004035 618004531 9.580000e-119 436.0
23 TraesCS2A01G532200 chr2D 80.602 598 60 30 1013 1562 618074284 618074873 5.800000e-111 411.0
24 TraesCS2A01G532200 chr2D 87.458 295 21 8 994 1272 618132561 618132855 2.160000e-85 326.0
25 TraesCS2A01G532200 chr2D 85.714 294 23 9 964 1248 587107477 587107194 2.190000e-75 292.0
26 TraesCS2A01G532200 chr2D 86.232 276 20 7 1001 1258 617957700 617957975 1.320000e-72 283.0
27 TraesCS2A01G532200 chr2D 84.615 273 27 5 1001 1258 617973052 617973324 8.000000e-65 257.0
28 TraesCS2A01G532200 chr2D 82.623 305 33 16 964 1258 617522499 617522793 3.720000e-63 252.0
29 TraesCS2A01G532200 chr2D 83.273 275 24 13 1001 1253 587114271 587113997 1.350000e-57 233.0
30 TraesCS2A01G532200 chr2D 84.663 163 22 3 731 890 618132277 618132439 2.320000e-35 159.0
31 TraesCS2A01G532200 chr2D 90.196 102 9 1 1175 1276 588529931 588530031 5.060000e-27 132.0
32 TraesCS2A01G532200 chr2D 91.011 89 8 0 1170 1258 618102498 618102586 1.100000e-23 121.0
33 TraesCS2A01G532200 chr2D 85.938 64 9 0 1351 1414 618061057 618061120 4.020000e-08 69.4
34 TraesCS2A01G532200 chr2B 79.846 908 85 49 731 1562 754015686 754016571 7.000000e-160 573.0
35 TraesCS2A01G532200 chr2B 82.301 565 58 22 749 1276 754004378 754004937 3.420000e-123 451.0
36 TraesCS2A01G532200 chr2B 79.115 565 82 22 1 548 754009368 754009913 7.670000e-95 357.0
37 TraesCS2A01G532200 chr2B 85.757 337 34 7 933 1258 754342739 754343072 5.970000e-91 344.0
38 TraesCS2A01G532200 chr2B 78.462 585 77 23 30 572 753994935 753995512 9.990000e-89 337.0
39 TraesCS2A01G532200 chr2B 82.972 323 31 10 1000 1306 708826663 708826349 1.030000e-68 270.0
40 TraesCS2A01G532200 chr2B 83.883 273 29 2 1001 1258 753952477 753952749 1.730000e-61 246.0
41 TraesCS2A01G532200 chr2B 88.889 153 13 3 1121 1272 753837788 753837639 3.830000e-43 185.0
42 TraesCS2A01G532200 chr2B 90.654 107 10 0 1456 1562 754142919 754143025 2.340000e-30 143.0
43 TraesCS2A01G532200 chr2B 80.233 172 28 3 731 896 754609677 754609848 8.470000e-25 124.0
44 TraesCS2A01G532200 chr7A 91.860 86 6 1 878 962 734078456 734078371 3.940000e-23 119.0


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 TraesCS2A01G532200 chr2A 748697132 748699389 2257 False 4170.0 4170 100.0000 1 2258 1 chr2A.!!$F3 2257
1 TraesCS2A01G532200 chr2A 748775743 748776293 550 False 475.0 475 83.0940 731 1258 1 chr2A.!!$F4 527
2 TraesCS2A01G532200 chr2A 748685250 748688797 3547 False 417.0 477 82.4390 700 1408 2 chr2A.!!$F7 708
3 TraesCS2A01G532200 chr2A 748558017 748558687 670 False 299.1 538 85.4350 733 1407 2 chr2A.!!$F6 674
4 TraesCS2A01G532200 chr5D 299971855 299972522 667 False 791.0 791 88.7720 1620 2258 1 chr5D.!!$F2 638
5 TraesCS2A01G532200 chr5D 503339426 503340091 665 True 784.0 784 88.6060 1620 2258 1 chr5D.!!$R2 638
6 TraesCS2A01G532200 chr5D 6252623 6253290 667 False 774.0 774 88.3230 1620 2258 1 chr5D.!!$F1 638
7 TraesCS2A01G532200 chr5D 503313488 503314152 664 True 773.0 773 88.2880 1620 2258 1 chr5D.!!$R1 638
8 TraesCS2A01G532200 chr3A 105556304 105556971 667 False 791.0 791 88.7720 1620 2258 1 chr3A.!!$F1 638
9 TraesCS2A01G532200 chr3B 101924862 101925529 667 True 785.0 785 88.6230 1620 2258 1 chr3B.!!$R1 638
10 TraesCS2A01G532200 chr7B 662754381 662755049 668 False 782.0 782 88.4900 1620 2258 1 chr7B.!!$F1 638
11 TraesCS2A01G532200 chrUn 261568042 261568707 665 False 773.0 773 88.3060 1620 2258 1 chrUn.!!$F1 638
12 TraesCS2A01G532200 chr1B 633716957 633717624 667 True 769.0 769 88.1740 1620 2258 1 chr1B.!!$R1 638
13 TraesCS2A01G532200 chr5B 57514471 57515139 668 False 765.0 765 88.0420 1620 2258 1 chr5B.!!$F1 638
14 TraesCS2A01G532200 chr1A 554482104 554482662 558 True 640.0 640 88.1930 1622 2151 1 chr1A.!!$R1 529
15 TraesCS2A01G532200 chr2D 618074284 618075316 1032 False 482.0 553 85.8000 1013 1965 2 chr2D.!!$F8 952
16 TraesCS2A01G532200 chr2D 618060416 618061120 704 False 329.7 590 85.2340 700 1414 2 chr2D.!!$F7 714
17 TraesCS2A01G532200 chr2D 618132277 618132855 578 False 242.5 326 86.0605 731 1272 2 chr2D.!!$F9 541
18 TraesCS2A01G532200 chr2B 754015686 754016571 885 False 573.0 573 79.8460 731 1562 1 chr2B.!!$F5 831
19 TraesCS2A01G532200 chr2B 754004378 754004937 559 False 451.0 451 82.3010 749 1276 1 chr2B.!!$F3 527
20 TraesCS2A01G532200 chr2B 754009368 754009913 545 False 357.0 357 79.1150 1 548 1 chr2B.!!$F4 547
21 TraesCS2A01G532200 chr2B 753994935 753995512 577 False 337.0 337 78.4620 30 572 1 chr2B.!!$F2 542

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
565 605 0.035152 ATGGATTTGCACGCTGAGGA 60.035 50.0 0.0 0.0 0.0 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1513 3926 0.380378 TGTTTTCTGCACAACGGCTC 59.62 50.0 0.0 0.0 34.04 4.7 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
52 54 8.656849 CGGGCTATGTCTATGTATGATTTTAAC 58.343 37.037 0.00 0.00 0.00 2.01
54 56 8.656849 GGCTATGTCTATGTATGATTTTAACCG 58.343 37.037 0.00 0.00 0.00 4.44
162 190 3.097614 ACCTTGAGTAGAACATACGCCT 58.902 45.455 0.00 0.00 0.00 5.52
165 193 4.202161 CCTTGAGTAGAACATACGCCTCAT 60.202 45.833 0.00 0.00 0.00 2.90
180 208 4.161333 CGCCTCATTCAACTCATTTTCAC 58.839 43.478 0.00 0.00 0.00 3.18
182 210 4.161333 CCTCATTCAACTCATTTTCACGC 58.839 43.478 0.00 0.00 0.00 5.34
184 212 4.786507 TCATTCAACTCATTTTCACGCAG 58.213 39.130 0.00 0.00 0.00 5.18
186 214 3.878086 TCAACTCATTTTCACGCAGAC 57.122 42.857 0.00 0.00 0.00 3.51
204 232 4.390297 GCAGACTGTCATTTCTAAGTCACC 59.610 45.833 10.88 0.00 41.22 4.02
212 240 2.845363 TTCTAAGTCACCCGGGAAAC 57.155 50.000 32.02 23.84 0.00 2.78
219 247 4.042271 AGTCACCCGGGAAACAATTATT 57.958 40.909 32.02 4.43 0.00 1.40
259 295 9.077674 CAACTTATGAGACATACAACTACTGTC 57.922 37.037 0.00 0.00 39.64 3.51
340 376 6.686630 TGAAACAGACAATCACAGTTTTTGT 58.313 32.000 0.00 0.00 41.94 2.83
346 382 8.131100 ACAGACAATCACAGTTTTTGTAGATTG 58.869 33.333 19.20 19.20 46.56 2.67
366 402 3.740115 TGTAAGAACTTCAAGGTGCCTC 58.260 45.455 0.00 0.00 0.00 4.70
371 407 2.341846 ACTTCAAGGTGCCTCGAAAA 57.658 45.000 0.00 0.00 0.00 2.29
375 411 2.151202 TCAAGGTGCCTCGAAAATGAC 58.849 47.619 0.00 0.00 0.00 3.06
390 426 2.039818 ATGACATGAGAGCAAGGCAG 57.960 50.000 0.00 0.00 33.69 4.85
393 429 0.252479 ACATGAGAGCAAGGCAGAGG 59.748 55.000 0.00 0.00 0.00 3.69
396 433 0.767375 TGAGAGCAAGGCAGAGGTTT 59.233 50.000 0.00 0.00 0.00 3.27
398 435 0.767375 AGAGCAAGGCAGAGGTTTGA 59.233 50.000 0.00 0.00 0.00 2.69
400 437 0.886490 AGCAAGGCAGAGGTTTGACG 60.886 55.000 0.00 0.00 0.00 4.35
402 439 0.588252 CAAGGCAGAGGTTTGACGTG 59.412 55.000 0.00 0.00 0.00 4.49
406 443 0.110056 GCAGAGGTTTGACGTGCATG 60.110 55.000 3.82 3.82 34.18 4.06
431 471 6.375945 AATGCACCAAAAAGAAATCAAACC 57.624 33.333 0.00 0.00 0.00 3.27
452 492 3.380320 CCACCGACCTCTTTTTGAAAAGT 59.620 43.478 14.03 0.00 44.37 2.66
462 502 9.283768 ACCTCTTTTTGAAAAGTCAACAAAATT 57.716 25.926 14.03 0.00 43.52 1.82
465 505 9.392021 TCTTTTTGAAAAGTCAACAAAATTTGC 57.608 25.926 14.03 0.00 43.52 3.68
467 507 8.499514 TTTTGAAAAGTCAACAAAATTTGCAC 57.500 26.923 5.52 0.64 43.52 4.57
468 508 5.852005 TGAAAAGTCAACAAAATTTGCACG 58.148 33.333 5.52 0.00 0.00 5.34
469 509 5.406780 TGAAAAGTCAACAAAATTTGCACGT 59.593 32.000 5.52 0.00 0.00 4.49
470 510 6.586463 TGAAAAGTCAACAAAATTTGCACGTA 59.414 30.769 5.52 0.00 0.00 3.57
471 511 6.567769 AAAGTCAACAAAATTTGCACGTAG 57.432 33.333 5.52 0.00 0.00 3.51
474 514 6.787225 AGTCAACAAAATTTGCACGTAGTAA 58.213 32.000 5.52 0.00 41.61 2.24
476 516 7.431084 AGTCAACAAAATTTGCACGTAGTAAAG 59.569 33.333 5.52 0.00 41.61 1.85
477 517 6.693545 TCAACAAAATTTGCACGTAGTAAAGG 59.306 34.615 5.52 0.00 41.61 3.11
478 518 6.380095 ACAAAATTTGCACGTAGTAAAGGA 57.620 33.333 5.52 0.00 41.61 3.36
479 519 6.797454 ACAAAATTTGCACGTAGTAAAGGAA 58.203 32.000 5.52 0.00 41.61 3.36
481 521 4.680171 ATTTGCACGTAGTAAAGGAAGC 57.320 40.909 0.00 0.00 41.61 3.86
482 522 2.823924 TGCACGTAGTAAAGGAAGCA 57.176 45.000 0.00 0.00 41.61 3.91
485 525 4.069304 TGCACGTAGTAAAGGAAGCAATT 58.931 39.130 0.00 0.00 41.61 2.32
486 526 4.517453 TGCACGTAGTAAAGGAAGCAATTT 59.483 37.500 0.00 0.00 41.61 1.82
488 528 6.373216 TGCACGTAGTAAAGGAAGCAATTTAT 59.627 34.615 0.00 0.00 41.61 1.40
490 530 8.392612 GCACGTAGTAAAGGAAGCAATTTATTA 58.607 33.333 0.00 0.00 41.61 0.98
523 563 9.912634 TTGTTGATCTCATTTCCTTAATCAAAC 57.087 29.630 0.00 0.00 35.56 2.93
524 564 9.076781 TGTTGATCTCATTTCCTTAATCAAACA 57.923 29.630 0.00 0.00 35.56 2.83
525 565 9.912634 GTTGATCTCATTTCCTTAATCAAACAA 57.087 29.630 0.00 0.00 35.56 2.83
558 598 7.194607 AGAGAAATACATATGGATTTGCACG 57.805 36.000 27.12 0.00 0.00 5.34
559 599 5.762045 AGAAATACATATGGATTTGCACGC 58.238 37.500 27.12 14.01 0.00 5.34
560 600 5.532406 AGAAATACATATGGATTTGCACGCT 59.468 36.000 27.12 15.80 0.00 5.07
561 601 4.754372 ATACATATGGATTTGCACGCTG 57.246 40.909 7.80 0.00 0.00 5.18
563 603 2.615447 ACATATGGATTTGCACGCTGAG 59.385 45.455 7.80 0.00 0.00 3.35
565 605 0.035152 ATGGATTTGCACGCTGAGGA 60.035 50.000 0.00 0.00 0.00 3.71
566 606 0.250684 TGGATTTGCACGCTGAGGAA 60.251 50.000 0.00 0.00 0.00 3.36
568 608 1.269448 GGATTTGCACGCTGAGGAAAA 59.731 47.619 0.00 0.00 30.18 2.29
609 649 8.990163 TGAAGAACTATAGTGTTTCCCTTTTT 57.010 30.769 19.25 1.45 0.00 1.94
610 650 9.063615 TGAAGAACTATAGTGTTTCCCTTTTTC 57.936 33.333 19.25 9.01 0.00 2.29
612 652 9.588096 AAGAACTATAGTGTTTCCCTTTTTCAT 57.412 29.630 6.06 0.00 0.00 2.57
613 653 9.014297 AGAACTATAGTGTTTCCCTTTTTCATG 57.986 33.333 6.06 0.00 0.00 3.07
614 654 8.934023 AACTATAGTGTTTCCCTTTTTCATGA 57.066 30.769 6.06 0.00 0.00 3.07
616 656 9.533831 ACTATAGTGTTTCCCTTTTTCATGAAT 57.466 29.630 9.40 0.00 0.00 2.57
652 692 2.624169 GTGTAAAGCTTCACGCCCA 58.376 52.632 1.49 0.00 40.39 5.36
653 693 1.165270 GTGTAAAGCTTCACGCCCAT 58.835 50.000 1.49 0.00 40.39 4.00
654 694 1.539827 GTGTAAAGCTTCACGCCCATT 59.460 47.619 1.49 0.00 40.39 3.16
656 696 2.745281 TGTAAAGCTTCACGCCCATTAC 59.255 45.455 0.00 0.00 40.39 1.89
657 697 2.200373 AAAGCTTCACGCCCATTACT 57.800 45.000 0.00 0.00 40.39 2.24
658 698 1.739067 AAGCTTCACGCCCATTACTC 58.261 50.000 0.00 0.00 40.39 2.59
659 699 0.460284 AGCTTCACGCCCATTACTCG 60.460 55.000 0.00 0.00 40.39 4.18
660 700 0.739813 GCTTCACGCCCATTACTCGT 60.740 55.000 0.00 0.00 36.84 4.18
661 701 1.470285 GCTTCACGCCCATTACTCGTA 60.470 52.381 0.00 0.00 34.81 3.43
662 702 2.802057 GCTTCACGCCCATTACTCGTAT 60.802 50.000 0.00 0.00 34.81 3.06
663 703 2.787601 TCACGCCCATTACTCGTATC 57.212 50.000 0.00 0.00 34.81 2.24
664 704 2.304092 TCACGCCCATTACTCGTATCT 58.696 47.619 0.00 0.00 34.81 1.98
665 705 2.292569 TCACGCCCATTACTCGTATCTC 59.707 50.000 0.00 0.00 34.81 2.75
666 706 2.034179 CACGCCCATTACTCGTATCTCA 59.966 50.000 0.00 0.00 34.81 3.27
668 708 3.057456 ACGCCCATTACTCGTATCTCATC 60.057 47.826 0.00 0.00 34.41 2.92
670 710 4.673061 CGCCCATTACTCGTATCTCATCTC 60.673 50.000 0.00 0.00 0.00 2.75
672 712 5.621104 GCCCATTACTCGTATCTCATCTCTG 60.621 48.000 0.00 0.00 0.00 3.35
675 715 1.876799 ACTCGTATCTCATCTCTGCCG 59.123 52.381 0.00 0.00 0.00 5.69
676 716 1.198867 CTCGTATCTCATCTCTGCCGG 59.801 57.143 0.00 0.00 0.00 6.13
678 718 0.965439 GTATCTCATCTCTGCCGGCT 59.035 55.000 29.70 2.88 0.00 5.52
679 719 1.342819 GTATCTCATCTCTGCCGGCTT 59.657 52.381 29.70 4.18 0.00 4.35
680 720 0.106335 ATCTCATCTCTGCCGGCTTG 59.894 55.000 29.70 20.24 0.00 4.01
681 721 1.523258 CTCATCTCTGCCGGCTTGG 60.523 63.158 29.70 17.48 42.50 3.61
682 722 2.249413 CTCATCTCTGCCGGCTTGGT 62.249 60.000 29.70 11.04 41.21 3.67
683 723 1.817099 CATCTCTGCCGGCTTGGTC 60.817 63.158 29.70 0.00 41.21 4.02
684 724 2.293318 ATCTCTGCCGGCTTGGTCA 61.293 57.895 29.70 4.55 41.21 4.02
686 726 0.975556 TCTCTGCCGGCTTGGTCATA 60.976 55.000 29.70 2.78 41.21 2.15
688 728 0.106708 TCTGCCGGCTTGGTCATATC 59.893 55.000 29.70 0.00 41.21 1.63
689 729 1.224069 CTGCCGGCTTGGTCATATCG 61.224 60.000 29.70 0.00 41.21 2.92
690 730 1.961277 GCCGGCTTGGTCATATCGG 60.961 63.158 22.15 0.00 41.21 4.18
691 731 1.961277 CCGGCTTGGTCATATCGGC 60.961 63.158 0.00 0.00 0.00 5.54
693 733 1.961277 GGCTTGGTCATATCGGCCG 60.961 63.158 22.12 22.12 0.00 6.13
696 736 0.105964 CTTGGTCATATCGGCCGGAA 59.894 55.000 27.83 14.56 0.00 4.30
697 737 0.542333 TTGGTCATATCGGCCGGAAA 59.458 50.000 27.83 11.65 0.00 3.13
724 2997 3.677648 GCAGCCACTTGCACAGGG 61.678 66.667 0.00 0.00 44.83 4.45
725 2998 2.113774 CAGCCACTTGCACAGGGA 59.886 61.111 1.06 0.00 44.83 4.20
726 2999 2.113986 AGCCACTTGCACAGGGAC 59.886 61.111 1.06 0.00 44.83 4.46
728 3001 2.111043 CCACTTGCACAGGGACGT 59.889 61.111 0.00 0.00 0.00 4.34
729 3002 1.961277 CCACTTGCACAGGGACGTC 60.961 63.158 7.13 7.13 0.00 4.34
775 3057 1.891150 CAAGCAAGCAAAGGTGGATCT 59.109 47.619 0.00 0.00 0.00 2.75
808 3091 0.106419 TTCCTGGAAAACCAACGCCT 60.106 50.000 6.68 0.00 0.00 5.52
908 3205 6.762187 AGCATCAATTCAGTGAGATAGTTCAG 59.238 38.462 0.00 0.00 0.00 3.02
909 3206 6.760298 GCATCAATTCAGTGAGATAGTTCAGA 59.240 38.462 0.00 0.00 0.00 3.27
925 3242 3.845781 TCAGAAAACCAGCTCTGTTCT 57.154 42.857 0.00 0.00 40.06 3.01
926 3243 4.156455 TCAGAAAACCAGCTCTGTTCTT 57.844 40.909 0.00 0.00 40.06 2.52
927 3244 4.526970 TCAGAAAACCAGCTCTGTTCTTT 58.473 39.130 0.00 0.00 40.06 2.52
930 3263 6.260936 TCAGAAAACCAGCTCTGTTCTTTTAG 59.739 38.462 0.00 0.00 40.06 1.85
945 3289 6.092122 TGTTCTTTTAGCATACACAAGGATCG 59.908 38.462 0.00 0.00 0.00 3.69
995 3343 1.339535 GCAAGAACAAGGAGGAGGAGG 60.340 57.143 0.00 0.00 0.00 4.30
1031 3385 2.537560 CGAAGGCGTCATGGATGGC 61.538 63.158 0.55 4.02 43.20 4.40
1037 3391 2.528743 CGTCATGGATGGCTGCGAC 61.529 63.158 0.00 0.00 0.00 5.19
1173 3533 4.314440 ACGAAGCAGCTTCCGGCA 62.314 61.111 26.35 0.00 44.79 5.69
1258 3627 0.033208 CTGCTGGGGCCCAAATTAGA 60.033 55.000 28.43 0.57 37.74 2.10
1264 3633 2.024751 TGGGGCCCAAATTAGAAGTACC 60.025 50.000 26.55 0.22 0.00 3.34
1272 3641 6.049790 CCCAAATTAGAAGTACCAGTAGCTC 58.950 44.000 0.00 0.00 0.00 4.09
1273 3642 6.351881 CCCAAATTAGAAGTACCAGTAGCTCA 60.352 42.308 0.00 0.00 0.00 4.26
1274 3643 6.758886 CCAAATTAGAAGTACCAGTAGCTCAG 59.241 42.308 0.00 0.00 0.00 3.35
1275 3644 6.472686 AATTAGAAGTACCAGTAGCTCAGG 57.527 41.667 0.00 0.00 0.00 3.86
1276 3645 2.104170 AGAAGTACCAGTAGCTCAGGC 58.896 52.381 0.00 0.00 39.06 4.85
1277 3646 1.137282 GAAGTACCAGTAGCTCAGGCC 59.863 57.143 0.00 0.00 39.73 5.19
1278 3647 0.336737 AGTACCAGTAGCTCAGGCCT 59.663 55.000 0.00 0.00 39.73 5.19
1279 3648 0.747852 GTACCAGTAGCTCAGGCCTC 59.252 60.000 0.00 0.00 39.73 4.70
1288 3657 1.306141 CTCAGGCCTCAGGGGTGTA 60.306 63.158 0.00 0.00 37.43 2.90
1298 3667 2.559668 CTCAGGGGTGTAGTGTTCGTTA 59.440 50.000 0.00 0.00 0.00 3.18
1308 3677 5.632347 GTGTAGTGTTCGTTACAGCAAGTAT 59.368 40.000 0.00 0.00 37.45 2.12
1310 3679 7.326789 GTGTAGTGTTCGTTACAGCAAGTATTA 59.673 37.037 0.00 0.00 37.45 0.98
1311 3680 6.946229 AGTGTTCGTTACAGCAAGTATTAG 57.054 37.500 0.00 0.00 37.45 1.73
1322 3701 5.647658 ACAGCAAGTATTAGTAAGCATGCAA 59.352 36.000 21.98 5.01 35.11 4.08
1336 3715 0.260816 ATGCAACCATGGCCTGAGAT 59.739 50.000 13.04 2.89 0.00 2.75
1345 3726 3.204418 GCCTGAGATTTGGCTGGC 58.796 61.111 0.00 0.00 45.26 4.85
1349 3730 0.680280 CTGAGATTTGGCTGGCTGCT 60.680 55.000 16.14 0.00 42.39 4.24
1359 3741 3.457625 CTGGCTGCTCCCTGATCGG 62.458 68.421 0.00 0.00 0.00 4.18
1375 3759 5.699458 CCTGATCGGTTGTAAATATACCACC 59.301 44.000 0.00 0.42 41.98 4.61
1408 3792 5.173774 TGATGAAAATTTCGGCTATGAGC 57.826 39.130 0.97 0.00 41.46 4.26
1414 3798 8.087982 TGAAAATTTCGGCTATGAGCTTATAG 57.912 34.615 18.74 18.74 41.99 1.31
1421 3828 2.941720 GCTATGAGCTTATAGCCATGGC 59.058 50.000 30.68 30.12 46.21 4.40
1470 3883 5.454471 CCAAAGACATATCAAGAGAGGGAGG 60.454 48.000 0.00 0.00 0.00 4.30
1473 3886 5.533112 AGACATATCAAGAGAGGGAGGAAA 58.467 41.667 0.00 0.00 0.00 3.13
1487 3900 4.019231 AGGGAGGAAATTCAGAGTTACACC 60.019 45.833 0.00 0.00 0.00 4.16
1489 3902 4.562963 GGAGGAAATTCAGAGTTACACCGT 60.563 45.833 0.00 0.00 0.00 4.83
1523 3936 0.384725 CAGAAAAGCGAGCCGTTGTG 60.385 55.000 0.00 0.00 0.00 3.33
1580 4032 5.667539 ACAGAGAAGGAATTCGATCTCAA 57.332 39.130 27.36 0.00 40.57 3.02
1602 4054 3.897681 TACACTCAGCCGCCCTCCA 62.898 63.158 0.00 0.00 0.00 3.86
1682 4134 7.598118 CAGAAGTAATTCATCGAGATAGTGCAT 59.402 37.037 5.62 0.00 0.00 3.96
1933 4519 9.812347 CATATGCTCTCCTCTTATAGATAGGAT 57.188 37.037 0.00 0.00 38.70 3.24
1948 4534 6.139679 AGATAGGATGGACAAAGAACCAAA 57.860 37.500 0.00 0.00 39.69 3.28
1972 4558 5.592587 TTTTTGATCCCTTACTTCCCTCA 57.407 39.130 0.00 0.00 0.00 3.86
1975 4561 2.225779 TGATCCCTTACTTCCCTCACCA 60.226 50.000 0.00 0.00 0.00 4.17
2069 4676 6.313658 GCTTCCTTTGTTGAAATGTTCTGTTT 59.686 34.615 0.00 0.00 0.00 2.83
2070 4677 7.593875 TTCCTTTGTTGAAATGTTCTGTTTG 57.406 32.000 0.00 0.00 0.00 2.93
2128 4737 5.767277 TCCTAAACTAAGGACGGGAAATT 57.233 39.130 0.00 0.00 40.86 1.82
2138 4748 4.354662 AGGACGGGAAATTAGAAGAGAGT 58.645 43.478 0.00 0.00 0.00 3.24
2175 4785 5.717119 AATAATACTCACCTCAGGCCTTT 57.283 39.130 0.00 0.00 0.00 3.11
2178 4788 0.689623 ACTCACCTCAGGCCTTTCTG 59.310 55.000 0.00 0.00 36.17 3.02
2209 4819 7.125356 GGGGTATTATCTGTCCCGATAAATAGT 59.875 40.741 0.00 0.00 38.82 2.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 7.903145 ACATAGACATAGCCCGTATTTTGATA 58.097 34.615 0.00 0.00 0.00 2.15
17 18 6.769512 ACATAGACATAGCCCGTATTTTGAT 58.230 36.000 0.00 0.00 0.00 2.57
18 19 6.169557 ACATAGACATAGCCCGTATTTTGA 57.830 37.500 0.00 0.00 0.00 2.69
21 22 7.476540 TCATACATAGACATAGCCCGTATTT 57.523 36.000 0.00 0.00 0.00 1.40
22 23 7.661536 ATCATACATAGACATAGCCCGTATT 57.338 36.000 0.00 0.00 0.00 1.89
23 24 7.661536 AATCATACATAGACATAGCCCGTAT 57.338 36.000 0.00 0.00 0.00 3.06
25 26 6.360370 AAATCATACATAGACATAGCCCGT 57.640 37.500 0.00 0.00 0.00 5.28
26 27 8.656849 GTTAAAATCATACATAGACATAGCCCG 58.343 37.037 0.00 0.00 0.00 6.13
27 28 8.947115 GGTTAAAATCATACATAGACATAGCCC 58.053 37.037 0.00 0.00 0.00 5.19
28 29 8.656849 CGGTTAAAATCATACATAGACATAGCC 58.343 37.037 0.00 0.00 0.00 3.93
83 85 8.267894 AGCTACCTATCTTTCACACATAAATGT 58.732 33.333 0.00 0.00 42.84 2.71
84 86 8.668510 AGCTACCTATCTTTCACACATAAATG 57.331 34.615 0.00 0.00 0.00 2.32
91 93 7.674471 AGAAAAAGCTACCTATCTTTCACAC 57.326 36.000 0.00 0.00 31.91 3.82
137 139 4.740695 GCGTATGTTCTACTCAAGGTGATC 59.259 45.833 0.00 0.00 0.00 2.92
138 140 4.441634 GGCGTATGTTCTACTCAAGGTGAT 60.442 45.833 0.00 0.00 0.00 3.06
162 190 4.514816 TCTGCGTGAAAATGAGTTGAATGA 59.485 37.500 0.00 0.00 0.00 2.57
165 193 3.876914 AGTCTGCGTGAAAATGAGTTGAA 59.123 39.130 0.00 0.00 0.00 2.69
180 208 4.090642 GTGACTTAGAAATGACAGTCTGCG 59.909 45.833 1.31 0.00 37.21 5.18
182 210 4.932200 GGGTGACTTAGAAATGACAGTCTG 59.068 45.833 1.31 0.00 37.21 3.51
184 212 3.927142 CGGGTGACTTAGAAATGACAGTC 59.073 47.826 0.00 0.00 36.89 3.51
186 214 3.262420 CCGGGTGACTTAGAAATGACAG 58.738 50.000 0.00 0.00 0.00 3.51
303 339 5.182487 TGTCTGTTTCAAAGCTGACTTACA 58.818 37.500 14.36 0.00 38.35 2.41
311 347 4.641989 ACTGTGATTGTCTGTTTCAAAGCT 59.358 37.500 0.00 0.00 29.38 3.74
340 376 5.938125 GGCACCTTGAAGTTCTTACAATCTA 59.062 40.000 4.17 0.00 0.00 1.98
346 382 2.737252 CGAGGCACCTTGAAGTTCTTAC 59.263 50.000 4.17 0.00 0.00 2.34
350 386 1.878953 TTCGAGGCACCTTGAAGTTC 58.121 50.000 14.30 0.00 40.43 3.01
356 392 1.879380 TGTCATTTTCGAGGCACCTTG 59.121 47.619 0.00 0.00 0.00 3.61
366 402 3.730061 GCCTTGCTCTCATGTCATTTTCG 60.730 47.826 0.00 0.00 0.00 3.46
371 407 1.558294 TCTGCCTTGCTCTCATGTCAT 59.442 47.619 0.00 0.00 0.00 3.06
375 411 0.252479 ACCTCTGCCTTGCTCTCATG 59.748 55.000 0.00 0.00 0.00 3.07
390 426 3.747193 CATTACATGCACGTCAAACCTC 58.253 45.455 0.00 0.00 0.00 3.85
406 443 7.011857 TGGTTTGATTTCTTTTTGGTGCATTAC 59.988 33.333 0.00 0.00 0.00 1.89
421 458 2.779506 AGAGGTCGGTGGTTTGATTTC 58.220 47.619 0.00 0.00 0.00 2.17
431 471 4.095782 TGACTTTTCAAAAAGAGGTCGGTG 59.904 41.667 19.29 0.00 46.39 4.94
452 492 6.693545 CCTTTACTACGTGCAAATTTTGTTGA 59.306 34.615 10.65 0.00 0.00 3.18
462 502 3.114668 TGCTTCCTTTACTACGTGCAA 57.885 42.857 0.00 0.00 0.00 4.08
463 503 2.823924 TGCTTCCTTTACTACGTGCA 57.176 45.000 0.00 0.00 0.00 4.57
464 504 4.680171 AATTGCTTCCTTTACTACGTGC 57.320 40.909 0.00 0.00 0.00 5.34
497 537 9.912634 GTTTGATTAAGGAAATGAGATCAACAA 57.087 29.630 0.00 0.00 34.38 2.83
498 538 9.076781 TGTTTGATTAAGGAAATGAGATCAACA 57.923 29.630 0.00 0.00 34.38 3.33
532 572 8.939929 CGTGCAAATCCATATGTATTTCTCTAT 58.060 33.333 3.45 0.00 0.00 1.98
533 573 7.095229 GCGTGCAAATCCATATGTATTTCTCTA 60.095 37.037 3.45 0.00 0.00 2.43
534 574 6.293626 GCGTGCAAATCCATATGTATTTCTCT 60.294 38.462 3.45 0.00 0.00 3.10
535 575 5.853282 GCGTGCAAATCCATATGTATTTCTC 59.147 40.000 3.45 0.85 0.00 2.87
536 576 5.532406 AGCGTGCAAATCCATATGTATTTCT 59.468 36.000 3.45 0.00 0.00 2.52
538 578 5.299028 TCAGCGTGCAAATCCATATGTATTT 59.701 36.000 0.67 0.67 0.00 1.40
540 580 4.388485 TCAGCGTGCAAATCCATATGTAT 58.612 39.130 1.24 0.00 0.00 2.29
541 581 3.802866 TCAGCGTGCAAATCCATATGTA 58.197 40.909 1.24 0.00 0.00 2.29
543 583 2.031420 CCTCAGCGTGCAAATCCATATG 60.031 50.000 0.00 0.00 0.00 1.78
545 585 1.209261 TCCTCAGCGTGCAAATCCATA 59.791 47.619 0.00 0.00 0.00 2.74
547 587 0.250684 TTCCTCAGCGTGCAAATCCA 60.251 50.000 0.00 0.00 0.00 3.41
548 588 0.881118 TTTCCTCAGCGTGCAAATCC 59.119 50.000 0.00 0.00 0.00 3.01
549 589 2.704725 TTTTCCTCAGCGTGCAAATC 57.295 45.000 0.00 0.00 0.00 2.17
580 620 9.588096 AAGGGAAACACTATAGTTCTTCATTTT 57.412 29.630 18.76 10.63 0.00 1.82
581 621 9.588096 AAAGGGAAACACTATAGTTCTTCATTT 57.412 29.630 18.76 16.00 0.00 2.32
582 622 9.588096 AAAAGGGAAACACTATAGTTCTTCATT 57.412 29.630 18.76 12.73 0.00 2.57
584 624 8.990163 AAAAAGGGAAACACTATAGTTCTTCA 57.010 30.769 18.76 0.00 0.00 3.02
585 625 9.063615 TGAAAAAGGGAAACACTATAGTTCTTC 57.936 33.333 1.56 8.66 0.00 2.87
587 627 9.014297 CATGAAAAAGGGAAACACTATAGTTCT 57.986 33.333 1.56 0.00 0.00 3.01
590 630 8.934023 TTCATGAAAAAGGGAAACACTATAGT 57.066 30.769 5.45 0.00 0.00 2.12
596 636 9.657419 ATGAATATTCATGAAAAAGGGAAACAC 57.343 29.630 26.47 0.00 45.63 3.32
643 683 2.691526 AGATACGAGTAATGGGCGTGAA 59.308 45.455 0.00 0.00 38.84 3.18
644 684 2.292569 GAGATACGAGTAATGGGCGTGA 59.707 50.000 0.00 0.00 38.84 4.35
645 685 2.034179 TGAGATACGAGTAATGGGCGTG 59.966 50.000 0.00 0.00 38.84 5.34
646 686 2.304092 TGAGATACGAGTAATGGGCGT 58.696 47.619 0.00 0.00 41.58 5.68
647 687 3.191581 AGATGAGATACGAGTAATGGGCG 59.808 47.826 0.00 0.00 0.00 6.13
648 688 4.461081 AGAGATGAGATACGAGTAATGGGC 59.539 45.833 0.00 0.00 0.00 5.36
650 690 5.398169 GCAGAGATGAGATACGAGTAATGG 58.602 45.833 0.00 0.00 0.00 3.16
651 691 5.398169 GGCAGAGATGAGATACGAGTAATG 58.602 45.833 0.00 0.00 0.00 1.90
652 692 4.155099 CGGCAGAGATGAGATACGAGTAAT 59.845 45.833 0.00 0.00 0.00 1.89
653 693 3.498777 CGGCAGAGATGAGATACGAGTAA 59.501 47.826 0.00 0.00 0.00 2.24
654 694 3.067833 CGGCAGAGATGAGATACGAGTA 58.932 50.000 0.00 0.00 0.00 2.59
656 696 1.198867 CCGGCAGAGATGAGATACGAG 59.801 57.143 0.00 0.00 0.00 4.18
657 697 1.239347 CCGGCAGAGATGAGATACGA 58.761 55.000 0.00 0.00 0.00 3.43
658 698 0.387878 GCCGGCAGAGATGAGATACG 60.388 60.000 24.80 0.00 0.00 3.06
659 699 0.965439 AGCCGGCAGAGATGAGATAC 59.035 55.000 31.54 0.00 0.00 2.24
660 700 1.342496 CAAGCCGGCAGAGATGAGATA 59.658 52.381 31.54 0.00 0.00 1.98
661 701 0.106335 CAAGCCGGCAGAGATGAGAT 59.894 55.000 31.54 0.00 0.00 2.75
662 702 1.519246 CAAGCCGGCAGAGATGAGA 59.481 57.895 31.54 0.00 0.00 3.27
663 703 1.523258 CCAAGCCGGCAGAGATGAG 60.523 63.158 31.54 8.29 0.00 2.90
664 704 2.244117 GACCAAGCCGGCAGAGATGA 62.244 60.000 31.54 0.00 39.03 2.92
665 705 1.817099 GACCAAGCCGGCAGAGATG 60.817 63.158 31.54 18.02 39.03 2.90
666 706 1.630126 ATGACCAAGCCGGCAGAGAT 61.630 55.000 31.54 9.88 39.03 2.75
668 708 0.107456 ATATGACCAAGCCGGCAGAG 59.893 55.000 31.54 18.63 39.03 3.35
670 710 1.224069 CGATATGACCAAGCCGGCAG 61.224 60.000 31.54 20.72 39.03 4.85
672 712 1.961277 CCGATATGACCAAGCCGGC 60.961 63.158 21.89 21.89 39.03 6.13
675 715 1.961277 CGGCCGATATGACCAAGCC 60.961 63.158 24.07 0.00 37.03 4.35
676 716 1.961277 CCGGCCGATATGACCAAGC 60.961 63.158 30.73 0.00 0.00 4.01
678 718 0.542333 TTTCCGGCCGATATGACCAA 59.458 50.000 30.73 4.34 0.00 3.67
679 719 0.542333 TTTTCCGGCCGATATGACCA 59.458 50.000 30.73 1.08 0.00 4.02
680 720 0.942252 GTTTTCCGGCCGATATGACC 59.058 55.000 30.73 3.91 0.00 4.02
681 721 0.580104 CGTTTTCCGGCCGATATGAC 59.420 55.000 30.73 16.77 0.00 3.06
682 722 0.460722 TCGTTTTCCGGCCGATATGA 59.539 50.000 30.73 13.00 37.11 2.15
683 723 0.859232 CTCGTTTTCCGGCCGATATG 59.141 55.000 30.73 10.28 37.11 1.78
684 724 0.249741 CCTCGTTTTCCGGCCGATAT 60.250 55.000 30.73 0.00 37.11 1.63
686 726 2.125269 CCTCGTTTTCCGGCCGAT 60.125 61.111 30.73 0.00 37.11 4.18
688 728 3.419759 CACCTCGTTTTCCGGCCG 61.420 66.667 21.04 21.04 37.11 6.13
689 729 3.733960 GCACCTCGTTTTCCGGCC 61.734 66.667 0.00 0.00 37.11 6.13
690 730 4.084888 CGCACCTCGTTTTCCGGC 62.085 66.667 0.00 0.00 37.11 6.13
691 731 4.084888 GCGCACCTCGTTTTCCGG 62.085 66.667 0.30 0.00 41.07 5.14
693 733 2.556287 CTGCGCACCTCGTTTTCC 59.444 61.111 5.66 0.00 41.07 3.13
696 736 4.927782 TGGCTGCGCACCTCGTTT 62.928 61.111 23.38 0.00 41.07 3.60
706 2979 4.034258 CCTGTGCAAGTGGCTGCG 62.034 66.667 0.00 0.00 45.74 5.18
715 2988 2.028484 GTCGACGTCCCTGTGCAA 59.972 61.111 10.58 0.00 0.00 4.08
744 3017 4.105733 TTGCTTGCGCCGCATCTG 62.106 61.111 14.63 7.79 38.76 2.90
775 3057 1.691196 CAGGAAACCAGGTGCTTTCA 58.309 50.000 0.00 0.00 0.00 2.69
808 3091 4.283403 GCAAAACAGGCGGCTGCA 62.283 61.111 36.06 0.00 45.35 4.41
862 3156 2.039746 TCGTTTGTGTTGATGGGAGGAT 59.960 45.455 0.00 0.00 0.00 3.24
908 3205 5.215903 GCTAAAAGAACAGAGCTGGTTTTC 58.784 41.667 0.00 0.00 34.19 2.29
909 3206 4.644685 TGCTAAAAGAACAGAGCTGGTTTT 59.355 37.500 0.00 7.36 35.89 2.43
925 3242 4.257731 TGCGATCCTTGTGTATGCTAAAA 58.742 39.130 0.00 0.00 0.00 1.52
926 3243 3.867857 TGCGATCCTTGTGTATGCTAAA 58.132 40.909 0.00 0.00 0.00 1.85
927 3244 3.535280 TGCGATCCTTGTGTATGCTAA 57.465 42.857 0.00 0.00 0.00 3.09
930 3263 2.009774 ACTTGCGATCCTTGTGTATGC 58.990 47.619 0.00 0.00 0.00 3.14
945 3289 1.067213 GGAGAGTGGAGACTGACTTGC 60.067 57.143 0.00 0.00 30.16 4.01
995 3343 2.818132 CCGGACCAGCCATCTCTC 59.182 66.667 0.00 0.00 35.94 3.20
1023 3377 2.107750 CTCGTCGCAGCCATCCAT 59.892 61.111 0.00 0.00 0.00 3.41
1258 3627 1.196012 GGCCTGAGCTACTGGTACTT 58.804 55.000 0.00 0.00 39.38 2.24
1264 3633 1.684386 CCCTGAGGCCTGAGCTACTG 61.684 65.000 12.00 0.00 39.73 2.74
1272 3641 1.613630 ACTACACCCCTGAGGCCTG 60.614 63.158 12.00 0.00 40.58 4.85
1273 3642 1.613630 CACTACACCCCTGAGGCCT 60.614 63.158 3.86 3.86 40.58 5.19
1274 3643 1.489560 AACACTACACCCCTGAGGCC 61.490 60.000 0.00 0.00 40.58 5.19
1275 3644 0.036294 GAACACTACACCCCTGAGGC 60.036 60.000 0.00 0.00 40.58 4.70
1276 3645 0.246635 CGAACACTACACCCCTGAGG 59.753 60.000 0.00 0.00 43.78 3.86
1277 3646 0.966920 ACGAACACTACACCCCTGAG 59.033 55.000 0.00 0.00 0.00 3.35
1278 3647 1.416243 AACGAACACTACACCCCTGA 58.584 50.000 0.00 0.00 0.00 3.86
1279 3648 2.036217 TGTAACGAACACTACACCCCTG 59.964 50.000 0.00 0.00 31.43 4.45
1288 3657 6.453092 ACTAATACTTGCTGTAACGAACACT 58.547 36.000 0.00 0.00 34.45 3.55
1298 3667 5.185454 TGCATGCTTACTAATACTTGCTGT 58.815 37.500 20.33 0.00 35.07 4.40
1308 3677 2.426738 GCCATGGTTGCATGCTTACTAA 59.573 45.455 20.33 9.88 0.00 2.24
1310 3679 0.819582 GCCATGGTTGCATGCTTACT 59.180 50.000 20.33 0.00 0.00 2.24
1311 3680 0.179103 GGCCATGGTTGCATGCTTAC 60.179 55.000 20.33 16.13 0.00 2.34
1322 3701 0.685458 GCCAAATCTCAGGCCATGGT 60.685 55.000 14.67 0.00 45.18 3.55
1345 3726 0.824109 TACAACCGATCAGGGAGCAG 59.176 55.000 8.20 0.00 46.96 4.24
1349 3730 5.603395 TGGTATATTTACAACCGATCAGGGA 59.397 40.000 8.20 0.00 46.96 4.20
1359 3741 7.439955 TCATCATCGTGGTGGTATATTTACAAC 59.560 37.037 0.00 0.00 32.27 3.32
1375 3759 6.358822 CCGAAATTTTCATCATCATCATCGTG 59.641 38.462 9.66 0.00 0.00 4.35
1408 3792 3.144506 CACAGAAGGCCATGGCTATAAG 58.855 50.000 34.70 23.28 37.50 1.73
1442 3849 5.028549 TCTCTTGATATGTCTTTGGCCTC 57.971 43.478 3.32 0.00 0.00 4.70
1452 3859 6.388100 TGAATTTCCTCCCTCTCTTGATATGT 59.612 38.462 0.00 0.00 0.00 2.29
1454 3861 6.848631 TCTGAATTTCCTCCCTCTCTTGATAT 59.151 38.462 0.00 0.00 0.00 1.63
1470 3883 5.227908 TCTCACGGTGTAACTCTGAATTTC 58.772 41.667 8.17 0.00 36.74 2.17
1473 3886 3.827302 ACTCTCACGGTGTAACTCTGAAT 59.173 43.478 8.17 0.00 36.74 2.57
1513 3926 0.380378 TGTTTTCTGCACAACGGCTC 59.620 50.000 0.00 0.00 34.04 4.70
1523 3936 1.605710 TGAAGCTGCTCTGTTTTCTGC 59.394 47.619 1.00 0.00 0.00 4.26
1569 4021 5.500645 TGAGTGTATCGTTGAGATCGAAT 57.499 39.130 0.00 0.00 40.66 3.34
1580 4032 2.494918 GGCGGCTGAGTGTATCGT 59.505 61.111 0.00 0.00 0.00 3.73
1602 4054 5.690464 AGCATTACAAGGTCTGAGATCTT 57.310 39.130 1.26 1.26 32.68 2.40
1668 4120 5.543507 AGAAAAGGATGCACTATCTCGAT 57.456 39.130 0.00 0.00 36.03 3.59
1676 4128 9.920946 TTAGGATAAATAAGAAAAGGATGCACT 57.079 29.630 0.00 0.00 0.00 4.40
1717 4170 5.525378 GGATCTATCCGGCTGCATTTTATAG 59.475 44.000 0.50 0.00 37.19 1.31
1724 4177 6.634600 ATAGATTGGATCTATCCGGCTGCAT 61.635 44.000 0.50 0.00 46.84 3.96
1750 4203 2.037902 TGTGCGGGTTGTCTATTTCAGA 59.962 45.455 0.00 0.00 0.00 3.27
1751 4204 2.159627 GTGTGCGGGTTGTCTATTTCAG 59.840 50.000 0.00 0.00 0.00 3.02
2018 4618 6.431198 TTCACAGGTCAAACAAGACTTAAC 57.569 37.500 0.00 0.00 38.57 2.01
2022 4629 3.947834 CCTTTCACAGGTCAAACAAGACT 59.052 43.478 0.00 0.00 37.99 3.24
2098 4705 6.171213 CCGTCCTTAGTTTAGGAAAGTGAAT 58.829 40.000 0.00 0.00 45.62 2.57
2164 4774 1.684248 CCATTCCAGAAAGGCCTGAGG 60.684 57.143 5.69 6.34 36.29 3.86
2170 4780 2.755952 ATACCCCATTCCAGAAAGGC 57.244 50.000 0.00 0.00 37.29 4.35
2175 4785 4.597507 GGACAGATAATACCCCATTCCAGA 59.402 45.833 0.00 0.00 0.00 3.86
2178 4788 3.307480 CGGGACAGATAATACCCCATTCC 60.307 52.174 0.00 0.00 39.20 3.01


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

AutoCloner maintained by Alex Coulton.